Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 88 of 113
Found at i:18283946 original size:20 final size:20
Alignment explanation
Indices: 18283921--18283958 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
18283911 ACAAATTTCT
18283921 AATTTTGATAATAATTTCCC
1 AATTTTGATAATAATTTCCC
*
18283941 AATTTTGCTAATAATTTC
1 AATTTTGATAATAATTTC
18283959 ATAAATTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.13, G:0.05, T:0.47
Consensus pattern (20 bp):
AATTTTGATAATAATTTCCC
Found at i:18284226 original size:28 final size:29
Alignment explanation
Indices: 18284183--18284266 Score: 75
Period size: 28 Copynumber: 2.9 Consensus size: 29
18284173 TTCCATTATC
* *
18284183 CACAAATTCAATAATAAATTAAAAATTTT
1 CACAAATTTAACAATAAATTAAAAATTTT
* *
18284212 CA-AAATTTTACAAT-AATCATATAAA-TTT
1 CACAAATTTAACAATAAAT--TAAAAATTTT
* *
18284240 CACAAATTTAACAAAAAATAAAAAATT
1 CACAAATTTAACAATAAATTAAAAATT
18284267 AATAACTCTA
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
27 3 0.07
28 18 0.43
29 18 0.43
30 3 0.07
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (29 bp):
CACAAATTTAACAATAAATTAAAAATTTT
Found at i:18284426 original size:21 final size:23
Alignment explanation
Indices: 18284373--18284429 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
18284363 TTAATTAATT
*
18284373 AAAT-TATTAATTAAAAATATAGA
1 AAATATATTAAAT-AAAATATAGA
*
18284396 AAATATATTAAATAAAATTTA-A
1 AAATATATTAAATAAAATATAGA
18284418 AAATA-ATTAAAT
1 AAATATATTAAAT
18284430 TACGTGATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 7 0.23
22 6 0.19
23 11 0.35
24 7 0.23
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
AAATATATTAAATAAAATATAGA
Found at i:18293410 original size:22 final size:23
Alignment explanation
Indices: 18293382--18293432 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
18293372 ACTCCTATAT
18293382 AATAAAATCATA-TATAATA-AAC
1 AATAAAATCATATTATAA-ACAAC
18293404 AATAAAATCATATTATAAACAAC
1 AATAAAATCATATTATAAACAAC
18293427 AATAAA
1 AATAAA
18293433 CAACACTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (23 bp):
AATAAAATCATATTATAAACAAC
Found at i:18293701 original size:60 final size:60
Alignment explanation
Indices: 18293602--18293727 Score: 175
Period size: 60 Copynumber: 2.1 Consensus size: 60
18293592 AGAGGGTGGA
* * * *
18293602 ACCAAATTGACACACATTTGGGCAATTGATGACTCAATTAGAACTTTTCAAAGTTTAGGG
1 ACCAAATTAACACACATTTGGGCAATTGAAGACTCAATTAGAAATTTTCAAAGTTTAAGG
* *
18293662 ACCAAATTAACGCACGTTTGGGCAATTGAAGAC-CTAATTAGAAATTTTCAAAGTTTAAGG
1 ACCAAATTAACACACATTTGGGCAATTGAAGACTC-AATTAGAAATTTTCAAAGTTTAAGG
18293722 A-CAAAT
1 ACCAAAT
18293728 ATAAAATCTG
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
59 6 0.10
60 53 0.90
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (60 bp):
ACCAAATTAACACACATTTGGGCAATTGAAGACTCAATTAGAAATTTTCAAAGTTTAAGG
Found at i:18294071 original size:24 final size:24
Alignment explanation
Indices: 18294018--18294064 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
18294008 TGGGACTGAG
*
18294018 AATGAAGAATCTAACTATATGGAC
1 AATGAAGAATCTAACTATAGGGAC
* *
18294042 AATGAAGACTCTGACTATAGGGA
1 AATGAAGAATCTAACTATAGGGA
18294065 TAGTGAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (24 bp):
AATGAAGAATCTAACTATAGGGAC
Found at i:18297307 original size:17 final size:17
Alignment explanation
Indices: 18297285--18297317 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
18297275 GAACATAATC
18297285 ATATTACACAAAATATG
1 ATATTACACAAAATATG
18297302 ATATTACACAAAATAT
1 ATATTACACAAAATAT
18297318 AATCATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (17 bp):
ATATTACACAAAATATG
Found at i:18297327 original size:20 final size:19
Alignment explanation
Indices: 18297279--18297331 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
18297269 TGATATGAAC
18297279 ATAATCATATTACAC-AAA
1 ATAATCATATTACACAAAA
*
18297297 AT-ATGATATTACACAAAA
1 ATAATCATATTACACAAAA
18297315 TATAATCATATTACACA
1 -ATAATCATATTACACA
18297332 GTTTACAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 11 0.37
18 5 0.17
19 2 0.07
20 12 0.40
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAATCATATTACACAAAA
Found at i:18311656 original size:11 final size:11
Alignment explanation
Indices: 18311625--18311650 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18311615 AGAAGAAGGA
18311625 AAAAGAAAAAG
1 AAAAGAAAAAG
18311636 AAAAGAAAAAG
1 AAAAGAAAAAG
18311647 AAAA
1 AAAA
18311651 TTAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:18311656 original size:17 final size:17
Alignment explanation
Indices: 18311609--18311650 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
18311599 ACCGGATAAG
* *
18311609 AAAAGAAGAAG-AAGGA
1 AAAAGAAAAAGAAAAGA
18311625 AAAAGAAAAAGAAAAGA
1 AAAAGAAAAAGAAAAGA
18311642 AAAAGAAAA
1 AAAAGAAAA
18311651 TTAAAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAGAAAAGA
Found at i:18311939 original size:48 final size:47
Alignment explanation
Indices: 18311880--18312019 Score: 192
Period size: 47 Copynumber: 2.9 Consensus size: 47
18311870 TTAAAAAAAA
* * *
18311880 TAAAAAAAAAGCTACTCCAAGCAGAGACTCAACAACTTTTGAAAATTT
1 TAAAAAAAAAGCT-CTCTAAGCAGAGGCTCAACAACTTTTAAAAATTT
18311928 TAAAAAAAAAGCTCCTCTAAGCAGAGGCTCAACAAC-TTTAAAAATTT
1 TAAAAAAAAAGCT-CTCTAAGCAGAGGCTCAACAACTTTTAAAAATTT
* * *
18311975 TAAAAAAAAAACTCATCTAAGTAGAGGCTCAACAACTTTAAAAAA
1 TAAAAAAAAAGCTC-TCTAAGCAGAGGCTCAACAACTTTTAAAAA
18312020 AATTTCATCT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
46 1 0.01
47 42 0.51
48 40 0.48
ACGTcount: A:0.50, C:0.18, G:0.10, T:0.22
Consensus pattern (47 bp):
TAAAAAAAAAGCTCTCTAAGCAGAGGCTCAACAACTTTTAAAAATTT
Found at i:18312037 original size:148 final size:149
Alignment explanation
Indices: 18311884--18312314 Score: 346
Period size: 148 Copynumber: 2.9 Consensus size: 149
18311874 AAAAAATAAA
*
18311884 AAAAAAGCTAC-TC-CAAGCAGAGACTCAACAACTTTTGAAAA-TTT-T-AAAAAAAAAGCTCCT
1 AAAAAAG-TACTTCTCAA-CAGAG-CTCAACAAC-TTT-AAAAGTTTATCAAAAAAAAAGCTCAT
18311944 CTAAGCAGAGGCTCAACAACTTTAAAAATTT-TAAAAAAAAAACTCATCTAAGTAGAGGCTCAAC
61 CTAAGCAGAGGCTCAACAACTTTAAAAATTTATAAAAAAAAAACTCATCTAAGTAGAGGCTCAAC
18312008 AACTTTAAAAAAAATTTCATCTTG
126 AACTTTAAAAAAAATTTCATCTTG
* * * *** *
18312032 AAAAAAGTTCTTCTCAATAGAGGTCAACAACTTTAAAAGTTTATCTTGAAAAAAGCTCATCTCAG
1 AAAAAAGTACTTCTCAACAGAGCTCAACAACTTTAAAAGTTTATCAAAAAAAAAGCTCATCTAAG
* * **** * * *
18312097 CAGAGGCTCAACAATTTTTAAAATTTATCTTGAAAAAGCTCATTTCAGTAGAGGCTCAACAACTT
66 CAGAGGCTCAACAACTTTAAAAATTTATAAAAAAAAAACTCATCTAAGTAGAGGCTCAACAACTT
* *
18312162 T--AAAAAATCTCATATTG
131 TAAAAAAAATTTCATCTTG
** * * ***
18312179 -AAAAAG-ACTTCTTTCAGTAGAAGCTCAACAACTTTAAAAATCTCATC-TTGAAAAAGCTCATC
1 AAAAAAGTACTTC--TCAACAG-AGCTCAACAACTTTAAAAGT-TTATCAAAAAAAAAGCTCATC
* * * * *** * * * * * *
18312241 TTAGCAGAAGCTTAACAAATTT-AAAATTTATCTTAGAAAAGCTCATCTCAGTATAGACTCAATA
62 TAAGCAGAGGCTCAACAACTTTAAAAATTTATAAAAAAAAAACTCATCTAAGTAGAGGCTCAACA
18312305 ACTTTAAAAA
127 ACTTTAAAAA
18312315 TCTCATCTTA
Statistics
Matches: 235, Mismatches: 36, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
145 8 0.03
146 12 0.05
147 72 0.31
148 101 0.43
149 42 0.18
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.28
Consensus pattern (149 bp):
AAAAAAGTACTTCTCAACAGAGCTCAACAACTTTAAAAGTTTATCAAAAAAAAAGCTCATCTAAG
CAGAGGCTCAACAACTTTAAAAATTTATAAAAAAAAAACTCATCTAAGTAGAGGCTCAACAACTT
TAAAAAAAATTTCATCTTG
Found at i:18312219 original size:50 final size:49
Alignment explanation
Indices: 18311994--18312476 Score: 373
Period size: 50 Copynumber: 9.7 Consensus size: 49
18311984 AACTCATCTA
* *
18311994 AGTAGAGGCTCAACAACTTTAAAAAAAATTTCATCTTGAAAAAAG-TTCTTCTC
1 AGTAGAAGCTCAACAACTTT---AAAAATCTCATCTTG-AAAAAGCTTCTT-TC
* * * * *
18312047 AATAG-AGGTCAACAACTTTAAAAGT-TTATCTTGAAAAAAGC-TCATCTC
1 AGTAGAAGCTCAACAACTTTAAAAATCTCATCTTG-AAAAAGCTTC-TTTC
* * * * *
18312095 AGCAGAGGCTCAACAATTTTTAAAAT-TTATCTTGAAAAAGC-TCATTTC
1 AGTAGAAGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTTC-TTTC
* *
18312143 AGTAGAGGCTCAACAACTTTAAAAAATCTCATATTGAAAAAGACTTCTTTC
1 AGTAGAAGCTCAACAACTTT-AAAAATCTCATCTTGAAAAAG-CTTCTTTC
18312194 AGTAGAAGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGC-TCATCTT-
1 AGTAGAAGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTTC-T-TTC
* * * * *
18312243 AGCAGAAGCTTAACAAATTT-AAAAT-TTATCTT-AGAAAAGC-TCATCTC
1 AGTAGAAGCTCAACAACTTTAAAAATCTCATCTTGA-AAAAGCTTC-TTTC
* * * *
18312290 AGTA-TAGACTCAATAACTTTAAAAATCTCATCTTAGAAAAGGCTTCTCTC
1 AGTAGAAG-CTCAACAACTTTAAAAATCTCATCTT-GAAAAAGCTTCTTTC
*
18312340 AGTA-AAGGCTCAACAACTTTAAAAATCTCATCTTAAAAAAAGGCTTCTTTC
1 AGTAGAA-GCTCAACAACTTTAAAAATCTCATCTT-GAAAAA-GCTTCTTTC
* * * * *
18312391 AGCAGATGCTCAACAACTTTAAAAAAAATCTTATCTTGAAAAATGCTCCTCTC
1 AGTAGAAGCTCAACAACTTT---AAAAATCTCATCTTGAAAAA-GCTTCTTTC
** *
18312444 AACAGAGGCTCAACAACTTTAAAAATCTCATCT
1 AGTAGAAGCTCAACAACTTTAAAAATCTCATCT
18312477 GTTCTCGAAC
Statistics
Matches: 359, Mismatches: 48, Indels: 49
0.79 0.11 0.11
Matches are distributed among these distances:
46 4 0.01
47 28 0.08
48 64 0.18
49 59 0.16
50 90 0.25
51 52 0.14
52 15 0.04
53 34 0.09
54 13 0.04
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.30
Consensus pattern (49 bp):
AGTAGAAGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGCTTCTTTC
Found at i:18312354 original size:197 final size:198
Alignment explanation
Indices: 18311933--18312467 Score: 561
Period size: 197 Copynumber: 2.7 Consensus size: 198
18311923 AATTTTAAAA
* * * * * * *
18311933 AAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAT-T--T-TAAAAAAAAAAC-TCATCT
1 AAAAAGCTCATCTCAGTAAAGGCTCAACAACTTTAAAAATCTCATATTAAAAAAAGACTTC-TTT
* * * * * * *
18311993 AAGTAGAGGCTCAACAACTTTAAAAAAAATTTCATCTTGAAAAAAGTTCTTCTCAATAG-AGGTC
65 CAGTAGAAGCTCAACAACTTT--AAAAAATCTCATCTTG-AAAAAGCTCATCTCAACAGAAGCTC
* * *
18312057 AACAACTTTAAAAGTTTATCTTGAAAAAAGCTCATCTCAGCAGAGGCTCAACAATTTTTAAAATT
127 AACAACTTTAAAAGTTTATCTTGAAAAAAGCTCATCTCAGCAGAGACTCAACAACTTTAAAAATT
*
18312122 TATCTTG
192 CATCTTG
* * *
18312129 AAAAAGCTCATTTCAGTAGAGGCTCAACAACTTTAAAAAATCTCATATT-GAAAAAGACTTCTTT
1 AAAAAGCTCATCTCAGTAAAGGCTCAACAACTTT-AAAAATCTCATATTAAAAAAAGACTTCTTT
* * *
18312193 CAGTAGAAGCTCAACAACTTT-AAAAATCTCATCTTGAAAAAGCTCATCTTAGCAGAAGCTTAAC
65 CAGTAGAAGCTCAACAACTTTAAAAAATCTCATCTTGAAAAAGCTCATCTCAACAGAAGCTCAAC
* * * * *
18312257 AAATTTAAAA-TTTATCTT-AGAAAAGCTCATCTCAGTATAGACTCAATAACTTTAAAAATCTCA
130 AACTTTAAAAGTTTATCTTGAAAAAAGCTCATCTCAGCAGAGACTCAACAACTTTAAAAAT-TCA
18312320 TCTTAG
194 TCTT-G
* * *
18312326 AAAAGGCTTC-TCTCAGTAAAGGCTCAACAACTTTAAAAATCTCATCTTAAAAAAAGGCTTCTTT
1 AAAAAGC-TCATCTCAGTAAAGGCTCAACAACTTTAAAAATCTCATATTAAAAAAAGACTTCTTT
* * * * *
18312390 CAGCAGATGCTCAACAACTTTAAAAAAAATCTTATCTTGAAAAATGCTCCTCTCAACAGAGGCTC
65 CAGTAGAAGCTCAACAACTTT--AAAAAATCTCATCTTGAAAAA-GCTCATCTCAACAGAAGCTC
18312455 AACAACTTTAAAA
127 AACAACTTTAAAA
18312468 ATCTCATCTG
Statistics
Matches: 282, Mismatches: 42, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
195 34 0.12
196 71 0.25
197 96 0.34
198 3 0.01
200 48 0.17
201 30 0.11
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.29
Consensus pattern (198 bp):
AAAAAGCTCATCTCAGTAAAGGCTCAACAACTTTAAAAATCTCATATTAAAAAAAGACTTCTTTC
AGTAGAAGCTCAACAACTTTAAAAAATCTCATCTTGAAAAAGCTCATCTCAACAGAAGCTCAACA
ACTTTAAAAGTTTATCTTGAAAAAAGCTCATCTCAGCAGAGACTCAACAACTTTAAAAATTCATC
TTG
Found at i:18318151 original size:17 final size:17
Alignment explanation
Indices: 18318129--18318174 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
18318119 AGGTATTAGG
*
18318129 ATAATTATTGAAATTTT
1 ATAATTATTGAAAATTT
*
18318146 ATAATTGTTGAAAATTT
1 ATAATTATTGAAAATTT
18318163 ATAATTATTGAA
1 ATAATTATTGAA
18318175 TATTATAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (17 bp):
ATAATTATTGAAAATTT
Found at i:18319741 original size:3 final size:3
Alignment explanation
Indices: 18319733--18319764 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18319723 TCATTCTTTT
18319733 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
18319765 TTTTTTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:18324775 original size:6 final size:7
Alignment explanation
Indices: 18324759--18324788 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
18324749 ATGACAATTG
18324759 TTTATTT
1 TTTATTT
18324766 TTTA-TT
1 TTTATTT
18324772 TTTATTT
1 TTTATTT
18324779 TTTATTT
1 TTTATTT
18324786 TTT
1 TTT
18324789 TAATTAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTATTT
Found at i:18324777 original size:13 final size:13
Alignment explanation
Indices: 18324759--18324787 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
18324749 ATGACAATTG
18324759 TTTATTTTTTATT
1 TTTATTTTTTATT
18324772 TTTATTTTTTATT
1 TTTATTTTTTATT
18324785 TTT
1 TTT
18324788 TTAATTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:18331073 original size:20 final size:21
Alignment explanation
Indices: 18331036--18331083 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
18331026 TACTGGTTTT
**
18331036 TTTTTTTAATCTTCTCCTCTC-
1 TTTTTTTAATCTGATCCTC-CA
18331057 TTTTTTTAATC-GATCCTCCA
1 TTTTTTTAATCTGATCCTCCA
18331077 TTTTTTT
1 TTTTTTT
18331084 TTCTTGCAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 12 0.50
21 11 0.46
ACGTcount: A:0.12, C:0.23, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTTTTTAATCTGATCCTCCA
Found at i:18331319 original size:1 final size:1
Alignment explanation
Indices: 18331309--18331346 Score: 58
Period size: 1 Copynumber: 38.0 Consensus size: 1
18331299 AAGAAGAAGG
* *
18331309 AAAAAGAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
18331347 GCTACTCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.95, C:0.00, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:18331323 original size:11 final size:11
Alignment explanation
Indices: 18331309--18331347 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
18331299 AAGAAGAAGG
18331309 AAAAAGAAAAA
1 AAAAAGAAAAA
18331320 AAAAAGAAAAA
1 AAAAAGAAAAA
*
18331331 AAAAAAAAAAA
1 AAAAAGAAAAA
18331342 AAAAAG
1 AAAAAG
18331348 CTACTCAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:18331333 original size:21 final size:21
Alignment explanation
Indices: 18331291--18331345 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
18331281 TGAACCGGAT
* * **
18331291 AAGAAAAGAAGAAGAAGGAAA
1 AAGAAAAAAAAAAGAAAAAAA
18331312 AAGAAAAAAAAAAGAAAAAAA
1 AAGAAAAAAAAAAGAAAAAAA
*
18331333 AAAAAAAAAAAAA
1 AAGAAAAAAAAAA
18331346 AGCTACTCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (21 bp):
AAGAAAAAAAAAAGAAAAAAA
Found at i:18331390 original size:46 final size:45
Alignment explanation
Indices: 18331340--18331471 Score: 178
Period size: 44 Copynumber: 2.9 Consensus size: 45
18331330 AAAAAAAAAA
* * * *
18331340 AAAAAAAGCTACTCAAAGCAAAGACTCAACAACTTTTGAAAATTTT
1 AAAAAAAGCT-CTCTAAGCAGAGGCTCAACAACTTTTAAAAATTTT
18331386 AAAAAAAGCTCCTCTAAGCAGAGGCTCAACAAC-TTTAAAAATTTT
1 AAAAAAAGCT-CTCTAAGCAGAGGCTCAACAACTTTTAAAAATTTT
*
18331431 -AAAAAAGCTCATCTAAGTAGAGGCTCAACAACTTTTAAAAA
1 AAAAAAAGCTC-TCTAAGCAGAGGCTCAACAACTTTTAAAAA
18331472 AATTTCATCT
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
43 1 0.01
44 29 0.37
45 19 0.24
46 29 0.37
ACGTcount: A:0.48, C:0.18, G:0.11, T:0.23
Consensus pattern (45 bp):
AAAAAAAGCTCTCTAAGCAGAGGCTCAACAACTTTTAAAAATTTT
Found at i:18331516 original size:96 final size:94
Alignment explanation
Indices: 18331388--18331921 Score: 433
Period size: 96 Copynumber: 5.4 Consensus size: 94
18331378 AAAATTTTAA
* * *
18331388 AAAAAGCTCCTCT-AAGCAGAGGCTCAACAACTTTAAAAAT-TTTAAAAAAGCTCATCTAAGTAG
1 AAAAAGCTCTTCTCAA-TAGAGGCTCAACAACTTTAAAAATCTTTAAAAAAGCTCATCTCAGTAG
18331451 AGGCTCAACAACTTTTAAAAAAATTTCATCTTG
65 AGGCTCAACAAC-TTT--AAAAATTTCATCTTG
* * *
18331484 AAAAAGGTTCTTCTCAATAGAGG-TCAACAACTTTAAAAGTTTATCTTGAAAAAGGCTCATCTCA
1 AAAAA-GCTCTTCTCAATAGAGGCTCAACAACTTTAAAA----ATCTTTAAAAAAGCTCATCTCA
*
18331548 GTAAAGGCTCAACAACTTT-AAAATTT-ATCTTG
61 GTAGAGGCTCAACAACTTTAAAAATTTCATCTTG
* * *
18331580 AAAAAGCTCGTT-TCAGTAGAGGCTCAACAACTTTAAAAAATCTCATATTGAAAAAGACTCCTCT
1 AAAAAGCTC-TTCTCAATAGAGGCTCAACAACTTT-AAAAA--TC-T-TTAAAAAAG-CTCATCT
* * *
18331644 CAGTAGAAGCTCAATAACTTTAAAAATCTCATCTTG
59 CAGTAGAGGCTCAACAACTTTAAAAATTTCATCTTG
* * * *
18331680 AAAAAGCTCATCTTAACAGAGGCTTAACAACTTTAAAATTTATC-TTAAAAAAGCTCATCTCAGT
1 AAAAAGCTCTTCTCAATAGAGGCTCAACAACTTTAAAA---ATCTTTAAAAAAGCTCATCTCAGT
* * *
18331744 AGAGGCTCAATAACTTTAAAAATCTCATCTTA
63 AGAGGCTCAACAACTTTAAAAATTTCATCTTG
* *
18331776 AAAAAGGCT-TCTCTCAGT-CAGGCTCAACAACTTTAAAAATCTCATCCTAAAAAAAGGCTTC-T
1 AAAAA-GCTCT-TCTCAATAGAGGCTCAACAACTTTAAAAATCT--T--T-AAAAAA-GC-TCAT
* * *
18331838 TTCAGCAGATGCTCAACAACTTTAAAAAAAATCTT-ATCTTG
57 CTCAGTAGAGGCTCAACAACTTT---AAAAAT-TTCATCTTG
* * * *
18331879 AAAAATCCTCCTCTCAACAGAAGCTCAACAACTTTAAAAATCT
1 AAAAA-GCTCTTCTCAATAGAGGCTCAACAACTTTAAAAATCT
18331922 CATCTGTTCT
Statistics
Matches: 356, Mismatches: 45, Indels: 66
0.76 0.10 0.14
Matches are distributed among these distances:
93 4 0.01
95 14 0.04
96 109 0.31
97 43 0.12
98 27 0.08
99 17 0.05
100 62 0.17
101 33 0.09
102 1 0.00
103 23 0.06
104 23 0.06
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (94 bp):
AAAAAGCTCTTCTCAATAGAGGCTCAACAACTTTAAAAATCTTTAAAAAAGCTCATCTCAGTAGA
GGCTCAACAACTTTAAAAATTTCATCTTG
Found at i:18331718 original size:147 final size:146
Alignment explanation
Indices: 18331388--18331926 Score: 558
Period size: 147 Copynumber: 3.7 Consensus size: 146
18331378 AAAATTTTAA
* * *
18331388 AAAAAGCTCCTC-TAAGCAGAGGCTCAACAACTTTAAAA---ATTTTAAAAAAGCTCATCTAAGT
1 AAAAAGCTCATCTTAA-CAGAGGCTCAACAACTTTAAAATTTATCTTAAAAAAGCTCATCTCAGT
* * * * *
18331449 AGAGGCTCAACAACTTTTAAAAAAATTTCATCTTGAAAAAGGTTCTTCTCAATAGAGGTCAACAA
65 AGAGGCTCAACAAC-TTT-AAAAAATCTCATCTTGAAAAAGGCTCCTCTCAGTAGAGCTCAACAA
* *
18331514 CTTTAAAAGT-TTATCTTG
128 CTTTAAAAATCTCATCTTG
* ** * * * *
18331532 AAAAAGGCTCATCTCAGTAAAGGCTCAACAACTTTAAAATTTATCTTGAAAAAGCTCGTTTCAGT
1 AAAAA-GCTCATCTTAACAGAGGCTCAACAACTTTAAAATTTATCTTAAAAAAGCTCATCTCAGT
* * *
18331597 AGAGGCTCAACAACTTTAAAAAATCTCATATTGAAAAAGACTCCTCTCAGTAGAAGCTCAATAAC
65 AGAGGCTCAACAACTTTAAAAAATCTCATCTTGAAAAAGGCTCCTCTCAGTAG-AGCTCAACAAC
18331662 TTTAAAAATCTCATCTTG
129 TTTAAAAATCTCATCTTG
*
18331680 AAAAAGCTCATCTTAACAGAGGCTTAACAACTTTAAAATTTATCTTAAAAAAGCTCATCTCAGTA
1 AAAAAGCTCATCTTAACAGAGGCTCAACAACTTTAAAATTTATCTTAAAAAAGCTCATCTCAGTA
* * *
18331745 GAGGCTCAATAACTTT-AAAAATCTCATCTTAAAAAAGGCTTCTCTCAGTCAG-GCTCAACAACT
66 GAGGCTCAACAACTTTAAAAAATCTCATCTTGAAAAAGGCTCCTCTCAGT-AGAGCTCAACAACT
**
18331808 TTAAAAATCTCATCCTAA
130 TTAAAAATCTCAT-CTTG
* * **
18331826 AAAAAGGCT--TCTTTCAGCAGATGCTCAACAACTTTAAAAAAAATCTTATCTTGAAAAATCCTC
1 AAAAA-GCTCATC-TT-AACAGAGGCTCAACAACTTT----AAAAT-TTATCTT-AAAAAAGCTC
* ** *
18331889 CTCTCAACAGAAGCTCAACAACTTT-AAAAATCTCATCT
57 ATCTCAGTAGAGGCTCAACAACTTTAAAAAATCTCATCT
18331927 GTTCTCGAAC
Statistics
Matches: 331, Mismatches: 46, Indels: 27
0.82 0.11 0.07
Matches are distributed among these distances:
144 5 0.02
145 51 0.15
146 69 0.21
147 109 0.33
148 44 0.13
151 5 0.02
152 7 0.02
153 41 0.12
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (146 bp):
AAAAAGCTCATCTTAACAGAGGCTCAACAACTTTAAAATTTATCTTAAAAAAGCTCATCTCAGTA
GAGGCTCAACAACTTTAAAAAATCTCATCTTGAAAAAGGCTCCTCTCAGTAGAGCTCAACAACTT
TAAAAATCTCATCTTG
Found at i:18331799 original size:49 final size:49
Alignment explanation
Indices: 18331407--18331926 Score: 352
Period size: 50 Copynumber: 10.6 Consensus size: 49
18331397 CTCTAAGCAG
* *
18331407 AGGCTCAACAACTTTAAAAA--T--T-TT-AAAAAAGC-TCATCTAAGT
1 AGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGGCTTCATCTCAGT
* * *
18331449 AGAGGCTCAACAACTTTTAAAAAAATTTCATCTTGAAAAAGG-TTCTTCTCAAT
1 --AGGCTCAACAAC-TTT--AAAAATCTCATCTTGAAAAAGGCTTCATCTCAGT
* * *
18331502 AGAGGTCAACAACTTTAAAAGT-TTATCTTGAAAAAGGC-TCATCTCAGT
1 AG-GCTCAACAACTTTAAAAATCTCATCTTGAAAAAGGCTTCATCTCAGT
* * *
18331550 AAAGGCTCAACAACTTT-AAAAT-TTATCTTGAAAAA-GC-TCGTTTCAGT
1 --AGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGGCTTCATCTCAGT
* * *
18331597 AGAGGCTCAACAACTTTAAAAAATCTCATATTGAAAAAGAC-TCCTCTCAGT
1 --AGGCTCAACAACTTT-AAAAATCTCATCTTGAAAAAGGCTTCATCTCAGT
*
18331648 AGAAGCTCAATAACTTTAAAAATCTCATCTTGAAAAA-GC-TCATCTTAACAG-
1 AG--GCTCAACAACTTTAAAAATCTCATCTTGAAAAAGGCTTCATC-T--CAGT
* * *
18331699 AGGCTTAACAACTTT-AAAAT-TTATCTT-AAAAAAGC-TCATCTCAGT
1 AGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGGCTTCATCTCAGT
* *
18331744 AGAGGCTCAATAACTTTAAAAATCTCATCTTAAAAAAGGCTTC-TCTCAGT
1 --AGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGGCTTCATCTCAGT
** * *
18331794 CAGGCTCAACAACTTTAAAAATCTCATCCTAAAAAAAGGCTTC-TTTCAGC
1 -AGGCTCAACAACTTTAAAAATCTCAT-CTTGAAAAAGGCTTCATCTCAGT
* * * * **
18331844 AGATGCTCAACAACTTTAAAAAAAATCTTATCTTGAAAAA-TCCTCCTCTCAAC
1 AG--GCTCAACAACTTT---AAAAATCTCATCTTGAAAAAGGCTTCATCTCAGT
18331897 AGAAGCTCAACAACTTTAAAAATCTCATCT
1 AG--GCTCAACAACTTTAAAAATCTCATCT
18331927 GTTCTCGAAC
Statistics
Matches: 394, Mismatches: 44, Indels: 70
0.78 0.09 0.14
Matches are distributed among these distances:
44 15 0.04
45 3 0.01
46 6 0.02
47 57 0.14
48 49 0.12
49 74 0.19
50 78 0.20
51 44 0.11
52 17 0.04
53 41 0.10
54 10 0.03
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (49 bp):
AGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAGGCTTCATCTCAGT
Found at i:18331801 original size:196 final size:197
Alignment explanation
Indices: 18331387--18331917 Score: 568
Period size: 196 Copynumber: 2.7 Consensus size: 197
18331377 GAAAATTTTA
* * * * * *
18331387 AAAAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTAAAAAT-T--T--T-AAAAAAGCTCATCTA
1 AAAAAAGCTCGTCTCAGTACAGGCTCAACAACTTTAAAAATCTCATCATAAAAAAAGCTCCTCTC
* * * * *
18331446 AGTAGAGGCTCAACAACTTTTAAAAAAATTTCATCTTGAAAAAGGTTCTTCTCAATAGAGG-TCA
66 AGTAGAAGCTCAACAAC-TTT-AAAAAATCTCATCTTGAAAAAGGCTCATCTCAACAGAGGCTCA
* *
18331510 ACAACTTTAAAAGTTTATCTTGAAAAAGGCTCATCTCAGTAAAGGCTCAACAACTTTAAAATTTA
129 ACAACTTTAAAAGTTTATCTTGAAAAAAGCTCATCTCAGTAAAGGCTCAACAACTTTAAAATTCA
18331575 TCTT
194 TCTT
* * * **
18331579 GAAAAAGCTCGTTTCAGTAGAGGCTCAACAACTTTAAAAAATCTCAT-ATTGAAAAAGACTCCTC
1 AAAAAAGCTCGTCTCAGTACAGGCTCAACAACTTT-AAAAATCTCATCATAAAAAAAG-CTCCTC
* * *
18331643 TCAGTAGAAGCTCAATAACTTT-AAAAATCTCATCTTGAAAAA-GCTCATCTTAACAGAGGCTTA
64 TCAGTAGAAGCTCAACAACTTTAAAAAATCTCATCTTGAAAAAGGCTCATCTCAACAGAGGCTCA
* *
18331706 ACAACTTTAAAA-TTTATCTT-AAAAAAGCTCATCTCAGTAGAGGCTCAATAACTTTAAAAATCT
129 ACAACTTTAAAAGTTTATCTTGAAAAAAGCTCATCTCAGTAAAGGCTCAACAACTTT-AAAAT-T
18331769 CATCTT
192 CATCTT
* *
18331775 AAAAAAGGCTTC-TCTCAGT-CAGGCTCAACAACTTTAAAAATCTCATCCTAAAAAAAGGCTTCT
1 AAAAAA-GC-TCGTCTCAGTACAGGCTCAACAACTTTAAAAATCTCATCATAAAAAAA-GCTCCT
* * * * ** * *
18331838 TTCAGCAGATGCTCAACAACTTTAAAAAAAATCTTATCTTGAAAAATCCTCCTCTCAACAGAAGC
63 CTCAGTAGAAGCTCAACAACTTT--AAAAAATCTCATCTTGAAAAAGGCTCATCTCAACAGAGGC
18331903 TCAACAACTTTAAAA
126 TCAACAACTTTAAAA
18331918 ATCTCATCTG
Statistics
Matches: 284, Mismatches: 37, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
192 30 0.11
193 6 0.02
194 33 0.12
195 37 0.13
196 89 0.31
197 10 0.04
198 11 0.04
199 40 0.14
200 28 0.10
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (197 bp):
AAAAAAGCTCGTCTCAGTACAGGCTCAACAACTTTAAAAATCTCATCATAAAAAAAGCTCCTCTC
AGTAGAAGCTCAACAACTTTAAAAAATCTCATCTTGAAAAAGGCTCATCTCAACAGAGGCTCAAC
AACTTTAAAAGTTTATCTTGAAAAAAGCTCATCTCAGTAAAGGCTCAACAACTTTAAAATTCATC
TT
Found at i:18337760 original size:20 final size:21
Alignment explanation
Indices: 18337723--18337761 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
18337713 CGTGAGGGAC
* *
18337723 ATTTTTTTCTTTTTACTTTGG
1 ATTTTTTTCTCTTGACTTTGG
18337744 ATTTTTTT-TCTTGACTTT
1 ATTTTTTTCTCTTGACTTT
18337762 TTTTGTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.10, C:0.10, G:0.08, T:0.72
Consensus pattern (21 bp):
ATTTTTTTCTCTTGACTTTGG
Found at i:18339864 original size:23 final size:23
Alignment explanation
Indices: 18339834--18339878 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
18339824 TAGAGCTTTA
18339834 TGGGATTCAAATCCCAGATTTTT
1 TGGGATTCAAATCCCAGATTTTT
*
18339857 TGGGATTCAAATCCCATATTTT
1 TGGGATTCAAATCCCAGATTTT
18339879 CAGCCCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.40
Consensus pattern (23 bp):
TGGGATTCAAATCCCAGATTTTT
Found at i:18340039 original size:24 final size:24
Alignment explanation
Indices: 18340005--18340066 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
18339995 TGAGTTAGAT
*
18340005 AAAGAAAAAAGAAAAAGGAAAAAG
1 AAAGAAAAAAGAAAAAGAAAAAAG
* * *
18340029 AAAGAAGAAAGAAGAAGAAAAAAT
1 AAAGAAAAAAGAAAAAGAAAAAAG
*
18340053 ATA-AAAAAAGAAAA
1 AAAGAAAAAAGAAAA
18340067 TAATAATAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 9 0.29
24 22 0.71
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (24 bp):
AAAGAAAAAAGAAAAAGAAAAAAG
Found at i:18340074 original size:6 final size:6
Alignment explanation
Indices: 18340048--18340095 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
18340038 AGAAGAAGAA
* * *
18340048 AAAATAT AAAAAA AGAAAAT AATAAT AATAAT AAAAAT AAAAAT AAAA
1 AAAA-AT AAAAAT A-AAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
18340096 TGGTGTTTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
6 27 0.75
7 9 0.25
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:18340210 original size:9 final size:8
Alignment explanation
Indices: 18340190--18340234 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
18340180 TTTCTGAAAA
*
18340190 AAAAAATC
1 AAAAAATT
*
18340198 AAAAAGTT
1 AAAAAATT
18340206 AAAAAATT
1 AAAAAATT
18340214 AAAAAA--
1 AAAAAATT
18340220 AAAAAATT
1 AAAAAATT
18340228 AAAAAAT
1 AAAAAAT
18340235 AGTAAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 6 0.19
8 26 0.81
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (8 bp):
AAAAAATT
Found at i:18340586 original size:12 final size:12
Alignment explanation
Indices: 18340569--18340611 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
18340559 ACAAAATACT
*
18340569 ATATTTTTATAA
1 ATATTTTTAAAA
18340581 ATA-TTTTAAAA
1 ATATTTTTAAAA
*
18340592 ATAATTTTAAAA
1 ATATTTTTAAAA
18340604 AT-TTTTTA
1 ATATTTTTA
18340612 TTTTAATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 15 0.54
12 13 0.46
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATATTTTTAAAA
Found at i:18345286 original size:12 final size:12
Alignment explanation
Indices: 18345269--18345296 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
18345259 CAAAGAGAAA
18345269 GAAGTAGCGAAG
1 GAAGTAGCGAAG
18345281 GAAGTAGCGAAG
1 GAAGTAGCGAAG
18345293 GAAG
1 GAAG
18345297 ACACACCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.43, T:0.07
Consensus pattern (12 bp):
GAAGTAGCGAAG
Found at i:18351288 original size:46 final size:46
Alignment explanation
Indices: 18351172--18351298 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 46
18351162 AATGTTTTAA
* *
18351172 ATTTTTAAAGTTATCAAACCCCTAATGAGATGAGCCATTCATTTTG
1 ATTTTTAAAGTTATCAAACCTCTAATGAGATGAGCCATTCAGTTTG
** ** * * * *
18351218 ATTTTTAAAGTGGTTGAGCTTCTAATGAGAGGAGCCTTTCAGTTTG
1 ATTTTTAAAGTTATCAAACCTCTAATGAGATGAGCCATTCAGTTTG
*
18351264 ATTTTTAAAGTTATCAAACCTCTAATAAGATGAGC
1 ATTTTTAAAGTTATCAAACCTCTAATGAGATGAGC
18351299 TTTTAGATTT
Statistics
Matches: 63, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (46 bp):
ATTTTTAAAGTTATCAAACCTCTAATGAGATGAGCCATTCAGTTTG
Found at i:18351694 original size:5 final size:5
Alignment explanation
Indices: 18351647--18351719 Score: 53
Period size: 5 Copynumber: 14.6 Consensus size: 5
18351637 TTCCTTTTGT
* * *
18351647 TTTTA TTTAA CTTTA TTTTTA TCTTTA TTTTCA TTTTA ATTTA TTTTA
1 TTTTA TTTTA TTTTA -TTTTA T-TTTA TTTT-A TTTTA TTTTA TTTTA
* *
18351695 TTATA TTCTA -TTTA -TTTA -TTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
18351720 CTCTTTTTGT
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
4 11 0.20
5 30 0.55
6 14 0.25
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.71
Consensus pattern (5 bp):
TTTTA
Found at i:18353850 original size:3 final size:3
Alignment explanation
Indices: 18353842--18353878 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
18353832 GAAGTGATCT
18353842 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATCA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
18353879 TTACTCATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:18354098 original size:29 final size:28
Alignment explanation
Indices: 18354029--18354098 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
18354019 TATATATAAT
18354029 ATAATTT-TTTATTTTTATATGATTTTA
1 ATAATTTATTTATTTTTATATGATTTTA
* **
18354056 ATAGATTAATTTATTTTTA-ATTTTTTTA
1 ATA-ATTTATTTATTTTTATATGATTTTA
18354084 CATAATTTATATTAT
1 -ATAATTTAT-TTAT
18354099 AAAAATTAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
27 3 0.09
28 15 0.43
29 17 0.49
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (28 bp):
ATAATTTATTTATTTTTATATGATTTTA
Found at i:18357301 original size:26 final size:27
Alignment explanation
Indices: 18357257--18357320 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
18357247 TTAATATTAA
* *
18357257 TAATTTATATATTTATTTAGATTTAATT
1 TAATTTA-AAATTTATTTAAATTTAATT
*
18357285 TAATTTAAAATTT-TTTAAATTTGATT
1 TAATTTAAAATTTATTTAAATTTAATT
*
18357311 TAAATTAAAA
1 TAATTTAAAA
18357321 AATAAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.62
27 5 0.16
28 7 0.22
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (27 bp):
TAATTTAAAATTTATTTAAATTTAATT
Found at i:18357387 original size:41 final size:43
Alignment explanation
Indices: 18357299--18357397 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 43
18357289 TTAAAATTTT
* * *
18357299 TTAAATTTGATTTAAATTAAAAAATAAATTTTAAATTTATTTG
1 TTAAATTTAATTTAAATTAAAAAATAAATTTTAAATATATATG
*
18357342 TTAAATTTAATTTATA-TAATAAAA-AAA-TTTAAA-ATATATG
1 TTAAATTTAATTTAAATTAA-AAAATAAATTTTAAATATATATG
18357382 ATTAAATTTAATTTAA
1 -TTAAATTTAATTTAA
18357398 TTGAATTATA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
40 5 0.10
41 20 0.41
42 6 0.12
43 18 0.37
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (43 bp):
TTAAATTTAATTTAAATTAAAAAATAAATTTTAAATATATATG
Found at i:18358840 original size:23 final size:23
Alignment explanation
Indices: 18358797--18358841 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
18358787 TAATATCACA
*
18358797 TAAACAAATATCAATTGATTTTG
1 TAAACAAATATCAAGTGATTTTG
*
18358820 TAAA-AAATATCACGTGAATTTT
1 TAAACAAATATCAAGTG-ATTTT
18358842 TTATTATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (23 bp):
TAAACAAATATCAAGTGATTTTG
Found at i:18362827 original size:21 final size:23
Alignment explanation
Indices: 18362781--18362837 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 23
18362771 ATTTTTTTGA
*
18362781 ATTTTTTATATTTTTATATATATT
1 ATTTTTGATA-TTTTATATATATT
*
18362805 ATTTTTGTTATTTTA-AT-TATT
1 ATTTTTGATATTTTATATATATT
18362826 ATTTTTGATATT
1 ATTTTTGATATT
18362838 ATTGCATGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.50
22 2 0.07
23 5 0.17
24 8 0.27
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (23 bp):
ATTTTTGATATTTTATATATATT
Found at i:18362907 original size:17 final size:17
Alignment explanation
Indices: 18362887--18362921 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18362877 TTATTATTTT
18362887 ATAATAATAAT-TAATAA
1 ATAATAA-AATATAATAA
18362904 ATAATAAAATATAATAA
1 ATAATAAAATATAATAA
18362921 A
1 A
18362922 AGTTTTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAATAAAATATAATAA
Found at i:18363410 original size:23 final size:23
Alignment explanation
Indices: 18363383--18363427 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
18363373 TCTTCAAGAT
18363383 TTAAATTAAAAAA-AATAAAAAAA
1 TTAAA-TAAAAAATAATAAAAAAA
18363406 TTAAATAAAAAATTAATAAAAA
1 TTAAATAAAAAA-TAATAAAAA
18363428 TTTTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 5 0.25
24 8 0.40
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (23 bp):
TTAAATAAAAAATAATAAAAAAA
Found at i:18363413 original size:13 final size:13
Alignment explanation
Indices: 18363395--18363427 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
18363385 AAATTAAAAA
18363395 AAATAAAAAAATT
1 AAATAAAAAAATT
18363408 AAAT-AAAAAATT
1 AAATAAAAAAATT
18363420 -AATAAAAA
1 AAATAAAAA
18363428 TTTTTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.16
12 12 0.63
13 4 0.21
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAAAAAATT
Found at i:18365529 original size:57 final size:57
Alignment explanation
Indices: 18365333--18365852 Score: 457
Period size: 57 Copynumber: 9.1 Consensus size: 57
18365323 CTTTCCTTGA
* * * *
18365333 AAAATA-TTTTTTGAAAATTTCATCTTTAAAAAAAATTAATACTTTCAACTTTTTCTT
1 AAAATATTTTTTTG-AAATTTAATCTTCAAGAAAAATTGATACTTTCAACTTTTTCTT
* ** * * * *
18365390 CAAGCA--TTTTTGAAATTT-TTAGTTCTATGAAAAATTGATACTTTCAACTTTTCCTT
1 AAAATATTTTTTTGAAATTTAAT-CTTC-AAGAAAAATTGATACTTTCAACTTTTTCTT
* * * * * *
18365446 AAAGTATATTTTT-AAATTTGATCTTCAAGAAAAATTGATAATTTTAATTTTTTCTT
1 AAAATATTTTTTTGAAATTTAATCTTCAAGAAAAATTGATACTTTCAACTTTTTCTT
* *
18365502 AAACTATTTTTTTGAAATTTAATCTTCAA-AAAAATTTGATACTTTCAACTTTTCCTT
1 AAAATATTTTTTTGAAATTTAATCTTCAAGAAAAA-TTGATACTTTCAACTTTTTCTT
* * * * *
18365559 CAAGTATTTTTTTTGAAAATTTTAATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTT
1 AAAATA-TTTTTTTG-AAA-TTTAATCTTCAAGAAAAATTGATACTTTCAACTTTTTCTT
* * * *
18365619 AAAAGATTTTTTTTATAAATTTGATAC-TCAACAAAAATTGATACTTTCAAC-TTTTCATT
1 AAAATA-TTTTTTT-GAAATTTAAT-CTTCAAGAAAAATTGATACTTTCAACTTTTTC-TT
* * *
18365678 AAAATA-TTTTTTGAAATTTTTATTTTCAAAAAAAATTGATACTTTCAACTTTTTCTT
1 AAAATATTTTTTTGAAA-TTTAATCTTCAAGAAAAATTGATACTTTCAACTTTTTCTT
* * * *
18365735 AAAATA-TATTTTCATAATTTAATCTTCAAGAAAAATTAATACTTTCAGCTTTTTCTT
1 AAAATATTTTTTTGA-AATTTAATCTTCAAGAAAAATTGATACTTTCAACTTTTTCTT
* ** * * ** *
18365792 AAAATCTTTTTTTTTTAATTTGATCTTTAAGGTAAGTTGATACTTTCAACTTTTTCTT
1 AAAAT-ATTTTTTTGAAATTTAATCTTCAAGAAAAATTGATACTTTCAACTTTTTCTT
18365850 AAA
1 AAA
18365853 GTATATATAT
Statistics
Matches: 381, Mismatches: 62, Indels: 39
0.79 0.13 0.08
Matches are distributed among these distances:
54 1 0.00
55 8 0.02
56 80 0.21
57 136 0.36
58 63 0.17
59 42 0.11
60 46 0.12
61 5 0.01
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (57 bp):
AAAATATTTTTTTGAAATTTAATCTTCAAGAAAAATTGATACTTTCAACTTTTTCTT
Found at i:18365756 original size:233 final size:230
Alignment explanation
Indices: 18365324--18365852 Score: 572
Period size: 233 Copynumber: 2.3 Consensus size: 230
18365314 ACTCCAAATC
* * * * *
18365324 TTTCCTTGAAAA-ATATTTTTTGAAAATTTCATCTTTAAAAAAAATTAATACTTTCAACTTTTTC
1 TTTCCTT-AAAATAT-TTTTTTTAAAATTTAATCTTTAAGAAAAATTGATACTTTCAACTTTTCC
* * * * * ** *
18365388 TT-CAAGCA--TTTTTGA-AATTTTTAGTTCT-ATGAAAAATTGATACTTTCAACTTTTCCTTAA
64 TTAAAAG-ATTTTTTTTATAAATTTGA-TACTCAACAAAAATTGATACTTTCAACTTTTCATTAA
* * * * * *
18365448 AGTATATTTTTAAATTTGATCTTCAAGAAAAATTGATAATTTTAATTTTTTCTTAAACTATTTTT
127 AATATATTTTTAAATTTGATCTTCAAAAAAAATTGATAATTTCAACTTTTTCTTAAAATATTATT
* *
18365513 TTGAAATTTAATCTTCAA-AAAAATTTGATACTTTCAACT
192 TTCAAATTTAATCTTCAAGAAAAA-TTAATACTTTCAACT
* * *
18365552 TTTCCTTCAAGTATTTTTTTTGAAAATTTTAATTTTTAAGAAAAATTGATACTTTCAACTTTTCC
1 TTTCCTTAAAATATTTTTTTT-AAAA-TTTAATCTTTAAGAAAAATTGATACTTTCAACTTTTCC
18365617 TTAAAAGATTTTTTTTATAAATTTGATACTCAACAAAAATTGATACTTTCAACTTTTCATTAAAA
64 TTAAAAGATTTTTTTTATAAATTTGATACTCAACAAAAATTGATACTTTCAACTTTTCATTAAAA
* * *
18365682 TAT-TTTTTGAAATTTTTATTTTCAAAAAAAATTGATACTTTCAACTTTTTCTTAAAATA-TATT
129 TATATTTTT-AAA-TTTGATCTTCAAAAAAAATTGATAATTTCAACTTTTTCTTAAAATATTATT
*
18365745 TTCATAATTTAATCTTCAAGAAAAATTAATACTTTCAGCT
192 TTCA-AATTTAATCTTCAAGAAAAATTAATACTTTCAACT
* * ** * ** * *
18365785 TTTTCTTAAAATCTTTTTTTTTTAATTTGATCTTTAAGGTAAGTTGATACTTTCAACTTTTTCTT
1 TTTCCTTAAAATATTTTTTTTAAAATTTAATCTTTAAGAAAAATTGATACTTTCAACTTTTCCTT
18365850 AAA
66 AAA
18365853 GTATATATAT
Statistics
Matches: 249, Mismatches: 40, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
227 8 0.03
228 13 0.05
229 36 0.14
230 3 0.01
231 51 0.20
232 50 0.20
233 83 0.33
234 5 0.02
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.48
Consensus pattern (230 bp):
TTTCCTTAAAATATTTTTTTTAAAATTTAATCTTTAAGAAAAATTGATACTTTCAACTTTTCCTT
AAAAGATTTTTTTTATAAATTTGATACTCAACAAAAATTGATACTTTCAACTTTTCATTAAAATA
TATTTTTAAATTTGATCTTCAAAAAAAATTGATAATTTCAACTTTTTCTTAAAATATTATTTTCA
AATTTAATCTTCAAGAAAAATTAATACTTTCAACT
Found at i:18365976 original size:19 final size:17
Alignment explanation
Indices: 18365952--18366000 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 17
18365942 TCAGTAAAAA
18365952 AATAAACAAAAAATATAAT
1 AATAAA-AAAAAATA-AAT
18365971 AAT-AAAAAAAATAAAT
1 AATAAAAAAAAATAAAT
18365987 AGATAAATAAAAAA
1 A-ATAAA-AAAAAA
18366001 ACATTGGTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.15
17 10 0.37
18 4 0.15
19 9 0.33
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (17 bp):
AATAAAAAAAAATAAAT
Found at i:18365981 original size:17 final size:17
Alignment explanation
Indices: 18365959--18365999 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
18365949 AAAAATAAAC
18365959 AAAAAATATAATA-ATAA
1 AAAAAATA-AATAGATAA
18365976 AAAAAATAAATAGATAA
1 AAAAAATAAATAGATAA
18365993 ATAAAAA
1 A-AAAAA
18366000 AACATTGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.18
17 13 0.59
18 5 0.23
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAAAATAAATAGATAA
Found at i:18365995 original size:21 final size:19
Alignment explanation
Indices: 18365951--18366001 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
18365941 ATCAGTAAAA
*
18365951 AAATAAACAAAAAATATAAT
1 AAATAAA-AAAAAAAATAAT
18365971 -AATAAAAAAAATAAATAGAT
1 AAATAAAAAAAA-AAATA-AT
18365991 AAATAAAAAAA
1 AAATAAAAAAA
18366002 CATTGGTACA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 5 0.19
19 10 0.37
20 2 0.07
21 10 0.37
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (19 bp):
AAATAAAAAAAAAAATAAT
Found at i:18366461 original size:11 final size:11
Alignment explanation
Indices: 18366445--18366491 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
18366435 ATCAAATTCT
18366445 AAAATTTCCAA
1 AAAATTTCCAA
*
18366456 AAAATTTTCAA
1 AAAATTTCCAA
* *
18366467 AAAA-TGCAAA
1 AAAATTTCCAA
*
18366477 AAAATCTCCAA
1 AAAATTTCCAA
18366488 AAAA
1 AAAA
18366492 AAAAACTATT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
10 7 0.25
11 21 0.75
ACGTcount: A:0.62, C:0.15, G:0.02, T:0.21
Consensus pattern (11 bp):
AAAATTTCCAA
Found at i:18367204 original size:15 final size:14
Alignment explanation
Indices: 18367179--18367216 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
18367169 AATAAAAATG
18367179 AATTAAA-ATTTATA
1 AATTAAATATTTA-A
18367193 AATTAAATATTTAA
1 AATTAAATATTTAA
18367207 ATATTAAATA
1 A-ATTAAATA
18367217 CATAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AATTAAATATTTAA
Found at i:18371259 original size:8 final size:8
Alignment explanation
Indices: 18371246--18371270 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18371236 ATTTTACAAA
18371246 ATTTTATT
1 ATTTTATT
18371254 ATTTTATT
1 ATTTTATT
18371262 ATTTTATT
1 ATTTTATT
18371270 A
1 A
18371271 AAAATAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
ATTTTATT
Found at i:18374916 original size:2 final size:2
Alignment explanation
Indices: 18374903--18374939 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
18374893 ATAACAAAGT
*
18374903 GA GA GA GG GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
18374940 TGTGTGTGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (2 bp):
GA
Found at i:18376476 original size:19 final size:19
Alignment explanation
Indices: 18376452--18376490 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
18376442 TCCAAATTTC
18376452 GATCATTAGACACTAACTA
1 GATCATTAGACACTAACTA
18376471 GATCATTAGACACTAACTA
1 GATCATTAGACACTAACTA
18376490 G
1 G
18376491 GAGTTGTTAG
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:0.41, C:0.21, G:0.13, T:0.26
Consensus pattern (19 bp):
GATCATTAGACACTAACTA
Found at i:18377141 original size:17 final size:18
Alignment explanation
Indices: 18377119--18377157 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
18377109 GTAGAATTAA
18377119 ATTT-AAAAAAAAAAACT
1 ATTTAAAAAAAAAAAACT
18377136 ATTTAAAAAAAAAAAACT
1 ATTTAAAAAAAAAAAACT
18377154 ATTT
1 ATTT
18377158 TTTAAACCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (18 bp):
ATTTAAAAAAAAAAAACT
Found at i:18397519 original size:39 final size:39
Alignment explanation
Indices: 18397476--18397551 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
18397466 ATGATATTAG
18397476 GTTATAATATAATAAGTACACTAATGATAATTTTTTCGA
1 GTTATAATATAATAAGTACACTAATGATAATTTTTTCGA
*
18397515 GTTATAATATAATAAGTATACTAATGATAATTTTTTC
1 GTTATAATATAATAAGTACACTAATGATAATTTTTTC
18397552 ATGTATCATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (39 bp):
GTTATAATATAATAAGTACACTAATGATAATTTTTTCGA
Found at i:18399951 original size:92 final size:92
Alignment explanation
Indices: 18399793--18399975 Score: 267
Period size: 92 Copynumber: 2.0 Consensus size: 92
18399783 TATCTCTTTA
** * * *
18399793 TGGATGGAATTGTTGGGAATTGATTATACAATAAACATGAAGGAATTTAAAAATTTTAATTTTAA
1 TGGATGGAATTGTTAAGAATTAATCATACAATAAACATGAAGGAATTTAAAAATTTTAATTCTAA
**
18399858 AAATTTTTGGATCATGTTGATAAGAAT
66 AAAACTTTGGATCATGTTGATAAGAAT
* * *
18399885 TGGATGGATTTGTTAAGAATTAATCATACAATAGATATGAAGGAATTTAAAAATTTTAATTCTAA
1 TGGATGGAATTGTTAAGAATTAATCATACAATAAACATGAAGGAATTTAAAAATTTTAATTCTAA
*
18399950 AAAACTTTGGATCATTTTGATAAGAA
66 AAAACTTTGGATCATGTTGATAAGAA
18399976 ATACAGAATC
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 80 1.00
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.37
Consensus pattern (92 bp):
TGGATGGAATTGTTAAGAATTAATCATACAATAAACATGAAGGAATTTAAAAATTTTAATTCTAA
AAAACTTTGGATCATGTTGATAAGAAT
Found at i:18401496 original size:16 final size:17
Alignment explanation
Indices: 18401475--18401512 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
18401465 AAAGCATTTT
18401475 TAATTGAAAAT-TAACC
1 TAATTGAAAATCTAACC
*
18401491 TAATTGAAATTCTAACC
1 TAATTGAAAATCTAACC
18401508 TAATT
1 TAATT
18401513 TGGCATGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.37
Consensus pattern (17 bp):
TAATTGAAAATCTAACC
Found at i:18404363 original size:16 final size:16
Alignment explanation
Indices: 18404342--18404396 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 16
18404332 AGATAAAACT
18404342 ATAAATAAATGAATAA
1 ATAAATAAATGAATAA
18404358 ATAAAT-AATCGAGATAA
1 ATAAATAAAT-GA-ATAA
*
18404375 A-ACATAAATTTGAATAA
1 ATAAATAAA--TGAATAA
18404392 ATAAA
1 ATAAA
18404397 ATAACATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
15 3 0.10
16 11 0.35
17 12 0.39
18 4 0.13
19 1 0.03
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (16 bp):
ATAAATAAATGAATAA
Found at i:18404689 original size:37 final size:37
Alignment explanation
Indices: 18404597--18404692 Score: 111
Period size: 39 Copynumber: 2.5 Consensus size: 37
18404587 AATTAAGACA
** * *
18404597 CACAACTTTAAAAAATAAAAGCTCCTCATCAATAGAGG
1 CACAACTTT-AAAAATAAGGGCTCATCATAAATAGAGG
* *
18404635 CATACAACTTTATAAATAAGGGCTTATCATAAATAGAGG
1 C--ACAACTTTAAAAATAAGGGCTCATCATAAATAGAGG
18404674 CACAACTTTAAAAATAAGG
1 CACAACTTTAAAAATAAGG
18404693 ACAAGATCAA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
37 17 0.35
38 1 0.02
39 23 0.47
40 8 0.16
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.24
Consensus pattern (37 bp):
CACAACTTTAAAAATAAGGGCTCATCATAAATAGAGG
Found at i:18405171 original size:103 final size:102
Alignment explanation
Indices: 18405050--18405237 Score: 261
Period size: 103 Copynumber: 1.8 Consensus size: 102
18405040 CCTTGAACAG
* ** * *
18405050 TTTTTAAGGATTAGAATTTTGCCTTTGAAGTTTTCTTCTCAAATGAGAATCTGAAA-TTCTTTTA
1 TTTTTAAGGATTAGAATTTTACCTCGGAAGTTTTCTTCTCAAACGAGAAT-TGAAAGTTCTTTCA
*
18405114 CTAAAAAGTCTTTTTACTTACATTTCTTGAAATTTTCT
65 CTAAAAAGTCTTTATACTTACATTTCTTGAAATTTTCT
* *
18405152 TTTTTCAAGGATTAGAATTTTACCTCGGAAGTTTTTTTCTCAAACGAGAATTTAAAGTTCTTTCA
1 TTTTT-AAGGATTAGAATTTTACCTCGGAAGTTTTCTTCTCAAACGAGAATTGAAAGTTCTTTCA
* *
18405217 CTAGAGAGTCTTTATACTTAC
65 CTAAAAAGTCTTTATACTTAC
18405238 CTTTTCTATG
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
102 9 0.12
103 65 0.88
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (102 bp):
TTTTTAAGGATTAGAATTTTACCTCGGAAGTTTTCTTCTCAAACGAGAATTGAAAGTTCTTTCAC
TAAAAAGTCTTTATACTTACATTTCTTGAAATTTTCT
Found at i:18406465 original size:50 final size:51
Alignment explanation
Indices: 18406390--18406491 Score: 197
Period size: 50 Copynumber: 2.0 Consensus size: 51
18406380 AGACATAACA
18406390 TAGATCATGGTTTGAGGTTTTGAAAGAAAGGATAAAC-GACCCAAAATATG
1 TAGATCATGGTTTGAGGTTTTGAAAGAAAGGATAAACAGACCCAAAATATG
18406440 TAGATCATGGTTTGAGGTTTTGAAAGAAAGGATAAACAGACCCAAAATATG
1 TAGATCATGGTTTGAGGTTTTGAAAGAAAGGATAAACAGACCCAAAATATG
18406491 T
1 T
18406492 CTTTAAAGGT
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 37 0.73
51 14 0.27
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (51 bp):
TAGATCATGGTTTGAGGTTTTGAAAGAAAGGATAAACAGACCCAAAATATG
Found at i:18410139 original size:44 final size:43
Alignment explanation
Indices: 18410032--18410140 Score: 112
Period size: 44 Copynumber: 2.4 Consensus size: 43
18410022 ATGCACAAAG
*
18410032 TTAAATAAACAAATAGGAAATGATGTAAATACACAAAGTTAAACA
1 TTAAATAAACAAATA--AAATGATGCAAATACACAAAGTTAAACA
* * * * *
18410077 -AACAATATGACAATTAAAATGATGCAAATGCACAAAGTTAAATGA
1 TTA-AATA-AACAAATAAAATGATGCAAATACACAAAGTTAAA-CA
18410122 TTAAATAAACAAATAAAAT
1 TTAAATAAACAAATAAAAT
18410141 AGTTAGATAA
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
44 35 0.69
45 9 0.18
46 7 0.14
ACGTcount: A:0.58, C:0.09, G:0.10, T:0.23
Consensus pattern (43 bp):
TTAAATAAACAAATAAAATGATGCAAATACACAAAGTTAAACA
Found at i:18415074 original size:22 final size:24
Alignment explanation
Indices: 18415028--18415075 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
18415018 CACAAACAGG
18415028 AGAAAAAAAGAACATGAAAATGAA
1 AGAAAAAAAGAACATGAAAATGAA
18415052 AGAAAAAAA-AA-AT-AAAATGGAA
1 AGAAAAAAAGAACATGAAAAT-GAA
18415074 AG
1 AG
18415076 TTGGGGCTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 5 0.22
22 7 0.30
23 2 0.09
24 9 0.39
ACGTcount: A:0.73, C:0.02, G:0.17, T:0.08
Consensus pattern (24 bp):
AGAAAAAAAGAACATGAAAATGAA
Found at i:18423635 original size:16 final size:17
Alignment explanation
Indices: 18423614--18423650 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
18423604 GTTAACATTT
18423614 TAATTGAAAAT-TAACC
1 TAATTGAAAATCTAACC
*
18423630 TAATTGAAATTCTAACC
1 TAATTGAAAATCTAACC
18423647 TAAT
1 TAAT
18423651 CTAGTATGTG
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:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (17 bp):
TAATTGAAAATCTAACC
Found at i:18424968 original size:33 final size:33
Alignment explanation
Indices: 18424931--18424994 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
18424921 TCAAGCAAAG
*
18424931 GCCAACTTGGATTATCATTTTCTTGCAAATATA
1 GCCAACTTGGACTATCATTTTCTTGCAAATATA
18424964 GCCAACTTGGACTATCATTTTCTTGCAAATA
1 GCCAACTTGGACTATCATTTTCTTGCAAATA
18424995 CAAGCTCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (33 bp):
GCCAACTTGGACTATCATTTTCTTGCAAATATA
Found at i:18426572 original size:21 final size:21
Alignment explanation
Indices: 18426548--18426588 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18426538 TGTGTGCTAA
*
18426548 TTAATAA-ATAATAATAATGCT
1 TTAATAATAGAATAA-AATGCT
18426569 TTAATAATAGAATAAAATGC
1 TTAATAATAGAATAAAATGC
18426589 ATGAATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (21 bp):
TTAATAATAGAATAAAATGCT
Found at i:18427405 original size:3 final size:3
Alignment explanation
Indices: 18427399--18427436 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
18427389 TCTTCTTTGT
18427399 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18427437 GCTGTGTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18429376 original size:37 final size:35
Alignment explanation
Indices: 18429329--18429411 Score: 89
Period size: 37 Copynumber: 2.4 Consensus size: 35
18429319 AGGTCCTTAA
* * * *
18429329 ATTAAAATTAAATAATTTTATAAATTTTTATTATTTT
1 ATTATAATTAAATAAATTCATAAATATTTA-T-TTTT
*
18429366 ATTATAATTAATTAAATTCATAAATATTTATTTTT
1 ATTATAATTAAATAAATTCATAAATATTTATTTTT
18429401 A-T-TAATTAAAT
1 ATTATAATTAAAT
18429412 CTTTATTAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
33 8 0.20
34 1 0.03
35 5 0.12
36 1 0.03
37 25 0.62
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (35 bp):
ATTATAATTAAATAAATTCATAAATATTTATTTTT
Found at i:18429381 original size:29 final size:30
Alignment explanation
Indices: 18429349--18429419 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
18429339 AATAATTTTA
18429349 TAAATTTTTATTAT-TTTATTATAATTAAT
1 TAAATTTTTATTATATTTATTATAATTAAT
** * * *
18429378 TAAATTCATA-AATATTTATTTTTATTAAT
1 TAAATTTTTATTATATTTATTATAATTAAT
*
18429407 TAAATCTTTATTA
1 TAAATTTTTATTA
18429420 GACGAAAAGT
Statistics
Matches: 31, Mismatches: 9, Indels: 3
0.72 0.21 0.07
Matches are distributed among these distances:
28 2 0.06
29 28 0.90
30 1 0.03
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (30 bp):
TAAATTTTTATTATATTTATTATAATTAAT
Found at i:18429677 original size:30 final size:30
Alignment explanation
Indices: 18429593--18429699 Score: 83
Period size: 30 Copynumber: 3.6 Consensus size: 30
18429583 TTAATGTAAA
* * * *
18429593 AAAAAAAAATATTTAAGAGTTTAATTTGAT
1 AAAAATAAATAATTAAAAATTTAATTTGAT
* ** *
18429623 AAAAATAGATAATTAACTACTTAATTTGAT
1 AAAAATAAATAATTAAAAATTTAATTTGAT
**
18429653 AAAAATAAATGCTTAAAAATTTAA-TTGAT
1 AAAAATAAATAATTAAAAATTTAATTTGAT
* *
18429682 TATAATAAAATAA-TAAAA
1 AAAAAT-AAATAATTAAAA
18429700 TTTTTGATAA
Statistics
Matches: 59, Mismatches: 17, Indels: 3
0.75 0.22 0.04
Matches are distributed among these distances:
29 14 0.24
30 45 0.76
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.35
Consensus pattern (30 bp):
AAAAATAAATAATTAAAAATTTAATTTGAT
Found at i:18437820 original size:10 final size:10
Alignment explanation
Indices: 18437807--18438107 Score: 72
Period size: 10 Copynumber: 30.6 Consensus size: 10
18437797 AAAAAAAATC
18437807 TAAAAAATTT
1 TAAAAAATTT
18437817 T-AAAAATTT
1 TAAAAAATTT
* *
18437826 CAAAAAAGTTC
1 TAAAAAA-TTT
*
18437837 T-AAAATTTT
1 TAAAAAATTT
* *
18437846 TTAAAAATTA
1 TAAAAAATTT
*
18437856 TAACAAA--T
1 TAAAAAATTT
* *
18437864 GAAAAAA-AT
1 TAAAAAATTT
18437873 TAAAAAATTT
1 TAAAAAATTT
* *
18437883 TGAAAACTTT
1 TAAAAAATTT
** **
18437893 TTTAAAATCC
1 TAAAAAATTT
*
18437903 T-AACAATCTT
1 TAAAAAAT-TT
* *
18437913 TCAAAAATTC
1 TAAAAAATTT
* *
18437923 TAAAATAGTTA
1 TAAAA-AATTT
*
18437934 CAAACAAATTT
1 TAAA-AAATTT
*
18437945 TATAAAA-TT
1 TAAAAAATTT
* *
18437954 CAAAAAA-AT
1 TAAAAAATTT
** *
18437963 TCGAAAATTC
1 TAAAAAATTT
*
18437973 TGAAAAATTT
1 TAAAAAATTT
* *
18437983 AAAAAAAATTC
1 -TAAAAAATTT
**
18437994 TAAAAGCTTT
1 TAAAAAATTT
* *
18438004 T-ACAATTTT
1 TAAAAAATTT
18438013 TAAAAAA--T
1 TAAAAAATTT
*
18438021 TAAAAAATTC
1 TAAAAAATTT
* *
18438031 T-GAAAATGTC
1 TAAAAAAT-TT
* *
18438041 TACAAAATTA
1 TAAAAAATTT
*
18438051 TAAAAACTTT
1 TAAAAAATTT
18438061 T-AAAAATTT
1 TAAAAAATTT
18438070 T-AAAAATTT
1 TAAAAAATTT
18438079 CTAAAAAAATTT
1 -T-AAAAAATTT
18438091 TAAAAAAGTTT
1 TAAAAAA-TTT
18438102 TAAAAA
1 TAAAAA
18438108 CTAGAAAATT
Statistics
Matches: 205, Mismatches: 66, Indels: 39
0.66 0.21 0.13
Matches are distributed among these distances:
8 13 0.06
9 61 0.30
10 82 0.40
11 40 0.20
12 9 0.04
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (10 bp):
TAAAAAATTT
Found at i:18437831 original size:30 final size:30
Alignment explanation
Indices: 18437797--18437854 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
18437787 AAAAATTCAA
18437797 AAAAAAAATCTAAAAAATTTTAAAAATTTC
1 AAAAAAAATCTAAAAAATTTTAAAAATTTC
** **
18437827 AAAAAAGTTCTAAAATTTTTTAAAAATT
1 AAAAAAAATCTAAAAAATTTTAAAAATT
18437855 ATAACAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (30 bp):
AAAAAAAATCTAAAAAATTTTAAAAATTTC
Found at i:18438066 original size:11 final size:10
Alignment explanation
Indices: 18438010--18438107 Score: 71
Period size: 9 Copynumber: 9.9 Consensus size: 10
18438000 CTTTTACAAT
18438010 TTTTAAAAAA
1 TTTTAAAAAA
18438020 --TTAAAAAA
1 TTTTAAAAAA
* *
18438028 TTCT-GAAAA
1 TTTTAAAAAA
* *
18438037 TGTCTACAAAA
1 T-TTTAAAAAA
* *
18438048 TTATAAAAAC
1 TTTTAAAAAA
18438058 TTTT-AAAAA
1 TTTTAAAAAA
18438067 TTTT-AAAAA
1 TTTTAAAAAA
18438076 TTTCTAAAAAAA
1 TTT-T-AAAAAA
18438088 TTTTAAAAAA
1 TTTTAAAAAA
18438098 GTTTTAAAAA
1 -TTTTAAAAA
18438108 CTAGAAAATT
Statistics
Matches: 72, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
8 8 0.11
9 21 0.29
10 20 0.28
11 15 0.21
12 8 0.11
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (10 bp):
TTTTAAAAAA
Found at i:18438066 original size:19 final size:19
Alignment explanation
Indices: 18438023--18438085 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
18438013 TAAAAAATTA
* * *
18438023 AAAAATTCTGAAAATGTCT
1 AAAAATTATAAAAATTTCT
18438042 ACAAAATTATAAAAACTTT-T
1 A-AAAATTATAAAAA-TTTCT
*
18438062 AAAAATTTTAAAAATTTCT
1 AAAAATTATAAAAATTTCT
18438081 AAAAA
1 AAAAA
18438086 AATTTTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
18 3 0.08
19 19 0.51
20 13 0.35
21 2 0.05
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (19 bp):
AAAAATTATAAAAATTTCT
Found at i:18438088 original size:12 final size:11
Alignment explanation
Indices: 18438062--18438107 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
18438052 AAAAACTTTT
18438062 AAAAATTTT--
1 AAAAATTTTAA
18438071 AAAAATTTCTAA
1 AAAAATTT-TAA
18438083 AAAAATTTTAA
1 AAAAATTTTAA
*
18438094 AAAAGTTTTAA
1 AAAAATTTTAA
18438105 AAA
1 AAA
18438108 CTAGAAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
9 8 0.24
10 1 0.03
11 16 0.48
12 8 0.24
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (11 bp):
AAAAATTTTAA
Found at i:18438130 original size:26 final size:27
Alignment explanation
Indices: 18438090--18438145 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
18438080 TAAAAAAATT
**
18438090 TTAAAAAAGTTTTAA-AAACTAGAAAA
1 TTAAAAAAGAATTAAGAAACTAGAAAA
*
18438116 TTAAAAAAGAATTAAGGAAACTTGAAAA
1 TTAAAAAAGAATTAA-GAAACTAGAAAA
18438144 TT
1 TT
18438146 TTCAAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 13 0.52
28 12 0.48
ACGTcount: A:0.59, C:0.04, G:0.11, T:0.27
Consensus pattern (27 bp):
TTAAAAAAGAATTAAGAAACTAGAAAA
Found at i:18438317 original size:19 final size:19
Alignment explanation
Indices: 18438268--18438330 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
18438258 AAGAAATTTT
*
18438268 TTTTTGAAAAAA-TATAATA
1 TTTTT-AAAAAATTATAAAA
* *
18438287 TTTTAAAAAAATTTTAAAA
1 TTTTTAAAAAATTATAAAA
*
18438306 TTTTTAAAAAATTCAAAAAA
1 TTTTTAAAAAATT-ATAAAA
18438326 TTTTT
1 TTTTT
18438331 CATATTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 6 0.17
19 21 0.58
20 9 0.25
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
TTTTTAAAAAATTATAAAA
Found at i:18438672 original size:29 final size:27
Alignment explanation
Indices: 18438640--18438724 Score: 80
Period size: 29 Copynumber: 3.0 Consensus size: 27
18438630 TTAAAAAAAA
* *
18438640 TTTGAATATTTAAAAATTTTTATAATTGT
1 TTTGAAT-TTTTAAAATTTTTAAAATT-T
* **
18438669 TTTGAATTTTTTTAGGTTTTTAAAATCTT
1 TTTGAA-TTTTTAAAATTTTTAAAAT-TT
*
18438698 TTTGAATTTTTAAAATTTTTAGAATTT
1 TTTGAATTTTTAAAATTTTTAAAATTT
18438725 AAAAAAAATT
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
27 2 0.04
28 15 0.33
29 26 0.58
30 2 0.04
ACGTcount: A:0.32, C:0.01, G:0.08, T:0.59
Consensus pattern (27 bp):
TTTGAATTTTTAAAATTTTTAAAATTT
Found at i:18438992 original size:23 final size:22
Alignment explanation
Indices: 18438964--18439008 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
18438954 GGAGCTAAAT
18438964 ATATATTTAACCTATTTGTTAACTA
1 ATATA-TT-ACCTATTT-TTAACTA
*
18438989 ATATATTACTTATTTTTAAC
1 ATATATTACCTATTTTTAAC
18439009 GTGATTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 5 0.26
23 7 0.37
24 2 0.11
25 5 0.26
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (22 bp):
ATATATTACCTATTTTTAACTA
Found at i:18439129 original size:28 final size:29
Alignment explanation
Indices: 18439092--18439154 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
18439082 TACTACATTA
* *
18439092 ATTAATAAA-TTTATAATTTAAATATCAT
1 ATTAAAAAATTTTAAAATTTAAATATCAT
*
18439120 ATTAAAAAATTTTAAAATTTAATTATCAT
1 ATTAAAAAATTTTAAAATTTAAATATCAT
18439149 ATTAAA
1 ATTAAA
18439155 TATTTTATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
28 8 0.26
29 23 0.74
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (29 bp):
ATTAAAAAATTTTAAAATTTAAATATCAT
Found at i:18444264 original size:9 final size:8
Alignment explanation
Indices: 18444237--18444262 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
18444227 TACCTGATAG
18444237 AATTAAAA
1 AATTAAAA
18444245 AATTAAAA
1 AATTAAAA
18444253 AATTAAAA
1 AATTAAAA
18444261 AA
1 AA
18444263 ATGAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AATTAAAA
Found at i:18444443 original size:52 final size:52
Alignment explanation
Indices: 18444355--18444459 Score: 158
Period size: 52 Copynumber: 2.0 Consensus size: 52
18444345 TGGACAAGAA
* *
18444355 GACTTGCAAAAGAAGAATTCTAAGAGAAAGAAGATTCTTAATAGGCAAGTTT
1 GACTTACAAAAGAAGAATTCTAAAAGAAAGAAGATTCTTAATAGGCAAGTTT
* *
18444407 GACTTACAAGAGAAGAATTCTAAAAGGAAAG-GGATTCTTAATAGGCAAGTTT
1 GACTTACAAAAGAAGAATTCTAAAA-GAAAGAAGATTCTTAATAGGCAAGTTT
18444459 G
1 G
18444460 TATGGTTATA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 43 0.90
53 5 0.10
ACGTcount: A:0.43, C:0.10, G:0.23, T:0.25
Consensus pattern (52 bp):
GACTTACAAAAGAAGAATTCTAAAAGAAAGAAGATTCTTAATAGGCAAGTTT
Found at i:18446015 original size:6 final size:6
Alignment explanation
Indices: 18446004--18446049 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
18445994 TTGTGGGTTA
* *
18446004 TGCATG TGCATG TCCATG TGCATG TTCATG TGCATG TGCATG TGCA
1 TGCATG TGCATG TGCATG TGCATG TGCATG TGCATG TGCATG TGCA
18446050 ATGACATGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (6 bp):
TGCATG
Found at i:18446057 original size:18 final size:18
Alignment explanation
Indices: 18446004--18446059 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
18445994 TTGTGGGTTA
*
18446004 TGCATGTGCATGTCCATG
1 TGCATGTGCATGTACATG
* *
18446022 TGCATGTTCATGTGCATG
1 TGCATGTGCATGTACATG
18446040 TGCATGTGCAATG-ACATG
1 TGCATGTGC-ATGTACATG
18446058 TG
1 TG
18446060 GTTGTCATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 30 0.91
19 3 0.09
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.34
Consensus pattern (18 bp):
TGCATGTGCATGTACATG
Found at i:18447336 original size:2 final size:2
Alignment explanation
Indices: 18447329--18447367 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
18447319 TGTCCTGTGT
18447329 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18447368 GTTCATTGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18447901 original size:23 final size:22
Alignment explanation
Indices: 18447855--18447901 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
18447845 ATGGTATAAG
*
18447855 AAGTATTATAGTAGTTTTGGCA
1 AAGTATTATAGTAGTTTTGCCA
*
18447877 AAGTATTATAGTAATTTTTGCCA
1 AAGTATTATAGT-AGTTTTGCCA
18447900 AA
1 AA
18447902 TGCGGTAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.40
Consensus pattern (22 bp):
AAGTATTATAGTAGTTTTGCCA
Found at i:18448075 original size:61 final size:61
Alignment explanation
Indices: 18447939--18448071 Score: 153
Period size: 61 Copynumber: 2.2 Consensus size: 61
18447929 CAGTAAGATA
* * * ** *
18447939 ACATTATAGTAATTTTTGTCAATTATAATAGAATGGATATTTTTGTAATTATGGTAGAAGG
1 ACATTATAATAATTTTGGTCAATTATAATAGAATGGATATTTTTATAATTATAATAGAAAG
** * *
18448000 GTATTATAATAATTTTGGTTAATTATGATA-AGATGGATATTTTTATAATTATAATA-AAAG
1 ACATTATAATAATTTTGGTCAATTATAATAGA-ATGGATATTTTTATAATTATAATAGAAAG
18448060 ACATTATAATAA
1 ACATTATAATAA
18448072 ATTTAAATAC
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
60 14 0.24
61 45 0.76
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (61 bp):
ACATTATAATAATTTTGGTCAATTATAATAGAATGGATATTTTTATAATTATAATAGAAAG
Found at i:18448376 original size:127 final size:126
Alignment explanation
Indices: 18448151--18448476 Score: 350
Period size: 127 Copynumber: 2.5 Consensus size: 126
18448141 TTAATATATG
* ** * * * *
18448151 TTAT-TTAATATTTAATAAATAATTTAATATGGGTATTATAATAAATTTAAAAAAAAATTTCGTA
1 TTATGTTAAAATTTAATATGTAATTTAATA-AGGTATTATAAT-AATTTTAAAAAAAATATC-AA
* ** * * *
18448215 TTTCAAATTTTTATAAAGTAATGGTAAGGGTA-TTTAAGTGATTTAATATATAATTAATTTTAGA
63 TGTCAAATTTTTATAAACCAATGGCAAGGATATTTTAA-TAATTTAATATATAATTAATTTTAGA
* * *
18448279 TTATGTTAAAATTTCATATGTAATTTAATAAGTGTATTATAGTAATTTTAAATAAAATATCAATG
1 TTATGTTAAAATTTAATATGTAATTTAATAAG-GTATTATAATAATTTTAAAAAAAATATCAATG
* * ** **
18448344 TCAAATTTTTATAAACCATTGGCAATGATATTTTAATAATTTAATATATTGTTAATTTTATT
65 TCAAATTTTTATAAACCAATGGCAAGGATATTTTAATAATTTAATATATAATTAATTTTAGA
* *
18448406 TTATGTTAAAATTTAATATGTAATTTAATAGAGGTATTATAATAATTTTGAAACAAAATGTCACA
1 TTATGTTAAAATTTAATATGTAATTTAATA-AGGTATTATAATAATTTT-AAAAAAAATATCA-A
18448471 TGTCAA
63 TGTCAA
18448477 CTTCCTATGA
Statistics
Matches: 166, Mismatches: 26, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
127 91 0.55
128 38 0.23
129 37 0.22
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (126 bp):
TTATGTTAAAATTTAATATGTAATTTAATAAGGTATTATAATAATTTTAAAAAAAATATCAATGT
CAAATTTTTATAAACCAATGGCAAGGATATTTTAATAATTTAATATATAATTAATTTTAGA
Found at i:18449104 original size:108 final size:105
Alignment explanation
Indices: 18448975--18449191 Score: 285
Period size: 108 Copynumber: 2.0 Consensus size: 105
18448965 GGTATTTTCA
* ** *
18448975 TAATTATAGTATAAATACATAATAGTCCATTTAAGATAAGAGTATTTTTGTAATTATGGTATAAA
1 TAATTATAATATAAATACATAATAGTAAATTTAAGATAAGAGTATTTTTGTAATTATGATAT-AA
*
18449040 G-ATATTATATAGCAAATAATTATAAAAAAAATGAATATTTTTG
65 GTGTA-T-TATAGCAAATAATTAT-AAAAAAATGAATATTTTTG
* * *
18449083 TAATTATAATATGAAA-GCATAATAGTAAATTTGAGATAAGAGTATTTTTGTAATTATGATATGA
1 TAATTATAATAT-AAATACATAATAGTAAATTTAAGATAAGAGTATTTTTGTAATTATGATATAA
* *
18449147 GTGTATTATAGTAAATAATTATAAAAGAATGAATATTTTTG
65 GTGTATTATAGCAAATAATTATAAAAAAATGAATATTTTTG
18449188 TAAT
1 TAAT
18449192 ATTATGGGAG
Statistics
Matches: 97, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
105 22 0.23
106 15 0.15
107 3 0.03
108 54 0.56
109 3 0.03
ACGTcount: A:0.45, C:0.02, G:0.13, T:0.40
Consensus pattern (105 bp):
TAATTATAATATAAATACATAATAGTAAATTTAAGATAAGAGTATTTTTGTAATTATGATATAAG
TGTATTATAGCAAATAATTATAAAAAAATGAATATTTTTG
Found at i:18452688 original size:22 final size:22
Alignment explanation
Indices: 18452662--18452704 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
18452652 GCTGTCTTGG
18452662 ATATAAACTACACTCCTATTGA
1 ATATAAACTACACTCCTATTGA
18452684 ATATAAACTACACTCCTATTG
1 ATATAAACTACACTCCTATTG
18452705 GTTGTAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.33
Consensus pattern (22 bp):
ATATAAACTACACTCCTATTGA
Found at i:18457146 original size:31 final size:31
Alignment explanation
Indices: 18457108--18457192 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
18457098 ATTGAACCTT
*
18457108 TAGCTCTGATACCACTTGTTAGGGATCACCA
1 TAGCTCTGATATCACTTGTTAGGGATCACCA
* *
18457139 TAGCTCTGATATCACTTGCTAGAGATCACCA
1 TAGCTCTGATATCACTTGTTAGGGATCACCA
18457170 TAGCTCTGATATCACTTGTTAGG
1 TAGCTCTGATATCACTTGTTAGG
18457193 CCAAAAGCCC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (31 bp):
TAGCTCTGATATCACTTGTTAGGGATCACCA
Found at i:18457152 original size:17 final size:17
Alignment explanation
Indices: 18457132--18457184 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
18457122 CTTGTTAGGG
18457132 ATCACCATAGCTCTGAT
1 ATCACCATAGCTCTGAT
* * *
18457149 ATCA-C-TTGCT-AGAG
1 ATCACCATAGCTCTGAT
18457163 ATCACCATAGCTCTGAT
1 ATCACCATAGCTCTGAT
18457180 ATCAC
1 ATCAC
18457185 TTGTTAGGCC
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
14 6 0.22
15 5 0.19
16 5 0.19
17 11 0.41
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (17 bp):
ATCACCATAGCTCTGAT
Found at i:18458042 original size:33 final size:32
Alignment explanation
Indices: 18457996--18458071 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
18457986 CAATCTATGT
* * *
18457996 TTTAAGCACTTTAATTTTATATGTTATTTAAA
1 TTTATGCAATTTAAATTTATATGTTATTTAAA
* * *
18458028 TTTGTTGCAATTTAAATTTCTATGTTGTTTAAA
1 TTT-ATGCAATTTAAATTTATATGTTATTTAAA
18458061 TTTATGCAATT
1 TTTATGCAATT
18458072 CACTTTTCTT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 10 0.28
33 26 0.72
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (32 bp):
TTTATGCAATTTAAATTTATATGTTATTTAAA
Found at i:18458080 original size:32 final size:33
Alignment explanation
Indices: 18458008--18458090 Score: 89
Period size: 33 Copynumber: 2.6 Consensus size: 33
18457998 TAAGCACTTT
* * *
18458008 AATTTTATATGTTATTTAAATTTGTTGCAATTT
1 AATTTTCTATGTTATTTAAATTTGATGCAATTC
* *
18458041 AAATTTCTATGTTGTTTAAATTT-ATGCAATTC
1 AATTTTCTATGTTATTTAAATTTGATGCAATTC
* *
18458073 ACTTTTCT-TGTAATTTAA
1 AATTTTCTATGTTATTTAA
18458091 TTTCATGTCT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 8 0.20
32 13 0.32
33 20 0.49
ACGTcount: A:0.30, C:0.07, G:0.08, T:0.54
Consensus pattern (33 bp):
AATTTTCTATGTTATTTAAATTTGATGCAATTC
Found at i:18458194 original size:65 final size:64
Alignment explanation
Indices: 18458032--18458194 Score: 145
Period size: 65 Copynumber: 2.5 Consensus size: 64
18458022 TTTAAATTTG
* * * * *
18458032 TTGCAATTTAAATTTCTATG-TTGTTTAAATTT-ATGCAATTCACTTTTCTTGTAATTTAATTTC
1 TTGCAATTTAAATTT-AATGTTTATTTAAATTTCATGCAATTCACTTTTCATGCAATTTAATTAC
* * ** * * *
18458095 ATGTC--TTTAAATTTCATGCTTTCATTTACCTTTCATGCAATTTATTTTTCATGCACTTTAATT
1 TTG-CAATTTAAATTTAATG-TTT-ATTTAAATTTCATGCAATTCACTTTTCATGCAATTTAATT
18458158 AC
63 AC
18458160 TTGCAATTTAAATTTAATGTTTATTTAAAATTTCA
1 TTGCAATTTAAATTTAATGTTTATTT-AAATTTCA
18458195 AACTCTTTAA
Statistics
Matches: 77, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
61 3 0.04
62 9 0.12
63 4 0.05
64 13 0.17
65 36 0.47
66 12 0.16
ACGTcount: A:0.28, C:0.13, G:0.07, T:0.52
Consensus pattern (64 bp):
TTGCAATTTAAATTTAATGTTTATTTAAATTTCATGCAATTCACTTTTCATGCAATTTAATTAC
Found at i:18458413 original size:21 final size:22
Alignment explanation
Indices: 18458357--18458418 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
18458347 TAAGTTTTTG
*
18458357 ATTTTTCAAAAATTTGCTAAAA
1 ATTTTTTAAAAATTTGCTAAAA
*
18458379 ATTTTTTAAAAATTT-C-AAAC
1 ATTTTTTAAAAATTTGCTAAAA
*
18458399 ATTTTCTTGAAAATTGTGCT
1 ATTTT-TTAAAAATT-TGCT
18458419 TGATTTACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 8 0.24
21 9 0.27
22 15 0.45
23 1 0.03
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (22 bp):
ATTTTTTAAAAATTTGCTAAAA
Found at i:18458999 original size:21 final size:22
Alignment explanation
Indices: 18458960--18459009 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
18458950 GGGTGCAGTT
* *
18458960 AAAAAAATATTGAAGAAAATGC
1 AAAAAAATATTGAAAAAAATGA
*
18458982 AAAAAAAT-TTTAAAAAAATGA
1 AAAAAAATATTGAAAAAAATGA
18459003 AAAAAAA
1 AAAAAAA
18459010 GAAATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.72, C:0.02, G:0.08, T:0.18
Consensus pattern (22 bp):
AAAAAAATATTGAAAAAAATGA
Found at i:18460826 original size:17 final size:17
Alignment explanation
Indices: 18460796--18460834 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
18460786 GAGTCGGGTC
18460796 AGTGTCTTTAATAATGG
1 AGTGTCTTTAATAATGG
* *
18460813 AGTGTTTTTGATAATGG
1 AGTGTCTTTAATAATGG
*
18460830 GGTGT
1 AGTGT
18460835 GGAAAAAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.23, C:0.03, G:0.31, T:0.44
Consensus pattern (17 bp):
AGTGTCTTTAATAATGG
Found at i:18467784 original size:33 final size:37
Alignment explanation
Indices: 18467745--18467817 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 37
18467735 ATGAACAAAA
*
18467745 AATTAAATTATATCCTAACAAT-AA-AAAA-TA-AAT
1 AATTAAATTATATCCAAACAATGAATAAAAGTACAAT
18467778 AATTAAATTATATCCAAACAATGAATAAAAGTACAAT
1 AATTAAATTATATCCAAACAATGAATAAAAGTACAAT
18467815 AAT
1 AAT
18467818 ATCAAAAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
33 21 0.60
34 2 0.06
35 4 0.11
36 2 0.06
37 6 0.17
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.29
Consensus pattern (37 bp):
AATTAAATTATATCCAAACAATGAATAAAAGTACAAT
Found at i:18476075 original size:17 final size:17
Alignment explanation
Indices: 18476053--18476097 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
18476043 CAACAAAACT
* *
18476053 AAAAAACCGATTGGTAG
1 AAAAAACAGAATGGTAG
18476070 AAAAAACAGAATGGTAG
1 AAAAAACAGAATGGTAG
*
18476087 AAAACACAGAA
1 AAAAAACAGAA
18476098 GTTGACATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.58, C:0.11, G:0.20, T:0.11
Consensus pattern (17 bp):
AAAAAACAGAATGGTAG
Found at i:18476356 original size:2 final size:2
Alignment explanation
Indices: 18476349--18476376 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18476339 ACATACATAC
18476349 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
18476377 TACAACATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18478049 original size:2 final size:2
Alignment explanation
Indices: 18478042--18478069 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18478032 TAATCAAATG
18478042 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
18478070 CATTATCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18478641 original size:2 final size:2
Alignment explanation
Indices: 18478625--18478686 Score: 74
Period size: 2 Copynumber: 32.0 Consensus size: 2
18478615 GATATTTAAG
* * * *
18478625 TA TA -A TA TA -A TA TA TA TA TA TA TA TA TA TA CA CA TA TG CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18478665 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
18478687 GATACATGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
1 2 0.04
2 50 0.96
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (2 bp):
TA
Found at i:18492011 original size:20 final size:20
Alignment explanation
Indices: 18491988--18492040 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
18491978 TCAAAGTTTT
18491988 ATTTAGGGTTTCAATTTAAG
1 ATTTAGGGTTTCAATTTAAG
*
18492008 ATTTCA-GGTTTC-ATTTTAG
1 ATTT-AGGGTTTCAATTTAAG
*
18492027 GTTTAGGGTTTCAA
1 ATTTAGGGTTTCAA
18492041 AAATTCACGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 1 0.04
19 15 0.54
20 11 0.39
21 1 0.04
ACGTcount: A:0.25, C:0.08, G:0.21, T:0.47
Consensus pattern (20 bp):
ATTTAGGGTTTCAATTTAAG
Found at i:18492265 original size:3 final size:3
Alignment explanation
Indices: 18492257--18492289 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
18492247 TCTAAGTGAA
18492257 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18492290 TAAATACGAC
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:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:18492497 original size:3 final size:3
Alignment explanation
Indices: 18492489--18492520 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18492479 ATAAACACAT
18492489 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
18492521 GTAAAAGCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:18492613 original size:22 final size:22
Alignment explanation
Indices: 18492586--18492641 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
18492576 AAATGCCATT
*
18492586 ATTTCTTTTTTTTCCGAACATC
1 ATTTCTTTTTTTTCCAAACATC
18492608 ATTTCTTTTTTTTCCAAACATC
1 ATTTCTTTTTTTTCCAAACATC
18492630 ATTTCTTTTTTT
1 ATTTCTTTTTTT
18492642 ATTTTTAACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.18, C:0.20, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTTCTTTTTTTTCCAAACATC
Found at i:18496348 original size:18 final size:18
Alignment explanation
Indices: 18496322--18496377 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
18496312 TTATGACTTT
*
18496322 AGGCTAACCTGACATGTC
1 AGGCCAACCTGACATGTC
* *
18496340 AGGCCAACCTAACATGTT
1 AGGCCAACCTGACATGTC
* * *
18496358 AGTCCAACTTGATATGTC
1 AGGCCAACCTGACATGTC
18496376 AG
1 AG
18496378 TCTGACTTGA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (18 bp):
AGGCCAACCTGACATGTC
Found at i:18505552 original size:21 final size:21
Alignment explanation
Indices: 18505528--18505576 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
18505518 TAAGGTTTTT
18505528 TTCTTACGTACCTAATCATTC
1 TTCTTACGTACCTAATCATTC
18505549 TTCTTACGTACCTAATCATTC
1 TTCTTACGTACCTAATCATTC
18505570 TTCTTAC
1 TTCTTAC
18505577 CTTATATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.29, G:0.04, T:0.45
Consensus pattern (21 bp):
TTCTTACGTACCTAATCATTC
Found at i:18511817 original size:22 final size:22
Alignment explanation
Indices: 18511792--18511835 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
18511782 TATATATTTA
* *
18511792 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
18511814 TATTTGTATCCCTAAAATTAAG
1 TATTTGTATCCCTAAAATTAAG
18511836 ACAAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:18516052 original size:21 final size:21
Alignment explanation
Indices: 18516028--18516068 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18516018 TGTATATTTA
*
18516028 TATTTATATCTCTAAAATTAG
1 TATTTATATCCCTAAAATTAG
*
18516049 TATTTGTATCCCTAAAATTA
1 TATTTATATCCCTAAAATTA
18516069 AGAATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (21 bp):
TATTTATATCCCTAAAATTAG
Found at i:18516242 original size:24 final size:26
Alignment explanation
Indices: 18516215--18516262 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
18516205 ATACATTTAG
18516215 TTTTACTT-TT-AGTTTTTCACATAA
1 TTTTACTTCTTAAGTTTTTCACATAA
* *
18516239 TTTTATTTCTTAATTTTTTCACAT
1 TTTTACTTCTTAAGTTTTTCACAT
18516263 TATTATCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 2 0.10
26 11 0.55
ACGTcount: A:0.23, C:0.12, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTACTTCTTAAGTTTTTCACATAA
Found at i:18517222 original size:584 final size:586
Alignment explanation
Indices: 18516263--18517372 Score: 1746
Period size: 584 Copynumber: 1.9 Consensus size: 586
18516253 TTTTTCACAT
18516263 TATTATCAACATCCACACGTACATCTTCTTAATCAACCACTTCTTTAATAGCATTTGCACTACAC
1 TATTATCAACATCCACACGTACATCTTCTTAATCAACCACTTCTTTAATAGCATTTGCACTACAC
* * * * * * * *
18516328 TATTTTAAAATTATTAGCTCTTTTTGAATCAATATCACCATTATCGCAATTTTCCAAATGCGCAT
66 TAGTTTAAAATTATCAGCTCTCTTTAAATCAATATAACCATTATCACAATTTTCCAAATGCACAA
* * * * *
18516393 TCAAGACATCTATAGCAGTAACATATTCCTTTAATTCCACTATTGAATATTTCACTATATCAACA
131 TCAAGACATATATAGAAGCAACATATTCCTCTAATTCCACAATTGAATATTTCACTATATCAACA
* *
18516458 CTAACACTAATGTCATGAGCAATATCATCTTGGCCTAAGGCTGCATGATTAAAACTAACTTCGAT
196 CTAACACTAATGTCATGAGCAATATCATCTTGGCCTAAAGCTGCATGATTAAAACTAACTACGAT
** *
18516523 ATCTAGAACATGTTTAGGACTTTGTTGTTTCACCTTTTGAGAACTATCCATCACATCAGCAGGTA
261 ATCTAGAACATGTTTAAAACTTTGTTGTTTCACCCTTTGAGAACTATCCATCACATCAGCAGGTA
* *
18516588 TAACTTCATTAGCCTATGAAAACGAGCCAAACTCAAGAGGATAATGGTTGCACTTGCACAAAGAA
326 TAACTTCATCAGCCTATGAAAACAAGCCAAACTCAAGAGGATAATGGTTGCACTTGCACAAAGAA
*
18516653 TTGCACCCACTATGAGAAGAATTCAAATGACAATACTCAATTGAGATTTTAATGTAAAAAACTTC
391 TTGCACCCACTATGAGAAGAATTCAAATGACAATACTCAATTGAGA-TTTAATGCAAAAAACTTC
* *
18516718 ATTATCAATAGATAACTTCATCAGGAAAATAGT-AGCACTCCTTGACCATGTGAACTCTGCCAAT
455 ATTATCAATAGATAACTTCATCAGGAAAAGAGTAAG-ACTCCTTGACCATGTGAACTCTACCAAT
18516782 GTCTAATCGTCTCTTCTTCTTTGTATCAGTAACTATCTCCCTGCCATCAAGACCATTCCCATCAA
519 GTCTAATCGTCTCTTCTTCTTTGTATCAGTAACTATCTCCCTGCCATCAAGACCATTCCCATCAA
18516847 CTA
584 CTA
*
18516850 TATTATCAACATCCACACGTACATCTTCTTAATCAAGCACTTCTTTAATAGCATTTGCACTACAC
1 TATTATCAACATCCACACGTACATCTTCTTAATCAACCACTTCTTTAATAGCATTTGCACTACAC
* *
18516915 T-GTTTAAAATTATCAGCTCTCTTTAAATCAATATAACCATTATCATAATTTTCCAAGTGCACAA
66 TAGTTTAAAATTATCAGCTCTCTTTAAATCAATATAACCATTATCACAATTTTCCAAATGCACAA
* * * *
18516979 TCAAGACATATGTA-AAGCAACATATTCCTCTAATTCCACAATTGAATTTTTCATTATATCAATA
131 TCAAGACATATATAGAAGCAACATATTCCTCTAATTCCACAATTGAATATTTCACTATATCAACA
18517043 CTAACACTAATGAT-ATGAGCAATATCATCTTGGCCTAAAGCTGCATGATT-AAACTAACTACGA
196 CTAACACTAATG-TCATGAGCAATATCATCTTGGCCTAAAGCTGCATGATTAAAACTAACTACGA
* *
18517106 TATC-AGGAACATGTTTAAAAGTTTGTTGTTTTACCCTTTGAGAACTATCCATCACATCAGCAGG
260 TATCTA-GAACATGTTTAAAACTTTGTTGTTTCACCCTTTGAGAACTATCCATCACATCAGCAGG
* * *
18517170 TATAACTTCATCAGCCTATGAAGACAAGCCAAACTCAAGAGGATAATGGTTGCACTTGCATAAAT
324 TATAACTTCATCAGCCTATGAAAACAAGCCAAACTCAAGAGGATAATGGTTGCACTTGCACAAAG
* * * * *
18517235 AATTGCACTCACTGTGAGAAGAATTCGAATGACACTACTCAATTGAGATTTGATGCAAAAAACTT
389 AATTGCACCCACTATGAGAAGAATTCAAATGACAATACTCAATTGAGATTTAATGCAAAAAACTT
* * * *
18517300 TATTATCAATAGATAACTTCATTAGGAAAAGAGTAAGATTCCTTGACTATGTGAACTCTACCAAT
454 CATTATCAATAGATAACTTCATCAGGAAAAGAGTAAGACTCCTTGACCATGTGAACTCTACCAAT
18517365 GTCTAATC
519 GTCTAATC
18517373 ATTTTTTCTT
Statistics
Matches: 476, Mismatches: 44, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
583 80 0.17
584 175 0.37
585 90 0.19
586 66 0.14
587 65 0.14
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (586 bp):
TATTATCAACATCCACACGTACATCTTCTTAATCAACCACTTCTTTAATAGCATTTGCACTACAC
TAGTTTAAAATTATCAGCTCTCTTTAAATCAATATAACCATTATCACAATTTTCCAAATGCACAA
TCAAGACATATATAGAAGCAACATATTCCTCTAATTCCACAATTGAATATTTCACTATATCAACA
CTAACACTAATGTCATGAGCAATATCATCTTGGCCTAAAGCTGCATGATTAAAACTAACTACGAT
ATCTAGAACATGTTTAAAACTTTGTTGTTTCACCCTTTGAGAACTATCCATCACATCAGCAGGTA
TAACTTCATCAGCCTATGAAAACAAGCCAAACTCAAGAGGATAATGGTTGCACTTGCACAAAGAA
TTGCACCCACTATGAGAAGAATTCAAATGACAATACTCAATTGAGATTTAATGCAAAAAACTTCA
TTATCAATAGATAACTTCATCAGGAAAAGAGTAAGACTCCTTGACCATGTGAACTCTACCAATGT
CTAATCGTCTCTTCTTCTTTGTATCAGTAACTATCTCCCTGCCATCAAGACCATTCCCATCAACT
A
Found at i:18521385 original size:1 final size:1
Alignment explanation
Indices: 18521379--18521405 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
18521369 CCATGAGCGG
18521379 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
18521406 AAATATTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:18528215 original size:51 final size:51
Alignment explanation
Indices: 18528155--18528254 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
18528145 TTTTTTTTTA
*
18528155 TTTTACAAGTTTTATTTCTAAATTTTTCACTATTTAGGT-TAATTTAGAATT
1 TTTTACAAGTTTTATTTCTAAATTTTTCACCATTTAGGTCT-ATTTAGAATT
* *
18528206 TTTTACAAGTTTTATTTCTATATTTTTCACCATTTTGGTCTATTTAGAA
1 TTTTACAAGTTTTATTTCTAAATTTTTCACCATTTAGGTCTATTTAGAA
18528255 AAAAAAAGCT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 44 0.98
52 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.55
Consensus pattern (51 bp):
TTTTACAAGTTTTATTTCTAAATTTTTCACCATTTAGGTCTATTTAGAATT
Found at i:18530023 original size:44 final size:41
Alignment explanation
Indices: 18529904--18530159 Score: 166
Period size: 43 Copynumber: 6.1 Consensus size: 41
18529894 CTTAAATAAT
* * * *
18529904 ATAAA-AACTCCTCTAAACAGAGGTTTAAT-ACTTTGAAGA
1 ATAAACAAATCCTCTAAACAGAGGCTCAATGACTTTGAAAA
* * * * **
18529943 ACAAA-AAAGCTCATCTCAACAGAGGCTTAACAACTTTGAAAA
1 ATAAACAAA--TCCTCTAAACAGAGGCTCAATGACTTTGAAAA
*
18529985 AGTAAACAAATCTCTTCTAAATAGAGGCTCAATGACTTTGAAAA
1 A-TAAACAAATC-C-TCTAAACAGAGGCTCAATGACTTTGAAAA
* *
18530029 ATAAAGC---TCCTCTAAATAGAGGCTCAACGACTTTAGAAAA
1 ATAAA-CAAATCCTCTAAACAGAGGCTCAATGACTTT-GAAAA
* ** * *
18530069 ATAAATAAAGTGCCTCTAGGCATAGGCTTAATGA-TTTAGAAAA
1 ATAAACAAA-T-CCTCTAAACAGAGGCTCAATGACTTT-GAAAA
* * *
18530112 ATAAATAAAGCTCCTCTAAACAGAAGCTCAATAACTTTGAAAA
1 ATAAACAAA--TCCTCTAAACAGAGGCTCAATGACTTTGAAAA
18530155 ATAAA
1 ATAAA
18530160 TAAACTTTGA
Statistics
Matches: 172, Mismatches: 29, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
39 29 0.17
40 11 0.06
41 19 0.11
42 12 0.07
43 52 0.30
44 49 0.28
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.25
Consensus pattern (41 bp):
ATAAACAAATCCTCTAAACAGAGGCTCAATGACTTTGAAAA
Found at i:18530154 original size:43 final size:43
Alignment explanation
Indices: 18529897--18530163 Score: 226
Period size: 44 Copynumber: 6.3 Consensus size: 43
18529887 CAAACTTCTT
* * *
18529897 AAATAATATAAAAACTCCTCTAAACAGAGGTTTAAT-ACTTTGAA
1 AAATAA-AT-AAAGCTCCTCTAAACAGAGGCTCAATGACTTTGAA
* * * * * **
18529941 GAACAAA-AAAGCTCATCTCAACAGAGGCTTAACAACTTTGAA
1 AAATAAATAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGAA
* * * *
18529983 AAAGTAAACAAATCTCTTCTAAATAGAGGCTCAATGACTTTG--
1 AAA-TAAATAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGAA
* *
18530025 -AA-AAATAAAGCTCCTCTAAATAGAGGCTCAACGACTTTAGAA
1 AAATAAATAAAGCTCCTCTAAACAGAGGCTCAATGACTTT-GAA
** * *
18530067 AAATAAATAAAG-TGCCTCTAGGCATAGGCTTAATGA-TTTAGAA
1 AAATAAATAAAGCT-CCTCTAAACAGAGGCTCAATGACTTT-GAA
* *
18530110 AAATAAATAAAGCTCCTCTAAACAGAAGCTCAATAACTTTGAA
1 AAATAAATAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGAA
18530153 AAATAAATAAA
1 AAATAAATAAA
18530164 CTTTGAAAAA
Statistics
Matches: 180, Mismatches: 32, Indels: 23
0.77 0.14 0.10
Matches are distributed among these distances:
39 32 0.18
40 1 0.01
41 23 0.13
42 10 0.06
43 56 0.31
44 58 0.32
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (43 bp):
AAATAAATAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGAA
Found at i:18530167 original size:18 final size:18
Alignment explanation
Indices: 18530144--18530180 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
18530134 GAAGCTCAAT
18530144 AACTTTGAAAAATAAATA
1 AACTTTGAAAAATAAATA
18530162 AACTTTGAAAAATAAATA
1 AACTTTGAAAAATAAATA
18530180 A
1 A
18530181 GGTTCCTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (18 bp):
AACTTTGAAAAATAAATA
Done.