Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006058.1 Hibiscus syriacus cultivar Beakdansim tig00014330_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: 185409
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:469 original size:18 final size:19
Alignment explanation
Indices: 434--470 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
424 CACGGAATGT
434 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
454 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
471 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:5528 original size:16 final size:16
Alignment explanation
Indices: 5498--5541 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
5488 TAGTGAATTC
*
5498 TTAAA-ATATTAAAGT
1 TTAAATATATTTAAGT
5513 TTAAATATATTTAAGT
1 TTAAATATATTTAAGT
*
5529 GTATAATATATTT
1 TTA-AATATATTT
5542 GCACGAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 5 0.20
16 11 0.44
17 9 0.36
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (16 bp):
TTAAATATATTTAAGT
Found at i:18551 original size:19 final size:19
Alignment explanation
Indices: 18527--18564 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
18517 TTCTAAATAT
18527 GTCAAAGGTTGAATATAAA
1 GTCAAAGGTTGAATATAAA
18546 GTCAAAGGTTGAATATAAA
1 GTCAAAGGTTGAATATAAA
18565 ATGCATTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.21, T:0.26
Consensus pattern (19 bp):
GTCAAAGGTTGAATATAAA
Found at i:20442 original size:31 final size:31
Alignment explanation
Indices: 20261--20432 Score: 308
Period size: 31 Copynumber: 5.5 Consensus size: 31
20251 GGGTCGAGGG
20261 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
20292 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
20323 TTACCTATGTTCTTCGGGATATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
20354 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
20385 TTACCTATGTTCTTCGGGTCATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
20416 TTACCTAGGTTCTTCGG
1 TTACCTATGTTCTTCGG
20433 AATCTATGGA
Statistics
Matches: 136, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 136 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:24478 original size:31 final size:31
Alignment explanation
Indices: 24440--24562 Score: 203
Period size: 31 Copynumber: 4.0 Consensus size: 31
24430 GGGTCGAGGG
24440 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
24471 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
24502 TTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
24533 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
24563 GTCCTTCGGG
Statistics
Matches: 88, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:25589 original size:46 final size:46
Alignment explanation
Indices: 25531--25689 Score: 277
Period size: 46 Copynumber: 3.5 Consensus size: 46
25521 TGTCTATGGT
*
25531 TTACAAGCTTATGGAATTAAATGGTAAGTATATTGGTAAAATAAGC
1 TTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTAAAATAAGC
25577 TTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTAAAATAAGC
1 TTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTAAAATAAGC
* *
25623 TTACGAGCTTATGG-ATTAAATGATAAGTATATTGGTAAAATAAAC
1 TTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTAAAATAAGC
25668 TTACGAGCTTATGGAA-TAAATG
1 TTACGAGCTTATGGAATTAAATG
25690 ATTTATGGCA
Statistics
Matches: 109, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
45 49 0.45
46 60 0.55
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (46 bp):
TTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTAAAATAAGC
Found at i:27648 original size:2 final size:2
Alignment explanation
Indices: 27641--27697 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
27631 ATTAAATTTA
27641 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
27683 AT AT A- AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT A
27698 ATTTAAAAGC
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 51 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:30357 original size:40 final size:41
Alignment explanation
Indices: 30301--30378 Score: 131
Period size: 40 Copynumber: 1.9 Consensus size: 41
30291 TCTAATGAAG
30301 ATAGAAATTATATTGTGAATAAT-AAAAATTTAAAAACTTA
1 ATAGAAATTATATTGTGAATAATAAAAAATTTAAAAACTTA
* *
30341 ATAGAAATTATGTTGTGAATATTAAAAAATTTAAAAAC
1 ATAGAAATTATATTGTGAATAATAAAAAATTTAAAAAC
30379 AAGAATAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 21 0.60
41 14 0.40
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.35
Consensus pattern (41 bp):
ATAGAAATTATATTGTGAATAATAAAAAATTTAAAAACTTA
Found at i:30957 original size:22 final size:22
Alignment explanation
Indices: 30932--31000 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
30922 ATTCCATGTT
30932 TTCTTTGCGAATAAGATTTACC
1 TTCTTTGCGAATAAGATTTACC
* ***
30954 TTCTTGTAC-AATTCCATGTT---
1 TTCTT-TGCGAATAAGAT-TTACC
30974 TTCTTTGCGAATAAGATTTACC
1 TTCTTTGCGAATAAGATTTACC
30996 TTCTT
1 TTCTT
31001 GTAGAGTTCC
Statistics
Matches: 33, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
19 4 0.12
20 10 0.30
22 15 0.45
23 4 0.12
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (22 bp):
TTCTTTGCGAATAAGATTTACC
Found at i:30968 original size:42 final size:42
Alignment explanation
Indices: 30908--31003 Score: 183
Period size: 42 Copynumber: 2.3 Consensus size: 42
30898 CTAATGGATA
*
30908 TACCTTCTTGTACGATTCCATGTTTTCTTTGCGAATAAGATT
1 TACCTTCTTGTACAATTCCATGTTTTCTTTGCGAATAAGATT
30950 TACCTTCTTGTACAATTCCATGTTTTCTTTGCGAATAAGATT
1 TACCTTCTTGTACAATTCCATGTTTTCTTTGCGAATAAGATT
30992 TACCTTCTTGTA
1 TACCTTCTTGTA
31004 GAGTTCCACA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (42 bp):
TACCTTCTTGTACAATTCCATGTTTTCTTTGCGAATAAGATT
Found at i:32473 original size:15 final size:16
Alignment explanation
Indices: 32455--32487 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
32445 GTGGCAGATC
32455 AAAATCCAG-ACGGGA
1 AAAATCCAGAACGGGA
*
32470 AAAATCTAGAACGGGA
1 AAAATCCAGAACGGGA
32486 AA
1 AA
32488 GAAAAGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.52, C:0.15, G:0.24, T:0.09
Consensus pattern (16 bp):
AAAATCCAGAACGGGA
Found at i:43599 original size:5 final size:6
Alignment explanation
Indices: 43569--43606 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
43559 AGACACATAT
43569 GACCAC GACCAC GACCAC GACCAC G-CCAC G-CCAC GACC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACC
43607 CGAGACGGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.29, C:0.53, G:0.18, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:44261 original size:20 final size:20
Alignment explanation
Indices: 44233--44305 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
44223 TTTTGGACTA
44233 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
44253 TCGCGTTGCGATTTTGGAC-TA-
1 TCGCATTGCGA-TTT--ACATAT
44274 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
44294 TCGCATTGCGAT
1 TCGCATTGCGAT
44306 AGTCCAAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
19 2 0.04
20 25 0.54
21 13 0.28
22 2 0.04
23 2 0.04
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:44272 original size:41 final size:41
Alignment explanation
Indices: 44215--44305 Score: 164
Period size: 41 Copynumber: 2.2 Consensus size: 41
44205 TACCACCAGT
*
44215 CGTTGAGATTTTGGACTATCGCATTGCGATTTACATATTCG
1 CGTTGCGATTTTGGACTATCGCATTGCGATTTACATATTCG
44256 CGTTGCGATTTTGGACTATCGCATTGCGATTTACATATTCG
1 CGTTGCGATTTTGGACTATCGCATTGCGATTTACATATTCG
*
44297 CATTGCGAT
1 CGTTGCGAT
44306 AGTCCAAGTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (41 bp):
CGTTGCGATTTTGGACTATCGCATTGCGATTTACATATTCG
Found at i:44282 original size:21 final size:21
Alignment explanation
Indices: 44221--44287 Score: 86
Period size: 21 Copynumber: 3.2 Consensus size: 21
44211 CAGTCGTTGA
44221 GATTTTGGACTATCGCATTGC
1 GATTTTGGACTATCGCATTGC
*
44242 GA-TTT--ACATATTCGCGTTGC
1 GATTTTGGAC-TA-TCGCATTGC
44262 GATTTTGGACTATCGCATTGC
1 GATTTTGGACTATCGCATTGC
44283 GATTT
1 GATTT
44288 ACATATTCGC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 2 0.05
19 2 0.05
20 13 0.33
21 18 0.46
22 2 0.05
23 2 0.05
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.40
Consensus pattern (21 bp):
GATTTTGGACTATCGCATTGC
Found at i:44319 original size:21 final size:21
Alignment explanation
Indices: 44293--44339 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
44283 GATTTACATA
* *
44293 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTACGATAATCCAAG
*
44314 TTCGCATTACGATAATCGAAG
1 TTCGCATTACGATAATCCAAG
44335 TTCGC
1 TTCGC
44340 GTTTCGAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (21 bp):
TTCGCATTACGATAATCCAAG
Found at i:44319 original size:41 final size:41
Alignment explanation
Indices: 44229--44326 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 41
44219 GAGATTTTGG
* * ***
44229 ACTATCGCATTGCGATTTACATATTCGCGTTGCGATTTTGG
1 ACTATCGCATTGCGATTTACATATTCGCATTGCGATGTCCA
44270 ACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCA
1 ACTATCGCATTGCGATTTACATATTCGCATTGCGAT-GTCCA
* *
44312 AGT-TCGCATTACGAT
1 ACTATCGCATTGCGAT
44327 AATCGAAGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
41 46 0.94
42 3 0.06
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.36
Consensus pattern (41 bp):
ACTATCGCATTGCGATTTACATATTCGCATTGCGATGTCCA
Found at i:49411 original size:25 final size:25
Alignment explanation
Indices: 49382--49433 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
49372 ACTTTACATG
49382 TTTTTATA-AATTATTTATTATTTAT
1 TTTTTATATAATTATTT-TTATTTAT
*
49407 TTTTTATATAGTTATTTTTATTTAT
1 TTTTTATATAATTATTTTTATTTAT
49432 TT
1 TT
49434 ATTTTCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTTTATATAATTATTTTTATTTAT
Found at i:49412 original size:14 final size:14
Alignment explanation
Indices: 49395--49438 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
49385 TTATAAATTA
49395 TTTATTATTTATTT
1 TTTATTATTTATTT
*
49409 TTTATATAGTTA-TT
1 TTTAT-TATTTATTT
49423 TTTATTTATTTATTT
1 TTTA-TTATTTATTT
49438 T
1 T
49439 CTTTTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (14 bp):
TTTATTATTTATTT
Found at i:55536 original size:13 final size:13
Alignment explanation
Indices: 55518--55542 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55508 CGACCTAGCA
55518 TCTTATTCTAATC
1 TCTTATTCTAATC
55531 TCTTATTCTAAT
1 TCTTATTCTAAT
55543 TTTTTTTATT
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:0.24, C:0.20, G:0.00, T:0.56
Consensus pattern (13 bp):
TCTTATTCTAATC
Found at i:55944 original size:67 final size:68
Alignment explanation
Indices: 55832--55959 Score: 170
Period size: 67 Copynumber: 1.9 Consensus size: 68
55822 GTTATCTATT
* * *
55832 TTTATCTTCATTCTCTTCTAACTTCTGAAACTAATCAAAACTGATATTCAAATTAATTTGACCTT
1 TTTATCTTCATTCTCTTCTAACTTCCGAAACCAATCAAAACTGATATTCAAATTAACTTGACCTT
55897 AAA
66 AAA
* * * *
55900 TTTATTTTCATTTTCTT-TAAAC-TCCGAAACCAATCAAGATTGATATTCAAATTAACTTGA
1 TTTATCTTCATTCTCTTCT-AACTTCCGAAACCAATCAAAACTGATATTCAAATTAACTTGA
55960 TTTGTTTAAG
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
67 34 0.65
68 18 0.35
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.41
Consensus pattern (68 bp):
TTTATCTTCATTCTCTTCTAACTTCCGAAACCAATCAAAACTGATATTCAAATTAACTTGACCTT
AAA
Found at i:56037 original size:15 final size:15
Alignment explanation
Indices: 56017--56045 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
56007 ATATATTTTA
56017 TATTAATTTTAAAAT
1 TATTAATTTTAAAAT
56032 TATTAATTTTAAAA
1 TATTAATTTTAAAA
56046 CAATAGTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTTTAAAAT
Found at i:66460 original size:31 final size:31
Alignment explanation
Indices: 66382--66463 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
66372 ATATTAATTT
*
66382 TTAAAAAATTATAAAAGAATCTTTAAATACA
1 TTAAAAAATTATAAAATAATCTTTAAATACA
*** * * *
66413 TTAATTTATTACAAAATAATCTTTATATTCA
1 TTAAAAAATTATAAAATAATCTTTAAATACA
*
66444 TTAAACAATTATAAAATAAT
1 TTAAAAAATTATAAAATAAT
66464 TCTTAGATTT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.52, C:0.07, G:0.01, T:0.39
Consensus pattern (31 bp):
TTAAAAAATTATAAAATAATCTTTAAATACA
Found at i:66478 original size:31 final size:31
Alignment explanation
Indices: 66382--66478 Score: 79
Period size: 31 Copynumber: 3.1 Consensus size: 31
66372 ATATTAATTT
* * * * *
66382 TTAAAAAATTATAAAAGAATCTTTAAATACA
1 TTAAACAATTACAAAATAATCTTTAGATTCA
*** *
66413 TTAATTTATTACAAAATAATCTTTATATTCA
1 TTAAACAATTACAAAATAATCTTTAGATTCA
* *
66444 TTAAACAATTATAAAATAAT-TCTTAGATTTA
1 TTAAACAATTACAAAATAATCT-TTAGATTCA
66475 TTAA
1 TTAA
66479 GTTATGATAA
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
30 1 0.02
31 51 0.98
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (31 bp):
TTAAACAATTACAAAATAATCTTTAGATTCA
Found at i:71242 original size:15 final size:15
Alignment explanation
Indices: 71222--71253 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
71212 TTTTAACGAC
71222 AAGGTTCTAAAATAA
1 AAGGTTCTAAAATAA
71237 AAGGTTCTAAAATAA
1 AAGGTTCTAAAATAA
71252 AA
1 AA
71254 AAAAAAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (15 bp):
AAGGTTCTAAAATAA
Found at i:71451 original size:20 final size:20
Alignment explanation
Indices: 71421--71472 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
71411 AAATGACCAA
71421 TAAATTCGCAACGCGAAAATG
1 TAAA-TCGCAACGCGAAAATG
**
71442 TAAATCGCAACGCGAATTTG
1 TAAATCGCAACGCGAAAATG
*
71462 TAATTCGCAAC
1 TAAATCGCAAC
71473 ACATAAGTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 24 0.86
21 4 0.14
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.23
Consensus pattern (20 bp):
TAAATCGCAACGCGAAAATG
Found at i:71664 original size:22 final size:22
Alignment explanation
Indices: 71639--71689 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
71629 TCACTCTCTA
71639 CGACGACATCCGTCCCCATCTC
1 CGACGACATCCGTCCCCATCTC
71661 CGACGACATCCGTCCCCATCTC
1 CGACGACATCCGTCCCCATCTC
*
71683 CGGCGAC
1 CGACGAC
71690 CCCCCTCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.18, C:0.49, G:0.18, T:0.16
Consensus pattern (22 bp):
CGACGACATCCGTCCCCATCTC
Found at i:72070 original size:20 final size:20
Alignment explanation
Indices: 72031--72072 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
72021 TTCGCAAGAC
*
72031 GAAAATGAAAATCGCAACGT
1 GAAAATGAAAATCACAACGT
72051 GAAAATGAAAATCACAACGT
1 GAAAATGAAAATCACAACGT
72071 GA
1 GA
72073 TTTTAGTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.52, C:0.14, G:0.19, T:0.14
Consensus pattern (20 bp):
GAAAATGAAAATCACAACGT
Found at i:72663 original size:20 final size:20
Alignment explanation
Indices: 72618--72663 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
72608 GACCAACAAA
* *
72618 ATCGCAATGCGATCTCTAAT
1 ATCGCAACGCGATCTCCAAT
*
72638 -TCGCAACGCGATCTCCAGT
1 ATCGCAACGCGATCTCCAAT
72657 ATCGCAA
1 ATCGCAA
72664 ATTCGCGCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATCTCCAAT
Found at i:72704 original size:21 final size:21
Alignment explanation
Indices: 72678--72731 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
72668 GCGCTGCATT
72678 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
72699 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
72720 TCGCGTTGCGAT
1 TCGCGTTGCGAT
72732 TTTCCTTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:72751 original size:41 final size:41
Alignment explanation
Indices: 72699--72813 Score: 160
Period size: 41 Copynumber: 2.8 Consensus size: 41
72689 TAGTTGAAAA
*
72699 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCTTT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
* * **
72740 TCGCGTTGCGATAG-TCAACAGTATCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTTGAA-AATCGCGTTGCGATTTTCCATT
*
72781 TCGCGTTGCGTTAGTTGAAAATCGCGTTGCGAT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
72814 AGTGCACAGT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
40 3 0.05
41 56 0.90
42 3 0.05
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (41 bp):
TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATT
Found at i:72789 original size:20 final size:20
Alignment explanation
Indices: 72720--72790 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
72710 TAGTTGAAAA
*
72720 TCGCGTTGCGATTTTCCTTT
1 TCGCGTTGCGATTTTCCATT
** *
72740 TCGCGTTGCGATAGTCAACAGTA
1 TCGCGTTGCGATTTTC--CA-TT
72763 T--CGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
72781 TCGCGTTGCG
1 TCGCGTTGCG
72791 TTAGTTGAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
18 2 0.05
19 2 0.05
20 21 0.54
21 11 0.28
22 1 0.03
23 2 0.05
ACGTcount: A:0.13, C:0.24, G:0.24, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:72959 original size:10 final size:11
Alignment explanation
Indices: 72928--72961 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
72918 GACACGTATT
72928 ACCACGACCACG
1 ACCACGACC-CG
72940 ACCACGACCCG
1 ACCACGACCCG
72951 ACC-CGACCCG
1 ACCACGACCCG
72961 A
1 A
72962 GACGAGACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.36
11 5 0.23
12 9 0.41
ACGTcount: A:0.29, C:0.53, G:0.18, T:0.00
Consensus pattern (11 bp):
ACCACGACCCG
Found at i:73643 original size:41 final size:41
Alignment explanation
Indices: 73589--73707 Score: 184
Period size: 41 Copynumber: 2.9 Consensus size: 41
73579 AACGAATTTA
* * *
73589 GAAAATCGCAACGACACTGTAGACTACCGCAACGCGAAATG
1 GAAAATCGCAACGACACTGTACACTATCGCAACACGAAATG
* *
73630 GAAAATCGCAACGACACTGTACACTATCGCAATACGAGATG
1 GAAAATCGCAACGACACTGTACACTATCGCAACACGAAATG
*
73671 GAAAATCGCAATGACACTGTACACTATCGCAACACGA
1 GAAAATCGCAACGACACTGTACACTATCGCAACACGA
73708 TTTTCAACTA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.15
Consensus pattern (41 bp):
GAAAATCGCAACGACACTGTACACTATCGCAACACGAAATG
Found at i:73737 original size:103 final size:103
Alignment explanation
Indices: 73611--73806 Score: 329
Period size: 103 Copynumber: 1.9 Consensus size: 103
73601 GACACTGTAG
* *
73611 ACTACCGCAACGCGAAATGGAAAATCGCAACGACACTGTACACTATCGCAATACGAGATGGAAAA
1 ACTACCGCAACGCGAAATGGAAAATCGCAACGACACTGTACACTATCGCAACACGAAATGGAAAA
*
73676 TCGCAATGACACTGTACACTATCGCAACACGATTTTCA
66 TCGCAACGACACTGTACACTATCGCAACACGATTTTCA
* * *
73714 ACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAAA
1 ACTACCGCAACGCGAAATGGAAAATCGCAACGACACTGTACACTATCGCAACACGAAATGGAAAA
*
73779 TCGCAACGACACTGTAGACTATCGCAAC
66 TCGCAACGACACTGTACACTATCGCAAC
73807 GCGAAATGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
103 86 1.00
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (103 bp):
ACTACCGCAACGCGAAATGGAAAATCGCAACGACACTGTACACTATCGCAACACGAAATGGAAAA
TCGCAACGACACTGTACACTATCGCAACACGATTTTCA
Found at i:73741 original size:41 final size:41
Alignment explanation
Indices: 73714--73889 Score: 334
Period size: 41 Copynumber: 4.3 Consensus size: 41
73704 ACGATTTTCA
73714 ACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAG
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAG
73755 ACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAG
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAG
*
73796 ACTATCGCAACGCGAAATGGAAAATCACAACGACACTGTAG
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAG
*
73837 ACTATCGCAACACGAAATGGAAAATCGCAACGACACTGTAG
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAG
73878 ACTATCGCAACG
1 ACTATCGCAACG
73890 ACACTGTAGA
Statistics
Matches: 131, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 131 1.00
ACGTcount: A:0.40, C:0.25, G:0.20, T:0.15
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAG
Found at i:73787 original size:144 final size:144
Alignment explanation
Indices: 73589--73851 Score: 454
Period size: 144 Copynumber: 1.8 Consensus size: 144
73579 AACGAATTTA
73589 GAAAATCGCAACGACACTGTAGACTACCGCAACGCGAAATGGAAAATCGCAACGACACTGTACAC
1 GAAAATCGCAACGACACTGTAGACTACCGCAACGCGAAATGGAAAATCGCAACGACACTGTACAC
* * * *
73654 TATCGCAATACGAGATGGAAAATCGCAATGACACTGTACACTATCGCAACACGATTTTCAACTAT
66 TATCGCAACACGAAATGGAAAATCACAACGACACTGTACACTATCGCAACACGATTTTCAACTAT
73719 CGCAACGCGAAATG
131 CGCAACGCGAAATG
* *
73733 GAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGAC
1 GAAAATCGCAACGACACTGTAGACTACCGCAACGCGAAATGGAAAATCGCAACGACACTGTACAC
* *
73798 TATCGCAACGCGAAATGGAAAATCACAACGACACTGTAGACTATCGCAACACGA
66 TATCGCAACACGAAATGGAAAATCACAACGACACTGTACACTATCGCAACACGA
73852 AATGGAAAAT
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
144 111 1.00
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.16
Consensus pattern (144 bp):
GAAAATCGCAACGACACTGTAGACTACCGCAACGCGAAATGGAAAATCGCAACGACACTGTACAC
TATCGCAACACGAAATGGAAAATCACAACGACACTGTACACTATCGCAACACGATTTTCAACTAT
CGCAACGCGAAATG
Found at i:73885 original size:144 final size:143
Alignment explanation
Indices: 73589--73913 Score: 447
Period size: 144 Copynumber: 2.3 Consensus size: 143
73579 AACGAATTTA
*
73589 GAAAATCGCAACGACACTGTAGACTACCGCAACGCGAAATGGAAAATCGCAACGACACTGTACAC
1 GAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTACAC
* * * * ** * *
73654 TATCGCAATACGAGATGGAAAATCGCAATGACACTGTACACTATCGCAACACGATTTTCAACTAT
66 TATCGCAACACGAAATGGAAAATCACAACGACACTGTACACTATCGCAACACGAAATGCAACAAT
73719 CGCAACGCGAAATG
131 CGCAACGC-AAATG
*
73733 GAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGAC
1 GAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTACAC
* * *
73798 TATCGCAACGCGAAATGGAAAATCACAACGACACTGTAGACTATCGCAACACGAAATGGAA-AAT
66 TATCGCAACACGAAATGGAAAATCACAACGACACTGTACACTATCGCAACACGAAATGCAACAAT
*
73862 CGCAACG-ACACTG
131 CGCAACGCA-AATG
** *
73875 TAGACTATCGCAACGACACTGTAGACTATCGTAACGCGA
1 --GAAAATCGCAACGACACTGTAGACTATCGCAACGCGA
73914 TTTTCAACTA
Statistics
Matches: 161, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
141 1 0.01
142 3 0.02
143 9 0.06
144 148 0.92
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (143 bp):
GAAAATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGTACAC
TATCGCAACACGAAATGGAAAATCACAACGACACTGTACACTATCGCAACACGAAATGCAACAAT
CGCAACGCAAATG
Found at i:73972 original size:20 final size:20
Alignment explanation
Indices: 73949--73994 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
73939 CAGCGCGAAT
* *
73949 TTGCGATACTGGAGATCGCG
1 TTGCGATACTAGAGATCGCA
*
73969 TTGCGA-ATTAGAGATCGCA
1 TTGCGATACTAGAGATCGCA
73988 TTGCGAT
1 TTGCGAT
73995 TTTGTTGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (20 bp):
TTGCGATACTAGAGATCGCA
Found at i:75251 original size:42 final size:42
Alignment explanation
Indices: 75168--75265 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 42
75158 CCCCCACTTT
* * * * *
75168 GAGAACCATCACCTGATCGAGCCGATTCTACTGCTCGACACC
1 GAGAGCCATCACCTGATCGAGCCAATTATACTCCTCCACACC
*
75210 GAGAGTCATCACCTGATCGAGCCAATTATA-TACCTCCACACC
1 GAGAGCCATCACCTGATCGAGCCAATTATACT-CCTCCACACC
75252 GAGAGCCATCACCT
1 GAGAGCCATCACCT
75266 ATTCCATCAC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.02
42 47 0.98
ACGTcount: A:0.29, C:0.35, G:0.17, T:0.19
Consensus pattern (42 bp):
GAGAGCCATCACCTGATCGAGCCAATTATACTCCTCCACACC
Found at i:75407 original size:21 final size:21
Alignment explanation
Indices: 75380--75429 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
75370 GTTAGGGGAG
*
75380 TTACGTGATGAGGTCAGTGCT
1 TTACGTGATGAGGTCAGTACT
* *
75401 TTGCGTGATGAGGTCGGTACT
1 TTACGTGATGAGGTCAGTACT
75422 TTACGTGA
1 TTACGTGA
75430 CGAAAATGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.18, C:0.14, G:0.34, T:0.34
Consensus pattern (21 bp):
TTACGTGATGAGGTCAGTACT
Found at i:75899 original size:20 final size:21
Alignment explanation
Indices: 75837--75912 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
75827 GATTTACCTG
75837 TCATCATTCAAGAGGCCCCTC
1 TCATCATTCAAGAGGCCCCTC
* *
75858 TTATCGTTCAAGAGGCCCCTC
1 TCATCATTCAAGAGGCCCCTC
*
75879 TCATTATTCAAGAGG-CCCTC
1 TCATCATTCAAGAGGCCCCTC
*
75899 TCATCGTTCAAGAG
1 TCATCATTCAAGAG
75913 TCCGATTCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 17 0.35
21 31 0.65
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.28
Consensus pattern (21 bp):
TCATCATTCAAGAGGCCCCTC
Found at i:77791 original size:56 final size:55
Alignment explanation
Indices: 77667--77792 Score: 139
Period size: 57 Copynumber: 2.2 Consensus size: 55
77657 AGTGCATCGA
*
77667 TGCATCAAGTGCATTCGATGTTTTAAAATAGCCAGAGTGCATCGATGCATGGCTGG
1 TGCATCAA-TGCATTCGATGTTTTAAAATAGCCACAGTGCATCGATGCATGGCTGG
* * * *
77723 TGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGATGGATGG-TATG
1 TGCATC-AATGCATTCGATGTTTT-A-AAATAGCCACAGTGCATCGATGCATGGCT-GG
*
77780 TGCATCGATGCAT
1 TGCATCAATGCAT
77793 GAAATGCATT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
56 28 0.47
57 29 0.48
58 3 0.05
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (55 bp):
TGCATCAATGCATTCGATGTTTTAAAATAGCCACAGTGCATCGATGCATGGCTGG
Found at i:80338 original size:23 final size:23
Alignment explanation
Indices: 80311--80391 Score: 96
Period size: 23 Copynumber: 3.7 Consensus size: 23
80301 TGCATGACCC
*
80311 TGTGCATAGATGCACATTCAAGG
1 TGTGCATCGATGCACATTCAAGG
* * *
80334 TGTGCATCGGTGCACCTTCATGG
1 TGTGCATCGATGCACATTCAAGG
80357 TGT--ATCGATGCACATTCAAGG
1 TGTGCATCGATGCACATTCAAGG
*
80378 -ATGCATCGATGCAC
1 TGTGCATCGATGCAC
80392 TGTTAGGTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
20 1 0.02
21 15 0.31
22 10 0.21
23 22 0.46
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (23 bp):
TGTGCATCGATGCACATTCAAGG
Found at i:80368 original size:44 final size:42
Alignment explanation
Indices: 80319--80410 Score: 123
Period size: 42 Copynumber: 2.1 Consensus size: 42
80309 CCTGTGCATA
* *
80319 GATGCACATTCAAGGTGTGCATCGGTGCACCT-TCATGGTGTATC
1 GATGCACATTCAAGG-ATGCATCGATGCA-CTGTCA-GGTGTATC
*
80363 GATGCACATTCAAGGATGCATCGATGCACTGTTAGGTGTATC
1 GATGCACATTCAAGGATGCATCGATGCACTGTCAGGTGTATC
80405 GATGCA
1 GATGCA
80411 TGAAGCACAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
42 16 0.36
43 13 0.30
44 15 0.34
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (42 bp):
GATGCACATTCAAGGATGCATCGATGCACTGTCAGGTGTATC
Found at i:80407 original size:20 final size:21
Alignment explanation
Indices: 80319--80410 Score: 89
Period size: 21 Copynumber: 4.3 Consensus size: 21
80309 CCTGTGCATA
80319 GATGCACATTCAAGGTGTGCATC
1 GATGCACATTCAAGGTGT--ATC
* * *
80342 GGTGCACCTTCATGGTGTATC
1 GATGCACATTCAAGGTGTATC
*
80363 GATGCACATTCAAGGATGCATC
1 GATGCACATTCAAGG-TGTATC
*
80385 GATGCAC-TGT-TAGGTGTATC
1 GATGCACAT-TCAAGGTGTATC
80405 GATGCA
1 GATGCA
80411 TGAAGCACAA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
20 11 0.19
21 19 0.33
22 13 0.22
23 15 0.26
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (21 bp):
GATGCACATTCAAGGTGTATC
Found at i:88371 original size:24 final size:24
Alignment explanation
Indices: 88337--88390 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
88327 CTGAAACATC
*
88337 ATCAAAATCTGAGTATTGACCAAT
1 ATCAAAATCTGAGTATTGACCAAG
* *
88361 ATCAAAGTCTGGGTATTGACCAAG
1 ATCAAAATCTGAGTATTGACCAAG
88385 ATCAAA
1 ATCAAA
88391 TTTTGAATAC
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:0.17, G:0.17, T:0.26
Consensus pattern (24 bp):
ATCAAAATCTGAGTATTGACCAAG
Found at i:89342 original size:20 final size:20
Alignment explanation
Indices: 89298--89483 Score: 86
Period size: 20 Copynumber: 9.4 Consensus size: 20
89288 CAAAACATTT
* *
89298 GTGTTGCGAAAATAAAA-GC
1 GTGTTGCGAAATTAAAATTC
89317 -TGTTGCGAAATTAAAATTC
1 GTGTTGCGAAATTAAAATTC
89336 GTGTTGCG-AATTCAAAAATT-
1 GTGTTGCGAAATT--AAAATTC
* * **
89356 GAGTTGCAAAAACAAAATTC
1 GTGTTGCGAAATTAAAATTC
* *
89376 GTGTTGCG-ATTTAGAAAATC
1 GTGTTGCGAAATTA-AAATTC
* * ** *
89396 TTATTGCGAAAAGGAAACTT-
1 GTGTTGCG-AAATTAAAATTC
*
89416 GTGTTGCGAAA-AAGAAATTC
1 GTGTTGCGAAATTA-AAATTC
*
89436 GCGTTGCG-AATTCAGAAATT-
1 GTGTTGCGAAATT-A-AAATTC
* *
89456 GAGTTGCGAATTTAAAA-TC
1 GTGTTGCGAAATTAAAATTC
89475 GTGTTGCGA
1 GTGTTGCGA
89484 TTGCAGAAAC
Statistics
Matches: 124, Mismatches: 28, Indels: 30
0.68 0.15 0.16
Matches are distributed among these distances:
18 17 0.14
19 33 0.27
20 51 0.41
21 21 0.17
22 2 0.02
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.30
Consensus pattern (20 bp):
GTGTTGCGAAATTAAAATTC
Found at i:89480 original size:19 final size:20
Alignment explanation
Indices: 89428--89506 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 20
89418 GTTGCGAAAA
*
89428 AGAAATTCGCGTTGCGAATTC
1 AGAAA-TCGAGTTGCGAATTC
* *
89449 AGAAATTGAGTTGCGAATTT
1 AGAAATCGAGTTGCGAATTC
*
89469 A-AAATCGTGTTGCG-ATTGC
1 AGAAATCGAGTTGCGAATT-C
89488 AGAAA-CTGAGTTGCGAATT
1 AGAAATC-GAGTTGCGAATT
89507 TGGAAACTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
18 3 0.06
19 13 0.28
20 23 0.49
21 8 0.17
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (20 bp):
AGAAATCGAGTTGCGAATTC
Found at i:89512 original size:20 final size:20
Alignment explanation
Indices: 89438--89514 Score: 54
Period size: 20 Copynumber: 3.9 Consensus size: 20
89428 AGAAATTCGC
** *
89438 GTTGCGAATTCAGAAATTGA
1 GTTGCGAATTTGGAAACTGA
* *
89458 GTTGCGAATTT--AAAATCGT
1 GTTGCGAATTTGGAAACT-GA
89477 GTTGCG-A-TTGCAGAAACTGA
1 GTTGCGAATTTG--GAAACTGA
89497 GTTGCGAATTTGGAAACT
1 GTTGCGAATTTGGAAACT
89515 ATGTCGCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
17 2 0.04
18 5 0.11
19 7 0.16
20 23 0.51
21 5 0.11
22 3 0.07
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (20 bp):
GTTGCGAATTTGGAAACTGA
Found at i:89920 original size:20 final size:20
Alignment explanation
Indices: 89895--89987 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
89885 TTTTCCCAAT
89895 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
89915 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
89935 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* * *
89956 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAA-TAAGTAAA
89977 TCGCAATGCGA
1 TCGCAATGCGA
89988 TACTGACTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 27 0.46
21 32 0.54
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:89937 original size:41 final size:41
Alignment explanation
Indices: 89892--89987 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
89882 CGATTTTCCC
*
89892 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
89933 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
*
89974 AAATCGCAATGCGA
1 AATTCGCAATGCGA
89988 TACTGACTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
Found at i:90000 original size:41 final size:41
Alignment explanation
Indices: 89914--90048 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
89904 GAATAAGTAA
* * * *
89914 ATCGCAACGCGAATTGGGAAATTCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCG-ATACTG-ACT
89955 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
* * * * * *
89996 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTGACT
*
90037 TTCGCAACGCGA
1 ATCGCAACGCGA
90049 TACTGACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
Found at i:90001 original size:20 final size:20
Alignment explanation
Indices: 89976--90070 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
89966 AATTGAGAAA
*
89976 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
89996 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
90017 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
90037 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
90057 TTCGCAACGCGATA
1 ATCGCAACGCGATA
90071 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:90286 original size:22 final size:22
Alignment explanation
Indices: 90258--90301 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
90248 CACTCTCTCA
90258 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
90280 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
90302 TATCTAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:90590 original size:20 final size:20
Alignment explanation
Indices: 90565--90602 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
90555 CGATTCTCTC
90565 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
90585 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
90603 AGAAACTATT
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:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:91941 original size:18 final size:18
Alignment explanation
Indices: 91920--91964 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
91910 TCCACTTCGG
*
91920 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
91938 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
91956 GAGCCATCA
1 GAGCCATCA
91965 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:92491 original size:19 final size:19
Alignment explanation
Indices: 92437--92521 Score: 91
Period size: 20 Copynumber: 4.4 Consensus size: 19
92427 TAGTTTACTT
*
92437 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGACTA
*
92457 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGACTA
* **
92477 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGACTA
*
92496 TCGCAACGCGAAATGA-AA
1 TCGCAACGCGAAATGACTA
92514 TCGCAACG
1 TCGCAACG
92522 ACAAAATCGC
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
18 10 0.18
19 22 0.39
20 24 0.42
21 1 0.02
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGACTA
Found at i:92557 original size:19 final size:19
Alignment explanation
Indices: 92437--92557 Score: 101
Period size: 19 Copynumber: 6.6 Consensus size: 19
92427 TAGTTTACTT
* **
92437 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
92457 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
92477 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
92496 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
92514 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
92528 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
92547 TCGCAATGCGA
1 TCGCAACGCGA
92558 TTTGTGTTTC
Statistics
Matches: 84, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
14 10 0.12
16 4 0.05
18 10 0.12
19 35 0.42
20 24 0.29
21 1 0.01
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:92588 original size:14 final size:14
Alignment explanation
Indices: 92569--92658 Score: 90
Period size: 14 Copynumber: 5.9 Consensus size: 14
92559 TTGTGTTTCG
92569 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
92583 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
92599 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
*
92615 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
92631 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
92647 CGTTGCGATTTT
1 CGTTGCGATTTT
92659 CATTTTGCAT
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
14 34 0.53
16 8 0.12
18 22 0.34
ACGTcount: A:0.09, C:0.18, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:92603 original size:32 final size:32
Alignment explanation
Indices: 92564--92674 Score: 195
Period size: 32 Copynumber: 3.4 Consensus size: 32
92554 GCGATTTGTG
92564 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
92596 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
92628 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
* *
92661 TTTTGCATTGCGAT
1 TTTCGCGTTGCGAT
92675 AGCCATTTCC
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 59 0.78
33 17 0.22
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.48
Consensus pattern (32 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
Found at i:92693 original size:20 final size:19
Alignment explanation
Indices: 92668--92713 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 19
92658 TCATTTTGCA
92668 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTT-CGCG
*
92688 TTGCGATAGTCATTTCGCG
1 TTGCGATAGCCATTTCGCG
92707 TTGCGAT
1 TTGCGAT
92714 TTTAAGTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.35
Consensus pattern (19 bp):
TTGCGATAGCCATTTCGCG
Found at i:94599 original size:14 final size:14
Alignment explanation
Indices: 94580--94615 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
94570 ATTGTTTAAT
94580 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
94594 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
94608 TGATTTGT
1 TGATTTGT
94616 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:94754 original size:19 final size:19
Alignment explanation
Indices: 94732--94799 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
94722 ATCGCAACGA
94732 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
94751 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
94770 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
94784 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
94800 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:94843 original size:20 final size:20
Alignment explanation
Indices: 94818--94874 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
94808 TCGCATTGCG
*
94818 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAACC
94838 ATTTTCGCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAACC
*
94858 ATTTTCGCATTGCGATA
1 ATTTTCGCGTTGCGATA
94875 GTCAAATGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAACC
Found at i:95260 original size:14 final size:14
Alignment explanation
Indices: 95241--95276 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
95231 ATTGTTTAAT
95241 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
95255 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
95269 TGATTTGT
1 TGATTTGT
95277 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:95402 original size:14 final size:15
Alignment explanation
Indices: 95383--95459 Score: 59
Period size: 14 Copynumber: 4.7 Consensus size: 15
95373 CGAAATGGCT
95383 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
*
95397 ATCGCAATGCGAAATGAA
1 ATCGCAA-GCGAGA--AA
95415 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCG--A-GAAA
95434 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
95448 ATCGCAATGCGA
1 ATCGCAA-GCGA
95460 TTTTCATTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
14 18 0.35
15 1 0.02
16 7 0.13
17 2 0.04
18 13 0.25
19 9 0.17
20 1 0.02
21 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.13
Consensus pattern (15 bp):
ATCGCAAGCGAGAAA
Found at i:95415 original size:19 final size:19
Alignment explanation
Indices: 95393--95459 Score: 92
Period size: 18 Copynumber: 3.8 Consensus size: 19
95383 ATCGCAACGA
95393 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
95412 G-AAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
95430 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
95444 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
95460 TTTTCATTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
14 11 0.25
15 1 0.02
16 2 0.05
17 2 0.05
18 18 0.41
19 10 0.23
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:95503 original size:20 final size:20
Alignment explanation
Indices: 95478--95534 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
95468 TCGCATTGCG
*
95478 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAACC
95498 ATTTTCGCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAACC
*
95518 ATTTTCGCATTGCGATA
1 ATTTTCGCGTTGCGATA
95535 GTCAAATGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAACC
Found at i:95590 original size:660 final size:662
Alignment explanation
Indices: 94331--96069 Score: 3414
Period size: 661 Copynumber: 2.6 Consensus size: 662
94321 TTGGTAAGTC
*
94331 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTTAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
94396 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
* *
94461 CTGCAGGTTAATCCTTAAGTGAGCTGCGTGAAATGGATGTACGGGGTCACAAAGTTGTTGATTC-
131 CTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATAGATGTACGGGGTCACAAAGTTGTTGATTCA
94525 TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTA-TTTTTGATTGTTTAATTGATTTGTA
196 TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTA
94589 AAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATA
261 AAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATA
94654 GTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATG
326 GTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATG
94719 GCTATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGA
391 GCTATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGA
94784 GAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAACCATTTTCGCGTT
456 GAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAACCATTTTCGCGTT
94849 GCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGA
521 GCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGA
94914 TCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACA
586 TCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACA
94979 T-AAATACACAT
651 TAAAATACACAT
94990 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
95055 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
95120 CTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATAGATGTACGGGGTCACAAAGTTGTTGATTCA
131 CTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATAGATGTACGGGGTCACAAAGTTGTTGATTCA
95185 TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTA
196 TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTA
95250 AAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATA
261 AAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATA
95315 GTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATG
326 GTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATG
95380 GCTATCGCAACGAGAAAATCGCAATGCGAAATG-AAATCGCAATGCGAAATGAAAATCGCAACGA
391 GCTATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGA
95444 GAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAACCATTTTCGCGTT
456 GAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAACCATTTTCGCGTT
95509 GCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGA
521 GCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGA
95574 TCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACA
586 TCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACA
95639 TAAAATACACAT
651 TAAAATACACAT
95651 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
1 AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
*
95716 TCAATAATTTGATGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
66 TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
95781 CTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATAGATGTACGGGGTCACAAAGTTGTTGATTCA
131 CTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATAGATGTACGGGGTCACAAAGTTGTTGATTCA
95846 TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTA
196 TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTA
95911 AAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATA
261 AAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATA
95976 GTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATG
326 GTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATG
96041 GCTATCGCAACGAGAAAATCGCAATGCGA
391 GCTATCGCAACGAGAAAATCGCAATGCGA
96070 TTTTCGTTTC
Statistics
Matches: 1073, Mismatches: 4, Indels: 4
0.99 0.00 0.00
Matches are distributed among these distances:
659 191 0.18
660 266 0.25
661 616 0.57
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (662 bp):
AATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAAATGTTTGGTTAAGTACCTAGAAT
TCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTCTTGTTTGAGCAAATGTTTGGTTT
CTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATAGATGTACGGGGTCACAAAGTTGTTGATTCA
TTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTTTTTGATTGTTTAATTGATTTGTA
AAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACATAATTTGTGTTGAAATGTAATA
GTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAACAGACTATCGCAACGCGAAATG
GCTATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGA
GAAAATCGCAATGCGATTTTCATTTCGCATTGCGATTTTCTCGTTGCGATAACCATTTTCGCGTT
GCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGACAACTGAACAGA
TCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTGCACACA
TAAAATACACAT
Found at i:95921 original size:14 final size:14
Alignment explanation
Indices: 95902--95937 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
95892 ATTGTTTAAT
95902 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
95916 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
95930 TGATTTGT
1 TGATTTGT
95938 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:97234 original size:24 final size:24
Alignment explanation
Indices: 97178--97236 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
97168 AGTCAGTATT
* *
97178 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACA
* * *
97202 CGGACTTTGATATTGGTTAATACA
1 CGAAATTTGATATTGGTCAATACA
*
97226 CGAATTTTGAT
1 CGAAATTTGAT
97237 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:99745 original size:19 final size:19
Alignment explanation
Indices: 99723--99820 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
99713 GGAAATTACT
99723 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
99742 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
99756 ATCGCAATGCGAAATGTAA
1 ATCGCAATGCGAAATGAAA
**
99775 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
99789 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
99808 ATCGCAACGCGAA
1 ATCGCAATGCGAA
99821 TTTAATTTCG
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 30 0.49
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:99765 original size:33 final size:33
Alignment explanation
Indices: 99723--99816 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
99713 GGAAATTACT
99723 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
99756 ATCGCAATGCGAAATGTAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
99789 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
99817 CGAATTTAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:99838 original size:19 final size:20
Alignment explanation
Indices: 99816--99858 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
99806 AAATCGCAAC
99816 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
99835 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
99855 GCGA
1 GCGA
99859 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:99843 original size:14 final size:14
Alignment explanation
Indices: 99844--99877 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
99834 TGCGATTTTC
99844 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
99858 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
99872 ATTTTC
1 ATTTTC
99878 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:100017 original size:14 final size:14
Alignment explanation
Indices: 99998--100034 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
99988 CATCAATTAA
99998 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
100012 ACAAATCACCTTTT
1 ACAAATCAACTTTT
100026 ACAAATCAA
1 ACAAATCAA
100035 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:101457 original size:21 final size:21
Alignment explanation
Indices: 101391--101457 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
101381 GTGAATCGGG
*
101391 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
101411 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
101433 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
101454 CTCT
1 CTCT
101458 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:101496 original size:41 final size:41
Alignment explanation
Indices: 101421--101512 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 41
101411 CCTCTTCAAC
* * * *
101421 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGA-G
1 GATGATAG-GGCCTCTTCAACGATAGGAGGGGACTCTCGATG
* *
101462 GAATGATAGGGCCTCTTCAACGATAGGAGTGGACTCTTGATG
1 G-ATGATAGGGCCTCTTCAACGATAGGAGGGGACTCTCGATG
101504 GATGATAGG
1 GATGATAGG
101513 CGAGTCGGGC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
41 35 0.81
42 8 0.19
ACGTcount: A:0.24, C:0.16, G:0.37, T:0.23
Consensus pattern (41 bp):
GATGATAGGGCCTCTTCAACGATAGGAGGGGACTCTCGATG
Found at i:103549 original size:20 final size:19
Alignment explanation
Indices: 103504--103682 Score: 135
Period size: 19 Copynumber: 9.8 Consensus size: 19
103494 TCTTTTGGTT
103504 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* * *
103523 GATAATGAGAATTGCAACGCG
1 GA-AATGAAAATCGCAACG-A
** *
103544 GAAATGACTATCGCAATGA
1 GAAATGAAAATCGCAACGA
*
103563 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
** *
103577 GAAATGACTATCGCGACGA
1 GAAATGAAAATCGCAACGA
*
103596 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
* *
103610 GAAATGAAATTCGCAACGC
1 GAAATGAAAATCGCAACGA
*
103629 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
103648 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
103667 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
103683 TGCGATTTGG
Statistics
Matches: 129, Mismatches: 19, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
14 18 0.14
16 4 0.03
17 4 0.03
19 75 0.58
20 26 0.20
21 2 0.02
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:103586 original size:33 final size:33
Alignment explanation
Indices: 103529--103665 Score: 141
Period size: 33 Copynumber: 4.0 Consensus size: 33
103519 ACGAGATAAT
* *
103529 GAGAATTGCAACGCGGAAATGACTATCGCAATGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
103563 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
*
103596 GAGAATCGCAACGCGAAATGA-AATTCGCAACGCGAAA
1 GAGAATCGCAACGCGAAATGACTA-TCGCAA--CG--A
* **
103633 TGAAAATCGCAACGCGAAATGAAAATCGCAACG
1 -GAGAATCGCAACGCGAAATGACTATCGCAACG
103666 CGAAATGAAA
Statistics
Matches: 90, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
32 1 0.01
33 43 0.48
34 13 0.14
35 2 0.02
36 2 0.02
37 1 0.01
38 26 0.29
39 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.25, T:0.13
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:103623 original size:19 final size:19
Alignment explanation
Indices: 103599--103687 Score: 160
Period size: 19 Copynumber: 4.7 Consensus size: 19
103589 GCGACGAGAG
103599 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
103618 ATTCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
103637 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
103656 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
103675 AATCGCAATGCGA
1 AATCGCAACGCGA
103688 TTTGGTTTCG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:103704 original size:18 final size:18
Alignment explanation
Indices: 103683--103747 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 18
103673 AAAATCGCAA
*
103683 TGCGATTTGGTTTCGCGT
1 TGCGATTTGATTTCGCGT
*
103701 TGCGATTTTTATTTCGCGT
1 TGCGA-TTTGATTTCGCGT
*
103720 TGCGATAGTT-ATTTCCGCTT
1 TGCGAT--TTGATTT-CGCGT
103740 TGCGATTT
1 TGCGATTT
103748 CATTCTCGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 8 0.20
19 20 0.50
20 12 0.30
ACGTcount: A:0.11, C:0.17, G:0.25, T:0.48
Consensus pattern (18 bp):
TGCGATTTGATTTCGCGT
Found at i:103717 original size:19 final size:19
Alignment explanation
Indices: 103693--103747 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
103683 TGCGATTTGG
103693 TTTCGCGTTGCGATTTTTA
1 TTTCGCGTTGCGATTTTTA
**
103712 TTTCGCGTTGCGATAGTTA
1 TTTCGCGTTGCGATTTTTA
*
103731 TTTCCGCTTTGCGATTT
1 TTT-CGCGTTGCGATTT
103748 CATTCTCGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 20 0.67
20 10 0.33
ACGTcount: A:0.11, C:0.18, G:0.22, T:0.49
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTTA
Found at i:104362 original size:20 final size:20
Alignment explanation
Indices: 104269--104362 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
104259 CGCTAAGTAA
*
104269 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* *
104289 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
104309 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
104330 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
104350 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
104363 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:104381 original size:41 final size:41
Alignment explanation
Indices: 104290--104424 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
104280 AAAGTCAGTA
* * * ** *
104290 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
104330 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* ** *
104372 TCGCGTTGCGAT-TTACTTATTCGCATTGCGAATTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
104413 TCGCGTTGCGAT
1 TCGCGTTGCGAT
104425 TTACTTATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 73 0.94
42 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:104395 original size:20 final size:20
Alignment explanation
Indices: 104351--104443 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
104341 ATAGTCAGTA
* **
104351 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
104372 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
104392 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
104413 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
104433 TCGCATTGCGA
1 TCGCATTGCGA
104444 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:104425 original size:41 final size:41
Alignment explanation
Indices: 104351--104446 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
104341 ATAGTCAGTA
*
104351 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
104392 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
104433 TCGCATTGCGAATT
1 TCGCATTGCGAATT
104447 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:106595 original size:134 final size:135
Alignment explanation
Indices: 106306--106643 Score: 471
Period size: 135 Copynumber: 2.5 Consensus size: 135
106296 TCAGAAACGG
* * * *
106306 AGGAACATAATGATCATGATCATGAAAACGAATATCCCACACTACCAAAAAGACCACCATCACCA
1 AGGAACATAATGATCATGATAAAGAAGACGAAAATCCCACACTACCAAAAAGACCACCATCACCA
* *
106371 TCGGTTGCGAGGAGGACCACATTGTTAACAATGAGACAGTACCCTGAAATGGAGAATTCTGAGCA
66 TCGGTTGCGAGGAGGACCACATTGTAAACAATGAGACAGTACCCTGAAATGGAGAATTCCGAGCA
106436 GGGTA
131 GGGTA
* * * *
106441 AGGAACATAATGATCATGATAAAGAAGGCGAACATCCCACACTACCGAAAAGACCACCATCACCG
1 AGGAACATAATGATCATGATAAAGAAGACGAAAATCCCACACTACCAAAAAGACCACCATCACCA
* * * *
106506 TCGGTTGCGAGGAGGACCGCGTTG-AAACGATGAGGCAGTACCCTGAAATGGAGAATTCCGAGCA
66 TCGGTTGCGAGGAGGACCACATTGTAAACAATGAGACAGTACCCTGAAATGGAGAATTCCGAGCA
106570 GGGTA
131 GGGTA
* * * *
106575 AGGTACATAACGATCATGATAAAAGAAGTCCAAAATCCCACACTTGGACCAAAAAGACCACCATC
1 AGGAACATAATGATCATGAT-AAAGAAGACGAAAATCCCACAC-T--ACCAAAAAGACCACCATC
106640 ACCA
62 ACCA
106644 ATACAGACGA
Statistics
Matches: 179, Mismatches: 20, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
134 59 0.33
135 99 0.55
136 1 0.01
138 20 0.11
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (135 bp):
AGGAACATAATGATCATGATAAAGAAGACGAAAATCCCACACTACCAAAAAGACCACCATCACCA
TCGGTTGCGAGGAGGACCACATTGTAAACAATGAGACAGTACCCTGAAATGGAGAATTCCGAGCA
GGGTA
Found at i:107020 original size:189 final size:189
Alignment explanation
Indices: 106693--107120 Score: 534
Period size: 189 Copynumber: 2.2 Consensus size: 189
106683 CATTACAAGG
* * * ** * **
106693 AACATAATGATCATGATAAAGAAAACGAACAATCTGCACCAAGACCATCGAGATTACCATCAGTG
1 AACATAATGATCATGATAAAGAAAACGAACAATCCGCACCAAGACCATCAAGATCAAAACCAGCA
* * * *
106758 TTACCAACGATAACGACGAAGGTGAGAATGAGCGTGTCGATGACGAATTTGAAGTTGTGTTCGGA
66 TTACCAACAACAACGACGAAGATGAGAATGAGCGTGTCGATGACGAATTTGAAGTTGTGCTCGGA
*
106823 AATGGAGGATTCTGAGCAGGGTAAGAAACAAAAACCAACGGATTCAACACATCATGACA
131 AATGGAGGATTCTGAGCAAGGTAAGAAACAAAAACCAACGGATTCAACACATCATGACA
* * * * *
106882 AACATAGTGATCATGATAAAGATATCGATCAATCCGCACCAAGACTATCAAGATCAAAACCAGCA
1 AACATAATGATCATGATAAAGAAAACGAACAATCCGCACCAAGACCATCAAGATCAAAACCAGCA
* * *
106947 TTACCAGCAACAATGACGATGATGAGAATGAGC-TCGTCGATGACGAATTTGAAGTTGTGCTCGG
66 TTACCAACAACAACGACGAAGATGAGAATGAGCGT-GTCGATGACGAATTTGAAGTTGTGCTCGG
* * *
107011 AAATGGAGGATTCTGAGCAAGGTAAGAAACAGAAACCAATGGATTCAACACGTCATGACAA
130 AAATGGAGGATTCTGAGCAAGGTAAGAAACAAAAACCAACGGATTCAACACATCATGAC-A
* * * * * * *
107072 GGAACGTAAAGACCATGATAAAGAAAGCAAACAATCTGCACCCAGACCA
1 --AACATAATGATCATGATAAAGAAAACGAACAATCCGCACCAAGACCA
107121 CCACCGTTAC
Statistics
Matches: 200, Mismatches: 35, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
188 1 0.00
189 162 0.81
190 1 0.00
192 36 0.18
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (189 bp):
AACATAATGATCATGATAAAGAAAACGAACAATCCGCACCAAGACCATCAAGATCAAAACCAGCA
TTACCAACAACAACGACGAAGATGAGAATGAGCGTGTCGATGACGAATTTGAAGTTGTGCTCGGA
AATGGAGGATTCTGAGCAAGGTAAGAAACAAAAACCAACGGATTCAACACATCATGACA
Found at i:107406 original size:165 final size:161
Alignment explanation
Indices: 107117--107424 Score: 458
Period size: 165 Copynumber: 1.9 Consensus size: 161
107107 CTGCACCCAG
* *
107117 ACCACCACCGTTACCAGCAACAAAGACAACAATGAAATGTTCAGAAATGGAGGATTCTGATCAAG
1 ACCACCACCGTTACCACCAACAAAGACAACAATGAAATGTTCAGAAATGGAGGATTCCGATCAAG
* *
107182 GTGAGAAAAAGGAACCAACGGATTCAACACATGATTACAAGGAAGAACATAAAGATGATGATAAA
66 GTGAGAAAAAGGAACCAACGGATTCAAAACATGATGACAA-GAAGAACATAAAGATGATG---AA
*
107247 GAAAGTGAACAACCCGAGCCAAGGCCATCAGGATC
127 GAAAGGGAACAACCCGAGCCAAGGCCATCAGGATC
* * *
107282 ACCATCACCGTTACCACCAACAATGACAACAATGGAATGTTCAGAAATGGAGGATTCCGATCAAG
1 ACCACCACCGTTACCACCAACAAAGACAACAATGAAATGTTCAGAAATGGAGGATTCCGATCAAG
*
107347 GTGAGAAAAAGGAACCAACGGATTCAAAACATGATGA-AA-AGGAACATAAAGATGATGATGAAG
66 GTGAGAAAAAGGAACCAACGGATTCAAAACATGATGACAAGAAGAACAT-AA-A-GATGATGAAG
107410 AAAGGGAACAACCCG
128 AAAGGGAACAACCCG
107425 CACCAGGATC
Statistics
Matches: 131, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
162 24 0.18
163 2 0.02
164 3 0.02
165 102 0.78
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (161 bp):
ACCACCACCGTTACCACCAACAAAGACAACAATGAAATGTTCAGAAATGGAGGATTCCGATCAAG
GTGAGAAAAAGGAACCAACGGATTCAAAACATGATGACAAGAAGAACATAAAGATGATGAAGAAA
GGGAACAACCCGAGCCAAGGCCATCAGGATC
Found at i:107642 original size:129 final size:129
Alignment explanation
Indices: 107459--107774 Score: 434
Period size: 129 Copynumber: 2.4 Consensus size: 129
107449 CAGAAACAAC
* * * * *
107459 GAGCTCGGAAACGGAGGACCATGATCAAGATAAGAAACATGAACCAACGGATTCAACAGATGATA
1 GAGCTTGGAAACGGAGGACCATGAGCAAGGTAAGAAACAGGAACCAACGGATTCAACACATGATA
* * * * * * *
107524 AAGAAAGTGAACAACCGGCTCCAGGATCACCCTCTCCGTTACCGGCAACAACGACGATGAAGGA
66 AAGAAAGTGAACAACCGGCGCCAGGATCACCATCACCGGTACCGGCAACAACAACGATAAACGA
* *
107588 GAGCTTGGAAATGGAGGACCATGAGCAAGGTAAGAAACAGGAACCAACGGATTCAGCACATGATA
1 GAGCTTGGAAACGGAGGACCATGAGCAAGGTAAGAAACAGGAACCAACGGATTCAACACATGATA
*
107653 AAGAAAGTGAACAACCGGCGCCAGGATCACCATCACCGGTACCGGCAACAGCAACGATAAACGA
66 AAGAAAGTGAACAACCGGCGCCAGGATCACCATCACCGGTACCGGCAACAACAACGATAAACGA
* * * ** * *
107717 GTGCTTGGAACCGAAGGATAATGAGCAAGGTAAGAAACAGGAACCAATGGATTTAACA
1 GAGCTTGGAAACGGAGGACCATGAGCAAGGTAAGAAACAGGAACCAACGGATTCAACA
107775 TAACATAACA
Statistics
Matches: 163, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
129 163 1.00
ACGTcount: A:0.40, C:0.22, G:0.26, T:0.13
Consensus pattern (129 bp):
GAGCTTGGAAACGGAGGACCATGAGCAAGGTAAGAAACAGGAACCAACGGATTCAACACATGATA
AAGAAAGTGAACAACCGGCGCCAGGATCACCATCACCGGTACCGGCAACAACAACGATAAACGA
Found at i:109073 original size:2 final size:2
Alignment explanation
Indices: 109068--109092 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
109058 AAAATATTGT
109068 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 T
109093 TATTTTAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:112788 original size:12 final size:12
Alignment explanation
Indices: 112771--112795 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
112761 AGGAGTTAGT
112771 AAATGAATTTTG
1 AAATGAATTTTG
112783 AAATGAATTTTG
1 AAATGAATTTTG
112795 A
1 A
112796 CTTGTCATAA
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:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (12 bp):
AAATGAATTTTG
Found at i:113637 original size:21 final size:21
Alignment explanation
Indices: 113607--113684 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
113597 TTCTACGCGA
113607 TCCTTCGGGACATATATGTGG
1 TCCTTCGGGACATATATGTGG
* * * *
113628 TCCTTTGGGACATTTCTACGCGG
1 TCCTTCGGGACA--TATATGTGG
* * * *
113651 TCCTTTGGAAAATATATGTAG
1 TCCTTCGGGACATATATGTGG
113672 TCCTTCGGGACAT
1 TCCTTCGGGACAT
113685 TCTATATGGC
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
21 26 0.62
23 16 0.38
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (21 bp):
TCCTTCGGGACATATATGTGG
Found at i:113655 original size:23 final size:23
Alignment explanation
Indices: 113596--113658 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 23
113586 GACAAATCTG
* *
113596 TTTCTACGCGATCCTTCGGGACA
1 TTTCTACGCGGTCCTTTGGGACA
* * *
113619 --TATATGTGGTCCTTTGGGACA
1 TTTCTACGCGGTCCTTTGGGACA
113640 TTTCTACGCGGTCCTTTGG
1 TTTCTACGCGGTCCTTTGG
113659 AAAATATATG
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
21 16 0.53
23 14 0.47
ACGTcount: A:0.14, C:0.24, G:0.25, T:0.37
Consensus pattern (23 bp):
TTTCTACGCGGTCCTTTGGGACA
Found at i:113666 original size:44 final size:44
Alignment explanation
Indices: 113596--113685 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
113586 GACAAATCTG
* * * *
113596 TTTCTACGCGATCCTTCGGGACATATATGTGGTCCTTTGGGACA
1 TTTCTACGCGATCCTTCGGAAAATATATGTAGTCCTTCGGGACA
* *
113640 TTTCTACGCGGTCCTTTGGAAAATATATGTAGTCCTTCGGGACA
1 TTTCTACGCGATCCTTCGGAAAATATATGTAGTCCTTCGGGACA
113684 TT
1 TT
113686 CTATATGGCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (44 bp):
TTTCTACGCGATCCTTCGGAAAATATATGTAGTCCTTCGGGACA
Found at i:114318 original size:2 final size:2
Alignment explanation
Indices: 114311--114359 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
114301 ATCAGAATCA
114311 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
114353 AT AT AT A
1 AT AT AT A
114360 GTAGGTTCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:116232 original size:2 final size:2
Alignment explanation
Indices: 116225--116281 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
116215 CCATTAAAAT
116225 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
116267 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
116282 TAACAATATT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:118546 original size:19 final size:19
Alignment explanation
Indices: 118504--118546 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
118494 CCCGAGAAGG
**
118504 TATTCGATACGTATCCGAA
1 TATTCGATACACATCCGAA
* *
118523 CATTCGATACACATCCGTA
1 TATTCGATACACATCCGAA
118542 TATTC
1 TATTC
118547 ACTTTTTCGA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (19 bp):
TATTCGATACACATCCGAA
Found at i:118803 original size:18 final size:17
Alignment explanation
Indices: 118780--118824 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
118770 TAGCATGGAT
118780 CTTGATGATGATGATGAA
1 CTTGATGATGATGATG-A
* *
118798 CTTGATGGTGATGCTGA
1 CTTGATGATGATGATGA
118815 CATTGATGAT
1 C-TTGATGAT
118825 TTAGAAACGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.27, C:0.09, G:0.29, T:0.36
Consensus pattern (17 bp):
CTTGATGATGATGATGA
Found at i:121176 original size:6 final size:6
Alignment explanation
Indices: 121167--121195 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
121157 TATAGATTTA
121167 CGTATC CGTATC CGTATC CGTATC CGTAT
1 CGTATC CGTATC CGTATC CGTATC CGTAT
121196 GCGAATATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.34
Consensus pattern (6 bp):
CGTATC
Found at i:127196 original size:12 final size:12
Alignment explanation
Indices: 127179--127215 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
127169 ATTTGCCGGA
127179 TTTTGTTTATTT
1 TTTTGTTTATTT
127191 TTTTGTTTATGTT
1 TTTTGTTTAT-TT
127204 TTTT-TTTATTT
1 TTTTGTTTATTT
127215 T
1 T
127216 GAGTTTAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 3 0.12
12 15 0.62
13 6 0.25
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (12 bp):
TTTTGTTTATTT
Found at i:141068 original size:58 final size:59
Alignment explanation
Indices: 140999--141113 Score: 162
Period size: 58 Copynumber: 2.0 Consensus size: 59
140989 TAATTATTTG
* *
140999 TAACTTTTAATAATAGAAGGACTTAAAAAACAACA-TCCTATAATT-AGAGATCATTTTA
1 TAACTTTTAATAATAGAAGGACTAAAAAAACAACACT-CTATAATTGAGAGACCATTTTA
* * *
141057 TAACTTTTAATAGTCGAAGGACTAAAAAAACAACACTCTATAGTTGAGAGACCATTT
1 TAACTTTTAATAATAGAAGGACTAAAAAAACAACACTCTATAATTGAGAGACCATTT
141114 GTGTATTTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 39 0.78
59 11 0.22
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.30
Consensus pattern (59 bp):
TAACTTTTAATAATAGAAGGACTAAAAAAACAACACTCTATAATTGAGAGACCATTTTA
Found at i:141277 original size:17 final size:18
Alignment explanation
Indices: 141252--141285 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
141242 TTTCTTAAAT
141252 TATAAAAAATT-TAAAAG
1 TATAAAAAATTCTAAAAG
*
141269 TATATAAAATTCTAAAA
1 TATAAAAAATTCTAAAA
141286 AATCTAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (18 bp):
TATAAAAAATTCTAAAAG
Found at i:141937 original size:23 final size:24
Alignment explanation
Indices: 141893--141937 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
141883 ATGTTCATGT
* * *
141893 TCGAGTTTGAGTTTGAGGTTTTAA
1 TCGAGTTTAAGTTTAAGATTTTAA
141917 TCGAG-TTAAGTTTAAGATTTT
1 TCGAGTTTAAGTTTAAGATTTT
141938 TTTTTTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.47
Consensus pattern (24 bp):
TCGAGTTTAAGTTTAAGATTTTAA
Found at i:142019 original size:36 final size:36
Alignment explanation
Indices: 141970--142039 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
141960 AGCTGTTCAT
*
141970 GAGCTTCAGTTCAGAA-TTTCGAGTTCGAGTCGAGTC
1 GAGCTCCAGTTCAGAATTTTCGAG-TCGAGTCGAGTC
*
142006 GAGCTCCATTTCAGAATTTTCGAGTCGAGTCGAG
1 GAGCTCCAGTTCAGAATTTTCGAGTCGAGTCGAG
142040 CTCAGCAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 24 0.77
37 7 0.23
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (36 bp):
GAGCTCCAGTTCAGAATTTTCGAGTCGAGTCGAGTC
Found at i:142631 original size:29 final size:29
Alignment explanation
Indices: 142591--142696 Score: 122
Period size: 29 Copynumber: 3.6 Consensus size: 29
142581 CTTTTTTATT
* * *
142591 TAAGTACCTAAAATATTTTTTTATAAAAA
1 TAAGTACTTAAAGTATTTTTTTATCAAAA
* *
142620 TAAGTAGTTAAAGTTATCTTTTTAGTCAAAA
1 TAAGTACTTAAAG-TATTTTTTTA-TCAAAA
* *
142651 TAAGTACCTAAAGTATTTTTTGATCAAAA
1 TAAGTACTTAAAGTATTTTTTTATCAAAA
*
142680 TAAGTATTTAAAGTATT
1 TAAGTACTTAAAGTATT
142697 CAATTTTTAT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 31 0.48
30 17 0.27
31 16 0.25
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (29 bp):
TAAGTACTTAAAGTATTTTTTTATCAAAA
Found at i:142823 original size:28 final size:28
Alignment explanation
Indices: 142786--142861 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 28
142776 GTTTGAATGG
* * *
142786 TTTAGATACTTATTTTGACATAAAATAC
1 TTTAGGTACTTATTTTGACAAAAAATAA
*
142814 TTTAGGTACTTATTTTAACAAAAAATAA
1 TTTAGGTACTTATTTTGACAAAAAATAA
142842 TTTAGGTACTTATTTTGACA
1 TTTAGGTACTTATTTTGACA
142862 CTGGTTTCGC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.43
Consensus pattern (28 bp):
TTTAGGTACTTATTTTGACAAAAAATAA
Found at i:149182 original size:3 final size:3
Alignment explanation
Indices: 149169--149213 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
149159 TCCCGACTGA
149169 AAG AA- AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
149214 TTATCATGAG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:151817 original size:60 final size:60
Alignment explanation
Indices: 151707--151832 Score: 155
Period size: 60 Copynumber: 2.1 Consensus size: 60
151697 AGTCAGGTGG
* * * ** *
151707 CCATTTTGTAAATTTTAATAGTTGAAGAACTTAATAAAGCAATATTCTATAGTTGAA-GGA
1 CCATTTTATAAATTTTAATAGTCGAAGAACTTAATAAAACAATACCCTATAG-TCAAGGGA
* * *
151767 CCATTTTATAACTTTTAATAGTCGAAGGACTTAATAAAACATTACCCTATAGTCAAGGGA
1 CCATTTTATAAATTTTAATAGTCGAAGAACTTAATAAAACAATACCCTATAGTCAAGGGA
151827 CCATTT
1 CCATTT
151833 GCTTACTTTA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 3 0.05
60 53 0.95
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (60 bp):
CCATTTTATAAATTTTAATAGTCGAAGAACTTAATAAAACAATACCCTATAGTCAAGGGA
Found at i:165668 original size:6 final size:6
Alignment explanation
Indices: 165659--166370 Score: 551
Period size: 6 Copynumber: 118.8 Consensus size: 6
165649 TTTAATCTCC
* * * * *
165659 TCTTCT TCTTCT TCTTCT TCTCCT TCTCCT TCTCCT TCTCCT TCTCCT
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT
* * * * *
165707 TCTCCT TCTCCT TCTTC- CCATTCT TC-TCAT TCTTCT CCTTCT CCTTCT
1 TCTTCT TCTTCT TCTTCT TC-TTCT TCTTC-T TCTTCT TCTTCT TCTTCT
* * * * *
165755 TCTTCT CCTTCT CCTTCT CCTTCT TCTCCT TC-TCAT TCTTCT ACTTCT
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTC-T TCTTCT TCTTCT
* * * * *
165803 CCTTCT CCTTCT TCTTCT CCTTCT TCTTCT TCTCCT TCTTCT CCTTC-
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT
* * * * * * *
165850 TCCTCT TCTCCT TCTCCT TCTTCT CCTTCT CCTTCT TCTCCT TCTCCT
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT
* * * *
165898 TCTCCT TCTTCT CCTTCT TCTTCT CCTTC- TCATTCT CCTTCT TCTTCT
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TC-TTCT TCTTCT TCTTCT
* * * * * * *
165946 TCTTCT TCTTCT CCTTCT CCTCCT TCTCCT TCTCCT CCTTCT CCTTCT
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT
* * * * * * * * * *
165994 CCTTCT CCTCCT TCTCCT CCTTCT CCTCCT TC-TCC TCATTCT CCTCCT
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TC-TTCT TCTTCT
* * * * * * *
166042 TCTCCT CCTTCT CCTCCT TCTCCT CCTTCT CCTTCT TCTTCT TCTTCT
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT
* * * * * * * * *
166090 CCTTCCT CCTT-T CCTTCT TCTCCT CCTTCT CCTCCT TCTCCT CCTTCT
1 TCTT-CT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT
* * * * *
166138 TCTCCT TCTTCCT TCTTCT CCTTCT TCTCCT TCTTCT CCTTCT TCTCCT
1 TCTTCT TCTT-CT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT
* * *
166187 TCTTCT CCTTCT TCTCCT TCTTCT TCTTCT TCTCCT TCTTCT TCTTCT
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT
* * * * *
166235 TCTTCT CCTTCT TCTT-T TCCTTCT TC-TCT TCTCCT CCTTCT CCTCCT
1 TCTTCT TCTTCT TCTTCT T-CTTCT TCTTCT TCTTCT TCTTCT TCTTCT
* * * * *
166282 TCTCCT TCTTCT CCTTCT TCTCCT TCTTCT CCTTCT TCTCCT TCTTCT
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT
166330 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTC
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTC
166371 ACGCTAAAAG
Statistics
Matches: 590, Mismatches: 99, Indels: 34
0.82 0.14 0.05
Matches are distributed among these distances:
5 23 0.04
6 544 0.92
7 23 0.04
ACGTcount: A:0.01, C:0.45, G:0.00, T:0.54
Consensus pattern (6 bp):
TCTTCT
Found at i:165673 original size:9 final size:9
Alignment explanation
Indices: 165659--166370 Score: 551
Period size: 9 Copynumber: 79.2 Consensus size: 9
165649 TTTAATCTCC
165659 TCTTCTTCT
1 TCTTCTTCT
165668 TCTTCTTCT
1 TCTTCTTCT
*
165677 TCTCCTTCT
1 TCTTCTTCT
* *
165686 CCTTCTCCT
1 TCTTCTTCT
*
165695 TCTCCTTCT
1 TCTTCTTCT
* *
165704 CCTTCTCCT
1 TCTTCTTCT
*
165713 TCTCCTTCT
1 TCTTCTTCT
*
165722 TC-CCATTCT
1 TCTTC-TTCT
165731 TC-TCATTCT
1 TCTTC-TTCT
*
165740 TCTCCTTCT
1 TCTTCTTCT
*
165749 CCTTCTTCT
1 TCTTCTTCT
*
165758 TCTCCTTCT
1 TCTTCTTCT
* *
165767 CCTTCTCCT
1 TCTTCTTCT
*
165776 TCTTCTCCT
1 TCTTCTTCT
165785 TC-TCATTCT
1 TCTTC-TTCT
*
165794 TCTACTTCT
1 TCTTCTTCT
* *
165803 CCTTCTCCT
1 TCTTCTTCT
165812 TCTTCTTCT
1 TCTTCTTCT
*
165821 CCTTCTTCT
1 TCTTCTTCT
*
165830 TCTTCTCCT
1 TCTTCTTCT
*
165839 TCTTCTCCT
1 TCTTCTTCT
*
165848 TC-TCCTCT
1 TCTTCTTCT
*
165856 TCTCCTTCT
1 TCTTCTTCT
*
165865 CCTTCTTCT
1 TCTTCTTCT
* *
165874 CCTTCTCCT
1 TCTTCTTCT
*
165883 TCTTCTCCT
1 TCTTCTTCT
*
165892 TCTCCTTCT
1 TCTTCTTCT
*
165901 CCTTCTTCT
1 TCTTCTTCT
*
165910 CCTTCTTCT
1 TCTTCTTCT
*
165919 TCTCCTTC-
1 TCTTCTTCT
*
165927 TCATTCTCCT
1 TC-TTCTTCT
165937 TCTTCTTCT
1 TCTTCTTCT
165946 TCTTCTTCT
1 TCTTCTTCT
*
165955 TCTCCTTCT
1 TCTTCTTCT
* *
165964 CCTCCTTCT
1 TCTTCTTCT
* *
165973 CCTTCTCCT
1 TCTTCTTCT
* *
165982 CCTTCTCCT
1 TCTTCTTCT
*
165991 TCTCCTTCT
1 TCTTCTTCT
* *
166000 CCTCCTTCT
1 TCTTCTTCT
* *
166009 CCTCCTTCT
1 TCTTCTTCT
* *
166018 CCTCCTTC-
1 TCTTCTTCT
*
166026 TCCTCATTCT
1 TCTTC-TTCT
* *
166036 CCTCCTTCT
1 TCTTCTTCT
* *
166045 CCTCCTTCT
1 TCTTCTTCT
* *
166054 CCTCCTTCT
1 TCTTCTTCT
* *
166063 CCTCCTTCT
1 TCTTCTTCT
*
166072 CCTTCTTCT
1 TCTTCTTCT
166081 TCTTCTTCT
1 TCTTCTTCT
* *
166090 CCTTCCTCCT
1 TCTT-CTTCT
*
166100 T-TCCTTCT
1 TCTTCTTCT
* *
166108 TCTCCTCCT
1 TCTTCTTCT
* *
166117 TCTCCTCCT
1 TCTTCTTCT
* *
166126 TCTCCTCCT
1 TCTTCTTCT
*
166135 TCTTCTCCT
1 TCTTCTTCT
166144 TCTTCCTTCT
1 TCTT-CTTCT
*
166154 TCTCCTTCT
1 TCTTCTTCT
*
166163 TCTCCTTCT
1 TCTTCTTCT
*
166172 TCTCCTTCT
1 TCTTCTTCT
*
166181 TCTCCTTCT
1 TCTTCTTCT
*
166190 TCTCCTTCT
1 TCTTCTTCT
*
166199 TCTCCTTCT
1 TCTTCTTCT
166208 TCTTCTTCT
1 TCTTCTTCT
*
166217 TCTCCTTCT
1 TCTTCTTCT
166226 TCTTCTTCT
1 TCTTCTTCT
*
166235 TCTTCTCCT
1 TCTTCTTCT
166244 TCTTCTT-T
1 TCTTCTTCT
166252 TCCTTCTTC-
1 T-CTTCTTCT
*
166261 TCTTCTCCT
1 TCTTCTTCT
* *
166270 CCTTCTCCT
1 TCTTCTTCT
* *
166279 CCTTCTCCT
1 TCTTCTTCT
*
166288 TCTTCTCCT
1 TCTTCTTCT
*
166297 TCTTCTCCT
1 TCTTCTTCT
*
166306 TCTTCTCCT
1 TCTTCTTCT
*
166315 TCTTCTCCT
1 TCTTCTTCT
166324 TCTTCTTCT
1 TCTTCTTCT
166333 TCTTCTTCT
1 TCTTCTTCT
166342 TCTTCTTCT
1 TCTTCTTCT
166351 TCTTCTTCT
1 TCTTCTTCT
166360 TCTTCTTCT
1 TCTTCTTCT
166369 TC
1 TC
166371 ACGCTAAAAG
Statistics
Matches: 604, Mismatches: 84, Indels: 30
0.84 0.12 0.04
Matches are distributed among these distances:
8 27 0.04
9 560 0.93
10 17 0.03
ACGTcount: A:0.01, C:0.45, G:0.00, T:0.54
Consensus pattern (9 bp):
TCTTCTTCT
Found at i:165690 original size:18 final size:18
Alignment explanation
Indices: 165654--166370 Score: 678
Period size: 18 Copynumber: 39.9 Consensus size: 18
165644 TTAATTTTAA
*
165654 TCTCC-TCTTCTTCTTCT
1 TCTCCTTCTCCTTCTTCT
* *
165671 TCTTCTTCTCCTTCTCCT
1 TCTCCTTCTCCTTCTTCT
*
165689 TCTCCTTCTCCTTCTCCT
1 TCTCCTTCTCCTTCTTCT
165707 TCTCCTTCTCCTTCTTC-
1 TCTCCTTCTCCTTCTTCT
* *
165724 -C-CATTCTTC-TCATTCT
1 TCTCCTTCTCCTTC-TTCT
165740 TCTCCTTCTCCTTCTTCT
1 TCTCCTTCTCCTTCTTCT
165758 TCTCCTTCTCCTTCTCCTTCT
1 TCTCCTTCTCC-T-T-CTTCT
*
165779 TCTCCTTCTCATTCTTCTACT
1 TCTCCTTCTC---CTTCTTCT
165800 TCTCCTTCTCCTTCTTCT
1 TCTCCTTCTCCTTCTTCT
*
165818 TCTCCTTCTTCTTCTTCT
1 TCTCCTTCTCCTTCTTCT
* *
165836 CCTTCTTCTCCTTCTCCTCT
1 TCTCCTTCTCCTTCT--TCT
165856 TCTCCTTCT-C--CTTCT
1 TCTCCTTCTCCTTCTTCT
165871 TCTCCTTCT-C--CTTCT
1 TCTCCTTCTCCTTCTTCT
165886 TCTCCTTCTCCTTC-TC-
1 TCTCCTTCTCCTTCTTCT
*
165902 -CTTCTTCTCCTTCTTCT
1 TCTCCTTCTCCTTCTTCT
* *
165919 TCTCCTTCTCATTCTCCT
1 TCTCCTTCTCCTTCTTCT
* *
165937 TCTTCTTCTTCTTCTTCT
1 TCTCCTTCTCCTTCTTCT
*
165955 TCTCCTTCTCCTCCTTCT
1 TCTCCTTCTCCTTCTTCT
* * * *
165973 CCTTCTCCTCCTTCTCCT
1 TCTCCTTCTCCTTCTTCT
*
165991 TCTCCTTCTCCTCCTTCT
1 TCTCCTTCTCCTTCTTCT
* *
166009 CCTCCTTCTCCTCCTTCT
1 TCTCCTTCTCCTTCTTCT
* * *
166027 CCTCATTCTCCTCCTTCT
1 TCTCCTTCTCCTTCTTCT
* *
166045 CCTCCTTCTCCTCCTTCT
1 TCTCCTTCTCCTTCTTCT
*
166063 CCTCCTTCTCCTTCTTCT
1 TCTCCTTCTCCTTCTTCT
* *
166081 TCTTCTTCTCCTTCCTCCTT
1 TCTCCTTCTCCTT-CTTC-T
* *
166101 TCCTTCTTCTCCTCCTTCT
1 T-CTCCTTCTCCTTCTTCT
* *
166120 CCTCCTTCTCCTCCTTCT
1 TCTCCTTCTCCTTCTTCT
166138 TCTCCTTCTTCCTTCTTCT
1 TCTCCTTC-TCCTTCTTCT
* *
166157 CCTTCTTCTCCTTCTTCT
1 TCTCCTTCTCCTTCTTCT
* *
166175 CCTTCTTCTCCTTCTTCT
1 TCTCCTTCTCCTTCTTCT
* *
166193 CCTTCTTCTCCTTCTTCT
1 TCTCCTTCTCCTTCTTCT
*
166211 TCTTCTTCTCCTTCTTCT
1 TCTCCTTCTCCTTCTTCT
166229 TCTTCTTCTTCTCCTTCTTCT
1 TC-TC--CTTCTCCTTCTTCT
* *
166250 TTTCCTTCTTC-TCTTCT
1 TCTCCTTCTCCTTCTTCT
*
166267 CCTCCTTCTCC-TC--CT
1 TCTCCTTCTCCTTCTTCT
* *
166282 TCTCCTTCTTCTCCTTCT
1 TCTCCTTCTCCTTCTTCT
* *
166300 TCTCCTTCTTCTCCTTCT
1 TCTCCTTCTCCTTCTTCT
*
166318 TCTCCTTCTTCTTCTTCT
1 TCTCCTTCTCCTTCTTCT
* *
166336 TCTTCTTCTTCTTCTTCT
1 TCTCCTTCTCCTTCTTCT
* *
166354 TCTTCTTCTTCTTCTTC
1 TCTCCTTCTCCTTCTTC
166371 ACGCTAAAAG
Statistics
Matches: 605, Mismatches: 65, Indels: 59
0.83 0.09 0.08
Matches are distributed among these distances:
14 2 0.00
15 59 0.10
16 5 0.01
17 25 0.04
18 414 0.68
19 24 0.04
20 18 0.03
21 55 0.09
22 1 0.00
23 1 0.00
24 1 0.00
ACGTcount: A:0.01, C:0.45, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTCCTTCTCCTTCTTCT
Found at i:167915 original size:14 final size:14
Alignment explanation
Indices: 167876--167936 Score: 70
Period size: 14 Copynumber: 4.4 Consensus size: 14
167866 CCTTGCATAG
*
167876 CTCGCTCGGATAG-C
1 CTCGGTCGGAT-GCC
*
167890 CTCGCTCGGATGCC
1 CTCGGTCGGATGCC
167904 CTCGGTCGGATGCC
1 CTCGGTCGGATGCC
* *
167918 CACGGTCGGATGGC
1 CTCGGTCGGATGCC
167932 CTCGG
1 CTCGG
167937 ATGTCCAGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
13 1 0.02
14 41 0.98
ACGTcount: A:0.10, C:0.36, G:0.34, T:0.20
Consensus pattern (14 bp):
CTCGGTCGGATGCC
Found at i:169932 original size:16 final size:15
Alignment explanation
Indices: 169907--169940 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
169897 AGGGGTGTTT
169907 AAATTCGGGTACCTG
1 AAATTCGGGTACCTG
*
169922 AAATGTCGGGTATCTG
1 AAAT-TCGGGTACCTG
169938 AAA
1 AAA
169941 CTTTTGGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (15 bp):
AAATTCGGGTACCTG
Found at i:175642 original size:21 final size:21
Alignment explanation
Indices: 175600--175639 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
175590 AATAATATAA
* *
175600 AATTAATAATTATGACTAAAT
1 AATTAATAATTATAAATAAAT
175621 AATTAAT-ATTATAAATAAA
1 AATTAATAATTATAAATAAA
175640 ATATTTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (21 bp):
AATTAATAATTATAAATAAAT
Done.