Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, 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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 84 of 91
Found at i:14137321 original size:103 final size:100
Alignment explanation
Indices: 14137142--14137342 Score: 298
Period size: 103 Copynumber: 2.0 Consensus size: 100
14137132 TTTACTTTCC
* *
14137142 AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTTGACCTCTGATTAGA
1 AAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTATCTTTCCAAAGTCGTTGACCTCTGATTAGA
* *
14137207 TGAGCCATTTATGTTTCTCAAAGTCGTTGAGCCTCTAA
66 GGAGCAATTTAT-TTT-TCAAAGTCGTTGA-CCTCTAA
*
14137245 AAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTA-CTTTCCAAAGTCGTGGTG-CCTCTGTTTA
1 AAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTATCTTTCCAAAGTCGT--TGACCTCTGATTA
14137308 GAGGAGCAATTTATTTTTCAAAGTCGTTGACCTCT
64 GAGGAGCAATTTATTTTTCAAAGTCGTTGACCTCT
14137343 GATTAGAGGA
Statistics
Matches: 91, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
100 5 0.05
101 13 0.14
102 16 0.18
103 55 0.60
104 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (100 bp):
AAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTATCTTTCCAAAGTCGTTGACCTCTGATTAGA
GGAGCAATTTATTTTTCAAAGTCGTTGACCTCTAA
Found at i:14137353 original size:40 final size:40
Alignment explanation
Indices: 14137257--14137397 Score: 185
Period size: 41 Copynumber: 3.4 Consensus size: 40
14137247 AGTCGTGGTG
* * *
14137257 CCTCTATTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTG-
1 CCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGT--TGA
14137298 CCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTTGA
1 CCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTTGA
* *
14137338 CCTCTGATTAGAGGAGCCATTTATGTTTCTCAAAGTCGTTGA
1 CCTCTGTTTAGAGGAGCAATTTAT-TTT-TCAAAGTCGTTGA
14137380 GCCTCTGTTTAGAGGAGC
1 -CCTCTGTTTAGAGGAGC
14137398 TTTGATCAAA
Statistics
Matches: 90, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
39 2 0.02
40 22 0.24
41 37 0.41
42 13 0.14
43 16 0.18
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (40 bp):
CCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCGTTGA
Found at i:14137620 original size:6 final size:6
Alignment explanation
Indices: 14137611--14137663 Score: 56
Period size: 6 Copynumber: 8.5 Consensus size: 6
14137601 TTTCTCTTCA
14137611 TTTTAT TTTTA- TTTTATT TTTTAT ATTTTACAT TTTTA- TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTA-T TTTTAT -TTTT--AT TTTTAT TTTTAT TTTTAT
14137661 TTT
1 TTT
14137664 ATATATGTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
5 10 0.24
6 16 0.39
7 9 0.22
8 4 0.10
9 2 0.05
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:14137685 original size:38 final size:39
Alignment explanation
Indices: 14137610--14137700 Score: 96
Period size: 39 Copynumber: 2.4 Consensus size: 39
14137600 CTTTCTCTTC
* * *
14137610 ATTTTATTTTTATTTTATTTTTTATATTTTA-CATTTTT
1 ATTTTATTTTTATTTTATTATGTATATTATATCATTTTT
**
14137648 ATTTTATTTTTATTTTATATATGTATA-TATATTTTTTTT
1 ATTTTATTTTTATTTTAT-TATGTATATTATATCATTTTT
* *
14137687 CTTTTATTATTATT
1 ATTTTATTTTTATT
14137701 ATTTTTTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
38 21 0.48
39 23 0.52
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.74
Consensus pattern (39 bp):
ATTTTATTTTTATTTTATTATGTATATTATATCATTTTT
Found at i:14137692 original size:33 final size:31
Alignment explanation
Indices: 14137628--14137703 Score: 66
Period size: 33 Copynumber: 2.4 Consensus size: 31
14137618 TTTATTTTAT
*
14137628 TTTT-TATATTTTACATTTTTATTTTATTTTTA
1 TTTTATATATTATACATTTTT-TTTTA-TTTTA
* *
14137660 TTTTATATATGTATATATATTTTTTTTCTTTTA
1 TTTTATATAT-TATACAT-TTTTTTTTATTTTA
14137693 TTATTAT-TATT
1 TT-TTATATATT
14137704 TTTTTATCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
32 5 0.14
33 15 0.41
34 13 0.35
35 4 0.11
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (31 bp):
TTTTATATATTATACATTTTTTTTTATTTTA
Found at i:14137713 original size:24 final size:25
Alignment explanation
Indices: 14137610--14137710 Score: 82
Period size: 24 Copynumber: 4.0 Consensus size: 25
14137600 CTTTCTCTTC
* *
14137610 ATTTTATTTTTATTTTATTTTTTAT
1 ATTTTATTATTATTATATTTTTTAT
* * *
14137635 ATTTTA-CATTTTTAT-TTTATTTTT
1 ATTTTATTATTATTATATTT-TTTAT
*
14137659 ATTTTATATATGTATATATATTTTTTTT
1 ATTTTAT-TAT-TAT-TATATTTTTTAT
*
14137687 CTTTTATTATTATTAT-TTTTTTAT
1 ATTTTATTATTATTATATTTTTTAT
14137711 CTTAGGTATT
Statistics
Matches: 61, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
23 3 0.05
24 22 0.36
25 9 0.15
26 5 0.08
27 5 0.08
28 14 0.23
29 3 0.05
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.74
Consensus pattern (25 bp):
ATTTTATTATTATTATATTTTTTAT
Found at i:14137814 original size:21 final size:22
Alignment explanation
Indices: 14137789--14137832 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
14137779 TATTATCTGA
14137789 TTTTAATTTATCTG-TTAATTT
1 TTTTAATTTATCTGATTAATTT
*
14137810 TTTTAATTTATCTGATTTATTT
1 TTTTAATTTATCTGATTAATTT
14137832 T
1 T
14137833 CGTTTGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (22 bp):
TTTTAATTTATCTGATTAATTT
Found at i:14138090 original size:9 final size:10
Alignment explanation
Indices: 14138067--14138091 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14138057 TAGCAGAAAT
14138067 TTTTTGGAGA
1 TTTTTGGAGA
14138077 TTTTTGGAGA
1 TTTTTGGAGA
14138087 TTTTT
1 TTTTT
14138092 TTTTCTGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (10 bp):
TTTTTGGAGA
Found at i:14138632 original size:12 final size:11
Alignment explanation
Indices: 14138612--14138781 Score: 59
Period size: 12 Copynumber: 15.0 Consensus size: 11
14138602 TTTTTTTTGA
14138612 ATTTATTTATTT
1 ATTT-TTTATTT
14138624 ATTTGTTTATTT
1 ATTT-TTTATTT
14138636 ATATTTTTGATTT
1 AT-TTTTT-ATTT
*
14138649 GTTTTTTATTT
1 ATTTTTTATTT
**
14138660 ATTAGATTAGGTTT
1 ATT-TTTTA--TTT
**
14138674 ATTTAATATTCT
1 ATTTTTTATT-T
* *
14138686 -TTTTATCTTT
1 ATTTTTTATTT
14138696 ATTTTATT-TTT
1 ATTTT-TTATTT
* *
14138707 A-ATTTTACTT
1 ATTTTTTATTT
*
14138717 -TTCTTTATTT
1 ATTTTTTATTT
14138727 ATTTTATT-TTT
1 ATTTT-TTATTT
14138738 A-TTTTTATTT
1 ATTTTTTATTT
*
14138748 -TTTTTCATTT
1 ATTTTTTATTT
*
14138758 -TTATTTTGTTTT
1 ATT-TTTT-ATTT
14138770 ATTATTTTATTT
1 ATT-TTTTATTT
14138782 TCTTTAAAAA
Statistics
Matches: 121, Mismatches: 20, Indels: 34
0.69 0.11 0.19
Matches are distributed among these distances:
9 4 0.03
10 27 0.22
11 33 0.27
12 34 0.28
13 17 0.14
14 6 0.05
ACGTcount: A:0.19, C:0.03, G:0.04, T:0.74
Consensus pattern (11 bp):
ATTTTTTATTT
Found at i:14138678 original size:4 final size:4
Alignment explanation
Indices: 14138612--14138662 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
14138602 TTTTTTTTGA
* *
14138612 ATTT ATTT ATTT ATTT GTTT ATTT ATATT -TTT GATTT GTTT -TTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT AT-TT ATTT -ATTT ATTT ATTT ATTT
14138660 ATT
1 ATT
14138663 AGATTAGGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
3 5 0.12
4 30 0.75
5 5 0.12
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:14138703 original size:5 final size:5
Alignment explanation
Indices: 14138686--14138782 Score: 69
Period size: 5 Copynumber: 18.8 Consensus size: 5
14138676 TTAATATTCT
*
14138686 TTTTA TCTTTA TTTTA TTTTTAA TTTTA CTTTT- CTTTA -TTTA TTTTA
1 TTTTA T-TTTA TTTTA -TTTT-A TTTTA -TTTTA TTTTA TTTTA TTTTA
*
14138733 TTTTTA TTTTTA TTTT- TTTTCA TTTTTA TTTTG TTTTA --TTA TTTTA
1 -TTTTA -TTTTA TTTTA TTTT-A -TTTTA TTTTA TTTTA TTTTA TTTTA
14138779 TTTT
1 TTTT
14138783 CTTTAAAAAT
Statistics
Matches: 77, Mismatches: 3, Indels: 24
0.74 0.03 0.23
Matches are distributed among these distances:
3 3 0.04
4 11 0.14
5 29 0.38
6 29 0.38
7 5 0.06
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:14138706 original size:6 final size:6
Alignment explanation
Indices: 14138685--14138782 Score: 75
Period size: 6 Copynumber: 16.7 Consensus size: 6
14138675 TTTAATATTC
* *
14138685 TTTTTA TCTTTA -TTTTA TTTTTA ATTTTA CTTTTCT- TTATTTA -TTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TT-TTTA TTTTTA
*
14138733 TTTTTA TTTTTA -TTTT- TTTTCA TTTTTA TTTTGT- TTTATTA -TTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA TTT-TTA TTTTTA
14138779 TTTT
1 TTTT
14138783 CTTTAAAAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 24
0.71 0.06 0.23
Matches are distributed among these distances:
5 18 0.24
6 48 0.65
7 7 0.09
8 1 0.01
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:14138757 original size:10 final size:9
Alignment explanation
Indices: 14138680--14138787 Score: 51
Period size: 9 Copynumber: 11.2 Consensus size: 9
14138670 GTTTATTTAA
*
14138680 TATTCTTTT
1 TATTTTTTT
14138689 TATCTTTATTT
1 TAT-TTT-TTT
14138700 TATTTTTAATTT
1 TA-TTTT--TTT
*
14138712 TACTTTTCTT
1 TA-TTTTTTT
*
14138722 TATTTATTT
1 TATTTTTTT
14138731 TATTTTTATT
1 TATTTTT-TT
14138741 T-TTATTTTT
1 TATT-TTTTT
*
14138750 T-TTCATTTT
1 TATT-TTTTT
14138759 TATTTTGTTT
1 TATTTT-TTT
*
14138769 TA-TTATTT
1 TATTTTTTT
*
14138777 TATTTTCTT
1 TATTTTTTT
14138786 TA
1 TA
14138788 AAAATAAAAT
Statistics
Matches: 78, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
8 5 0.06
9 35 0.45
10 19 0.24
11 8 0.10
12 11 0.14
ACGTcount: A:0.17, C:0.06, G:0.01, T:0.77
Consensus pattern (9 bp):
TATTTTTTT
Found at i:14138883 original size:59 final size:58
Alignment explanation
Indices: 14138778--14139377 Score: 660
Period size: 59 Copynumber: 10.1 Consensus size: 58
14138768 TTATTATTTT
* * * * *
14138778 ATTTTCTTTAAAAATAAAATTTAAAAAAAAAAAGGTTTTTGAGAAAAAGTTGAAAGTATCA
1 ATTTTCCTTAAAAATAAAGTTT-CAAAAAAATA--TTTTTGGGAAAAAGTTGAAAGTATCA
* * *
14138839 ATTTTCCTTGAAAATCAAAGTTTCCAAAAAACATTTTTGGGAAAAAGTTGAAAGTATCA
1 ATTTTCCTTAAAAAT-AAAGTTTCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCA
* * * * *
14138898 ATTTTTCTTAAAAATAAAATTTTAAAAAAAATATTTTTGAGG-AAAAGTTAAAATTATCA
1 ATTTTCCTTAAAAAT-AAAGTTTCAAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCA
* * * *
14138957 ATTTTTCTTAAAAATAAATTTTCAAAAAAAAAAGTTTTTAAGG-AAAAGTTGAAAGTATCA
1 ATTTTCCTTAAAAATAAAGTTTC-AAAAAAATA-TTTTT-GGGAAAAAGTTGAAAGTATCA
* * *
14139017 GTTTTCCTTGAAAATCAAAGTTTCCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCA
1 ATTTTCCTTAAAAAT-AAAGTTTCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCA
* *** *
14139076 ATTTTCCTTAAAAATAAAATTTCGAAAAAAGGGTTTTTGAGG-AAAAGTTGAAAATATCA
1 ATTTTCCTTAAAAATAAAGTTTC-AAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCA
* *
14139135 ATTTTCCTTGAAAATCAAAGTTTCAAAAAAAATATATTTTTGGAGAAAAGTTGAAAGTATCA
1 ATTTTCCTTAAAAAT-AAAGTTTC-AAAAAAATAT-TTTTGGGA-AAAAGTTGAAAGTATCA
* * *
14139197 ATTTTCCTTAAAAAAAAATTTTC-AAAAAATA-TTTTGGGGAAAAGTTGAAAGTATCA
1 ATTTTCCTTAAAAATAAAGTTTCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCA
*
14139253 ATTTTTCTTAAAAATAAA-TTTC-AAAAAATCAATTTTTGAGG-AAAAGTTGAAAGTATCA
1 ATTTTCCTTAAAAATAAAGTTTCAAAAAAAT--ATTTTTG-GGAAAAAGTTGAAAGTATCA
*
14139311 ATTTTCCTTAAAAATAAA-TCTTCAAAAAAATATTTTTGGGAAAAAGTTGAAAATATCAA
1 ATTTTCCTTAAAAATAAAGT-TTCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATC-A
14139370 ATTTTCCT
1 ATTTTCCT
14139378 GCACAAGAAC
Statistics
Matches: 465, Mismatches: 53, Indels: 44
0.83 0.09 0.08
Matches are distributed among these distances:
55 11 0.02
56 33 0.07
57 9 0.02
58 78 0.17
59 193 0.42
60 68 0.15
61 38 0.08
62 35 0.08
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.35
Consensus pattern (58 bp):
ATTTTCCTTAAAAATAAAGTTTCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCA
Found at i:14139080 original size:178 final size:175
Alignment explanation
Indices: 14138778--14139377 Score: 791
Period size: 178 Copynumber: 3.4 Consensus size: 175
14138768 TTATTATTTT
* * * *
14138778 ATTTTCTTTAAAAATAAAATTTAAAAAAAAAAAGGTTTTTGAGAAAAAGTTGAAAGTATCAATTT
1 ATTTTCCTTAAAAATAAATTTTCAAAAAAAAAA-GTTTTT-AGGAAAAGTTGAAAGTATCAATTT
*
14138843 TCCTTGAAAATCAAAGTTTCCAAAAAACATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTA
64 TCCTTGAAAATCAAAGTTTCCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTA
*
14138908 AAAATAAAATTTTAAAAAAAATATTTTTGAGGAAAAGTTAAAATTATCA
129 AAAATAAAATTTCAAAAAAAA-ATTTTTGAGGAAAAGTTAAAA-TATCA
* *
14138957 ATTTTTCTTAAAAATAAATTTTCAAAAAAAAAAGTTTTTAAGGAAAAGTTGAAAGTATCAGTTTT
1 ATTTTCCTTAAAAATAAATTTTCAAAAAAAAAAGTTTTT-AGGAAAAGTTGAAAGTATCAATTTT
*
14139022 CCTTGAAAATCAAAGTTTCCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAA
65 CCTTGAAAATCAAAGTTTCCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAA
***
14139087 AAATAAAATTTCGAAAAAAGGGTTTTTGAGGAAAAGTTGAAAATATCA
130 AAATAAAATTTC-AAAAAAAAATTTTTGAGGAAAAGTT-AAAATATCA
* * *
14139135 ATTTTCCTTGAAAATCAAAGTTTCAAAAAAAATATA-TTTTTGGAGAAAAGTTGAAAGTATCAAT
1 ATTTTCCTTAAAAAT-AAATTTTCAAAAAAAA-A-AGTTTTTAG-GAAAAGTTGAAAGTATCAAT
* * * *
14139199 TTTCCTT-AAAA-AAAAATTTTCAAAAAATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTTCT
62 TTTCCTTGAAAATCAAAGTTTCCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCT
* *
14139261 TAAAAAT-AAATTTCAAAAAATCAATTTTTGAGGAAAAGTTGAAAGTATCA
127 TAAAAATAAAATTTCAAAAAA-AAATTTTTGAGGAAAAGTT-AAAATATCA
* * * *
14139311 ATTTTCCTTAAAAATAAATCTTC-AAAAAAATA-TTTTTGGGAAAAAGTTGAAAATATCAAATTT
1 ATTTTCCTTAAAAATAAATTTTCAAAAAAAAAAGTTTTTAGG-AAAAGTTGAAAGTATC-AATTT
14139374 TCCT
64 TCCT
14139378 GCACAAGAAC
Statistics
Matches: 380, Mismatches: 32, Indels: 24
0.87 0.07 0.06
Matches are distributed among these distances:
171 1 0.00
172 23 0.06
173 9 0.02
174 7 0.02
175 12 0.03
176 46 0.12
177 38 0.10
178 152 0.40
179 59 0.16
180 32 0.08
181 1 0.00
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.35
Consensus pattern (175 bp):
ATTTTCCTTAAAAATAAATTTTCAAAAAAAAAAGTTTTTAGGAAAAGTTGAAAGTATCAATTTTC
CTTGAAAATCAAAGTTTCCAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAA
AATAAAATTTCAAAAAAAAATTTTTGAGGAAAAGTTAAAATATCA
Found at i:14152113 original size:22 final size:22
Alignment explanation
Indices: 14152083--14152127 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
14152073 TAAACTTATC
* *
14152083 ATATGATATTATATCATATATA
1 ATATGATATTATAACATACATA
*
14152105 ATATTATATTATAACATACATA
1 ATATGATATTATAACATACATA
14152127 A
1 A
14152128 AAACTTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (22 bp):
ATATGATATTATAACATACATA
Found at i:14152881 original size:18 final size:19
Alignment explanation
Indices: 14152843--14152881 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
14152833 TTTTCATACT
* *
14152843 AAAATAATATATACTTTTA
1 AAAATAATATATAATTGTA
14152862 AAAAT-ATATATAATTGTA
1 AAAATAATATATAATTGTA
14152880 AA
1 AA
14152882 CAAGAGATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAATAATATATAATTGTA
Found at i:14154018 original size:16 final size:17
Alignment explanation
Indices: 14153994--14154025 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14153984 ATCAAAGAAA
14153994 AATTATTTCAAATTTTT
1 AATTATTTCAAATTTTT
14154011 AATT-TTTCAAATTTT
1 AATTATTTCAAATTTT
14154026 GAGGTGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTATTTCAAATTTTT
Found at i:14155134 original size:27 final size:27
Alignment explanation
Indices: 14155089--14155153 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
14155079 ATAAACAAAT
*
14155089 AAATTTTTAAATAATATATTA-ATTAA
1 AAATTTTTAAATAATATATCATATTAA
* *
14155115 CAGATTTTTAATTTAA-ATATCATATTAA
1 -AAATTTTTAA-ATAATATATCATATTAA
14155143 AAATTTTTAAA
1 AAATTTTTAAA
14155154 ATTTATTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
27 23 0.74
28 8 0.26
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (27 bp):
AAATTTTTAAATAATATATCATATTAA
Found at i:14156507 original size:12 final size:11
Alignment explanation
Indices: 14156493--14156526 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
14156483 TATATATAAT
14156493 TTTTATTAAAA
1 TTTTATTAAAA
*
14156504 TTTTAATAAAGA
1 TTTTATTAAA-A
14156516 TTTTATTAAAA
1 TTTTATTAAAA
14156527 AAATCTCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (11 bp):
TTTTATTAAAA
Found at i:14156760 original size:230 final size:228
Alignment explanation
Indices: 14156290--14156963 Score: 914
Period size: 230 Copynumber: 2.9 Consensus size: 228
14156280 TGTCTTTGAA
* * *
14156290 AAAAAAATTCTCATGCTAATTCATTGGAATAAAAAACTAAACAATGACAAAAACAAAAACAAAAA
1 AAAAAAA-TCTCATGCTAATTCATTGGAATAAAAAACTAAAAAATGAC-ACAAC--TAA-AAAAA
* * * *
14156355 TTTAATAATT-TGTGCATTTATATCATATAAAATAAAAATAATTCATACATTTATATTATGTTTT
61 -TTGATAATTCT-TGCATTTGTATCATATAAAATAAAAATAATTCATATATTTGTATTATGTTTT
* * * *
14156419 ATACAAAACTTATGTCATAAGTT-ATGTCAAT-TGAAAACAAAAAATACA-TTTTTATTTTTAAA
124 ACA-AAAAATTATGTCATAA-TTCATGTCAATACGAAAACAAAAAATATATTTTTTATTTTTAAA
14156481 TTTATATATAATTTTTATTAAAATTTTAATAAAGATTTTATT
187 TTTATATATAATTTTTATTAAAATTTTAATAAAGATTTTATT
*
14156523 AAAAAAATCTCATGCTAATGCATTGGAATAAAAAACTAAAAAATGACACCAACTAAAAAAATTGA
1 AAAAAAATCTCATGCTAATTCATTGGAATAAAAAACTAAAAAATGACA-CAACTAAAAAAATTGA
*
14156588 TAATTCTTGCATTTGTATCATATAAAATAAAAATAATTCATATATTTGTACTATGTTTTACATAA
65 TAATTCTTGCATTTGTATCATATAAAATAAAAATAATTCATATATTTGTATTATGTTTTACA-AA
14156653 AAATTATGTCATAATTCATGTCAATACGAAAACAAAAAATATATTTTTTATTTTTAAATTTATAT
129 AAATTATGTCATAATTCATGTCAATACGAAAACAAAAAATATATTTTTTATTTTTAAATTTATAT
*
14156718 ATAATTTTTAGTAAAATTTTAATAAAGATTTTATT
194 ATAATTTTTATTAAAATTTTAATAAAGATTTTATT
* * * *
14156753 TAAAAAATCTAATGCTAATTCATTGGAATAAAAAACCAAAAAA-G--ACAACTAAAAAAATTGAC
1 AAAAAAATCTCATGCTAATTCATTGGAATAAAAAACTAAAAAATGACACAACTAAAAAAATTGAT
* * * * * *
14156815 AATTCGTGCATTTGTATCTTATAAAATAAAAATAATTTATATATTCGTATTTTGTTTTAC-ACAA
66 AATTCTTGCATTTGTATCATATAAAATAAAAATAATTCATATATTTGTATTATGTTTTACAAAAA
* * * * * * *
14156879 ATTATATAATAATTCATCTCAATACAAAAATAAAAAATATATTTTTTATTTTTAAACTTACATAT
131 ATTATGTCATAATTCATGTCAATACGAAAACAAAAAATATATTTTTTATTTTTAAATTTATATAT
14156944 AATTTTTATTAAAATTTTAA
196 AATTTTTATTAAAATTTTAA
14156964 ATTGTATCAC
Statistics
Matches: 401, Mismatches: 35, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
224 80 0.20
226 70 0.17
227 3 0.01
228 81 0.20
229 22 0.05
230 96 0.24
231 1 0.00
232 41 0.10
233 7 0.02
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.38
Consensus pattern (228 bp):
AAAAAAATCTCATGCTAATTCATTGGAATAAAAAACTAAAAAATGACACAACTAAAAAAATTGAT
AATTCTTGCATTTGTATCATATAAAATAAAAATAATTCATATATTTGTATTATGTTTTACAAAAA
ATTATGTCATAATTCATGTCAATACGAAAACAAAAAATATATTTTTTATTTTTAAATTTATATAT
AATTTTTATTAAAATTTTAATAAAGATTTTATT
Found at i:14161407 original size:5 final size:5
Alignment explanation
Indices: 14161397--14161423 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
14161387 TACAAATAAG
14161397 TATTT TATTT TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TA
14161424 ACTGAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:14165810 original size:14 final size:12
Alignment explanation
Indices: 14165769--14165812 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
14165759 TATTTAATGA
14165769 TAAAAATTATAT
1 TAAAAATTATAT
* *
14165781 TAAAAGTTTTAT
1 TAAAAATTATAT
14165793 TAAAAATGTATAT
1 TAAAAAT-TATAT
14165806 CTAAAAA
1 -TAAAAA
14165813 ACATATCTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 16 0.62
13 4 0.15
14 6 0.23
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (12 bp):
TAAAAATTATAT
Found at i:14167008 original size:2 final size:2
Alignment explanation
Indices: 14167001--14167025 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14166991 ATGCACCCAT
14167001 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 T
14167026 TTTACAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14168597 original size:130 final size:131
Alignment explanation
Indices: 14168445--14168721 Score: 307
Period size: 131 Copynumber: 2.1 Consensus size: 131
14168435 ATTGTTTGTC
* * * * *
14168445 ACCAAGTCAAATATTTTATTTTTATAA-AAAAAAAGTC-TAACTTACAGAT-ATTA-AGATTTGA
1 ACCAAATCAAATCTTTTATTTTT-TAACAAAAAAAGTCATAACCTACAAATGA-TAGA-ATTTAA
* * * *
14168506 ATTTTAAAATTTTTAGATA-C-CTTCTCTTAAAAATAATTTTATAAATTGATTGAGTT-AAATTT
63 ATTTCAAAATTATTAGATATCAC-T-TCTTAAAAATAATTTTATAAATTAATTGAATTAAAATTT
*
14168568 CATATTT
126 -AGATTT
* * *
14168575 ACCAAATCAAATCTTTTTTTTTTTAACAAAGAAAGTCATAGCCTACAAATGATAGAATTTAAATT
1 ACCAAATCAAATCTTTTATTTTTTAACAAAAAAAGTCATAACCTACAAATGATAGAATTTAAATT
* *
14168640 TCAAAATTATTAGATATCACTTCTTAAAAGTAATTTTATAAATTAATTGAATTAAAATTTGGATT
66 TCAAAATTATTAGATATCACTTCTTAAAAATAATTTTATAAATTAATTGAATTAAAATTTAGATT
14168705 T
131 T
*
14168706 ATCAAATCAAATCTTT
1 ACCAAATCAAATCTTT
14168722 AATCCATAAG
Statistics
Matches: 124, Mismatches: 16, Indels: 13
0.81 0.10 0.08
Matches are distributed among these distances:
129 3 0.02
130 29 0.23
131 81 0.65
132 10 0.08
133 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (131 bp):
ACCAAATCAAATCTTTTATTTTTTAACAAAAAAAGTCATAACCTACAAATGATAGAATTTAAATT
TCAAAATTATTAGATATCACTTCTTAAAAATAATTTTATAAATTAATTGAATTAAAATTTAGATT
T
Found at i:14169268 original size:16 final size:16
Alignment explanation
Indices: 14169218--14169271 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
14169208 TAAAATAAAT
14169218 ATAATACAAATAC-ATAA
1 ATAAT-CAAAT-CTATAA
* *
14169235 ATTATCAAATCTACAA
1 ATAATCAAATCTATAA
*
14169251 ATAATCAAATTTATAA
1 ATAATCAAATCTATAA
14169267 ATAAT
1 ATAAT
14169272 TTTATAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 1 0.03
16 26 0.84
17 4 0.13
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAATCAAATCTATAA
Found at i:14170675 original size:21 final size:21
Alignment explanation
Indices: 14170624--14170680 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
14170614 ACATAAAGAT
*
14170624 TAATTATTATATATTAATAAA
1 TAATAATTATATATTAATAAA
* *
14170645 TAATATTTATATTTTAATAAA
1 TAATAATTATATATTAATAAA
14170666 T-ATAAATTAT-TATTA
1 TAAT-AATTATATATTA
14170681 TTATAATTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 6 0.20
21 24 0.80
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TAATAATTATATATTAATAAA
Found at i:14170705 original size:23 final size:22
Alignment explanation
Indices: 14170671--14170719 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
14170661 ATAAATATAA
14170671 ATTATTATTATTATAAT-TATTT
1 ATTATTATTATT-TAATATATTT
*
14170693 ATTACTTATTATTTATTATATTT
1 ATTA-TTATTATTTAATATATTT
14170716 ATTA
1 ATTA
14170720 AAATATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTATTATTATTTAATATATTT
Found at i:14172122 original size:2 final size:2
Alignment explanation
Indices: 14172115--14172144 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
14172105 GTCCCATCTC
14172115 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14172145 AAAAAGTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14175748 original size:16 final size:17
Alignment explanation
Indices: 14175727--14175764 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
14175717 AAATGTTTTA
14175727 AATTT-AACCAATAAAT
1 AATTTAAACCAATAAAT
14175743 AATTTAACAACCAATAAAT
1 AATTT-A-AACCAATAAAT
14175762 AAT
1 AAT
14175765 ACATTTTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.26
19 14 0.74
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (17 bp):
AATTTAAACCAATAAAT
Found at i:14188147 original size:18 final size:19
Alignment explanation
Indices: 14188118--14188154 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
14188108 TCCACTAAAC
*
14188118 TTGTACACATGTATGATTT
1 TTGTACACATGTAAGATTT
14188137 TTGTA-ACATGTAAGATTT
1 TTGTACACATGTAAGATTT
14188155 CGTTTTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.46
Consensus pattern (19 bp):
TTGTACACATGTAAGATTT
Found at i:14188444 original size:14 final size:14
Alignment explanation
Indices: 14188411--14188448 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
14188401 AATTATTTAT
14188411 TAAATTAAAA-TCA
1 TAAATTAAAATTCA
* *
14188424 AAAATTAAAATTGA
1 TAAATTAAAATTCA
14188438 TAAATTAAAAT
1 TAAATTAAAAT
14188449 ATCTTATCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (14 bp):
TAAATTAAAATTCA
Found at i:14189869 original size:14 final size:16
Alignment explanation
Indices: 14189842--14189887 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 16
14189832 TTATTAAAAT
14189842 TATTAAATTTTAAATAA
1 TATTAAA-TTTAAATAA
14189859 T-TT-AATTTAAATAA
1 TATTAAATTTAAATAA
14189873 TACTTAAATTTAAAT
1 TA-TTAAATTTAAAT
14189888 TTTATTAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 10 0.38
15 2 0.08
16 4 0.15
17 10 0.38
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTAAATTTAAATAA
Found at i:14190495 original size:16 final size:16
Alignment explanation
Indices: 14190470--14190516 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
14190460 TTACTGAACA
* *
14190470 TTTTAGATTTAAGTTT
1 TTTTAGATTTAAATCT
*
14190486 TTTTAAATTTAAATCT
1 TTTTAGATTTAAATCT
*
14190502 TTTTAGATTTTAATC
1 TTTTAGATTTAAATC
14190517 ATTATATCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (16 bp):
TTTTAGATTTAAATCT
Found at i:14190630 original size:16 final size:16
Alignment explanation
Indices: 14190606--14190654 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
14190596 TTTTCAAATC
14190606 ATTTCAAATTTAAATTA
1 ATTT-AAATTTAAATTA
*
14190623 ATTTAAATTCAAATTA
1 ATTTAAATTTAAATTA
* *
14190639 CTTTAATTTTAAATTA
1 ATTTAAATTTAAATTA
14190655 TCAGTTGGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 24 0.86
17 4 0.14
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTTAAATTTAAATTA
Found at i:14192698 original size:2 final size:2
Alignment explanation
Indices: 14192693--14192720 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14192683 CCATATATTC
14192693 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
14192721 CTTTATTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14193797 original size:27 final size:27
Alignment explanation
Indices: 14193762--14193824 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
14193752 AATATTTTGC
*
14193762 ATAAAAAAGAATTTTATCCTATTATAA
1 ATAATAAAGAATTTTATCCTATTATAA
* ** ** *
14193789 GTAATAAAGGGTTTTATTTTGTTATAA
1 ATAATAAAGAATTTTATCCTATTATAA
14193816 ATAATAAAG
1 ATAATAAAG
14193825 CAAATATGCC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (27 bp):
ATAATAAAGAATTTTATCCTATTATAA
Found at i:14198959 original size:18 final size:20
Alignment explanation
Indices: 14198938--14198980 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
14198928 TATTTATATA
*
14198938 TATTTAATAA-AT-AATTTT
1 TATTTAATAATATAAAATTT
14198956 TATTTAATAATATAAAATTT
1 TATTTAATAATATAAAATTT
14198976 TATTT
1 TATTT
14198981 TAAATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 2 0.09
20 10 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTTAATAATATAAAATTT
Found at i:14199450 original size:21 final size:21
Alignment explanation
Indices: 14199405--14199450 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
14199395 AAAAATTAAA
*
14199405 TTAATCAAATTAATTAAAATT
1 TTAATCAAATTAATTAAAATC
14199426 TTAATCAAAATATAA-TAAAA-C
1 TTAATC-AAAT-TAATTAAAATC
14199447 TTAA
1 TTAA
14199451 ATATAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 10 0.45
22 9 0.41
23 3 0.14
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (21 bp):
TTAATCAAATTAATTAAAATC
Found at i:14201233 original size:14 final size:14
Alignment explanation
Indices: 14201214--14201241 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14201204 ATCAACTAAA
14201214 ATGCAAACTCATGC
1 ATGCAAACTCATGC
14201228 ATGCAAACTCATGC
1 ATGCAAACTCATGC
14201242 CCCCGAAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (14 bp):
ATGCAAACTCATGC
Found at i:14201903 original size:12 final size:12
Alignment explanation
Indices: 14201886--14201911 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14201876 ATATTAGACA
14201886 ATTTGAAGGGAT
1 ATTTGAAGGGAT
14201898 ATTTGAAGGGAT
1 ATTTGAAGGGAT
14201910 AT
1 AT
14201912 AGCCATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (12 bp):
ATTTGAAGGGAT
Found at i:14205174 original size:33 final size:33
Alignment explanation
Indices: 14205132--14205197 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
14205122 ATCCATGATA
*
14205132 CACCTAAATGAAGAACAGTAAGATAGCTAAACT
1 CACCTAAATGAAGAACAGGAAGATAGCTAAACT
14205165 CACCTAAATGAAGAACAGGAAGATAGCTAAACT
1 CACCTAAATGAAGAACAGGAAGATAGCTAAACT
14205198 AACTCCAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.48, C:0.18, G:0.17, T:0.17
Consensus pattern (33 bp):
CACCTAAATGAAGAACAGGAAGATAGCTAAACT
Found at i:14207708 original size:18 final size:19
Alignment explanation
Indices: 14207668--14207708 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
14207658 GATAATTAAA
14207668 TAAAAACAAAATATATTAG
1 TAAAAACAAAATATATTAG
* *
14207687 -AAAAACAAAGTGT-TTAG
1 TAAAAACAAAATATATTAG
14207704 TAAAA
1 TAAAA
14207709 TTGACTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.61, C:0.05, G:0.10, T:0.24
Consensus pattern (19 bp):
TAAAAACAAAATATATTAG
Found at i:14207987 original size:23 final size:25
Alignment explanation
Indices: 14207960--14208012 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
14207950 GTATCAGAAG
* *
14207960 AATTTTTTATA-TTT-AGAATTAAA
1 AATTTTTAATATTTTAAAAATTAAA
14207983 AATTTTTAATATTTTAAAAATTAAA
1 AATTTTTAATATTTTAAAAATTAAA
14208008 AATTT
1 AATTT
14208013 ATAAAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 10 0.38
24 3 0.12
25 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
AATTTTTAATATTTTAAAAATTAAA
Found at i:14209930 original size:18 final size:18
Alignment explanation
Indices: 14209909--14209977 Score: 54
Period size: 18 Copynumber: 3.8 Consensus size: 18
14209899 TATTAACTAA
14209909 AAATTATATTAAAAATTT
1 AAATTATATTAAAAATTT
* *
14209927 AAATTAT-TTAATATTTT
1 AAATTATATTAAAAATTT
14209944 AAAATTA-A-TAAATAATTATT
1 -AAATTATATTAAA-AA-T-TT
*
14209964 AAATTATTTTAAAA
1 AAATTATATTAAAA
14209978 TCAAATAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
17 11 0.28
18 14 0.36
19 7 0.18
20 3 0.08
21 4 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATTATATTAAAAATTT
Found at i:14215154 original size:6 final size:6
Alignment explanation
Indices: 14215140--14215241 Score: 71
Period size: 6 Copynumber: 17.0 Consensus size: 6
14215130 GCTTTTGACC
* * *
14215140 AAAATT AAAAAT AAAATT ACAATT AAAATT AAAATT CAAAA-T AAACTT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT -AAAATT AAAATT
* * * * * * * * * *
14215188 GAAATC AAAATT TAAATT TAAATT TAAATC AAAGTC CACATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
14215236 AAAATT
1 AAAATT
14215242 GTGGGCTTTT
Statistics
Matches: 74, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
5 3 0.04
6 67 0.91
7 4 0.05
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:14215198 original size:30 final size:30
Alignment explanation
Indices: 14215140--14215205 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
14215130 GCTTTTGACC
*
14215140 AAAATTAAAAATAAAATTACAATTAAAATT
1 AAAATTAAAAATAAAATTACAATCAAAATT
* *
14215170 AAAATTCAAAATAAACTTGA-AATCAAAATT
1 AAAATTAAAAATAAAATT-ACAATCAAAATT
*
14215200 TAAATT
1 AAAATT
14215206 TAAATTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (30 bp):
AAAATTAAAAATAAAATTACAATCAAAATT
Found at i:14216374 original size:18 final size:20
Alignment explanation
Indices: 14216340--14216380 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
14216330 AAATACAATG
14216340 ATAAAATTCACTAAAATTAA
1 ATAAAATTCACTAAAATTAA
*
14216360 ATAAAA-TCA-TAAAATTGA
1 ATAAAATTCACTAAAATTAA
14216378 ATA
1 ATA
14216381 TTGTCTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 3 0.15
20 6 0.30
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.29
Consensus pattern (20 bp):
ATAAAATTCACTAAAATTAA
Found at i:14216867 original size:30 final size:30
Alignment explanation
Indices: 14216800--14216867 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
14216790 TATAAAATAT
* * * *
14216800 TAAAAATTTATGTATTTTTATTTTATTTTG
1 TAAAAAATTATGTATTTATAATTTATATTG
14216830 TATAAAAATTATGTA-TTATAATTTATATTG
1 TA-AAAAATTATGTATTTATAATTTATATTG
14216860 ATAAAAAA
1 -TAAAAAA
14216868 ATGAAATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 19 0.59
31 13 0.41
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (30 bp):
TAAAAAATTATGTATTTATAATTTATATTG
Found at i:14216868 original size:31 final size:31
Alignment explanation
Indices: 14216801--14216869 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
14216791 ATAAAATATT
* * * *
14216801 AAAAATTTATGTATTTTTATTTTATTTTGTA
1 AAAAAATTATGTATTTATAATTTATATTGTA
*
14216832 TAAAAATTATGTA-TTATAATTTATATTGATA
1 AAAAAATTATGTATTTATAATTTATATTG-TA
14216863 AAAAAAT
1 AAAAAAT
14216870 GAAATATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
30 12 0.39
31 19 0.61
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (31 bp):
AAAAAATTATGTATTTATAATTTATATTGTA
Found at i:14221051 original size:32 final size:32
Alignment explanation
Indices: 14220987--14221049 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
14220977 CTCAAATCTG
* *
14220987 ATTTGATTCGATATTATATAAAATTATATTTT
1 ATTTGATTCAAAATTATATAAAATTATATTTT
14221019 ATTTGATTCAAAATT-TATAAAA-TATTATTTT
1 ATTTGATTCAAAATTATATAAAATTA-TATTTT
14221050 TAATATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 2 0.07
31 13 0.46
32 13 0.46
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (32 bp):
ATTTGATTCAAAATTATATAAAATTATATTTT
Found at i:14232112 original size:12 final size:12
Alignment explanation
Indices: 14232079--14232112 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
14232069 CAATATAAAA
14232079 ATATAATTTTTT
1 ATATAATTTTTT
*
14232091 AT-TAAATTTTT
1 ATATAATTTTTT
14232102 ATATAATTTTT
1 ATATAATTTTT
14232113 GTTAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATATAATTTTTT
Found at i:14232120 original size:23 final size:23
Alignment explanation
Indices: 14232079--14232123 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
14232069 CAATATAAAA
*
14232079 ATATAATTTTTTATTAAATTTTT
1 ATATAATTTTTTATAAAATTTTT
14232102 ATATAATTTTTGT-TAAAATTTT
1 ATATAATTTTT-TATAAAATTTT
14232124 AAATTGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
ATATAATTTTTTATAAAATTTTT
Found at i:14235655 original size:9 final size:8
Alignment explanation
Indices: 14235618--14235659 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
14235608 AAAATATATG
14235618 AATAAAAT
1 AATAAAAT
14235626 AATAAAAT
1 AATAAAAT
*
14235634 ATTATAAAT
1 AATA-AAAT
14235643 -ATAAAGAT
1 AATAAA-AT
14235651 AATAAAAT
1 AATAAAAT
14235659 A
1 A
14235660 TTTCTATCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
7 2 0.07
8 18 0.62
9 9 0.31
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (8 bp):
AATAAAAT
Found at i:14236461 original size:10 final size:10
Alignment explanation
Indices: 14236436--14236465 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
14236426 TATTTTATCA
14236436 ATTAAAATAT
1 ATTAAAATAT
14236446 -TTAAAATAT
1 ATTAAAATAT
14236455 ATTAAAATAT
1 ATTAAAATAT
14236465 A
1 A
14236466 AAAACTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:14236477 original size:19 final size:19
Alignment explanation
Indices: 14236432--14236477 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
14236422 GAGATATTTT
*
14236432 ATCAATTAAAATATTTAAA
1 ATCAATTAAAATATTAAAA
14236451 AT-ATATTAAAATA-TAAAA
1 ATCA-ATTAAAATATTAAAA
14236469 ACTCAATTA
1 A-TCAATTA
14236478 GATTCATGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
18 6 0.26
19 16 0.70
20 1 0.04
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
ATCAATTAAAATATTAAAA
Found at i:14237190 original size:25 final size:23
Alignment explanation
Indices: 14237153--14237205 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
14237143 AATTTTTAAG
14237153 ATTTTTTTTAAAA-ATTTTGGACA
1 ATTTTTTTTAAAATATTTTGGA-A
*
14237176 ATTTTTTTCTGAAAATTTTTTGGAA
1 ATTTTTTT-T-AAAATATTTTGGAA
14237201 ATTTT
1 ATTTT
14237206 CGAGATTCCG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 8 0.31
24 1 0.04
25 10 0.38
26 7 0.27
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (23 bp):
ATTTTTTTTAAAATATTTTGGAA
Found at i:14237922 original size:61 final size:58
Alignment explanation
Indices: 14237784--14237996 Score: 252
Period size: 61 Copynumber: 3.6 Consensus size: 58
14237774 TTAAAAAAGT
* * * *
14237784 ATTTTTAAGGAAAAGTTGAAAGTTTCAATTTTTCTTGAAAATAAAATTAAAAAAATAT
1 ATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTAAAAAAAAAC
*
14237842 ATTTTT-AAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAGTAAAATGTATGAAAAAAAAC
1 ATTTTTAAAG-AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAT-TA--AAAAAAAAC
* *
14237903 ATTTTTAAAGAAAAGTTGAAAGTATAAATTTTTCTTGAAAATAAAA--AAAAAAACTTAAA
1 ATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTAAAAAAA---AAC
*
14237962 ATGCTTTAAAGAAAAGTTGAAAGTATCAACTTTTT
1 AT-TTTTAAAGAAAAGTTGAAAGTATCAA-TTTTT
14237997 TTTGTATAAA
Statistics
Matches: 135, Mismatches: 10, Indels: 17
0.83 0.06 0.10
Matches are distributed among these distances:
56 6 0.04
57 2 0.01
58 42 0.31
59 6 0.04
60 24 0.18
61 52 0.39
62 3 0.02
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (58 bp):
ATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTAAAAAAAAAC
Found at i:14238579 original size:310 final size:312
Alignment explanation
Indices: 14237998--14238614 Score: 848
Period size: 310 Copynumber: 2.0 Consensus size: 312
14237988 CAACTTTTTT
*
14237998 TTGTATAAAAGCATGGATTTTTCATAAAACAAAAAAAGAGATTTATATAAAAAGTCGAAACATCA
1 TTGTATAAAAGCATGGATTTTTCATAAAACAAAAAAAAAGATTTATATAAAAAGTCGAAACATCA
* *
14238063 TTCCTTTTTCTTTTTGTCCTTTTTCTTTTCTTGAAAAATTTTAAATGTTAAATAATCCGATGATG
66 TTCCTTTTTCTTATTGTCCTTTTTCTTTTCTTG----A----AAATGTTAAATAATCCGACGATG
* *
14238128 AAACTTGTGCAAATAAAACAGTAGTTTTTTTGTATACTCTTGAGGTGATGAAATTTTTTTAATTT
123 AAACTTCTGCAAATAAAACAGTAGTTTTTTTGTATACTCTTGAGGTGATGAAATTTTCTTAATTT
* * ** * *
14238193 TCTACCAAAAGTATTGGAGTCAATTAAGAATAATTTTTAATAATTAAATACTTGGTAAAGTTTTT
188 TCTACCAAAAATATTGAAGTCAATTAAGAATAATTTCCAATAATTAAATACTTGATAAAATTTTT
* * *
14238258 AAGATTTAATGGATAACACAAAATTGAGCTGGTACTATCTTTCGATGATATCAATTTTCC
253 AAGACTTAATGGATAACACAAAATTAAGCTAGTACTATCTTTCGATGATATCAATTTTCC
* *
14238318 TTGTATAAAAGCAT-GAGTTTTTCATAAAACAAAAAAAAAGATTTATATCAAAAGTTGAAACATC
1 TTGTATAAAAGCATGGA-TTTTTCATAAAACAAAAAAAAAGATTTATATAAAAAGTCGAAACATC
* *
14238382 ATTCCTTTTTCTTATTGTCC-TTTTCTTTTCTTG-AAATGTTAAATAATCCGACGATGGAGCTTC
65 ATTCCTTTTTCTTATTGTCCTTTTTCTTTTCTTGAAAATGTTAAATAATCCGACGATGAAACTTC
* * * * *
14238445 TGCAAGTGAAATAGTAGTTTTTTTGTATACTCTTGAGGT-ATGAGAATTTTCTTAATTTTTTGCC
130 TGCAAATAAAACAGTAGTTTTTTTGTATACTCTTGAGGTGATGA-AATTTTCTTAATTTTCTACC
* *
14238509 AAAAATATTGAAGTTAATTAAGGATAATTTCCAATAATTAAATACTTGATAAAATTTTTAA-AGC
194 AAAAATATTGAAGTCAATTAAGAATAATTTCCAATAATTAAATACTTGATAAAATTTTTAAGA-C
* * *
14238573 TTAATGGATAACACGAAATTAAGCTAGTGCTATCTTTTGATG
258 TTAATGGATAACACAAAATTAAGCTAGTACTATCTTTCGATG
14238615 GGCATGTGGG
Statistics
Matches: 266, Mismatches: 28, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
309 5 0.02
310 169 0.64
319 15 0.06
320 77 0.29
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (312 bp):
TTGTATAAAAGCATGGATTTTTCATAAAACAAAAAAAAAGATTTATATAAAAAGTCGAAACATCA
TTCCTTTTTCTTATTGTCCTTTTTCTTTTCTTGAAAATGTTAAATAATCCGACGATGAAACTTCT
GCAAATAAAACAGTAGTTTTTTTGTATACTCTTGAGGTGATGAAATTTTCTTAATTTTCTACCAA
AAATATTGAAGTCAATTAAGAATAATTTCCAATAATTAAATACTTGATAAAATTTTTAAGACTTA
ATGGATAACACAAAATTAAGCTAGTACTATCTTTCGATGATATCAATTTTCC
Found at i:14239125 original size:13 final size:14
Alignment explanation
Indices: 14239107--14239159 Score: 53
Period size: 13 Copynumber: 4.1 Consensus size: 14
14239097 TACAATTCTT
14239107 TTATATCAAA-TAA
1 TTATATCAAATTAA
14239120 TTATAT-AAATTAA
1 TTATATCAAATTAA
*
14239133 TT-T-TTAAA-TAA
1 TTATATCAAATTAA
*
14239144 TTATAACAAATTAA
1 TTATATCAAATTAA
14239158 TT
1 TT
14239160 TTAAAAACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
11 6 0.18
12 8 0.24
13 14 0.42
14 5 0.15
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TTATATCAAATTAA
Found at i:14239146 original size:24 final size:25
Alignment explanation
Indices: 14239114--14239161 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
14239104 CTTTTATATC
*
14239114 AAATAATTAT-ATAAATTAATTTTT
1 AAATAATTATAACAAATTAATTTTT
14239138 AAATAATTATAACAAATTAATTTT
1 AAATAATTATAACAAATTAATTTT
14239162 AAAAACTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
AAATAATTATAACAAATTAATTTTT
Found at i:14240076 original size:3 final size:3
Alignment explanation
Indices: 14240068--14240100 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
14240058 TTGAAGTAAA
*
14240068 TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14240101 GAAAATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14240536 original size:11 final size:12
Alignment explanation
Indices: 14240522--14240604 Score: 57
Period size: 11 Copynumber: 6.8 Consensus size: 12
14240512 AAGTTTATAC
14240522 AAAAATAAAA-T
1 AAAAATAAAATT
14240533 AAAAATAACAA--
1 AAAAATAA-AATT
*
14240544 AAAATTAAAAATT
1 AAAAAT-AAAATT
14240557 AAATAATAAAAATT
1 AAA-AAT-AAAATT
*
14240571 AAACAAAAAAATT
1 AAA-AATAAAATT
* *
14240584 GAAAA-AAAATG
1 AAAAATAAAATT
14240595 AAAAATAAAA
1 AAAAATAAAA
14240605 AATTATGACG
Statistics
Matches: 59, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
11 24 0.41
12 10 0.17
13 11 0.19
14 14 0.24
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (12 bp):
AAAAATAAAATT
Found at i:14240568 original size:14 final size:14
Alignment explanation
Indices: 14240549--14240583 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
14240539 AACAAAAAAT
*
14240549 TAAAAATTAAATAA
1 TAAAAATTAAACAA
14240563 TAAAAATTAAACAA
1 TAAAAATTAAACAA
14240577 -AAAAATT
1 TAAAAATT
14240584 GAAAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAAAATTAAACAA
Found at i:14240580 original size:13 final size:12
Alignment explanation
Indices: 14240550--14240605 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 12
14240540 ACAAAAAATT
14240550 AAAAATTAAATAA
1 AAAAATTAAA-AA
14240563 TAAAAATTAAACAA
1 -AAAAATTAAA-AA
*
14240577 AAAAATT-GAAA
1 AAAAATTAAAAA
*
14240588 AAAAATGAAAAA
1 AAAAATTAAAAA
14240600 TAAAAA
1 -AAAAA
14240606 ATTATGACGA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 8 0.22
12 4 0.11
13 12 0.33
14 12 0.33
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.18
Consensus pattern (12 bp):
AAAAATTAAAAA
Found at i:14240592 original size:14 final size:13
Alignment explanation
Indices: 14240550--14240609 Score: 52
Period size: 14 Copynumber: 4.6 Consensus size: 13
14240540 ACAAAAAATT
*
14240550 AAAAATTAAATAAT
1 AAAAATTAAA-AAA
*
14240564 AAAAATTAAACAA
1 AAAAATTAAAAAA
*
14240577 AAAAATT--GAAA
1 AAAAATTAAAAAA
*
14240588 AAAAATGAAAAATA
1 AAAAATTAAAAA-A
14240602 AAAAATTA
1 AAAAATTA
14240610 TGACGAAAGT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
11 8 0.22
13 10 0.28
14 18 0.50
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (13 bp):
AAAAATTAAAAAA
Found at i:14242879 original size:14 final size:13
Alignment explanation
Indices: 14242854--14242879 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14242844 TTTTTTATTG
14242854 CATAAAAATTTTT
1 CATAAAAATTTTT
14242867 CATAAAAATTTTT
1 CATAAAAATTTTT
14242880 AGTTTTGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
CATAAAAATTTTT
Found at i:14243305 original size:19 final size:19
Alignment explanation
Indices: 14243281--14243317 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14243271 TGACTTTCGA
* *
14243281 ACCAAATTTATTTTTGTAT
1 ACCAAAATTATCTTTGTAT
14243300 ACCAAAATTATCTTTGTA
1 ACCAAAATTATCTTTGTA
14243318 ATAAGCTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.46
Consensus pattern (19 bp):
ACCAAAATTATCTTTGTAT
Found at i:14243742 original size:3 final size:3
Alignment explanation
Indices: 14243727--14243763 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
14243717 AACCAAACAA
*
14243727 AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
14243764 TTTAGATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:14244912 original size:21 final size:22
Alignment explanation
Indices: 14244886--14244931 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
14244876 CTAGACGGTT
14244886 TGAATTTTTAGCAG-AAATGAA
1 TGAATTTTTAGCAGAAAATGAA
*
14244907 TGAATTTTTAGTAGAAAATGAA
1 TGAATTTTTAGCAGAAAATGAA
14244929 TGA
1 TGA
14244932 GCTATCTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.35
Consensus pattern (22 bp):
TGAATTTTTAGCAGAAAATGAA
Found at i:14246062 original size:16 final size:16
Alignment explanation
Indices: 14246041--14246072 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14246031 ACTAATGCTG
14246041 ATTTAGATTACTTTAA
1 ATTTAGATTACTTTAA
*
14246057 ATTTAGATTGCTTTAA
1 ATTTAGATTACTTTAA
14246073 GTTTGGACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.50
Consensus pattern (16 bp):
ATTTAGATTACTTTAA
Found at i:14252916 original size:22 final size:23
Alignment explanation
Indices: 14252879--14252921 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
14252869 TTGGCATAAA
*
14252879 ATATATTTTTAGTTC-TCATTCT
1 ATATATTTTTACTTCTTCATTCT
*
14252901 ATATATTTTTTCTTCTTCATT
1 ATATATTTTTACTTCTTCATT
14252922 GAATTTAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.21, C:0.14, G:0.02, T:0.63
Consensus pattern (23 bp):
ATATATTTTTACTTCTTCATTCT
Found at i:14255492 original size:2 final size:2
Alignment explanation
Indices: 14255485--14255515 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14255475 ACTTGACAAT
14255485 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14255516 AGTGAATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14264582 original size:6 final size:6
Alignment explanation
Indices: 14264562--14264603 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
14264552 TTAGATTTGG
* *
14264562 TATT-A TATATGA TATTGA TATTGA TATTAA TATTAA TATTGA
1 TATTGA TAT-TGA TATTGA TATTGA TATTGA TATTGA TATTGA
14264604 ATTAGGTGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
5 3 0.09
6 26 0.79
7 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (6 bp):
TATTGA
Found at i:14264594 original size:18 final size:17
Alignment explanation
Indices: 14264573--14264607 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14264563 ATTATATATG
*
14264573 ATATTGATATTGATATTA
1 ATATTAATATTGA-ATTA
14264591 ATATTAATATTGAATTA
1 ATATTAATATTGAATTA
14264608 GGTGGATTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (17 bp):
ATATTAATATTGAATTA
Found at i:14270024 original size:30 final size:31
Alignment explanation
Indices: 14269988--14270053 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
14269978 TCAATTGGTT
* * *
14269988 CAATTTTA-CATCGTACTTTTAATTTTGAAG
1 CAATTTTATCATCATACTTATAATTTTAAAG
*
14270018 CAATTTTATTATCATACTTATAATTTTAAAG
1 CAATTTTATCATCATACTTATAATTTTAAAG
14270049 CAATT
1 CAATT
14270054 AAAGAATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 8 0.26
31 23 0.74
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (31 bp):
CAATTTTATCATCATACTTATAATTTTAAAG
Found at i:14272056 original size:18 final size:17
Alignment explanation
Indices: 14272033--14272067 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14272023 ATGATAAATA
14272033 AAATTATTATTATATAAT
1 AAATTATTATTAT-TAAT
*
14272051 AAATTATTTTTATTAAT
1 AAATTATTATTATTAAT
14272068 TTTTAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AAATTATTATTATTAAT
Found at i:14273549 original size:13 final size:13
Alignment explanation
Indices: 14273516--14273555 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
14273506 AATTCGATTC
* *
14273516 TATTTAAACTTAC
1 TATTTAAATTTAA
*
14273529 TATATAAATTTAA
1 TATTTAAATTTAA
14273542 TATTTAAATTTAA
1 TATTTAAATTTAA
14273555 T
1 T
14273556 TCGAATCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (13 bp):
TATTTAAATTTAA
Found at i:14276734 original size:29 final size:29
Alignment explanation
Indices: 14276692--14276760 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 29
14276682 CGTATCATTC
14276692 AATTATAATAAAATATTAAAT-ATTATATTTA
1 AATTAT-A-AAAATATTAAATGA-TATATTTA
* * * *
14276723 AATTTTAAAAATCTTTAATGATATTTTTA
1 AATTATAAAAATATTAAATGATATATTTA
14276752 AATTATAAA
1 AATTATAAA
14276761 TGTATTAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
29 25 0.78
30 2 0.06
31 5 0.16
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (29 bp):
AATTATAAAAATATTAAATGATATATTTA
Found at i:14277714 original size:11 final size:12
Alignment explanation
Indices: 14277698--14277749 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
14277688 TATATATATA
14277698 TAATTATTT-TT
1 TAATTATTTATT
14277709 TAATTATTTATT
1 TAATTATTTATT
14277721 TAATT-TTATATT
1 TAATTATT-TATT
14277733 TATATATATTTTATT
1 TA-AT-TA-TTTATT
14277748 TA
1 TA
14277750 TTTAATTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.31
12 13 0.37
13 2 0.06
14 1 0.03
15 6 0.17
16 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TAATTATTTATT
Found at i:14277749 original size:15 final size:14
Alignment explanation
Indices: 14277712--14277764 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 14
14277702 TATTTTTTAA
*
14277712 TTATTTATTTAATTT
1 TTATTTATATAA-TT
14277727 TATATTTATATATATT
1 T-TATTTATATA-ATT
*
14277743 TTATTTATTTAATT
1 TTATTTATATAATT
14277757 TTAATTTA
1 TT-ATTTA
14277765 CATTAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 5 0.15
15 15 0.45
16 12 0.36
17 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATTTATATAATT
Found at i:14290073 original size:145 final size:144
Alignment explanation
Indices: 14289754--14290081 Score: 448
Period size: 144 Copynumber: 2.3 Consensus size: 144
14289744 AGGAAGTGCA
* * *
14289754 AAATTACCAATATA--CTTAAAGGGGTATTTTCATAATTTGACCTTCCCGAGCTCGAAATTTAGT
1 AAATTACCAAAATACCCTTATAGAGGTATTTTCATAATTTGACCTTCCCGAGCTCGAAATTTAGT
* * * *
14289817 GAAACTTTTCAGATCTTAATTTCATAATATTTCATAATTTTGGTGCATTTGAAATCACAGCAGTA
66 GAAACTTTTCAAATCTTAATTTCATAATATTTCATAATTTTGATACATTTAAAATCACAGCAGTA
* *
14289882 TCCTGAAAAGTGTG
131 TCCTCAAAAGTGTC
* * * ** *
14289896 AAATTATCAAAATACCCTTATAGAGGTATTTTCGTAATTTGATCTTTTCGAGCTCGAAATTTTGT
1 AAATTACCAAAATACCCTTATAGAGGTATTTTCATAATTTGACCTTCCCGAGCTCGAAATTTAGT
* *
14289961 GAAACTTTTCAAATCTTAATTTCATAATATTTTATGATTTTTGATACATTTAAAATCACAGCAGT
66 GAAACTTTTCAAATCTTAATTTCATAATATTTCAT-AATTTTGATACATTTAAAATCACAGCAGT
14290026 A-CCTCAGAAAGTGTC
130 ATCCTCA-AAAGTGTC
14290041 AAATTACCAAAATACCCTTATA-AGAGTATTTTCATAATTTG
1 AAATTACCAAAATACCCTTATAGAG-GTATTTTCATAATTTG
14290082 GCTTTTTGGG
Statistics
Matches: 162, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
142 12 0.07
144 81 0.50
145 69 0.43
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (144 bp):
AAATTACCAAAATACCCTTATAGAGGTATTTTCATAATTTGACCTTCCCGAGCTCGAAATTTAGT
GAAACTTTTCAAATCTTAATTTCATAATATTTCATAATTTTGATACATTTAAAATCACAGCAGTA
TCCTCAAAAGTGTC
Found at i:14290110 original size:145 final size:144
Alignment explanation
Indices: 14289754--14290147 Score: 419
Period size: 144 Copynumber: 2.7 Consensus size: 144
14289744 AGGAAGTGCA
* * * * **
14289754 AAATTACCAATATA--CTTAAAGGGGTATTTTCATAATTTGACCTTCCCGAGCTCGAAA-TTTAG
1 AAATTACCAAAATACCCTTATAGAGGTATTTTCATAATTTGATCTTTTCGAGCTCGAAATTTTA-
* * * * * *
14289816 TGAAACTTTTCAGATCTTAATTTCATAATATTTCATAATTTTGGTGCATTTGAAATCACAGCAGT
65 CGAAACTTTTCAAATCTTAATTTCATAATATTTCATATTTTTGATACATTTAAAATCACAGCAGT
* *
14289881 ATCCTGAAAAGTGTG
130 ATCCTCAAAAGTGTC
* * **
14289896 AAATTATCAAAATACCCTTATAGAGGTATTTTCGTAATTTGATCTTTTCGAGCTCGAAATTTTGT
1 AAATTACCAAAATACCCTTATAGAGGTATTTTCATAATTTGATCTTTTCGAGCTCGAAATTTTAC
*
14289961 GAAACTTTTCAAATCTTAATTTCATAATATTTTATGATTTTTGATACATTTAAAATCACAGCAGT
66 GAAACTTTTCAAATCTTAATTTCATAATATTTCAT-ATTTTTGATACATTTAAAATCACAGCAGT
14290026 A-CCTCAGAAAGTGTC
130 ATCCTCA-AAAGTGTC
* * * *
14290041 AAATTACCAAAATACCCTTATA-AGAGTATTTTCATAATTTG-GCTTTTTGGGGCAT-G-GATTT
1 AAATTACCAAAATACCCTTATAGAG-GTATTTTCATAATTTGATC-TTTTCGAGC-TCGAAATTT
* * *
14290102 TCACGAAAC-TTTCAAATCTAAATTTTACAATATTTCATAATTTTTG
63 T-ACGAAACTTTTCAAATCTTAATTTCATAATATTTCAT-ATTTTTG
14290148 GTGTTTTAAA
Statistics
Matches: 213, Mismatches: 30, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
142 12 0.06
144 115 0.54
145 85 0.40
146 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.39
Consensus pattern (144 bp):
AAATTACCAAAATACCCTTATAGAGGTATTTTCATAATTTGATCTTTTCGAGCTCGAAATTTTAC
GAAACTTTTCAAATCTTAATTTCATAATATTTCATATTTTTGATACATTTAAAATCACAGCAGTA
TCCTCAAAAGTGTC
Found at i:14301442 original size:13 final size:13
Alignment explanation
Indices: 14301424--14301451 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14301414 GCACATTCAC
14301424 AAAATTCTTAAGA
1 AAAATTCTTAAGA
14301437 AAAATTCTTAAGA
1 AAAATTCTTAAGA
14301450 AA
1 AA
14301452 TAATCTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (13 bp):
AAAATTCTTAAGA
Found at i:14307735 original size:22 final size:21
Alignment explanation
Indices: 14307698--14307748 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
14307688 ATATTTTTAT
14307698 ATATTTATA-TTTAAAAAATA
1 ATATTTATATTTTAAAAAATA
14307718 ATATTTATATTTTAAAAAATA
1 ATATTTATATTTTAAAAAATA
14307739 ATATTT-TATT
1 ATATTTATATT
14307749 AATTTCGGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTTATATTTTAAAAAATA
Found at i:14308082 original size:20 final size:21
Alignment explanation
Indices: 14308041--14308094 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
14308031 TTCAAAATTA
*
14308041 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTAATTTTTAAAT
14308062 ATAAAATATTAATTTTT-AAT
1 ATAAAATATTAATTTTTAAAT
*
14308082 AT-AAATATAAATT
1 ATAAAATATTAATT
14308095 AAAAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.32
20 5 0.16
21 16 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAAAATATTAATTTTTAAAT
Found at i:14308089 original size:19 final size:19
Alignment explanation
Indices: 14308038--14308094 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
14308028 CAATTCAAAA
*
14308038 TTAATA-AAATATTATTTT
1 TTAATATAAATATTAATTT
14308056 TTAAATATAAAATATTAATTT
1 TT-AATAT-AAATATTAATTT
*
14308077 TTAATATAAATATAAATT
1 TTAATATAAATATTAATT
14308095 AAAAAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 2 0.06
19 14 0.41
20 5 0.15
21 13 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAATATAAATATTAATTT
Found at i:14308125 original size:17 final size:17
Alignment explanation
Indices: 14308086--14308117 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14308076 TTTAATATAA
14308086 ATATA-AATTAAAAAAT
1 ATATATAATTAAAAAAT
14308102 ATATATAATTAAAAAA
1 ATATATAATTAAAAAA
14308118 ATTTTATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATATATAATTAAAAAAT
Found at i:14308249 original size:15 final size:15
Alignment explanation
Indices: 14308215--14308248 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
14308205 AACTTGATAT
*
14308215 AAAATTTGATTTAAA
1 AAAATTTGATCTAAA
14308230 AAAATTTGATACTAAA
1 AAAATTTGAT-CTAAA
14308246 AAA
1 AAA
14308249 TCAAATCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (15 bp):
AAAATTTGATCTAAA
Found at i:14309262 original size:28 final size:29
Alignment explanation
Indices: 14309214--14309289 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 29
14309204 AATTATATTT
14309214 TTAAATAAATTTTTATATTTTT-A-TTATA
1 TTAAATAAATTTTTAT-TTTTTAATTTATA
14309242 TCTAAATAAATTTTTATTTTTTAATTTATA
1 T-TAAATAAATTTTTATTTTTTAATTTATA
* *
14309272 TTGAATAATTTTTTATTT
1 TTAAATAAATTTTTATTT
14309290 CAAACGAAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
28 6 0.14
29 31 0.72
30 6 0.14
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (29 bp):
TTAAATAAATTTTTATTTTTTAATTTATA
Found at i:14309346 original size:30 final size:29
Alignment explanation
Indices: 14309310--14309384 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 29
14309300 ATCGATTTAT
14309310 ATTAAAATTTTATTTATAGACAAATTAAAA
1 ATTAAAATTTTATTTA-AGACAAATTAAAA
* * *
14309340 ATTAAAAATTTATTCGAATACAAATTAAAA
1 ATTAAAATTTTATT-TAAGACAAATTAAAA
*
14309370 TTTAAAATTTTATTT
1 ATTAAAATTTTATTT
14309385 TTGTATAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
30 37 0.97
31 1 0.03
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.43
Consensus pattern (29 bp):
ATTAAAATTTTATTTAAGACAAATTAAAA
Found at i:14310706 original size:15 final size:16
Alignment explanation
Indices: 14310662--14310708 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
14310652 ATAATAAAAA
14310662 AATTTTATAATTTAA-
1 AATTTTATAATTTAAT
14310677 AATTTTCATAA--TAAT
1 AATTTT-ATAATTTAAT
14310692 AATTTT-TAATTTAAT
1 AATTTTATAATTTAAT
14310707 AA
1 AA
14310709 AATAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 3 0.11
14 3 0.11
15 18 0.64
16 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTTTATAATTTAAT
Found at i:14312033 original size:12 final size:12
Alignment explanation
Indices: 14312018--14312060 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
14312008 ATATATCAAT
*
14312018 TTGAATATATAA
1 TTGAATATAAAA
*
14312030 TTGAATTTAAAA
1 TTGAATATAAAA
*
14312042 TTAAATATAAAAA
1 TTGAATAT-AAAA
14312055 TTGAAT
1 TTGAAT
14312061 TCATTTTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (12 bp):
TTGAATATAAAA
Found at i:14316630 original size:28 final size:26
Alignment explanation
Indices: 14316599--14316650 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
14316589 AACTTAATAA
*
14316599 ATTTAACATATTAATAATATAAAAAAGT
1 ATTT-ACATATTAA-AAAATAAAAAAGT
*
14316627 ATTTATATATTAAAAAATAAAAAA
1 ATTTACATATTAAAAAATAAAAAA
14316651 ATTTAATACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 10 0.45
27 8 0.36
28 4 0.18
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (26 bp):
ATTTACATATTAAAAAATAAAAAAGT
Found at i:14318293 original size:13 final size:13
Alignment explanation
Indices: 14318275--14318299 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14318265 AACAATCTAA
14318275 AACATGACATGAT
1 AACATGACATGAT
14318288 AACATGACATGA
1 AACATGACATGA
14318300 ATACAATATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (13 bp):
AACATGACATGAT
Found at i:14322748 original size:13 final size:13
Alignment explanation
Indices: 14322730--14322755 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14322720 TAAGCTCATG
14322730 AGATATCGTAATA
1 AGATATCGTAATA
14322743 AGATATCGTAATA
1 AGATATCGTAATA
14322756 GGAAGATCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (13 bp):
AGATATCGTAATA
Found at i:14326724 original size:15 final size:15
Alignment explanation
Indices: 14326704--14326735 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
14326694 ATCAGGAGCT
14326704 TTCGTATTCATCCTA
1 TTCGTATTCATCCTA
14326719 TTCGTATTCATCCTA
1 TTCGTATTCATCCTA
14326734 TT
1 TT
14326736 TCATATTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.25, G:0.06, T:0.50
Consensus pattern (15 bp):
TTCGTATTCATCCTA
Found at i:14327934 original size:6 final size:6
Alignment explanation
Indices: 14327923--14327952 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
14327913 AGTTAGGGGA
14327923 ATTTTT ATTTTT ATTTTT ATTTTT -TTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A
14327953 AAAATGAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:14334978 original size:18 final size:18
Alignment explanation
Indices: 14334948--14334982 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
14334938 TAAAAGTATT
14334948 ATATTATTTTAATTTTAA
1 ATATTATTTTAATTTTAA
14334966 ATATT-TTTATAATTTTA
1 ATATTATTT-TAATTTTA
14334983 CTTAAGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATATTATTTTAATTTTAA
Found at i:14335007 original size:166 final size:168
Alignment explanation
Indices: 14334807--14335108 Score: 409
Period size: 166 Copynumber: 1.8 Consensus size: 168
14334797 GGGTAAGGAG
* * * * * * *
14334807 TATAATTTTATTTAAGTCGAATTTTGATCATAATTTTTTAAGTTTATGCTTAATTTGATCTTAAT
1 TATAATTTTACTTAAGTCGAACTTTGAACATAATTGTTTAAGCTTA-GATTAATTTGATC-TAAC
* * *
14334872 TACAAA-ATTATTATATTGATAATAATAT-TTTAATTAATTTTAATTAAAATC-TTT-AAAA-AT
64 TAAAAATATTATTATATTAATAAAAATATATTTAATTAATTTTAA-TAAAA-CATTTGAAAATAT
14334932 T-AATATTAAAAGTATTATATTATTTTAATTTTAAATATTTT
127 TAAATATTAAAAGTATTATATTATTTTAATTTTAAATATTTT
*
14334973 TATAATTTTACTTAAGTTGAACTTTGAACATAATTGTTTAAGCTTAGATTAATTTGATCTAACTA
1 TATAATTTTACTTAAGTCGAACTTTGAACATAATTGTTTAAGCTTAGATTAATTTGATCTAACTA
* *
14335038 AAAATATTATTGTATTAATAAAAATATATTTATTTAATTTTAATAAAACATTTGAAAATATTAAA
66 AAAATATTATTATATTAATAAAAATATATTTAATTAATTTTAATAAAACATTTGAAAATATTAAA
14335103 TATTAA
131 TATTAA
14335109 TTTTAAAATT
Statistics
Matches: 117, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
164 9 0.08
165 39 0.33
166 58 0.50
167 3 0.03
168 8 0.07
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (168 bp):
TATAATTTTACTTAAGTCGAACTTTGAACATAATTGTTTAAGCTTAGATTAATTTGATCTAACTA
AAAATATTATTATATTAATAAAAATATATTTAATTAATTTTAATAAAACATTTGAAAATATTAAA
TATTAAAAGTATTATATTATTTTAATTTTAAATATTTT
Found at i:14335352 original size:15 final size:16
Alignment explanation
Indices: 14335292--14335353 Score: 65
Period size: 15 Copynumber: 3.9 Consensus size: 16
14335282 AATTAATATA
*
14335292 ATAATAGTATTTTCATAT
1 ATAATATTATTTT-A-AT
14335310 ATAATATTA-TTTAAT
1 ATAATATTATTTTAAT
*
14335325 ATAATAATATTTTAAT
1 ATAATATTATTTTAAT
*
14335341 -TATTATTATTTTA
1 ATAATATTATTTTA
14335354 GTAATATGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
15 21 0.54
16 7 0.18
17 3 0.08
18 8 0.21
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (16 bp):
ATAATATTATTTTAAT
Found at i:14335581 original size:18 final size:17
Alignment explanation
Indices: 14335550--14335583 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14335540 TATCACTATT
*
14335550 TTTTTAATATTAATAAA
1 TTTTTAATAATAATAAA
14335567 TTTTTAATAAATAATAA
1 TTTTTAAT-AATAATAA
14335584 GCCTCACCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTTTAATAATAATAAA
Found at i:14340395 original size:21 final size:21
Alignment explanation
Indices: 14340348--14340395 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
14340338 TTTATATTAA
* *
14340348 ATATAATTTTAGATATAATAT
1 ATATAATTTTAGACATAAAAT
*
14340369 AAATAATTTTA-ACATAAAAT
1 ATATAATTTTAGACATAAAAT
14340389 GATATAA
1 -ATATAA
14340396 ATATATGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (21 bp):
ATATAATTTTAGACATAAAAT
Found at i:14340483 original size:19 final size:18
Alignment explanation
Indices: 14340458--14340557 Score: 56
Period size: 19 Copynumber: 4.9 Consensus size: 18
14340448 GTGACACGAG
14340458 ATAATTAATACAATTAAA
1 ATAATTAATACAATTAAA
*
14340476 ATTAATTAATATTCAACTAACACGA
1 A-TAATTAATA--CAA-TTA-A--A
* *
14340501 TATAATACAATACAATTAAT
1 -ATAAT-TAATACAATTAAA
* *
14340521 ATAATTATATACAAATAAT
1 ATAATTA-ATACAATTAAA
14340540 ATAATTAGATACAATTAA
1 ATAATTA-ATACAATTAA
14340558 TTACCCAAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
18 2 0.03
19 40 0.62
21 3 0.05
22 3 0.05
23 3 0.05
24 3 0.05
25 5 0.08
26 5 0.08
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (18 bp):
ATAATTAATACAATTAAA
Found at i:14340526 original size:9 final size:9
Alignment explanation
Indices: 14340509--14340558 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
14340499 GATATAATAC
14340509 AATACAATT
1 AATACAATT
*
14340518 AATATAATT
1 AATACAATT
*
14340527 ATATACAAAT
1 A-ATACAATT
*
14340537 AATATAATT
1 AATACAATT
14340546 AGATACAATT
1 A-ATACAATT
14340556 AAT
1 AAT
14340559 TACCCAAATG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
9 18 0.55
10 15 0.45
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (9 bp):
AATACAATT
Found at i:14340558 original size:19 final size:19
Alignment explanation
Indices: 14340510--14340558 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
14340500 ATATAATACA
*
14340510 ATACAATTAATATAATTAT
1 ATACAATTAATATAATTAG
*
14340529 ATACAAATAATATAATTAG
1 ATACAATTAATATAATTAG
14340548 ATACAATTAAT
1 ATACAATTAAT
14340559 TACCCAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (19 bp):
ATACAATTAATATAATTAG
Found at i:14342470 original size:64 final size:62
Alignment explanation
Indices: 14342369--14342737 Score: 191
Period size: 64 Copynumber: 5.8 Consensus size: 62
14342359 CCTAAAAAAA
* * * *
14342369 TTTTATGACATGATTATTCAAGGTATTTTTCACCAAAAATGTCTTCAATAATCTTTTCATAAAT
1 TTTTATGA-ATGATTACTCAAGGCATTTTTGA-CAAAAATGTCTTAAATAATCTTTTCATAAAT
** * *
14342433 TTTTATGACA-GAATTACTCAAGGCATTTTTTGACAAAAA-CACTTTAAATAATCTTTAACAAAA
1 TTTTATGA-ATG-ATTACTCAAGGCA-TTTTTGACAAAAATGTC-TTAAATAATCTTT-TCATAA
14342496 AT
61 AT
* * * * * * * *
14342498 TTTAATG-A-GGTTATTAAAGGCATTTTTAACAAAAAATGTCTTAAATAATCCTCTCATAACT
1 TTTTATGAATGATTACTCAAGGCATTTTTGAC-AAAAATGTCTTAAATAATCTTTTCATAAAT
* * * * ** *
14342559 TTTTAT-AATGCAATTACTTAAGGCATTTTTGGACAAACACGTCTTGAATAATC-TTAAAAAAAT
1 TTTTATGAATG--ATTACTCAAGGCATTTTT-GACAAAAATGTCTTAAATAATCTTTTCATAAAT
* * * ** * * ** *
14342622 TTTT-T-AATTGAGTTATTGAAGGTATTTTTGACAAAAAATACCTTTAATTATTCCCTT-ATATA
1 TTTTATGAA-TGA-TTACTCAAGGCATTTTTGAC-AAAAATGTC-TTAAATAATCTTTTCATAAA
14342684 T
62 T
* *
14342685 TTTTATG-ATGCGATTACTCAAGGCATTTTTAGACAAAAATATCCTAAATAATC
1 TTTTATGAAT--GATTACTCAAGGCATTTTT-GACAAAAATGTCTTAAATAATC
14342738 GTGAAAATTT
Statistics
Matches: 230, Mismatches: 54, Indels: 43
0.70 0.17 0.13
Matches are distributed among these distances:
61 22 0.10
62 49 0.21
63 39 0.17
64 95 0.41
65 25 0.11
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (62 bp):
TTTTATGAATGATTACTCAAGGCATTTTTGACAAAAATGTCTTAAATAATCTTTTCATAAAT
Found at i:14342555 original size:126 final size:127
Alignment explanation
Indices: 14342361--14342723 Score: 347
Period size: 126 Copynumber: 2.9 Consensus size: 127
14342351 AATAATCCCC
* * * * *
14342361 TAAAAAAATTTTATGACA-TGA-TTATTCAAGGTATTTTTCACCAAAAATGTCTTCAATAATCTT
1 TAAAAAAATTTT-T-A-ATTGAGTTATTAAAGGTATTTTTAACAAAAAATGTCTTAAATAATCCT
* *
14342424 TTCATAAATTTTTATGACAGAATTACTCAAGGCATTTTTTGACAAAAACAC-T-TTAAATAATCT
63 CTCATAAATTTTTATGACAGAATTACTCAAGGCATTTTTAGACAAAAACACGTCTTAAATAATC-
14342487 T
127 T
*
14342488 TAACAAAAA-TTTTAA-TGAGGTTATTAAAGGCATTTTTAACAAAAAATGTCTTAAATAATCCTC
1 TAA-AAAAATTTTTAATTGA-GTTATTAAAGGTATTTTTAACAAAAAATGTCTTAAATAATCCTC
* * * *
14342551 TCATAACTTTTTAT-A-ATGCAATTACTTAAGGCATTTTTGGAC--AAACACGTCTTGAATAATC
64 TCATAAATTTTTATGACA-G-AATTACTCAAGGCATTTTTAGACAAAAACACGTCTTAAATAATC
14342612 T
127 T
* * ** * *
14342613 TAAAAAAATTTTTTAATTGAGTTATTGAAGGTATTTTTGACAAAAAATACCTTTAATTATTCC-C
1 TAAAAAAA-TTTTTAATTGAGTTATTAAAGGTATTTTTAACAAAAAATGTC-TTAAATAATCCTC
* *
14342677 TTATATATTTTTATGATGC-G-ATTACTCAAGGCATTTTTAGACAAAAA
64 TCATAAATTTTTATGA--CAGAATTACTCAAGGCATTTTTAGACAAAAA
14342724 TATCCTAAAT
Statistics
Matches: 196, Mismatches: 23, Indels: 33
0.78 0.09 0.13
Matches are distributed among these distances:
124 16 0.08
125 8 0.04
126 144 0.73
127 19 0.10
128 9 0.05
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (127 bp):
TAAAAAAATTTTTAATTGAGTTATTAAAGGTATTTTTAACAAAAAATGTCTTAAATAATCCTCTC
ATAAATTTTTATGACAGAATTACTCAAGGCATTTTTAGACAAAAACACGTCTTAAATAATCT
Found at i:14342735 original size:126 final size:126
Alignment explanation
Indices: 14342361--14342783 Score: 341
Period size: 126 Copynumber: 3.4 Consensus size: 126
14342351 AATAATCCCC
* * * * * ** * *
14342361 TAAAAAAATTTTATGACA-TGA-TTATTCAAGGTATTTTTCACCAAAAATGTCTTCAATAATCTT
1 TAAAAAAATTTT-TTA-ATTGAGTTATTGAAGGCATTTTTAACAAAAAATACCTTAAATAATCCT
* * *
14342424 TTCATAAATTTTTATGACA-G-AATTACTCAAGGCATTTTTTGACAAAAACA-CTTTAAATAATC
64 CTCATAACTTTTTAT-A-ATGCAATTACTCAAGGCATTTTTAGACAAAAACATC-TTAAATAATC
14342486 TT
126 -T
* **
14342488 TAACAAAAA--TTTTAA-TGAGGTTATTAAAGGCATTTTTAACAAAAAATGTCTTAAATAATCCT
1 TAA-AAAAATTTTTTAATTGA-GTTATTGAAGGCATTTTTAACAAAAAATACCTTAAATAATCCT
* * * * *
14342550 CTCATAACTTTTTATAATGCAATTACTTAAGGCATTTTTGGACAAACACGTCTTGAATAATCT
64 CTCATAACTTTTTATAATGCAATTACTCAAGGCATTTTTAGACAAAAACATCTTAAATAATCT
* * * *
14342613 TAAAAAAATTTTTTAATTGAGTTATTGAAGGTATTTTTGACAAAAAATACCTTTAATTATTCC-C
1 TAAAAAAATTTTTTAATTGAGTTATTGAAGGCATTTTTAACAAAAAATACC-TTAAATAATCCTC
* * * * * *
14342677 TTATATA-TTTTTATGATGCGATTACTCAAGGCATTTTTAGACAAAAATATCCTAAATAATCG
65 TCATA-ACTTTTTATAATGCAATTACTCAAGGCATTTTTAGACAAAAACATCTTAAATAATCT
* * * *
14342739 T--GAAAATTTTTT-ATTGGGGTTATTGAAGGCGTTTTTCATCAAAAA
1 TAAAAAAATTTTTTAATT-GAGTTATTGAAGGCATTTTT-AACAAAAA
14342784 CACCTTTGAT
Statistics
Matches: 245, Mismatches: 38, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
123 3 0.01
124 37 0.15
125 14 0.06
126 169 0.69
127 17 0.07
128 5 0.02
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (126 bp):
TAAAAAAATTTTTTAATTGAGTTATTGAAGGCATTTTTAACAAAAAATACCTTAAATAATCCTCT
CATAACTTTTTATAATGCAATTACTCAAGGCATTTTTAGACAAAAACATCTTAAATAATCT
Found at i:14342980 original size:122 final size:121
Alignment explanation
Indices: 14342846--14343239 Score: 379
Period size: 124 Copynumber: 3.2 Consensus size: 121
14342836 AGCTAAGAAC
* *
14342846 ACATTCAGTAATCATTTTATAACTTTTTATGATGTGATTACTCAAGGTATTTTAAAAAAATGCCT
1 ACATTCAATAATCATTTTATAAATTTTTATGATGTGATTACTCAAGGTATTTTAAAAAAATGCCT
* * *
14342911 TGAATAATCCTAAAATTTTTTTTTAATGAGGTTAGTGAAGGCGTTT-TGATAAAAAAT
66 TGAATAATCCTAAAA-TTTTTTTTAATG-GATTATTGAAGGCGTTTATGGTAAAAAAT
* ** * * * * * * * *
14342968 ACTTTCAATAATCCCTTAAAAAATTTTTATTATGTGATTATTTAAGGCGTTTTTTGTAAAAAATA
1 ACATTCAATAATCATTTTATAAATTTTTATGATGTGATTACTCAA-G-GTATTTT-AAAAAAATG
* * * * *
14343033 CTTTGAATAATCC-AAAATTTTTTTTAATGTGATTATTAAAGGCGTTTCTGGTCAAAAAC
63 CCTTGAATAATCCTAAAATTTTTTTTAATG-GATTATTGAAGGCGTTTATGGTAAAAAAT
* * *
14343092 ACCTTCAATAATC-TTTTCATAAATTTTTGTGATGTGATTACTCAATGTATTTTTTACTAAAAAA
1 ACATTCAATAATCATTTT-ATAAATTTTTATGATGTGATTACTCAAGGTA--TTTTA--AAAAAA
*
14343156 -GCCTTGAATAAT--T-CAATTTTTTTTAATGGATTATTGAAGGCGTTTATGGTAAAAAAT
61 TGCCTTGAATAATCCTAAAATTTTTTTTAATGGATTATTGAAGGCGTTTATGGTAAAAAAT
* * **
14343213 GCATTCATTAATCACCTTATAAATTTT
1 ACATTCAATAATCATTTTATAAATTTT
14343240 AATTGGGTTA
Statistics
Matches: 217, Mismatches: 44, Indels: 23
0.76 0.15 0.08
Matches are distributed among these distances:
121 44 0.20
122 53 0.24
123 29 0.13
124 66 0.30
125 25 0.12
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (121 bp):
ACATTCAATAATCATTTTATAAATTTTTATGATGTGATTACTCAAGGTATTTTAAAAAAATGCCT
TGAATAATCCTAAAATTTTTTTTAATGGATTATTGAAGGCGTTTATGGTAAAAAAT
Found at i:14343042 original size:64 final size:61
Alignment explanation
Indices: 14342913--14343079 Score: 171
Period size: 64 Copynumber: 2.7 Consensus size: 61
14342903 AAATGCCTTG
* * * * *
14342913 AATAATCCTAAAATTTTTTTTTAATGAGGTTAGTGAAGGCG--TTTTGATAAAAAATACTTTC
1 AATAATCC-AAAA-TTTTTATTAATGTGATTATTAAAGGCGTTTTTTGATAAAAAATACTTTC
*
14342974 AATAATCCCTTAAAAAATTTTTATT-ATGTGATTATTTAAGGCGTTTTTTG-TAAAAAATACTTT
1 AATAAT-CC----AAAATTTTTATTAATGTGATTATTAAAGGCGTTTTTTGATAAAAAATACTTT
*
14343037 G
61 C
*
14343038 AATAATCCAAAATTTTTTTTAATGTGATTATTAAAGGCGTTT
1 AATAATCCAAAATTTTTATTAATGTGATTATTAAAGGCGTTT
14343080 CTGGTCAAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
59 11 0.12
60 20 0.22
61 6 0.07
62 2 0.02
63 16 0.18
64 26 0.29
65 9 0.10
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.44
Consensus pattern (61 bp):
AATAATCCAAAATTTTTATTAATGTGATTATTAAAGGCGTTTTTTGATAAAAAATACTTTC
Found at i:14343090 original size:60 final size:60
Alignment explanation
Indices: 14342900--14343104 Score: 198
Period size: 60 Copynumber: 3.3 Consensus size: 60
14342890 AGGTATTTTA
* * * * * * *
14342900 AAAAAATGCCTTGAATAATCCTAAAATTTTTTTTTAATGAGGTTAGTGAAGGCGTTTTGAT
1 AAAAAATACCTTCAATAATCCTAAAA-TTTTTTTTAATGTGATTATTAAAGGCGTTTTGGT
* * * *
14342961 AAAAAATACTTTCAATAATCCCTTAAAAAATTTTTATT-ATGTGATTATTTAAGGCGTTTTTTGT
1 AAAAAATACCTTCAATAAT-CC-T--AAAATTTTTTTTAATGTGATTATTAAAGGCG-TTTTGGT
* *
14343025 AAAAAATACTTTGAATAATCC-AAAATTTTTTTTAATGTGATTATTAAAGGCGTTTCTGGT
1 AAAAAATACCTTCAATAATCCTAAAATTTTTTTTAATGTGATTATTAAAGGCGTTT-TGGT
* *
14343085 CAAAAACACCTTCAATAATC
1 AAAAAATACCTTCAATAATC
14343105 TTTTCATAAA
Statistics
Matches: 119, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
59 14 0.12
60 36 0.30
61 16 0.13
62 2 0.02
63 17 0.14
64 30 0.25
65 4 0.03
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (60 bp):
AAAAAATACCTTCAATAATCCTAAAATTTTTTTTAATGTGATTATTAAAGGCGTTTTGGT
Found at i:14354628 original size:105 final size:105
Alignment explanation
Indices: 14354446--14354761 Score: 605
Period size: 105 Copynumber: 3.0 Consensus size: 105
14354436 ACTCCACTGT
*
14354446 CCCATCATCTCCACATTCATTGAAAAACTCACCCATTTCAATCTCCATCCACCCATCTCCTCTCT
1 CCCATCATCTCCACATTCATTGAAAAACTCACCCGTTTCAATCTCCATCCACCCATCTCCTCTCT
*
14354511 TTTGAGCTTGTTGGGGATCATTCTGTGGATGGTCTAGAAA
66 CTTGAGCTTGTTGGGGATCATTCTGTGGATGGTCTAGAAA
14354551 CCCATCATCTCCACATTCATTGAAAAACTCACCCGTTTCAATCTCCATCCACCCATCTCCTCTCT
1 CCCATCATCTCCACATTCATTGAAAAACTCACCCGTTTCAATCTCCATCCACCCATCTCCTCTCT
*
14354616 CTTGAGTTTGTTGGGGATCATTCTGTGGATGGTCTAGAAA
66 CTTGAGCTTGTTGGGGATCATTCTGTGGATGGTCTAGAAA
14354656 CCCATCATCTCCACATTCATTGAAAAACTCACCCGTTTCAATCTCCATCCACCCATCTCCTCTCT
1 CCCATCATCTCCACATTCATTGAAAAACTCACCCGTTTCAATCTCCATCCACCCATCTCCTCTCT
14354721 CTTGAGCTTGTTGGGGATCATTCTGTGGATGGTCTAGAAA
66 CTTGAGCTTGTTGGGGATCATTCTGTGGATGGTCTAGAAA
14354761 C
1 C
14354762 ACACTCCTCA
Statistics
Matches: 207, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 207 1.00
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.32
Consensus pattern (105 bp):
CCCATCATCTCCACATTCATTGAAAAACTCACCCGTTTCAATCTCCATCCACCCATCTCCTCTCT
CTTGAGCTTGTTGGGGATCATTCTGTGGATGGTCTAGAAA
Found at i:14356372 original size:29 final size:28
Alignment explanation
Indices: 14356308--14356373 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
14356298 ACTTTTTGTT
*
14356308 TAATAAAAATTTAATTGATAAAAATAAA
1 TAATAAAAATTTAATTAATAAAAATAAA
* * *
14356336 TATTTAAAAATTTAATTAATTATAATAAAA
1 TA-ATAAAAATTTAATTAATAAAAAT-AAA
14356366 TAATAAAA
1 TAATAAAA
14356374 TTTTGGGTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 2 0.06
29 24 0.77
30 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (28 bp):
TAATAAAAATTTAATTAATAAAAATAAA
Found at i:14361856 original size:17 final size:18
Alignment explanation
Indices: 14361834--14361873 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
14361824 TGAGTCATTA
14361834 TTTTTC-ATTATTTTGAT
1 TTTTTCTATTATTTTGAT
14361851 TTTTTCTATTATTTTGAT
1 TTTTTCTATTATTTTGAT
14361869 TTTTT
1 TTTTT
14361874 TCAAGCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.75
Consensus pattern (18 bp):
TTTTTCTATTATTTTGAT
Found at i:14365397 original size:23 final size:25
Alignment explanation
Indices: 14365371--14365428 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
14365361 TGAAATGACA
*
14365371 AGAAAATAATGAA-AAGAAAA-AAT
1 AGAAAAAAATGAAGAAGAAAACAAT
*
14365394 AGAAAGCAAAATGAAGATGAAAACAAT
1 AGAAA--AAAATGAAGAAGAAAACAAT
14365421 AGAAAAAA
1 AGAAAAAA
14365429 TACGGATGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 5 0.17
25 10 0.34
26 6 0.21
27 8 0.28
ACGTcount: A:0.71, C:0.03, G:0.16, T:0.10
Consensus pattern (25 bp):
AGAAAAAAATGAAGAAGAAAACAAT
Found at i:14371690 original size:5 final size:5
Alignment explanation
Indices: 14371680--14371704 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
14371670 TTTCGAGGTT
14371680 TTTTG TTTTG TTTTG TTTTG TTTTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG
14371705 CATTACCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
TTTTG
Found at i:14372143 original size:11 final size:11
Alignment explanation
Indices: 14372129--14372153 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14372119 TTCTTTTCGT
14372129 TTTTTGGTTTG
1 TTTTTGGTTTG
14372140 TTTTTGGTTTG
1 TTTTTGGTTTG
14372151 TTT
1 TTT
14372154 GGCATCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (11 bp):
TTTTTGGTTTG
Found at i:14374557 original size:14 final size:14
Alignment explanation
Indices: 14374538--14374564 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14374528 TAATTTAACA
14374538 AAAATAAAATAAAG
1 AAAATAAAATAAAG
14374552 AAAATAAAATAAA
1 AAAATAAAATAAA
14374565 ATTCAGGTTA
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:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (14 bp):
AAAATAAAATAAAG
Found at i:14375466 original size:15 final size:15
Alignment explanation
Indices: 14375446--14375476 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14375436 AATGATTTTG
14375446 AGTTTTATACTTTCA
1 AGTTTTATACTTTCA
*
14375461 AGTTTTATATTTTCA
1 AGTTTTATACTTTCA
14375476 A
1 A
14375477 AAGGAAAGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.55
Consensus pattern (15 bp):
AGTTTTATACTTTCA
Done.