Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 115 of 127
Found at i:21684901 original size:43 final size:43
Alignment explanation
Indices: 21684818--21685163 Score: 278
Period size: 43 Copynumber: 8.0 Consensus size: 43
21684808 AAAGTCATTG
* * *
21684818 AGCTTTATTTACTTTTCAAAAGTCGTTAAACTTTTGTTTAGAGA
1 AGCTTTATTTATTTTTC-AAAGTCGTTGAGCTTTTGTTTAGAGA
* *
21684862 AGCTTTATTTATTTTTCAAAGTTGTTGAGCTTTTATTTAGATG-
1 AGCTTTATTTATTTTTCAAAGTCGTTGAGCTTTTGTTTAGA-GA
* * *
21684905 AGCTTTATTTATTTTTTAAAGTCGTTGAGCTTATGTTTAGAGG
1 AGCTTTATTTATTTTTCAAAGTCGTTGAGCTTTTGTTTAGAGA
* *
21684948 AGCTTTATTTTATTTTTCAAAGTTGTTGAG-TCTCTGTTTAGA-A
1 AGCTTTA-TTTATTTTTCAAAGTCGTTGAGCT-TTTGTTTAGAGA
* * ** *
21684991 TAACTTTATTTATTTTTTCAAAGTCGTT-AGCCTCCGCTTAGATG-
1 -AGCTTTATTTA-TTTTTCAAAGTCGTTGAGCTTTTGTTTAGA-GA
* *
21685035 AG-TCTTATTTAGATTTT-AAAGTCGTTGAGCCTTTGTTTAGA-A
1 AGCT-TTATTTA-TTTTTCAAAGTCGTTGAGCTTTTGTTTAGAGA
* * * * * *
21685077 GAGCCTTATTTATTTTTTAAAGTCGTTAAGCTATTATTTAAAGAA
1 -AGCTTTATTTATTTTTCAAAGTCGTTGAGCTTTTGTTTAGAG-A
* * * *
21685122 AGC-TTATTTATTTTTTCAAAGTTGTTAAGCCTTTATTTAGAG
1 AGCTTTATTTA-TTTTTCAAAGTCGTTGAGCTTTTGTTTAGAG
21685164 GAGTTTTTAT
Statistics
Matches: 248, Mismatches: 36, Indels: 36
0.77 0.11 0.11
Matches are distributed among these distances:
42 15 0.06
43 137 0.55
44 95 0.38
45 1 0.00
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (43 bp):
AGCTTTATTTATTTTTCAAAGTCGTTGAGCTTTTGTTTAGAGA
Found at i:21684921 original size:115 final size:114
Alignment explanation
Indices: 21684702--21684936 Score: 303
Period size: 115 Copynumber: 2.1 Consensus size: 114
21684692 CTGGTTAGAA
* * *
21684702 GAGCTTTATTTACTTTTCAAAAATCGTTGAGCATTTATTTAGAGGAGCTTTATTTATTTTTCAAA
1 GAGCTTTATTTACTTTTCAAAAATCGTTAAACATTTATTTAGAGAAGCTTTATTTATTTTTCAAA
*
21684767 GTCGTTGAGCCTCTGTTTAAAGAAGCCTTATGTCATTTTTCAAAGTCATT
66 GTCGTTGAGCCTCTATTTAAAGAAGCCTTATGTCATTTTT-AAAGTCATT
* * *
21684817 GAGCTTTATTTACTTTTCAAAAGTCGTTAAACTTTTGTTTAGAGAAGCTTTATTTATTTTTCAAA
1 GAGCTTTATTTACTTTTCAAAAATCGTTAAACATTTATTTAGAGAAGCTTTATTTATTTTTCAAA
* * * * * * *
21684882 GTTGTTGAGCTTTTATTTAGATG-AGCTTTAT-TTATTTTTTAAAGTCGTT
66 GTCGTTGAGCCTCTATTTA-AAGAAGCCTTATGTCA-TTTTTAAAGTCATT
21684931 GAGCTT
1 GAGCTT
21684937 ATGTTTAGAG
Statistics
Matches: 104, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
114 16 0.15
115 86 0.83
116 2 0.02
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (114 bp):
GAGCTTTATTTACTTTTCAAAAATCGTTAAACATTTATTTAGAGAAGCTTTATTTATTTTTCAAA
GTCGTTGAGCCTCTATTTAAAGAAGCCTTATGTCATTTTTAAAGTCATT
Found at i:21684970 original size:87 final size:87
Alignment explanation
Indices: 21684816--21685162 Score: 343
Period size: 87 Copynumber: 4.0 Consensus size: 87
21684806 TCAAAGTCAT
** * *
21684816 TGAGCTTTATTTACTTTTCAAAAGTCGTTAAACTTTTGTTTAGAGAAGCTTTATTTA-TTTTTCA
1 TGAGCTTTATTTA-TTTTTTAAAGTCGTTAAGCTTATGTTTAGAGAAGCTTTATTTAGTTTTTCA
*
21684880 AAGTTGTTGAGCTTTTATTTAGA
65 AAGTTGTTGAGCCTTTATTTAGA
* *
21684903 TGAGCTTTATTTATTTTTTAAAGTCGTTGAGCTTATGTTTAGAGGAGCTTTATTTTA-TTTTTCA
1 TGAGCTTTATTTATTTTTTAAAGTCGTTAAGCTTATGTTTAGAGAAGCTTTA-TTTAGTTTTTCA
* * *
21684967 AAGTTGTTGAGTCTCTGTTTAGAA
65 AAGTTGTTGAGCCTTTATTTAG-A
* * ** * *
21684991 T-AACTTTATTTATTTTTTCAAAGTCGTT-AGCCTCCGCTTAGATG-AG-TCTTATTTAGATTTT
1 TGAGCTTTATTTATTTTTT-AAAGTCGTTAAGCTTATGTTTAGA-GAAGCT-TTATTTAGTTTTT
* *
21685052 -AAAGTCGTTGAGCCTTTGTTTAGA
63 CAAAGTTGTTGAGCCTTTATTTAGA
* * * * *
21685076 AGAGCCTTATTTATTTTTTAAAGTCGTTAAGC-TATTATTTAAAGAAAGC-TTATTTATTTTTTC
1 TGAGCTTTATTTATTTTTTAAAGTCGTTAAGCTTA-TGTTTAGAG-AAGCTTTATTTAGTTTTTC
*
21685139 AAAGTTGTTAAGCCTTTATTTAGA
64 AAAGTTGTTGAGCCTTTATTTAGA
21685163 GGAGTTTTTA
Statistics
Matches: 215, Mismatches: 32, Indels: 26
0.79 0.12 0.10
Matches are distributed among these distances:
85 12 0.06
86 91 0.42
87 100 0.47
88 12 0.06
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (87 bp):
TGAGCTTTATTTATTTTTTAAAGTCGTTAAGCTTATGTTTAGAGAAGCTTTATTTAGTTTTTCAA
AGTTGTTGAGCCTTTATTTAGA
Found at i:21684970 original size:130 final size:129
Alignment explanation
Indices: 21684817--21685167 Score: 381
Period size: 130 Copynumber: 2.7 Consensus size: 129
21684807 CAAAGTCATT
*
21684817 GAGCTTTATTTACTTTTCAAAAGTCGTTAAACTTTTGTTTAGAGAAGCTTTATTTA-TTTTTCAA
1 GAGCTTTATTTATTTTTC-AAAGTCGTTAAACTTTTGTTTAGAGAAGCTTTATTTATTTTTTCAA
* **
21684881 AGTTGTTGAGCTTTTATTTAGATGAG-CTTTATTTATTTTTTAAAGTCGTTGAG-CTTATGTTTA
65 AGTTGTT-AGCCTTTATTTAGATGAGTC-TTATTTAGATTTTAAAGTCGTTGAGCCTT-TGTTTA
*
21684944 GAG
127 GAA
* * * * *
21684947 GAGCTTTATTTTATTTTTCAAAGTTGTT-GAGTCTCTGTTTAGA-ATAACTTTATTTATTTTTTC
1 GAGCTTTA-TTTATTTTTCAAAGTCGTTAAACT-TTTGTTTAGAGA-AGCTTTATTTATTTTTTC
* ****
21685010 AAAGTCGTTAGCCTCCGCTTAGATGAGTCTTATTTAGATTTTAAAGTCGTTGAGCCTTTGTTTAG
63 AAAGTTGTTAGCCTTTATTTAGATGAGTCTTATTTAGATTTTAAAGTCGTTGAGCCTTTGTTTAG
21685075 AA
128 AA
* * * * * *
21685077 GAGCCTTATTTATTTTTTAAAGTCGTTAAGCTATTATTTAAAGAAAGC-TTATTTATTTTTTCAA
1 GAGCTTTATTTATTTTTCAAAGTCGTTAAACTTTTGTTTAGAG-AAGCTTTATTTATTTTTTCAA
*
21685141 AGTTGTTAAGCCTTTATTTAGAGGAGT
65 AGTTGTT-AGCCTTTATTTAGATGAGT
21685168 TTTTATGAAG
Statistics
Matches: 179, Mismatches: 32, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
129 48 0.27
130 103 0.58
131 28 0.16
ACGTcount: A:0.26, C:0.10, G:0.17, T:0.48
Consensus pattern (129 bp):
GAGCTTTATTTATTTTTCAAAGTCGTTAAACTTTTGTTTAGAGAAGCTTTATTTATTTTTTCAAA
GTTGTTAGCCTTTATTTAGATGAGTCTTATTTAGATTTTAAAGTCGTTGAGCCTTTGTTTAGAA
Found at i:21685209 original size:14 final size:14
Alignment explanation
Indices: 21685190--21685217 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21685180 TAAGTATGCT
21685190 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
21685204 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
21685218 AAGTATGTTG
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:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (14 bp):
TAAAAAAATAAAAA
Found at i:21686257 original size:25 final size:25
Alignment explanation
Indices: 21686229--21686282 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
21686219 AATAAATACT
*
21686229 AATTATCCAATGATGAAATTTTTA-A
1 AATTATCAAATGAT-AAATTTTTATA
* *
21686254 AATTTTCAAATGGTAAATTTTTATA
1 AATTATCAAATGATAAATTTTTATA
21686279 AATT
1 AATT
21686283 TTCTAGGTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (25 bp):
AATTATCAAATGATAAATTTTTATA
Found at i:21686299 original size:24 final size:25
Alignment explanation
Indices: 21686237--21686285 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
21686227 CTAATTATCC
*
21686237 AATGATGAAATTTTTAAAATTTTCA
1 AATGGTGAAATTTTTAAAATTTTCA
21686262 AATGGT-AAATTTTTATAAATTTTC
1 AATGGTGAAATTTTTA-AAATTTTC
21686286 TAGGTGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (25 bp):
AATGGTGAAATTTTTAAAATTTTCA
Found at i:21686709 original size:51 final size:51
Alignment explanation
Indices: 21686590--21686693 Score: 129
Period size: 51 Copynumber: 2.0 Consensus size: 51
21686580 TTCCAAAGAG
* * * *
21686590 AAATGAAAATTTTCTAAATAGACCAAAATAGTGAAAAATTTAGAAATTAAA
1 AAATAAAAAATTTCTAAATAGACCAAAATAGTAAAAAAATTAGAAATTAAA
* * *
21686641 AAATTAAAAAAATTCTAAATAG-CCCAAATGGTAAAAAAATTAGAAATTAAA
1 AAA-TAAAAAATTTCTAAATAGACCAAAATAGTAAAAAAATTAGAAATTAAA
21686692 AA
1 AA
21686694 GAAAAGATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 30 0.67
52 15 0.33
ACGTcount: A:0.60, C:0.07, G:0.09, T:0.25
Consensus pattern (51 bp):
AAATAAAAAATTTCTAAATAGACCAAAATAGTAAAAAAATTAGAAATTAAA
Found at i:21689882 original size:13 final size:14
Alignment explanation
Indices: 21689862--21689905 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
21689852 AATTTAATCT
21689862 TATTTATAATATTA
1 TATTTATAATATTA
*
21689876 T-TTTATACTATTA
1 TATTTATAATATTA
*
21689889 TATTTATAATCTTA
1 TATTTATAATATTA
21689903 TAT
1 TAT
21689906 GCCAAATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 12 0.46
14 14 0.54
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTTATAATATTA
Found at i:21695902 original size:2 final size:2
Alignment explanation
Indices: 21695895--21695921 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21695885 TGCGAGCATA
21695895 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
21695922 TTATGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:21698970 original size:2 final size:2
Alignment explanation
Indices: 21698963--21699002 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
21698953 CATCAAAACC
21698963 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21699003 AAGAAATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21700229 original size:31 final size:31
Alignment explanation
Indices: 21700191--21700258 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
21700181 AGAGAAATAA
* * * *
21700191 ATATATAATTTATATTTTAAAATTTTTAAAT
1 ATATATAAATTACACTTTAAAATTTTGAAAT
* *
21700222 ATATATAAATTACACTTTAAACTTTTGAATT
1 ATATATAAATTACACTTTAAAATTTTGAAAT
21700253 ATATAT
1 ATATAT
21700259 CATATTAATC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.50
Consensus pattern (31 bp):
ATATATAAATTACACTTTAAAATTTTGAAAT
Found at i:21700630 original size:21 final size:23
Alignment explanation
Indices: 21700604--21700646 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
21700594 TTTATGATAT
21700604 AAATAT-ATTT-TTTATTTTTTA
1 AAATATAATTTATTTATTTTTTA
21700625 AAATATCAATTTATTTATTTTT
1 AAATAT-AATTTATTTATTTTT
21700647 CAGAGTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
23 4 0.21
24 9 0.47
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (23 bp):
AAATATAATTTATTTATTTTTTA
Found at i:21701517 original size:23 final size:22
Alignment explanation
Indices: 21701459--21701530 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 22
21701449 TTTCGATATA
21701459 AAAATATCATAAT-TTAAAAAT
1 AAAATATCATAATATTAAAAAT
* *
21701480 AAAAT-TTATAAATATTAAAATT
1 AAAATATCAT-AATATTAAAAAT
*
21701502 TAAATATCATATATATTAAATAA-
1 AAAATATCATA-ATATTAAA-AAT
21701525 AAAATA
1 AAAATA
21701531 ATTACATCCG
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
20 3 0.08
21 8 0.20
22 12 0.30
23 16 0.40
24 1 0.03
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATATCATAATATTAAAAAT
Found at i:21702160 original size:28 final size:26
Alignment explanation
Indices: 21702102--21702160 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 26
21702092 ATTAAATAAA
*
21702102 TTTAAATATTAATTTTAATAAAATTT
1 TTTAAATATAAATTTTAATAAAATTT
* *
21702128 ATTAAATATAAATTTTGTATTAAAATTT
1 TTTAAATATAAA-TTT-TAATAAAATTT
21702156 TTTAA
1 TTTAA
21702161 TCATAATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 10 0.37
27 3 0.11
28 14 0.52
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
TTTAAATATAAATTTTAATAAAATTT
Found at i:21706420 original size:7 final size:7
Alignment explanation
Indices: 21706408--21706436 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
21706398 AAATGCATTA
21706408 ATTAATT
1 ATTAATT
21706415 ATTAATT
1 ATTAATT
21706422 ATTAATT
1 ATTAATT
21706429 ATTAATT
1 ATTAATT
21706436 A
1 A
21706437 GCCAATCGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATTAATT
Found at i:21707154 original size:29 final size:32
Alignment explanation
Indices: 21707122--21707188 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 32
21707112 ATTTTTTTGG
21707122 TTTT-TTTTAAGCTTTTA-TTTT-TTAAA-AAA
1 TTTTATTTTAA-CTTTTATTTTTATTAAATAAA
* *
21707151 TTTTATTTTTATTTTTATTTTTATTAAATAAA
1 TTTTATTTTAACTTTTATTTTTATTAAATAAA
21707183 TTTTAT
1 TTTTAT
21707189 AATAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 9 0.28
30 9 0.28
31 5 0.16
32 9 0.28
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (32 bp):
TTTTATTTTAACTTTTATTTTTATTAAATAAA
Found at i:21707160 original size:6 final size:6
Alignment explanation
Indices: 21707151--21707175 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21707141 TTTTAAAAAA
21707151 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
21707176 AAATAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:21707374 original size:39 final size:39
Alignment explanation
Indices: 21707320--21707398 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
21707310 TAGAACTTGG
*
21707320 ATCAGAATAAGGTTTTGAATGTTATGCTTTAGTCTTTGT
1 ATCAGAATAAAGTTTTGAATGTTATGCTTTAGTCTTTGT
*
21707359 ATCAGAATAAAGTTTTGAATGTTATGCTTTGGTCTTTGT
1 ATCAGAATAAAGTTTTGAATGTTATGCTTTAGTCTTTGT
21707398 A
1 A
21707399 GATATAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.46
Consensus pattern (39 bp):
ATCAGAATAAAGTTTTGAATGTTATGCTTTAGTCTTTGT
Found at i:21715448 original size:11 final size:11
Alignment explanation
Indices: 21715432--21715465 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
21715422 TCCATCTTTG
21715432 TACTTTTGACT
1 TACTTTTGACT
21715443 TACTTTTGACT
1 TACTTTTGACT
* *
21715454 TAATCTTGACT
1 TACTTTTGACT
21715465 T
1 T
21715466 TTGCATCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.21, C:0.18, G:0.09, T:0.53
Consensus pattern (11 bp):
TACTTTTGACT
Found at i:21716670 original size:51 final size:51
Alignment explanation
Indices: 21716615--21716752 Score: 139
Period size: 51 Copynumber: 2.8 Consensus size: 51
21716605 TTTGGGTATC
* *
21716615 ATTAAAGGTATCTTTTAATT-TAAAATGCCTTCAATATATC-ACGATGAGATT
1 ATTAAAGGCATCATTT-ATTATAAAATGCCTTCAATATA-CGACGATGAGATT
*
21716666 ATTAAAGGCGTCATTTATTATAAAATGCCTTCAATATACGACGATG-G-TT
1 ATTAAAGGCATCATTTATTATAAAATGCCTTCAATATACGACGATGAGATT
*
21716715 A-TAGAAGG---CATTTATTCATAAAAAAGCCTTCAATATAC
1 ATTA-AAGGCATCATTTATT-AT-AAAATGCCTTCAATATAC
21716753 CTTTACACTT
Statistics
Matches: 78, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
46 8 0.10
47 2 0.03
48 19 0.24
49 7 0.09
50 5 0.06
51 37 0.47
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (51 bp):
ATTAAAGGCATCATTTATTATAAAATGCCTTCAATATACGACGATGAGATT
Found at i:21721112 original size:36 final size:36
Alignment explanation
Indices: 21721062--21721148 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 36
21721052 AAACCAAATG
* * *
21721062 TTTTCTGGGTATAAATATACAATTGACAGCAAACGT
1 TTTTTTGGGCATAAATATACAATTGACAACAAACGT
* *
21721098 TTTTTTGGGCATAAATATATAATTGACAATAAACGT
1 TTTTTTGGGCATAAATATACAATTGACAACAAACGT
*
21721134 TTTTTTGGACATAAA
1 TTTTTTGGGCATAAA
21721149 CCTACAAATG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (36 bp):
TTTTTTGGGCATAAATATACAATTGACAACAAACGT
Found at i:21724592 original size:20 final size:21
Alignment explanation
Indices: 21724554--21724594 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
21724544 TATATATTAT
* *
21724554 TTTAATATAATTTTTAATATA
1 TTTAATATAAATTTAAATATA
21724575 TTTAA-ATAAATTTAAATATA
1 TTTAATATAAATTTAAATATA
21724595 AAATAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTAATATAAATTTAAATATA
Found at i:21724728 original size:11 final size:13
Alignment explanation
Indices: 21724703--21724734 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
21724693 AATAATATAT
21724703 ATTTAATATCTAA
1 ATTTAATATCTAA
21724716 ATTTAAT-TC-AA
1 ATTTAATATCTAA
21724727 ATTTAATA
1 ATTTAATA
21724735 AAAAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.50
12 2 0.11
13 7 0.39
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTTAATATCTAA
Found at i:21733034 original size:30 final size:30
Alignment explanation
Indices: 21732998--21733054 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
21732988 TTTCTTCTTC
21732998 TGAACACTAACTGAAAGTGGTTTGTCTCAA
1 TGAACACTAACTGAAAGTGGTTTGTCTCAA
21733028 TGAACACTAACTGAAAGTGGTTTGTCT
1 TGAACACTAACTGAAAGTGGTTTGTCT
21733055 ATCATGAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (30 bp):
TGAACACTAACTGAAAGTGGTTTGTCTCAA
Found at i:21750993 original size:26 final size:26
Alignment explanation
Indices: 21750957--21751048 Score: 93
Period size: 26 Copynumber: 3.5 Consensus size: 26
21750947 TAATTTGTAA
21750957 TAAT-TATTTTATAAATTATTGGATG
1 TAATATATTTTATAAATTATTGGATG
*
21750982 TAATATATTTTATTATACATAATT---TG
1 TAATATATTTTA-TA-A-ATTATTGGATG
21751008 TAATAATTATTTTATAAATTATTGGATG
1 TAAT-A-TATTTTATAAATTATTGGATG
*
21751036 CAATATATTTTAT
1 TAATATATTTTAT
21751049 TTTAATATAA
Statistics
Matches: 55, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
25 9 0.16
26 22 0.40
27 6 0.11
28 13 0.24
29 5 0.09
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (26 bp):
TAATATATTTTATAAATTATTGGATG
Found at i:21751024 original size:54 final size:54
Alignment explanation
Indices: 21750942--21751049 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
21750932 ATCATTTGAA
*
21750942 ATACATAATTTGTAATAATTATTTTATAAATTATTGGATGTAATATATTTTATT
1 ATACATAATTTGTAATAATTATTTTATAAATTATTGGATGCAATATATTTTATT
21750996 ATACATAATTTGTAATAATTATTTTATAAATTATTGGATGCAATATATTTTATT
1 ATACATAATTTGTAATAATTATTTTATAAATTATTGGATGCAATATATTTTATT
21751050 TTAATATAAG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (54 bp):
ATACATAATTTGTAATAATTATTTTATAAATTATTGGATGCAATATATTTTATT
Found at i:21751710 original size:2 final size:2
Alignment explanation
Indices: 21751703--21751739 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
21751693 TTAGAATGAA
21751703 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21751740 AAACCAACCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21752043 original size:21 final size:20
Alignment explanation
Indices: 21752019--21752070 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
21752009 TCTGAAATTA
21752019 ATAAAATATTTTTTTAAAAAT
1 ATAAAATATTTTTTT-AAAAT
*
21752040 ATAAAATATTATTTTTTAAAT
1 ATAAAATATT-TTTTTAAAAT
21752061 AT-AAATATTT
1 ATAAAATATTT
21752071 AAAAATATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 1 0.03
20 7 0.24
21 16 0.55
22 5 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAAAATATTTTTTTAAAAT
Found at i:21752104 original size:30 final size:30
Alignment explanation
Indices: 21752036--21752105 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
21752026 ATTTTTTTAA
* * *
21752036 AAATATAAAATATTATTTTTTAAATATAAAT
1 AAATA-AAAATATCATTATATAAATATAAAT
** *
21752067 ATTTAAAAATATCATTATATAAATATATAT
1 AAATAAAAATATCATTATATAAATATAAAT
21752097 AAATAAAAA
1 AAATAAAAA
21752106 ATTAAAAATA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (30 bp):
AAATAAAAATATCATTATATAAATATAAAT
Found at i:21764525 original size:60 final size:60
Alignment explanation
Indices: 21764452--21764568 Score: 216
Period size: 60 Copynumber: 1.9 Consensus size: 60
21764442 TAATGAGATG
*
21764452 GGAAGCTAATTGGCAACAAATGGCATCTTGAATGATTGTTTATCATGATCTTAAAGCTCA
1 GGAAGCTAATTGGCAACAAATGGCATATTGAATGATTGTTTATCATGATCTTAAAGCTCA
*
21764512 GGAAGCTAATTGGCAACAAATGGCATATTGAATTATTGTTTATCATGATCTTAAAGC
1 GGAAGCTAATTGGCAACAAATGGCATATTGAATGATTGTTTATCATGATCTTAAAGC
21764569 AAGGCACGGA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (60 bp):
GGAAGCTAATTGGCAACAAATGGCATATTGAATGATTGTTTATCATGATCTTAAAGCTCA
Found at i:21768135 original size:6 final size:7
Alignment explanation
Indices: 21768109--21768133 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21768099 CGCTAAAACG
21768109 TTTTTAT
1 TTTTTAT
21768116 TTTTTAT
1 TTTTTAT
21768123 TTTTTAT
1 TTTTTAT
21768130 TTTT
1 TTTT
21768134 ATATATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:21769525 original size:4 final size:4
Alignment explanation
Indices: 21769516--21769561 Score: 74
Period size: 4 Copynumber: 11.0 Consensus size: 4
21769506 TCAAAAAGTC
21769516 TAAA TAAA TAAA TAAAA TAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA T-AAA TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
21769562 GCTTGAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 32 0.80
5 8 0.20
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:21769535 original size:13 final size:12
Alignment explanation
Indices: 21769516--21769561 Score: 74
Period size: 13 Copynumber: 3.7 Consensus size: 12
21769506 TCAAAAAGTC
21769516 TAAATAAATAAA
1 TAAATAAATAAA
21769528 TAAAATAAATAAAA
1 T-AAATAAAT-AAA
21769542 TAAATAAATAAA
1 TAAATAAATAAA
21769554 TAAATAAA
1 TAAATAAA
21769562 GCTTGAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.38
13 16 0.50
14 4 0.12
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
TAAATAAATAAA
Found at i:21771692 original size:20 final size:21
Alignment explanation
Indices: 21771656--21771698 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
21771646 TTGTATTTTA
*
21771656 TTTATTTGTTTGTTTATTCAT
1 TTTATTTATTTGTTTATTCAT
21771677 TTTATTTATTTG-TTATTCAT
1 TTTATTTATTTGTTTATTCAT
21771697 TT
1 TT
21771699 GTATATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.72
Consensus pattern (21 bp):
TTTATTTATTTGTTTATTCAT
Found at i:21774626 original size:26 final size:24
Alignment explanation
Indices: 21774588--21774649 Score: 79
Period size: 26 Copynumber: 2.5 Consensus size: 24
21774578 AAATTTTTCT
**
21774588 TGAAAAATGATGAAAGAAGAAAAAAA
1 TGAAAAAAAATGAAAG-A-AAAAAAA
21774614 TGAAAAAAAATGAAAGAAAAAAAA
1 TGAAAAAAAATGAAAGAAAAAAAA
21774638 TGAAAGAAAAAT
1 TGAAA-AAAAAT
21774650 TTATAGGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 12 0.36
25 7 0.21
26 14 0.42
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (24 bp):
TGAAAAAAAATGAAAGAAAAAAAA
Found at i:21774634 original size:14 final size:14
Alignment explanation
Indices: 21774597--21774648 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
21774587 TTGAAAAATG
*
21774597 ATGAAAGAAGAAAA
1 ATGAAAGAAAAAAA
*
21774611 A--AATGAAAAAAA
1 ATGAAAGAAAAAAA
21774623 ATGAAAGAAAAAAA
1 ATGAAAGAAAAAAA
21774637 ATGAAAGAAAAA
1 ATGAAAGAAAAA
21774649 TTTATAGGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 10 0.30
14 23 0.70
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (14 bp):
ATGAAAGAAAAAAA
Found at i:21774967 original size:10 final size:10
Alignment explanation
Indices: 21774954--21774978 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
21774944 AAAATAATAA
21774954 AAAAAAAGAG
1 AAAAAAAGAG
21774964 AAAAAAAGAG
1 AAAAAAAGAG
21774974 AAAAA
1 AAAAA
21774979 GAGAAAAGTA
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:21776276 original size:17 final size:17
Alignment explanation
Indices: 21776196--21776277 Score: 58
Period size: 17 Copynumber: 4.8 Consensus size: 17
21776186 GAATGTGAAT
*
21776196 ATTTGAATTT-ATGCGA
1 ATTTGAATTTCTTGCGA
* **
21776212 ACTTGAATTTCTTGTAA
1 ATTTGAATTTCTTGCGA
** * *
21776229 ACCTGAATCTCTTGTGA
1 ATTTGAATTTCTTGCGA
*
21776246 ATCATTGAAGTTCTTGCGA
1 AT--TTGAATTTCTTGCGA
21776265 ATTTGAATTTCTT
1 ATTTGAATTTCTT
21776278 ACTAATATTT
Statistics
Matches: 50, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
16 9 0.18
17 28 0.56
19 13 0.26
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (17 bp):
ATTTGAATTTCTTGCGA
Found at i:21776318 original size:25 final size:25
Alignment explanation
Indices: 21776263--21776311 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
21776253 AAGTTCTTGC
*
21776263 GAATTTGAATTTCTTACTAATATTT
1 GAATTTGAATTTCTTACAAATATTT
*
21776288 GAATTTGAATTTCTTGCAAA-ATTT
1 GAATTTGAATTTCTTACAAATATTT
21776312 TGGATTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (25 bp):
GAATTTGAATTTCTTACAAATATTT
Found at i:21776337 original size:17 final size:17
Alignment explanation
Indices: 21776315--21776349 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
21776305 AAAATTTTGG
21776315 ATTTCTTGTAAACCTAA
1 ATTTCTTGTAAACCTAA
21776332 ATTTCTTGTAAACCTAA
1 ATTTCTTGTAAACCTAA
21776349 A
1 A
21776350 CCTTTTACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (17 bp):
ATTTCTTGTAAACCTAA
Found at i:21776864 original size:18 final size:19
Alignment explanation
Indices: 21776837--21776873 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
21776827 ATTCTTGTTA
*
21776837 TGAAACTTTGTGAA-TCTT
1 TGAAAATTTGTGAACTCTT
21776855 TGAAAATTTGTGAACTCTT
1 TGAAAATTTGTGAACTCTT
21776874 GATTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (19 bp):
TGAAAATTTGTGAACTCTT
Found at i:21778650 original size:22 final size:22
Alignment explanation
Indices: 21778608--21778650 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
21778598 TTTTGTAAAC
* *
21778608 TATATTTTTTTATGTATTTTGT
1 TATATTTATTTATGTAGTTTGT
21778630 TATATTTATTTACT-TAGTTTG
1 TATATTTATTTA-TGTAGTTTG
21778651 AAAATGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.67
Consensus pattern (22 bp):
TATATTTATTTATGTAGTTTGT
Found at i:21780907 original size:29 final size:31
Alignment explanation
Indices: 21780864--21780925 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 31
21780854 ATTTATAATA
* *
21780864 AAATATTATATTAAA-CTTTT-TTAAAATTT
1 AAATATTATAATAAATATTTTATTAAAATTT
* *
21780893 AAATATTTTAATAAATATTTTATTATAATTT
1 AAATATTATAATAAATATTTTATTAAAATTT
21780924 AA
1 AA
21780926 GGATTATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 13 0.48
30 4 0.15
31 10 0.37
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (31 bp):
AAATATTATAATAAATATTTTATTAAAATTT
Found at i:21785793 original size:34 final size:33
Alignment explanation
Indices: 21785743--21785806 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
21785733 GAGTTTGTAG
*
21785743 AAATTTTCAAAGATATAAATTTAAAAACTTTTT
1 AAATTTTCAAAGATATAAATTCAAAAACTTTTT
21785776 AAATTTTCTGAAA-ATATAAATTCAAAAACTT
1 AAATTTTC--AAAGATATAAATTCAAAAACTT
21785807 AAAGAGAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 8 0.29
34 17 0.61
35 3 0.11
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (33 bp):
AAATTTTCAAAGATATAAATTCAAAAACTTTTT
Found at i:21786631 original size:11 final size:11
Alignment explanation
Indices: 21786615--21786639 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21786605 TATTTGAATA
21786615 TATACCAAAAC
1 TATACCAAAAC
21786626 TATACCAAAAC
1 TATACCAAAAC
21786637 TAT
1 TAT
21786640 TCCTGCCAGT
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:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (11 bp):
TATACCAAAAC
Found at i:21794761 original size:14 final size:14
Alignment explanation
Indices: 21794742--21794771 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21794732 TTTCAAGAAT
*
21794742 GTTATGAACTGTTA
1 GTTATGAACTATTA
21794756 GTTATGAACTATTA
1 GTTATGAACTATTA
21794770 GT
1 GT
21794772 GCTAGATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (14 bp):
GTTATGAACTATTA
Found at i:21795038 original size:68 final size:68
Alignment explanation
Indices: 21794929--21795064 Score: 209
Period size: 68 Copynumber: 2.0 Consensus size: 68
21794919 AGTATTTGAG
* * * * * *
21794929 TACTTAATTATCCTTACATGAATTGCATTTAAGGTTTAATACAGGAGACAAAAACTAGAACAGAC
1 TACTTAACTATCCTTACATCAATTACATTTAAAGTTTAATACAAGAAACAAAAACTAGAACAGAC
21794994 TAA
66 TAA
*
21794997 TACTTAACTATCCTTACATCAATTACATTTAAAGTTTAATACAAGAAACAAAAACTAGAACCGAC
1 TACTTAACTATCCTTACATCAATTACATTTAAAGTTTAATACAAGAAACAAAAACTAGAACAGAC
21795062 TAA
66 TAA
21795065 CGCAAGAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.29
Consensus pattern (68 bp):
TACTTAACTATCCTTACATCAATTACATTTAAAGTTTAATACAAGAAACAAAAACTAGAACAGAC
TAA
Found at i:21798960 original size:20 final size:20
Alignment explanation
Indices: 21798935--21798992 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
21798925 ACTCTACCTG
*
21798935 ATTTATATATATTTTTTATT
1 ATTTATATATATTTTTAATT
*
21798955 ATTTATTTA-ATTTTATAATT
1 ATTTATATATATTTT-TAATT
21798975 ATTTATATAT-TTTTTAAT
1 ATTTATATATATTTTTAAT
21798993 ATATATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 9 0.27
20 24 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTATATATATTTTTAATT
Found at i:21798988 original size:38 final size:37
Alignment explanation
Indices: 21798940--21799011 Score: 117
Period size: 38 Copynumber: 1.9 Consensus size: 37
21798930 ACCTGATTTA
* *
21798940 TATATATTTTTTATTATTTATTTAATTTTATAATTATT
1 TATATATTTTTTAATATATATTTAATTTTA-AATTATT
21798978 TATATATTTTTTAATATATATTTAATTTTAAATT
1 TATATATTTTTTAATATATATTTAATTTTAAATT
21799012 TATATTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
37 4 0.12
38 28 0.88
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (37 bp):
TATATATTTTTTAATATATATTTAATTTTAAATTATT
Found at i:21799015 original size:18 final size:18
Alignment explanation
Indices: 21798958--21799017 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
21798948 TTTTATTATT
*
21798958 TATTTAATTTTATAATTATT
1 TATTTAATTTTA-AATT-TA
* * * *
21798978 TATATATTTTTTAATATA
1 TATTTAATTTTAAATTTA
21798996 TATTTAATTTTAAATTTA
1 TATTTAATTTTAAATTTA
21799014 TATT
1 TATT
21799018 AAAAATAATA
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
18 19 0.61
19 3 0.10
20 9 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTAATTTTAAATTTA
Found at i:21801503 original size:21 final size:22
Alignment explanation
Indices: 21801479--21801523 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
21801469 CCAAAACCAC
*
21801479 CAAAGGATGC-GTTTTCAAATG
1 CAAAGGATGCAGTTTCCAAATG
*
21801500 CAAAGTATGCAGTTTCCAAATG
1 CAAAGGATGCAGTTTCCAAATG
21801522 CA
1 CA
21801524 CCCATGCTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (22 bp):
CAAAGGATGCAGTTTCCAAATG
Found at i:21803051 original size:26 final size:27
Alignment explanation
Indices: 21803022--21803080 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 27
21803012 TGTCTTAAAA
21803022 TTATATTTTT-TAATTATTTAAAATTT
1 TTATATTTTTATAATTATTTAAAATTT
* * *
21803048 TTAT-TTTTTATGATTTTTTAAATTTT
1 TTATATTTTTATAATTATTTAAAATTT
21803074 TTATATT
1 TTATATT
21803081 AAAAATTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 5 0.18
26 21 0.75
27 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (27 bp):
TTATATTTTTATAATTATTTAAAATTT
Found at i:21803063 original size:23 final size:23
Alignment explanation
Indices: 21803016--21803063 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
21803006 GTTAGATGTC
*
21803016 TTAAAATTATATTTTTTAATTAT
1 TTAAAATTATATTTTTTAATGAT
*
21803039 TTAAAATTTTTATTTTTT-ATGAT
1 TTAAAA-TTATATTTTTTAATGAT
21803062 TT
1 TT
21803064 TTTAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
TTAAAATTATATTTTTTAATGAT
Found at i:21803576 original size:26 final size:27
Alignment explanation
Indices: 21803506--21803577 Score: 76
Period size: 26 Copynumber: 2.6 Consensus size: 27
21803496 AAAACTAGAT
*
21803506 AAATATAAAAATATTATATTTAAAAATTA
1 AAATAT-AAAATATTAT-TATAAAAATTA
* *
21803535 AAAAATAAAA-ACTTATTATAAATA-TA
1 AAATATAAAATA-TTATTATAAAAATTA
21803561 AAATATAAAATATTATT
1 AAATATAAAATATTATT
21803578 TATTTTAAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
26 16 0.43
27 8 0.22
28 8 0.22
29 5 0.14
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (27 bp):
AAATATAAAATATTATTATAAAAATTA
Found at i:21803606 original size:95 final size:98
Alignment explanation
Indices: 21803478--21803705 Score: 224
Period size: 98 Copynumber: 2.4 Consensus size: 98
21803468 TTTAGTTATT
*
21803478 TTATTTATTTTAAATTATAAAACTAG-ATAA-ATA-T-AAAA-ATATTATATT-TAAAAATTAAA
1 TTATTTATTTTAAACTATAAAACTAGAATAATATATTAAAAATATATTATATTCTAAAAATT--A
*
21803537 AAATAAAAACTTA-TTATAAATATAAAATATAAAATA
64 AAAT-AAAACTTATTTA-AAAAATAAAATATAAAATA
* * *
21803573 TTATTTATTTTAAACTATAGAATTGGTAA-AATATATTAAAAATATATTATATTCTAAAAATTAA
1 TTATTTATTTTAAACTATAAAACTAG-AATAATATATTAAAAATATATTATATTCTAAAAATTAA
* **
21803637 AATAAAACTTATTTAAAAAATAAAATTTTGAA-A
65 AATAAAACTTATTTAAAAAATAAAATATAAAATA
* * *
21803670 TTATTTA-TTAAAATTATAAAAACTAGAGAAAATATA
1 TTATTTATTTTAAACTAT-AAAACTAGA-ATAATATA
21803706 CAATTTTATT
Statistics
Matches: 109, Mismatches: 13, Indels: 19
0.77 0.09 0.13
Matches are distributed among these distances:
95 22 0.20
96 11 0.10
97 18 0.17
98 28 0.26
99 12 0.11
100 10 0.09
101 8 0.07
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (98 bp):
TTATTTATTTTAAACTATAAAACTAGAATAATATATTAAAAATATATTATATTCTAAAAATTAAA
ATAAAACTTATTTAAAAAATAAAATATAAAATA
Found at i:21812208 original size:17 final size:17
Alignment explanation
Indices: 21812183--21812254 Score: 75
Period size: 17 Copynumber: 4.6 Consensus size: 17
21812173 CATTATGATA
*
21812183 ATTTAATTATCAAAATG
1 ATTTTATTATCAAAATG
21812200 ATTTTATTATCAAAAT-
1 ATTTTATTATCAAAATG
* *
21812216 A----A-TACCAATATG
1 ATTTTATTATCAAAATG
21812228 ATTTTATTATCAAAATG
1 ATTTTATTATCAAAATG
21812245 ATTTTATTAT
1 ATTTTATTAT
21812255 TCATGATTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
11 7 0.16
12 2 0.05
16 2 0.05
17 33 0.75
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (17 bp):
ATTTTATTATCAAAATG
Found at i:21812566 original size:17 final size:16
Alignment explanation
Indices: 21812544--21812580 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
21812534 TATCTTCTAT
*
21812544 ATATAAAATATTAAAAA
1 ATATAAAACA-TAAAAA
21812561 ATATAAAACATAAAAA
1 ATATAAAACATAAAAA
21812577 ATAT
1 ATAT
21812581 TTTTAAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
ATATAAAACATAAAAA
Found at i:21817207 original size:25 final size:27
Alignment explanation
Indices: 21817157--21817209 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
21817147 TAAAAATTAA
*
21817157 TTAAAAATTCTTATATATATATATTTT
1 TTAAAAATTATTATATATATATATTTT
21817184 TTAAAAATTTATTA-ATA-ATA-ATTTT
1 TTAAAAA-TTATTATATATATATATTTT
21817209 T
1 T
21817210 CAACATCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 6 0.25
26 3 0.12
27 10 0.42
28 5 0.21
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (27 bp):
TTAAAAATTATTATATATATATATTTT
Found at i:21818497 original size:3 final size:3
Alignment explanation
Indices: 21818489--21818532 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
21818479 TTTTAAAATA
21818489 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
21818533 GACCCGGACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:21820104 original size:2 final size:2
Alignment explanation
Indices: 21820097--21820129 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
21820087 ACCAAGTGGC
21820097 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21820130 TAGAACACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21822545 original size:44 final size:44
Alignment explanation
Indices: 21822460--21822552 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
21822450 ATTTTTATCT
*
21822460 TAATTATGAAAATATTTAGTTTATCATAATTAATTAAAATTATTA
1 TAATTATGAAAATATTTA-TTTATCATAATTAACTAAAATTATTA
*
21822505 TAATTATGAAATTA-TT-TTTATACTATAATTAACTAAAATTATTA
1 TAATTATGAAAATATTTATTTAT-C-ATAATTAACTAAAATTATTA
21822549 TAAT
1 TAAT
21822553 ATCTTTTATC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
42 5 0.11
43 1 0.02
44 25 0.57
45 13 0.30
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (44 bp):
TAATTATGAAAATATTTATTTATCATAATTAACTAAAATTATTA
Found at i:21823011 original size:61 final size:58
Alignment explanation
Indices: 21822927--21823120 Score: 235
Period size: 60 Copynumber: 3.2 Consensus size: 58
21822917 CTCTTTTACC
* * * * *
21822927 ATAATTATGAAAATTTATTTTTATCATAATTAATTAAAATTATTATGATACCTTTCTTATT
1 ATAATTATAAAAATAT-TTTTTATCATAATTGATCAAAATTATTATAATA--TTTCTTATT
* *
21822988 ATAATTATAAAAATATCTCTTTATCATAATTGATCAAAATTATTATAATATTTTTTAATT
1 ATAATTATAAAAATAT-TTTTTATCATAATTGATCAAAATTATTATAATATTTCTT-ATT
* * * *
21823048 ATAATTACAAAATATATTTTTTATCATGATTGATCAAAATTATTATAATATCTCTTATC
1 ATAATTATAAAA-ATATTTTTTATCATAATTGATCAAAATTATTATAATATTTCTTATT
21823107 ATAATTATAAAAAT
1 ATAATTATAAAAAT
21823121 GAACTTACGA
Statistics
Matches: 116, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
58 2 0.02
59 18 0.16
60 49 0.42
61 47 0.41
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (58 bp):
ATAATTATAAAAATATTTTTTATCATAATTGATCAAAATTATTATAATATTTCTTATT
Found at i:21823029 original size:35 final size:33
Alignment explanation
Indices: 21822990--21823120 Score: 82
Period size: 35 Copynumber: 4.1 Consensus size: 33
21822980 TTCTTATTAT
21822990 AATTATAAAAATATCTCTTTATCATAATTGATCAA
1 AATTATAAAAATAT-TCTTTATCATAATT-ATCAA
* *
21823025 AATTATTATAATA-T-TTT-T--TAATTAT---
1 AATTATAAAAATATTCTTTATCATAATTATCAA
* * *
21823050 AATTACAAAATATATTTTTTATCATGATTGATCAA
1 AATTATAAAA-ATATTCTTTATCATAATT-ATCAA
* * *
21823085 AATTATTATAATA-TCTCTTATCATAATTATAAA
1 AATTATAAAAATATTCT-TTATCATAATTATCAA
21823118 AAT
1 AAT
21823121 GAACTTACGA
Statistics
Matches: 73, Mismatches: 12, Indels: 24
0.67 0.11 0.22
Matches are distributed among these distances:
25 7 0.10
26 3 0.04
27 1 0.01
28 5 0.07
29 6 0.08
31 5 0.07
32 5 0.07
33 10 0.14
34 13 0.18
35 18 0.25
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (33 bp):
AATTATAAAAATATTCTTTATCATAATTATCAA
Found at i:21823759 original size:20 final size:22
Alignment explanation
Indices: 21823736--21823787 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
21823726 ATAATTATTT
21823736 TATATAAAAATTTA-T-TTAAA
1 TATATAAAAATTTATTATTAAA
*
21823756 TATATTAAAA-TTATTATTAAA
1 TATATAAAAATTTATTATTAAA
*
21823777 AATATAAAAAT
1 TATATAAAAAT
21823788 AAAAAATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 3 0.12
20 10 0.38
21 13 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TATATAAAAATTTATTATTAAA
Found at i:21831703 original size:22 final size:23
Alignment explanation
Indices: 21831658--21831706 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
21831648 TTTTCATATT
*
21831658 AAATTTTATTAATATATTAATTA
1 AAATTTTATTAATATAATAATTA
*
21831681 AAATTTTATTAA-ATAATATTTA
1 AAATTTTATTAATATAATAATTA
21831703 AAAT
1 AAAT
21831707 AAATTTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AAATTTTATTAATATAATAATTA
Found at i:21831928 original size:241 final size:242
Alignment explanation
Indices: 21831529--21831994 Score: 837
Period size: 240 Copynumber: 1.9 Consensus size: 242
21831519 AATTTTAAAA
*
21831529 AAATTTAAAAATATATATTTATAAATATTTTTAATAAAAATATTTATAAAATTTTGTTGTTAAAT
1 AAATTTAAAAATATATATTTATAAATATTTTTAATAAAAATATTGATAAAATTTTGTTGTTAAAT
*
21831594 AAATATGATTTAAATTATAAATAATATTTTTAATAAATTTTTATATATTATTATTTTTCATATTA
66 AAAAATGATTTAAATTATAAATAATATTTTTAATAAATTTTTATATATTATTATTTTTCATATTA
21831659 AATTTTATTAATATATTAATTAAAA-TTTTATTAAATAATATTTAAAATAAATTTTTTCATAAAA
131 AATTTTATTAATATATTAATTAAAATTTTTATTAAATAATATTTAAAATAAATTTTTTCATAAAA
21831723 ATATTGATAAAATTTTTATAATCAAATAAATACAAATCAAATTTAAT
196 ATATTGATAAAATTTTTATAATCAAATAAATACAAATCAAATTTAAT
* * *
21831770 AAATTTATATATATAT-TTTATAAATATTTTTAATAAAAATATTGATAAAATTTTTTTGTTAAAT
1 AAATTTAAAAATATATATTTATAAATATTTTTAATAAAAATATTGATAAAATTTTGTTGTTAAAT
21831834 AAAAATGATTTAAATTATAAATAATATTTTTAATAAAATTTTTATATATTATTATTTTTCATATT
66 AAAAATGATTTAAATTATAAATAATATTTTTAAT-AAATTTTTATATATTATTATTTTTCATATT
* * *
21831899 AAATTTTATTAATATATTAATTTAAATTTTTATTAAATAATTTTTAAAATAATTTTTTTCATAAA
130 AAATTTTATTAATATATTAATTAAAATTTTTATTAAATAATATTTAAAATAAATTTTTTCATAAA
21831964 AATATTGATAAAATTTTTATAATCAAATAAA
195 AATATTGATAAAATTTTTATAATCAAATAAA
21831995 ATTAAATTTT
Statistics
Matches: 215, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
240 79 0.37
241 69 0.32
242 67 0.31
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (242 bp):
AAATTTAAAAATATATATTTATAAATATTTTTAATAAAAATATTGATAAAATTTTGTTGTTAAAT
AAAAATGATTTAAATTATAAATAATATTTTTAATAAATTTTTATATATTATTATTTTTCATATTA
AATTTTATTAATATATTAATTAAAATTTTTATTAAATAATATTTAAAATAAATTTTTTCATAAAA
ATATTGATAAAATTTTTATAATCAAATAAATACAAATCAAATTTAAT
Found at i:21831950 original size:12 final size:13
Alignment explanation
Indices: 21831923--21831955 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
21831913 TATTAATTTA
21831923 AATTTTTATTAAAT
1 AATTTTTA-TAAAT
21831937 AATTTTTA-AAAT
1 AATTTTTATAAAT
21831949 AATTTTT
1 AATTTTT
21831956 TTCATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
14 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
AATTTTTATAAAT
Found at i:21832054 original size:25 final size:25
Alignment explanation
Indices: 21832000--21832055 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
21831990 ATAAAATTAA
*
21832000 ATTTTATTAATCTATCTATTTAAAT
1 ATTTTATTAATATATCTATTTAAAT
* * *
21832025 TTTTTATTAATATTTTTA-TTAAAT
1 ATTTTATTAATATATCTATTTAAAT
21832049 GATTTTA
1 -ATTTTA
21832056 AAAAAAAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (25 bp):
ATTTTATTAATATATCTATTTAAAT
Found at i:21842936 original size:10 final size:10
Alignment explanation
Indices: 21842915--21843005 Score: 51
Period size: 10 Copynumber: 8.4 Consensus size: 10
21842905 ATATTATAAA
21842915 ATTAATAAATT
1 ATTAA-AAATT
21842926 ATTAAAAATT
1 ATTAAAAATT
21842936 ATT-AAAATT
1 ATTAAAAATT
* *
21842945 AATTATATA-T
1 -ATTAAAAATT
21842955 ATTAAATAATATT
1 ATT-AA-AA-ATT
*
21842968 TTTAAAAATAAAT
1 ATTAAAAAT---T
*
21842981 ATTAATAAATA
1 ATTAA-AAATT
21842992 ATTAAAAATT
1 ATTAAAAATT
21843002 ATTA
1 ATTA
21843006 TTTTAGCACT
Statistics
Matches: 62, Mismatches: 8, Indels: 21
0.68 0.09 0.23
Matches are distributed among these distances:
9 9 0.15
10 23 0.37
11 15 0.24
12 3 0.05
13 8 0.13
14 4 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:21848170 original size:3 final size:3
Alignment explanation
Indices: 21848162--21848206 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
21848152 TCCTAAACAT
21848162 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-A GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
21848207 GCCAAATGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:21855051 original size:3 final size:3
Alignment explanation
Indices: 21855045--21855084 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
21855035 GACAACAATT
21855045 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
21855085 CTGAACATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:21864533 original size:26 final size:27
Alignment explanation
Indices: 21864504--21864556 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
21864494 ACCATTGATA
21864504 TAATTTTAATAATTTTT-ATATAATTT
1 TAATTTTAATAATTTTTAATATAATTT
**
21864530 TAATTTTGGTAATTTTTAATATAATTT
1 TAATTTTAATAATTTTTAATATAATTT
21864557 AATAACATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (27 bp):
TAATTTTAATAATTTTTAATATAATTT
Found at i:21864597 original size:14 final size:14
Alignment explanation
Indices: 21864578--21864612 Score: 63
Period size: 13 Copynumber: 2.6 Consensus size: 14
21864568 ATACAATTTG
21864578 ATAATTTTTTTTAT
1 ATAATTTTTTTTAT
21864592 ATAA-TTTTTTTAT
1 ATAATTTTTTTTAT
21864605 ATAATTTT
1 ATAATTTT
21864613 GATAACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
ATAATTTTTTTTAT
Found at i:21864750 original size:21 final size:22
Alignment explanation
Indices: 21864704--21864759 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
21864694 TTTAATAATC
*
21864704 ATTGATACAATTTTAGTAACTT
1 ATTGATACAATTTTAGCAACTT
21864726 -TTGATA-AATTTTAGCAA-TAT
1 ATTGATACAATTTTAGCAACT-T
*
21864746 ATTGATATAATTTT
1 ATTGATACAATTTT
21864760 GTTAATCAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.03
20 11 0.37
21 12 0.40
22 6 0.20
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (22 bp):
ATTGATACAATTTTAGCAACTT
Found at i:21864922 original size:21 final size:21
Alignment explanation
Indices: 21864896--21864970 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
21864886 GGTGACTTTG
21864896 ATATAATTTTAATAACTTATA
1 ATATAATTTTAATAACTTATA
* * *
21864917 ATATAATTTTGATAA-TTGTT
1 ATATAATTTTAATAACTTATA
*
21864937 ATACAATTTTAATAATCTTA-A
1 ATATAATTTTAATAA-CTTATA
21864958 ATATAATTTTAAT
1 ATATAATTTTAAT
21864971 TATGTAATAT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.36
21 26 0.59
22 2 0.05
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (21 bp):
ATATAATTTTAATAACTTATA
Found at i:21864982 original size:21 final size:22
Alignment explanation
Indices: 21864896--21864987 Score: 72
Period size: 21 Copynumber: 4.5 Consensus size: 22
21864886 GGTGACTTTG
*
21864896 ATATAATTTTAATAA-C-TTAT
1 ATATAATTTTAATAATCGTAAT
* *
21864916 AATATAATTTTGATAATTGT--T
1 -ATATAATTTTAATAATCGTAAT
* *
21864937 ATACAATTTTAATAATCTTAA-
1 ATATAATTTTAATAATCGTAAT
*
21864958 ATATAATTTTAATTAT-GTAAT
1 ATATAATTTTAATAATCGTAAT
21864979 ATAT-ATTTT
1 ATATAATTTT
21864988 CATTTTATAA
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
20 23 0.40
21 33 0.58
23 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (22 bp):
ATATAATTTTAATAATCGTAAT
Found at i:21864987 original size:41 final size:41
Alignment explanation
Indices: 21864896--21864987 Score: 116
Period size: 41 Copynumber: 2.2 Consensus size: 41
21864886 GGTGACTTTG
* *
21864896 ATATAATTTTAATAACTTATAATATAATTTTGATAATTGTT
1 ATATAATTTTAATAACTTATAATATAATTTTAATAATTGTA
* *
21864937 ATACAATTTTAATAATCTTA-AATATAATTTTAATTA-TGTA
1 ATATAATTTTAATAA-CTTATAATATAATTTTAATAATTGTA
21864977 ATATATATTTT
1 ATATA-ATTTT
21864988 CATTTTATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
40 7 0.16
41 33 0.75
42 4 0.09
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (41 bp):
ATATAATTTTAATAACTTATAATATAATTTTAATAATTGTA
Found at i:21866821 original size:1 final size:1
Alignment explanation
Indices: 21866815--21866843 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
21866805 AATTGTATGC
21866815 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
21866844 CAGGCAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:21868675 original size:22 final size:21
Alignment explanation
Indices: 21868640--21868681 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
21868630 ATGATCTTAG
21868640 TATTTTTCATGAAGATAGTCA
1 TATTTTTCATGAAGATAGTCA
* *
21868661 TATTTATTCCTGAAGTTAGTC
1 TATTT-TTCATGAAGATAGTC
21868682 TAGGTGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (21 bp):
TATTTTTCATGAAGATAGTCA
Found at i:21872014 original size:22 final size:25
Alignment explanation
Indices: 21871980--21872028 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 25
21871970 TTTGTTATTA
21871980 ATAATATATTATTTATAAATA-AAT
1 ATAATATATTATTTATAAATATAAT
*
21872004 ATAATA-A-TATTTATTAATATAAT
1 ATAATATATTATTTATAAATATAAT
21872027 AT
1 AT
21872029 TTATATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 11 0.48
23 6 0.26
24 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATAATATATTATTTATAAATATAAT
Found at i:21872027 original size:15 final size:16
Alignment explanation
Indices: 21872007--21872038 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
21871997 AATAAATATA
21872007 ATAATATTTAT-TAAT
1 ATAATATTTATATAAT
21872022 ATAATATTTATATAAT
1 ATAATATTTATATAAT
21872038 A
1 A
21872039 AAAATATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAATATTTATATAAT
Found at i:21872029 original size:40 final size:36
Alignment explanation
Indices: 21871981--21872066 Score: 111
Period size: 37 Copynumber: 2.4 Consensus size: 36
21871971 TTGTTATTAA
* *
21871981 TAATATATTATTTATA-AATAAATATAATAATATTTAT
1 TAATATAATATTTATATAATAAAAAT-ATAAT-TTTAT
*
21872018 TAATATAATATTTATATAATAAAAATATTATTTTAT
1 TAATATAATATTTATATAATAAAAATATAATTTTAT
*
21872054 TAATATATTATTT
1 TAATATAATATTT
21872067 GTAATATCAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 17 0.39
37 19 0.43
38 8 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (36 bp):
TAATATAATATTTATATAATAAAAATATAATTTTAT
Found at i:21872061 original size:16 final size:17
Alignment explanation
Indices: 21871981--21872066 Score: 59
Period size: 20 Copynumber: 4.8 Consensus size: 17
21871971 TTGTTATTAA
21871981 TAATATATTATTTATAAAT
1 TAATATATTATTTAT--AT
* *
21872000 AAATATAATAATATT-TAT
1 TAATAT-ATTAT-TTATAT
*
21872018 TAATATAATATTTATAT
1 TAATATATTATTTATAT
*
21872035 AATAAAAATATTATTT-TAT
1 --T-AATATATTATTTATAT
21872054 TAATATATTATTT
1 TAATATATTATTT
21872067 GTAATATCAC
Statistics
Matches: 53, Mismatches: 8, Indels: 15
0.70 0.11 0.20
Matches are distributed among these distances:
16 13 0.25
17 7 0.13
18 7 0.13
19 9 0.17
20 15 0.28
21 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATATATTATTTATAT
Found at i:21872351 original size:28 final size:29
Alignment explanation
Indices: 21872311--21872365 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
21872301 TGAGAAAATG
* *
21872311 TTTTTTATTTTTACTTT-TTAAAAAATAA
1 TTTTTAATTTTTAATTTCTTAAAAAATAA
21872339 TTTTTAATTTTTAATTTCTTAAAAAAT
1 TTTTTAATTTTTAATTTCTTAAAAAAT
21872366 GTATTTAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (29 bp):
TTTTTAATTTTTAATTTCTTAAAAAATAA
Found at i:21872372 original size:28 final size:27
Alignment explanation
Indices: 21872305--21872372 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 27
21872295 TTGGTTTGAG
* *
21872305 AAAATGTTTTTTATTTTTACTTTTTAA
1 AAAATGTTTTTAATTTTTAATTTTTAA
*
21872332 AAAATAATTTTTAATTTTTAATTTCTTAA
1 AAAAT-GTTTTTAATTTTTAATTT-TTAA
*
21872361 AAAATGTATTTA
1 AAAATGTTTTTA
21872373 GCAAGCGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 5 0.15
28 20 0.59
29 9 0.26
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (27 bp):
AAAATGTTTTTAATTTTTAATTTTTAA
Found at i:21881727 original size:39 final size:39
Alignment explanation
Indices: 21881678--21881753 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
21881668 TCGGGCTTGA
* *
21881678 AGGATTTGGTTGGATGTTTTGGACTTGAAAGGGAGTTAG
1 AGGATCTGGTTGGATGTTTTGGACGTGAAAGGGAGTTAG
21881717 AGGATCTGGTTGGATGTTTTGGACGTGAAAGGGAGTT
1 AGGATCTGGTTGGATGTTTTGGACGTGAAAGGGAGTT
21881754 TGAGAAGTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.22, C:0.04, G:0.39, T:0.34
Consensus pattern (39 bp):
AGGATCTGGTTGGATGTTTTGGACGTGAAAGGGAGTTAG
Found at i:21893693 original size:13 final size:13
Alignment explanation
Indices: 21893665--21893701 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
21893655 ATAACTGCAT
*
21893665 AAATACTTAAAGAG
1 AAATA-TTAAAAAG
21893679 AAATATTAAAAAG
1 AAATATTAAAAAG
21893692 AAATATTAAA
1 AAATATTAAA
21893702 GGAAATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.24
Consensus pattern (13 bp):
AAATATTAAAAAG
Found at i:21896205 original size:33 final size:33
Alignment explanation
Indices: 21896168--21896232 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
21896158 AAAAATAAAT
21896168 TGCTGATTATTCTTTGATTAATGGATAAAGTTA
1 TGCTGATTATTCTTTGATTAATGGATAAAGTTA
21896201 TGCTGATTATTCTTTGATTAATGGATAAAGTT
1 TGCTGATTATTCTTTGATTAATGGATAAAGTT
21896233 TTTCTTTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.46
Consensus pattern (33 bp):
TGCTGATTATTCTTTGATTAATGGATAAAGTTA
Found at i:21907964 original size:2 final size:2
Alignment explanation
Indices: 21907957--21908025 Score: 102
Period size: 2 Copynumber: 34.5 Consensus size: 2
21907947 AAGTAGGAAC
* * *
21907957 TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TC TA TA TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
21907999 TC TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
21908026 CAATTTACAT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21911345 original size:15 final size:15
Alignment explanation
Indices: 21911325--21911353 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
21911315 GTTGAAGAAA
21911325 TAATCTTGTCTCATG
1 TAATCTTGTCTCATG
21911340 TAATCTTGTCTCAT
1 TAATCTTGTCTCAT
21911354 AATCACACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.48
Consensus pattern (15 bp):
TAATCTTGTCTCATG
Found at i:21914860 original size:2 final size:2
Alignment explanation
Indices: 21914855--21914892 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
21914845 AAAAGCTCGT
21914855 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21914893 AGAGGGACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21919342 original size:22 final size:22
Alignment explanation
Indices: 21919303--21919352 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
21919293 TTATGTTACA
**
21919303 TAATTATATTATTGAAAATTTT
1 TAATTATATTATTGAAAATAAT
*
21919325 TAATTAT-TTATTATAAAATAAT
1 TAATTATATTATT-GAAAATAAT
21919347 TAATTA
1 TAATTA
21919353 ACTTATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TAATTATATTATTGAAAATAAT
Found at i:21919363 original size:22 final size:22
Alignment explanation
Indices: 21919324--21919368 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
21919314 TTGAAAATTT
*
21919324 TTAATTATTTATTATAAAATAA
1 TTAATTACTTATTATAAAATAA
*
21919346 TTAATTAACTTATT-TAAATTAA
1 TTAATT-ACTTATTATAAAATAA
21919368 T
1 T
21919369 ATTCACCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAATTACTTATTATAAAATAA
Found at i:21920972 original size:13 final size:13
Alignment explanation
Indices: 21920954--21920978 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21920944 TTGGTTCAAA
21920954 AATTTAAAATTTC
1 AATTTAAAATTTC
21920967 AATTTAAAATTT
1 AATTTAAAATTT
21920979 TGAATTCAAA
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:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
AATTTAAAATTTC
Found at i:21924162 original size:14 final size:14
Alignment explanation
Indices: 21924132--21924172 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
21924122 TTTAATATAA
21924132 ATATAAAATTAAAT
1 ATATAAAATTAAAT
21924146 ATATATAAA-T-AAT
1 ATATA-AAATTAAAT
21924159 -TATAAAATTAAAT
1 ATATAAAATTAAAT
21924172 A
1 A
21924173 AATACTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
11 3 0.13
12 5 0.22
13 6 0.26
14 6 0.26
15 3 0.13
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATATAAAATTAAAT
Found at i:21924173 original size:20 final size:19
Alignment explanation
Indices: 21924129--21924187 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
21924119 ATTTTTAATA
*
21924129 TAAATATAA-AATTAAATA-
1 TAAATA-AATAATTAAAAAT
*
21924147 TATATAAATAATTATAAAAT
1 TAAATAAATAATTA-AAAAT
*
21924167 TAAATAAATACTTAAAAAT
1 TAAATAAATAATTAAAAAT
21924186 TA
1 TA
21924188 TTTTTATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
17 2 0.06
18 10 0.29
19 10 0.29
20 12 0.35
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAATAAATAATTAAAAAT
Found at i:21930062 original size:17 final size:18
Alignment explanation
Indices: 21930035--21930071 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
21930025 CAATTATATT
21930035 AAAAATAATTT-AAAATAA
1 AAAAATAATTTCAAAA-AA
21930053 AAAAAT-ATTTCAAAAAA
1 AAAAATAATTTCAAAAAA
21930070 AA
1 AA
21930072 GGTTTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAATAATTTCAAAAAA
Found at i:21930644 original size:2 final size:2
Alignment explanation
Indices: 21930639--21930676 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
21930629 AAAAGCTCGT
21930639 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21930677 AGAGGACTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21935202 original size:22 final size:22
Alignment explanation
Indices: 21935163--21935212 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
21935153 ATTATGTACA
**
21935163 TAATTATATTATTGAAAATTTT
1 TAATTATATTATTGAAAATAAT
*
21935185 TAATTAT-TTATTATAAAATAAT
1 TAATTATATTATT-GAAAATAAT
21935207 TAATTA
1 TAATTA
21935213 ACTTATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TAATTATATTATTGAAAATAAT
Found at i:21935223 original size:22 final size:22
Alignment explanation
Indices: 21935184--21935228 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
21935174 TTGAAAATTT
*
21935184 TTAATTATTTATTATAAAATAA
1 TTAATTACTTATTATAAAATAA
*
21935206 TTAATTAACTTATT-TAAATTAA
1 TTAATT-ACTTATTATAAAATAA
21935228 T
1 T
21935229 ATTCACCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAATTACTTATTATAAAATAA
Found at i:21940010 original size:6 final size:6
Alignment explanation
Indices: 21939999--21940032 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
21939989 TATTATTTTC
* *
21939999 AATATA AATATA AAAATA AATATA TATATA AATA
1 AATATA AATATA AATATA AATATA AATATA AATA
21940033 ATTATAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:21940031 original size:16 final size:16
Alignment explanation
Indices: 21940006--21940053 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
21939996 TTCAATATAA
*
21940006 ATATAAAAATAAATAT
1 ATATATAAATAAATAT
*
21940022 ATATATAAATAATTAT
1 ATATATAAATAAATAT
*
21940038 A-AAATTAAATAAATAT
1 ATATA-TAAATAAATAT
21940054 TTAAAAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 2 0.07
16 25 0.93
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATATATAAATAAATAT
Found at i:21940038 original size:12 final size:12
Alignment explanation
Indices: 21940000--21940053 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
21939990 ATTATTTTCA
*
21940000 ATATAAATATAA
1 ATATAAATATAT
*
21940012 AAATAAATATAT
1 ATATAAATATAT
21940024 ATATAAATA-AT
1 ATATAAATATAT
21940035 -TATAAA-AT-T
1 ATATAAATATAT
*
21940044 AAATAAATAT
1 ATATAAATAT
21940054 TTAAAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
9 2 0.06
10 11 0.31
11 4 0.11
12 18 0.51
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATATAAATATAT
Found at i:21940038 original size:28 final size:28
Alignment explanation
Indices: 21940002--21940064 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
21939992 TATTTTCAAT
* *
21940002 ATAAATATAAAAATAAATATATATATAA
1 ATAATTATAAAAATAAATAAATATATAA
* *
21940030 ATAATTATAAAATTAAATAAATATTTAA
1 ATAATTATAAAAATAAATAAATATATAA
21940058 A-AATTAT
1 ATAATTAT
21940065 TTTTATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 6 0.19
28 25 0.81
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (28 bp):
ATAATTATAAAAATAAATAAATATATAA
Found at i:21940062 original size:19 final size:20
Alignment explanation
Indices: 21940026--21940063 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21940016 AAATATATAT
21940026 ATAAATAATTATAAAATTAA
1 ATAAATAATTATAAAATTAA
*
21940046 ATAAATATTTA-AAAATTA
1 ATAAATAATTATAAAATTA
21940064 TTTTTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATAAATAATTATAAAATTAA
Found at i:21941298 original size:31 final size:31
Alignment explanation
Indices: 21941263--21941330 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
21941253 ATATATTATC
* *
21941263 AGTAAATAAAATGATAAT-ATCTTATTAATGA
1 AGTAAATAAAATAAT-ATCATCTTAATAATGA
* *
21941294 AGTAAATCAAATAATATCATTTTAATAATGA
1 AGTAAATAAAATAATATCATCTTAATAATGA
21941325 A-TAAAT
1 AGTAAAT
21941331 TTTTAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 7 0.22
31 25 0.78
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.35
Consensus pattern (31 bp):
AGTAAATAAAATAATATCATCTTAATAATGA
Found at i:21948345 original size:2 final size:2
Alignment explanation
Indices: 21948338--21948363 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21948328 AATGTTCTTC
21948338 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
21948364 TTTCTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:21952530 original size:13 final size:13
Alignment explanation
Indices: 21952512--21952536 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21952502 TAATATTTAA
21952512 AAATTAATAAATC
1 AAATTAATAAATC
21952525 AAATTAATAAAT
1 AAATTAATAAAT
21952537 TTTAAATTTA
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATTAATAAATC
Found at i:21952541 original size:30 final size:29
Alignment explanation
Indices: 21952490--21952584 Score: 86
Period size: 30 Copynumber: 3.1 Consensus size: 29
21952480 TAATATATAA
21952490 AAATAAAATTAAT-AATATTTAAAAATTAAT
1 AAAT-AAATTAATAAAT-TTTAAAAATTAAT
*
21952520 AAATCAAATTAATAAATTTT-AAATTTATAT
1 AAAT-AAATTAATAAATTTTAAAAATTA-AT
*
21952550 AAGATAAATTTAAATTAAATTTTAAAAATTTAT
1 AA-ATAAA-TT-AA-TAAATTTTAAAAATTAAT
21952583 AA
1 AA
21952585 TATTATACAA
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
29 6 0.11
30 22 0.41
31 7 0.13
32 2 0.04
33 12 0.22
34 5 0.09
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (29 bp):
AAATAAATTAATAAATTTTAAAAATTAAT
Found at i:21953017 original size:17 final size:16
Alignment explanation
Indices: 21952990--21953021 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
21952980 AAGATGAACG
21952990 ATTAAAATGATATTTT
1 ATTAAAATGATATTTT
21953006 ATTAATAATGATATTT
1 ATTAA-AATGATATTT
21953022 GGTTTGAATT
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:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTAAAATGATATTTT
Found at i:21953509 original size:21 final size:21
Alignment explanation
Indices: 21953484--21953523 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21953474 CTTAAATGAC
*
21953484 AAATAACATTATTTTTTAAAA
1 AAATAACATAATTTTTTAAAA
*
21953505 AAATAAGATAATTTTTTAA
1 AAATAACATAATTTTTTAA
21953524 TTACAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (21 bp):
AAATAACATAATTTTTTAAAA
Found at i:21953531 original size:23 final size:21
Alignment explanation
Indices: 21953482--21953538 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
21953472 TTCTTAAATG
* *
21953482 ACAAATAACATTATTTTTTAA
1 ACAAATAAGATAATTTTTTAA
*
21953503 AAAAATAAGATAATTTTTTAA
1 ACAAATAAGATAATTTTTTAA
*
21953524 TTACAAATTAGATAA
1 --ACAAATAAGATAA
21953539 ATTTAAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 18 0.62
23 11 0.38
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.39
Consensus pattern (21 bp):
ACAAATAAGATAATTTTTTAA
Found at i:21953661 original size:20 final size:20
Alignment explanation
Indices: 21953638--21953686 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
21953628 AAATATGTAT
21953638 TTTTATTTTTTA-ATAAATAA
1 TTTTATTTTTTATA-AAATAA
*
21953658 TTTTAGTTGTTTATAAAATAA
1 TTTTA-TTTTTTATAAAATAA
*
21953679 TCTTATTT
1 TTTTATTT
21953687 AAAAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 7 0.29
21 16 0.67
22 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (20 bp):
TTTTATTTTTTATAAAATAA
Found at i:21954023 original size:12 final size:13
Alignment explanation
Indices: 21953996--21954020 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21953986 TTATCTATTT
21953996 TTAATTTAAAAAA
1 TTAATTTAAAAAA
21954009 TTAATTTAAAAA
1 TTAATTTAAAAA
21954021 TTATCTATTT
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):
TTAATTTAAAAAA
Found at i:21954650 original size:18 final size:18
Alignment explanation
Indices: 21954627--21954665 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
21954617 TCATACGGAT
21954627 TATAATTGAATTATATAA
1 TATAATTGAATTATATAA
*
21954645 TATAATTTAATTATATAA
1 TATAATTGAATTATATAA
21954663 TAT
1 TAT
21954666 GTTATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TATAATTGAATTATATAA
Found at i:21959696 original size:3 final size:3
Alignment explanation
Indices: 21959688--21959720 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
21959678 TGATAACATG
21959688 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC
1 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC
21959721 CACCGCCCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
ACC
Found at i:21960106 original size:49 final size:51
Alignment explanation
Indices: 21960030--21960126 Score: 162
Period size: 49 Copynumber: 1.9 Consensus size: 51
21960020 ATCGATTCGA
* *
21960030 TTTTATAAGTGTAATATTTAAATTTTATCCGATTTGATGAT-TTTTTTATT
1 TTTTATAAGTGTAATATTCAAAATTTATCCGATTTGATGATATTTTTTATT
21960080 TTTTATAA-TGTAATATTCAAAATTTATCCGATTTGATGATATTTTTT
1 TTTTATAAGTGTAATATTCAAAATTTATCCGATTTGATGATATTTTTT
21960127 TTTATTTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 30 0.68
50 14 0.32
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.56
Consensus pattern (51 bp):
TTTTATAAGTGTAATATTCAAAATTTATCCGATTTGATGATATTTTTTATT
Found at i:21960239 original size:28 final size:26
Alignment explanation
Indices: 21960208--21960311 Score: 81
Period size: 25 Copynumber: 4.0 Consensus size: 26
21960198 TAAAATATTT
* * *
21960208 TAAAAAATATAAAATATTACTTTTAA
1 TAAAAAATATAAAATATAACATTAAA
*
21960234 T-ATAAATATAAAATATAACATTAAA
1 TAAAAAATATAAAATATAACATTAAA
*
21960259 TAATATAAATATAAAAT-TAA-ATATATA
1 TAA-A-AAATATAAAATATAACAT-TAAA
*
21960286 TAAAATATATATAAAA-ATAAAATTAA
1 TAAAA-A-ATATAAAATATAACATTAA
21960312 TTAATTAATT
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
25 22 0.35
26 6 0.10
27 22 0.35
28 13 0.21
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
TAAAAAATATAAAATATAACATTAAA
Found at i:21960243 original size:6 final size:6
Alignment explanation
Indices: 21960232--21960308 Score: 52
Period size: 6 Copynumber: 12.5 Consensus size: 6
21960222 TATTACTTTT
*
21960232 AATATA AATATAA AATATA ACATTAAA TAATATA AATATA AA-ATTA AATATA
1 AATATA AATAT-A AATATA A-A-TATA -AATATA AATATA AATA-TA AATATA
* * *
21960284 TATA-A AATATA TATAAA AATA-A AAT
1 AATATA AATATA AATATA AATATA AAT
21960309 TAATTAATTA
Statistics
Matches: 57, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
5 9 0.16
6 32 0.56
7 11 0.19
8 4 0.07
9 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Done.