Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007790.1 Hibiscus syriacus cultivar Beakdansim tig00110076_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: 2956777
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 11
Found at i:2579946 original size:158 final size:159
Alignment explanation
Indices: 2579761--2580077 Score: 627
Period size: 158 Copynumber: 2.0 Consensus size: 159
2579751 CTATTAATTT
2579761 ATTTTGAGGAATTTATATATACAAACAAATTCAAAGTTTAATCAAAGGCTCTTAAATAATGGGTT
1 ATTTTGAGGAATTTATATATACAAACAAATTCAAAGTTTAATCAAAGGCTCTTAAATAATGGGTT
2579826 GTCAAATCTAAAGGATTAGTTCCTTTTATTTTTGGTTGTTAGGCAGAATCAGGTTACCATGATAT
66 GTCAAATCTAAAGGATTAGTTCCTTTTATTTTTGGTTGTTAGGCAGAATCAGGTTACCATGATAT
2579891 ATTTGTTTTGAAAGATATAACACTGGAAA
131 ATTTGTTTTGAAAGATATAACACTGGAAA
2579920 ATTTTGAGGAA-TTATATATACAAACAAATTCAAAGTTTAATCAAAGGCTCTTAAATAATGGGTT
1 ATTTTGAGGAATTTATATATACAAACAAATTCAAAGTTTAATCAAAGGCTCTTAAATAATGGGTT
2579984 GTCAAATCTAAAGGATTAGTTCCTTTTATTTTTGGTTGTTAGGCAGAATCAGGTTACCATGATAT
66 GTCAAATCTAAAGGATTAGTTCCTTTTATTTTTGGTTGTTAGGCAGAATCAGGTTACCATGATAT
2580049 ATTTGTTTTGAAAGATATAACACTGGAAA
131 ATTTGTTTTGAAAGATATAACACTGGAAA
2580078 TAGAGAAATA
Statistics
Matches: 158, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
158 147 0.93
159 11 0.07
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (159 bp):
ATTTTGAGGAATTTATATATACAAACAAATTCAAAGTTTAATCAAAGGCTCTTAAATAATGGGTT
GTCAAATCTAAAGGATTAGTTCCTTTTATTTTTGGTTGTTAGGCAGAATCAGGTTACCATGATAT
ATTTGTTTTGAAAGATATAACACTGGAAA
Found at i:2581316 original size:11 final size:11
Alignment explanation
Indices: 2581296--2581357 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 11
2581286 ACAAGAAAGT
2581296 AAAATGAATAAA
1 AAAAT-AATAAA
2581308 AAAATAATAATA
1 AAAATAATAA-A
*
2581320 AAATAAAGATAAA
1 AAA-ATA-ATAAA
*
2581333 AAATTAATAAA
1 AAAATAATAAA
*
2581344 GAAATAAATAAA
1 AAAAT-AATAAA
2581356 AA
1 AA
2581358 TGTTGGATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
11 13 0.32
12 17 0.43
13 6 0.15
14 4 0.10
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (11 bp):
AAAATAATAAA
Found at i:2581340 original size:25 final size:25
Alignment explanation
Indices: 2581303--2581351 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
2581293 AGTAAAATGA
2581303 ATAAAAAAATAATAATA-AAATAAAG
1 ATAAAAAAATAATAA-AGAAATAAAG
*
2581328 ATAAAAAATTAATAAAGAAATAAA
1 ATAAAAAAATAATAAAGAAATAAA
2581352 TAAAAATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (25 bp):
ATAAAAAAATAATAAAGAAATAAAG
Found at i:2582614 original size:26 final size:26
Alignment explanation
Indices: 2582595--2582660 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 26
2582585 TATATTTTCA
*
2582595 AAATATTTTCAAGAACTATATATTAT
1 AAATATTTTCAAAAACTATATATTAT
*
2582621 ATATATTTTCAAAAACTATATATTAT
1 AAATATTTTCAAAAACTATATATTAT
* *
2582647 ATATGTTTT-AAAAA
1 AAATATTTTCAAAAA
2582661 TGCTTTCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
25 5 0.14
26 32 0.86
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (26 bp):
AAATATTTTCAAAAACTATATATTAT
Found at i:2582623 original size:67 final size:65
Alignment explanation
Indices: 2582545--2582763 Score: 248
Period size: 63 Copynumber: 3.3 Consensus size: 65
2582535 ATACTATACC
* *
2582545 ATATACTATATAATATATTTTTTAAAAACTATATAATATATATATTTTCAAAATATTTTCAAGAA
1 ATATA-TATAT-ATATATTTTTTAAAAACTATATATTATATATATTTTCAAAATATTTTCAAAAA
2582610 CT
64 CT
* * * **
2582612 ATATAT-TATATATA-TTTTCAAAAACTATATATTATATATGTTTTAAAAATGCTTTCAAAAAAC
1 ATATATATATATATATTTTTTAAAAACTATATATTATATATATTTTCAAAATATTTTC-AAAAAC
2582675 T
65 T
* * *
2582676 ATATATA-ATATATATTTTTTAAAAATTATATATTATATATATGGTTTCAAACAGTCTTTTTAAA
1 ATATATATATATATATTTTTTAAAAACTATATATTATATATAT--TTTCAAA-A-T-ATTTTCAA
2582740 AAACT
61 AAACT
2582745 ATATAT-TATATATATTTTT
1 ATATATATATATATATTTTT
2582764 CGAAATTTTA
Statistics
Matches: 129, Mismatches: 14, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
63 36 0.28
64 24 0.19
65 27 0.21
66 1 0.01
67 11 0.09
68 1 0.01
69 26 0.20
70 3 0.02
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (65 bp):
ATATATATATATATATTTTTTAAAAACTATATATTATATATATTTTCAAAATATTTTCAAAAACT
Found at i:2582677 original size:38 final size:38
Alignment explanation
Indices: 2582627--2582701 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 38
2582617 TTATATATAT
2582627 TTTCAAAAACTATATAT-TATATATGTTTTAAAAATGC
1 TTTCAAAAACTATATATATATATATGTTTTAAAAATGC
*
2582664 TTTCAAAAAACTATATATAATATATATTTTTTAAAAAT
1 TTTC-AAAAACTATATAT-ATATATATGTTTTAAAAAT
2582702 TATATATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
37 4 0.12
38 13 0.38
40 17 0.50
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.44
Consensus pattern (38 bp):
TTTCAAAAACTATATATATATATATGTTTTAAAAATGC
Found at i:2582778 original size:38 final size:42
Alignment explanation
Indices: 2582696--2582794 Score: 134
Period size: 38 Copynumber: 2.5 Consensus size: 42
2582686 TATATTTTTT
* *
2582696 AAAAATTATATATTATATATATGGTTTCAAACAGTCTTTTTA
1 AAAAACTATATATTATATATATGGTTTCAAACAGTCTTTATA
* *
2582738 AAAAACTATATATTATATATAT-TTTTCGAA-A-T-TTTATA
1 AAAAACTATATATTATATATATGGTTTCAAACAGTCTTTATA
2582776 AAAAACTATATATTATATA
1 AAAAACTATATATTATATA
2582795 CTATATATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
38 24 0.45
39 1 0.02
40 1 0.02
41 6 0.11
42 21 0.40
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (42 bp):
AAAAACTATATATTATATATATGGTTTCAAACAGTCTTTATA
Found at i:2583130 original size:16 final size:16
Alignment explanation
Indices: 2583109--2583140 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2583099 GCATACATAT
2583109 AAAATACTTCATTAAA
1 AAAATACTTCATTAAA
*
2583125 AAAATAGTTCATTAAA
1 AAAATACTTCATTAAA
2583141 CATGTTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.31
Consensus pattern (16 bp):
AAAATACTTCATTAAA
Found at i:2595438 original size:19 final size:19
Alignment explanation
Indices: 2595414--2595466 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
2595404 AATATTAAAT
2595414 AAAATATTA-TAATATTTTA
1 AAAATATTATTAAT-TTTTA
*
2595433 AAAATAATATTAATTTTTA
1 AAAATATTATTAATTTTTA
2595452 ATAAATATTTATTAA
1 A-AAATA-TTATTAA
2595467 GCCCTCAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 14 0.48
20 9 0.31
21 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATATTATTAATTTTTA
Found at i:2596463 original size:2 final size:2
Alignment explanation
Indices: 2596456--2596486 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2596446 TATTTCTTGG
*
2596456 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2596487 AGATATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2597539 original size:18 final size:19
Alignment explanation
Indices: 2597516--2597554 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
2597506 ATATTTAAAC
*
2597516 AATAAAAGCGA-TTAAATA
1 AATAAAAGCAATTTAAATA
2597534 AATAAAAGCAATTTAAATA
1 AATAAAAGCAATTTAAATA
2597553 AA
1 AA
2597555 AATAAGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.64, C:0.05, G:0.08, T:0.23
Consensus pattern (19 bp):
AATAAAAGCAATTTAAATA
Found at i:2599126 original size:20 final size:19
Alignment explanation
Indices: 2599097--2599136 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2599087 TCGTTCTCCA
*
2599097 TTCTTTTTCACTTCTTTCTT
1 TTCTTCTTCA-TTCTTTCTT
*
2599117 TTCTTCTTCATTTTTTCTT
1 TTCTTCTTCATTCTTTCTT
2599136 T
1 T
2599137 CTTTTTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (19 bp):
TTCTTCTTCATTCTTTCTT
Found at i:2604013 original size:16 final size:16
Alignment explanation
Indices: 2603992--2604026 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2603982 TCTCAAATCC
*
2603992 CTCTTGGCAAATCTAT
1 CTCTTGGCAAAGCTAT
*
2604008 CTCTTGGCGAAGCTAT
1 CTCTTGGCAAAGCTAT
2604024 CTC
1 CTC
2604027 AATTTCTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (16 bp):
CTCTTGGCAAAGCTAT
Found at i:2611941 original size:35 final size:36
Alignment explanation
Indices: 2611885--2611952 Score: 120
Period size: 35 Copynumber: 1.9 Consensus size: 36
2611875 ATACAATCTG
2611885 TCCATCACCATTATCACGCCTATATCATCACCATAT
1 TCCATCACCATTATCACGCCTATATCATCACCATAT
*
2611921 TCCATCACCA-TATCACGCCTATATTATCACCA
1 TCCATCACCATTATCACGCCTATATCATCACCA
2611953 ACTTCTAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 21 0.68
36 10 0.32
ACGTcount: A:0.31, C:0.37, G:0.03, T:0.29
Consensus pattern (36 bp):
TCCATCACCATTATCACGCCTATATCATCACCATAT
Found at i:2612351 original size:22 final size:20
Alignment explanation
Indices: 2612325--2612371 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2612315 GTGCTACAAC
*
2612325 AAAAACAACAAGAAAGAAGAAA
1 AAAAAAAACAA-AAAGAA-AAA
2612347 AAAAAAAACAAAAAGAAAAGA
1 AAAAAAAACAAAAAGAAAA-A
2612368 AAAA
1 AAAA
2612372 GACTCATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 2 0.09
21 11 0.48
22 10 0.43
ACGTcount: A:0.83, C:0.06, G:0.11, T:0.00
Consensus pattern (20 bp):
AAAAAAAACAAAAAGAAAAA
Found at i:2612353 original size:25 final size:23
Alignment explanation
Indices: 2612325--2612371 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
2612315 GTGCTACAAC
*
2612325 AAAAACAACAAGAAAGAAGAAAAAA
1 AAAAACAAAAAG-AA-AAGAAAAAA
2612350 AAAAACAAAAAGAAAAGAAAAA
1 AAAAACAAAAAGAAAAGAAAAA
2612372 GACTCATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
24 2 0.10
25 11 0.52
ACGTcount: A:0.83, C:0.06, G:0.11, T:0.00
Consensus pattern (23 bp):
AAAAACAAAAAGAAAAGAAAAAA
Found at i:2616410 original size:35 final size:36
Alignment explanation
Indices: 2616354--2616421 Score: 120
Period size: 35 Copynumber: 1.9 Consensus size: 36
2616344 ATACAATCTG
2616354 TCCATCACCATTATCACGCCTATATCATCACCATAT
1 TCCATCACCATTATCACGCCTATATCATCACCATAT
*
2616390 TCCATCACCA-TATCACGCCTATATTATCACCA
1 TCCATCACCATTATCACGCCTATATCATCACCA
2616422 ACTTCTAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 21 0.68
36 10 0.32
ACGTcount: A:0.31, C:0.37, G:0.03, T:0.29
Consensus pattern (36 bp):
TCCATCACCATTATCACGCCTATATCATCACCATAT
Found at i:2621531 original size:38 final size:38
Alignment explanation
Indices: 2621452--2621534 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 38
2621442 CATACAATGT
* * *
2621452 ACTAACTTATACTATTTTTAAAACAAAAGATTTGGGCG
1 ACTAAATTATACTATTTTTAAAACAAAAGAATTGAGCG
* * * *
2621490 ACTAAATTATATTATTTTTAAAATAAGAGAATTGAGTG
1 ACTAAATTATACTATTTTTAAAACAAAAGAATTGAGCG
2621528 ACTAAAT
1 ACTAAAT
2621535 CGAGTGATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.36
Consensus pattern (38 bp):
ACTAAATTATACTATTTTTAAAACAAAAGAATTGAGCG
Found at i:2622013 original size:28 final size:28
Alignment explanation
Indices: 2621982--2622068 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 28
2621972 ATCTTTGCTG
2621982 ATTAAAAGATTTTTTTATACCAATGGGT
1 ATTAAAAGATTTTTTTATACCAATGGGT
* * ** ** * * *
2622010 ATTACATGA-TTTCGTA-AAGATTTGCT
1 ATTAAAAGATTTTTTTATACCAATGGGT
2622036 GATTAAAAGATTTTTTTATACCAATGGGT
1 -ATTAAAAGATTTTTTTATACCAATGGGT
2622065 ATTA
1 ATTA
2622069 CATTATTTCG
Statistics
Matches: 38, Mismatches: 18, Indels: 6
0.61 0.29 0.10
Matches are distributed among these distances:
26 5 0.13
27 12 0.32
28 16 0.42
29 5 0.13
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.43
Consensus pattern (28 bp):
ATTAAAAGATTTTTTTATACCAATGGGT
Found at i:2622059 original size:55 final size:56
Alignment explanation
Indices: 2621975--2622089 Score: 214
Period size: 55 Copynumber: 2.1 Consensus size: 56
2621965 TTCTTGAATC
2621975 TTTGCTGATTAAAAGATTTTTTTATACCAATGGGTATTACATGATTTCGTAAA-GA
1 TTTGCTGATTAAAAGATTTTTTTATACCAATGGGTATTACATGATTTCGTAAATGA
*
2622030 TTTGCTGATTAAAAGATTTTTTTATACCAATGGGTATTACATTATTTCGTAAATGA
1 TTTGCTGATTAAAAGATTTTTTTATACCAATGGGTATTACATGATTTCGTAAATGA
2622086 TTTG
1 TTTG
2622090 TAATATTTCA
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 52 0.90
56 6 0.10
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (56 bp):
TTTGCTGATTAAAAGATTTTTTTATACCAATGGGTATTACATGATTTCGTAAATGA
Found at i:2625496 original size:22 final size:22
Alignment explanation
Indices: 2625468--2625512 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
2625458 TGAGGTTGCG
*
2625468 TAATGCGTAATTGCATTGACCA
1 TAATGCGTAAGTGCATTGACCA
2625490 TAATGCGTAAGTGCATTGACCA
1 TAATGCGTAAGTGCATTGACCA
2625512 T
1 T
2625513 CACTAGTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (22 bp):
TAATGCGTAAGTGCATTGACCA
Found at i:2629268 original size:2 final size:2
Alignment explanation
Indices: 2629256--2629322 Score: 62
Period size: 2 Copynumber: 33.0 Consensus size: 2
2629246 GTATGCAAAA
* * *
2629256 AT AT GAT AT AT AT AT AT AT TT TT AT TT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
2629299 GT AT GT AT AT AT GT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
2629323 GTTATGCATC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
2 50 0.96
3 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (2 bp):
AT
Found at i:2629323 original size:6 final size:6
Alignment explanation
Indices: 2629282--2629328 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
2629272 TATTTTTATT
* * * *
2629282 TATATA TATATA TATATG TATGTA TATATG TATATG TATATG T-TATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
2629329 CATCGATTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
5 4 0.11
6 32 0.89
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:2630725 original size:18 final size:17
Alignment explanation
Indices: 2630697--2630738 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
2630687 TTTATGATAT
*
2630697 TATAACAAATT-ATACTA
1 TATAACAAATTCATA-AA
2630714 TATAACACAATTCATAAA
1 TATAACA-AATTCATAAA
2630732 TATAACA
1 TATAACA
2630739 TTAAAAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 12 0.55
19 3 0.14
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (17 bp):
TATAACAAATTCATAAA
Found at i:2632158 original size:31 final size:30
Alignment explanation
Indices: 2632103--2632264 Score: 120
Period size: 29 Copynumber: 5.5 Consensus size: 30
2632093 CACGTCAACT
* * * *
2632103 ATTACGAAAATAACAC-CTTTTTAAAAATA
1 ATTACCAAAATATCACATTTTTTTAAAATA
*
2632132 ATTATCAAAATATCACATTTTTTTAAAATA
1 ATTACCAAAATATCACATTTTTTTAAAATA
*** *
2632162 ATTACCAAAATATCAC-CGGTTTCAAAATA
1 ATTACCAAAATATCACATTTTTTTAAAATA
* * *
2632191 ATTACTAAAATATCACCA--GTTTCAAAATA
1 ATTACCAAAATATCA-CATTTTTTTAAAATA
* * *
2632220 ATTACTAAAATATCACCA--GTTTCAAAATA
1 ATTACCAAAATATCA-CATTTTTTTAAAATA
*
2632249 ATTACTAAAATATCAC
1 ATTACCAAAATATCAC
2632265 TGGGTCGGGT
Statistics
Matches: 119, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
28 1 0.01
29 91 0.76
30 27 0.23
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (30 bp):
ATTACCAAAATATCACATTTTTTTAAAATA
Found at i:2632160 original size:30 final size:28
Alignment explanation
Indices: 2632126--2632264 Score: 181
Period size: 29 Copynumber: 4.8 Consensus size: 28
2632116 CACCTTTTTA
* *
2632126 AAAATAATTA-TCAAAATATCACATTTTTTT
1 AAAATAATTACT-AAAATATCACA--GTTTC
* *
2632156 AAAATAATTACCAAAATATCACCGGTTTC
1 AAAATAATTACTAAAATATCA-CAGTTTC
2632185 AAAATAATTACTAAAATATCACCAGTTTC
1 AAAATAATTACTAAAATATCA-CAGTTTC
2632214 AAAATAATTACTAAAATATCACCAGTTTC
1 AAAATAATTACTAAAATATCA-CAGTTTC
2632243 AAAATAATTACTAAAATATCAC
1 AAAATAATTACTAAAATATCAC
2632265 TGGGTCGGGT
Statistics
Matches: 101, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
28 1 0.01
29 80 0.79
30 19 0.19
31 1 0.01
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.32
Consensus pattern (28 bp):
AAAATAATTACTAAAATATCACAGTTTC
Found at i:2632234 original size:58 final size:59
Alignment explanation
Indices: 2632103--2632264 Score: 204
Period size: 58 Copynumber: 2.8 Consensus size: 59
2632093 CACGTCAACT
* * ** * * *
2632103 ATTACGAAAATAACACCTTTTTAAAAATAATTA-TCAAAATATCA-CATTTTTTTAAAATA
1 ATTACCAAAATATCACCAGTTTCAAAATAATTACT-AAAATATCACCA-TGTTTCAAAATA
*
2632162 ATTACCAAAATATCACCGGTTTCAAAATAATTACTAAAATATCACCA-GTTTCAAAATA
1 ATTACCAAAATATCACCAGTTTCAAAATAATTACTAAAATATCACCATGTTTCAAAATA
*
2632220 ATTACTAAAATATCACCAGTTTCAAAATAATTACTAAAATATCAC
1 ATTACCAAAATATCACCAGTTTCAAAATAATTACTAAAATATCAC
2632265 TGGGTCGGGT
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
58 52 0.57
59 37 0.40
60 3 0.03
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (59 bp):
ATTACCAAAATATCACCAGTTTCAAAATAATTACTAAAATATCACCATGTTTCAAAATA
Found at i:2639682 original size:29 final size:29
Alignment explanation
Indices: 2639637--2639826 Score: 217
Period size: 29 Copynumber: 6.6 Consensus size: 29
2639627 ACAGCCAACT
* *
2639637 ATTACGAAAATAGCACCTTTTTAAAAATA
1 ATTACCAAAATATCACCTTTTTAAAAATA
2639666 ATTACCAAAATATCACCTTTTTAAAAATA
1 ATTACCAAAATATCACCTTTTTAAAAATA
* *
2639695 AGTACCTAAATATCACCTTTTTAAAAATA
1 ATTACCAAAATATCACCTTTTTAAAAATA
*
2639724 ATTACCAAAATATCA--TTTTCTCAAAATA
1 ATTACCAAAATATCACCTTTT-TAAAAATA
*
2639752 ATTACCAAAATATCA--TTGGTTTCAAAATA
1 ATTACCAAAATATCACCTT--TTTAAAAATA
* ** *
2639781 ATTACTAAAATATCACCGGTTTCAAAATA
1 ATTACCAAAATATCACCTTTTTAAAAATA
* *
2639810 ATTGCTAAAATATCACC
1 ATTACCAAAATATCACC
2639827 AGGTCGGGTC
Statistics
Matches: 145, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
27 4 0.03
28 24 0.17
29 115 0.79
30 2 0.01
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (29 bp):
ATTACCAAAATATCACCTTTTTAAAAATA
Found at i:2639761 original size:86 final size:85
Alignment explanation
Indices: 2639660--2639824 Score: 217
Period size: 86 Copynumber: 1.9 Consensus size: 85
2639650 CACCTTTTTA
**
2639660 AAAATAATTACCAAAATATCACCTT-TTTAAAAATAAGTACCT-AAATATCACCTTTTTAAAAAT
1 AAAATAATTACCAAAATATCA--TTGTTTAAAAATAAGTA-CTAAAATATCACCGGTTTAAAAAT
2639723 AATTACCAAAATATCATTTTCTC
63 AATTACCAAAATATCATTTTCTC
* * *
2639746 AAAATAATTACCAAAATATCATTGGTTTCAAAATAATTACTAAAATATCACCGGTTTCAAAATAA
1 AAAATAATTACCAAAATATCATT-GTTTAAAAATAAGTACTAAAATATCACCGGTTTAAAAATAA
* *
2639811 TTGCTAAAATATCA
65 TTACCAAAATATCA
2639825 CCAGGTCGGG
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
84 2 0.03
85 2 0.03
86 65 0.94
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (85 bp):
AAAATAATTACCAAAATATCATTGTTTAAAAATAAGTACTAAAATATCACCGGTTTAAAAATAAT
TACCAAAATATCATTTTCTC
Found at i:2639779 original size:57 final size:56
Alignment explanation
Indices: 2639643--2639796 Score: 186
Period size: 57 Copynumber: 2.7 Consensus size: 56
2639633 AACTATTACG
*
2639643 AAAATAGCACCTTTTTAAAAATAATTACCAAAATATCACCTTTTTAAAAATAAGTACC
1 AAAATATCA-CTTTTTAAAAATAATTACCAAAATATCA-CTTTTTAAAAATAAGTACC
* * *
2639701 TAAATATCACCTTTTTAAAAATAATTACCAAAATATCA-TTTTCTCAAAATAATTACC
1 AAAATATCA-CTTTTTAAAAATAATTACCAAAATATCACTTTT-TAAAAATAAGTACC
* *
2639758 AAAATATCA-TTGGTTTCAAAATAATTACTAAAATATCAC
1 AAAATATCACTT--TTTAAAAATAATTACCAAAATATCAC
2639797 CGGTTTCAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
55 2 0.02
56 4 0.05
57 43 0.51
58 36 0.42
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.34
Consensus pattern (56 bp):
AAAATATCACTTTTTAAAAATAATTACCAAAATATCACTTTTTAAAAATAAGTACC
Found at i:2643278 original size:30 final size:30
Alignment explanation
Indices: 2643244--2643302 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
2643234 AAATATTTGA
* *
2643244 GGACTAAATTTAAATTTTAATTAAATTTAG
1 GGACTAAAATGAAATTTTAATTAAATTTAG
*
2643274 GGACTAAAATGAAATTTTAGTTAAATTTA
1 GGACTAAAATGAAATTTTAATTAAATTTA
2643303 TACCTAAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (30 bp):
GGACTAAAATGAAATTTTAATTAAATTTAG
Found at i:2648853 original size:2 final size:2
Alignment explanation
Indices: 2648848--2648878 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2648838 CGATTTTTTA
*
2648848 AC AC AC AC AA AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
2648879 TATATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.45, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:2648883 original size:2 final size:2
Alignment explanation
Indices: 2648878--2648921 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2648868 ACACACACAC
2648878 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2648920 AT
1 AT
2648922 GTTTATGGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2649287 original size:21 final size:23
Alignment explanation
Indices: 2649263--2649309 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
2649253 TCATAAAATC
*
2649263 AATTTAT-AA-ATACAAAAGTAA
1 AATTTATCAATATACAAAAATAA
*
2649284 AATTTATCAATATTCAAAAATAA
1 AATTTATCAATATACAAAAATAA
2649307 AAT
1 AAT
2649310 AGATTTTCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 2 0.09
23 13 0.59
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (23 bp):
AATTTATCAATATACAAAAATAA
Found at i:2652431 original size:13 final size:13
Alignment explanation
Indices: 2652410--2652452 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
2652400 TTTGACTTTT
*
2652410 TGGTAAAAGTCAA
1 TGGTCAAAGTCAA
2652423 TGGTCAAAGTCAA
1 TGGTCAAAGTCAA
* *
2652436 TGGGACAGAGTCAA
1 T-GGTCAAAGTCAA
2652450 TGG
1 TGG
2652453 GTTGACTCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.21
Consensus pattern (13 bp):
TGGTCAAAGTCAA
Found at i:2652449 original size:14 final size:14
Alignment explanation
Indices: 2652415--2652453 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
2652405 CTTTTTGGTA
*
2652415 AAAGTCAAT-GGTC
1 AAAGTCAATGGGAC
2652428 AAAGTCAATGGGAC
1 AAAGTCAATGGGAC
*
2652442 AGAGTCAATGGG
1 AAAGTCAATGGG
2652454 TTGACTCGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 9 0.39
14 14 0.61
ACGTcount: A:0.38, C:0.13, G:0.31, T:0.18
Consensus pattern (14 bp):
AAAGTCAATGGGAC
Found at i:2656197 original size:12 final size:12
Alignment explanation
Indices: 2656180--2656220 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
2656170 TGACATAAGT
2656180 AATATTAAATAA
1 AATATTAAATAA
2656192 AATATT--ATAA
1 AATATTAAATAA
* *
2656202 TATATTAAATAT
1 AATATTAAATAA
2656214 AATATTA
1 AATATTA
2656221 TTTTTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
10 9 0.38
12 15 0.62
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AATATTAAATAA
Found at i:2658045 original size:65 final size:65
Alignment explanation
Indices: 2657908--2658067 Score: 202
Period size: 65 Copynumber: 2.5 Consensus size: 65
2657898 TTGACCCTTA
* *
2657908 GTGCATCGATGCATGAAATGCATTCGATG-TTTCAAAATAGCCAGAGTGTATCGATGCATGGCTG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATAGCTG
* * *
2657972 GTGCATCGATGCATCAAATGCTTTCGATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATAG-
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCA-AAATAGC-CAGAGTGCATCGATGCATAGC
*
2658034 TAT
64 T-G
*
2658037 GTGTATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
2658068 CAATTTATTC
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
64 29 0.35
65 51 0.61
66 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATAGCTG
Found at i:2660763 original size:23 final size:22
Alignment explanation
Indices: 2660733--2660814 Score: 103
Period size: 23 Copynumber: 3.6 Consensus size: 22
2660723 GCATGGCCTT
2660733 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* *
2660755 CGTGCATCGATGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
2660777 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
2660800 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
2660815 TGTTAAGTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
21 16 0.32
22 2 0.04
23 20 0.40
24 12 0.24
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:2660825 original size:44 final size:44
Alignment explanation
Indices: 2660737--2660833 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 44
2660727 GGCCTTGTGC
*
2660737 ATCGATGCACATTCAAGGCGTGCATCGATGCACCTTCATGGTGT
1 ATCGATGCACATTCAAGGCGTGCATCGATGCACCTTCATAGTGT
*
2660781 ATCGATGCACATTCAAAGG-GATGCATCGATGCA-CTGTTA-AGTGT
1 ATCGATGCACATTC-AAGGCG-TGCATCGATGCACCT-TCATAGTGT
2660825 ATCGATGCA
1 ATCGATGCA
2660834 TTAAGCACAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
44 30 0.62
45 18 0.38
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGCGTGCATCGATGCACCTTCATAGTGT
Found at i:2666233 original size:19 final size:19
Alignment explanation
Indices: 2666209--2666260 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
2666199 TTGGACCCTT
*
2666209 AGTGCATCGGTGCACTAAG
1 AGTGCATCGATGCACTAAG
2666228 AGTGCATCGATGCACTAAG
1 AGTGCATCGATGCACTAAG
2666247 AGTGCATCGATGCA
1 AGTGCATCGATGCA
2666261 TAAAATGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (19 bp):
AGTGCATCGATGCACTAAG
Found at i:2666276 original size:18 final size:19
Alignment explanation
Indices: 2666211--2666276 Score: 82
Period size: 19 Copynumber: 3.5 Consensus size: 19
2666201 GGACCCTTAG
* *
2666211 TGCATCGGTGCACTAAGAG
1 TGCATCGATGCACTAAGAA
*
2666230 TGCATCGATGCACTAAGAG
1 TGCATCGATGCACTAAGAA
2666249 TGCATCGATGCA-TAA-AA
1 TGCATCGATGCACTAAGAA
2666266 TGCATTCGATG
1 TGCA-TCGATG
2666277 TTTCAAAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
17 5 0.11
18 9 0.20
19 30 0.68
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (19 bp):
TGCATCGATGCACTAAGAA
Found at i:2666385 original size:64 final size:62
Alignment explanation
Indices: 2666226--2666386 Score: 148
Period size: 64 Copynumber: 2.5 Consensus size: 62
2666216 CGGTGCACTA
2666226 AGAGTGCATCGATGCACT-AAGAGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCC
1 AGAGTGCATCGATGCA-TGAA-A-TGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCC
* * *** * *
2666290 AGAGTGCATCGATACCTGGCTGGTGCATCGATGCATCAAATGCATTGGATGTTTTCATAAA-A-C
1 AGAGTGCATCGATGCAT-G-AAATGCATCGATGCATAAAATGCATTCGATG-TTTCA-AAATAGC
2666353 TC
62 -C
*
2666355 TGAGTGCATCGATGCATGAAATGCATTCGATG
1 AGAGTGCATCGATGCATGAAATGCA-TCGATG
2666387 TTCAATTTAT
Statistics
Matches: 77, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
63 5 0.06
64 48 0.62
65 21 0.27
66 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (62 bp):
AGAGTGCATCGATGCATGAAATGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCC
Found at i:2666727 original size:2 final size:2
Alignment explanation
Indices: 2666720--2666745 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2666710 TTTGATCGAA
2666720 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
2666746 GTAGACACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2668033 original size:18 final size:18
Alignment explanation
Indices: 2667990--2668027 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2667980 GTGAAGTATG
*
2667990 AATGGCGTTGTCGTGGCA
1 AATGGTGTTGTCGTGGCA
*
2668008 AATGGTGTTGTTGTGGCA
1 AATGGTGTTGTCGTGGCA
2668026 AA
1 AA
2668028 GTGTGTAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.11, G:0.37, T:0.32
Consensus pattern (18 bp):
AATGGTGTTGTCGTGGCA
Found at i:2673945 original size:22 final size:22
Alignment explanation
Indices: 2673920--2673965 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2673910 AATTACATAA
2673920 ATATAAAACTAAGAA-TGAAATG
1 ATATAAAA-TAAGAATTGAAATG
* *
2673942 ATATGAAATAATAATTGAAATG
1 ATATAAAATAAGAATTGAAATG
2673964 AT
1 AT
2673966 GGGATGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.57, C:0.02, G:0.13, T:0.28
Consensus pattern (22 bp):
ATATAAAATAAGAATTGAAATG
Found at i:2674100 original size:18 final size:18
Alignment explanation
Indices: 2674057--2674094 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2674047 GTGAAGTATG
*
2674057 AATGGCGTTGTCGTGGCA
1 AATGGTGTTGTCGTGGCA
*
2674075 AATGGTGTTGTTGTGGCA
1 AATGGTGTTGTCGTGGCA
2674093 AA
1 AA
2674095 GTGTGTAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.11, G:0.37, T:0.32
Consensus pattern (18 bp):
AATGGTGTTGTCGTGGCA
Found at i:2677969 original size:21 final size:20
Alignment explanation
Indices: 2677941--2677980 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
2677931 CATTACAGGA
2677941 ATTTATGGCCTCAACAAAAG
1 ATTTATGGCCTCAACAAAAG
*
2677961 ATTTCATGGCTTCAACAAAA
1 ATTT-ATGGCCTCAACAAAA
2677981 ACCTTGATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (20 bp):
ATTTATGGCCTCAACAAAAG
Found at i:2686049 original size:24 final size:24
Alignment explanation
Indices: 2686006--2686073 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
2685996 AAATAAGTCA
*
2686006 TAATTTTTTTAAAAAAAATAATATT
1 TAATTATTTT-AAAAAAATAATATT
2686031 TAATTATTTTAAAAAAATAATATT
1 TAATTATTTTAAAAAAATAATATT
*
2686055 TAATTATTTTTTAAAAAAT
1 TAATTA-TTTTAAAAAAAT
2686074 GGGTATGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
24 20 0.50
25 20 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TAATTATTTTAAAAAAATAATATT
Found at i:2688867 original size:23 final size:19
Alignment explanation
Indices: 2688850--2688888 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2688840 TTTTTCGATG
2688850 AAAGTGTTCACTTCTTTTA
1 AAAGTGTTCACTTCTTTTA
*
2688869 AATGTGTTCACTTCTTTTA
1 AAAGTGTTCACTTCTTTTA
2688888 A
1 A
2688889 TACTTCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (19 bp):
AAAGTGTTCACTTCTTTTA
Found at i:2690882 original size:19 final size:19
Alignment explanation
Indices: 2690840--2690883 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2690830 GGCTTAAAAG
2690840 ATATTTATTAAAAATAATA
1 ATATTTATTAAAAATAATA
* *
2690859 TTATTTA-TAAAATATTATA
1 ATATTTATTAAAA-ATAATA
2690878 ATATTT
1 ATATTT
2690884 TATTTTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATTTATTAAAAATAATA
Found at i:2693063 original size:2 final size:2
Alignment explanation
Indices: 2693056--2693082 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2693046 CTCAGCATTG
2693056 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 T
2693083 TACAAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2699735 original size:23 final size:23
Alignment explanation
Indices: 2699674--2699735 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
2699664 AAAAAAGTCA
2699674 TAATTTTTTTAAAAAA-AATATT
1 TAATTTTTTTAAAAAATAATATT
* *
2699696 TAATTATTTAAAAAAATAATATT
1 TAATTTTTTTAAAAAATAATATT
2699719 TAATTTTTTTAAAAAAT
1 TAATTTTTTTAAAAAAT
2699736 GGGTATGACA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 14 0.40
23 21 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TAATTTTTTTAAAAAATAATATT
Found at i:2703875 original size:2 final size:2
Alignment explanation
Indices: 2703868--2703895 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2703858 GCATTGTAAA
2703868 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
2703896 TACAAAGAAA
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:2710628 original size:24 final size:24
Alignment explanation
Indices: 2710571--2710630 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
2710561 AAATCATAAT
2710571 TTTTTTAAAAAAAATATTTAATTA
1 TTTTTTAAAAAAAATATTTAATTA
** *
2710595 -TTTAAAAAAAACAATATTTAATTG
1 TTTTTTAAAAAA-AATATTTAATTA
2710619 TTTTTTAAAAAA
1 TTTTTTAAAAAA
2710631 TGGGTATGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 9 0.31
24 11 0.38
25 9 0.31
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
TTTTTTAAAAAAAATATTTAATTA
Found at i:2717653 original size:2 final size:2
Alignment explanation
Indices: 2717646--2717671 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2717636 GCATTGTAAA
2717646 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
2717672 TACAAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2719664 original size:14 final size:14
Alignment explanation
Indices: 2719647--2719695 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
2719637 AGTGAACGGT
2719647 TTGACTCGAACAAG
1 TTGACTCGAACAAG
*
2719661 TTGACTC-AGACGAG
1 TTGACTCGA-ACAAG
*
2719675 TTGAATCGAACAAG
1 TTGACTCGAACAAG
2719689 TTGACTC
1 TTGACTC
2719696 AGCTGAGTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 1 0.03
14 27 0.93
15 1 0.03
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (14 bp):
TTGACTCGAACAAG
Found at i:2731086 original size:14 final size:14
Alignment explanation
Indices: 2731068--2731105 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
2731058 TTGACTCTGT
2731068 TGAGTTAACTCAA-
1 TGAGTTAACTCAAC
*
2731081 TCGAGTTGACTCAAC
1 T-GAGTTAACTCAAC
2731096 TGAGTTAACT
1 TGAGTTAACT
2731106 AGATTCAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 1 0.05
14 19 0.90
15 1 0.05
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (14 bp):
TGAGTTAACTCAAC
Found at i:2733492 original size:36 final size:36
Alignment explanation
Indices: 2733451--2733526 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
2733441 ATTTTCGGGA
*
2733451 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
2733487 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
2733523 TTTT
1 TTTT
2733527 TTAGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:2733961 original size:7 final size:7
Alignment explanation
Indices: 2733949--2733992 Score: 52
Period size: 7 Copynumber: 5.9 Consensus size: 7
2733939 TTTTCGTTTA
2733949 TTTTAAT
1 TTTTAAT
2733956 TTTTAAT
1 TTTTAAT
2733963 TTTTAATT
1 TTTTAA-T
2733971 TAATTTAAT
1 T--TTTAAT
*
2733980 TTTTATT
1 TTTTAAT
2733987 TTTTAA
1 TTTTAA
2733993 CGTACCCCGC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 23 0.72
8 2 0.06
9 2 0.06
10 5 0.16
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTTAAT
Found at i:2733972 original size:24 final size:24
Alignment explanation
Indices: 2733945--2733992 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
2733935 CATTTTTTCG
*
2733945 TTTATTTTAATTTTTAATTTTTAA
1 TTTAATTTAATTTTTAATTTTTAA
*
2733969 TTTAATTTAATTTTTATTTTTTAA
1 TTTAATTTAATTTTTAATTTTTAA
2733993 CGTACCCCGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTAATTTAATTTTTAATTTTTAA
Found at i:2736021 original size:25 final size:24
Alignment explanation
Indices: 2735965--2736011 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
2735955 TAATTACATG
2735965 TTCATGTCATTAATTCATGTGATT
1 TTCATGTCATTAATTCATGTGATT
*
2735989 TTCCATGTTATTAATTCATGTGA
1 TT-CATGTCATTAATTCATGTGA
2736012 CATTTTATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.49
Consensus pattern (24 bp):
TTCATGTCATTAATTCATGTGATT
Found at i:2736389 original size:36 final size:34
Alignment explanation
Indices: 2736346--2736425 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 34
2736336 TATTTAATGA
* *
2736346 AATAAAATAAATAATTATAATTTAAAAAGAAAAAAT
1 AATAAAATAAATAATAATAA-AT-AAAAGAAAAAAT
**
2736382 AATAAAATAAATAATAATAAATAAAAGGGAAAAT
1 AATAAAATAAATAATAATAAATAAAAGAAAAAAT
2736416 AATAAAATAA
1 AATAAAATAA
2736426 TAAATATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 20 0.50
35 1 0.03
36 19 0.47
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (34 bp):
AATAAAATAAATAATAATAAATAAAAGAAAAAAT
Found at i:2736400 original size:10 final size:9
Alignment explanation
Indices: 2736345--2736407 Score: 51
Period size: 10 Copynumber: 6.9 Consensus size: 9
2736335 ATATTTAATG
2736345 AAATAAAAT
1 AAATAAAAT
*
2736354 AAATAATTAT
1 AAATAA-AAT
*
2736364 AATTTAAAA-
1 AA-ATAAAAT
2736373 AGAA-AAAAT
1 A-AATAAAAT
2736382 -AATAAAAT
1 AAATAAAAT
2736390 AAATAATAAT
1 AAATAA-AAT
2736400 AAATAAAA
1 AAATAAAA
2736408 GGGAAAATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
7 2 0.05
8 9 0.21
9 14 0.33
10 15 0.35
11 3 0.07
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (9 bp):
AAATAAAAT
Found at i:2737185 original size:71 final size:73
Alignment explanation
Indices: 2737102--2737291 Score: 242
Period size: 76 Copynumber: 2.6 Consensus size: 73
2737092 TAAAACATCT
* *
2737102 TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCT-ACAAA-ATAATAT-TTAAA
1 TAAATCCTAATTAAAACAC-TAAAACTATTTAAACTAAAATACCTAACAAAGATAAAATATAAAA
*
2737164 ATAATATTC
65 ATAATATCC
* *
2737173 TAAATCCTAATTAAAATACTAAAACATATTTAAACTAAAATATCTAAAACAAAGATAAAATATAA
1 TAAATCCTAATTAAAACACTAAAAC-TATTTAAACTAAAATACCT--AACAAAGATAAAATATAA
2737238 AAATAATATCC
63 AAATAATATCC
* * *
2737249 TAAAACTTAATTAAAACACTAAAACCTAATTAAACTAAAATAC
1 TAAATCCTAATTAAAACACTAAAA-CTATTTAAACTAAAATAC
2737292 AAAGATAAAA
Statistics
Matches: 102, Mismatches: 10, Indels: 9
0.84 0.08 0.07
Matches are distributed among these distances:
70 6 0.06
71 36 0.35
74 5 0.05
75 6 0.06
76 48 0.47
77 1 0.01
ACGTcount: A:0.57, C:0.14, G:0.01, T:0.29
Consensus pattern (73 bp):
TAAATCCTAATTAAAACACTAAAACTATTTAAACTAAAATACCTAACAAAGATAAAATATAAAAA
TAATATCC
Found at i:2737231 original size:25 final size:24
Alignment explanation
Indices: 2737184--2737231 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
2737174 AAATCCTAAT
* **
2737184 TAAAATACTAAAACATATTTAAAC
1 TAAAATACTAAAACAAAGATAAAC
2737208 TAAAATATCTAAAACAAAGATAAA
1 TAAAATA-CTAAAACAAAGATAAA
2737232 ATATAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.62, C:0.10, G:0.02, T:0.25
Consensus pattern (24 bp):
TAAAATACTAAAACAAAGATAAAC
Found at i:2737315 original size:76 final size:74
Alignment explanation
Indices: 2737102--2737327 Score: 239
Period size: 76 Copynumber: 3.1 Consensus size: 74
2737092 TAAAACATCT
* *
2737102 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATAC---CTACAAA-ATAATATTTA
1 TAAAACCTAATTAAAACAC-TAAAACCTATTTAAACTAAAATACAAAATA-AAATATAATATTTA
*
2737162 AAATAATATTC
64 AAATAATATCC
* * * * * *
2737173 TAAATCCTAATTAAAATACTAAAACATATTTAAACTAAAATATCTAAAACAAAGATAAAATA-TA
1 TAAAACCTAATTAAAACACTAAAACCTATTTAAACTAAAATA-C-AAAATAAA-ATATAATATTT
2737237 AAAATAATATCC
63 AAAATAATATCC
* * *
2737249 TAAAACTTAATTAAAACACTAAAACCTAATTAAACTAAAATACAAAGATAAAATATAATGTTTAA
1 TAAAACCTAATTAAAACACTAAAACCTATTTAAACTAAAATACAAA-ATAAAATATAATATTTAA
*
2737314 AATATTATCC
65 AATAATATCC
2737324 TAAA
1 TAAA
2737328 CTTGAGTTTA
Statistics
Matches: 128, Mismatches: 17, Indels: 16
0.80 0.11 0.10
Matches are distributed among these distances:
70 5 0.04
71 34 0.27
72 1 0.01
74 9 0.07
75 23 0.18
76 51 0.40
77 5 0.04
ACGTcount: A:0.57, C:0.12, G:0.01, T:0.30
Consensus pattern (74 bp):
TAAAACCTAATTAAAACACTAAAACCTATTTAAACTAAAATACAAAATAAAATATAATATTTAAA
ATAATATCC
Found at i:2738119 original size:19 final size:19
Alignment explanation
Indices: 2738095--2738141 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
2738085 CATATTTTGT
2738095 TTTTTTTTCGAGCAAAGGG
1 TTTTTTTTCGAGCAAAGGG
2738114 TTTTTTTTCGAGCAAAGGG
1 TTTTTTTTCGAGCAAAGGG
2738133 TTTTTTTTC
1 TTTTTTTTC
2738142 TTTCTTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.17, C:0.11, G:0.21, T:0.51
Consensus pattern (19 bp):
TTTTTTTTCGAGCAAAGGG
Found at i:2743866 original size:20 final size:19
Alignment explanation
Indices: 2743843--2743890 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
2743833 TACATTTTAT
*
2743843 ATTTCTTCATTTTGTTTTGC
1 ATTTCTTC-TTTCGTTTTGC
2743863 ATTTCTTTCTTTCGTTTTGC
1 ATTTC-TTCTTTCGTTTTGC
2743883 -TTTCTTCT
1 ATTTCTTCT
2743891 CTCCAGGGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 4 0.15
19 4 0.15
20 15 0.58
21 3 0.12
ACGTcount: A:0.06, C:0.19, G:0.08, T:0.67
Consensus pattern (19 bp):
ATTTCTTCTTTCGTTTTGC
Found at i:2749291 original size:20 final size:20
Alignment explanation
Indices: 2749251--2749289 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2749241 CATTGCAGTA
*
2749251 ATTTATGGCTTCGACAAAAG
1 ATTTATGGCTTCCACAAAAG
2749271 ATTTCATGGCTTCCACAAA
1 ATTT-ATGGCTTCCACAAA
2749290 GACTTTGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (20 bp):
ATTTATGGCTTCCACAAAAG
Found at i:2752729 original size:20 final size:20
Alignment explanation
Indices: 2752692--2752729 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2752682 TCATGGGACC
*
2752692 ATTTCGTACATCTTTTGGAG
1 ATTTCGTACATCTCTTGGAG
2752712 ATTT-GTACATTCTCTTGG
1 ATTTCGTACA-TCTCTTGG
2752730 CAATGGATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.47
Consensus pattern (20 bp):
ATTTCGTACATCTCTTGGAG
Found at i:2759335 original size:23 final size:23
Alignment explanation
Indices: 2759309--2759372 Score: 58
Period size: 25 Copynumber: 2.7 Consensus size: 23
2759299 TAGTATGCTT
*
2759309 GAAGAAGGAAAAATAAA-ACAAAA
1 GAAGAA-GAAAAATAAATAAAAAA
*
2759332 GAAGAATATAAAATAAAATAAAAAA
1 GAAGAAGA-AAAAT-AAATAAAAAA
*
2759357 TAAGAAAGAAAAATAA
1 GAAG-AAGAAAAATAA
2759373 GAAAAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
22 1 0.03
23 11 0.33
24 5 0.15
25 13 0.39
26 3 0.09
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.11
Consensus pattern (23 bp):
GAAGAAGAAAAATAAATAAAAAA
Found at i:2759368 original size:19 final size:19
Alignment explanation
Indices: 2759346--2759387 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2759336 AATATAAAAT
2759346 AAAATAAAAAATAAGAAAGA
1 AAAATAAAAAA-AAGAAAGA
* *
2759366 AAAATAAGAAAAATAAAGA
1 AAAATAAAAAAAAGAAAGA
2759385 AAA
1 AAA
2759388 TCTGTAAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (19 bp):
AAAATAAAAAAAAGAAAGA
Found at i:2759370 original size:13 final size:13
Alignment explanation
Indices: 2759352--2759376 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2759342 AAATAAAATA
2759352 AAAAATAAGAAAG
1 AAAAATAAGAAAG
2759365 AAAAATAAGAAA
1 AAAAATAAGAAA
2759377 AATAAAGAAA
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:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (13 bp):
AAAAATAAGAAAG
Found at i:2759376 original size:9 final size:10
Alignment explanation
Indices: 2759346--2759387 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
2759336 AATATAAAAT
2759346 AAAATAAA-A
1 AAAATAAAGA
*
2759355 AATAAGAAAGA
1 AA-AATAAAGA
2759366 AAAAT-AAGA
1 AAAATAAAGA
2759375 AAAATAAAGA
1 AAAATAAAGA
2759385 AAA
1 AAA
2759388 TCTGTAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 11 0.39
10 14 0.50
11 3 0.11
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (10 bp):
AAAATAAAGA
Found at i:2759378 original size:29 final size:27
Alignment explanation
Indices: 2759316--2759382 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
2759306 CTTGAAGAAG
*
2759316 GAAAAATAAAACAAAAGAAGAATATAA
1 GAAAAATAAAACAAAAGAAGAAAATAA
*
2759343 AATAAAATAAAA-AATAAGAAAGAAAAATAA
1 GA-AAAATAAAACAA-AAG-AAG-AAAATAA
2759373 GAAAAATAAA
1 GAAAAATAAA
2759383 GAAAATCTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 3 0.09
28 12 0.36
29 11 0.33
30 7 0.21
ACGTcount: A:0.78, C:0.01, G:0.09, T:0.12
Consensus pattern (27 bp):
GAAAAATAAAACAAAAGAAGAAAATAA
Found at i:2760044 original size:8 final size:8
Alignment explanation
Indices: 2760031--2760101 Score: 56
Period size: 8 Copynumber: 8.8 Consensus size: 8
2760021 GAAGAAGAAA
2760031 AAAAAAAG
1 AAAAAAAG
2760039 AAAAAAA-
1 AAAAAAAG
*
2760046 ATAACAAGAG
1 A-AA-AAAAG
*
2760056 AAAAAGAG
1 AAAAAAAG
*
2760064 AAAAAGAG
1 AAAAAAAG
2760072 AAAAAAA-
1 AAAAAAAG
*
2760079 AGGAAAAAG
1 A-AAAAAAG
*
2760088 AAAAGAAG
1 AAAAAAAG
2760096 AAAAAA
1 AAAAAA
2760102 CCAGTATGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
7 2 0.04
8 43 0.83
9 6 0.12
10 1 0.02
ACGTcount: A:0.80, C:0.01, G:0.17, T:0.01
Consensus pattern (8 bp):
AAAAAAAG
Found at i:2760070 original size:16 final size:16
Alignment explanation
Indices: 2760023--2760100 Score: 72
Period size: 15 Copynumber: 4.9 Consensus size: 16
2760013 GTTCCGATGA
2760023 AGAAGAAAAA-AAAAAG
1 AGAA-AAAAAGAAAAAG
* *
2760039 A-AAAAAAATAACAAG
1 AGAAAAAAAGAAAAAG
*
2760054 AGAAAAAGAGAAAAAG
1 AGAAAAAAAGAAAAAG
*
2760070 AGAAAAAAAAGGAAAA-
1 AG-AAAAAAAGAAAAAG
*
2760086 AGAAAAGAAGAAAAA
1 AGAAAAAAAGAAAAA
2760101 ACCAGTATGA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
14 5 0.10
15 19 0.37
16 16 0.31
17 11 0.22
ACGTcount: A:0.79, C:0.01, G:0.18, T:0.01
Consensus pattern (16 bp):
AGAAAAAAAGAAAAAG
Found at i:2761727 original size:18 final size:18
Alignment explanation
Indices: 2761704--2761747 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
2761694 TTTTATGTAC
2761704 CATTGCATAATATTAATT
1 CATTGCATAATATTAATT
**
2761722 CATTGCATGGTATTAATT
1 CATTGCATAATATTAATT
*
2761740 CATGGCAT
1 CATTGCAT
2761748 TAATTAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (18 bp):
CATTGCATAATATTAATT
Found at i:2773151 original size:20 final size:20
Alignment explanation
Indices: 2773126--2773170 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
2773116 ATTGACTTTT
2773126 ATTTTGACCAAAAATTCCAA
1 ATTTTGACCAAAAATTCCAA
*
2773146 ATTTTGACCGAAAATTCCAA
1 ATTTTGACCAAAAATTCCAA
2773166 ATTTT
1 ATTTT
2773171 CGAAAAGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.36
Consensus pattern (20 bp):
ATTTTGACCAAAAATTCCAA
Found at i:2775453 original size:24 final size:24
Alignment explanation
Indices: 2775426--2775540 Score: 151
Period size: 24 Copynumber: 4.8 Consensus size: 24
2775416 TTGATTTGAT
2775426 TTTTGATCTGATACTTGACATGGA
1 TTTTGATCTGATACTTGACATGGA
*
2775450 TTTTGATATGATA-TCTGACATGGA
1 TTTTGATCTGATACT-TGACATGGA
* * *
2775474 TTCTGGTCTGATACTTGACTTGGA
1 TTTTGATCTGATACTTGACATGGA
*
2775498 TTCTGATCTGATACTTGACATGGA
1 TTTTGATCTGATACTTGACATGGA
* *
2775522 TTTTAATATGATACTTGAC
1 TTTTGATCTGATACTTGAC
2775541 GTGAATTATG
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
23 1 0.01
24 77 0.97
25 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (24 bp):
TTTTGATCTGATACTTGACATGGA
Found at i:2775732 original size:2 final size:2
Alignment explanation
Indices: 2775725--2775755 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2775715 TGGGGGTATG
2775725 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 T
2775756 GTTTTAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2777186 original size:257 final size:259
Alignment explanation
Indices: 2776730--2777242 Score: 987
Period size: 257 Copynumber: 2.0 Consensus size: 259
2776720 CCTTTGTTCA
*
2776730 AAAAAAATGATACGTCAGTAATAATGTCTAAGAGTGCACAAATATGGAACAAATGCACCTTTGTT
1 AAAAAAATGATACGTCAGTAATAATGTCTAAGAGTGCACAAATATGGAACAAATGCACCTTAGTT
2776795 GTTGTTTCACCCAATCCTTGAGGATTTTGATAATGACTTTGTGATCTTAAATTTACTAAGAAAAA
66 GTTGTTTCACCCAATCCTTGAGGATTTTGATAATGACTTTGTGATCTTAAATTTACTAAGAAAAA
2776860 ATTAATGTCAAATATGGTTGCTTCGACTTATAAGTTTGATGGTTTAATTATTTCATTATTAGATG
131 ATTAATGTCAAATATGGTTGCTTCGACTTATAAGTTTGATGGTTTAATTATTTCATTATTAGATG
2776925 CAAATTTATTGTTA-TTATAATTAAAAAATAATTCATTTTTC-GAAGAG-TATCACACAAAAATG
196 CAAATTTATT-TTATTTATAATTAAAAAATAATTCATTTTTCTGAAGAGTTATCACACAAAAATG
2776987 AAAAAAATGATACGTCAGTAATAATGTCTAAGAGTGCACAAATATGGAACAAATGCACCTTAGTT
1 AAAAAAATGATACGTCAGTAATAATGTCTAAGAGTGCACAAATATGGAACAAATGCACCTTAGTT
2777052 GTTGTTTCACCCAATCCTTGAGGATTTTGATAATGACTTTGTGATCTTAAATTTACTAAGAAAAA
66 GTTGTTTCACCCAATCCTTGAGGATTTTGATAATGACTTTGTGATCTTAAATTTACTAAGAAAAA
2777117 ATTAATGTCAAATATGGTTGCTTCGACTTATAAGTTTGATGGTTTAATTATTTCATTATTAGATG
131 ATTAATGTCAAATATGGTTGCTTCGACTTATAAGTTTGATGGTTTAATTATTTCATTATTAGATG
2777182 CAAATTTATTTTATTTATAATTAAAAAATAATTCATTTTTCTGAAGAGTTATCACACAAAA
196 CAAATTTATTTTATTTATAATTAAAAAATAATTCATTTTTCTGAAGAGTTATCACACAAAA
2777243 TGATTGTTTC
Statistics
Matches: 252, Mismatches: 1, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
256 3 0.01
257 231 0.92
258 6 0.02
259 12 0.05
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (259 bp):
AAAAAAATGATACGTCAGTAATAATGTCTAAGAGTGCACAAATATGGAACAAATGCACCTTAGTT
GTTGTTTCACCCAATCCTTGAGGATTTTGATAATGACTTTGTGATCTTAAATTTACTAAGAAAAA
ATTAATGTCAAATATGGTTGCTTCGACTTATAAGTTTGATGGTTTAATTATTTCATTATTAGATG
CAAATTTATTTTATTTATAATTAAAAAATAATTCATTTTTCTGAAGAGTTATCACACAAAAATG
Found at i:2778973 original size:18 final size:18
Alignment explanation
Indices: 2778950--2778992 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
2778940 TATAATATTA
*
2778950 TTAATA-AATTACATAAAT
1 TTAATATAATTAAAT-AAT
*
2778968 TTAATATTATTAAATAAT
1 TTAATATAATTAAATAAT
2778986 TTAATAT
1 TTAATAT
2778993 TTATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATATAATTAAATAAT
Found at i:2779066 original size:17 final size:19
Alignment explanation
Indices: 2779025--2779072 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
2779015 TATTGCATTC
*
2779025 TTATTTTAATAAAGTTTTA
1 TTATTTTAATAAAGTATTA
*
2779044 TAATTTTAA-AAA-TATTA
1 TTATTTTAATAAAGTATTA
2779061 TTATTTTTAATA
1 TTA-TTTTAATA
2779073 GTAATTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 6 0.25
18 9 0.38
19 9 0.38
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TTATTTTAATAAAGTATTA
Found at i:2782059 original size:27 final size:26
Alignment explanation
Indices: 2781994--2782059 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
2781984 CTCATAATTC
*
2781994 TTATAATATGATATTATATTTTTAATA
1 TTATAATAT-ATATTATACTTTTAATA
*
2782021 TTATAATGATATATTATACTTTT-ATT
1 TTATAAT-ATATATTATACTTTTAATA
*
2782047 TTATATTATATAT
1 TTATAATATATAT
2782060 GAATTTTTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.17
26 8 0.23
27 19 0.54
28 2 0.06
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.58
Consensus pattern (26 bp):
TTATAATATATATTATACTTTTAATA
Found at i:2783324 original size:2 final size:2
Alignment explanation
Indices: 2783317--2783366 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
2783307 ATTTATGGAA
2783317 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2783358 AT AT AT AT A
1 AT AT AT AT A
2783367 AGATATTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2785266 original size:13 final size:13
Alignment explanation
Indices: 2785228--2785270 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
2785218 TTACATGAAT
2785228 ATAATATTATT-A
1 ATAATATTATTAA
*
2785240 ATAA-ATTACATAA
1 ATAATATTA-TTAA
2785253 ATAATATTATTAA
1 ATAATATTATTAA
2785266 ATAAT
1 ATAAT
2785271 TTAATATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 4 0.15
12 5 0.19
13 13 0.50
14 4 0.15
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (13 bp):
ATAATATTATTAA
Found at i:2789435 original size:12 final size:12
Alignment explanation
Indices: 2789418--2789446 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
2789408 TCGATTTGAA
2789418 TTCTGTTATGAT
1 TTCTGTTATGAT
2789430 TTCTGTTATGAT
1 TTCTGTTATGAT
2789442 TTCTG
1 TTCTG
2789447 ATCTGGATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.10, G:0.17, T:0.59
Consensus pattern (12 bp):
TTCTGTTATGAT
Found at i:2789457 original size:24 final size:24
Alignment explanation
Indices: 2789430--2789495 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 24
2789420 CTGTTATGAT
*
2789430 TTCTGTTATGATTTCTGATCTGGA
1 TTCTGTTATGATTTCTGATCTGAA
* *
2789454 TTCTGTTCTGATATCTGATCTGAA
1 TTCTGTTATGATTTCTGATCTGAA
* *
2789478 TTCTGTTTTGGTTTCTGA
1 TTCTGTTATGATTTCTGA
2789496 CATCTCTGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.15, C:0.14, G:0.20, T:0.52
Consensus pattern (24 bp):
TTCTGTTATGATTTCTGATCTGAA
Found at i:2792923 original size:23 final size:23
Alignment explanation
Indices: 2792897--2792940 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
2792887 TATTATTTTC
2792897 AATAGTA-ATTAATATAATATATT
1 AATAGTATATTAA-ATAATATATT
* *
2792920 AATATTATTTTAAATAATATA
1 AATAGTATATTAAATAATATA
2792941 ATTATTAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
AATAGTATATTAAATAATATATT
Found at i:2793528 original size:161 final size:156
Alignment explanation
Indices: 2793340--2793675 Score: 460
Period size: 161 Copynumber: 2.1 Consensus size: 156
2793330 CGTTACTATA
2793340 ATTAA-ATACTCTATTGAAGTTTATTCAAACTATAAGAAATGTGTTACCGTATATTGAATTAAAT
1 ATTAAGATACTCTATTGAAGTTTATTCAAACTATAAG-AAT-TGTTACC---TA-TGAATTAAAT
*
2793404 GGTAATTAAAAACATTC-CGTTTTATTGATGTGAAACTGATAATTAAAGTGAAAATGTTATTAAT
60 GGTAATTAAAAACATTCACGTTTTATTGATGTGAAACTGAAAATTAAAGTGAAAATGTTATTAAT
* *
2793468 TTCTATTAAAACCTTAGATTCATGTCAGAACC
125 TTATATTAAAACCTTAGATTCATGTCACAACC
* * * *
2793500 ATTAAGATGCTCTATTGAAGTTTATTCAAACTATATGAATTTTTACCTATGAGTTAAATGGTAAT
1 ATTAAGATACTCTATTGAAGTTTATTCAAACTATAAGAATTGTTACCTATGAATTAAATGGTAAT
* * *
2793565 TTAAAACATTCGATGAATGTTTTATTGATGTGAAACTGAAAATTAAAGTGAAAATTTTATTAATT
66 TAAAAACATTC-----ACGTTTTATTGATGTGAAACTGAAAATTAAAGTGAAAATGTTATTAATT
*
2793630 TATCTTAAAACCTTAGATTCATGTCACAACC
126 TATATTAAAACCTTAGATTCATGTCACAACC
2793661 ATTAAGATACTCTAT
1 ATTAAGATACTCTAT
2793676 AAATGACCAT
Statistics
Matches: 157, Mismatches: 12, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
155 25 0.16
156 2 0.01
159 6 0.04
160 8 0.05
161 116 0.74
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (156 bp):
ATTAAGATACTCTATTGAAGTTTATTCAAACTATAAGAATTGTTACCTATGAATTAAATGGTAAT
TAAAAACATTCACGTTTTATTGATGTGAAACTGAAAATTAAAGTGAAAATGTTATTAATTTATAT
TAAAACCTTAGATTCATGTCACAACC
Found at i:2795822 original size:20 final size:20
Alignment explanation
Indices: 2795786--2795823 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2795776 TTATACTTTT
*
2795786 ATTTTAATAACATATAATGA
1 ATTTTAATAACAAATAATGA
2795806 ATTTTCAATAA-AAATAAT
1 ATTTT-AATAACAAATAAT
2795824 ATTAATCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (20 bp):
ATTTTAATAACAAATAATGA
Found at i:2797148 original size:405 final size:405
Alignment explanation
Indices: 2796372--2797185 Score: 1346
Period size: 405 Copynumber: 2.0 Consensus size: 405
2796362 TATTAAACTA
* * * *
2796372 AAGACAAGAAACAAAGAAATATCATTACTATCATTAAATACTCTATTGAATTTTATTCAAACTAT
1 AAGACAACAAACAAAGAAATATCATTACTATCATTAAATAATCTATTGAAGTTTATTAAAACTAT
* *
2796437 ATGAATTTTGTTACCGTATATTGAATTAAATGGTAACTAAAAACATTCCATGAAAGTTTTATTGA
66 ATGAAATTTGTTACAGTATATTGAATTAAATGGTAACTAAAAACATTCCATGAAAGTTTTATTGA
*
2796502 TGTGAAACTGATAATTATAGTGAAAATGTTATTAATTTCTCTTAAAACCTTAGATTCATGTCACA
131 TGTGAAACTGATAATTAAAGTGAAAATGTTATTAATTTCTCTTAAAACCTTAGATTCATGTCACA
* * * * *
2796567 ACCATTAAGATACTCTATAAATGACCATAAATGCTATCAAAGAATTGTTGCAACAGCAGTAAGGT
196 ACCATTAAAATACTCTATAAATGACCATAAATGCTATAAAACAACTGTTGCAACAGCAGTAAAGT
*
2796632 CTTCTGCTGACCAAAATCATAAAATCCTTTTGCCCCTAAAAGCTTCAATGGCTACTCTAAACTTT
261 CTTCTGCTGACCAAAATCATAAAATCCTTTTGCCCCTAAAAGCTTCAATGGCTAATCTAAACTTT
* *
2796697 ATGTTACTATACTGATTCTTGTTATTTTAGCAAGTGGAGTTGTAATGGCTCAAGACTTTTACGAT
326 ATGCTACTATACTGATTCTTGTTATTTTAGCAAGTGGAGCTGTAATGGCTCAAGACTTTTACGAT
2796762 TGTGAACACCAGAAC
391 TGTGAACACCAGAAC
2796777 AAGACAACAAACAAAGAAATATCATTACTATCATTAAATAATCTATTGAAGTTTATTAAAACTAT
1 AAGACAACAAACAAAGAAATATCATTACTATCATTAAATAATCTATTGAAGTTTATTAAAACTAT
* * *
2796842 ATGAAATTTGTTACAGTATATTGAATTAAATGGTAATTAAAAACATTCCTTGAATG-TTTATTGA
66 ATGAAATTTGTTACAGTATATTGAATTAAATGGTAACTAAAAACATTCCATGAAAGTTTTATTGA
*
2796906 TGTGAAACTGATAATTAAAGTGAAAATGTTATTAATTTTTCTTAAAACCTTAGATTCAT-TCCAC
131 TGTGAAACTGATAATTAAAGTGAAAATGTTATTAATTTCTCTTAAAACCTTAGATTCATGT-CAC
** * *
2796970 AACCATTAAAATACTCTATAAATGACCATATTTGTTGTAAAACAACTGTTGCAACAGCAGTAAAG
195 AACCATTAAAATACTCTATAAATGACCATAAATGCTATAAAACAACTGTTGCAACAGCAGTAAAG
*
2797035 TCTTCTGCTGACCAAAGTCATAAAATCCTTTTGCCCCTAAAAGCTTCAATGGCTAATCTAAACGT
260 TCTTCTGCTGACCAAAATCATAAAATCCTTTTGCCCCTAAAAGCTTCAATGGCTAATCTAAAC-T
* *
2797100 TTTTGCTACTATAGC-GATTCTTGTTATTTTTGCAAGTGGAGCTGTAATGGCTCAAGACTTTTAC
324 TTATGCTACTATA-CTGATTCTTGTTATTTTAGCAAGTGGAGCTGTAATGGCTCAAGACTTTTAC
2797164 GATTGTGAACACCAGAAC
388 GATTGTGAACACCAGAAC
2797182 AAGA
1 AAGA
2797186 TGGACTTGCA
Statistics
Matches: 380, Mismatches: 26, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
403 1 0.00
404 185 0.49
405 193 0.51
406 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.34
Consensus pattern (405 bp):
AAGACAACAAACAAAGAAATATCATTACTATCATTAAATAATCTATTGAAGTTTATTAAAACTAT
ATGAAATTTGTTACAGTATATTGAATTAAATGGTAACTAAAAACATTCCATGAAAGTTTTATTGA
TGTGAAACTGATAATTAAAGTGAAAATGTTATTAATTTCTCTTAAAACCTTAGATTCATGTCACA
ACCATTAAAATACTCTATAAATGACCATAAATGCTATAAAACAACTGTTGCAACAGCAGTAAAGT
CTTCTGCTGACCAAAATCATAAAATCCTTTTGCCCCTAAAAGCTTCAATGGCTAATCTAAACTTT
ATGCTACTATACTGATTCTTGTTATTTTAGCAAGTGGAGCTGTAATGGCTCAAGACTTTTACGAT
TGTGAACACCAGAAC
Found at i:2797696 original size:23 final size:23
Alignment explanation
Indices: 2797652--2797696 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
2797642 GATAGTTTAA
* *
2797652 TTATTTCATTTTTAAATGCAAAT
1 TTATTTCATTTATAAATACAAAT
* *
2797675 TTATTTTATTTATAATTACAAA
1 TTATTTCATTTATAAATACAAA
2797697 ATGATATACT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (23 bp):
TTATTTCATTTATAAATACAAAT
Found at i:2801333 original size:19 final size:19
Alignment explanation
Indices: 2801309--2801376 Score: 136
Period size: 19 Copynumber: 3.6 Consensus size: 19
2801299 AATGCATTTG
2801309 ATGCATCGATGCACAAGAC
1 ATGCATCGATGCACAAGAC
2801328 ATGCATCGATGCACAAGAC
1 ATGCATCGATGCACAAGAC
2801347 ATGCATCGATGCACAAGAC
1 ATGCATCGATGCACAAGAC
2801366 ATGCATCGATG
1 ATGCATCGATG
2801377 TACTCAGGCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (19 bp):
ATGCATCGATGCACAAGAC
Found at i:2801665 original size:10 final size:10
Alignment explanation
Indices: 2801642--2801675 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
2801632 GCCATTGATC
2801642 AACAACAA-A
1 AACAACAAGA
*
2801651 AACAATAAGA
1 AACAACAAGA
2801661 AACAACAAGA
1 AACAACAAGA
2801671 AACAA
1 AACAA
2801676 GAATCAAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.32
10 15 0.68
ACGTcount: A:0.74, C:0.18, G:0.06, T:0.03
Consensus pattern (10 bp):
AACAACAAGA
Found at i:2808904 original size:21 final size:21
Alignment explanation
Indices: 2808862--2808905 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
2808852 AACTCGGGAG
* *
2808862 CTAGTTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
2808883 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
2808904 CT
1 CT
2808906 CCACCTCCAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.39, G:0.16, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:2810033 original size:20 final size:20
Alignment explanation
Indices: 2810004--2810041 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2809994 TTTCAAAGGA
2810004 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
* *
2810024 ATGCATCGATTCACCAAT
1 ATGCACCGATGCACCAAT
2810042 GAATAAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.34, G:0.13, T:0.21
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:2810182 original size:65 final size:64
Alignment explanation
Indices: 2810052--2810211 Score: 166
Period size: 65 Copynumber: 2.5 Consensus size: 64
2810042 GAATAAATTG
* * * * *
2810052 AACATCGAATGCATTTTATTCATCGATGCACATACCATGCATCGATGCACTCAAGTTTTTATGAA
1 AACATCGAATGCATTTCATGCATCGATGCACATAACATGCATCGATGCACTCAAGTATGTATG-A
*
2810117 AACATCGAATGCATTTGATGCATCGATG-ATCA-AGACATGCATCGATGCACT-AAGGCTATGT-
1 AACATCGAATGCATTTCATGCATCGATGCA-CATA-ACATGCATCGATGCACTCAA-G-TATGTA
2810178 TGA
62 TGA
* * *
2810181 AACTTCGAATGGACTTCATGCATCGATGCAC
1 AACATCGAATGCATTTCATGCATCGATGCAC
2810212 TCTTAATGCA
Statistics
Matches: 81, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
64 30 0.37
65 48 0.59
66 3 0.04
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACATAACATGCATCGATGCACTCAAGTATGTATGA
Found at i:2812348 original size:20 final size:20
Alignment explanation
Indices: 2812312--2812350 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2812302 TTATACTTTT
*
2812312 ATTTTAATAATATATAATAA
1 ATTTTAATAATAAATAATAA
2812332 ATTTTCAATAA-AAATAATA
1 ATTTT-AATAATAAATAATA
2812351 TTATTCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTTTAATAATAAATAATAA
Found at i:2815456 original size:14 final size:12
Alignment explanation
Indices: 2815417--2815449 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2815407 TTATTATACT
*
2815417 ATTTT-ATTAAC
1 ATTTTAATTAAA
2815428 ATTTTAATTAAA
1 ATTTTAATTAAA
2815440 ATTTTAATTA
1 ATTTTAATTA
2815450 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTTTAATTAAA
Found at i:2817090 original size:43 final size:43
Alignment explanation
Indices: 2817027--2817319 Score: 315
Period size: 43 Copynumber: 6.8 Consensus size: 43
2817017 GCAAAAACGA
* *
2817027 TAAGGTCTTATCCTTGCACATATAAAAAGAG-CCTGGGGAAACTG
1 TAAGG-CTTACCCTTGCACACA-AAAAAGAGACCTGGGGAAACTG
* ** *
2817071 TAAGGCTTACCCTTGCACATAGCAAAG-GAACCTAGGGAAACTG
1 TAAGGCTTACCCTTGCACACAAAAAAGAG-ACCTGGGGAAACTG
** *
2817114 TAAGGCTTACCCTTGCACACATCAAAG-GAACCTAGGGAAACTG
1 TAAGGCTTACCCTTGCACACAAAAAAGAG-ACCTGGGGAAACTG
* ** * *
2817157 TAAAGCTTACCCTTGCACACAGCAAAGGGACCTGGAGAAACTG
1 TAAGGCTTACCCTTGCACACAAAAAAGAGACCTGGGGAAACTG
** * *
2817200 TAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGAAAACTG
1 TAAGGCTTACCCTTGCACACAAAAAAGAGACCTGGGGAAACTG
* *
2817243 TAAGGCTTACCCTTGTACACAACAAAAG-GACCTGGGGAAACTA
1 TAAGGCTTACCCTTGCACACAA-AAAAGAGACCTGGGGAAACTG
* *
2817286 TAAGGCTTACCCTTGCACACAACAAAGGGACCTG
1 TAAGGCTTACCCTTGCACACAAAAAAGAGACCTG
2817320 TTGTAATGGT
Statistics
Matches: 224, Mismatches: 20, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.00
42 8 0.04
43 205 0.92
44 10 0.04
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (43 bp):
TAAGGCTTACCCTTGCACACAAAAAAGAGACCTGGGGAAACTG
Found at i:2817155 original size:86 final size:83
Alignment explanation
Indices: 2817027--2817319 Score: 370
Period size: 86 Copynumber: 3.4 Consensus size: 83
2817017 GCAAAAACGA
* * * * * *
2817027 TAAGGTCTTATCCTTGCACATATAAAAAGAGCCTGGGGAAACTGTAAGGCTTACCCTTGCACATA
1 TAAGG-CTTACCCTTGCACACATCAAAGGAACCT-GGGAAACTGTAAGGCTTACCCTTGCACACA
2817092 GCAAAGGAACCTAGGGAAACTG
64 GCAAAGG-ACCT-GGGAAACTG
*
2817114 TAAGGCTTACCCTTGCACACATCAAAGGAACCTAGGGAAACTGTAAAGCTTACCCTTGCACACAG
1 TAAGGCTTACCCTTGCACACATCAAAGGAACCT-GGGAAACTGTAAGGCTTACCCTTGCACACAG
2817179 CAAAGGGACCTGGAGAAACTG
65 CAAA-GGACCTGG-GAAACTG
* * * *
2817200 TAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGAAAACTGTAAGGCTTACCCTTGTACACAA
1 TAAGGCTTACCCTTGCACACATCAAAGGAACCTGGG-AAACTGTAAGGCTTACCCTTGCACACAG
*
2817265 CAAAAGGACCTGGGGAAACTA
65 C-AAAGGACCT-GGGAAACTG
* *
2817286 TAAGGCTTACCCTTGCACACAACAAAGGGACCTG
1 TAAGGCTTACCCTTGCACACATCAAAGGAACCTG
2817320 TTGTAATGGT
Statistics
Matches: 186, Mismatches: 15, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
85 5 0.03
86 169 0.91
87 12 0.06
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (83 bp):
TAAGGCTTACCCTTGCACACATCAAAGGAACCTGGGAAACTGTAAGGCTTACCCTTGCACACAGC
AAAGGACCTGGGAAACTG
Found at i:2817202 original size:129 final size:129
Alignment explanation
Indices: 2817058--2817319 Score: 411
Period size: 129 Copynumber: 2.0 Consensus size: 129
2817048 ATAAAAAGAG
* *
2817058 CCTGGGGAAACTGTAAGGCTTACCCTTGCACATAGCAAAGGAACCTAGGG-AAACTGTAAGGCTT
1 CCTGGAGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCT-GGGAAAACTGTAAGGCTT
* * *
2817122 ACCCTTGCACACATC-AAAGGAACCTAGGGAAACTGTAAAGCTTACCCTTGCACACAGCAAAGGG
65 ACCCTTGCACACAACAAAAGG-ACCTAGGGAAACTATAAAGCTTACCCTTGCACACAACAAAGGG
2817186 A
129 A
*
2817187 CCTGGAGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGAAAACTGTAAGGCTTA
1 CCTGGAGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGAAAACTGTAAGGCTTA
* * *
2817252 CCCTTGTACACAACAAAAGGACCTGGGGAAACTATAAGGCTTACCCTTGCACACAACAAAGGGA
66 CCCTTGCACACAACAAAAGGACCTAGGGAAACTATAAAGCTTACCCTTGCACACAACAAAGGGA
2817316 CCTG
1 CCTG
2817320 TTGTAATGGT
Statistics
Matches: 122, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
128 3 0.02
129 114 0.93
130 5 0.04
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (129 bp):
CCTGGAGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGAAAACTGTAAGGCTTA
CCCTTGCACACAACAAAAGGACCTAGGGAAACTATAAAGCTTACCCTTGCACACAACAAAGGGA
Found at i:2821838 original size:3 final size:3
Alignment explanation
Indices: 2821830--2821854 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2821820 GAATTGGGTT
2821830 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
2821855 GAATGTTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:2829784 original size:24 final size:25
Alignment explanation
Indices: 2829748--2829799 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
2829738 ATAAAAATAA
2829748 TATTATTAATAAATTATATAA-ATT
1 TATTATTAATAAATTATATAATATT
* *
2829772 TATTATTATTAAATTATTTAATATT
1 TATTATTAATAAATTATATAATATT
2829797 TAT
1 TAT
2829800 AACACAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATTATTAATAAATTATATAATATT
Found at i:2833352 original size:24 final size:24
Alignment explanation
Indices: 2833324--2833379 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
2833314 GAATGTTTTA
2833324 TCTAATTTTCGATTTGAATTATGT
1 TCTAATTTTCGATTTGAATTATGT
** *
2833348 TCTAATTTTTTATTTGAATTTTGT
1 TCTAATTTTCGATTTGAATTATGT
*
2833372 TCTGATTT
1 TCTAATTT
2833380 CTAATCTGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.21, C:0.07, G:0.11, T:0.61
Consensus pattern (24 bp):
TCTAATTTTCGATTTGAATTATGT
Found at i:2833432 original size:24 final size:24
Alignment explanation
Indices: 2833330--2833432 Score: 93
Period size: 24 Copynumber: 4.3 Consensus size: 24
2833320 TTTATCTAAT
* *
2833330 TTTC-GATTTGAATTATGTTCTAA
1 TTTCTGATTTGAATTCTGTTCTGA
* * *
2833353 TTTTTTATTTGAATTTTGTTCTGA
1 TTTCTGATTTGAATTCTGTTCTGA
* * * *
2833377 TTTCTAATCTGGATTCTGTTTTGA
1 TTTCTGATTTGAATTCTGTTCTGA
*
2833401 TATT-TGATTTGAATTCTGTTTTGA
1 T-TTCTGATTTGAATTCTGTTCTGA
2833425 TTTCTGAT
1 TTTCTGAT
2833433 ATCTCCGTTT
Statistics
Matches: 64, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
23 5 0.08
24 57 0.89
25 2 0.03
ACGTcount: A:0.19, C:0.08, G:0.15, T:0.58
Consensus pattern (24 bp):
TTTCTGATTTGAATTCTGTTCTGA
Found at i:2838090 original size:24 final size:24
Alignment explanation
Indices: 2838060--2838139 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
2838050 GAATGTTTTA
* *
2838060 TCTGATTTCCGATTTGAATTCTGT
1 TCTGATTTCTGATATGAATTCTGT
* *
2838084 TGTGATTTCTGATATGGATTCTGT
1 TCTGATTTCTGATATGAATTCTGT
* * *
2838108 TCTGATATCTAATCTGAATTCTGT
1 TCTGATTTCTGATATGAATTCTGT
*
2838132 TTTGATTT
1 TCTGATTT
2838140 ATGACATCTT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.19, C:0.12, G:0.17, T:0.51
Consensus pattern (24 bp):
TCTGATTTCTGATATGAATTCTGT
Found at i:2841305 original size:21 final size:22
Alignment explanation
Indices: 2841281--2841331 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
2841271 ATATTATTAT
*
2841281 TTTAATAAAAAATT-AATATAA
1 TTTAATAAAAAATTCAATAAAA
* **
2841302 TTTATTAAAAGTTTCAATAAAA
1 TTTAATAAAAAATTCAATAAAA
2841324 TTTAATAA
1 TTTAATAA
2841332 TCTTAATATT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
TTTAATAAAAAATTCAATAAAA
Found at i:2844051 original size:14 final size:12
Alignment explanation
Indices: 2844012--2844044 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2844002 TTATTATACT
*
2844012 ATTTT-ATTAAC
1 ATTTTAATTAAA
2844023 ATTTTAATTAAA
1 ATTTTAATTAAA
2844035 ATTTTAATTA
1 ATTTTAATTA
2844045 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTTTAATTAAA
Found at i:2845696 original size:86 final size:85
Alignment explanation
Indices: 2845585--2845906 Score: 292
Period size: 86 Copynumber: 3.7 Consensus size: 85
2845575 AAAAACATAT
* * * * * *
2845585 TTACCCTGTGCACAAAGCAGAGGAACATGCAAAAAC-GATAAGGTCTTA-TCTTGCACATATCAA
1 TTACCCT-TGCACAAAACAAAGGAACCTG-AGAAACTG-TAAGG-CTTACACTTGCACACATCAA
2845648 AAGAGCCTGGGGAAACTGTAAGGC
62 AAGAGCCTGGGGAAACTGTAAGGC
* * * *
2845672 TTACCCTTGCACATATCAAAGGAACCTAGGGAAACTGTAAGGCTTACACTTGCACACATCAAAGG
1 TTACCCTTGCACAAAACAAAGGAACCT-GAGAAACTGTAAGGCTTACACTTGCACACATCAAAAG
* * *
2845737 AACCTAGGGAAACTGTAAAGC
65 AGCCTGGGGAAACTGTAAGGC
* * * *
2845758 TTACCCTTGCACACAACAAAGGGACCTGGAGAAACTGTAAGGCTTACCCTTGCACACAGC-AAAG
1 TTACCCTTGCACAAAACAAAGGAACCT-GAGAAACTGTAAGGCTTACACTTGCACACATCAAAAG
* *
2845822 GGACCTGGGAAAACTGTAAGGC
65 AG-CCTGGGGAAACTGTAAGGC
* * * * * * * *
2845844 TTACCCTTGTACACAGCAAAAGG-ACCTGGGGAAACTATATGGCTTACCCTTGCACACAACAAA
1 TTACCCTTGCACAAAAC-AAAGGAACCT-GAGAAACTGTAAGGCTTACACTTGCACACATCAAA
2845907 GGGACCTATT
Statistics
Matches: 198, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
85 7 0.04
86 175 0.88
87 16 0.08
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (85 bp):
TTACCCTTGCACAAAACAAAGGAACCTGAGAAACTGTAAGGCTTACACTTGCACACATCAAAAGA
GCCTGGGGAAACTGTAAGGC
Found at i:2845912 original size:43 final size:43
Alignment explanation
Indices: 2845653--2845913 Score: 369
Period size: 43 Copynumber: 6.1 Consensus size: 43
2845643 ATCAAAAGAG
* * *
2845653 CCTGGGGAAACTGTAAGGCTTACCCTTGCACATATCAAAGGAA
1 CCTGGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGA
* * * *
2845696 CCTAGGGAAACTGTAAGGCTTACACTTGCACACATCAAAGGAA
1 CCTGGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGA
* *
2845739 CCTAGGGAAACTGTAAAGCTTACCCTTGCACACAACAAAGGGA
1 CCTGGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGA
* *
2845782 CCTGGAGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGA
1 CCTGGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGA
* * * *
2845825 CCTGGGAAAACTGTAAGGCTTACCCTTGTACACAGCAAAAGGA
1 CCTGGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGA
* *
2845868 CCTGGGGAAACTATATGGCTTACCCTTGCACACAACAAAGGGA
1 CCTGGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGA
2845911 CCT
1 CCT
2845914 ATTGTAATGG
Statistics
Matches: 197, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 197 1.00
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (43 bp):
CCTGGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGA
Found at i:2852715 original size:2 final size:2
Alignment explanation
Indices: 2852708--2852740 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2852698 TTTCTTGGAA
*
2852708 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2852741 AGATATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2854120 original size:16 final size:15
Alignment explanation
Indices: 2854094--2854127 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
2854084 TAATTTTATT
2854094 TATTTTTAAAAAACA
1 TATTTTTAAAAAACA
*
2854109 TATTTTTCAAAAAATA
1 TATTTTT-AAAAAACA
2854125 TAT
1 TAT
2854128 ATATATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (15 bp):
TATTTTTAAAAAACA
Found at i:2856533 original size:17 final size:16
Alignment explanation
Indices: 2856506--2856542 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 16
2856496 CCGTTGACCC
2856506 GACCCGACCGACCGTT
1 GACCCGACCGACCGTT
2856522 GACCCGACCCGACCGTT
1 GACCCGA-CCGACCGTT
2856539 GACC
1 GACC
2856543 GTTGACCGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.19, C:0.46, G:0.24, T:0.11
Consensus pattern (16 bp):
GACCCGACCGACCGTT
Found at i:2856536 original size:21 final size:21
Alignment explanation
Indices: 2856495--2856536 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
2856485 GACCCGTTTA
2856495 ACCGTTGACCCGACCCGACCG
1 ACCGTTGACCCGACCCGACCG
2856516 ACCGTTGACCCGACCCGACCG
1 ACCGTTGACCCGACCCGACCG
2856537 TTGACCGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.48, G:0.24, T:0.10
Consensus pattern (21 bp):
ACCGTTGACCCGACCCGACCG
Found at i:2856542 original size:7 final size:7
Alignment explanation
Indices: 2856532--2856557 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2856522 GACCCGACCC
2856532 GACCGTT
1 GACCGTT
2856539 GACCGTT
1 GACCGTT
2856546 GACCGTT
1 GACCGTT
2856553 GACCG
1 GACCG
2856558 GTGTTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (7 bp):
GACCGTT
Found at i:2856631 original size:29 final size:29
Alignment explanation
Indices: 2856586--2856719 Score: 142
Period size: 29 Copynumber: 4.6 Consensus size: 29
2856576 ATTCGGTTTA
** *
2856586 GTGCTATTCGGGGAATTAATTCGAAATGG
1 GTGCTATTTTGGGAATTAATTCGAAAAGG
* ** * *
2856615 GTGCTATTTTGGAAATTTTTTTGAAAAAG
1 GTGCTATTTTGGGAATTAATTCGAAAAGG
* * * **
2856644 GTGATATTCTGGGAATTAATTTGAAATTG
1 GTGCTATTTTGGGAATTAATTCGAAAAGG
2856673 GTGCTATTTTGGGAATTAATTCGAAAAGG
1 GTGCTATTTTGGGAATTAATTCGAAAAGG
*
2856702 GTGCTATTTTGGTAATTA
1 GTGCTATTTTGGGAATTA
2856720 TTTAAAAAAG
Statistics
Matches: 84, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 84 1.00
ACGTcount: A:0.29, C:0.06, G:0.25, T:0.40
Consensus pattern (29 bp):
GTGCTATTTTGGGAATTAATTCGAAAAGG
Done.