Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002434.1 Hibiscus syriacus cultivar Beakdansim tig00004977_pilon, 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: 151416
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Found at i:1347 original size:19 final size:20
Alignment explanation
Indices: 1308--1352 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
1298 AGACCAGGAA
1308 TCTCAAAACCAAGCATCTAG
1 TCTCAAAACCAAGCATCTAG
* *
1328 TCTCAACACCGAGC-TCTAG
1 TCTCAAAACCAAGCATCTAG
*
1347 TATCAA
1 TCTCAA
1353 TAGATAACCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.36, C:0.31, G:0.11, T:0.22
Consensus pattern (20 bp):
TCTCAAAACCAAGCATCTAG
Found at i:2183 original size:7 final size:7
Alignment explanation
Indices: 2115--2180 Score: 107
Period size: 7 Copynumber: 9.6 Consensus size: 7
2105 AAATGAATGT
2115 GAAGGGA
1 GAAGGGA
2122 G-AGGGA
1 GAAGGGA
2128 GAAGGGA
1 GAAGGGA
2135 GAAGGGA
1 GAAGGGA
2142 GAAGGGA
1 GAAGGGA
2149 GAAGGGA
1 GAAGGGA
2156 GAAGGGA
1 GAAGGGA
*
2163 GAAGAGA
1 GAAGGGA
*
2170 GAAGAGA
1 GAAGGGA
2177 GAAG
1 GAAG
2181 AGAAGATGAA
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
6 6 0.11
7 51 0.89
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (7 bp):
GAAGGGA
Found at i:6004 original size:2 final size:2
Alignment explanation
Indices: 5999--6043 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
5989 CATGTGTGCC
5999 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6041 AT A
1 AT A
6044 CATTAACTGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8324 original size:17 final size:17
Alignment explanation
Indices: 8304--8336 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8294 ATATTTATTT
8304 ATAT-AAAATATAATATA
1 ATATGAAAA-ATAATATA
8321 ATATGAAAAATAATAT
1 ATATGAAAAATAATAT
8337 TGTGATCTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
ATATGAAAAATAATATA
Found at i:9502 original size:17 final size:17
Alignment explanation
Indices: 9480--9512 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9470 TACGATTATT
9480 TTAAATATTT-TAAATAA
1 TTAAAT-TTTATAAATAA
9497 TTAAATTTTATAAATA
1 TTAAATTTTATAAATA
9513 TATATTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAAATTTTATAAATAA
Found at i:12185 original size:12 final size:12
Alignment explanation
Indices: 12168--12192 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12158 GTACTTAAGA
12168 GAAGATAATGAG
1 GAAGATAATGAG
12180 GAAGATAATGAG
1 GAAGATAATGAG
12192 G
1 G
12193 GTGACGGTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (12 bp):
GAAGATAATGAG
Found at i:14607 original size:38 final size:37
Alignment explanation
Indices: 14563--14721 Score: 196
Period size: 38 Copynumber: 4.2 Consensus size: 37
14553 TTATTTAAAT
*
14563 ATTTATATTCAATTAAAATAAAGAATTTATTATTACAA
1 ATTTATATTCAATTAAAAT-AAGAATATATTATTACAA
* * *
14601 ATTTATATTCGATTGAAATAAGAATATATTATTTATAA
1 ATTTATATTCAATTAAAATAAGAATATATTA-TTACAA
** *
14639 ATTTATATTTGATT-AAATACGAATATATTATT-CATGA
1 ATTTATATTCAATTAAAATAAGAATATATTATTACA--A
*
14676 ATTTATATTCAATTAAAATATGAATATATTATTACAA
1 ATTTATATTCAATTAAAATAAGAATATATTATTACAA
14713 ATTTATATT
1 ATTTATATT
14722 AGATTGAAAT
Statistics
Matches: 106, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
35 1 0.01
36 2 0.02
37 49 0.46
38 52 0.49
39 2 0.02
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (37 bp):
ATTTATATTCAATTAAAATAAGAATATATTATTACAA
Found at i:14633 original size:37 final size:37
Alignment explanation
Indices: 14563--14732 Score: 200
Period size: 37 Copynumber: 4.5 Consensus size: 37
14553 TTATTTAAAT
* *
14563 ATTTATATTCAATTAAAATAAAGAATTTATTATTACAA
1 ATTTATATTCGATTAAAAT-AAGAATATATTATTACAA
* *
14601 ATTTATATTCGATTGAAATAAGAATATATTATTTATAA
1 ATTTATATTCGATTAAAATAAGAATATATTA-TTACAA
* *
14639 ATTTATATTTGATT-AAATACGAATATATTATT-CATGA
1 ATTTATATTCGATTAAAATAAGAATATATTATTACA--A
* *
14676 ATTTATATTCAATTAAAATATGAATATATTATTACAA
1 ATTTATATTCGATTAAAATAAGAATATATTATTACAA
* *
14713 ATTTATATTAGATTGAAATA
1 ATTTATATTCGATTAAAATA
14733 CAATGTTATA
Statistics
Matches: 114, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
35 1 0.01
36 2 0.02
37 57 0.50
38 52 0.46
39 2 0.02
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (37 bp):
ATTTATATTCGATTAAAATAAGAATATATTATTACAA
Found at i:17007 original size:2 final size:2
Alignment explanation
Indices: 17002--17034 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
16992 TGTATATACT
*
17002 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17035 GTACTATGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17114 original size:26 final size:26
Alignment explanation
Indices: 17067--17122 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
17057 CATAACTTTA
17067 ATTTATTTTTTAAATATGTTTAT-TT
1 ATTTATTTTTTAAATATGTTTATCTT
** *
17092 ATTTATTATTTTATCTATTTTTATCTT
1 ATTTATT-TTTTAAATATGTTTATCTT
17119 ATTT
1 ATTT
17123 TCTTTCTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 7 0.27
26 13 0.50
27 6 0.23
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (26 bp):
ATTTATTTTTTAAATATGTTTATCTT
Found at i:17170 original size:20 final size:20
Alignment explanation
Indices: 17145--17272 Score: 84
Period size: 20 Copynumber: 6.1 Consensus size: 20
17135 TGATTCGTTA
17145 TTTTATTATTATTTTATTAT
1 TTTTATTATTATTTTATTAT
* *
17165 TTTTATTTTTATTTTA-CATT
1 TTTTATTATTATTTTATTA-T
*
17185 TTTTACTTTGATTTATTTAATATAT
1 TTTTA--TT-A-TTATTTTAT-TAT
* *
17210 CTTTATT-TTATTTTATTTT
1 TTTTATTATTATTTTATTAT
*
17229 ATTTTATT-TTCCTTTT-TTAT
1 -TTTTATTATT-ATTTTATTAT
17249 TTATTATTATTATTATTATTAT
1 TT-TTATTATTATT-TTATTAT
17271 TT
1 TT
17273 ATATAACATT
Statistics
Matches: 83, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
19 5 0.06
20 47 0.57
21 8 0.10
22 8 0.10
23 2 0.02
24 7 0.08
25 5 0.06
26 1 0.01
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.73
Consensus pattern (20 bp):
TTTTATTATTATTTTATTAT
Found at i:17229 original size:15 final size:15
Alignment explanation
Indices: 17142--17272 Score: 81
Period size: 15 Copynumber: 8.4 Consensus size: 15
17132 CTTTGATTCG
17142 TTATTTTATTATTATT
1 TTATTTTATT-TTATT
*
17158 TTATTAT-TTTTATTT
1 TTATTTTATTTTA-TT
**
17173 TTATTTTACATT-TT
1 TTATTTTATTTTATT
*
17187 TTACTTTGA-TTTA-T
1 TTA-TTTTATTTTATT
* *
17201 TTAATATATCTTTATT
1 TTATTTTAT-TTTATT
17217 TTATTTTATTTTATT
1 TTATTTTATTTTATT
* *
17232 TTATTTTCCTTTTTTAT
1 TTATTTT-ATTTTAT-T
17249 TTATTATTATTATTATT
1 TTATT-TTATT-TTATT
17266 ATTATTT
1 -TTATTT
17273 ATATAACATT
Statistics
Matches: 88, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
13 2 0.02
14 14 0.16
15 31 0.35
16 21 0.24
17 10 0.11
18 10 0.11
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.73
Consensus pattern (15 bp):
TTATTTTATTTTATT
Found at i:17274 original size:59 final size:60
Alignment explanation
Indices: 17097--17274 Score: 155
Period size: 59 Copynumber: 3.1 Consensus size: 60
17087 TATTTATTTA
* **
17097 TTATTTTATCTATTTTTA-TCTTATTTT-C-TTTCTTT-CTTTGATTCGTTATT-TTATTA-
1 TTATTTTAT-TATTTTTATTTTTATTTTACATTT-TTTACTTTGATTTATTATTATTATTAT
* *
17153 TTATTTTATTATTTTTATTTTTATTTTACATTTTTTACTTTGATTTA-T-TTAATATATCT
1 TTATTTTATTATTTTTATTTTTATTTTACATTTTTTACTTTGATTTATTATTATTAT-TAT
* *
17212 TTATTTTATTTTATTTTA-TTTTATTTT-CCTTTTTTA-TTT-ATTATTATTATTATTATTAT
1 TTATTTTATTAT-TTTTATTTTTATTTTACATTTTTTACTTTGA-T-TTATTATTATTATTAT
17271 TTAT
1 TTAT
17275 ATAACATTTT
Statistics
Matches: 101, Mismatches: 9, Indels: 21
0.77 0.07 0.16
Matches are distributed among these distances:
55 8 0.08
56 20 0.20
57 12 0.12
58 23 0.23
59 27 0.27
60 11 0.11
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (60 bp):
TTATTTTATTATTTTTATTTTTATTTTACATTTTTTACTTTGATTTATTATTATTATTAT
Found at i:17350 original size:31 final size:31
Alignment explanation
Indices: 17292--17351 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
17282 TTTTTCCCTT
** *
17292 TTGATTTATTTTTTTATTTTTTGTTATTTCC
1 TTGATTTATTTTAATATTTTTTATTATTTCC
17323 TTGATTTA-TTTAATATTTGTTTATTATTT
1 TTGATTTATTTTAATATTT-TTTATTATTT
17352 ATTATCTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.18, C:0.03, G:0.07, T:0.72
Consensus pattern (31 bp):
TTGATTTATTTTAATATTTTTTATTATTTCC
Found at i:18024 original size:21 final size:21
Alignment explanation
Indices: 18000--18163 Score: 157
Period size: 21 Copynumber: 7.7 Consensus size: 21
17990 CCGCGTAGAA
*
18000 ATGTCCCGAATGACCACATAT
1 ATGTCCCGAAGGACCACATAT
*
18021 ATGTCCCGAAGGACCACATAA
1 ATGTCCCGAAGGACCACATAT
*
18042 ATGTCCCGAAGGACCACATAAA
1 ATGTCCCGAAGGACCACAT-AT
*
18064 ATTGTCCCTAAGGACCACATAT
1 A-TGTCCCGAAGGACCACATAT
* * *
18086 ATGTTCCAAAGGACCAAATAT
1 ATGTCCCGAAGGACCACATAT
* ** **
18107 ATGTCCCTAATAACCGTATAT
1 ATGTCCCGAAGGACCACATAT
* * * *
18128 ATGTTCCAAATGATCACATAT
1 ATGTCCCGAAGGACCACATAT
*
18149 ATGTCCCGAAAGACC
1 ATGTCCCGAAGGACC
18164 GCGTAGAACC
Statistics
Matches: 118, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
21 96 0.81
22 5 0.04
23 17 0.14
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.23
Consensus pattern (21 bp):
ATGTCCCGAAGGACCACATAT
Found at i:18088 original size:65 final size:65
Alignment explanation
Indices: 17975--18113 Score: 172
Period size: 65 Copynumber: 2.1 Consensus size: 65
17965 GTGTCATATA
* * * * * * *
17975 AAATATCCTGAAGGACCGCGTAGAAATGTCCCGAATGACCACATATATGTCCCGAAGGACCACAT
1 AAATGTCCCGAAGGACCACATAGAAATGTCCCGAAGGACCACATATATGTCCCAAAGGACCAAAT
* *
18040 AAATGTCCCGAAGGACCACATA-AAATTGTCCCTAAGGACCACATATATGTTCCAAAGGACCAAA
1 AAATGTCCCGAAGGACCACATAGAAA-TGTCCCGAAGGACCACATATATGTCCCAAAGGACCAAA
18104 T
65 T
*
18105 ATATGTCCC
1 AAATGTCCC
18114 TAATAACCGT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
64 3 0.05
65 60 0.95
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (65 bp):
AAATGTCCCGAAGGACCACATAGAAATGTCCCGAAGGACCACATATATGTCCCAAAGGACCAAAT
Found at i:20935 original size:2 final size:2
Alignment explanation
Indices: 20928--20963 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
20918 TTGTCCCACT
20928 TA TA TA TA TA TA TA TA TA -A CTA 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
20964 GTTAATATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 30 0.94
3 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:21169 original size:2 final size:2
Alignment explanation
Indices: 21162--21211 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
21152 ATCATACCTC
21162 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21204 AT AT AT AT
1 AT AT AT AT
21212 GTGCGCACGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26465 original size:2 final size:2
Alignment explanation
Indices: 26458--26498 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
26448 TGTAACAATA
26458 AT AT 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 AT AT A
26499 ACTGTTAACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27564 original size:29 final size:29
Alignment explanation
Indices: 27530--27585 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
27520 CCTAACAACG
*
27530 AAATATTACATATC-ATGCACCCTTTCTCC
1 AAATATTACAGATCTA-GCACCCTTTCTCC
*
27559 AAATATTACCGATCTAGCACCCTTTCT
1 AAATATTACAGATCTAGCACCCTTTCT
27586 GACAAAGCGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.34
Consensus pattern (29 bp):
AAATATTACAGATCTAGCACCCTTTCTCC
Found at i:29564 original size:28 final size:27
Alignment explanation
Indices: 29520--29609 Score: 67
Period size: 25 Copynumber: 3.7 Consensus size: 27
29510 TCAAACAATT
29520 AAAT-AATAAAAAT--ATTAAGAAATA
1 AAATAAATAAAAATCCATTAAGAAATA
*
29544 AAATAAATAAAAAGTCCATT-----ATT
1 AAATAAATAAAAA-TCCATTAAGAAATA
*
29567 AAAT-AATAAAAA--CATTAAGAAACA
1 AAATAAATAAAAATCCATTAAGAAATA
29591 AAATAAATAAAAAATCCAT
1 AAATAAAT-AAAAATCCAT
29610 AATTAAATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 22
0.67 0.04 0.29
Matches are distributed among these distances:
19 4 0.08
22 8 0.16
23 6 0.12
24 9 0.18
25 11 0.22
26 6 0.12
28 6 0.12
ACGTcount: A:0.67, C:0.07, G:0.03, T:0.23
Consensus pattern (27 bp):
AAATAAATAAAAATCCATTAAGAAATA
Found at i:29640 original size:21 final size:21
Alignment explanation
Indices: 29614--29687 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 21
29604 ATCCATAATT
29614 AAATAAAAATATTAAGAAACA
1 AAATAAAAATATTAAGAAACA
* * **
29635 AAATAAATAA-ATAAAATCCATAATT
1 AAATAAA-AATAT-TAA--GA-AACA
29660 AAATAAAAATATTAAGAAACA
1 AAATAAAAATATTAAGAAACA
29681 AAATAAA
1 AAATAAA
29688 GTCAATAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
21 18 0.46
22 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.22
Consensus pattern (21 bp):
AAATAAAAATATTAAGAAACA
Found at i:29668 original size:46 final size:44
Alignment explanation
Indices: 29524--29732 Score: 250
Period size: 47 Copynumber: 4.8 Consensus size: 44
29514 ACAATTAAAT
* * *
29524 AATAAAAATATTAAGAAATAAAATAAATAAAAAGTCCATTATTAAA
1 AATAAAAATATTAAGAAACAAAATAAATAAAAAATCCATAATT--A
*
29570 TAATAAAAACATTAAGAAACAAAATAAATAAAAAATCCATAATTA
1 -AATAAAAATATTAAGAAACAAAATAAATAAAAAATCCATAATTA
29615 AATAAAAATATTAAGAAACAAAATAAATAAATAAAATCCATAATTA
1 AATAAAAATATTAAGAAACAAAATAAAT-AA-AAAATCCATAATTA
* *
29661 AATAAAAATATTAAGAAAC---A-AAAT--AAAGTCAATAATTA
1 AATAAAAATATTAAGAAACAAAATAAATAAAAAATCCATAATTA
* *
29699 AATAAAAAAAATTAAGAAACAAGATAAATAAAAA
1 AAT-AAAAATATTAAGAAACAAAATAAATAAAAA
29733 CAAGTTTATC
Statistics
Matches: 145, Mismatches: 8, Indels: 20
0.84 0.05 0.12
Matches are distributed among these distances:
38 15 0.10
39 15 0.10
42 5 0.03
43 5 0.03
44 27 0.19
45 6 0.04
46 33 0.23
47 39 0.27
ACGTcount: A:0.68, C:0.06, G:0.04, T:0.22
Consensus pattern (44 bp):
AATAAAAATATTAAGAAACAAAATAAATAAAAAATCCATAATTA
Found at i:29673 original size:13 final size:14
Alignment explanation
Indices: 29608--29674 Score: 57
Period size: 17 Copynumber: 4.6 Consensus size: 14
29598 TAAAAAATCC
29608 ATAATTAAATAAAA
1 ATAATTAAATAAAA
*
29622 AT-ATTAAGAAACAAA
1 ATAATTAA-ATA-AAA
*
29637 ATAAATAAATAAAA
1 ATAATTAAATAAAA
29651 TCCATAATTAAATAAAA
1 ---ATAATTAAATAAAA
29668 AT-ATTAA
1 ATAATTAA
29675 GAAACAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
13 10 0.23
14 9 0.21
15 7 0.16
16 4 0.09
17 13 0.30
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.27
Consensus pattern (14 bp):
ATAATTAAATAAAA
Found at i:29685 original size:38 final size:39
Alignment explanation
Indices: 29643--29726 Score: 125
Period size: 39 Copynumber: 2.2 Consensus size: 39
29633 CAAAATAAAT
* *
29643 AAATAAAATCCATAATTAAAT-AAAAATATTAAGAAACA
1 AAATAAAATCAATAATTAAATAAAAAAAATTAAGAAACA
*
29681 AAATAAAGTCAATAATTAAATAAAAAAAATTAAGAAACA
1 AAATAAAATCAATAATTAAATAAAAAAAATTAAGAAACA
*
29720 AGATAAA
1 AAATAAA
29727 TAAAAACAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 19 0.46
39 22 0.54
ACGTcount: A:0.68, C:0.06, G:0.05, T:0.21
Consensus pattern (39 bp):
AAATAAAATCAATAATTAAATAAAAAAAATTAAGAAACA
Found at i:30141 original size:21 final size:21
Alignment explanation
Indices: 30117--30173 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
30107 CGGTGGTGGA
30117 ATCTGAAATGGCTGCAGTGCC
1 ATCTGAAATGGCTGCAGTGCC
* * ** *
30138 ATCTAAAATGGATGTGGTGGC
1 ATCTGAAATGGCTGCAGTGCC
*
30159 ATCTGAAATGACTGC
1 ATCTGAAATGGCTGC
30174 GGAATATAAA
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (21 bp):
ATCTGAAATGGCTGCAGTGCC
Found at i:32317 original size:29 final size:29
Alignment explanation
Indices: 32284--32339 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
32274 GCTCTTTGTC
32284 AGAAAGAGTG-CTAGATCA-GTAATATTTGA
1 AGAAAGAGTGTCT-GA-CAGGTAATATTTGA
*
32313 AGAAAGGGTGTCTGACAGGTAATATTT
1 AGAAAGAGTGTCTGACAGGTAATATTT
32340 AACTGTTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 2 0.08
29 20 0.83
30 2 0.08
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.29
Consensus pattern (29 bp):
AGAAAGAGTGTCTGACAGGTAATATTTGA
Found at i:36193 original size:2 final size:2
Alignment explanation
Indices: 36188--36247 Score: 93
Period size: 2 Copynumber: 30.0 Consensus size: 2
36178 ATATGAAAAA
* * *
36188 AT AT AT AA AT AA AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36230 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
36248 GTATTGTATA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:36770 original size:19 final size:19
Alignment explanation
Indices: 36748--36786 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
36738 AGGTTAGCTA
36748 GCTGTTAGCAGGTAGTTGT
1 GCTGTTAGCAGGTAGTTGT
36767 GCTGTTAGCAGGTAGTTGT
1 GCTGTTAGCAGGTAGTTGT
36786 G
1 G
36787 AAGTTATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.10, G:0.38, T:0.36
Consensus pattern (19 bp):
GCTGTTAGCAGGTAGTTGT
Found at i:36792 original size:19 final size:19
Alignment explanation
Indices: 36751--36792 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
36741 TTAGCTAGCT
**
36751 GTTAGCAGGTAGTTGTGCT
1 GTTAGCAGGTAGTTGTGAA
36770 GTTAGCAGGTAGTTGTGAA
1 GTTAGCAGGTAGTTGTGAA
36789 GTTA
1 GTTA
36793 TTGCAGCTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.21, C:0.07, G:0.36, T:0.36
Consensus pattern (19 bp):
GTTAGCAGGTAGTTGTGAA
Found at i:42310 original size:28 final size:28
Alignment explanation
Indices: 42270--42335 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
42260 GCTTAATGAA
42270 GGATTAAATAGGAGTAAACCTAAAAGAT
1 GGATTAAATAGGAGTAAACCTAAAAGAT
*
42298 GGATTAAATAGGAGTAAACCTAAAATAT
1 GGATTAAATAGGAGTAAACCTAAAAGAT
42326 GGATTAAATA
1 GGATTAAATA
42336 TGAGAGATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.50, C:0.06, G:0.20, T:0.24
Consensus pattern (28 bp):
GGATTAAATAGGAGTAAACCTAAAAGAT
Found at i:43311 original size:54 final size:55
Alignment explanation
Indices: 43208--43312 Score: 124
Period size: 54 Copynumber: 1.9 Consensus size: 55
43198 ATGCACTATA
* * * *
43208 TGTGCAAATCCACAGAATTCATCATTAGTTGATGAATAACTGTACAGGCACGATG
1 TGTGCAAACCCACAGAATTCATCATGAATTGATGAATAACCGTACAGGCACGATG
* * *
43263 TGTGC-AACCCACATAATTCATCATGAATTGGTGAACT-ACCGTATAGGCAC
1 TGTGCAAACCCACAGAATTCATCATGAATTGATGAA-TAACCGTACAGGCAC
43313 TACGCGTGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
54 36 0.86
55 6 0.14
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (55 bp):
TGTGCAAACCCACAGAATTCATCATGAATTGATGAATAACCGTACAGGCACGATG
Found at i:43719 original size:81 final size:81
Alignment explanation
Indices: 43619--44361 Score: 990
Period size: 81 Copynumber: 9.2 Consensus size: 81
43609 CTATTATAAA
* * * * *
43619 AGTAAAAGAATAATGGCCTAACTGTGCATTTGATAGAAAGATGTCAATTATACTAGTTAGATGAA
1 AGTAAAAGACTAATGGCCTAGCTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAA
43684 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
*
43700 AGTAAAAGACTAATGGCCTAGCTGTGCATTTGACAGAAAGATGTCAATTATTCCAGTTAGATGAA
1 AGTAAAAGACTAATGGCCTAGCTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAA
43765 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * *
43781 AGTAAAATATTAATGGTCTAGCTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGACTAATGGCCTAGCTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAA
*
43846 AGGTTAAATACTTTTG
66 AGGTTAAATACCTTTG
* * * *
43862 AGTAAAATACTAATGGCCTAGCTGTGCATTTGATAGAAATG-TGTCAATTATGCCAATTAGATGT
1 AGTAAAAGACTAATGGCCTAGCTGTGCATTTGACAGAAA-GATGTCAATTATGCCAGTTAGATGA
43926 AAGGTTAAATACCTTTG
65 AAGGTTAAATACCTTTG
* * * * *
43943 AGTAAACGACTAATGGTCTAGCTATGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAA
1 AGTAAAAGACTAATGGCCTAGCTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAA
*
44008 AGGTTAAATACATTTG
66 AGGTTAAATACCTTTG
* *
44024 AGTAAAAGACTAATGGCCTAGCTGTGCATTTGACAGAAATATGTCAATTACGCCAGTTAGATGAA
1 AGTAAAAGACTAATGGCCTAGCTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAA
44089 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* *
44105 AGTAAAATACTAATGGCCTAGATGTGCATTTGACAGAAATG-TGTCAATTATGCCAGTTAGATGA
1 AGTAAAAGACTAATGGCCTAGCTGTGCATTTGACAGAAA-GATGTCAATTATGCCAGTTAGATGA
*
44169 AATGTTAAATACCTTTG
65 AAGGTTAAATACCTTTG
* * * * * * * * * *
44186 AGTAAAAAACTAATGACCTAGTTTTGCATTTAAAAAACAAGGTGTCAATTATGCTAGTTAGATTA
1 AGTAAAAGACTAATGGCCTAGCTGTGCATTTGACAGA-AAGATGTCAATTATGCCAGTTAGATGA
44251 AAGGTTAAATACCTTTG
65 AAGGTTAAATACCTTTG
* * * * * * *
44268 GGTAAAAG-CTTAATAGTCTAGTTGTGCATTTGACAGAAATG-TGTCAGTCATGCAAGTTAGATG
1 AGTAAAAGAC-TAATGGCCTAGCTGTGCATTTGACAGAAA-GATGTCAATTATGCCAGTTAGATG
** * *
44331 AAAGGCCAAATGCCGTTG
64 AAAGGTTAAATACCTTTG
*
44349 GGTAAAAGACTAA
1 AGTAAAAGACTAA
44362 AGGAATTAAA
Statistics
Matches: 589, Mismatches: 65, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
80 1 0.00
81 520 0.88
82 68 0.12
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (81 bp):
AGTAAAAGACTAATGGCCTAGCTGTGCATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCTTTG
Found at i:46770 original size:3 final size:3
Alignment explanation
Indices: 46755--46816 Score: 74
Period size: 3 Copynumber: 20.7 Consensus size: 3
46745 AAATATAATT
* *
46755 TAA TAA CAA TAA TAA TAA TAA TAA GTAA T-A TACT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TA-A TAA TAA TAA TAA
46801 TAA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TA
46817 TTTTTTGTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 4 0.08
3 42 0.82
4 5 0.10
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:64350 original size:21 final size:21
Alignment explanation
Indices: 64325--64364 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
64315 AAGACTCTAT
64325 TTTCAAAA-TACAAAAATGATA
1 TTTCAAAATTA-AAAAATGATA
64346 TTTCAAAATTAAAAAATGA
1 TTTCAAAATTAAAAAATGA
64365 AAATAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.30
Consensus pattern (21 bp):
TTTCAAAATTAAAAAATGATA
Found at i:68216 original size:22 final size:22
Alignment explanation
Indices: 68190--68273 Score: 98
Period size: 22 Copynumber: 3.8 Consensus size: 22
68180 ATAGGGCAGA
68190 GGGAATCGATACCCCCTTGAAG
1 GGGAATCGATACCCCCTTGAAG
*
68212 GGGAA-CTGATTCCCCCTTTGAAG
1 GGGAATC-GATACCCCC-TTGAAG
* * * *
68235 GGGAACCGATTCCCCCCTGTAG
1 GGGAATCGATACCCCCTTGAAG
68257 GGGAATCGATACCCCCT
1 GGGAATCGATACCCCCT
68274 GGGGTTTCTG
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.02
22 31 0.58
23 20 0.38
24 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.20
Consensus pattern (22 bp):
GGGAATCGATACCCCCTTGAAG
Found at i:68705 original size:15 final size:16
Alignment explanation
Indices: 68682--68714 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
68672 TAAAAAATAT
68682 TTTTAAATT-ATTATG
1 TTTTAAATTAATTATG
*
68697 TTTTGAATTAATTATG
1 TTTTAAATTAATTATG
68713 TT
1 TT
68715 ATTTACATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (16 bp):
TTTTAAATTAATTATG
Found at i:71566 original size:15 final size:15
Alignment explanation
Indices: 71546--71579 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
71536 TTAACTCAAC
71546 AAAATAA-AGAGAAGA
1 AAAATAAGA-AGAAGA
71561 AAAATAAGAAGAAGA
1 AAAATAAGAAGAAGA
71576 AAAA
1 AAAA
71580 AGAGGTAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 17 0.94
16 1 0.06
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (15 bp):
AAAATAAGAAGAAGA
Found at i:73275 original size:21 final size:19
Alignment explanation
Indices: 73234--73291 Score: 82
Period size: 21 Copynumber: 3.0 Consensus size: 19
73224 CAAAAATTGG
73234 TAACAATTGGTAT-TTTTT
1 TAACAATTGGTATCTTTTT
*
73252 TAACAATTGATATCATTTTGT
1 TAACAATTGGTATC-TTTT-T
73273 TAACAATTGGTATCTTTTT
1 TAACAATTGGTATCTTTTT
73292 CATTAAACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 12 0.34
19 1 0.03
20 8 0.23
21 14 0.40
ACGTcount: A:0.29, C:0.09, G:0.10, T:0.52
Consensus pattern (19 bp):
TAACAATTGGTATCTTTTT
Found at i:73652 original size:34 final size:35
Alignment explanation
Indices: 73607--73675 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 35
73597 AATGCAAAAA
*
73607 GGGTACAGATACCCCCT-ATGGGTATCCATACCCT
1 GGGTACAGATACCCCCTAAGGGGTATCCATACCCT
*
73641 GGGTACCGATACCCCCTACAGGGGTATCCATACCC
1 GGGTACAGATACCCCCTA-AGGGGTATCCATACCC
73676 CCTAGCTCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 16 0.52
36 15 0.48
ACGTcount: A:0.23, C:0.35, G:0.22, T:0.20
Consensus pattern (35 bp):
GGGTACAGATACCCCCTAAGGGGTATCCATACCCT
Found at i:74110 original size:33 final size:34
Alignment explanation
Indices: 74042--74112 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
74032 TTTTGTAAAG
*
74042 GGGAAAGGTTCTAGCTTAGCCAGTGTAAAAACTA
1 GGGAAAGGTTCTAGCTTACCCAGTGTAAAAACTA
*
74076 GGGAAAGGTTCTAGTTTATCCCA-TG-AAAAACTA
1 GGGAAAGGTTCTAGCTTA-CCCAGTGTAAAAACTA
74109 GGGA
1 GGGA
74113 GTTGTAAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 12 0.35
34 19 0.56
35 3 0.09
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (34 bp):
GGGAAAGGTTCTAGCTTACCCAGTGTAAAAACTA
Found at i:79692 original size:32 final size:32
Alignment explanation
Indices: 79655--79720 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
79645 CATAACCACG
79655 TCCCATATCTAAATATATTTAGTAATCATATT
1 TCCCATATCTAAATATATTTAGTAATCATATT
79687 TCCCATATCTAAATATATTTAGTAATCATATT
1 TCCCATATCTAAATATATTTAGTAATCATATT
79719 TC
1 TC
79721 AATCAGTACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.44
Consensus pattern (32 bp):
TCCCATATCTAAATATATTTAGTAATCATATT
Found at i:81947 original size:2 final size:2
Alignment explanation
Indices: 81940--82003 Score: 101
Period size: 2 Copynumber: 32.0 Consensus size: 2
81930 CAAGTCGGCA
81940 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
81982 AT AT AT AT GT AT GT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
82004 TAAGTAGTCG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:85282 original size:5 final size:5
Alignment explanation
Indices: 85272--85296 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
85262 AACCCTTGGG
85272 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
85297 AATACGTGTG
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:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:86534 original size:42 final size:42
Alignment explanation
Indices: 86472--86764 Score: 372
Period size: 42 Copynumber: 7.0 Consensus size: 42
86462 ACTGCACAAC
* * * * *
86472 CCAAACAATCGGTAGCGAAGCCTTTGACGGAAACCTCAGAAT
1 CCAAACAATCGGTGGAGAAGCCTTCGACGGGAACCGCAGAAT
* * *
86514 CCAAACAATCGGTGGAGAAGCCATT-GGCGGGAACCGCCGATT
1 CCAAACAATCGGTGGAGAAGCC-TTCGACGGGAACCGCAGAAT
* * *
86556 CCCAACAATCGGTAGAGAAGCCTTCGACGGGAACCGCGGAAT
1 CCAAACAATCGGTGGAGAAGCCTTCGACGGGAACCGCAGAAT
* *
86598 CCAAACAATCGGTGGAGAAGACTTCGACGGGAGCCGCAGAAT
1 CCAAACAATCGGTGGAGAAGCCTTCGACGGGAACCGCAGAAT
* * *
86640 CCAAACAATCGGTGGAGAAGCCTTTGACGGGAACTGCAGCAT
1 CCAAACAATCGGTGGAGAAGCCTTCGACGGGAACCGCAGAAT
* * **
86682 CCGAACAATCGGTGGAGAAGCCTTCGACGGAAAATGCAGAAT
1 CCAAACAATCGGTGGAGAAGCCTTCGACGGGAACCGCAGAAT
* *
86724 CCAAACAATCGGTGGAGAAGCCTTCGACGGAAACAGCAGAA
1 CCAAACAATCGGTGGAGAAGCCTTCGACGGGAACCGCAGAA
86765 CCGGAGTCGA
Statistics
Matches: 219, Mismatches: 30, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
41 2 0.01
42 215 0.98
43 2 0.01
ACGTcount: A:0.33, C:0.25, G:0.28, T:0.14
Consensus pattern (42 bp):
CCAAACAATCGGTGGAGAAGCCTTCGACGGGAACCGCAGAAT
Found at i:90135 original size:142 final size:144
Alignment explanation
Indices: 89872--90173 Score: 418
Period size: 142 Copynumber: 2.1 Consensus size: 144
89862 GACGCTACTA
*
89872 ATTTTGTTATTATTTTTTAACAAAACTAGTAAAAAAAACTTACCTGAAACATTATTATTTCTATC
1 ATTTTGTTATTATTTTTTAACAAAACTAGT-AAAAAAACTTACCTGAAACATTATTATTCCTATC
* * * *
89937 GATTTTGTTATTATTGGGCGCTTTACCGATTTTGTTAACATATCCGATAAAGCGTTA-CTGGTTT
65 GATTTTGCTATTATCGCGCGCTTTACCGATTTTGTTAACATATCCGATAAAACGTTATC-GGTTT
*
90001 TGTTATTTTTTCTATC-
129 TCTT-TTTTTTCTATCG
* *
90017 AGTTTTGTTATTATTTTTTAACAAAATTGGT-AAAAAACTTACC-GAAAACATTATTATTCCTAT
1 A-TTTTGTTATTATTTTTTAACAAAACTAGTAAAAAAACTTACCTG-AAACATTATTATTCCTAT
* *
90080 -G-TTTTGCTATTATCGCGCGCTTTACCGATTTTGTTAATATATCCGGTAAAACGTTATCGGTTT
64 CGATTTTGCTATTATCGCGCGCTTTACCGATTTTGTTAACATATCCGATAAAACGTTATCGGTTT
*
90143 TCTTTTTTTTTTATCG
129 TCTTTTTTTTCTATCG
90159 ATTTTGTTATTATTT
1 ATTTTGTTATTATTT
90174 GGCATTTTAC
Statistics
Matches: 142, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
141 24 0.17
142 58 0.41
143 3 0.02
144 29 0.20
145 1 0.01
146 27 0.19
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.48
Consensus pattern (144 bp):
ATTTTGTTATTATTTTTTAACAAAACTAGTAAAAAAACTTACCTGAAACATTATTATTCCTATCG
ATTTTGCTATTATCGCGCGCTTTACCGATTTTGTTAACATATCCGATAAAACGTTATCGGTTTTC
TTTTTTTTCTATCG
Found at i:90553 original size:31 final size:32
Alignment explanation
Indices: 90508--90567 Score: 113
Period size: 31 Copynumber: 1.9 Consensus size: 32
90498 AGACAAACTC
90508 TTATTATTTTTTTAATCATTTTATAATTTAGG
1 TTATTATTTTTTTAATCATTTTATAATTTAGG
90540 TTATTA-TTTTTTAATCATTTTATAATTT
1 TTATTATTTTTTTAATCATTTTATAATTT
90568 GAAAATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 22 0.79
32 6 0.21
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.65
Consensus pattern (32 bp):
TTATTATTTTTTTAATCATTTTATAATTTAGG
Found at i:90577 original size:32 final size:32
Alignment explanation
Indices: 90509--90577 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 32
90499 GACAAACTCT
***
90509 TATTATTTTTTTAATCATTTTATAATTTAGGT
1 TATTATTTTTTTAATCATTTTATAATTTAAAA
90541 TATTA-TTTTTTAATCATTTTATAATTTGAAAA
1 TATTATTTTTTTAATCATTTTATAATTT-AAAA
90573 TATTA
1 TATTA
90578 ATAAATTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 22 0.67
32 11 0.33
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.59
Consensus pattern (32 bp):
TATTATTTTTTTAATCATTTTATAATTTAAAA
Found at i:90607 original size:25 final size:26
Alignment explanation
Indices: 90556--90608 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
90546 TTTTTTAATC
*
90556 ATTTTATAATTTGAAAATATTAATAA
1 ATTTTATAATTTGAAAATATAAATAA
*
90582 ATTTTATCATTT-AAAA-ATAAATTAA
1 ATTTTATAATTTGAAAATATAAA-TAA
90607 AT
1 AT
90609 AATATAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 4 0.17
25 9 0.38
26 11 0.46
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTTTATAATTTGAAAATATAAATAA
Found at i:91080 original size:26 final size:25
Alignment explanation
Indices: 91050--91100 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
91040 CCGAACTTTG
*
91050 TTCAGTTTGATTAATAAATTAAAAAA
1 TTCAGTTTAATTAAT-AATTAAAAAA
*
91076 TTCAGTTTAATTAATGATTAAAAAA
1 TTCAGTTTAATTAATAATTAAAAAA
91101 CGATTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (25 bp):
TTCAGTTTAATTAATAATTAAAAAA
Found at i:93843 original size:3 final size:3
Alignment explanation
Indices: 93835--93875 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
93825 ATAATTGTAT
* *
93835 TAA TAA TAA -CA TAA TAA TAA TGA TAA TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
93876 GATAGTAGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 3 0.09
3 29 0.91
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:93860 original size:20 final size:20
Alignment explanation
Indices: 93835--93879 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
93825 ATAATTGTAT
93835 TAATAATAACATAATAATAATGA
1 TAATAAT-A-ATAAT-ATAATGA
93858 TAATAATAATAATATAATGA
1 TAATAATAATAATATAATGA
93878 TA
1 TA
93880 GTAGGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.41
21 5 0.23
22 1 0.05
23 7 0.32
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (20 bp):
TAATAATAATAATATAATGA
Found at i:94288 original size:17 final size:18
Alignment explanation
Indices: 94266--94318 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 18
94256 CGAATAATAA
94266 ATTAATTTAAATAAAAAG
1 ATTAATTTAAATAAAAAG
* *
94284 A-TAATTT-ATTAAAAAT
1 ATTAATTTAAATAAAAAG
94300 ATTATATTTATAATAAAAA
1 ATTA-ATTTA-AATAAAAA
94319 TAATAGAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 8 0.29
17 8 0.29
18 5 0.18
20 7 0.25
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
ATTAATTTAAATAAAAAG
Found at i:94318 original size:20 final size:19
Alignment explanation
Indices: 94266--94320 Score: 64
Period size: 17 Copynumber: 3.1 Consensus size: 19
94256 CGAATAATAA
*
94266 ATTAATTTA-AATAAAAAG
1 ATTAATTTATAATAAAAAT
94284 A-TAATTTAT--TAAAAAT
1 ATTAATTTATAATAAAAAT
94300 ATTATATTTATAATAAAAAT
1 ATTA-ATTTATAATAAAAAT
94320 A
1 A
94321 ATAGAAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
16 7 0.23
17 9 0.29
18 7 0.23
20 8 0.26
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
ATTAATTTATAATAAAAAT
Found at i:96043 original size:2 final size:2
Alignment explanation
Indices: 96036--96075 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
96026 ATAACTAGAC
96036 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96076 GTGTGTGTGA
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):
AT
Found at i:96297 original size:20 final size:18
Alignment explanation
Indices: 96260--96300 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
96250 TTAAGAAAGG
96260 ATTATTTATATTGTTATT
1 ATTATTTATATTGTTATT
*
96278 ATTATTTTTATGTGTCTATT
1 ATTATTTATAT-TGT-TATT
96298 ATT
1 ATT
96301 TTTCCTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 3 0.15
20 7 0.35
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.66
Consensus pattern (18 bp):
ATTATTTATATTGTTATT
Found at i:96347 original size:17 final size:16
Alignment explanation
Indices: 96306--96348 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
96296 TTATTTTTCC
96306 TTCTTTTTTTTGAGTT
1 TTCTTTTTTTTGAGTT
96322 TCTCATTTTTTTGTGA-TT
1 T-TC-TTTTTTT-TGAGTT
96340 TTCTTTTTT
1 TTCTTTTTT
96349 CCCCTTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.29
17 4 0.17
18 10 0.42
19 3 0.12
ACGTcount: A:0.07, C:0.09, G:0.09, T:0.74
Consensus pattern (16 bp):
TTCTTTTTTTTGAGTT
Found at i:97442 original size:5 final size:5
Alignment explanation
Indices: 97427--97456 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
97417 ACCTAAATCC
97427 TCTCAT TCTCT TCTCT TCTCT TCTCT TCTC
1 TCTC-T TCTCT TCTCT TCTCT TCTCT TCTC
97457 ATAAGTGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.03, C:0.40, G:0.00, T:0.57
Consensus pattern (5 bp):
TCTCT
Found at i:98300 original size:48 final size:48
Alignment explanation
Indices: 98205--98300 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 48
98195 TTTTGTTCGA
* * *
98205 ATCAATATCAAATCGATTGATTTTTGGATCGGGTCAATATAGGGTCGG
1 ATCAATACCAAATCGATTGATTTTTGGATCAGGTCAATATAGAGTCGG
* * * *
98253 ATCAATACCGAATTGATTGATTTTTGGGTCAGGTTAATACTA-AGTCGG
1 ATCAATACCAAATCGATTGATTTTTGGATCAGGTCAATA-TAGAGTCGG
98301 TTAGATTTTG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
48 38 0.95
49 2 0.05
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.34
Consensus pattern (48 bp):
ATCAATACCAAATCGATTGATTTTTGGATCAGGTCAATATAGAGTCGG
Found at i:98974 original size:17 final size:18
Alignment explanation
Indices: 98933--98985 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
98923 ACTTTCTATT
98933 ATTTTATTATAAATCTAACA
1 ATTTTA-TATAAAT-TAACA
*
98953 TTTTTA-ATAAATTAACA
1 ATTTTATATAAATTAACA
*
98970 ATTTTATTTAAATTAA
1 ATTTTATATAAATTAA
98986 TTTATTATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 10 0.34
18 14 0.48
20 5 0.17
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTTATATAAATTAACA
Found at i:99086 original size:16 final size:16
Alignment explanation
Indices: 99040--99089 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
99030 TTTCAATCTA
*
99040 TTCGGGTTGCTTTCGG
1 TTCGGGTTGCTTTTGG
* ***
99056 GTCGGGTTAAATTTGG
1 TTCGGGTTGCTTTTGG
99072 TTCGGGTTGCTTTTGG
1 TTCGGGTTGCTTTTGG
99088 TT
1 TT
99090 TGAGTTAATG
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.06, C:0.12, G:0.36, T:0.46
Consensus pattern (16 bp):
TTCGGGTTGCTTTTGG
Found at i:99138 original size:16 final size:16
Alignment explanation
Indices: 99102--99140 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
99092 AGTTAATGTC
99102 GATTTCAGTTAGGGTT
1 GATTTCAGTTAGGGTT
* **
99118 AATTTCAGTTCTGGTT
1 GATTTCAGTTAGGGTT
99134 GATTTCA
1 GATTTCA
99141 ATTTCGTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.21, C:0.10, G:0.23, T:0.46
Consensus pattern (16 bp):
GATTTCAGTTAGGGTT
Found at i:101198 original size:2 final size:2
Alignment explanation
Indices: 101191--101262 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
101181 AATAATGTAT
101191 TA 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 TA
101233 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
101263 AAACTAATCG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:101987 original size:35 final size:35
Alignment explanation
Indices: 101941--102018 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 35
101931 CACAGTCATT
*
101941 AATTACATTCTAAACCCCAAAATCTAAAATACTTC
1 AATTACATTCTAAACCCCAAAATCCAAAATACTTC
* * * *
101976 AATTACATTCTAAACCTCAAATTCCAAAATATTTT
1 AATTACATTCTAAACCCCAAAATCCAAAATACTTC
102011 AATTACAT
1 AATTACAT
102019 GGCCAACCCC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33
Consensus pattern (35 bp):
AATTACATTCTAAACCCCAAAATCCAAAATACTTC
Found at i:102032 original size:35 final size:35
Alignment explanation
Indices: 101941--102034 Score: 100
Period size: 35 Copynumber: 2.7 Consensus size: 35
101931 CACAGTCATT
* * *
101941 AATTACATTCTAAACCCCAAAATCTAAAATACTTC
1 AATTACATGCTAAACCCCAAATTCCAAAATACTTC
* * * *
101976 AATTACATTCTAAACCTCAAATTCCAAAATATTTT
1 AATTACATGCTAAACCCCAAATTCCAAAATACTTC
*
102011 AATTACATGGC-CAACCCCAAATTC
1 AATTACAT-GCTAAACCCCAAATTC
102035 ATAATCCATT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
35 49 0.98
36 1 0.02
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.30
Consensus pattern (35 bp):
AATTACATGCTAAACCCCAAATTCCAAAATACTTC
Found at i:103507 original size:29 final size:29
Alignment explanation
Indices: 103458--103527 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
103448 CTGTCATTAG
*
103458 TTAT-AATTGAGTAATTTGGTTGTAATAA
1 TTATAAATTGAGTAATATGGTTGTAATAA
*
103486 TTGATAAATTGAGT-ATATGGTTGTTATAA
1 TT-ATAAATTGAGTAATATGGTTGTAATAA
*
103515 TTATAAATAGAGT
1 TTATAAATTGAGT
103528 GACTAGGGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 12 0.32
29 17 0.46
30 8 0.22
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (29 bp):
TTATAAATTGAGTAATATGGTTGTAATAA
Found at i:106341 original size:17 final size:18
Alignment explanation
Indices: 106305--106341 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
106295 CTTGCTTCCT
*
106305 CCTTCTCTATCTTATCTA
1 CCTTCTCTACCTTATCTA
106323 CCTTCTCTACCTT-TCTA
1 CCTTCTCTACCTTATCTA
106340 CC
1 CC
106342 ATTAAGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.14, C:0.41, G:0.00, T:0.46
Consensus pattern (18 bp):
CCTTCTCTACCTTATCTA
Found at i:107521 original size:29 final size:30
Alignment explanation
Indices: 107488--107551 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
107478 AGACTTCCAA
*
107488 ATTTTAATTTATTTTGGTTTT-TCCCTCCC
1 ATTTTAATTTATTTTGATTTTGTCCCTCCC
** *
107517 ATTTTGGTTTATTTTGATTTTGTCCCTCCT
1 ATTTTAATTTATTTTGATTTTGTCCCTCCC
107547 ATTTT
1 ATTTT
107552 CTATTGTTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.12, C:0.17, G:0.09, T:0.61
Consensus pattern (30 bp):
ATTTTAATTTATTTTGATTTTGTCCCTCCC
Found at i:110217 original size:118 final size:119
Alignment explanation
Indices: 109757--110217 Score: 308
Period size: 118 Copynumber: 3.8 Consensus size: 119
109747 CCTGTCTCGG
* * * * * *
109757 TATAGAATAAGGAATTAATTAAAA-AATAAT-ATCTTTAAAAAGGAAATTACATTATTGTCCTCA
1 TATAAAATAAGGACTTAATTAAAATAATAATAAT-TTT-TAAA-GAAATTATATTATTATCCTCG
* * * * * *
109820 GATCGGGTCGA---AATTTTTTCATCCTCCACCCGAATCTAACCCGACCTGCCCCGA
63 GATCGGATCGATCGAAGTTTTTCACCCTCCACCTGAATCTAACCCAACCTGACCCGA
* * * *
109874 TATAATATAAGAACTTAATTAAAATAATAATGATTTTTAAA-ATATATTAAATTATTATCCTCAG
1 TATAAAATAAGGACTTAATTAAAATAATAATAATTTTTAAAGA-A-ATTATATTATTATCCTC-G
* * * * * * *
109938 GTCAGGTCAGGTTCGGTCGGAA-TTTTTTAACCTCCACCTAAATCTAACCCAACCCGA-CCTA
63 G--A--TC-GGATCGATC-GAAGTTTTTCACCCTCCACCTGAATCTAACCCAACCTGACCCGA
* * *
109999 GTATAGAATAAGGGA-TTAGTTAAAATAATAATAATTTTTTAAAAGAAATTACT-TTATTATCTT
1 -TATAAAATAA-GGACTTAATTAAAATAATAATAA-TTTTT-AAAGAAATTA-TATTATTATCCT
* ** * *
110062 CGGATC-GA--G-TCAAAGTTTTTTTTCCCTACAGCC-GAATC-AGACTCAACCTGACCCGA
61 CGGATCGGATCGATCGAAG-TTTTTCACCCTCCA-CCTGAATCTA-ACCCAACCTGACCCGA
* *
110118 TATAAAATAAGGACTTAATTAAAATAATAAT-ATTTTTAAAGAAATTATATTATTGTCCTCGGGT
1 TATAAAATAAGGACTTAATTAAAATAATAATAATTTTTAAAGAAATTATATTATTATCCTCGGAT
* *
110182 CGAATCGATCGGAGTTTTTCACCCTCCACCTGAATC
66 CGGATCGATCGAAGTTTTTCACCCTCCACCTGAATC
110218 CGACCATACC
Statistics
Matches: 267, Mismatches: 45, Indels: 63
0.71 0.12 0.17
Matches are distributed among these distances:
114 1 0.00
115 24 0.09
116 9 0.03
117 47 0.18
118 77 0.29
119 11 0.04
120 2 0.01
122 4 0.01
123 5 0.02
124 1 0.00
125 3 0.01
126 55 0.21
127 23 0.09
128 4 0.01
129 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.33
Consensus pattern (119 bp):
TATAAAATAAGGACTTAATTAAAATAATAATAATTTTTAAAGAAATTATATTATTATCCTCGGAT
CGGATCGATCGAAGTTTTTCACCCTCCACCTGAATCTAACCCAACCTGACCCGA
Found at i:111106 original size:35 final size:35
Alignment explanation
Indices: 111067--111146 Score: 108
Period size: 35 Copynumber: 2.3 Consensus size: 35
111057 AAAACAGTCA
111067 TTAATTATATTCTAAACC-CTAAATTCCAAAATACT
1 TTAATTATATTCTAAACCTC-AAATTCCAAAATACT
* * *
111102 TTAATCACATTCTAAACCTCGAATTCCAAAATACT
1 TTAATTATATTCTAAACCTCAAATTCCAAAATACT
*
111137 TCAATTATAT
1 TTAATTATAT
111147 ATTCAACCCC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 37 0.97
36 1 0.03
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.36
Consensus pattern (35 bp):
TTAATTATATTCTAAACCTCAAATTCCAAAATACT
Found at i:111162 original size:35 final size:35
Alignment explanation
Indices: 111072--111162 Score: 85
Period size: 35 Copynumber: 2.5 Consensus size: 35
111062 AGTCATTAAT
* *
111072 TATATTCTAAACCCTAAATTCCAAAATACTTTAATCA
1 TATATTC--AACCCCAAATTCCAAAATACTTCAATCA
* * * * *
111109 CAT-TCTAAACCTCGAATTCCAAAATACTTCAATTA
1 TATAT-TCAACCCCAAATTCCAAAATACTTCAATCA
111144 TATATTCAACCCCAAATTC
1 TATATTCAACCCCAAATTC
111163 ATAATTTATT
Statistics
Matches: 41, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
35 36 0.88
36 2 0.05
37 3 0.07
ACGTcount: A:0.41, C:0.25, G:0.01, T:0.33
Consensus pattern (35 bp):
TATATTCAACCCCAAATTCCAAAATACTTCAATCA
Found at i:111936 original size:143 final size:144
Alignment explanation
Indices: 111647--111936 Score: 449
Period size: 148 Copynumber: 2.0 Consensus size: 144
111637 AAAAACTATT
* *
111647 TAAATTAAAATCAAATAATATTATAGTATTATAAAAATTTATAATTAAATTTAAACAGAAACTCG
1 TAAATTAAAATCAAATAATATTATAATATGATAAAAATTTATAATTAAATTTAAACAGAAACTCG
111712 AAAATTCAATTCAATTTGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAAATTGAGTCAA
66 AAAATTCAATTC----TGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAAATTGAGTCAA
*
111777 CTATTTTATAAGCTGAAC
127 CTATTTTATAAACTGAAC
*
111795 TAAATTAGAATCAAATAATATTATAATATGA-AAAATATTTATAATTAAATTTAAACAGAAACTC
1 TAAATTAAAATCAAATAATATTATAATATGATAAAA-ATTTATAATTAAATTTAAACAGAAACTC
* ***
111859 GAAAATTCAATTC-GACTTGATTTAAATTTTATAAATTCAAATCGAAAAATTTTTGAGTCAACTA
65 GAAAATTCAATTCTGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAAATTGAGTCAACTA
111923 TTTTATAAACTGAA
130 TTTTATAAACTGAA
111937 TTGAGTATTT
Statistics
Matches: 133, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
143 60 0.45
147 4 0.03
148 69 0.52
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (144 bp):
TAAATTAAAATCAAATAATATTATAATATGATAAAAATTTATAATTAAATTTAAACAGAAACTCG
AAAATTCAATTCTGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAAATTGAGTCAACTAT
TTTATAAACTGAAC
Found at i:112188 original size:35 final size:35
Alignment explanation
Indices: 112109--112188 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
112099 GAGGCTGGGC
* * * *
112109 ATGTAATTTAAGTATTTTGAAATTTGAATTTTAGA
1 ATGTAATTGAAGCATTTTGAAATTTGAAGTTTAAA
* * * *
112144 ATTTTATTGAAGCATTTTGAATTTTGAGGTTTAAA
1 ATGTAATTGAAGCATTTTGAAATTTGAAGTTTAAA
112179 ATGTAATTGA
1 ATGTAATTGA
112189 TAATTGTTTT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.47
Consensus pattern (35 bp):
ATGTAATTGAAGCATTTTGAAATTTGAAGTTTAAA
Found at i:113703 original size:28 final size:27
Alignment explanation
Indices: 113672--113757 Score: 75
Period size: 28 Copynumber: 3.1 Consensus size: 27
113662 TTATATTGTA
*
113672 ATATGATAAAATTAATAATTATTTTAT
1 ATATTATAAAATTAATAATTATTTTAT
* ** *
113699 CATATTTTAATAATTTTTAATAATTTT-T
1 -ATATTATAA-AATTAATAATTATTTTAT
*
113727 ATAATTACTGAAATTAATAATTATTTTAT
1 AT-ATTA-TAAAATTAATAATTATTTTAT
113756 AT
1 AT
113758 TATTTTATTT
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
27 2 0.05
28 24 0.55
29 18 0.41
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (27 bp):
ATATTATAAAATTAATAATTATTTTAT
Found at i:113716 original size:10 final size:10
Alignment explanation
Indices: 113683--113732 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
113673 TATGATAAAA
113683 TTAATAATTAT
1 TTAATAATT-T
* *
113694 TTTATCATATT
1 TTAATAAT-TT
113705 TTAATAATTT
1 TTAATAATTT
113715 TTAATAATTT
1 TTAATAATTT
113725 TT-ATAATT
1 TTAATAATT
113733 ACTGAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 6 0.18
10 14 0.41
11 13 0.38
12 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
TTAATAATTT
Found at i:113724 original size:19 final size:22
Alignment explanation
Indices: 113683--113733 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 22
113673 TATGATAAAA
*
113683 TTAATAATTATTTTATCATATT
1 TTAATAATTATTTAATCATATT
113705 TTAATAATT-TTTAAT-A-ATT
1 TTAATAATTATTTAATCATATT
*
113724 TTTATAATTA
1 TTAATAATTA
113734 CTGAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 11 0.42
20 1 0.04
21 5 0.19
22 9 0.35
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
TTAATAATTATTTAATCATATT
Found at i:117403 original size:22 final size:22
Alignment explanation
Indices: 117378--117448 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
117368 AAGTGTCGTA
117378 GCACTAATACTAAAGTGCAT-T
1 GCACTAATACTAAAGTGCATAT
* *
117399 CGCACTAA-ATCAAAAGTACATAT
1 -GCACTAATA-CTAAAGTGCATAT
*
117422 GCACTGATACTAAAGTGCCATA-
1 GCACTAATACTAAAGTG-CATAT
117444 GCACT
1 GCACT
117449 GCGTATGAGC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
21 1 0.03
22 33 0.82
23 6 0.15
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (22 bp):
GCACTAATACTAAAGTGCATAT
Found at i:117489 original size:21 final size:21
Alignment explanation
Indices: 117454--117517 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 21
117444 GCACTGCGTA
* *
117454 TGAGCATGTCAGTATCGATAT
1 TGAGCATATCGGTATCGATAT
* *
117475 TGAGCATATCGGTATTGATAC
1 TGAGCATATCGGTATCGATAT
* * *
117496 TGACCCTA-GGGTATCGATAT
1 TGAGCATATCGGTATCGATAT
117516 TG
1 TG
117518 TCCTTAGTAT
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
20 11 0.32
21 23 0.68
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (21 bp):
TGAGCATATCGGTATCGATAT
Found at i:120418 original size:48 final size:48
Alignment explanation
Indices: 120361--120455 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
120351 CATCAAGTGT
*
120361 AAATTTCAAATATTTCGAACGTTGGAACACTTAGTGCATCGGTGCACC
1 AAATTTCAAATATTTCGAACGTTGGAACACTTAGTGCATCAGTGCACC
*
120409 AAATTTCAAATATTTCGACCGTTGGAACACTTAGTGCATCAGTGCAC
1 AAATTTCAAATATTTCGAACGTTGGAACACTTAGTGCATCAGTGCAC
120456 TAAGGGTGCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (48 bp):
AAATTTCAAATATTTCGAACGTTGGAACACTTAGTGCATCAGTGCACC
Found at i:120529 original size:64 final size:64
Alignment explanation
Indices: 120461--120615 Score: 242
Period size: 64 Copynumber: 2.4 Consensus size: 64
120451 TGCACTAAGG
* *
120461 GTGCATCGATGCATAAAATGCATTCGATG-TTTCA-AACAAGCCTGAGTGCATCGATGCATGGTC
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCATAA-AAACCTGAGTGCATCGATGCATGG-A
*
120524 T
64 A
*
120525 GTGCATCGATGCATAAAATGCATTCGATGTTTTTATAAAAACCTGAGTGCATCGATGCATGGAA
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAAACCTGAGTGCATCGATGCATGGAA
120589 GTGCATCGATGCATAAAATGCATTCGA
1 GTGCATCGATGCATAAAATGCATTCGA
120616 AATGGTGAGT
Statistics
Matches: 85, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
64 56 0.66
65 27 0.32
66 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAAACCTGAGTGCATCGATGCATGGAA
Found at i:120615 original size:18 final size:18
Alignment explanation
Indices: 120572--120611 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
120562 AAAACCTGAG
* *
120572 TGCATCGATGCATGGAAG
1 TGCATCGATGCATGAAAA
120590 TGCATCGATGCAT-AAAA
1 TGCATCGATGCATGAAAA
120607 TGCAT
1 TGCAT
120612 TCGAAATGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (18 bp):
TGCATCGATGCATGAAAA
Found at i:121656 original size:27 final size:27
Alignment explanation
Indices: 121626--121680 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
121616 AGCTGGTGCC
* *
121626 GGTGGAGGTGGAGCACGCGAAGAACTA
1 GGTGCAGGAGGAGCACGCGAAGAACTA
* *
121653 GGTGCAGGAGGAGCTCGTGAAGAACTA
1 GGTGCAGGAGGAGCACGCGAAGAACTA
121680 G
1 G
121681 CTCCCGGAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.15, G:0.44, T:0.13
Consensus pattern (27 bp):
GGTGCAGGAGGAGCACGCGAAGAACTA
Found at i:121689 original size:27 final size:27
Alignment explanation
Indices: 121635--121689 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
121625 CGGTGGAGGT
* *
121635 GGAGCACGCGAAGAACTAGGTGCAGGA
1 GGAGCACGCGAAGAACTAGCTCCAGGA
* * *
121662 GGAGCTCGTGAAGAACTAGCTCCCGGA
1 GGAGCACGCGAAGAACTAGCTCCAGGA
121689 G
1 G
121690 TTTGCTCAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.22, G:0.38, T:0.11
Consensus pattern (27 bp):
GGAGCACGCGAAGAACTAGCTCCAGGA
Found at i:123277 original size:21 final size:21
Alignment explanation
Indices: 123253--123316 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 21
123243 TTGGTGCATC
123253 TTCATGATGTATCGATGCACA
1 TTCATGATGTATCGATGCACA
* *
123274 TTCAAAGGGATGCATCGATGCACA
1 TTC--A-TGATGTATCGATGCACA
123298 TTCAT-ATTGTATCGATGCA
1 TTCATGA-TGTATCGATGCA
123317 TTATGCACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 1 0.03
21 14 0.40
22 1 0.03
23 1 0.03
24 18 0.51
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (21 bp):
TTCATGATGTATCGATGCACA
Found at i:123309 original size:45 final size:44
Alignment explanation
Indices: 123219--123316 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 44
123209 GGCATTGTGC
* * *
123219 ATCGATGCACATTCAAGTAGTGCATTGGTGCATCTTCATGATGT
1 ATCGATGCACATTCAAGGAGTGCATCGATGCATCTTCATGATGT
123263 ATCGATGCACATTCAAAGG-GATGCATCGATGCA-CATTCAT-ATTGT
1 ATCGATGCACATTC-AAGGAG-TGCATCGATGCATC-TTCATGA-TGT
123308 ATCGATGCA
1 ATCGATGCA
123317 TTATGCACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
44 17 0.36
45 30 0.64
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGAGTGCATCGATGCATCTTCATGATGT
Found at i:128829 original size:20 final size:20
Alignment explanation
Indices: 128804--128842 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
128794 TTCGAAATGG
128804 TGAGTGCATCGATGCATCAA
1 TGAGTGCATCGATGCATCAA
*
128824 TGAGTGCATCGGTGCATCA
1 TGAGTGCATCGATGCATCA
128843 CTTCATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (20 bp):
TGAGTGCATCGATGCATCAA
Found at i:132283 original size:41 final size:42
Alignment explanation
Indices: 132218--132303 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 42
132208 ACTAAGTAAA
132218 CATGTATTGTGGGGGAACTATCAAGGAGAGTCAAACCACAAG
1 CATGTATTGTGGGGGAACTATCAAGGAGAGTCAAACCACAAG
132260 CATGTATTGT-GGGGAACTATCAAGGAGAGTCAAACCACAAG
1 CATGTATTGTGGGGGAACTATCAAGGAGAGTCAAACCACAAG
132301 CAT
1 CAT
132304 CGTGTGCCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 34 0.77
42 10 0.23
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.20
Consensus pattern (42 bp):
CATGTATTGTGGGGGAACTATCAAGGAGAGTCAAACCACAAG
Found at i:135747 original size:30 final size:30
Alignment explanation
Indices: 135706--135774 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
135696 AATGGACATA
* * *
135706 CCACGTGGACATGCCATGTCAGCATTTAGT
1 CCACATGGACATACCACGTCAGCATTTAGT
* *
135736 CTACATGGACATACCACGTTAGCATTTAGT
1 CCACATGGACATACCACGTCAGCATTTAGT
135766 CCACATGGA
1 CCACATGGA
135775 TCTGCCACAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (30 bp):
CCACATGGACATACCACGTCAGCATTTAGT
Found at i:149516 original size:55 final size:54
Alignment explanation
Indices: 149457--149614 Score: 149
Period size: 55 Copynumber: 2.9 Consensus size: 54
149447 GATAAGTGAG
*
149457 ACTTGAAAAATTCTTCAAAATCGGGTTCGCTCCCTATCGTTTCAGGGAACATAGA
1 ACTTGAAAAATTCTTCAAAA-CGGGTTCGCTCCCTATTGTTTCAGGGAACATAGA
**** * **
149512 ACTTGAAGAATATTC-TGGGGACGGGTTCACTCCCTATTGTTTCAGGGAGTATAGA
1 ACTTGAA-AA-ATTCTTCAAAACGGGTTCGCTCCCTATTGTTTCAGGGAACATAGA
* * **
149567 ACTCGAATAA-TCTTCTGCTAACGGGTTCGCTCCCTATTGTTTCAGGGA
1 ACTTGAAAAATTCTTC--AAAACGGGTTCGCTCCCTATTGTTTCAGGGA
149615 GTATGGAACT
Statistics
Matches: 83, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
52 2 0.02
53 2 0.02
54 1 0.01
55 70 0.84
56 4 0.05
57 4 0.05
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (54 bp):
ACTTGAAAAATTCTTCAAAACGGGTTCGCTCCCTATTGTTTCAGGGAACATAGA
Found at i:149615 original size:55 final size:54
Alignment explanation
Indices: 149475--149957 Score: 341
Period size: 55 Copynumber: 8.9 Consensus size: 54
149465 AATTCTTCAA
* ** * * * **
149475 AATCGGGTTCGCTCCCTATCGTTTCAGGGAACATAGAACTTGAAGAATATTCTGGG
1 AATCGGGTTCGCTCCCTAT-TTTTCAGGGAGTATAGAACTCGAACAATCTTCT-AC
* * * *
149531 GA-CGGGTTCACTCCCTATTGTTTCAGGGAGTATAGAACTCGAATAATCTTCTGC
1 AATCGGGTTCGCTCCCTATT-TTTCAGGGAGTATAGAACTCGAACAATCTTCTAC
* *
149585 TAA-CGGGTTCGCTCCCTATTGTTTCAGGGAGTATGGAACTCGAACAATCTTCTGC
1 -AATCGGGTTCGCTCCCTATT-TTTCAGGGAGTATAGAACTCGAACAATCTTCTAC
* * * * * * *
149640 AAGCGGGTTC-ATCCCTCTTTATCTA-GGAGTGTGGAACTCGAAC-GTCTT-TA-
1 AATCGGGTTCGCTCCCTATTTTTC-AGGGAGTATAGAACTCGAACAATCTTCTAC
* * * * *
149690 AA-CGGGTTCACTCCCT-CTTTTCAGGGAGAATAGAACTCGAA-TATCTTCTTC
1 AATCGGGTTCGCTCCCTATTTTTCAGGGAGTATAGAACTCGAACAATCTTCTAC
* * * * *
149741 AAACGGGTTTGCTCCCTCTTTCTCTAGGGAGTAT-GAAACTCGAACAATCTTCAAC
1 AATCGGGTTCGCTCCCTATTTTTC-AGGGAGTATAG-AACTCGAACAATCTTCTAC
* * *
149796 AATCGTG-TCTGCTCCCTATTTCTTCAGAGAGTAT-GAGACTCGAACAATCTTCAAC
1 AATCGGGTTC-GCTCCCTATTT-TTCAGGGAGTATAGA-ACTCGAACAATCTTCTAC
** * *
149851 AATCATG-TCTGCTCCCTATTTCTTCAGAGAGTAT-GAGACTCGAACAATCTTCAAC
1 AATCGGGTTC-GCTCCCTATTT-TTCAGGGAGTATAGA-ACTCGAACAATCTTCTAC
* * *
149906 AATCGTG-TCTGCTCCCTATTTCTTCAGAGAGTATAGGACTCGAACAATCTTC
1 AATCGGGTTC-GCTCCCTATTT-TTCAGGGAGTATAGAACTCGAACAATCTTC
149958 AATAATCGTT
Statistics
Matches: 365, Mismatches: 44, Indels: 37
0.82 0.10 0.08
Matches are distributed among these distances:
48 1 0.00
49 29 0.08
50 8 0.02
51 3 0.01
52 16 0.04
53 25 0.07
54 29 0.08
55 250 0.68
56 4 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (54 bp):
AATCGGGTTCGCTCCCTATTTTTCAGGGAGTATAGAACTCGAACAATCTTCTAC
Found at i:149726 original size:102 final size:105
Alignment explanation
Indices: 149586--149785 Score: 257
Period size: 102 Copynumber: 1.9 Consensus size: 105
149576 ATCTTCTGCT
* * * * *
149586 AACGGGTTCGCTCCCTATTGTTTCAGGGAGTATGGAACTCGAACAATCTTCTGCAAGCGGG-TT-
1 AACGGGTTCACTCCCTACTGTTTCAGGGAGAATAGAACTCGAA-AATCTTCTGCAAACGGGTTTG
* *
149649 CATCCCTCTTTATCTA-GGAGTGTGGAACTCGAACGTCTTTA
65 C-TCCCTCTTTATCTAGGGAGTATGAAACTCGAACGTCTTTA
* *
149690 AACGGGTTCACTCCCT-CT-TTTCAGGGAGAATAGAACTCGAATATCTTCTTCAAACGGGTTTGC
1 AACGGGTTCACTCCCTACTGTTTCAGGGAGAATAGAACTCGAAAATCTTCTGCAAACGGGTTTGC
*
149753 TCCCTCTTTCTCTAGGGAGTATGAAACTCGAAC
66 TCCCTCTTTATCTAGGGAGTATGAAACTCGAAC
149786 AATCTTCAAC
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
101 14 0.17
102 36 0.43
103 18 0.22
104 15 0.18
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.30
Consensus pattern (105 bp):
AACGGGTTCACTCCCTACTGTTTCAGGGAGAATAGAACTCGAAAATCTTCTGCAAACGGGTTTGC
TCCCTCTTTATCTAGGGAGTATGAAACTCGAACGTCTTTA
Found at i:149958 original size:55 final size:55
Alignment explanation
Indices: 149750--149966 Score: 357
Period size: 55 Copynumber: 3.9 Consensus size: 55
149740 CAAACGGGTT
* * *
149750 TGCTCCCTCTTTC-TCTAGGGAGTATGAAACTCGAACAATCTTCAACAATCGTGTC
1 TGCTCCCTATTTCTTC-AGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTC
*
149805 TGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCATGTC
1 TGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTC
149860 TGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTC
1 TGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTC
*
149915 TGCTCCCTATTTCTTCAGAGAGTAT-AGGACTCGAACAATCTTCAATAATCGT
1 TGCTCCCTATTTCTTCAGAGAGTATGA-GACTCGAACAATCTTCAACAATCGT
149967 TGGGAAATCT
Statistics
Matches: 154, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
54 1 0.01
55 151 0.98
56 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (55 bp):
TGCTCCCTATTTCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTC
Found at i:151033 original size:32 final size:32
Alignment explanation
Indices: 150973--151033 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
150963 TTTTTCATTT
* *
150973 TTTTCATTCATTTTTTATTTTTTATTTTTTCA
1 TTTTCACTCATTTTTTATTTTCTATTTTTTCA
*
151005 TTTTCACTCATTTTTTCTTCTTCT-TTTTT
1 TTTTCACTCATTTTTTATT-TTCTATTTTT
151034 CTTCAAGCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 22 0.88
33 3 0.12
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (32 bp):
TTTTCACTCATTTTTTATTTTCTATTTTTTCA
Done.