Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008003.1 Hibiscus syriacus cultivar Beakdansim tig00110462_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: 3297763
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 14
Found at i:11592 original size:25 final size:25
Alignment explanation
Indices: 11558--11608 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
11548 ACCAATTCTA
11558 TTTTCTTTTCTTTGTCATCAAACAC
1 TTTTCTTTTCTTTGTCATCAAACAC
11583 TTTTCTTTTCTTTGTCATCAAACAC
1 TTTTCTTTTCTTTGTCATCAAACAC
11608 T
1 T
11609 CACCTTCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.24, G:0.04, T:0.53
Consensus pattern (25 bp):
TTTTCTTTTCTTTGTCATCAAACAC
Found at i:13677 original size:15 final size:15
Alignment explanation
Indices: 13648--13694 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
13638 TTAAATTAAT
**
13648 TTATAAAATGTTAAA
1 TTATAAAATAATAAA
13663 TTATAAAATAATAAA
1 TTATAAAATAATAAA
* *
13678 -TATATAATTATAAA
1 TTATAAAATAATAAA
13692 TTA
1 TTA
13695 ATTAAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
TTATAAAATAATAAA
Found at i:13712 original size:23 final size:23
Alignment explanation
Indices: 13651--13725 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 23
13641 AATTAATTTA
* *
13651 TAAAATGTTAAATTATAAAATAA-
1 TAAAATTTTAAA-TATAAATTAAT
* *
13674 T-AAATATATAATTATAAATTAAT
1 TAAAAT-TTTAAATATAAATTAAT
*
13697 TAAAATTTTAAATATAATTTAAT
1 TAAAATTTTAAATATAAATTAAT
*
13720 TTAAAT
1 TAAAAT
13726 ATTATTTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
22 13 0.32
23 24 0.59
24 4 0.10
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (23 bp):
TAAAATTTTAAATATAAATTAAT
Found at i:13720 original size:17 final size:17
Alignment explanation
Indices: 13682--13732 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 17
13672 AATAAATATA
*
13682 TAATTATAAAT-TAATT
1 TAATTTTAAATATAATT
*
13698 AAAATTTTAAATATAATT
1 -TAATTTTAAATATAATT
*
13716 TAA-TTTAAATATTATT
1 TAATTTTAAATATAATT
13732 T
1 T
13733 TTTTATAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 13 0.45
17 11 0.38
18 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATTTTAAATATAATT
Found at i:26358 original size:6 final size:6
Alignment explanation
Indices: 26315--26355 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
26305 GTAAACACAA
*
26315 GAAGAG GAAGAG GAAGAG GAAGAG GAAGAG GAAGAA GAAGA
1 GAAGAG GAAGAG GAAGAG GAAGAG GAAGAG GAAGAG GAAGA
26356 AGAGAGATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (6 bp):
GAAGAG
Found at i:27323 original size:21 final size:20
Alignment explanation
Indices: 27284--27330 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
27274 AGCGATATCT
* *
27284 AAAATATTATTTTTTTACCA
1 AAAATATTATTTATCTACCA
*
27304 AAAATATTAATTTATCTACCT
1 AAAATATT-ATTTATCTACCA
27325 AAAATA
1 AAAATA
27331 AATATTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.43
Consensus pattern (20 bp):
AAAATATTATTTATCTACCA
Found at i:27488 original size:3 final size:3
Alignment explanation
Indices: 27480--27528 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
27470 TCCTGGTCTT
27480 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27528 T
1 T
27529 CTGCATCTGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:31975 original size:21 final size:23
Alignment explanation
Indices: 31951--31997 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
31941 CTTTGTAAAA
31951 TTAAAATTTAATTTCT-TATT-T
1 TTAAAATTTAATTTCTCTATTCT
*
31972 TTAAAATTTAGTTTCTCTATTCT
1 TTAAAATTTAATTTCTCTATTCT
31995 TTA
1 TTA
31998 TATTGTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 15 0.65
22 4 0.17
23 4 0.17
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.60
Consensus pattern (23 bp):
TTAAAATTTAATTTCTCTATTCT
Found at i:37962 original size:18 final size:19
Alignment explanation
Indices: 37941--37981 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
37931 TAAACATATT
* *
37941 ATATTAAATATTTTA-GAA
1 ATATTAAATACTTCATGAA
37959 ATA-TAAATACTTCATGAA
1 ATATTAAATACTTCATGAA
37977 ATATT
1 ATATT
37982 TTATCAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 9 0.47
18 9 0.47
19 1 0.05
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
ATATTAAATACTTCATGAA
Found at i:41188 original size:14 final size:14
Alignment explanation
Indices: 41169--41203 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
41159 GCTCGATGAA
* *
41169 GAAGAAGCTAAGGT
1 GAAGAAGCCAAGCT
41183 GAAGAAGCCAAGCT
1 GAAGAAGCCAAGCT
41197 GAAGAAG
1 GAAGAAG
41204 AAGAAGAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.34, T:0.09
Consensus pattern (14 bp):
GAAGAAGCCAAGCT
Found at i:41203 original size:3 final size:3
Alignment explanation
Indices: 41197--41224 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
41187 AAGCCAAGCT
41197 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
41225 GGCGGAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:43644 original size:19 final size:19
Alignment explanation
Indices: 43622--43674 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
43612 TATTTAAACT
43622 TAAATCAAAATAATTAA-AA
1 TAAAT-AAAATAATTAATAA
43641 TAAATATAAA-ATATTAATAA
1 TAAATA-AAATA-ATTAATAA
*
43661 TATATAAAATAATT
1 TAAATAAAATAATT
43675 TATATGATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
18 2 0.07
19 19 0.66
20 8 0.28
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAATAAAATAATTAATAA
Found at i:43686 original size:19 final size:18
Alignment explanation
Indices: 43639--43689 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
43629 AAATAATTAA
43639 AATAA-ATATAAAATATT
1 AATAATATATAAAATATT
43656 AATAATATATAAAATAATT
1 AATAATATATAAAAT-ATT
*
43675 TAT-ATGATATAAAAT
1 AATAAT-ATATAAAAT
43690 TAAATATCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 5 0.17
18 11 0.37
19 14 0.47
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
AATAATATATAAAATATT
Found at i:43802 original size:36 final size:37
Alignment explanation
Indices: 43734--43827 Score: 127
Period size: 36 Copynumber: 2.5 Consensus size: 37
43724 ATTAAAATTA
*
43734 ATATATATATATTAAATATTAATTTTTTAATATTATATT
1 ATATAT-TA-ATTTAATATTAATTTTTTAATATTATATT
43773 ATATATTAATTTAATATT-ATTTTTTAATATTATATT
1 ATATATTAATTTAATATTAATTTTTTAATATTATATT
*
43809 ATAGATATTAATTTTATAT
1 AT--ATATTAATTTAATAT
43828 CATATAAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
36 20 0.39
37 9 0.18
38 16 0.31
39 6 0.12
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (37 bp):
ATATATTAATTTAATATTAATTTTTTAATATTATATT
Found at i:50817 original size:35 final size:34
Alignment explanation
Indices: 50732--50818 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
50722 AATTGGTATT
*
50732 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
50766 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
50804 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
50819 ACCGAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:53058 original size:111 final size:111
Alignment explanation
Indices: 52920--53252 Score: 612
Period size: 111 Copynumber: 3.0 Consensus size: 111
52910 ATTACAAAAA
*
52920 TTAATTTTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
52985 AATTAAAACGTTAAAATATTATCGTATCAGTAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTCGAGATAT
53031 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
53096 AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTCGAGATAT
*
53142 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTTCTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
53207 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTCGAGATAT
53253 ATGATTTCCA
Statistics
Matches: 216, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 216 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.37
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:53401 original size:20 final size:20
Alignment explanation
Indices: 53373--53414 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
53363 ATATACTTAA
*
53373 AAAGATAGAGTATTTGAGAG
1 AAAGATAGAGAATTTGAGAG
*
53393 AAAGTTAGAGAATTTGAGAG
1 AAAGATAGAGAATTTGAGAG
53413 AA
1 AA
53415 TTTGGTGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.29, T:0.24
Consensus pattern (20 bp):
AAAGATAGAGAATTTGAGAG
Found at i:53595 original size:50 final size:50
Alignment explanation
Indices: 53541--53666 Score: 164
Period size: 50 Copynumber: 2.5 Consensus size: 50
53531 AGATACCCAG
* *
53541 GTATAGCGCGGATCAGGGGGCGTGCTATACCCACGTGGCGCCAAATCACC
1 GTATAACGCGGATCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
* ** * * *
53591 GTATATCGCGGGGCAGGGGGTGCGTTATACCCACGTGGCGCCAAATCAGC
1 GTATAACGCGGATCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
53641 GTATAACGC-GATTCAGGGGGCGCGCT
1 GTATAACGCGGA-TCAGGGGGCGCGCT
53667 TTACTGCTAC
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
49 1 0.02
50 62 0.98
ACGTcount: A:0.21, C:0.27, G:0.35, T:0.17
Consensus pattern (50 bp):
GTATAACGCGGATCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
Found at i:53740 original size:30 final size:29
Alignment explanation
Indices: 53678--53740 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
53668 TACTGCTACG
* *
53678 GGTGTTAGATCGGGAAATATAATCTGACC
1 GGTGTTAGATCGGGAAATATAATATCACC
* *
53707 GGTGTTAGATCGGTAAATATACTGATCACC
1 GGTGTTAGATCGGGAAATATAAT-ATCACC
53737 GGTG
1 GGTG
53741 ATTTATTGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 21 0.72
30 8 0.28
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (29 bp):
GGTGTTAGATCGGGAAATATAATATCACC
Found at i:54439 original size:28 final size:28
Alignment explanation
Indices: 54406--54462 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
54396 TCACTATTGC
* * *
54406 TTTCAAGCATTGGCTTGACAATATAATG
1 TTTCAAGCATTGACTCGACAACATAATG
54434 TTTCAAGCATTGACTCGACAACATAATG
1 TTTCAAGCATTGACTCGACAACATAATG
54462 T
1 T
54463 AAACAGAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (28 bp):
TTTCAAGCATTGACTCGACAACATAATG
Found at i:56406 original size:2 final size:2
Alignment explanation
Indices: 56399--56426 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
56389 TCATCATGTT
56399 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
56427 AGCCTGAGTA
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:56856 original size:249 final size:252
Alignment explanation
Indices: 56415--57164 Score: 1410
Period size: 249 Copynumber: 3.0 Consensus size: 252
56405 TGTGTGTGTG
56415 TGTGTGTGTGTGAGCCTGAGTAATGAG-ACATATACATTTGCTTACCGTTTATTTGTTATTATAA
1 TGTGTGTGTGTGAGCCTGAGTAATGAGAACATATACATTTGCTTACCGTTTATTTGTTATTATAA
56479 TTGTATCATGAATATGTGCGGATTACCGATATACATCGTTATGAAATTCATCATGTATGTTGCAT
66 TTGTATCATGAATATGTGCGGATTACCGATATACATCGTTATGAAATTCATCATGTATGTTGCAT
56544 TGGGTTTGTGAAGAGGAAGAATAATCGAAATACAGGTTGGTGCATCCTTACCGGATGATAAACTC
131 TGGG-TTGTGAAGAGGAAGAATAATCGAAATACAGGTTGGTGCATCCTTACCGGATGATAAACTC
56609 AATTATTGATTTATAGACTGGTGCATCCTTATCGGATGATAAACCATTCATCATGTAT
195 AATTATTGATTTATAGACTGGTGCATCCTTATCGGATGATAAACCATTCATCATGTAT
56667 TGTGTGTGTGTGAGCCTGAGTAATGAGAACATATACATTTGCTTACCGTTTATTTGTTATTATAA
1 TGTGTGTGTGTGAGCCTGAGTAATGAGAACATATACATTTGCTTACCGTTTATTTGTTATTATAA
56732 TTGTATCATGAATATGT-CGGATT-CCGATATACATCGTTATGAAATTCATCATGTATGTTGCAT
66 TTGTATCATGAATATGTGCGGATTACCGATATACATCGTTATGAAATTCATCATGTATGTTGCAT
56795 TGGG-TGTGAAGAGGAAGAATAATCGAAATACAGGTTGGTGCATCCTTACCGGATGATAAACTCA
131 TGGGTTGTGAAGAGGAAGAATAATCGAAATACAGGTTGGTGCATCCTTACCGGATGATAAACTCA
56859 ATTATTGATTTATAGACTGGGTGCATCCTTATCGGATGATAAACCATTCATCATGTA-
196 ATTATTGATTTATAGACT-GGTGCATCCTTATCGGATGATAAACCATTCATCATGTAT
56916 --T-TGTGTGTGAGCCTGAGTAATGAGAACATATACATTTGCTTACCGTTTATTTGTTATTATAA
1 TGTGTGTGTGTGAGCCTGAGTAATGAGAACATATACATTTGCTTACCGTTTATTTGTTATTATAA
56978 TTGTATCATGAATATGTGCGGATTACCGATATACATCGTTATGAAATTCATCATGTATGTTGCAT
66 TTGTATCATGAATATGTGCGGATTACCGATATACATCGTTATGAAATTCATCATGTATGTTGCAT
57043 TGGGTTTGTGAAGAGGAAGAATAATCGAAATACAGGTTGGTGCATCCTTA-CGGATGATAAACTC
131 TGGG-TTGTGAAGAGGAAGAATAATCGAAATACAGGTTGGTGCATCCTTACCGGATGATAAACTC
57107 AATTATTGATTTATAGACTGGTGCATCCTTATCGGATGATAAACCATTCATCATGTAT
195 AATTATTGATTTATAGACTGGTGCATCCTTATCGGATGATAAACCATTCATCATGTAT
57165 GATTAATTAT
Statistics
Matches: 491, Mismatches: 0, Indels: 17
0.97 0.00 0.03
Matches are distributed among these distances:
246 78 0.16
247 7 0.01
248 82 0.17
249 111 0.23
250 82 0.17
251 44 0.09
252 33 0.07
253 54 0.11
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (252 bp):
TGTGTGTGTGTGAGCCTGAGTAATGAGAACATATACATTTGCTTACCGTTTATTTGTTATTATAA
TTGTATCATGAATATGTGCGGATTACCGATATACATCGTTATGAAATTCATCATGTATGTTGCAT
TGGGTTGTGAAGAGGAAGAATAATCGAAATACAGGTTGGTGCATCCTTACCGGATGATAAACTCA
ATTATTGATTTATAGACTGGTGCATCCTTATCGGATGATAAACCATTCATCATGTAT
Found at i:60491 original size:7 final size:7
Alignment explanation
Indices: 60479--60539 Score: 122
Period size: 7 Copynumber: 8.7 Consensus size: 7
60469 AGAGAAAGAG
60479 GTTGCCT
1 GTTGCCT
60486 GTTGCCT
1 GTTGCCT
60493 GTTGCCT
1 GTTGCCT
60500 GTTGCCT
1 GTTGCCT
60507 GTTGCCT
1 GTTGCCT
60514 GTTGCCT
1 GTTGCCT
60521 GTTGCCT
1 GTTGCCT
60528 GTTGCCT
1 GTTGCCT
60535 GTTGC
1 GTTGC
60540 TAATTAACCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 54 1.00
ACGTcount: A:0.00, C:0.28, G:0.30, T:0.43
Consensus pattern (7 bp):
GTTGCCT
Found at i:60883 original size:30 final size:26
Alignment explanation
Indices: 60818--60883 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 26
60808 CATAAATATT
60818 TAAAATAATATTATTTTATATATTTAA
1 TAAAAT-ATATTATTTTATATATTTAA
*
60845 TATTAATATATTATTTTAGTATCATTTTAA
1 TA-AAATATATTATTTTA-TAT-A-TTTAA
60875 TGAAAATAT
1 T-AAAATAT
60884 TAATTATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
27 13 0.41
28 6 0.19
29 1 0.03
30 11 0.34
31 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (26 bp):
TAAAATATATTATTTTATATATTTAA
Found at i:61148 original size:20 final size:20
Alignment explanation
Indices: 61125--61207 Score: 62
Period size: 20 Copynumber: 4.1 Consensus size: 20
61115 TTAATATTAT
*
61125 AATAATATTTTTAATTAATA
1 AATAATATTTATAATTAATA
*
61145 AATAACTA-ATATAATTAATA
1 AATAA-TATTTATAATTAATA
* ** *
61165 ATATAATATTCATGTTTAATG
1 A-ATAATATTTATAATTAATA
*
61186 AATAAT-TTATATAATTTATA
1 AATAATATT-TATAATTAATA
61206 AA
1 AA
61208 AAAAATATTT
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
19 2 0.04
20 31 0.66
21 14 0.30
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
AATAATATTTATAATTAATA
Found at i:61337 original size:24 final size:24
Alignment explanation
Indices: 61309--61360 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
61299 ATTATTTCAA
61309 TATTTTAAAA-ATAATAATATTAAT
1 TATTTTAAAATA-AATAATATTAAT
** *
61333 TATTTTCTAATAAATAATATTACT
1 TATTTTAAAATAAATAATATTAAT
61357 TATT
1 TATT
61361 ATACTTGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (24 bp):
TATTTTAAAATAAATAATATTAAT
Found at i:65070 original size:25 final size:27
Alignment explanation
Indices: 65036--65094 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
65026 AGATATTTTA
65036 TTAAAATATA-TAT-ATATTAGACATT
1 TTAAAATATATTATCATATTAGACATT
* *
65061 TTAAAATATATTTATCATGTTAGATATT
1 TTAAAATATA-TTATCATATTAGACATT
65089 TTAAAA
1 TTAAAA
65095 ATACACGCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 10 0.34
27 3 0.10
28 16 0.55
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (27 bp):
TTAAAATATATTATCATATTAGACATT
Found at i:68688 original size:16 final size:16
Alignment explanation
Indices: 68667--68703 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
68657 ATTTAAAATT
68667 ATTATGAAAGATTATA
1 ATTATGAAAGATTATA
68683 ATTATGAAAGATTATA
1 ATTATGAAAGATTATA
68699 ATTAT
1 ATTAT
68704 AATTATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.41
Consensus pattern (16 bp):
ATTATGAAAGATTATA
Found at i:72097 original size:12 final size:12
Alignment explanation
Indices: 72080--72104 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
72070 TAATATGATA
72080 AATTATTTATTT
1 AATTATTTATTT
72092 AATTATTTATTT
1 AATTATTTATTT
72104 A
1 A
72105 TTTCTATGAT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATTATTTATTT
Found at i:76795 original size:26 final size:26
Alignment explanation
Indices: 76761--76818 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
76751 TAACTAACAA
*
76761 TTCTCTTTCCTTTTACGAAACATCTT
1 TTCTTTTTCCTTTTACGAAACATCTT
*
76787 TTCTTTTTCCTTTTCCGAAACATCTT
1 TTCTTTTTCCTTTTACGAAACATCTT
*
76813 TCCTTT
1 TTCTTT
76819 ATCCCTTCCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.16, C:0.28, G:0.03, T:0.53
Consensus pattern (26 bp):
TTCTTTTTCCTTTTACGAAACATCTT
Found at i:76827 original size:25 final size:26
Alignment explanation
Indices: 76776--76827 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
76766 TTTCCTTTTA
* * *
76776 CGAAACATCTTTTCTTTTTCCTTTTC
1 CGAAACATCTTTCCTTTATCCTCTTC
76802 CGAAACATCTTTCCTTTATCC-CTTC
1 CGAAACATCTTTCCTTTATCCTCTTC
76827 C
1 C
76828 CTCATTGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.17, C:0.33, G:0.04, T:0.46
Consensus pattern (26 bp):
CGAAACATCTTTCCTTTATCCTCTTC
Found at i:82161 original size:21 final size:21
Alignment explanation
Indices: 82117--82162 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
82107 GATTTCTGGG
* * *
82117 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
82138 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
82159 CAAG
1 CAAG
82163 CGAACCAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:82234 original size:23 final size:22
Alignment explanation
Indices: 82186--82234 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
82176 ACAGAATGTC
82186 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
82207 CAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACCGATACCCCC-A
82230 AAGGA
1 AAGGA
82235 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.33, C:0.31, G:0.29, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:83051 original size:31 final size:31
Alignment explanation
Indices: 83013--83200 Score: 297
Period size: 31 Copynumber: 6.0 Consensus size: 31
83003 AGGGTCAAGG
*
83013 GTTTACCTATGTTCTTCGGGACATATGAACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
83044 GTTTACCTATGTTTTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
83075 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
83106 GTTTACCTATGCTTTTTCGGGACATATGGACT
1 GTTTACCTATG-TTCTTCGGGACATATGGACT
83138 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
83169 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
83200 G
1 G
83201 GTCCTTCGGG
Statistics
Matches: 147, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
31 116 0.79
32 31 0.21
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:83139 original size:94 final size:93
Alignment explanation
Indices: 83013--83200 Score: 297
Period size: 94 Copynumber: 2.0 Consensus size: 93
83003 AGGGTCAAGG
* *
83013 GTTTACCTATGTTCTTCGGGACATATGAACTGTTTACCTATGTTTTTCGGGACATATGGACTGTT
1 GTTTACCTATGTTCTTCGGGACATATGAACTGTTTACCTATGTTCTTCGGGACATATGGACTGAT
* *
83078 TACCTATGTTCTTCGGGA-CATATGGACT
66 TACCTAGGTTCTTCGGAATC-TATGGACT
* *
83106 GTTTACCTATGCTTTTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACTGA
1 GTTTACCTATG-TTCTTCGGGACATATGAACTGTTTACCTATGTTCTTCGGGACATATGGACTGA
83171 TTACCTAGGTTCTTCGGAATCTATGGACT
65 TTACCTAGGTTCTTCGGAATCTATGGACT
83200 G
1 G
83201 GTCCTTCGGG
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
93 11 0.13
94 75 0.86
95 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (93 bp):
GTTTACCTATGTTCTTCGGGACATATGAACTGTTTACCTATGTTCTTCGGGACATATGGACTGAT
TACCTAGGTTCTTCGGAATCTATGGACT
Found at i:83154 original size:63 final size:62
Alignment explanation
Indices: 83013--83200 Score: 306
Period size: 63 Copynumber: 3.0 Consensus size: 62
83003 AGGGTCAAGG
*
83013 GTTTACCTATGTTCTTCGGGACATATGAACTGTTTACCTATGTTTTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTTTTCGGGACATATGGACT
83075 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGCTTTTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATG-TTTTTCGGGACATATGGACT
* * * *
83138 GTTTACCTATGTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTTTTCGGGA-CATATGGACT
83200 G
1 G
83201 GTCCTTCGGG
Statistics
Matches: 119, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
62 58 0.49
63 61 0.51
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (62 bp):
GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTTTTCGGGACATATGGACT
Found at i:85865 original size:21 final size:21
Alignment explanation
Indices: 85821--85866 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
85811 GATTTCTGGG
* * *
85821 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
85842 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
85863 CAAG
1 CAAG
85867 CAAACCAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:85939 original size:24 final size:22
Alignment explanation
Indices: 85890--85931 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
85880 ACAGAATGTC
85890 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
85911 CAGGAGGGAACCGATTCCCCC
1 AAGGAGGGAACCGATACCCCC
85932 CTAAAGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.29, C:0.36, G:0.29, T:0.07
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:86838 original size:62 final size:62
Alignment explanation
Indices: 86718--86842 Score: 198
Period size: 62 Copynumber: 2.0 Consensus size: 62
86708 AGGGTCGAGG
* * * *
86718 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCAGAACATATGGACT
86780 GTTTACCTATGTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCAGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCAGAA-CATATGGACT
86842 G
1 G
86843 GTCATTCGGG
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
62 57 0.98
63 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (62 bp):
GTTTACCTATGTTCTTCGGGACATATGGACTGATTACCTAGGTTCTTCAGAACATATGGACT
Found at i:86842 original size:31 final size:31
Alignment explanation
Indices: 86718--86827 Score: 202
Period size: 31 Copynumber: 3.5 Consensus size: 31
86708 AGGGTCGAGG
86718 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
86749 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
86780 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
86811 GATTACCTAGGTTCTTC
1 GTTTACCTATGTTCTTC
86828 AGAATCTATG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:92055 original size:19 final size:19
Alignment explanation
Indices: 92031--92073 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
92021 CCTCCTTTGA
*
92031 AGGGGAACCGATTCCCCCT
1 AGGGGAACCGATACCCCCT
*
92050 AGGGGAATCGATACCCCCT
1 AGGGGAACCGATACCCCCT
*
92069 TGGGG
1 AGGGG
92074 TTCTGGTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.21, C:0.30, G:0.33, T:0.16
Consensus pattern (19 bp):
AGGGGAACCGATACCCCCT
Found at i:94990 original size:29 final size:29
Alignment explanation
Indices: 94956--95019 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
94946 AAAAAATCGG
* *
94956 TTAATTCGGT-TCTGTTAATAATTTTTAAA
1 TTAATTCGGTAT-GGTTAATAATTTTCAAA
*
94985 TTAATTTGGTATGGTTAATAATTTTCAAA
1 TTAATTCGGTATGGTTAATAATTTTCAAA
*
95014 TAAATT
1 TTAATT
95020 TTGGTTTGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 29 0.97
30 1 0.03
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (29 bp):
TTAATTCGGTATGGTTAATAATTTTCAAA
Found at i:95121 original size:29 final size:29
Alignment explanation
Indices: 95082--95145 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
95072 AAAAAAATTG
*
95082 TTAATTCGGTTCGGTTAATAATTTTCAAA
1 TTAATTCGGTTCAGTTAATAATTTTCAAA
*
95111 TTAATTGGGTTCAGTTAATAATTTTCAAA
1 TTAATTCGGTTCAGTTAATAATTTTCAAA
*
95140 TAAATT
1 TTAATT
95146 TTAGTTCGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.45
Consensus pattern (29 bp):
TTAATTCGGTTCAGTTAATAATTTTCAAA
Found at i:107009 original size:15 final size:15
Alignment explanation
Indices: 106989--107024 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
106979 CAGTTGAGTC
106989 TGGTATACAAGCTGT
1 TGGTATACAAGCTGT
*
107004 TGGTATACAGGCTGT
1 TGGTATACAAGCTGT
107019 T-GTATA
1 TGGTATA
107025 AAAGGGCTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.25, C:0.11, G:0.28, T:0.36
Consensus pattern (15 bp):
TGGTATACAAGCTGT
Found at i:110280 original size:25 final size:24
Alignment explanation
Indices: 110226--110281 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
110216 CCTTTAATCC
*
110226 TTTTT-ATAAATTTAATTTTTAAA
1 TTTTTAATAAATTTAATATTTAAA
* *
110249 TAATTTAATAAATTTAACTATTTATA
1 T-TTTTAATAAATTTAA-TATTTAAA
110275 TTTTTAA
1 TTTTTAA
110282 AATTCATTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.04
24 3 0.12
25 15 0.58
26 7 0.27
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTTAATAAATTTAATATTTAAA
Found at i:115431 original size:33 final size:33
Alignment explanation
Indices: 115386--115458 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
115376 GCACCACCAA
* * *
115386 CAGCAGCCTACTGTAGGAGTCTCTAATCAGTTG
1 CAGCAGCCTACTGTAGGAATCCCTAATCAGTCG
*
115419 CAGCAGCTTACTGTAGGAATCCCTAATCAGTCG
1 CAGCAGCCTACTGTAGGAATCCCTAATCAGTCG
115452 CAGCAGC
1 CAGCAGC
115459 AGAATATTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (33 bp):
CAGCAGCCTACTGTAGGAATCCCTAATCAGTCG
Found at i:117870 original size:23 final size:22
Alignment explanation
Indices: 117840--118038 Score: 145
Period size: 23 Copynumber: 8.7 Consensus size: 22
117830 TCTCAGACTA
*
117840 ATGGAAGAAGAATAAATTGATTT
1 ATGGAAGAAGAAGAAATTG-TTT
117863 ATGGAAGAAGAAGAAATATGTTT
1 ATGGAAGAAGAAGAAAT-TGTTT
* * *
117886 ATGGAAGAAAAATAAATGGGTTT
1 ATGGAAGAAGAAGAAAT-TGTTT
* *
117909 ATGAAAGAAGAAAAAATGTGTTT
1 ATGGAAGAAGAAGAAAT-TGTTT
**
117932 ATGGAAGAAGAAGAAGGTGTTT
1 ATGGAAGAAGAAGAAATTGTTT
* *
117954 ATGGAAGAATAAGGAACA-AGTTT
1 ATGGAAGAAGAA-GAA-ATTGTTT
* *
117977 ATGTATAAGAA-AA-AAATGGGTTTT
1 ATG--GAAGAAGAAGAAAT-TG-TTT
*
118001 ATGGAAGAAGAA-ACAATGAGTTT
1 ATGGAAGAAGAAGA-AAT-TGTTT
118024 ATGGAAGAAGAAGAA
1 ATGGAAGAAGAAGAA
118039 TTATTAAGAA
Statistics
Matches: 145, Mismatches: 20, Indels: 22
0.78 0.11 0.12
Matches are distributed among these distances:
21 1 0.01
22 23 0.16
23 100 0.69
24 16 0.11
25 5 0.03
ACGTcount: A:0.48, C:0.01, G:0.26, T:0.25
Consensus pattern (22 bp):
ATGGAAGAAGAAGAAATTGTTT
Found at i:117910 original size:46 final size:45
Alignment explanation
Indices: 117840--118032 Score: 169
Period size: 46 Copynumber: 4.2 Consensus size: 45
117830 TCTCAGACTA
* * *
117840 ATGGAAGAAGAATAAATTGATTTATGGAAGAAGAAGAAATATGTTT
1 ATGGAAGAA-AAAAAATGGGTTTATGGAAGAAGAAGAAATATGTTT
* * *
117886 ATGGAAGAAAAATAAATGGGTTTATGAAAGAAGAAAAAATGTGTTT
1 ATGGAAGAAAAA-AAATGGGTTTATGGAAGAAGAAGAAATATGTTT
* * * * * *
117932 ATGGAAGAAGAAGAA-GGTGTTTATGGAAGAATAAGGAACAAGTTT
1 ATGGAAGAAAAAAAATGG-GTTTATGGAAGAAGAAGAAATATGTTT
*
117977 ATGTATA-AGAAAAAAATGGGTTTTATGGAAGAAGAA-ACAATGA-GTTT
1 ATGGA-AGA-AAAAAAATGGG-TTTATGGAAGAAGAAGA-AAT-ATGTTT
118024 ATGGAAGAA
1 ATGGAAGAA
118033 GAAGAATTAT
Statistics
Matches: 116, Mismatches: 22, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
44 2 0.02
45 29 0.25
46 57 0.49
47 27 0.23
48 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.26, T:0.25
Consensus pattern (45 bp):
ATGGAAGAAAAAAAATGGGTTTATGGAAGAAGAAGAAATATGTTT
Found at i:118002 original size:69 final size:68
Alignment explanation
Indices: 117844--118038 Score: 196
Period size: 69 Copynumber: 2.8 Consensus size: 68
117834 AGACTAATGG
* * * * * ***
117844 AAGAAGAATAAATTGATTTATGGAAGAAGAAGAAATATGTTTATGGAAGAAAAATAAATGGGTTT
1 AAGAAGAAAAAATGGGTTTATGGAAGAAGAAG-AATGTGTTTATGGAAGAAAAAGAAACAAGTTT
117909 ATGA
65 ATGA
* * * *
117913 AAGAAGAAAAAATGTGTTTATGGAAGAAGAAGAAGGTGTTTATGGAAGAATAAGGAACAAGTTTA
1 AAGAAGAAAAAATGGGTTTATGGAAGAAGAAGAATGTGTTTATGGAAGAAAAAGAAACAAGTTTA
117978 TGTA
66 TG-A
* * *
117982 TAAG-A-AAAAAATGGGTTTTATGGAAGAAGAAACAATGAGTTTATGGAAGAAGAAGAA
1 -AAGAAGAAAAAATGGG-TTTATGGAAGAAG-AAGAATGTGTTTATGGAAGAAAAAGAA
118039 TTATTAAGAA
Statistics
Matches: 104, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
68 36 0.35
69 43 0.41
70 25 0.24
ACGTcount: A:0.49, C:0.01, G:0.26, T:0.25
Consensus pattern (68 bp):
AAGAAGAAAAAATGGGTTTATGGAAGAAGAAGAATGTGTTTATGGAAGAAAAAGAAACAAGTTTA
TGA
Found at i:118024 original size:92 final size:92
Alignment explanation
Indices: 117840--118038 Score: 251
Period size: 92 Copynumber: 2.2 Consensus size: 92
117830 TCTCAGACTA
* * * *
117840 ATGGAAGAAGAATAAATTGATTTATGGAAGAAGAAGAAATATGTTTATGGAAGAAAAATAAATGG
1 ATGGAAGAAGAAGAAAGTGATTTATGGAAGAAGAAGAAACAAGTTTATGGAAGAAAAATAAATGG
*
117905 GTTTATGAAAGAAGAAAAAATGTGTTT
66 GTTTATGAAAGAAGAAAAAATGAGTTT
* * * *
117932 ATGGAAGAAGAAGAAGGTG-TTTATGGAAGAATAAGGAACAAGTTTATGTATA-AGAAAA-AAAT
1 ATGGAAGAAGAAGAAAGTGATTTATGGAAGAAGAAGAAACAAGTTTATGGA-AGA-AAAATAAAT
* *
117994 GGGTTTTATGGAAGAAGAAACAATGAGTTT
64 GGG-TTTATGAAAGAAGAAAAAATGAGTTT
118024 ATGGAAGAAGAAGAA
1 ATGGAAGAAGAAGAA
118039 TTATTAAGAA
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
91 34 0.37
92 59 0.63
ACGTcount: A:0.48, C:0.01, G:0.26, T:0.25
Consensus pattern (92 bp):
ATGGAAGAAGAAGAAAGTGATTTATGGAAGAAGAAGAAACAAGTTTATGGAAGAAAAATAAATGG
GTTTATGAAAGAAGAAAAAATGAGTTT
Found at i:118904 original size:21 final size:21
Alignment explanation
Indices: 118880--118919 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
118870 AAAACAATTA
* *
118880 AATTTATTTATTTTGAAATCC
1 AATTTAATTATTCTGAAATCC
118901 AATTTAATTATTCTGAAAT
1 AATTTAATTATTCTGAAAT
118920 TTACATTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (21 bp):
AATTTAATTATTCTGAAATCC
Found at i:122682 original size:64 final size:62
Alignment explanation
Indices: 122597--122756 Score: 162
Period size: 64 Copynumber: 2.5 Consensus size: 62
122587 TTGTTTAAAG
* * * *
122597 TGCATCGATGCACATGCAGTGCATCGATGCAT-TAATTTAAAAAGAAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCAA-TTAAAAA-AAAACATCGAATAGGA-TTA
* * * *
122661 TGCATCGATGCATAAGGAGTGCATCGATACATCCCCATTAAATACAAACATCGAATAGGATTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCAT-CCAATTAAAAAAAAACATCGAATAGGATTA
* *
122724 TGTATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
122757 ACCTCCATTA
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
62 1 0.01
63 16 0.20
64 57 0.70
65 6 0.07
66 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (62 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCAATTAAAAAAAAACATCGAATAGGATTA
Found at i:123396 original size:103 final size:103
Alignment explanation
Indices: 123217--123434 Score: 427
Period size: 103 Copynumber: 2.1 Consensus size: 103
123207 GTAGAGGGTC
123217 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
123282 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
123320 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
123385 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
123423 TATGTAGTCCTT
1 TATGTGGTCCTT
123435 ATGGAAATTA
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 114 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:123477 original size:23 final size:23
Alignment explanation
Indices: 123451--123518 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
123441 ATTATTATAT
123451 GGCACTACGGTGCAATTCTATGC
1 GGCACTACGGTGCAATTCTATGC
* * *
123474 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTATGC
*
123497 GGCACTTA-GGTGCAATTATATG
1 GGCAC-TACGGTGCAATTCTATG
123519 AGTTATGGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 37 0.97
24 1 0.03
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTATGC
Found at i:129631 original size:60 final size:59
Alignment explanation
Indices: 129556--129679 Score: 153
Period size: 60 Copynumber: 2.1 Consensus size: 59
129546 TGATTCTCTA
* * *
129556 ACTATAGGATGTTACTTTGTTGAATACAT-TGACTATTAAAAGTTACAAAATGATCA-CTCG
1 ACTATAGGATATTACTTTATTGAAT-CATCTAACTATTAAAA-TTACAAAATGATCACCT-G
* * *
129616 ACTATAGGATATTACTTTATTGAGTCATCTAACTGTTAAAATTTCAAAATGATCACCTG
1 ACTATAGGATATTACTTTATTGAATCATCTAACTATTAAAATTACAAAATGATCACCTG
129675 ACTAT
1 ACTAT
129680 TCATATGTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
59 22 0.39
60 34 0.61
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (59 bp):
ACTATAGGATATTACTTTATTGAATCATCTAACTATTAAAATTACAAAATGATCACCTG
Found at i:130465 original size:41 final size:41
Alignment explanation
Indices: 130413--130491 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
130403 TATATTTAGG
130413 CATTTTATGTGTATTTTCAATCAATAATATATTTTCGTCTT
1 CATTTTATGTGTATTTTCAATCAATAATATATTTTCGTCTT
* *
130454 CATTTTATGTGTATTTTCTATCAATAATCTATTTTCGT
1 CATTTTATGTGTATTTTCAATCAATAATATATTTTCGT
130492 ATCCTAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.25, C:0.13, G:0.08, T:0.54
Consensus pattern (41 bp):
CATTTTATGTGTATTTTCAATCAATAATATATTTTCGTCTT
Found at i:130774 original size:70 final size:71
Alignment explanation
Indices: 130661--130802 Score: 259
Period size: 70 Copynumber: 2.0 Consensus size: 71
130651 TCATAGGTTC
*
130661 ACATGCTTTATTGCCCTTGTCATTCCAAAATGTATTCAAAGTCTTTAGTTTCTTTGAATTTTT-T
1 ACATGCTTTATTGCCCTTGTCATTCCAAAATGTATTCAAAGTCTTTAGTTTCTTTGAATTTTTCC
130725 CCACAA
66 CCACAA
*
130731 ACATGCTTTATTGCCCTTGTCATTCCAAAATGTATTCAAAGTCTTTAGTTTCTTTTAATTTTTCC
1 ACATGCTTTATTGCCCTTGTCATTCCAAAATGTATTCAAAGTCTTTAGTTTCTTTGAATTTTTCC
130796 CCACAA
66 CCACAA
130802 A
1 A
130803 AAGACGTATT
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
70 62 0.90
71 7 0.10
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.44
Consensus pattern (71 bp):
ACATGCTTTATTGCCCTTGTCATTCCAAAATGTATTCAAAGTCTTTAGTTTCTTTGAATTTTTCC
CCACAA
Found at i:143855 original size:18 final size:18
Alignment explanation
Indices: 143821--143856 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
143811 AATTAATATA
*
143821 ATTACATATTTGATCTAT
1 ATTACATATATGATCTAT
*
143839 ATTACATATATGTTCTAT
1 ATTACATATATGATCTAT
143857 CAATAGATCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (18 bp):
ATTACATATATGATCTAT
Found at i:144410 original size:13 final size:13
Alignment explanation
Indices: 144394--144418 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
144384 GTTAATGTTA
144394 TAAAATAATAATT
1 TAAAATAATAATT
144407 TAAAATAATAAT
1 TAAAATAATAAT
144419 AAATCATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAAATAATAATT
Found at i:148213 original size:229 final size:227
Alignment explanation
Indices: 147808--148256 Score: 783
Period size: 229 Copynumber: 2.0 Consensus size: 227
147798 GTAAATTATC
* * *
147808 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
147873 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
147938 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
148003 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAAGTATA
* *
148036 TATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
148101 TTAATATTGTTAAATTT-AAATGCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
65 TTAATATTGTTAAATTTAAAAT-CTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
* *
148165 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
129 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
148230 TGAAACATAAATTACATAACTTTAAAA
194 TGAAACATAAATTACATAACTTTAAAA
148257 GCAATTTTAA
Statistics
Matches: 210, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
228 43 0.20
229 167 0.80
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:148345 original size:20 final size:19
Alignment explanation
Indices: 148322--148367 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
148312 CGATATACCA
*
148322 GGTAAAAATATGATAAAACT
1 GGTAAAAA-ATGATAAAACC
148342 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
148362 GGTAAA
1 GGTAAA
148368 TTTAAAAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 1 0.04
20 20 0.83
21 3 0.12
ACGTcount: A:0.54, C:0.09, G:0.17, T:0.20
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:148512 original size:20 final size:19
Alignment explanation
Indices: 148489--148535 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
148479 CGATATAACA
148489 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
148509 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
148529 GGTAAAA
1 GGTAAAA
148536 TGATACCAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:148537 original size:17 final size:19
Alignment explanation
Indices: 148498--148540 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
148488 AGGTAAAAAT
148498 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
148518 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
148535 ATGATA
1 ATGATA
148541 CCAGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:150894 original size:32 final size:32
Alignment explanation
Indices: 150840--150900 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
150830 AAATAGATGG
*
150840 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGTGA
***
150872 AGTGGTGAAAGAAGTTTCGGTGTTAAGGG
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGG
150901 GTGATATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.30, C:0.02, G:0.44, T:0.25
Consensus pattern (32 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGTGA
Found at i:152718 original size:19 final size:19
Alignment explanation
Indices: 152694--152742 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
152684 AATGTCGAGT
152694 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
152713 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
152732 TATTTTTGTAT
1 TAATTTTGTAT
152743 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:153291 original size:196 final size:198
Alignment explanation
Indices: 152861--154411 Score: 2781
Period size: 196 Copynumber: 7.9 Consensus size: 198
152851 CAATATGGCC
* * *
152861 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
*
152926 ACCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
* *
152990 AGGATATTTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAA
129 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAA
**
153055 TTAAA
194 TGGAA
153060 AACAAGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
153123 CAAAAGTATAATGTAATATGTAATTTTTCAATGTAACCGGTACAATTATACCGG-TTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
153187 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT-
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
*
153251 TAA
196 GAA
153254 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
153319 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
153384 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTT-TCCAGAATGAAT
153449 GGAA
195 GGAA
153453 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
153518 CAAAAGTATAATGTAATATGTAATTTTTCAATGTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
* *
153583 GATATGTCTAAATAATGTGTCGACACTAATATTGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
153648 GAA
196 GAA
153651 AAC-AGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
153714 CAAAAGTATAATGTAATATGTAATTTTTCAATGTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
153779 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCAGAATGAAT-
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
*
153842 TAA
196 GAA
153845 AACAAGGTGCACCCATAAAGTGTCGATCCATATA-AAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
153909 C-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
* *
153973 AATATGTCTAAATAATGTGTTGACACTAATATAGTTTGTGTCGATATTTTTTCCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTT-TCCAGAATGAAT
154038 GGAA
195 GGAA
154042 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
154105 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
154170 GATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
154235 GAA
196 GAA
*
154238 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
154302 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
154366 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
154412 CTAATTTAAA
Statistics
Matches: 1311, Mismatches: 27, Indels: 31
0.96 0.02 0.02
Matches are distributed among these distances:
194 143 0.11
195 180 0.14
196 438 0.33
197 312 0.24
198 29 0.02
199 209 0.16
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (198 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
GAA
Found at i:155889 original size:18 final size:18
Alignment explanation
Indices: 155868--155935 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
155858 AGCGGTCGCA
155868 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
155886 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
155907 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
155928 GAAGATGA
1 GAAGATGA
155936 TGACGATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:155892 original size:6 final size:6
Alignment explanation
Indices: 155868--155965 Score: 70
Period size: 6 Copynumber: 16.3 Consensus size: 6
155858 AGCGGTCGCA
* * * * * *
155868 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * * *
155916 GAAGCT GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
155964 GA
1 GA
155966 TGATCCAAAC
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:155903 original size:3 final size:3
Alignment explanation
Indices: 155883--155969 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
155873 TGAAGCTGAC
* * * * * ** *
155883 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
155931 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
155970 CCAAACAAGT
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:155918 original size:42 final size:42
Alignment explanation
Indices: 155871--155961 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
155861 GGTCGCAGAA
*
155871 GATGAAGCTGACGATGAAGATGACGATGATGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
* * *
155913 GATGAAGCTGGCGATGAAGATGATGACGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
155955 GATGAAG
1 GATGAAG
155962 ATGATGATCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (42 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
Found at i:155969 original size:18 final size:18
Alignment explanation
Indices: 155868--155965 Score: 88
Period size: 18 Copynumber: 5.4 Consensus size: 18
155858 AGCGGTCGCA
* *
155868 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
155886 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* * * *
155904 GATGATGACGATGAAGCT
1 GAAGATGAAGATGATGAT
** *
155922 GGCGATGAAGATGATGAC
1 GAAGATGAAGATGATGAT
* *
155940 GATGATGATGATGATGAT
1 GAAGATGAAGATGATGAT
155958 GAAGATGA
1 GAAGATGA
155966 TGATCCAAAC
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:157935 original size:184 final size:184
Alignment explanation
Indices: 157434--158133 Score: 1269
Period size: 184 Copynumber: 3.8 Consensus size: 184
157424 ATATTATAAA
* * * * *
157434 AATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAAC
1 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAAC
*
157499 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
66 CTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
157564 TACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGT
131 TACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGT
157618 AATAGATAATTTTGTAATATAACCGGTAT-AATATACCGG-TTTATGAGCGAATAGGTCTACAAC
1 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAAC
* *
157681 CTATAGCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATATGTCGA
66 CTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
157746 TACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGT
131 TACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGT
157800 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAAC
1 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAAC
* *
157865 CTATATCGACACTTTTTAATATTGTGTCGGAACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
66 CTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
*
157930 TACGATTTAAAAAAGTGTCGACATTTTTCACATCGGAACCCATAATTATAATGT
131 TACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGT
157984 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAAC
1 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAAC
*
158049 CTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAATAAAAATGTGTCGA
66 CTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
*
158114 TACCATTTAAAAAAGTGTCG
131 TACGATTTAAAAAAGTGTCG
158134 GTAATTTGAA
Statistics
Matches: 497, Mismatches: 17, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
182 167 0.34
183 20 0.04
184 310 0.62
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (184 bp):
AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAAC
CTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
TACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGT
Found at i:160763 original size:20 final size:23
Alignment explanation
Indices: 160715--160770 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 23
160705 TAAACAAATG
160715 ATGTAATAGGTAGCCCTTATATA
1 ATGTAATAGGTAGCCCTTATATA
* *
160738 ATGTAATAGGTA-TCGTT-TAT-
1 ATGTAATAGGTAGCCCTTATATA
160758 ATGTAATAGGTAG
1 ATGTAATAGGTAG
160771 TGGTTATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 12 0.40
21 3 0.10
22 3 0.10
23 12 0.40
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (23 bp):
ATGTAATAGGTAGCCCTTATATA
Found at i:160777 original size:20 final size:20
Alignment explanation
Indices: 160738--160784 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
160728 CCCTTATATA
*
160738 ATGTAATAGGTATCGTTTAT
1 ATGTAATAGGTATCGGTTAT
160758 ATGTAATAGGTAGT-GGTTAT
1 ATGTAATAGGTA-TCGGTTAT
160778 ATTGTAA
1 A-TGTAA
160785 AGTGTCTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.32, C:0.02, G:0.23, T:0.43
Consensus pattern (20 bp):
ATGTAATAGGTATCGGTTAT
Found at i:160818 original size:20 final size:20
Alignment explanation
Indices: 160782--160820 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
160772 GGTTATATTG
*
160782 TAAAGTGTCTATCCTTTTTA
1 TAAAGTGTCTATACTTTTTA
160802 TAAAGTGTAC-ATACTTTTT
1 TAAAGTGT-CTATACTTTTT
160821 TCACTGTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.49
Consensus pattern (20 bp):
TAAAGTGTCTATACTTTTTA
Found at i:161166 original size:22 final size:23
Alignment explanation
Indices: 161138--161195 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 23
161128 TAAACAAATG
161138 ATGTAATAGGTAGCCCTTATAT-
1 ATGTAATAGGTAGCCCTTATATA
* **
161160 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAGCCCTTATATA
161183 ATGTAATAGGTAG
1 ATGTAATAGGTAG
161196 TGGTTATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 19 0.61
23 12 0.39
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (23 bp):
ATGTAATAGGTAGCCCTTATATA
Found at i:161202 original size:23 final size:22
Alignment explanation
Indices: 161138--161209 Score: 76
Period size: 23 Copynumber: 3.3 Consensus size: 22
161128 TAAACAAATG
**
161138 ATGTAATAGGTAGCCCTTATAT
1 ATGTAATAGGTAGTGCTTATAT
*
161160 ATGTAATAGGTA-TCGTTTATAT
1 ATGTAATAGGTAGT-GCTTATAT
*
161182 AATGTAATAGGTAGTGGTTATAT
1 -ATGTAATAGGTAGTGCTTATAT
161205 -TGTAA
1 ATGTAA
161210 AGTGTCTATC
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
21 5 0.12
22 18 0.42
23 19 0.44
24 1 0.02
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (22 bp):
ATGTAATAGGTAGTGCTTATAT
Found at i:161588 original size:23 final size:23
Alignment explanation
Indices: 161557--161618 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 23
161547 ATAGGTAAAC
*
161557 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
161580 ATATAATGT-A-AGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
161601 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
161619 TGGTTATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
21 17 0.53
22 2 0.06
23 13 0.41
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:161625 original size:23 final size:23
Alignment explanation
Indices: 161557--161627 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
161547 ATAGGTAAAC
* **
161557 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
161580 ATATAATGT-A-AGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
161601 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
161624 ATAT
1 ATAT
161628 TGTAAAGTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
21 16 0.41
22 2 0.05
23 20 0.51
24 1 0.03
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:161722 original size:423 final size:429
Alignment explanation
Indices: 160611--162283 Score: 3031
Period size: 423 Copynumber: 3.9 Consensus size: 429
160601 AATTCGTAGT
160611 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACA-AAGTTTTAAAAAAAGTATCGATCCTTTTTATA
160676 AAAAGTATGGACACTTTCAATATAATAGGTAAACAAATGATGTAATAGGTAGCCCTTATATAATG
65 AAAAGTATGGACACTTTCAATAT-ATAGGTAAACAAATGATGTAATAGGTAGCCCTTATATAATG
160741 TAATAGGTATCG-TT-TAT-ATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
129 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
*
160803 -AAAGTGTACATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTTGAGTGAGTTT
194 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC-TTTTGAGTGAGTTT
*
160867 TAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTAT
258 TAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAATTTTTACGTTACGGTATATATTAT
160932 TATTAAATTAAAAATTCT-AATAATATTTTAT-AAATA-AAAAACAATCAAATAA-TTTTTGTGC
323 TATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGC
160993 AAATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
388 AAATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
*
161035 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCTTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACA-AAGTTTTAAAAAAAGTATCGATCCTTTTTATA
161100 AAAAGTATGGACACTTTCAATATATAGGTAAACAAATGATGTAATAGGTAGCCCTTATAT-ATGT
65 AAAAGTATGGACACTTTCAATATATAGGTAAACAAATGATGTAATAGGTAGCCCTTATATAATGT
161164 AATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
130 AATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
161229 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
195 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
161294 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAATTTTTACGTTACGGTATATATTATTA
260 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAATTTTTACGTTACGGTATATATTATTA
161359 TTAAATTAAAAATTCTAAAT-ATATTTTATAAAATATAAAAACAATCAAATAA-TTTTTGTGCAA
325 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
161422 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
390 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
161462 ACACTGTTAAAAAAATTGAAACATAAATTAC-AAGTTTTAAAAAAAGTATCGATCCTTTTTAT-A
1 ACACTGTTAAAAAAATTGAAACATAAATTACAAAGTTTTAAAAAAAGTATCGATCCTTTTTATAA
*
161525 AAAGTATGGAC-CTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
66 AAAGTATGGACACTTTCAATAT-ATAGGTAAACAAATGATGTAATAGGTAGCCCTTATATAATGT
161589 -A-AGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
130 AATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
161652 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
195 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
161717 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTT-A--TTT---TTAC-GTATATATTATTA
260 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAATTTTTACGTTACGGTATATATTATTA
161775 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
325 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
161840 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
390 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
161880 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTT-AAAAAAGTATCGATCCTTTTTAT-
1 ACACTGTTAAAAAAATTGAAACATAAATTACA-AAGTTTTAAAAAAAGTATCGATCCTTTTTATA
*
161943 AAAAGTATGGACACTTTC-A-ATATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
65 AAAAGTATGGACACTTTCAATATATAGGTAAACAAATGATGTAATAGGTAGCCCTTATATAATGT
162006 AATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
130 AATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
* *
162071 AAAGTGTCCATAATTTTTTCAATGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
195 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
*
162136 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
260 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAATTTTTACGTTACGGTATATATTATTA
162201 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
325 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
162266 ATGAAATTATTAAATCAA
390 ATGAAATTATTAAATCAA
162284 ATAATTCAAA
Statistics
Matches: 1218, Mismatches: 8, Indels: 44
0.96 0.01 0.03
Matches are distributed among these distances:
416 33 0.03
417 78 0.06
418 85 0.07
419 198 0.16
420 15 0.01
422 19 0.02
423 213 0.17
424 139 0.11
425 188 0.15
426 152 0.12
427 98 0.08
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (429 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACAAAGTTTTAAAAAAAGTATCGATCCTTTTTATAA
AAAGTATGGACACTTTCAATATATAGGTAAACAAATGATGTAATAGGTAGCCCTTATATAATGTA
ATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAA
AAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
GATATTAATTTAGTAATTATAGGCGTCTAATGATTTAATTTTTACGTTACGGTATATATTATTAT
TAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:162005 original size:23 final size:23
Alignment explanation
Indices: 161974--162037 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
161964 ATAGGTAAAC
*
161974 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
161997 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
162020 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
162038 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:162044 original size:23 final size:23
Alignment explanation
Indices: 161974--162046 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
161964 ATAGGTAAAC
* **
161974 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
161997 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
162020 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
162043 ATAT
1 ATAT
162047 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:162349 original size:25 final size:25
Alignment explanation
Indices: 162315--162365 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
162305 ACAACAAATC
*
162315 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
162340 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
162365 A
1 A
162366 TTTGGATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:162635 original size:18 final size:18
Alignment explanation
Indices: 162614--162650 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
162604 GTAATTGGAG
162614 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
162632 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
162650 T
1 T
162651 ATATTTCGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:162950 original size:39 final size:39
Alignment explanation
Indices: 162907--162993 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
162897 TCCGATGCTC
*
162907 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGATCATATGATGCCAAGCAAAAGGAA
*
162946 ATCAAAATCCAAATATCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGATCATATGATGCCAAGCAAAAGGAA
162985 ATCAAAATC
1 ATCAAAATC
162994 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.51, C:0.20, G:0.13, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGATCATATGATGCCAAGCAAAAGGAA
Found at i:163449 original size:23 final size:23
Alignment explanation
Indices: 163420--163467 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
163410 AAATAGATAA
*
163420 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTAGTACATT
*
163443 ATATAAGCGCTACCTAGTATATT
1 ATATAAGCGCTACCTAGTACATT
163466 AT
1 AT
163468 TGTACTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTACCTAGTACATT
Found at i:166026 original size:9 final size:10
Alignment explanation
Indices: 166012--166060 Score: 50
Period size: 9 Copynumber: 5.1 Consensus size: 10
166002 GTTTAGAATA
166012 ATTTAAT-AT
1 ATTTAATAAT
166021 ATTTAATAATT
1 ATTTAATAA-T
*
166032 ATTTTATAAT
1 ATTTAATAAT
166042 ATTTAA-AA-
1 ATTTAATAAT
*
166050 ATTTGATAAT
1 ATTTAATAAT
166060 A
1 A
166061 AAAATATCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
8 5 0.15
9 11 0.33
10 8 0.24
11 9 0.27
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (10 bp):
ATTTAATAAT
Found at i:167523 original size:21 final size:21
Alignment explanation
Indices: 167472--167524 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
167462 ATTATGACTA
167472 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
167493 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
167514 TCGCAATGCGA
1 TCGCAATGCGA
167525 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:168153 original size:19 final size:19
Alignment explanation
Indices: 168114--168155 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
168104 GCAACGAGAG
* *
168114 AATCGCAACGCGAAATAAA
1 AATCACAACGCGAAACAAA
*
168133 AATCACAACGCGAAACCAA
1 AATCACAACGCGAAACAAA
168152 AATC
1 AATC
168156 GCATTGCGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.52, C:0.26, G:0.12, T:0.10
Consensus pattern (19 bp):
AATCACAACGCGAAACAAA
Found at i:168205 original size:33 final size:34
Alignment explanation
Indices: 168159--168222 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
168149 CAAAATCGCA
**
168159 TTGCGATTTTCATTT-CGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCCGCGTTGCGATTCTCTCG
168192 TTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 TTGCGATAGTCATTTCCGCGTTGCGATTCTC
168223 ATTATCTCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 13 0.46
34 15 0.54
ACGTcount: A:0.11, C:0.25, G:0.22, T:0.42
Consensus pattern (34 bp):
TTGCGATAGTCATTTCCGCGTTGCGATTCTCTCG
Found at i:168224 original size:20 final size:19
Alignment explanation
Indices: 168154--168247 Score: 72
Period size: 20 Copynumber: 5.1 Consensus size: 19
168144 GAAACCAAAA
* *
168154 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTCTCATT
168173 TCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTCTCATT
**
168189 T--CGTTGCGATAGTCATT
1 TCGCGTTGCGATTCTCATT
168206 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTCTCATT
* * *
168226 ATCTCGTTGTGATTTTCATT
1 -TCGCGTTGCGATTCTCATT
168246 TC
1 TC
168248 AACCAAAAGA
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
14 11 0.19
16 1 0.02
17 1 0.02
19 16 0.27
20 29 0.49
21 1 0.02
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTCTCATT
Found at i:170409 original size:42 final size:42
Alignment explanation
Indices: 170333--170421 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
170323 GACTCGCCTG
* * *
170333 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCTACCGTTCAAGAGGCCACTA
* * *
170375 TCATTCCTCGAGAGTCCCCTCCTACCGTTCAAGAGGCCACTA
1 TCATCCCTCAAGAGTCCACTCCTACCGTTCAAGAGGCCACTA
170417 TCATC
1 TCATC
170422 GTTGAAGAGG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.22, C:0.37, G:0.16, T:0.25
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCACTCCTACCGTTCAAGAGGCCACTA
Found at i:170437 original size:42 final size:42
Alignment explanation
Indices: 170333--170451 Score: 118
Period size: 42 Copynumber: 2.8 Consensus size: 42
170323 GACTCGCCTG
* * * *
170333 TCATCCCTC-AAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAAGAGTCC-CTCCTACCGTTCAAGAGGCCACTA
170375 TCATTCCTCG-AGAGTCCCCTCCTACCGTTCAAGAGGCCACTA
1 TCATTCCTCGAAGAGT-CCCTCCTACCGTTCAAGAGGCCACTA
* * * *
170417 TCA-TCGTTGAAGAGGTCCCTCCCACCATTCAAGAG
1 TCATTCCTCGAAGA-GTCCCTCCTACCGTTCAAGAG
170452 CCCGATTCAC
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
41 4 0.06
42 57 0.88
43 4 0.06
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.24
Consensus pattern (42 bp):
TCATTCCTCGAAGAGTCCCTCCTACCGTTCAAGAGGCCACTA
Found at i:171823 original size:14 final size:14
Alignment explanation
Indices: 171804--171839 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
171794 ATTGTTTAAT
171804 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
171818 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
171832 TGATTTGT
1 TGATTTGT
171840 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:172038 original size:33 final size:33
Alignment explanation
Indices: 171995--172094 Score: 157
Period size: 33 Copynumber: 3.0 Consensus size: 33
171985 ACGCGAAATT
171995 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
*
172028 AAATTAGCGTTGCGATTTTCATTTCGCATTGCG
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
* *
172061 -ATTCTCTCGTTGCGATTTTCATTTCGCATTGCG
1 AAAT-TCGCGTTGCGATTTTCATTTCGCATTGCG
172094 A
1 A
172095 TAGTAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
32 2 0.03
33 59 0.97
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.41
Consensus pattern (33 bp):
AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
Found at i:172061 original size:19 final size:19
Alignment explanation
Indices: 171998--172095 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
171988 CGAAATTAAA
*
171998 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
172017 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
172031 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
172050 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
172066 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
172083 TTCGCATTGCGAT
1 TTCGCATTGCGAT
172096 AGTAATTTCC
Statistics
Matches: 60, Mismatches: 9, Indels: 20
0.67 0.10 0.22
Matches are distributed among these distances:
14 17 0.28
16 7 0.12
17 7 0.12
19 29 0.48
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.43
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:174224 original size:24 final size:24
Alignment explanation
Indices: 174190--174243 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
174180 CTGAAACATC
*
174190 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
174214 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
174238 ATCAAA
1 ATCAAA
174244 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:175079 original size:20 final size:20
Alignment explanation
Indices: 175046--175106 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 20
175036 GAATAAGTAA
* *
175046 ATCGCAATGCGATACTGACT
1 ATCGCAACGAGATACTGACT
* *
175066 ATCGCAACGAGATAAT-ACAAA
1 ATCGCAACGAGATACTGAC--T
*
175087 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATACTGACT
175107 TTCATAATGA
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
19 2 0.06
20 13 0.42
21 14 0.45
22 2 0.06
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
ATCGCAACGAGATACTGACT
Found at i:177039 original size:21 final size:20
Alignment explanation
Indices: 176951--177048 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
176941 TGGAATGGTG
* *
176951 GGAGGGACCTCTTCAACGAT
1 GGAGGGGCCTCTTGAACGAT
* * *
176971 GACAGTGGCCTCTTGAACGGT
1 G-GAGGGGCCTCTTGAACGAT
* * *
176992 GGAGGGGACTCTTG-AGGAA
1 GGAGGGGCCTCTTGAACGAT
177011 GGATAGGGGCCTCTTGAACGATT
1 GG--AGGGGCCTCTTGAACGA-T
*
177034 GGAGGGGACTCTTGA
1 GGAGGGGCCTCTTGA
177049 GGGATGACAG
Statistics
Matches: 58, Mismatches: 15, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
19 4 0.07
20 11 0.19
21 38 0.66
22 3 0.05
23 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.38, T:0.21
Consensus pattern (20 bp):
GGAGGGGCCTCTTGAACGAT
Found at i:177444 original size:20 final size:20
Alignment explanation
Indices: 177421--177474 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
177411 GAAACTTAAA
177421 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
177441 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGCGAAAATGACT
*
177461 ATCGCAATGCGAAA
1 ATCGCAACGCGAAA
177475 TGCAAATCGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:177483 original size:19 final size:18
Alignment explanation
Indices: 177419--177558 Score: 80
Period size: 20 Copynumber: 7.9 Consensus size: 18
177409 ACGAAACTTA
*
177419 AAATCGCAACGCGAAAATG
1 AAATCGCAATGCG-AAATG
* *
177438 ACTATCGCAACGCGGAAATGG
1 A-AATCGCAATGC-GAAAT-G
**
177459 CTATCGCAATGCGAAATG
1 AAATCGCAATGCGAAATG
*
177477 CAAATCGCAA--CGACA--
1 -AAATCGCAATGCGAAATG
*
177492 AAATTGCAATGCGAAATG
1 AAATCGCAATGCGAAATG
*
177510 AAAATCGCAA--CGACA--
1 -AAATCGCAATGCGAAATG
*
177525 AAATCGCAACGCGAAATG
1 AAATCGCAATGCGAAATG
*
177543 AAATCGCAACGCGAAA
1 AAATCGCAATGCGAAA
177559 CACAAATCGC
Statistics
Matches: 97, Mismatches: 11, Indels: 27
0.72 0.08 0.20
Matches are distributed among these distances:
14 17 0.18
16 8 0.08
17 8 0.08
18 17 0.18
19 21 0.22
20 24 0.25
21 2 0.02
ACGTcount: A:0.44, C:0.23, G:0.21, T:0.13
Consensus pattern (18 bp):
AAATCGCAATGCGAAATG
Found at i:177506 original size:33 final size:32
Alignment explanation
Indices: 177461--177553 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
177451 GGAAATGGCT
177461 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
1 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
*
177494 ATTGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
*
177527 ATCGCAACGCGAAATGAAATCGCAACG
1 ATCGCAATGCGAAATGAAATCGCAACG
177554 CGAAACACAA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
32 11 0.20
33 45 0.80
ACGTcount: A:0.45, C:0.23, G:0.19, T:0.13
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAATCGCAACGACAAA
Found at i:177529 original size:14 final size:14
Alignment explanation
Indices: 177478--177535 Score: 53
Period size: 14 Copynumber: 3.8 Consensus size: 14
177468 TGCGAAATGC
177478 AAATCGCAACGACA
1 AAATCGCAACGACA
* *
177492 AAATTGCAATGCGAAATGA
1 AAATCGCAA--CG--A-CA
177511 AAATCGCAACGACA
1 AAATCGCAACGACA
177525 AAATCGCAACG
1 AAATCGCAACG
177536 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
14 20 0.57
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAATCGCAACGACA
Found at i:177567 original size:19 final size:18
Alignment explanation
Indices: 177525--177569 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
177515 CGCAACGACA
**
177525 AAATCGCAACGCGAAATG
1 AAATCGCAACGCGAAAAC
177543 AAATCGCAACGCGAAACAC
1 AAATCGCAACGCGAAA-AC
177562 AAATCGCA
1 AAATCGCA
177570 TTGCGACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.47, C:0.27, G:0.18, T:0.09
Consensus pattern (18 bp):
AAATCGCAACGCGAAAAC
Found at i:177649 original size:20 final size:20
Alignment explanation
Indices: 177624--177666 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
177614 ATTTCGCATA
177624 CGATAGCCATTTCCACGTTG
1 CGATAGCCATTTCCACGTTG
* * *
177644 CGATAGTCATTTTCATGTTG
1 CGATAGCCATTTCCACGTTG
177664 CGA
1 CGA
177667 AAGTAAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (20 bp):
CGATAGCCATTTCCACGTTG
Found at i:179536 original size:20 final size:20
Alignment explanation
Indices: 179488--179546 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
179478 AATAGTTTCT
** *
179488 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
179508 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
179528 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
179547 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:180126 original size:20 final size:20
Alignment explanation
Indices: 180020--180154 Score: 121
Period size: 20 Copynumber: 6.7 Consensus size: 20
180010 CGCTTTGAAA
*
180020 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
180041 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
180061 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
180081 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
180102 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
180122 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
180142 ATCGCATTGCGAT
1 ATCGCATTGCGAT
180155 TTTCCCAATT
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.05
20 66 0.69
21 23 0.24
22 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:180126 original size:61 final size:61
Alignment explanation
Indices: 180020--180157 Score: 195
Period size: 61 Copynumber: 2.3 Consensus size: 61
180010 CGCTTTGAAA
* * * *
180020 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
* * * * *
180081 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
180142 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
180158 CCCAATTCGC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:180173 original size:61 final size:61
Alignment explanation
Indices: 180020--180175 Score: 161
Period size: 61 Copynumber: 2.6 Consensus size: 61
180010 CGCTTTGAAA
* ** * * * *
180020 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
* * ** * * * *
180081 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
180142 ATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGATTTT-CCAATATCGCGTTGCGAT
180176 TTACTTATTC
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
61 77 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (61 bp):
ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:180265 original size:21 final size:21
Alignment explanation
Indices: 180225--180265 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
180215 ACTGTAGACC
** *
180225 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATACAACT
180246 ATCGCAACGCGAAATACAAC
1 ATCGCAACGCGAAATACAAC
180266 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.29, G:0.15, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATACAACT
Found at i:190522 original size:62 final size:64
Alignment explanation
Indices: 190452--190604 Score: 177
Period size: 66 Copynumber: 2.4 Consensus size: 64
190442 GTTAGTCCTT
* * * *
190452 CAAATTCAATGATAAATAAGATTATGTT-TATA-TAATTATGTTTGTTTGTAGTGTTATT-TCTC
1 CAAATTCAATGATAAATAAGATTATATTATATATTAATTATGGTTATATGTAGTGTTATTCT-TC
* *
190514 CAAATTCAATGATAAACAAGATTAATATTAATATATTAATTATGGTTATATGTATTGTTATTCTT
1 CAAATTCAATGATAAATAAGATT-ATATT-ATATATTAATTATGGTTATATGTAGTGTTATTCTT
*
190579 T
64 C
* *
190580 TAAATTCAATGATAAATATGATTAT
1 CAAATTCAATGATAAATAAGATTAT
190605 TAATATGTAA
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
62 22 0.29
63 4 0.05
65 6 0.08
66 43 0.57
67 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (64 bp):
CAAATTCAATGATAAATAAGATTATATTATATATTAATTATGGTTATATGTAGTGTTATTCTTC
Found at i:196448 original size:21 final size:20
Alignment explanation
Indices: 196397--196448 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
196387 TTCTCATAAA
*
196397 TTTATAAATTTTTGTTATTT
1 TTTATAAAATTTTGTTATTT
* *
196417 TTTTTAGAATTTTGTT-TTT
1 TTTATAAAATTTTGTTATTT
196436 TTAATATAAAATT
1 TT--TATAAAATT
196449 ATGTGTTCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 5 0.20
20 13 0.52
21 7 0.28
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (20 bp):
TTTATAAAATTTTGTTATTT
Found at i:197130 original size:27 final size:27
Alignment explanation
Indices: 197099--197153 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
197089 TTTAAGCATC
197099 GATTATTATTGGAAATATTAATAATTA
1 GATTATTATTGGAAATATTAATAATTA
197126 GATTATTATTGGAAATATTAATAATTA
1 GATTATTATTGGAAATATTAATAATTA
197153 G
1 G
197154 TTAGTCTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (27 bp):
GATTATTATTGGAAATATTAATAATTA
Found at i:198113 original size:21 final size:23
Alignment explanation
Indices: 198075--198122 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
198065 ATGTTCAACA
198075 TTTTTATGAGTTATGAAATCA-CT
1 TTTTTATGAGTTATGAAAT-AGCT
*
198098 TTTTTATTA-TTA-GAAATAGCT
1 TTTTTATGAGTTATGAAATAGCT
198119 TTTT
1 TTTT
198123 GAATTTATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 1 0.04
21 11 0.48
22 3 0.13
23 8 0.35
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.54
Consensus pattern (23 bp):
TTTTTATGAGTTATGAAATAGCT
Found at i:198650 original size:18 final size:18
Alignment explanation
Indices: 198627--198661 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
198617 ACTCTATTGA
*
198627 TCCAGTAGAGGACTCTCT
1 TCCAGTAGAAGACTCTCT
*
198645 TCCAGTTGAAGACTCTC
1 TCCAGTAGAAGACTCTC
198662 ACCCATATAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (18 bp):
TCCAGTAGAAGACTCTCT
Found at i:203073 original size:21 final size:21
Alignment explanation
Indices: 203044--203085 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
203034 AAATGGATGT
* *
203044 GGTGCCATCTGATACGGTTGC
1 GGTGCCATCTGAAACGATTGC
*
203065 GGTGTCATCTGAAACGATTGC
1 GGTGCCATCTGAAACGATTGC
203086 AGAATGTACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (21 bp):
GGTGCCATCTGAAACGATTGC
Found at i:205164 original size:34 final size:34
Alignment explanation
Indices: 205081--205165 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 34
205071 CCTAAATTTA
* *
205081 AAAATATTTTATATACAATTAATATATAAAACAT
1 AAAATATTATATATATAATTAATATATAAAACAT
*
205115 AAAATATTATATATATAATTAATATA-AAATATAT
1 AAAATATTATATATATAATTAATATATAAA-ACAT
205149 AAAATATTATATATATA
1 AAAATATTATATATATA
205166 TATAATCGGG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 3 0.06
34 44 0.94
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (34 bp):
AAAATATTATATATATAATTAATATATAAAACAT
Found at i:207713 original size:9 final size:9
Alignment explanation
Indices: 207701--207741 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
207691 TAATATTTTG
207701 TATTTAATT
1 TATTTAATT
*
207710 TATTTAA-G
1 TATTTAATT
207718 TATTTAATT
1 TATTTAATT
207727 TATTTAATT
1 TATTTAATT
*
207736 TTTTTA
1 TATTTA
207742 CAGATATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (9 bp):
TATTTAATT
Found at i:207722 original size:17 final size:17
Alignment explanation
Indices: 207700--207733 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
207690 TTAATATTTT
207700 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
207717 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
207734 TTTTTTTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:210574 original size:46 final size:45
Alignment explanation
Indices: 210504--210616 Score: 167
Period size: 46 Copynumber: 2.5 Consensus size: 45
210494 GAGATAAGCT
*
210504 ATGTGA-AT-ATATGAAATTATATATGAATATGCAATACGTGATAC
1 ATGTGATATGATATGAAA-TACATATGAATATGCAATACGTGATAC
**
210548 ATGTGATATGATATGAAATGACATATGAATATGTGATACGTGATAC
1 ATGTGATATGATATGAAAT-ACATATGAATATGCAATACGTGATAC
210594 ATGTGATATGATATGAAATACAT
1 ATGTGATATGATATGAAATACAT
210617 GGTTACACAT
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
44 6 0.10
45 7 0.11
46 50 0.79
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.34
Consensus pattern (45 bp):
ATGTGATATGATATGAAATACATATGAATATGCAATACGTGATAC
Done.