Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006245.1 Hibiscus syriacus cultivar Beakdansim tig00014887_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: 131671
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:6285 original size:13 final size:13
Alignment explanation
Indices: 6267--6296 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
6257 GAGATGAAAG
6267 AAAGTAAAAGTGA
1 AAAGTAAAAGTGA
6280 AAAGTAAAAGTGA
1 AAAGTAAAAGTGA
6293 AAAG
1 AAAG
6297 AAGATAAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.23, T:0.13
Consensus pattern (13 bp):
AAAGTAAAAGTGA
Found at i:11562 original size:18 final size:20
Alignment explanation
Indices: 11539--11587 Score: 84
Period size: 18 Copynumber: 2.5 Consensus size: 20
11529 AAGTTAGTGA
11539 AAATGGAATGACT-ATGT-G
1 AAATGGAATGACTGATGTGG
11557 AAATGGAATGACTGATGTGG
1 AAATGGAATGACTGATGTGG
11577 AAATGGAATGA
1 AAATGGAATGA
11588 TGGTGATGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.45
19 4 0.14
20 12 0.41
ACGTcount: A:0.41, C:0.04, G:0.31, T:0.24
Consensus pattern (20 bp):
AAATGGAATGACTGATGTGG
Found at i:16754 original size:21 final size:21
Alignment explanation
Indices: 16729--16784 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
16719 TTTACACTTG
16729 ATGTATCGATGCACCTTGACT
1 ATGTATCGATGCACCTTGACT
*
16750 ATGTATCGATGCATCTTGACT
1 ATGTATCGATGCACCTTGACT
*
16771 ATGCATCGATGCAC
1 ATGTATCGATGCAC
16785 GCACGCTCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (21 bp):
ATGTATCGATGCACCTTGACT
Found at i:28342 original size:21 final size:21
Alignment explanation
Indices: 28316--28360 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
28306 GATTTCTGGG
* *
28316 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
28337 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
28358 CAA
1 CAA
28361 ACGGCAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:29197 original size:31 final size:31
Alignment explanation
Indices: 29159--29312 Score: 256
Period size: 31 Copynumber: 5.0 Consensus size: 31
29149 GGGTCGAGGG
29159 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
29190 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
29221 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
* * *
29252 TTACCTATGTCCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGAACATATGGACTGT
*
29283 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGAA-CATATGGACTG
29313 GTCCTTCGGG
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
31 115 0.99
32 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGAACATATGGACTGT
Found at i:32303 original size:21 final size:21
Alignment explanation
Indices: 32277--32321 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
32267 GATTTCTGGG
* *
32277 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
32298 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
32319 CAA
1 CAA
32322 ACGGCAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:33160 original size:31 final size:31
Alignment explanation
Indices: 33122--33275 Score: 256
Period size: 31 Copynumber: 5.0 Consensus size: 31
33112 GGGTCGAGGG
33122 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
33153 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
33184 TTACCTATGTTCTTCGGAACATATGGACTGT
1 TTACCTATGTTCTTCGGAACATATGGACTGT
* * *
33215 TTACCTATGTCCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGAACATATGGACTGT
*
33246 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGAA-CATATGGACTG
33276 GTCCTTCGGG
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
31 115 0.99
32 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGAACATATGGACTGT
Found at i:36652 original size:22 final size:22
Alignment explanation
Indices: 36625--36676 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
36615 AAATACGATA
*
36625 TGAACAGTGCTGAACAATATAG
1 TGAACAGTGCTGAACAATACAG
* * * *
36647 TGAACAATGTTGAACAGTACCG
1 TGAACAGTGCTGAACAATACAG
36669 TGAACAGT
1 TGAACAGT
36677 TCTACAATGC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (22 bp):
TGAACAGTGCTGAACAATACAG
Found at i:41300 original size:21 final size:21
Alignment explanation
Indices: 41276--41316 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
41266 AAGCAATATT
*
41276 GTGCATCGACGCACTGCTACG
1 GTGCATCAACGCACTGCTACG
*
41297 GTGCATCAATGCACTGCTAC
1 GTGCATCAACGCACTGCTAC
41317 AGTGACTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.32, G:0.24, T:0.22
Consensus pattern (21 bp):
GTGCATCAACGCACTGCTACG
Found at i:45362 original size:30 final size:30
Alignment explanation
Indices: 45322--45393 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
45312 AAATAGGATA
*
45322 TCTCGACGTCTTTGCATGGAAGCTTGGAGC
1 TCTCGGCGTCTTTGCATGGAAGCTTGGAGC
45352 TCTCGGCGTCTTTGCATGGAAGCTTGGAGC
1 TCTCGGCGTCTTTGCATGGAAGCTTGGAGC
*
45382 TCTCGGCATCTT
1 TCTCGGCGTCTT
45394 CAACACAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.14, C:0.25, G:0.29, T:0.32
Consensus pattern (30 bp):
TCTCGGCGTCTTTGCATGGAAGCTTGGAGC
Found at i:46533 original size:14 final size:14
Alignment explanation
Indices: 46509--46595 Score: 61
Period size: 14 Copynumber: 6.2 Consensus size: 14
46499 ACCTGGTTAC
*
46509 TTAACTTTAATGAT
1 TTAACTATAATGAT
* *
46523 TTAA-TAATAATTAC
1 TTAACT-ATAATGAT
*
46537 TTAACTTTAATGAT
1 TTAACTATAATGAT
*
46551 TTAACTTTAATGAT
1 TTAACTATAATGAT
* *
46565 TTAA-TAATAATTAC
1 TTAACT-ATAATGAT
* *
46579 TTGACTTTAATGAT
1 TTAACTATAATGAT
46593 TTA
1 TTA
46596 TATTTAATGA
Statistics
Matches: 55, Mismatches: 14, Indels: 8
0.71 0.18 0.10
Matches are distributed among these distances:
13 2 0.04
14 51 0.93
15 2 0.04
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.48
Consensus pattern (14 bp):
TTAACTATAATGAT
Found at i:46568 original size:28 final size:27
Alignment explanation
Indices: 46509--46606 Score: 81
Period size: 28 Copynumber: 3.5 Consensus size: 27
46499 ACCTGGTTAC
* * *
46509 TTAACTTTAATGATTTAA-TAATAATTAC
1 TTAA-TTTAATGATTTAACT-TTAATGAT
46537 TTAACTTTAATGATTTAACTTTAATGAT
1 TTAA-TTTAATGATTTAACTTTAATGAT
* * * *
46565 TTAATAATAATTACTTGACTTTAATGAT
1 TTAAT-TTAATGATTTAACTTTAATGAT
46593 TTATATTTAATGAT
1 TTA-ATTTAATGAT
46607 ATAATAATAG
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
27 1 0.02
28 53 0.93
29 3 0.05
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (27 bp):
TTAATTTAATGATTTAACTTTAATGAT
Found at i:46568 original size:42 final size:42
Alignment explanation
Indices: 46509--46615 Score: 180
Period size: 42 Copynumber: 2.5 Consensus size: 42
46499 ACCTGGTTAC
46509 TTAACTTTAATGATTTAATAATAATTACTTAACTTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTAACTTTAATGAT
*
46551 TTAACTTTAATGATTTAATAATAATTACTTGACTTTAATGAT
1 TTAACTTTAATGATTTAATAATAATTACTTAACTTTAATGAT
*
46593 TTATA-TTTAATGATATAATAATA
1 TTA-ACTTTAATGATTTAATAATA
46616 GTAAATATAT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
42 61 0.98
43 1 0.02
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.48
Consensus pattern (42 bp):
TTAACTTTAATGATTTAATAATAATTACTTAACTTTAATGAT
Found at i:49088 original size:32 final size:31
Alignment explanation
Indices: 49041--49103 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
49031 GGTCCAAAGC
* *
49041 TTATTTCAAATTATGTAACAACATATACATCA
1 TTATTTCAAAGTATGTAACAAAATATA-ATCA
* *
49073 TTATTTCGAAGTATGTAATAAAATATAATCA
1 TTATTTCAAAGTATGTAACAAAATATAATCA
49104 CAAAATTACT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.38
Consensus pattern (31 bp):
TTATTTCAAAGTATGTAACAAAATATAATCA
Found at i:49574 original size:27 final size:29
Alignment explanation
Indices: 49536--49600 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 29
49526 CCCCGTGAAT
*
49536 TCCCAC-GTCCAGCC-CCACATGCAGAGC
1 TCCCACTGTCCAGCCGCCACATGCACAGC
49563 TCCCACTG-CCAGCCAGGGCCACATGCACAGC
1 TCCCACTGTCCAGCC---GCCACATGCACAGC
49594 TCCCACT
1 TCCCACT
49601 TTTAGCAGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 12 0.38
28 1 0.03
31 19 0.59
ACGTcount: A:0.22, C:0.48, G:0.18, T:0.12
Consensus pattern (29 bp):
TCCCACTGTCCAGCCGCCACATGCACAGC
Found at i:50243 original size:20 final size:21
Alignment explanation
Indices: 50200--50244 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
50190 TTAATAAAAA
*
50200 TTTAATTAAAAAATTATTATT
1 TTTAATTAAAAAATTAATATT
* *
50221 TTTATTTAAAATATTAATATT
1 TTTAATTAAAAAATTAATATT
50242 TTT
1 TTT
50245 TAATAAATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTAATTAAAAAATTAATATT
Found at i:50251 original size:21 final size:20
Alignment explanation
Indices: 50200--50251 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
50190 TTAATAAAAA
*
50200 TTTAATTAAAAAATTATTATT
1 TTTAA-TAAAAAATTAATATT
* *
50221 TTTATTTAAAATATTAATATTT
1 TTTA-ATAAAAAATTAATA-TT
50243 TTTAATAAA
1 TTTAATAAA
50252 TCTCGTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTAATAAAAAATTAATATT
Found at i:50378 original size:18 final size:18
Alignment explanation
Indices: 50348--50396 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
50338 GGATATATTA
*
50348 ATAAAACTAATAAAA-CG
1 ATAAAAATAATAAAATCG
*
50365 CTAAATAATAATAAAATCG
1 ATAAA-AATAATAAAATCG
50384 ATAAAAATAATAA
1 ATAAAAATAATAA
50397 TATTTCTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 4 0.15
18 17 0.63
19 6 0.22
ACGTcount: A:0.65, C:0.08, G:0.04, T:0.22
Consensus pattern (18 bp):
ATAAAAATAATAAAATCG
Found at i:51784 original size:15 final size:15
Alignment explanation
Indices: 51764--51793 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51754 AACACTATTT
51764 TACTGAATCAGTCAG
1 TACTGAATCAGTCAG
*
51779 TACTGAATCATTCAG
1 TACTGAATCAGTCAG
51794 AGGTACGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (15 bp):
TACTGAATCAGTCAG
Found at i:57447 original size:22 final size:22
Alignment explanation
Indices: 57422--57497 Score: 116
Period size: 22 Copynumber: 3.5 Consensus size: 22
57412 CTGTCCGGGC
57422 CGACCGAGCCGCCCGATTGATT
1 CGACCGAGCCGCCCGATTGATT
57444 CGACCGAGCCGCCCGATTGATT
1 CGACCGAGCCGCCCGATTGATT
* * *
57466 CGATCGAGCCACCTGATTGATT
1 CGACCGAGCCGCCCGATTGATT
*
57488 CGATCGAGCC
1 CGACCGAGCC
57498 ACCTAATCGA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.20, C:0.34, G:0.26, T:0.20
Consensus pattern (22 bp):
CGACCGAGCCGCCCGATTGATT
Found at i:57518 original size:22 final size:22
Alignment explanation
Indices: 57493--57539 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
57483 TGATTCGATC
*
57493 GAGCCACCTAATCGAGCCGACT
1 GAGCCACCCAATCGAGCCGACT
* *
57515 GAGCCGCCCGATCGAGCCGACT
1 GAGCCACCCAATCGAGCCGACT
57537 GAG
1 GAG
57540 TCGCTCGATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.36, G:0.30, T:0.11
Consensus pattern (22 bp):
GAGCCACCCAATCGAGCCGACT
Found at i:57548 original size:22 final size:22
Alignment explanation
Indices: 57503--57566 Score: 92
Period size: 22 Copynumber: 2.9 Consensus size: 22
57493 GAGCCACCTA
57503 ATCGAGCCGACTGAGCCGCCCG
1 ATCGAGCCGACTGAGCCGCCCG
* *
57525 ATCGAGCCGACTGAGTCGCTCG
1 ATCGAGCCGACTGAGCCGCCCG
*
57547 ATCGAGCCGAGCTGACCCGC
1 ATCGAGCCGA-CTGAGCCGC
57567 GTTGACTGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 30 0.81
23 7 0.19
ACGTcount: A:0.19, C:0.38, G:0.31, T:0.12
Consensus pattern (22 bp):
ATCGAGCCGACTGAGCCGCCCG
Found at i:60559 original size:19 final size:19
Alignment explanation
Indices: 60535--60582 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
60525 TTTAGTGTAT
60535 ATCGATGCACAGGAAGTGC
1 ATCGATGCACAGGAAGTGC
60554 ATCGATGCACAGGAAGTGC
1 ATCGATGCACAGGAAGTGC
60573 ATCGATGCAC
1 ATCGATGCAC
60583 CCCTTAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.31, C:0.23, G:0.29, T:0.17
Consensus pattern (19 bp):
ATCGATGCACAGGAAGTGC
Found at i:66413 original size:38 final size:38
Alignment explanation
Indices: 66360--66446 Score: 147
Period size: 38 Copynumber: 2.3 Consensus size: 38
66350 TATAATTAAT
*
66360 ATTATAAGATATTATGTTTCTTTTATTGATCTAGGGTA
1 ATTATAAGATATTATGTTTCTTTTATTGATATAGGGTA
* *
66398 ATTATAAGATTTTATGTTTCTTTTATTGATATAGGGTG
1 ATTATAAGATATTATGTTTCTTTTATTGATATAGGGTA
66436 ATTATAAGATA
1 ATTATAAGATA
66447 ATATTTATTC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.49
Consensus pattern (38 bp):
ATTATAAGATATTATGTTTCTTTTATTGATATAGGGTA
Found at i:72949 original size:3 final size:3
Alignment explanation
Indices: 72941--73067 Score: 186
Period size: 3 Copynumber: 43.0 Consensus size: 3
72931 TTAATATATT
* *
72941 TAA TAA TAA -AA TAA TAA TAA TAA TAA AAA TAA TAA TAA TAA TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
72988 TAA TGA TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
73036 TAA TGA TAA TAA T-A TAT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
73068 AATGGATAAA
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
2 4 0.04
3 106 0.96
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:73561 original size:119 final size:119
Alignment explanation
Indices: 73320--74126 Score: 1348
Period size: 119 Copynumber: 6.9 Consensus size: 119
73310 TCTTGATGAG
*
73320 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TTA
1 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
* * *** *
73381 C-CGGGTAATGTTGATCCATCAA-ATGATGAATTCAAGCAAAAGGTTGAACAAA
66 CTCTGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAA
* *
73433 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTGTGAACTCTTC
1 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
* *
73498 CTCTGGAAACGATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAG
66 CTCTGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAA
73552 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
1 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
*
73617 CTCTGGAAACAATGATCCATCAATTTGATGAATTTAAGCAAAAGGTTGAACAAA
66 CTCTGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAA
73671 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
1 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
73736 CTCTGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAA
66 CTCTGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAA
73790 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
1 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
*
73855 CTCTGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAG
66 CTCTGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAA
*
73909 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAAC-CTT-
1 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
*
73969 CTCTGGAAACAATGATCCATCAATTTGATGAATTTAAGCAAAAGGTTGAACAAA
66 CTCTGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAA
* *
74023 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCGGATGACGAGTTCTTCTCATTATGAACTCTTC
1 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
* *
74088 CTCTGAAAATGAAATGATCCATCAATTTGATGAATTCAA
66 CTCTGGAAA--CAATGATCCATCAATTTGATGAATTCAA
74127 ATCTTTGCTA
Statistics
Matches: 658, Mismatches: 23, Indels: 18
0.94 0.03 0.03
Matches are distributed among these distances:
113 36 0.05
114 88 0.13
115 3 0.00
116 40 0.06
117 23 0.03
118 20 0.03
119 422 0.64
121 26 0.04
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.38
Consensus pattern (119 bp):
TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
CTCTGGAAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACAAA
Found at i:75319 original size:52 final size:53
Alignment explanation
Indices: 74755--75323 Score: 906
Period size: 52 Copynumber: 10.9 Consensus size: 53
74745 TCTGTCTAAT
* * * *
74755 CAGATCAGATATCTCAAAAAAACACTTCCAGAAAATGCTATGTTCTG-TCCAAC
1 CAGATCAGATAACTC-AAAGAACACTTCCAGAAGATGCTATGTTATGATCCAAC
* *
74808 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATATTCTG-TCCAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGATCCAAC
* * *
74860 CAGATCAGATAACTCAAAAAACACTTCCAGAAAATGCTATGTTCTG-TCCAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGATCCAAC
* *
74912 CAGATCAGATAACTCAAAGAACACTTCCAGAAAATGCTATGTTCTG-TCCAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGATCCAAC
*
74964 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGATCCAAC
75016 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGATCCAAC
* * *
75068 CAGATCAGATAACTCAAAAAACACTTCCAGAAAATGCTATGTTCTG-TCCAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGATCCAAC
*
75120 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGATCCAAC
75172 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGATCCAAC
75224 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGATCCAAC
*
75276 CAGATCAGATAACTCAAAGAACACTTCCAGACGATGCTATGTTATGAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT
75324 GCTTTTCCAT
Statistics
Matches: 492, Mismatches: 21, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
51 1 0.00
52 475 0.97
53 16 0.03
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.23
Consensus pattern (53 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGATCCAAC
Found at i:76314 original size:6 final size:6
Alignment explanation
Indices: 76303--76368 Score: 54
Period size: 6 Copynumber: 11.7 Consensus size: 6
76293 TTGACCCCTT
*
76303 TTTTTC TTTTTC TTTTTC TTCTTT- TCCTTTC -TTTT- TTTTTC -TTTTC
1 TTTTTC TTTTTC TTTTTC TT-TTTC T-TTTTC TTTTTC TTTTTC TTTTTC
*
76349 TTTCTC TTTTT- TTTTT- TTTT
1 TTTTTC TTTTTC TTTTTC TTTT
76369 CTTCAAGCAT
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
5 21 0.42
6 26 0.52
7 3 0.06
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:76324 original size:15 final size:14
Alignment explanation
Indices: 76300--76365 Score: 73
Period size: 14 Copynumber: 4.6 Consensus size: 14
76290 ACATTGACCC
76300 CTTTTTTTCTTTTT
1 CTTTTTTTCTTTTT
*
76314 CTTTTTCTTCTTTTC
1 CTTTTT-TTCTTTTT
76329 CTTTCTTTT-TTTTT
1 CTTT-TTTTCTTTTT
76343 CTTTTCTTTCTCTTTT
1 CTTTT-TTTCT-TTTT
76359 -TTTTTTT
1 CTTTTTTT
76366 TTTCTTCAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
13 1 0.02
14 20 0.44
15 18 0.40
16 6 0.13
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
CTTTTTTTCTTTTT
Found at i:76332 original size:29 final size:29
Alignment explanation
Indices: 76299--76371 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
76289 CACATTGACC
*
76299 CCTTTTTTTCTTTTTCTTTTTC-TTCTTTT
1 CCTTTTTTT-TTTTTCTTTTTCTTTCTCTT
76328 CCTTTCTTTTTTTTTC-TTTTCTTTCTCTT
1 CCTTT-TTTTTTTTTCTTTTTCTTTCTCTT
76357 --TTTTTTTTTTTTCTT
1 CCTTTTTTTTTTTTCTT
76372 CAAGCATAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
26 10 0.25
27 4 0.10
28 5 0.12
29 17 0.43
30 4 0.10
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (29 bp):
CCTTTTTTTTTTTTCTTTTTCTTTCTCTT
Found at i:76333 original size:25 final size:26
Alignment explanation
Indices: 76305--76372 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
76295 GACCCCTTTT
76305 TTTCTTTTTCTTTTTCTTCT-TTTC-C
1 TTTCTTTTT-TTTTTCTTCTCTTTCTC
*
76330 TTTC-TTTTTTTTTCTTTTCTTTCTC
1 TTTCTTTTTTTTTTCTTCTCTTTCTC
*
76355 TTTTTTTTTTTTTTCTTC
1 TTTCTTTTTTTTTTCTTC
76373 AAGCATAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 9 0.24
24 8 0.22
25 8 0.22
26 12 0.32
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (26 bp):
TTTCTTTTTTTTTTCTTCTCTTTCTC
Found at i:76335 original size:19 final size:18
Alignment explanation
Indices: 76311--76371 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
76301 TTTTTTTCTT
76311 TTTCTTTTTCTTCTTTTCC
1 TTTCTTTTTCTTCTTTT-C
*
76330 TTTCTTTTTTTTTCTTTTC
1 TTTC-TTTTTCTTCTTTTC
*
76349 TTTCTCTTTT-TT-TTTTT
1 TTTCT-TTTTCTTCTTTTC
76366 TTTCTT
1 TTTCTT
76372 CAAGCATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
16 1 0.03
17 9 0.24
18 3 0.08
19 13 0.34
20 12 0.32
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTCTTTTTCTTCTTTTC
Found at i:76336 original size:10 final size:10
Alignment explanation
Indices: 76311--76371 Score: 63
Period size: 10 Copynumber: 6.2 Consensus size: 10
76301 TTTTTTTCTT
76311 TTTCTTTTTC
1 TTTCTTTTTC
*
76321 -TTCTTTTCC
1 TTTCTTTTTC
*
76330 TTTCTTTTTT
1 TTTCTTTTTC
76340 TTTC-TTTTC
1 TTTCTTTTTC
*
76349 TTTCTCTTTTT
1 TTTCT-TTTTC
*
76360 TTTTTTTTTC
1 TTTCTTTTTC
76370 TT
1 TT
76372 CAAGCATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
9 16 0.39
10 17 0.41
11 8 0.20
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:76338 original size:20 final size:19
Alignment explanation
Indices: 76304--76371 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
76294 TGACCCCTTT
*
76304 TTTTCTTTTTCTTTTTCTTC
1 TTTTCTTTCT-TTTTTCTTC
*
76324 TTTTCCTTTCTTTTTTTTTC
1 TTTT-CTTTCTTTTTTCTTC
76344 TTTTCTTTCTCTTTTT-TT-
1 TTTTCTTTCT-TTTTTCTTC
76362 TTTT-TTTCTT
1 TTTTCTTTCTT
76372 CAAGCATAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
16 1 0.02
17 5 0.11
18 4 0.09
19 8 0.18
20 21 0.48
21 5 0.11
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTCTTTCTTTTTTCTTC
Found at i:76371 original size:15 final size:15
Alignment explanation
Indices: 76301--76371 Score: 63
Period size: 15 Copynumber: 4.7 Consensus size: 15
76291 CATTGACCCC
*
76301 TTTTTTTCTTTTTCT
1 TTTTTTTCTTTTTTT
*
76316 TTTTCTTCTTTTCCTTT
1 TTTTTTTCTTTT--TTT
* *
76333 CTTTTTT-TTTCTTT
1 TTTTTTTCTTTTTTT
* *
76347 TCTTTCTCTTTTTTT
1 TTTTTTTCTTTTTTT
76362 TTTTTTTCTT
1 TTTTTTTCTT
76372 CAAGCATAAT
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
14 7 0.17
15 25 0.60
16 3 0.07
17 7 0.17
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTCTTTTTTT
Found at i:87677 original size:20 final size:19
Alignment explanation
Indices: 87635--87683 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 19
87625 CTTTTCTTCG
**
87635 ATATCAAAAATATTTATTAT
1 ATAT-AAAAATATTTAACAT
87655 ATATAAAAATATTTAACAGT
1 ATATAAAAATATTTAACA-T
87675 ATAATAAAA
1 AT-ATAAAA
87684 TAAAAATATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 12 0.48
20 7 0.28
21 6 0.24
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (19 bp):
ATATAAAAATATTTAACAT
Found at i:89087 original size:3 final size:3
Alignment explanation
Indices: 89079--89221 Score: 207
Period size: 3 Copynumber: 48.0 Consensus size: 3
89069 TTAATATATT
* *
89079 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA AAA AAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
89126 TAA TGA TAA TGA TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
89174 TAA TAA TAT TAA TAA TGA TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
89222 AATGGATAAA
Statistics
Matches: 125, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
2 2 0.02
3 123 0.98
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:96519 original size:31 final size:31
Alignment explanation
Indices: 96483--96541 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
96473 AACTTAAAAG
* *
96483 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
96514 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
96542 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:96597 original size:32 final size:32
Alignment explanation
Indices: 96556--96618 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
96546 ACAACTACAA
96556 TAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATAC
96588 TAATAAATTATTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
96619 TTTTAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (32 bp):
TAATAAATTATTTAAAATAAATCAATCCATAC
Found at i:96624 original size:22 final size:22
Alignment explanation
Indices: 96598--96640 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
96588 TAATAAATTA
96598 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
96620 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
96641 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:96629 original size:54 final size:54
Alignment explanation
Indices: 96566--96685 Score: 213
Period size: 54 Copynumber: 2.2 Consensus size: 54
96556 TAATAAATTA
96566 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
* *
96620 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATTAATCTATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
*
96674 TTTATAATAAAT
1 TTTAAAATAAAT
96686 TATTTTAAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (54 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
Found at i:96649 original size:22 final size:22
Alignment explanation
Indices: 96600--96648 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
96590 ATAAATTATT
**
96600 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
96622 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
96645 TAAA
1 TAAA
96649 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:96691 original size:15 final size:15
Alignment explanation
Indices: 96671--96754 Score: 108
Period size: 15 Copynumber: 6.0 Consensus size: 15
96661 AATTAATCTA
*
96671 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
96686 TATTTTAAAAT--A-
1 TATTTTAAAATAAAT
96698 -A--TTAAAATAAAT
1 TATTTTAAAATAAAT
*
96710 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
96725 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
96740 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
96755 AGCCTTATTA
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
9 7 0.12
11 2 0.03
13 2 0.03
15 49 0.82
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TATTTTAAAATAAAT
Found at i:96725 original size:39 final size:36
Alignment explanation
Indices: 96642--96737 Score: 131
Period size: 39 Copynumber: 2.6 Consensus size: 36
96632 CAATCCATAC
**
96642 TAATAAATTA-TTTAAAATAAATTAATCTATATTTTA
1 TAATAAATTATTTTAAAAT-AATTAATAAATATTTTA
96678 TAATAAATTATTTTAAAATAATTAAAATAAATTATTTTA
1 TAATAAATTATTTTAAAATAATT--AATAAA-TATTTTA
96717 TAATAAATTATTTTAAAATAA
1 TAATAAATTATTTTAAAATAA
96738 ATTATTTTAA
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
36 14 0.26
37 8 0.15
38 4 0.07
39 28 0.52
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (36 bp):
TAATAAATTATTTTAAAATAATTAATAAATATTTTA
Found at i:108964 original size:17 final size:18
Alignment explanation
Indices: 108931--108964 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
108921 CCGTTATTAG
108931 TGAACCGGTCAGAACCGC
1 TGAACCGGTCAGAACCGC
*
108949 TGAACCGTTC-GAACCG
1 TGAACCGGTCAGAACCG
108965 GACTAGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.32, G:0.26, T:0.15
Consensus pattern (18 bp):
TGAACCGGTCAGAACCGC
Found at i:109296 original size:40 final size:40
Alignment explanation
Indices: 109241--109321 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
109231 GCTCGATTGA
109241 AGCCTAAAATTCGAGCTTGATTGAAGTGAAAGAATAGTTC
1 AGCCTAAAATTCGAGCTTGATTGAAGTGAAAGAATAGTTC
109281 AGCCTAAAATTCGAGCTTGATTGAAGTGAAAGAATAGTTC
1 AGCCTAAAATTCGAGCTTGATTGAAGTGAAAGAATAGTTC
109321 A
1 A
109322 CTGCTCACCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.27
Consensus pattern (40 bp):
AGCCTAAAATTCGAGCTTGATTGAAGTGAAAGAATAGTTC
Found at i:117219 original size:3 final size:3
Alignment explanation
Indices: 117211--117238 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
117201 AACGCATTAT
117211 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
117239 AACCCAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:122792 original size:18 final size:19
Alignment explanation
Indices: 122757--122794 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
122747 CACGGAATGT
122757 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
122777 AAGATTACCA-GGGAATAA
1 AAGATTACCAGGGGAATAA
122795 GATTACTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
20 10 0.56
ACGTcount: A:0.47, C:0.11, G:0.24, T:0.18
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:122807 original size:15 final size:16
Alignment explanation
Indices: 122756--122800 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 16
122746 TCACGGAATG
122756 TAAGATTACCAGTGGGAA
1 TAAGATTACCA--GGGAA
122774 TAAAAGATTACCAGGGAA
1 T--AAGATTACCAGGGAA
122792 TAAGATTAC
1 TAAGATTAC
122801 TGGGAATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 8 0.32
18 7 0.28
20 10 0.40
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (16 bp):
TAAGATTACCAGGGAA
Done.