Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001817.1 Hibiscus syriacus cultivar Beakdansim tig00003677_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: 183128
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:2800 original size:15 final size:14
Alignment explanation
Indices: 2776--2818 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
2766 GATATTTGGC
2776 TGGGCGGGCGGAGTG
1 TGGGCGGGCGGA-TG
*
2791 TGGGCAGGCGGATG
1 TGGGCGGGCGGATG
*
2805 CGGGCGGGCGGATG
1 TGGGCGGGCGGATG
2819 CGGGGCGGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.09, C:0.16, G:0.63, T:0.12
Consensus pattern (14 bp):
TGGGCGGGCGGATG
Found at i:2826 original size:15 final size:14
Alignment explanation
Indices: 2777--2827 Score: 66
Period size: 15 Copynumber: 3.5 Consensus size: 14
2767 ATATTTGGCT
*
2777 GGGCGGGCGGAGTGT
1 GGGCGGGCGGA-TGC
*
2792 GGGCAGGCGGATGC
1 GGGCGGGCGGATGC
2806 GGGCGGGCGGATGC
1 GGGCGGGCGGATGC
2820 GGGGCGGG
1 -GGGCGGG
2828 TAATGTCTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
14 15 0.47
15 17 0.53
ACGTcount: A:0.08, C:0.18, G:0.67, T:0.08
Consensus pattern (14 bp):
GGGCGGGCGGATGC
Found at i:5325 original size:19 final size:19
Alignment explanation
Indices: 5303--5351 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
5293 GTAATCTGAG
5303 CAGAGATCAGA-ATAGAAAT
1 CAGAGATCAGAGA-AGAAAT
*
5322 CAGAGTTCAGAGAAGAAAT
1 CAGAGATCAGAGAAGAAAT
*
5341 CAGAGGTCAGA
1 CAGAGATCAGA
5352 TTGTATTCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 26 0.96
20 1 0.04
ACGTcount: A:0.47, C:0.12, G:0.27, T:0.14
Consensus pattern (19 bp):
CAGAGATCAGAGAAGAAAT
Found at i:6093 original size:25 final size:25
Alignment explanation
Indices: 6084--6140 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
6074 TTGTTCATTT
6084 CAGAGCTGAGGGTAATTAATTATTC
1 CAGAGCTGAGGGTAATTAATTATTC
6109 CAGAGCTGAGGGTAATTAATTATTC
1 CAGAGCTGAGGGTAATTAATTATTC
6134 CAGAGCT
1 CAGAGCT
6141 TGGACGTGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.30
Consensus pattern (25 bp):
CAGAGCTGAGGGTAATTAATTATTC
Found at i:11111 original size:23 final size:20
Alignment explanation
Indices: 11085--11136 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 20
11075 TATTTTTTTT
11085 ATTATTATTATTATATAATAATA
1 ATTATTATTATTAT-T-A-AATA
11108 ATTATTATTTATTATTAAATA
1 ATTATTA-TTATTATTAAATA
11129 ATT-TTATT
1 ATTATTATT
11137 TACTATTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 2 0.07
20 3 0.11
21 7 0.25
22 1 0.04
23 8 0.29
24 7 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTATTATTATTATTAAATA
Found at i:11135 original size:20 final size:21
Alignment explanation
Indices: 11088--11144 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
11078 TTTTTTTATT
*
11088 ATTATTA-TTA-TATAATAATA
1 ATTATTATTTACTATTA-AATA
*
11108 ATTATTATTTATTATTAAATA
1 ATTATTATTTACTATTAAATA
11129 ATT-TTATTTACTATTA
1 ATTATTATTTACTATTA
11145 CAGACCCAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 19 0.58
21 10 0.30
22 4 0.12
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTATTATTTACTATTAAATA
Found at i:13049 original size:12 final size:12
Alignment explanation
Indices: 13006--13046 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
12996 ATTACTTTTA
13006 TATTTTAATTAT
1 TATTTTAATTAT
**
13018 TGCTTTAATTAT
1 TATTTTAATTAT
13030 TATTTT-ATTAT
1 TATTTTAATTAT
13041 TATTTT
1 TATTTT
13047 TATCTTATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
11 11 0.44
12 14 0.56
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (12 bp):
TATTTTAATTAT
Found at i:13055 original size:14 final size:11
Alignment explanation
Indices: 12984--13046 Score: 51
Period size: 11 Copynumber: 5.8 Consensus size: 11
12974 TTATTTACAA
12984 TATTATTTTAT
1 TATTATTTTAT
*
12995 CATTACTTTTA-
1 TATTA-TTTTAT
*
13006 TA-T-TTTAAT
1 TATTATTTTAT
* *
13015 TATTGCTTTAAT
1 TATT-ATTTTAT
13027 TATTATTTTAT
1 TATTATTTTAT
13038 TATTATTTT
1 TATTATTTT
13047 TATCTTATTC
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
8 4 0.10
9 2 0.05
10 2 0.05
11 19 0.45
12 15 0.36
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.67
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:24000 original size:15 final size:15
Alignment explanation
Indices: 23980--24032 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
23970 TGGACGAGCG
23980 GATGTGGGGTGGGAT
1 GATGTGGGGTGGGAT
23995 GATGTGGGGTGGGAT
1 GATGTGGGGTGGGAT
* * **
24010 GATGCGGGGCGGGCG
1 GATGTGGGGTGGGAT
24025 GATGTGGG
1 GATGTGGG
24033 AGCGGATGCG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.11, C:0.06, G:0.62, T:0.21
Consensus pattern (15 bp):
GATGTGGGGTGGGAT
Found at i:24363 original size:17 final size:17
Alignment explanation
Indices: 24327--24365 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
24317 ACATATTCAG
* *
24327 ATTTTAATCGAATATGA
1 ATTTAAATCGAATATAA
*
24344 ATTTAAATCGAATTTAA
1 ATTTAAATCGAATATAA
24361 ATTTA
1 ATTTA
24366 GATTCGAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (17 bp):
ATTTAAATCGAATATAA
Found at i:24789 original size:15 final size:15
Alignment explanation
Indices: 24769--24820 Score: 86
Period size: 15 Copynumber: 3.5 Consensus size: 15
24759 TGAGACATTA
24769 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
24784 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
* *
24799 CCTGCCCCACATCCG
1 CCCGCCCCGCATCCG
24814 CCCGCCC
1 CCCGCCC
24821 AGCCAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.08, C:0.67, G:0.17, T:0.08
Consensus pattern (15 bp):
CCCGCCCCGCATCCG
Found at i:27410 original size:65 final size:65
Alignment explanation
Indices: 27306--27459 Score: 222
Period size: 65 Copynumber: 2.4 Consensus size: 65
27296 CCCTATTTCA
* *
27306 AATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCTTGAAT-TTATTGAAACATC
1 AATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCCTGAATCTT-TTGAAACATC
27370 G
65 G
**
27371 AATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCCTGGCTCTTTTGAAACATCG
1 AATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCCTGAATCTTTTGAAACATCG
* *
27436 AATGTA-ATTAGTGTACCGATGCAC
1 AATGCATTTTA-TGTACCGATGCAC
27460 CCCTAGTGTA
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
64 3 0.04
65 76 0.94
66 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (65 bp):
AATGCATTTTATGTACCGATGCACAGACCATGCATCGATGCACTCCTGAATCTTTTGAAACATCG
Found at i:31372 original size:41 final size:41
Alignment explanation
Indices: 31315--31412 Score: 178
Period size: 41 Copynumber: 2.4 Consensus size: 41
31305 TAGTTCCTTA
* *
31315 TCTAATTCAATGCATTTAATCCTATTGTTAAATGCAGCACG
1 TCTAATTCAATGCATTTAATCCTACTGTTAAATGCAACACG
31356 TCTAATTCAATGCATTTAATCCTACTGTTAAATGCAACACG
1 TCTAATTCAATGCATTTAATCCTACTGTTAAATGCAACACG
31397 TCTAATTCAATGCATT
1 TCTAATTCAATGCATT
31413 ATCTTGCTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (41 bp):
TCTAATTCAATGCATTTAATCCTACTGTTAAATGCAACACG
Found at i:38827 original size:43 final size:43
Alignment explanation
Indices: 38776--38870 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 43
38766 TAATATTTTC
*
38776 AAATAATATA-ATTTATAATTATTTGTTATATTTTAAACAATT
1 AAATAATATATATTTATAATAATTTGTTATATTTTAAACAATT
* * * *
38818 AAATTAATATATTTTTATAATAATTTTTTATATTTTTAATAATT
1 AAA-TAATATATATTTATAATAATTTGTTATATTTTAAACAATT
*
38862 TAATAATAT
1 AAATAATAT
38871 TTTCATAATG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 3 0.07
43 13 0.29
44 29 0.64
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (43 bp):
AAATAATATATATTTATAATAATTTGTTATATTTTAAACAATT
Found at i:40224 original size:13 final size:15
Alignment explanation
Indices: 40193--40221 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
40183 GATGAAAATG
40193 ATATTATTGTAAAAA
1 ATATTATTGTAAAAA
40208 ATATTATT-TAAAAA
1 ATATTATTGTAAAAA
40222 TATCTAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
ATATTATTGTAAAAA
Found at i:41487 original size:2 final size:2
Alignment explanation
Indices: 41480--41517 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
41470 GATAATTTTA
41480 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
41518 TAGTTTAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:41740 original size:2 final size:2
Alignment explanation
Indices: 41733--41831 Score: 198
Period size: 2 Copynumber: 49.5 Consensus size: 2
41723 TAAATAAACG
41733 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
41775 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
41817 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
41832 CCTTAAAAAT
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 97 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:42952 original size:18 final size:15
Alignment explanation
Indices: 42929--42968 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
42919 CACAATTTGC
42929 CAACTTGCCAACTTGAAT
1 CAACTTG-CAACTTG--T
42947 CAACTTGCAACTTGT
1 CAACTTGCAACTTGT
42962 CAACTTG
1 CAACTTG
42969 TGGTAGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.36
17 7 0.32
18 7 0.32
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.30
Consensus pattern (15 bp):
CAACTTGCAACTTGT
Found at i:46400 original size:17 final size:17
Alignment explanation
Indices: 46378--46415 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
46368 AAATCGATCC
46378 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
*
46395 GACCCGACCCGACTGTT
1 GACCCGACCCGACCGTT
46412 GACC
1 GACC
46416 GTTGACCGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.13
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:47403 original size:42 final size:41
Alignment explanation
Indices: 47338--47503 Score: 233
Period size: 42 Copynumber: 4.0 Consensus size: 41
47328 GAAGTATTAT
* *
47338 CAGGTCCCTTTGCTGGGTGCGAAGGTAAGCCTTATAGTTTCC
1 CAGGTCCCTTTGCTGTGTGC-AAGGTAAGCCTTACAGTTTCC
* * *
47380 CACGTTCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTAC
1 CAGGTCCCTTTGCTGTGTGC-AAGGTAAGCCTTACAGTTTCC
*
47422 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTATAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAA-GGTAAGCCTTACAGTTTCC
*
47464 CAGGTCCCTTTGCTGTGTGCAAGGATAAACCTTACAGTTT
1 CAGGTCCCTTTGCTGTGTGCAAGG-TAAGCCTTACAGTTT
47504 TCCTAGGCTC
Statistics
Matches: 111, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
41 4 0.04
42 107 0.96
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.33
Consensus pattern (41 bp):
CAGGTCCCTTTGCTGTGTGCAAGGTAAGCCTTACAGTTTCC
Found at i:47479 original size:84 final size:84
Alignment explanation
Indices: 47338--47503 Score: 264
Period size: 84 Copynumber: 2.0 Consensus size: 84
47328 GAAGTATTAT
*
47338 CAGGTCCCTTTGCTGGGTGCGAAGGTAAGCCTTATAGTTTCCCACGTTCCTTTGCTGTGTGCGAA
1 CAGGTCCCTTTGCTGGGTGCGAAGGTAAGCCTTATAGTTTCCCACGTCCCTTTGCTGTGTGC-AA
*
47403 GG-TAAGCCTTACAGTTTAC
65 GGATAAACCTTACAGTTTAC
* *
47422 CAGGTCCCTTTGCTGTGTGC-AAGGGTAAGCCTTATAGTTTCCCAGGTCCCTTTGCTGTGTGCAA
1 CAGGTCCCTTTGCTGGGTGCGAA-GGTAAGCCTTATAGTTTCCCACGTCCCTTTGCTGTGTGCAA
47486 GGATAAACCTTACAGTTT
65 GGATAAACCTTACAGTTT
47504 TCCTAGGCTC
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
83 6 0.08
84 70 0.92
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.33
Consensus pattern (84 bp):
CAGGTCCCTTTGCTGGGTGCGAAGGTAAGCCTTATAGTTTCCCACGTCCCTTTGCTGTGTGCAAG
GATAAACCTTACAGTTTAC
Found at i:54195 original size:20 final size:20
Alignment explanation
Indices: 54157--54195 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
54147 GGTTTCCGCT
*
54157 TATTATTTAAATAATATTTA
1 TATTATTTAAATAAGATTTA
* *
54177 TATTATTTATATTAGATTT
1 TATTATTTAAATAAGATTT
54196 CCAATATGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
TATTATTTAAATAAGATTTA
Found at i:54773 original size:43 final size:41
Alignment explanation
Indices: 54584--54749 Score: 260
Period size: 42 Copynumber: 4.0 Consensus size: 41
54574 GAAGTATTAT
*
54584 CAGGTCCCTTTGCTGGGTGCGAAGGTAAGCCTTACAGTTTCC
1 CAGGTCCCTTTGCTGTGTGC-AAGGTAAGCCTTACAGTTTCC
*
54626 CAGGTCCCTTTGCTGTGTGCGAAGGTAAGCCTTACAGTTTAC
1 CAGGTCCCTTTGCTGTGTGC-AAGGTAAGCCTTACAGTTTCC
*
54668 CAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTATAGTTTCC
1 CAGGTCCCTTTGCTGTGTGCAA-GGTAAGCCTTACAGTTTCC
*
54710 CAGGTCCCTTTGCTGTGTGCAAGGATAAACCTTACAGTTT
1 CAGGTCCCTTTGCTGTGTGCAAGG-TAAGCCTTACAGTTT
54750 TCCTAGGCTC
Statistics
Matches: 116, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
41 4 0.03
42 112 0.97
ACGTcount: A:0.19, C:0.24, G:0.26, T:0.31
Consensus pattern (41 bp):
CAGGTCCCTTTGCTGTGTGCAAGGTAAGCCTTACAGTTTCC
Found at i:57355 original size:17 final size:18
Alignment explanation
Indices: 57325--57366 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
57315 CACAATTTGA
57325 CAACTTGCCAACTTGAAT
1 CAACTTGCCAACTTGAAT
*
57343 CAACTTG-CAACTTGTAT
1 CAACTTGCCAACTTGAAT
57360 CAACTTG
1 CAACTTG
57367 TGGTAGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (18 bp):
CAACTTGCCAACTTGAAT
Found at i:67456 original size:31 final size:32
Alignment explanation
Indices: 67421--67487 Score: 86
Period size: 31 Copynumber: 2.1 Consensus size: 32
67411 TTTTTAACGG
67421 ATTAAAATT-TCAAGTTTAAATATTAAA-ACA-A
1 ATTAAAATTAT-AA-TTTAAATATTAAACACATA
67452 ATTAAAATTAATAATTTAAATATTAAACACATA
1 ATTAAAATT-ATAATTTAAATATTAAACACATA
67485 ATT
1 ATT
67488 TACTCTAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
31 22 0.69
32 5 0.16
33 5 0.16
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.37
Consensus pattern (32 bp):
ATTAAAATTATAATTTAAATATTAAACACATA
Found at i:69664 original size:3 final size:3
Alignment explanation
Indices: 69624--69686 Score: 53
Period size: 3 Copynumber: 21.7 Consensus size: 3
69614 TATATAATAG
* **
69624 AAT AAA AAT AAGT ATAT AA- AAT AA- AAT AAT -AT AA- AAT AAT AGG
1 AAT AAT AAT AA-T A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
69667 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
69687 AGGGATCAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
2 8 0.17
3 35 0.73
4 4 0.08
5 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:70693 original size:4 final size:4
Alignment explanation
Indices: 70684--70786 Score: 197
Period size: 4 Copynumber: 25.8 Consensus size: 4
70674 ATGAAATAAT
*
70684 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAT ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
70732 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
70780 ATAC ATA
1 ATAC ATA
70787 TATATCTTAT
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 97 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:71471 original size:105 final size:105
Alignment explanation
Indices: 71182--72019 Score: 1166
Period size: 105 Copynumber: 8.0 Consensus size: 105
71172 ATTATTCCGC
* * * * **
71182 GTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAATTGGGAAATTGTTTGTTGACAGTC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACC
*** * * * *
71247 AGCCACCCCTTCG-CTGTGAAGTTGAGCTTGTGCTGTCTCGA
65 AGCGGTCCCTTCGTC-GTGAAGTTGAACTTGCGTTGTCTGGA
* * * * **
71288 GTCTAATATCCTTTGCTGTGAATTTGAAATTGACTCTG-AA-T--GAAACT-TTGTTGACAACCA
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCA
* * *
71348 TCGGTCCATTTGTCGTGAAGTTGAACTTGCGTTGTCTGGA
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
* *
71388 GTCCAATATCCTTCGCTGGGAAGTTGAAATTGGCTATGAAATTGGGAAGTTGTTGTTGACAACCA
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCA
* *
71453 GCGGTCCATTCGTCGTGAAGTTGAACTTGCGTCGTCTGGA
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
* *
71493 GTCCAATATCCTTCGTTGTGAAGATGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCA
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCA
71558 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
* *
71598 GTTCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTGTTGACAACCA
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCA
* *
71663 GCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTAGA
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
71703 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCA
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCA
* * * *
71768 GCAGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTGGA
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
* *
71808 GTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTGTTGTTGACAACCA
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCA
* *
71873 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCATCGTCTGGA
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
* * * * * * *
71913 GTCCAATATCCTTTGATGTGAAGTTGAAATTGGCTCCGAAATTAGAAAATTATTGTTGACAACCA
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCA
* * *
71978 GCCGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTTGA
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
72018 GT
1 GT
72020 GGCGTGATAT
Statistics
Matches: 657, Mismatches: 69, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
100 71 0.11
101 3 0.00
102 6 0.01
104 5 0.01
105 540 0.82
106 32 0.05
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (105 bp):
GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
Found at i:72851 original size:6 final size:6
Alignment explanation
Indices: 72840--72869 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
72830 ACCTTTTTGC
72840 TCTTTT TCTTTT TCTTTT T-TTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
72870 TCTATCTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TCTTTT
Found at i:72862 original size:11 final size:11
Alignment explanation
Indices: 72840--72870 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
72830 ACCTTTTTGC
72840 TCTTTTTCTTTT
1 TCTTTTT-TTTT
72852 TCTTTTTTTTT
1 TCTTTTTTTTT
72863 TCTTTTTT
1 TCTTTTTT
72871 CTATCTAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:82739 original size:13 final size:13
Alignment explanation
Indices: 82721--82745 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82711 CCACTTAAAA
82721 CGGGTTTAGAGCT
1 CGGGTTTAGAGCT
82734 CGGGTTTAGAGC
1 CGGGTTTAGAGC
82746 CTTAAGTGAA
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:0.16, C:0.16, G:0.40, T:0.28
Consensus pattern (13 bp):
CGGGTTTAGAGCT
Found at i:83737 original size:24 final size:24
Alignment explanation
Indices: 83705--83750 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
83695 AACTATATAT
* *
83705 ATACATATATATAATAGAATAAAA
1 ATACATATATAAAATAAAATAAAA
*
83729 ATACGTATATAAAATAAAATAA
1 ATACATATATAAAATAAAATAA
83751 TATAAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (24 bp):
ATACATATATAAAATAAAATAAAA
Found at i:84727 original size:2 final size:2
Alignment explanation
Indices: 84720--84758 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
84710 AAATGAAATA
84720 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
84759 ATAGCAATGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:86583 original size:43 final size:44
Alignment explanation
Indices: 86412--86592 Score: 188
Period size: 44 Copynumber: 4.2 Consensus size: 44
86402 TTTTGACATT
* * * * * *
86412 TAGCGGTGTTTTTAGGATAAAAACGCAGATAAAAATTTGGTATA
1 TAGCGGCGTTTTTAGGATACAAACGCCGCTAAAGATCTGGTATA
* * * *
86456 TAGCAGAGTTTTTAGGATA-AAATCGCAGATAAAGATCTGGTATA
1 TAGCGGCGTTTTTAGGATACAAA-CGCCGCTAAAGATCTGGTATA
***
86500 TAGCGGCG-TTTTAGGATACAAACGCCGCTGTTGATCTGGTATA
1 TAGCGGCGTTTTTAGGATACAAACGCCGCTAAAGATCTGGTATA
* * *
86543 TAGTGGCGTTTTTAGTATACAAACGCCGCTAAAGGT-TGGTATA
1 TAGCGGCGTTTTTAGGATACAAACGCCGCTAAAGATCTGGTATA
86586 TAGCGGC
1 TAGCGGC
86593 ATTTGTAACA
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
43 49 0.42
44 67 0.58
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.30
Consensus pattern (44 bp):
TAGCGGCGTTTTTAGGATACAAACGCCGCTAAAGATCTGGTATA
Found at i:95078 original size:42 final size:43
Alignment explanation
Indices: 95000--95123 Score: 136
Period size: 42 Copynumber: 3.0 Consensus size: 43
94990 TGACAATGGT
* *
95000 GGTGTTTATTACAAAAAT-CCCCATAAAACGCCAAACTTA-T-A
1 GGTGTTTATTACAAAAATGCCCC-TAAAACACAAAACTTATTGA
95041 CGGTGTTTATTACAAAAATGCCCCTAAAACACAAAAC-TATTGA
1 -GGTGTTTATTACAAAAATGCCCCTAAAACACAAAACTTATTGA
* *
95084 GGCGTTTATTA-AAAAATGCCACTAAATA-ACAAAAC-TATTG
1 GGTGTTTATTACAAAAATGCCCCTAAA-ACACAAAACTTATTG
95124 CGGCGTTTTT
Statistics
Matches: 74, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
41 28 0.38
42 41 0.55
43 5 0.07
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (43 bp):
GGTGTTTATTACAAAAATGCCCCTAAAACACAAAACTTATTGA
Found at i:95608 original size:18 final size:18
Alignment explanation
Indices: 95587--95625 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
95577 CAAATGTTTA
*
95587 ATAAAAATACTAATCTAC
1 ATAAAAATACTAAACTAC
* *
95605 ATAATAATCCTAAACTAC
1 ATAAAAATACTAAACTAC
95623 ATA
1 ATA
95626 CACTAAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAAAAATACTAAACTAC
Found at i:100699 original size:23 final size:23
Alignment explanation
Indices: 100650--100707 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
100640 AAGGAAGAGG
* *
100650 AAGAAGATGAAGAAAAGAAAATG
1 AAGAAGATGAAGAAAACAAAATC
*
100673 AAGAAGATGAAGAGAATCAAAA-C
1 AAGAAGATGAAGA-AAACAAAATC
*
100696 AAGAAGAAGAAG
1 AAGAAGATGAAG
100708 GAGGTAGGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 24 0.80
24 6 0.20
ACGTcount: A:0.64, C:0.03, G:0.26, T:0.07
Consensus pattern (23 bp):
AAGAAGATGAAGAAAACAAAATC
Found at i:101227 original size:19 final size:19
Alignment explanation
Indices: 101191--101227 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
101181 TGAAAATGAT
*
101191 TTGATTTTGAAAGCCAAAG
1 TTGATTTTGAAAACCAAAG
*
101210 TTGATTTTGAAAATCAAA
1 TTGATTTTGAAAACCAAA
101228 ATGAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (19 bp):
TTGATTTTGAAAACCAAAG
Found at i:107274 original size:27 final size:27
Alignment explanation
Indices: 107244--107307 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
107234 GAATATTGGC
* *
107244 ATGCATAGTGAATTTGTGTTGCAAGTG
1 ATGCATAGTGAATATGTGTTACAAGTG
107271 ATGCATAGTGAATATGTGTTACAAGTG
1 ATGCATAGTGAATATGTGTTACAAGTG
107298 ATGCATAGTG
1 ATGCATAGTG
107308 GTTTCGAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.34
Consensus pattern (27 bp):
ATGCATAGTGAATATGTGTTACAAGTG
Found at i:108427 original size:11 final size:11
Alignment explanation
Indices: 108411--108436 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
108401 GTGGCACTAA
108411 GTGTACTAAAT
1 GTGTACTAAAT
108422 GTGTACTAAAT
1 GTGTACTAAAT
108433 GTGT
1 GTGT
108437 TAAACTCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (11 bp):
GTGTACTAAAT
Found at i:112015 original size:20 final size:19
Alignment explanation
Indices: 111990--112047 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
111980 TACGTGAATC
*
111990 TAGAGGTTAGTATCTATACT
1 TAGAGGTTAGTATCGATA-T
112010 TAGAGGTTAGTATCGATAT
1 TAGAGGTTAGTATCGATAT
* *
112029 TCAGAGGTCAGTACCGATA
1 T-AGAGGTTAGTATCGATA
112048 CTGAAGGGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 2 0.06
20 32 0.94
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (19 bp):
TAGAGGTTAGTATCGATAT
Found at i:114126 original size:19 final size:18
Alignment explanation
Indices: 114082--114117 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
114072 TTTTGCCAGA
114082 GCAT-TTTATTTTGTTTT
1 GCATGTTTATTTTGTTTT
*
114099 GCATGTTTATTTTTTTTT
1 GCATGTTTATTTTGTTTT
114117 G
1 G
114118 TATAGTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.11, C:0.06, G:0.14, T:0.69
Consensus pattern (18 bp):
GCATGTTTATTTTGTTTT
Found at i:115059 original size:12 final size:12
Alignment explanation
Indices: 115042--115071 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
115032 AGATTCGGTG
115042 TCCGCTCAACTC
1 TCCGCTCAACTC
115054 TCCGCTCAACTC
1 TCCGCTCAACTC
115066 TCCGCT
1 TCCGCT
115072 ATTACTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.50, G:0.10, T:0.27
Consensus pattern (12 bp):
TCCGCTCAACTC
Found at i:125866 original size:18 final size:17
Alignment explanation
Indices: 125838--125877 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
125828 TAATATAAAA
125838 TTATATATAAACTATAT
1 TTATATATAAACTATAT
125855 TTATATTATAAACTATAT
1 TTATA-TATAAACTATAT
*
125873 ATATA
1 TTATA
125878 AACTATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
TTATATATAAACTATAT
Found at i:125879 original size:13 final size:13
Alignment explanation
Indices: 125824--125883 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 13
125814 ATAATATATA
*
125824 TATATAATATAAAA
1 TATAT-ATATAAAC
125838 T-TATATATAAAC
1 TATATATATAAAC
125850 TATATTTATATTATAAAC
1 --TA--TATA-TATAAAC
125868 TATATATATAAAC
1 TATATATATAAAC
125881 TAT
1 TAT
125884 TTAAAGGAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
12 7 0.18
13 13 0.33
14 6 0.15
16 2 0.05
17 4 0.10
18 7 0.18
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:125884 original size:29 final size:29
Alignment explanation
Indices: 125812--125886 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 29
125802 ATTGAAAAAA
* *
125812 ATATAATATATATATATAATATAAAATTAT
1 ATATAA-ACATATTTATAATATAAAATTAT
* *
125842 ATATAAACTATATTTATATTATAAACTATAT
1 ATATAAAC-ATATTTATAATATAAAAT-TAT
125873 ATATAAAC-TATTTA
1 ATATAAACATATTTA
125887 AAGGAATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 7 0.18
30 21 0.54
31 11 0.28
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (29 bp):
ATATAAACATATTTATAATATAAAATTAT
Found at i:126122 original size:42 final size:42
Alignment explanation
Indices: 126072--126181 Score: 193
Period size: 42 Copynumber: 2.6 Consensus size: 42
126062 ACAATAGTTA
*
126072 ATATATGTAACTTATAGTGTATGTATACATGTAATGTAAACT
1 ATATATGTAACTTATAGTATATGTATACATGTAATGTAAACT
126114 ATATATGTAACTTATAGTATATGTATACATGTAATGTAAACT
1 ATATATGTAACTTATAGTATATGTATACATGTAATGTAAACT
* *
126156 ATATATCTAACTTATAGTACATGTAT
1 ATATATGTAACTTATAGTATATGTAT
126182 GTATAAACTA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (42 bp):
ATATATGTAACTTATAGTATATGTATACATGTAATGTAAACT
Found at i:126145 original size:24 final size:24
Alignment explanation
Indices: 126076--126147 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
126066 TAGTTAATAT
*
126076 ATGTAACTTATAGTGTATGTATAC
1 ATGTAACTTATAGTATATGTATAC
** *
126100 ATGT-A---AT-GTA-AACTATAT
1 ATGTAACTTATAGTATATGTATAC
126118 ATGTAACTTATAGTATATGTATAC
1 ATGTAACTTATAGTATATGTATAC
126142 ATGTAA
1 ATGTAA
126148 TGTAAACTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
18 9 0.26
19 3 0.09
20 2 0.06
22 2 0.06
23 4 0.11
24 15 0.43
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (24 bp):
ATGTAACTTATAGTATATGTATAC
Found at i:126419 original size:25 final size:24
Alignment explanation
Indices: 126398--126442 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
126388 ACAATAATTA
*
126398 ATATATATA-ATGTAACCTATAAT
1 ATATATATACATGTAAACTATAAT
*
126421 ATATGTATACATGTAAACTATA
1 ATATATATACATGTAAACTATA
126443 TATGTAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.38
Consensus pattern (24 bp):
ATATATATACATGTAAACTATAAT
Found at i:126464 original size:37 final size:37
Alignment explanation
Indices: 126401--126471 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
126391 ATAATTAATA
*
126401 TATATAATGTAACCTATAATATATGTATACATGTAAAC
1 TATATAATGTAACCTATAATACATGTAT-CATGTAAAC
* *
126439 TATAT-ATGTAACTTATAGTACATGTATCATGTA
1 TATATAATGTAACCTATAATACATGTATCATGTA
126472 TGTATATACC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 6 0.20
37 19 0.63
38 5 0.17
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (37 bp):
TATATAATGTAACCTATAATACATGTATCATGTAAAC
Found at i:128378 original size:99 final size:102
Alignment explanation
Indices: 128192--128522 Score: 524
Period size: 102 Copynumber: 3.3 Consensus size: 102
128182 AAGAGGTAAC
* * * *
128192 TAAACTGTTTAATTTGTAGTTATTGTTGATTTGTTTGTGTTGTTGGTTGTTCATTCAGATTGCTT
1 TAAACTGTTTAATTTGTAGCTACTGTTGATTTGTTTATGTTGTTGGTTGTTCATTCGGATTGCTT
*
128257 TTATAAGGTTGTTAGCTACCTTTATTTACAGTTTAAA
66 TTATAAGGTTGTTAGCTGCCTTTATTTACAGTTTAAA
* * *
128294 TAAACTGTTTAATTTGTAGCTACTATTGATTTG-TT-TG-TGTTGGTTTTTCATTCGGATTACTT
1 TAAACTGTTTAATTTGTAGCTACTGTTGATTTGTTTATGTTGTTGGTTGTTCATTCGGATTGCTT
* *
128356 CTATAAGGTTGTTAGCTGCCTTTATTTACAATTTAAA
66 TTATAAGGTTGTTAGCTGCCTTTATTTACAGTTTAAA
* *
128393 TAAACTGTTCAATTTGTTGCTACTGTTGATTTGTTTATGTTGTTGGTTGTTCATTCGGATTGCTT
1 TAAACTGTTTAATTTGTAGCTACTGTTGATTTGTTTATGTTGTTGGTTGTTCATTCGGATTGCTT
128458 TTATAAGGTTGTTAGCTGCCTTTATTTACAGTTTAAA
66 TTATAAGGTTGTTAGCTGCCTTTATTTACAGTTTAAA
*
128495 TAAACTGTTTAATTTGTTGCTACTGTTG
1 TAAACTGTTTAATTTGTAGCTACTGTTG
128523 GTTGTTCATT
Statistics
Matches: 209, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
99 86 0.41
100 4 0.02
101 4 0.02
102 115 0.55
ACGTcount: A:0.21, C:0.10, G:0.18, T:0.50
Consensus pattern (102 bp):
TAAACTGTTTAATTTGTAGCTACTGTTGATTTGTTTATGTTGTTGGTTGTTCATTCGGATTGCTT
TTATAAGGTTGTTAGCTGCCTTTATTTACAGTTTAAA
Found at i:131669 original size:14 final size:14
Alignment explanation
Indices: 131650--131696 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
131640 ATTTTTTCTT
131650 TATATAAATTAAAC
1 TATATAAATTAAAC
131664 TATAT-AATT----
1 TATATAAATTAAAC
131673 TATATAAATTAAAC
1 TATATAAATTAAAC
*
131687 TATATTAATT
1 TATATAAATT
131697 TTTCTTTTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:131674 original size:23 final size:24
Alignment explanation
Indices: 131648--131697 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
131638 TTATTTTTTC
131648 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
131671 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
131695 TTT
1 TTT
131698 TTCTTTTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:131983 original size:16 final size:16
Alignment explanation
Indices: 131962--132005 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
131952 TTTACTGGTT
131962 AGGTTAAAAACAAGTC
1 AGGTTAAAAACAAGTC
* *
131978 AGGTTAAAAATATGTC
1 AGGTTAAAAACAAGTC
*
131994 AGGTTGAAAACA
1 AGGTTAAAAACA
132006 GGTCGGGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.23
Consensus pattern (16 bp):
AGGTTAAAAACAAGTC
Found at i:140344 original size:19 final size:18
Alignment explanation
Indices: 140316--140352 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
140306 GAGGTAACCC
140316 ATTTTTTATTTTTATTTT
1 ATTTTTTATTTTTATTTT
140334 ATTTATTTATTTTTATTTT
1 ATTT-TTTATTTTTATTTT
140353 TTGGTACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (18 bp):
ATTTTTTATTTTTATTTT
Found at i:140925 original size:21 final size:21
Alignment explanation
Indices: 140901--140940 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
140891 TTTTCAAAGG
140901 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
140922 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
140941 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:140990 original size:19 final size:19
Alignment explanation
Indices: 140966--141004 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
140956 TTGAATGCAT
140966 TCCATGAACCGATGCACTC
1 TCCATGAACCGATGCACTC
* *
140985 TCCATGCATCGATGCACTC
1 TCCATGAACCGATGCACTC
141004 T
1 T
141005 GATTTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.36, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGAACCGATGCACTC
Found at i:141044 original size:64 final size:65
Alignment explanation
Indices: 140901--141065 Score: 183
Period size: 64 Copynumber: 2.5 Consensus size: 65
140891 TTTTCAAAGG
* *
140901 CATGCACCGATGCATCAATACCATGCATCGATGCA-TCAATGAATAAATTGAAACATTGAATGCA
1 CATGAACCGATGCA-CAAT-CCATGCATCGATGCACTC-ATGAATAAATTGAAACATCGAATGCA
140965 TTC
63 TTC
** * *
140968 CATGAACCGATGCACTCTCCATGCATCGATGCACTC-TGATTTAATT-AAATCATCGAATGCATT
1 CATGAACCGATGCACAATCCATGCATCGATGCACTCATGAATAAATTGAAA-CATCGAATGCATT
*
141031 T
65 C
* * *
141032 GATGCATCGATGCACAATCCATGCATCGATGCAC
1 CATGAACCGATGCACAATCCATGCATCGATGCAC
141066 CAGACTATTT
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
63 3 0.04
64 49 0.58
65 15 0.18
66 4 0.05
67 13 0.15
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (65 bp):
CATGAACCGATGCACAATCCATGCATCGATGCACTCATGAATAAATTGAAACATCGAATGCATTC
Found at i:141086 original size:64 final size:62
Alignment explanation
Indices: 140901--141092 Score: 172
Period size: 64 Copynumber: 3.0 Consensus size: 62
140891 TTTTCAAAGG
* * *
140901 CATGCACCGATGCATCAATACCATGCATCGATGCATCA-ATGAATAAATTGAAACATTGAATGCA
1 CATGCACCGATGCA-CAAT-CCATGCATCGATGCACCAGAT--AT-TATT-AAACATCGAATGCA
140965 TTC
60 TTC
* ** * *
140968 CATGAACCGATGCACTCTCCATGCATCGATGCACTCTGAT-TTAATTAAATCATCGAATGCATTT
1 CATGCACCGATGCACAATCCATGCATCGATGCAC-CAGATATT-ATTAAA-CATCGAATGCATTC
* * *
141032 GATGCATCGATGCACAATCCATGCATCGATGCACCAGACTATTTTTCAAACATCGAATGCA
1 CATGCACCGATGCACAATCCATGCATCGATGCACCAGA-TATTATT-AAACATCGAATGCA
141093 CTAGGAGTCC
Statistics
Matches: 103, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
63 6 0.06
64 59 0.57
65 20 0.19
66 3 0.03
67 15 0.15
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (62 bp):
CATGCACCGATGCACAATCCATGCATCGATGCACCAGATATTATTAAACATCGAATGCATTC
Found at i:144236 original size:18 final size:18
Alignment explanation
Indices: 144213--144258 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
144203 ACCGGTCACA
*
144213 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
144231 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
144249 ACCCGACCCG
1 ACCCGACCCG
144259 TTGACCGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.17, C:0.52, G:0.20, T:0.11
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:144251 original size:13 final size:13
Alignment explanation
Indices: 144235--144264 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
144225 CCGTTTACCC
144235 GACCCGACCCGTT
1 GACCCGACCCGTT
144248 GACCCGACCCGTT
1 GACCCGACCCGTT
144261 GACC
1 GACC
144265 GTTGACCGGA
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:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:145608 original size:18 final size:18
Alignment explanation
Indices: 145582--145617 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
145572 TCGAAAGGAC
*
145582 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
145600 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
145618 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:146859 original size:24 final size:24
Alignment explanation
Indices: 146760--146859 Score: 87
Period size: 24 Copynumber: 4.2 Consensus size: 24
146750 ATATTTTATC
* *
146760 TGATTTCTGATTTGAATTCTGTTT
1 TGATATCTGATCTGAATTCTGTTT
* * *
146784 TGACATCTGATCTGAAATCTGTTC
1 TGATATCTGATCTGAATTCTGTTT
* * *
146808 TGAT-TCCT-AACTTGGATTCTGTTA
1 TGATAT-CTGATC-TGAATTCTGTTT
*
146832 TGATATCTGATCTGAATTATGTTT
1 TGATATCTGATCTGAATTCTGTTT
146856 TGAT
1 TGAT
146860 TTTTGATATC
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
23 3 0.05
24 52 0.90
25 3 0.05
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (24 bp):
TGATATCTGATCTGAATTCTGTTT
Found at i:149012 original size:13 final size:13
Alignment explanation
Indices: 148994--149023 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
148984 AACCCGACCC
148994 GACCCGACCCGTT
1 GACCCGACCCGTT
149007 GACCCGACCCGTT
1 GACCCGACCCGTT
149020 GACC
1 GACC
149024 GTTGACCGGA
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:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:150366 original size:18 final size:18
Alignment explanation
Indices: 150340--150375 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
150330 TCGAAAGGAC
*
150340 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
150358 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
150376 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:151617 original size:24 final size:24
Alignment explanation
Indices: 151518--151617 Score: 87
Period size: 24 Copynumber: 4.2 Consensus size: 24
151508 ATATTTTATC
* *
151518 TGATTTCTGATTTGAATTCTGTTT
1 TGATATCTGATCTGAATTCTGTTT
* * *
151542 TGACATCTGATCTGAAATCTGTTC
1 TGATATCTGATCTGAATTCTGTTT
* * *
151566 TGAT-TCCT-AACTTGGATTCTGTTA
1 TGATAT-CTGATC-TGAATTCTGTTT
*
151590 TGATATCTGATCTGAATTATGTTT
1 TGATATCTGATCTGAATTCTGTTT
151614 TGAT
1 TGAT
151618 TTTTGATATC
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
23 3 0.05
24 52 0.90
25 3 0.05
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (24 bp):
TGATATCTGATCTGAATTCTGTTT
Found at i:153708 original size:9 final size:9
Alignment explanation
Indices: 153694--153739 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
153684 AAGGGAAAAG
153694 TGACCGGTT
1 TGACCGGTT
153703 TGACCGGTT
1 TGACCGGTT
* *
153712 TGGAACTGTTT
1 T-G-ACCGGTT
153723 TGACCGGTT
1 TGACCGGTT
153732 TGACCGGT
1 TGACCGGT
153740 CACAACCCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 23 0.74
10 2 0.06
11 6 0.19
ACGTcount: A:0.13, C:0.20, G:0.33, T:0.35
Consensus pattern (9 bp):
TGACCGGTT
Found at i:153771 original size:13 final size:13
Alignment explanation
Indices: 153753--153782 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
153743 AACCCGACCC
153753 GACCCGACCCGTT
1 GACCCGACCCGTT
153766 GACCCGACCCGTT
1 GACCCGACCCGTT
153779 GACC
1 GACC
153783 GTTGACCGGA
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:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:155125 original size:18 final size:18
Alignment explanation
Indices: 155099--155134 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
155089 TCGAAAGGAC
*
155099 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
155117 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
155135 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:156376 original size:24 final size:24
Alignment explanation
Indices: 156277--156376 Score: 87
Period size: 24 Copynumber: 4.2 Consensus size: 24
156267 ATATTTTATC
* *
156277 TGATTTCTGATTTGAATTCTGTTT
1 TGATATCTGATCTGAATTCTGTTT
* * *
156301 TGACATCTGATCTGAAATCTGTTC
1 TGATATCTGATCTGAATTCTGTTT
* * *
156325 TGAT-TCCT-AACTTGGATTCTGTTA
1 TGATAT-CTGATC-TGAATTCTGTTT
*
156349 TGATATCTGATCTGAATTATGTTT
1 TGATATCTGATCTGAATTCTGTTT
156373 TGAT
1 TGAT
156377 TTTTGATATC
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
23 3 0.05
24 52 0.90
25 3 0.05
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (24 bp):
TGATATCTGATCTGAATTCTGTTT
Found at i:160593 original size:24 final size:22
Alignment explanation
Indices: 160562--160644 Score: 82
Period size: 24 Copynumber: 3.7 Consensus size: 22
160552 TGCACTTAAC
160562 AATG-CATCGATGCATCCCTTTG
1 AATGTCATCGATGCATCCC-TTG
*
160584 AATGTACATCGATGCATCCGCATG
1 AATGT-CATCGATGCATCC-CTTG
* *
160608 -ATG-CACCGATGCATGCCTTG
1 AATGTCATCGATGCATCCCTTG
160628 AATGTGCATCGATGCAT
1 AATGT-CATCGATGCAT
160645 TGGTCGGGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
20 3 0.06
21 14 0.28
22 4 0.08
23 13 0.26
24 15 0.30
25 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (22 bp):
AATGTCATCGATGCATCCCTTG
Found at i:162866 original size:15 final size:15
Alignment explanation
Indices: 162846--162875 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
162836 ATAGTAAGGG
162846 GGAGTAATTTTTCAA
1 GGAGTAATTTTTCAA
162861 GGAGTAATTTTTCAA
1 GGAGTAATTTTTCAA
162876 AAGCTGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (15 bp):
GGAGTAATTTTTCAA
Found at i:163222 original size:21 final size:21
Alignment explanation
Indices: 163198--163237 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
163188 TTTTCAAAGG
163198 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
163219 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
163238 GAATAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:163294 original size:19 final size:19
Alignment explanation
Indices: 163251--163301 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
163241 TAAATTAAAA
163251 CATCGAATGCA-T-TCCAAG
1 CATCG-ATGCACTCTCCAAG
* *
163269 CACCGATGCACTCTCCATG
1 CATCGATGCACTCTCCAAG
163288 CATCGATGCACTCT
1 CATCGATGCACTCT
163302 GATTTAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 5 0.18
18 5 0.18
19 18 0.64
ACGTcount: A:0.25, C:0.35, G:0.16, T:0.24
Consensus pattern (19 bp):
CATCGATGCACTCTCCAAG
Found at i:163324 original size:64 final size:65
Alignment explanation
Indices: 163201--163362 Score: 186
Period size: 64 Copynumber: 2.5 Consensus size: 65
163191 TCAAAGGCAT
*
163201 GCACCGATGCA-TCAATACCATGCATCGATGCA-TCAATGAATAAATTAAAACATCGAATGCATT
1 GCACCGATGCACTC--T-CCATGCATCGATGCACTC-ATGAATAAATTAAAACATCAAATGCATT
163264 CCAA
62 CCAA
* * ** *
163268 GCACCGATGCACTCTCCATGCATCGATGCACTC-TGATTTAATTAAAACATCAAATGCATTTGAT
1 GCACCGATGCACTCTCCATGCATCGATGCACTCATGAATAAATTAAAACATCAAATGCATTCCAA
* **
163332 GCATCGATGCACAATCCATGCATCGATGCAC
1 GCACCGATGCACTCTCCATGCATCGATGCAC
163363 CAGGCTATTT
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
64 53 0.63
65 15 0.18
66 3 0.04
67 11 0.13
68 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.25
Consensus pattern (65 bp):
GCACCGATGCACTCTCCATGCATCGATGCACTCATGAATAAATTAAAACATCAAATGCATTCCAA
Found at i:163398 original size:45 final size:45
Alignment explanation
Indices: 163348--163452 Score: 201
Period size: 45 Copynumber: 2.3 Consensus size: 45
163338 ATGCACAATC
163348 CATGCATCGATGCACCAGGCTATTTTTCAAACATCGAATGCACTT
1 CATGCATCGATGCACCAGGCTATTTTTCAAACATCGAATGCACTT
163393 CATGCATCGATGCACCAGGCTATTTTTCAAACATCGAATGCACTT
1 CATGCATCGATGCACCAGGCTATTTTTCAAACATCGAATGCACTT
*
163438 CATGCATCGTTGCAC
1 CATGCATCGATGCAC
163453 TCTTAGTGCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (45 bp):
CATGCATCGATGCACCAGGCTATTTTTCAAACATCGAATGCACTT
Found at i:164199 original size:10 final size:10
Alignment explanation
Indices: 164184--164211 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
164174 CATAGAGTAT
164184 AGCATGCACG
1 AGCATGCACG
164194 AGCATGCACG
1 AGCATGCACG
164204 AGCATGCA
1 AGCATGCA
164212 ACATAGTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.29, T:0.11
Consensus pattern (10 bp):
AGCATGCACG
Found at i:170002 original size:12 final size:12
Alignment explanation
Indices: 169987--170012 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
169977 AAAAAAACAG
169987 AAAAATTGAAAA
1 AAAAATTGAAAA
169999 AAAAATTGAAAA
1 AAAAATTGAAAA
170011 AA
1 AA
170013 GGGAAGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (12 bp):
AAAAATTGAAAA
Found at i:171360 original size:45 final size:44
Alignment explanation
Indices: 171293--171382 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 44
171283 ATTTGTCATC
*
171293 GATGATAGAAAATCAACCGATGGGGATGAATCTAATGGATTTAAT
1 GATGATAAAAAATCAACCGATGGGGAT-AATCTAATGGATTTAAT
*
171338 GATGATAAAAAATCAACTGATGGGGATAATCTAATGGATTTAAT
1 GATGATAAAAAATCAACCGATGGGGATAATCTAATGGATTTAAT
171382 G
1 G
171383 GTAGAGTGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
44 18 0.42
45 25 0.58
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (44 bp):
GATGATAAAAAATCAACCGATGGGGATAATCTAATGGATTTAAT
Found at i:175344 original size:19 final size:19
Alignment explanation
Indices: 175327--175375 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
175317 TGAAAAGATT
175327 TAATAAAATAAAATAGATAA
1 TAAT-AAATAAAATAGATAA
*
175347 TAATAAATAAAA-AGAGAAA
1 TAATAAATAAAATAGA-TAA
175366 TAATAAATAA
1 TAATAAATAA
175376 TAAATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 3 0.11
19 20 0.74
20 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.22
Consensus pattern (19 bp):
TAATAAATAAAATAGATAA
Found at i:176148 original size:74 final size:76
Alignment explanation
Indices: 176048--176252 Score: 353
Period size: 74 Copynumber: 2.7 Consensus size: 76
176038 TCTTAAATCC
*
176048 TAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAA
1 TAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAA
*
176112 T-TTCTAAAACT
65 TATCCTAAAACT
176123 TAATTAAAATA-TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
1 TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
176187 ATCCTAAAACT
66 ATCCTAAAACT
*
176198 TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAAATAAAATA
1 TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATA
176253 AAATATTTAA
Statistics
Matches: 124, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
73 5 0.04
74 47 0.38
75 30 0.24
76 42 0.34
ACGTcount: A:0.60, C:0.12, G:0.01, T:0.27
Consensus pattern (76 bp):
TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
ATCCTAAAACT
Found at i:178231 original size:20 final size:20
Alignment explanation
Indices: 178193--178231 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
178183 TGTTCAGAGA
*
178193 AAAATAAAATAAAATAATTC
1 AAAATAAAATAAAAGAATTC
*
178213 AAAATAAAATAATAGAATT
1 AAAATAAAATAAAAGAATT
178232 AAATAAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (20 bp):
AAAATAAAATAAAAGAATTC
Found at i:181763 original size:70 final size:74
Alignment explanation
Indices: 181667--181877 Score: 290
Period size: 70 Copynumber: 2.8 Consensus size: 74
181657 AAACACTTAA
* *
181667 AAAAC-TATTTAAACTAAAATATCTAAAACAAAGATAAAATATAAAAA-A-ATCTTAAAACTTAA
1 AAAACATATTTAAACT-AAATACCTAAAACAAAGATAAAATATAAAAATATATCCTAAAACTTAA
181729 TT-AAA-ACT
65 TTAAAATACT
181737 AAAACATATTTAAACTAAATACCTAAAACAAAGATAAAATATAAAAATATATCCTAAAACTTAAT
1 AAAACATATTTAAACTAAATACCTAAAACAAAGATAAAATATAAAAATATATCCTAAAACTTAAT
181802 TAAAATACT
66 TAAAATACT
*
181811 AAAACATATTTAAACTAAATACATAAAA-AAAGATAAATATAATATTTAAAATATTATCCTAAAA
1 AAAACATATTTAAACTAAATACCTAAAACAAAGATAAA-AT-ATA---AAAATA-TATCCTAAAA
181875 CTT
60 CTT
181878 GAGTTTAATT
Statistics
Matches: 127, Mismatches: 3, Indels: 13
0.89 0.02 0.09
Matches are distributed among these distances:
70 35 0.28
71 11 0.09
72 15 0.12
73 12 0.09
74 32 0.25
75 3 0.02
78 6 0.05
79 13 0.10
ACGTcount: A:0.60, C:0.10, G:0.01, T:0.28
Consensus pattern (74 bp):
AAAACATATTTAAACTAAATACCTAAAACAAAGATAAAATATAAAAATATATCCTAAAACTTAAT
TAAAATACT
Done.