Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004576.1 Hibiscus syriacus cultivar Beakdansim tig00010194_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: 120744
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:4124 original size:21 final size:21
Alignment explanation
Indices: 4094--4141 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
4084 TAATTTTCAT
*
4094 ACATTATTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
4115 ACATTGTTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
4136 ACATTG
1 ACATTG
4142 CAATATTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (21 bp):
ACATTGTTGCACCTAATTTTG
Found at i:4666 original size:6 final size:5
Alignment explanation
Indices: 4637--4671 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
4627 TGTTGTACAA
*
4637 GGGAG GGGAG GGGAG GGGAG GGGAAG GGGAA GGGA
1 GGGAG GGGAG GGGAG GGGAG GGG-AG GGGAG GGGA
4672 TGCAGGAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.26, C:0.00, G:0.74, T:0.00
Consensus pattern (5 bp):
GGGAG
Found at i:5156 original size:24 final size:24
Alignment explanation
Indices: 5119--5165 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
5109 GAAGATGTTG
5119 TTTAAACCTCTTTTCCACTAGTTA
1 TTTAAACCTCTTTTCCACTAGTTA
5143 TTTAAACC-CATTTTCCACTAGTT
1 TTTAAACCTC-TTTTCCACTAGTT
5166 GATTAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.26, C:0.26, G:0.04, T:0.45
Consensus pattern (24 bp):
TTTAAACCTCTTTTCCACTAGTTA
Found at i:5171 original size:24 final size:24
Alignment explanation
Indices: 5115--5172 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
5105 TTTGGAAGAT
*
5115 GTTGTTTAAACCTCTTTTCCACTA
1 GTTGATTAAACCTCTTTTCCACTA
5139 GTT-ATTTAAACC-CATTTTCCACTA
1 GTTGA-TTAAACCTC-TTTTCCACTA
5163 GTTGATTAAA
1 GTTGATTAAA
5173 TTTTTAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 1 0.03
24 28 0.93
25 1 0.03
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (24 bp):
GTTGATTAAACCTCTTTTCCACTA
Found at i:5288 original size:18 final size:20
Alignment explanation
Indices: 5255--5298 Score: 74
Period size: 18 Copynumber: 2.3 Consensus size: 20
5245 ATTTTTAAAA
5255 TATTAAAATAATTTATTTAT
1 TATTAAAATAATTTATTTAT
5275 TATTAAAAT-A-TTATTTAT
1 TATTAAAATAATTTATTTAT
5293 TATTAA
1 TATTAA
5299 TAAAAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 14 0.58
19 1 0.04
20 9 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TATTAAAATAATTTATTTAT
Found at i:5290 original size:22 final size:21
Alignment explanation
Indices: 5255--5309 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
5245 ATTTTTAAAA
5255 TATTAAAATA--ATTTATTTAT
1 TATTAAAATATTATTTA-TTAT
5275 TATTAAAATATTATTTATTAT
1 TATTAAAATATTATTTATTAT
*
5296 TAATAAAAATATTA
1 T-ATTAAAATATTA
5310 ATATTGGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 10 0.32
21 5 0.16
22 16 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTAAAATATTATTTATTAT
Found at i:5294 original size:49 final size:51
Alignment explanation
Indices: 5210--5310 Score: 120
Period size: 50 Copynumber: 2.0 Consensus size: 51
5200 TAAATACAAT
* *
5210 AAATAATATTATTTATCATAAAACTTAATATTATTATT-TTTAAAATATTA
1 AAATAATATTATTTATCATAAAACTTAATATTATTATTAATAAAAATATTA
* *
5260 AAATAAT-TTATTTATTATTAAAA--TATTATTTATTATTAATAAAAATATTA
1 AAATAATATTATTTATCA-TAAAACTTAATA-TTATTATTAATAAAAATATTA
5310 A
1 A
5311 TATTGGTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
48 4 0.09
49 17 0.39
50 23 0.52
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.49
Consensus pattern (51 bp):
AAATAATATTATTTATCATAAAACTTAATATTATTATTAATAAAAATATTA
Found at i:5707 original size:24 final size:25
Alignment explanation
Indices: 5662--5708 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
5652 TTTAATAATT
5662 AATATTTTAATTAAAATGATATTAA
1 AATATTTTAATTAAAATGATATTAA
* *
5687 AATATTTT-ATTAATATTATATT
1 AATATTTTAATTAAAATGATATT
5709 CATAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
AATATTTTAATTAAAATGATATTAA
Found at i:8216 original size:42 final size:42
Alignment explanation
Indices: 8164--8299 Score: 123
Period size: 42 Copynumber: 3.2 Consensus size: 42
8154 GGTCATAACA
* *
8164 TATAGCGGCGTTTTTATAATAAAACACCGCTATTGACAATTC
1 TATAGTGGCGTTTTTATAGTAAAACACCGCTATTGACAATTC
* ** **
8206 TATAGTGGCGTTTTT-TAGTCACAAACGCCG-TAAATTTTCTAAAAC
1 TATAGTGGCGTTTTTATAGT-A-AAACACCGCT--ATTGAC-AATTC
* * *
8251 TTTAGTGGCATTTTTATAGTAAAACACCGCTATTGACAATTT
1 TATAGTGGCGTTTTTATAGTAAAACACCGCTATTGACAATTC
8293 TATAGTG
1 TATAGTG
8300 CCATTTTTTT
Statistics
Matches: 71, Mismatches: 16, Indels: 14
0.70 0.16 0.14
Matches are distributed among these distances:
41 3 0.04
42 24 0.34
43 11 0.15
44 11 0.15
45 18 0.25
46 4 0.06
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (42 bp):
TATAGTGGCGTTTTTATAGTAAAACACCGCTATTGACAATTC
Found at i:11307 original size:11 final size:11
Alignment explanation
Indices: 11293--11353 Score: 68
Period size: 11 Copynumber: 5.5 Consensus size: 11
11283 CCAGCAAAAA
11293 CCCAACTAAGG
1 CCCAACTAAGG
**
11304 CCCAACTAAAA
1 CCCAACTAAGG
*
11315 CCTAACTAAGG
1 CCCAACTAAGG
* **
11326 CCCAACCAAAA
1 CCCAACTAAGG
11337 CCCAACTAAGG
1 CCCAACTAAGG
11348 CCCAAC
1 CCCAAC
11354 CAAAATCCAA
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.43, C:0.39, G:0.10, T:0.08
Consensus pattern (11 bp):
CCCAACTAAGG
Found at i:11314 original size:22 final size:22
Alignment explanation
Indices: 11289--11364 Score: 125
Period size: 22 Copynumber: 3.5 Consensus size: 22
11279 CAACCCAGCA
*
11289 AAAACCCAACTAAGGCCCAACT
1 AAAACCCAACTAAGGCCCAACC
*
11311 AAAACCTAACTAAGGCCCAACC
1 AAAACCCAACTAAGGCCCAACC
11333 AAAACCCAACTAAGGCCCAACC
1 AAAACCCAACTAAGGCCCAACC
*
11355 AAAATCCAAC
1 AAAACCCAAC
11365 CTAAATACCC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.47, C:0.37, G:0.08, T:0.08
Consensus pattern (22 bp):
AAAACCCAACTAAGGCCCAACC
Found at i:12441 original size:109 final size:109
Alignment explanation
Indices: 12204--12442 Score: 277
Period size: 109 Copynumber: 2.2 Consensus size: 109
12194 CCTTGGTTAG
* * *
12204 GCGTG-TTTTAAATTTTGGTCACCTATAGGGACCAAATCTGTTACTTTCCCTTTTCGTTGCGTGC
1 GCGTGCTTTTACATTTTGGTCACCTATAGGGACAAAATCTGTTACTTTCCCTTTTCGTTGCATGC
* *
12268 TTTATAATTTTTTGGTTATTCATATTTTAGTCCCTCTAACTTTA
66 TTCATAATTTTTGGGTTATTCATATTTTAGTCCCTCTAACTTTA
* * ** * ** * * *
12312 GCTTGTTTTTTTATTCTGGTCACCTATAGGGTTTAAAAT-TGTTATTTTCTCTTTTCTTTGCATG
1 GCGTGCTTTTACATTTTGGTCACCTATAGGG-ACAAAATCTGTTACTTTCCCTTTTCGTTGCATG
* *
12376 CTTCATAATTTTTGGGTTATTCACTA-TTTGGTCCCTCTAAGTTTA
65 CTTCATAATTTTTGGGTTATTCA-TATTTTAGTCCCTCTAACTTTA
*
12421 GCGTGCTTTTACGTTTTGGTCA
1 GCGTGCTTTTACATTTTGGTCA
12443 TGTGTAGTGA
Statistics
Matches: 107, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
108 4 0.04
109 97 0.91
110 6 0.06
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.49
Consensus pattern (109 bp):
GCGTGCTTTTACATTTTGGTCACCTATAGGGACAAAATCTGTTACTTTCCCTTTTCGTTGCATGC
TTCATAATTTTTGGGTTATTCATATTTTAGTCCCTCTAACTTTA
Found at i:12640 original size:10 final size:10
Alignment explanation
Indices: 12625--12655 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
12615 TAGCCATTAA
12625 ATTTTAATTT
1 ATTTTAATTT
12635 ATTTTAATTT
1 ATTTTAATTT
12645 ATTTTAATTT
1 ATTTTAATTT
12655 A
1 A
12656 GCCCTTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTTAATTT
Found at i:18287 original size:21 final size:21
Alignment explanation
Indices: 18262--18314 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
18252 GTTTCCAGAT
*
18262 TCGCAACGCGAACATCGATTA
1 TCGCAACGCGAACATCGACTA
18283 TCGCAACGCGAACATCGACTA
1 TCGCAACGCGAACATCGACTA
*
18304 TCGCAATGCGA
1 TCGCAACGCGA
18315 TTTTCCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.17
Consensus pattern (21 bp):
TCGCAACGCGAACATCGACTA
Found at i:18352 original size:21 final size:19
Alignment explanation
Indices: 18318--18507 Score: 164
Period size: 21 Copynumber: 9.3 Consensus size: 19
18308 AATGCGATTT
*
18318 TCCAAATTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAG
18337 TCCAAGTTCGCGTTGCGATAG
1 TCCAAGTT--CGTTGCGATAG
18358 TCCAAGTTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAG
* *
18377 TCCAAGTTCGCGTTGTGATTTAT
1 TCCAAGTT--CGTTGCGA--TAG
18400 TCCAAGTTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAG
* * *
18419 TCGAAGTTCGCGTTGCAATTTAT
1 TCCAAGTT--CGTTGCGA--TAG
*
18442 TCTAAGTTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAG
* *
18461 TCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTT--CGTTGCGA--TAG
*
18484 TCCAAATTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAG
18503 TCCAA
1 TCCAA
18508 AATCGCAACG
Statistics
Matches: 141, Mismatches: 16, Indels: 28
0.76 0.09 0.15
Matches are distributed among these distances:
19 51 0.36
21 63 0.45
23 27 0.19
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (19 bp):
TCCAAGTTCGTTGCGATAG
Found at i:18417 original size:42 final size:42
Alignment explanation
Indices: 18310--18507 Score: 296
Period size: 42 Copynumber: 4.8 Consensus size: 42
18300 ACTATCGCAA
*
18310 TGCGA-TT-TTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
1 TGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTTCGCGT
*
18350 TGCGA--TAGTCCAAGTTCGTTGCGATAGTCCAAGTTCGCGT
1 TGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTTCGCGT
* *
18390 TGTGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTTCGCGT
* * *
18432 TGCAATTTATTCTAAGTTCGTTGCGATAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTTCGCGT
*
18474 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAA
1 TGCGATTTATTCCAAGTTCGTTGCGATAGTCCAA
18508 AATCGCAACG
Statistics
Matches: 143, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 40 0.28
42 102 0.71
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (42 bp):
TGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTTCGCGT
Found at i:18607 original size:6 final size:6
Alignment explanation
Indices: 18596--18628 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
18586 GACACGTATT
18596 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
18629 CGAGACGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:19423 original size:21 final size:21
Alignment explanation
Indices: 19397--19510 Score: 101
Period size: 21 Copynumber: 5.4 Consensus size: 21
19387 ATTTTGGACT
*
19397 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
*
19418 ATCGCAACGCAAACTTGGACT--
1 ATCGCAACG--AACTTGGAATAA
19439 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* * * * *
19460 ATTGTAACGCGACCTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
19481 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
19502 ATCGCAACG
1 ATCGCAACG
19511 CGAACTTCAA
Statistics
Matches: 72, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
19 18 0.25
21 37 0.51
23 17 0.24
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:19449 original size:42 final size:42
Alignment explanation
Indices: 19390--19517 Score: 202
Period size: 42 Copynumber: 3.0 Consensus size: 42
19380 CGTTGCGATT
* *
19390 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCAAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* * *
19432 TTGGACTATCGCAACGAACTTGGAATAAATTGTAACGCGACC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
*
19474 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
19516 TT
1 TT
19518 CAACCCCTTT
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (42 bp):
TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
Found at i:22048 original size:2 final size:2
Alignment explanation
Indices: 22041--22073 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
22031 ATAGGTAAAC
22041 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 A
22074 GGAAAAACCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23765 original size:21 final size:21
Alignment explanation
Indices: 23739--23779 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23729 CAAATAATAT
*
23739 TTTTAAA-AATATAATATTTTA
1 TTTTAAATAA-ATAAAATTTTA
23760 TTTTAAATAAATAAAATTTT
1 TTTTAAATAAATAAAATTTT
23780 CAAAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTTAAATAAATAAAATTTTA
Found at i:29764 original size:30 final size:30
Alignment explanation
Indices: 29728--29797 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
29718 AATTATCCTA
** *
29728 TTCATACATGAA-GTATATTCAATTCTCAGT
1 TTCATACATGAATGTATA-AAAATTCTCAAT
*
29758 TTCATACAT-AATGTTTAAAAATTCTCAAT
1 TTCATACATGAATGTATAAAAATTCTCAAT
29787 TTCATACATGA
1 TTCATACATGA
29798 TATTTTATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 20 0.59
30 14 0.41
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (30 bp):
TTCATACATGAATGTATAAAAATTCTCAAT
Found at i:31534 original size:2 final size:2
Alignment explanation
Indices: 31527--31581 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
31517 AAGCCTATTA
31527 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
31569 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
31582 GGTAGCAGTC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:33092 original size:31 final size:31
Alignment explanation
Indices: 33057--33117 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
33047 TTGCTACTGT
*
33057 TAGTGGTCCCAAACCAATCCTAGATTATGAC
1 TAGTGGTCCCAAACCAATCCTAGATAATGAC
33088 TAGTGGTCCCAAACCAATCCTAGATAATGA
1 TAGTGGTCCCAAACCAATCCTAGATAATGA
33118 GGACATTACG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (31 bp):
TAGTGGTCCCAAACCAATCCTAGATAATGAC
Found at i:37665 original size:13 final size:15
Alignment explanation
Indices: 37640--37675 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
37630 TATCCCATAT
37640 TAAAATAAATATA-A
1 TAAAATAAATATACA
37654 TAAAAT-AATATACA
1 TAAAATAAATATACA
37668 T-AAATAAA
1 TAAAATAAA
37676 GAAAGAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAAATAAATATACA
Found at i:38983 original size:21 final size:21
Alignment explanation
Indices: 38942--38983 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
38932 GTTTTCAATT
* *
38942 AAATCCATATTTTATTGAATA
1 AAATCAATATTTTATTAAATA
38963 AAATCAATATTTT-TATAAATA
1 AAATCAATATTTTAT-TAAATA
38984 TAATTGTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (21 bp):
AAATCAATATTTTATTAAATA
Found at i:40975 original size:27 final size:28
Alignment explanation
Indices: 40935--40993 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
40925 TAAAGCCAAC
*
40935 CCAACTTGTTTTTAAAAGATCAA-AACA
1 CCAACTTGTTTTTAAAACATCAAGAACA
*
40962 CCAACTT-TTCTTTAAAACTTCAAGAACA
1 CCAACTTGTT-TTTAAAACATCAAGAACA
40990 CCAA
1 CCAA
40994 GAACACTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 2 0.07
27 18 0.64
28 8 0.29
ACGTcount: A:0.42, C:0.24, G:0.05, T:0.29
Consensus pattern (28 bp):
CCAACTTGTTTTTAAAACATCAAGAACA
Found at i:41741 original size:30 final size:30
Alignment explanation
Indices: 41705--41777 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
41695 AAAATCGAAT
*
41705 TAAACGGGGATGGGGAAAAATCGTTTATGC
1 TAAACGGGGATGGAGAAAAATCGTTTATGC
*
41735 TAAACGGGGATGAAGAAAAATCGTTTATGC
1 TAAACGGGGATGGAGAAAAATCGTTTATGC
*
41765 TAAACAGGGATGG
1 TAAACGGGGATGG
41778 TGACGGGGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.37, C:0.10, G:0.32, T:0.22
Consensus pattern (30 bp):
TAAACGGGGATGGAGAAAAATCGTTTATGC
Found at i:41937 original size:12 final size:12
Alignment explanation
Indices: 41920--41950 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
41910 AAATATATAT
41920 ATACCCGACCCA
1 ATACCCGACCCA
*
41932 ATACCCGACCCG
1 ATACCCGACCCA
41944 ATACCCG
1 ATACCCG
41951 TTTAAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.48, G:0.13, T:0.10
Consensus pattern (12 bp):
ATACCCGACCCA
Found at i:43507 original size:128 final size:128
Alignment explanation
Indices: 43279--43592 Score: 282
Period size: 128 Copynumber: 2.5 Consensus size: 128
43269 TTTCAAATTT
* * *
43279 GATCTTCTTGAAGAGTAGTGAAAAAAATCAACCTCTATTCAACTTTCCCTGAAGAGTAGTAGAGT
1 GATCTTCTTGAAGAATAGTGAAAAAAATCAACCTCTATACAACTTTCCATGAAGAGTAGTAGAGT
* * *
43344 AAATCAAAATTTCTAGATTTAGCCTTTCAAAAGAGTAGTTAAGTAGATCATTTTCCCATATTC
66 AAATCAAAATTTCTAAATATAGCATTTCAAAAGAGTAGTTAAGTAGATCATTTTCCCATATTC
* *
43407 GATCTTCTTGAAGAATAGT-AAAGCAAATCAACCTC-ACTACAACTTTCCATGAAGAGTAGTTGA
1 GATCTTCTTGAAGAATAGTGAAA-AAAATCAACCTCTA-TACAACTTTCCATGAAGAGTAGTAGA
* * * * * *
43470 GTGAAT-AAGAATTT-TCAAATAT-G-ATATTCCTAAAGAGTAGTGAAGCAAAT-AGTTTTACCA
64 GTAAATCAA-AATTTCT-AAATATAGCAT-TT-CAAAAGAGTAGTTAAGTAGATCA-TTTTCCCA
* *
43530 TGTTT
124 TATTC
* * * ** * * * * *
43535 GATATTCTTAAAGAGTAGTGAGGAAAATCAACCACAATTCAACTTTCCCTAAAGAGTA
1 GATCTTCTTGAAGAATAGTGAAAAAAATCAACCTCTATACAACTTTCCATGAAGAGTA
43593 TGTAAATAAA
Statistics
Matches: 151, Mismatches: 26, Indels: 18
0.77 0.13 0.09
Matches are distributed among these distances:
126 1 0.01
127 11 0.07
128 137 0.91
129 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (128 bp):
GATCTTCTTGAAGAATAGTGAAAAAAATCAACCTCTATACAACTTTCCATGAAGAGTAGTAGAGT
AAATCAAAATTTCTAAATATAGCATTTCAAAAGAGTAGTTAAGTAGATCATTTTCCCATATTC
Found at i:47563 original size:2 final size:2
Alignment explanation
Indices: 47558--47589 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
47548 GTGTGAAGTG
47558 AT AT AT GAT 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 A
47590 GTTGTCATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:47751 original size:12 final size:12
Alignment explanation
Indices: 47736--47767 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
47726 TAATCATGTT
47736 AATAATGATAAG
1 AATAATGATAAG
*
47748 AATAATAATAAG
1 AATAATGATAAG
47760 AATAATGA
1 AATAATGA
47768 AATGATATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (12 bp):
AATAATGATAAG
Found at i:49569 original size:15 final size:14
Alignment explanation
Indices: 49513--49568 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
49503 AATATAATAA
49513 ATAAAATAAATATT
1 ATAAAATAAATATT
* *
49527 ATTAAATAACTA-T
1 ATAAAATAAATATT
*
49540 ACAGAAATTAAATAATT
1 ATA-AAA-TAAAT-ATT
49557 ATAAAATAAATA
1 ATAAAATAAATA
49569 AAAACTATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
13 2 0.06
14 14 0.44
15 9 0.28
16 4 0.12
17 3 0.09
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (14 bp):
ATAAAATAAATATT
Found at i:55444 original size:22 final size:20
Alignment explanation
Indices: 55419--55458 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
55409 ACGTTCTTAG
55419 TTTATTTATTTGAGAAAAATAC
1 TTTATTTATTT-A-AAAAATAC
55441 TTTATTTATTTAAAAAAT
1 TTTATTTATTTAAAAAAT
55459 TCAATGCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTATTTATTTAAAAAATAC
Found at i:59449 original size:11 final size:10
Alignment explanation
Indices: 59424--59448 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
59414 TCCCATATTG
59424 TTTTTGTTTT
1 TTTTTGTTTT
59434 TTTTTGTTTT
1 TTTTTGTTTT
59444 TTTTT
1 TTTTT
59449 TCATTCCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:68998 original size:19 final size:19
Alignment explanation
Indices: 68976--69026 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
68966 GAGGAATTTC
68976 AAAAAAAAAAAAAAAAGTG
1 AAAAAAAAAAAAAAAAGTG
* *
68995 AAAAAACAAATAAAAAGTG
1 AAAAAAAAAAAAAAAAGTG
69014 AAAAATAAAAAAA
1 AAAAA-AAAAAAA
69027 GAGAGGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 22 0.81
20 5 0.19
ACGTcount: A:0.82, C:0.02, G:0.08, T:0.08
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAAGTG
Found at i:69246 original size:17 final size:17
Alignment explanation
Indices: 69224--69271 Score: 96
Period size: 17 Copynumber: 2.8 Consensus size: 17
69214 GCTTGTCACT
69224 TTTATTTGATTATCTTG
1 TTTATTTGATTATCTTG
69241 TTTATTTGATTATCTTG
1 TTTATTTGATTATCTTG
69258 TTTATTTGATTATC
1 TTTATTTGATTATC
69272 ATGTCTAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.19, C:0.06, G:0.10, T:0.65
Consensus pattern (17 bp):
TTTATTTGATTATCTTG
Found at i:69253 original size:8 final size:8
Alignment explanation
Indices: 69225--69270 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
69215 CTTGTCACTT
69225 TTATTTGA
1 TTATTTGA
*
69233 TTATCTTGT
1 TTAT-TTGA
69242 TTATTTGA
1 TTATTTGA
*
69250 TTATCTTGT
1 TTAT-TTGA
69259 TTATTTGA
1 TTATTTGA
69267 TTAT
1 TTAT
69271 CATGTCTAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 18 0.56
9 14 0.44
ACGTcount: A:0.20, C:0.04, G:0.11, T:0.65
Consensus pattern (8 bp):
TTATTTGA
Found at i:72309 original size:20 final size:21
Alignment explanation
Indices: 72284--72338 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
72274 ATTCGTTAGA
72284 GTCATATCTACTATCATAC-T
1 GTCATATCTACTATCATACAT
72304 GTCATATCTA-T-TCA-ACAT
1 GTCATATCTACTATCATACAT
72322 GTCA-ATCTACTGATCAT
1 GTCATATCTACT-ATCAT
72339 GATCCTAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
17 7 0.23
18 9 0.30
19 1 0.03
20 13 0.43
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (21 bp):
GTCATATCTACTATCATACAT
Found at i:75851 original size:19 final size:19
Alignment explanation
Indices: 75834--75901 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
75824 TGAAAAGATT
75834 TAATAAAATAAAATAGATAA
1 TAAT-AAATAAAATAGATAA
*
75854 TAATAAATAAAA-AGGAAAA
1 TAATAAATAAAATA-GATAA
* *
75873 TAATAAA-ATAATAAATAA
1 TAATAAATAAAATAGATAA
*
75891 TAGT-AATAAAA
1 TAATAAATAAAA
75902 AGGGGGTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
17 2 0.05
18 13 0.33
19 20 0.51
20 4 0.10
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (19 bp):
TAATAAATAAAATAGATAA
Found at i:75963 original size:17 final size:18
Alignment explanation
Indices: 75927--75968 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
75917 ATTGTTTTTA
75927 AAATAAAAGATAAGAATT
1 AAATAAAAGATAAGAATT
*
75945 AAATAAAAGA-AATAATT
1 AAATAAAAGATAAGAATT
75962 AAATAAA
1 AAATAAA
75969 TAATCGAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGATAAGAATT
Found at i:76666 original size:32 final size:32
Alignment explanation
Indices: 76624--76740 Score: 85
Period size: 32 Copynumber: 3.3 Consensus size: 32
76614 TTTAAACTAA
76624 AATA-CCTAAAACAAAGATAAAATATAAAAAT
1 AATATCCTAAAACAAAGATAAAATATAAAAAT
* *
76655 AATATCCTAAAACTTAA-TTAAAATACTAAAACCAATTT
1 AATATCCTAAAAC-AAAGATAAAATA-T-AAA--AA--T
76693 AAACTAAAATACCTAAAACAAAGATAAAATATAAAAAT
1 -AA-T---AT-CCTAAAACAAAGATAAAATATAAAAAT
76731 AATATCCTAA
1 AATATCCTAA
76741 CACTGAATTA
Statistics
Matches: 67, Mismatches: 4, Indels: 29
0.67 0.04 0.29
Matches are distributed among these distances:
31 4 0.06
32 20 0.30
33 5 0.07
34 3 0.04
36 3 0.04
37 2 0.03
38 2 0.03
39 2 0.03
40 3 0.04
42 3 0.04
43 5 0.07
44 15 0.22
ACGTcount: A:0.62, C:0.13, G:0.02, T:0.24
Consensus pattern (32 bp):
AATATCCTAAAACAAAGATAAAATATAAAAAT
Found at i:76693 original size:76 final size:76
Alignment explanation
Indices: 76593--76800 Score: 341
Period size: 76 Copynumber: 2.8 Consensus size: 76
76583 TCTTAAATCC
*
76593 TAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAA
1 TAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAA
76657 TATCCTAAAACT
65 TATCCTAAAACT
*
76669 TAATTAAAATACTAAAACCAATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
1 TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
*
76734 ATCCTAACACT
66 ATCCTAAAACT
* *
76745 GAATTAAAATACT--AACCTATTTAAACTAAAATACCTAAAAAAAAGATAAAATATAA
1 TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
76801 TATTTAAAAT
Statistics
Matches: 125, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
74 41 0.33
75 5 0.04
76 79 0.63
ACGTcount: A:0.60, C:0.13, G:0.02, T:0.25
Consensus pattern (76 bp):
TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
ATCCTAAAACT
Found at i:78711 original size:5 final size:5
Alignment explanation
Indices: 78701--78838 Score: 72
Period size: 5 Copynumber: 27.8 Consensus size: 5
78691 TGTTCAGAGA
* * * *
78701 AAAAT AAAAT AAAAT TAATT AAAAT AAAAT -AAAT AGAAT GAAAAT AAAGTTT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAA--AT
** * * * * *
78753 GCTAA- AAAAT AAAAT AAAAAT AAAAC GAAAT AAAAC GAAAT AAAA- AATA-
1 -AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
* *
78802 AAAAT AAAAT GAAAT AAAAT AAAA- AATA- AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
78839 AATAGAACGA
Statistics
Matches: 98, Mismatches: 26, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
4 18 0.18
5 69 0.70
6 9 0.09
7 1 0.01
8 1 0.01
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:78772 original size:6 final size:6
Alignment explanation
Indices: 78757--78839 Score: 59
Period size: 6 Copynumber: 13.8 Consensus size: 6
78747 AAGTTTGCTA
**
78757 AAAAAT -AAAAT AAAAAT AAAACG AAATAA- AACGAAAT AAAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT AA--AAAT -AAAAAT AAAAAT
*
78807 -AAAAT -GAAAT -AAAAT AAAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT AAAAA
78840 ATAGAACGAA
Statistics
Matches: 64, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
5 18 0.28
6 31 0.48
7 12 0.19
8 1 0.02
9 2 0.03
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:78786 original size:28 final size:28
Alignment explanation
Indices: 78755--78838 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 28
78745 TAAAGTTTGC
78755 TAAAAAATAAAATAAAAATAAAACGAAA
1 TAAAAAATAAAATAAAAATAAAACGAAA
*
78783 TAAAACGAAATAAAAAATAAAAATAAAATGAAA
1 T-AAA--AAAT--AAAATAAAAATAAAACGAAA
78816 TAAAATAA-AAAATAAAAATAAAA
1 TAAAA-AATAAAATAAAAATAAAA
78839 AATAGAACGA
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
28 16 0.33
29 3 0.06
30 1 0.02
31 6 0.12
32 3 0.06
33 20 0.41
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (28 bp):
TAAAAAATAAAATAAAAATAAAACGAAA
Found at i:78802 original size:7 final size:7
Alignment explanation
Indices: 78790--78842 Score: 58
Period size: 7 Copynumber: 7.7 Consensus size: 7
78780 AAATAAAACG
78790 AAATAAA
1 AAATAAA
78797 AAAT-AA
1 AAATAAA
78803 AAATAAA
1 AAATAAA
*
78810 ATGAA-ATA
1 A--AATAAA
78818 AAATAAA
1 AAATAAA
78825 AAAT-AA
1 AAATAAA
78831 AAATAAA
1 AAATAAA
78838 AAATA
1 AAATA
78843 GAACGAAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
6 14 0.36
7 20 0.51
8 3 0.08
9 2 0.05
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (7 bp):
AAATAAA
Found at i:78810 original size:23 final size:22
Alignment explanation
Indices: 78780--78832 Score: 79
Period size: 23 Copynumber: 2.4 Consensus size: 22
78770 AAATAAAACG
78780 AAATAAAACGAAATAAAAAATAA
1 AAATAAAACGAAATAAAAAA-AA
* *
78803 AAATAAAATGAAATAAAATAAA
1 AAATAAAACGAAATAAAAAAAA
78825 AAATAAAA
1 AAATAAAA
78833 ATAAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (22 bp):
AAATAAAACGAAATAAAAAAAA
Found at i:84309 original size:19 final size:19
Alignment explanation
Indices: 84292--84350 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
84282 TGAAAAGATT
84292 TAATAAAATAAAATAGATAA
1 TAAT-AAATAAAATAGATAA
** *
84312 TAATAAATAAAAGGGAAAA
1 TAATAAATAAAATAGATAA
* *
84331 TAATAAA-ATAATAAATAA
1 TAATAAATAAAATAGATAA
84349 TA
1 TA
84351 GTAGTAAAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
18 8 0.26
19 19 0.61
20 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (19 bp):
TAATAAATAAAATAGATAA
Found at i:85127 original size:32 final size:32
Alignment explanation
Indices: 85086--85204 Score: 89
Period size: 32 Copynumber: 3.4 Consensus size: 32
85076 TTTATACTAA
85086 AATA-CCTAAAACAAAGATAAAATATAAAAAT
1 AATATCCTAAAACAAAGATAAAATATAAAAAT
* *
85117 AATATCCTAAAACTTAA-TTAAAATACTAAAACTATTT
1 AATATCCTAAAAC-AAAGATAAAATA-TAAAA--A--T
*
85154 AAACTAAAATACCTATAACAAAGATAAAATATAAAAAT
1 -AA-T---AT-CCTAAAACAAAGATAAAATATAAAAAT
85192 AATATCCTAAAAC
1 AATATCCTAAAAC
85205 TTAATTAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 27
0.67 0.06 0.27
Matches are distributed among these distances:
31 4 0.06
32 22 0.32
33 9 0.13
35 1 0.01
36 1 0.01
37 3 0.04
38 3 0.04
39 1 0.01
40 1 0.01
42 9 0.13
43 14 0.21
ACGTcount: A:0.61, C:0.13, G:0.02, T:0.25
Consensus pattern (32 bp):
AATATCCTAAAACAAAGATAAAATATAAAAAT
Found at i:85161 original size:75 final size:75
Alignment explanation
Indices: 85055--85260 Score: 376
Period size: 75 Copynumber: 2.7 Consensus size: 75
85045 TCTTGAATCC
*
85055 TAATTAAAATACTTAAAACTATTTATACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
1 TAATTAAAATAC-TAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
85120 ATCCTAAAACT
65 ATCCTAAAACT
*
85131 TAATTAAAATACTAAAACTATTTAAACTAAAATACCTATAACAAAGATAAAATATAAAAATAATA
1 TAATTAAAATACTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAATA
85196 TCCTAAAACT
66 TCCTAAAACT
85206 TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATA
1 TAATTAAAATACTAAAA-CTATTTAAACTAAAATACCTAAAACAAAGATAAAATA
85261 AAATATTTAA
Statistics
Matches: 126, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
75 78 0.62
76 48 0.38
ACGTcount: A:0.59, C:0.12, G:0.01, T:0.28
Consensus pattern (75 bp):
TAATTAAAATACTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAATA
TCCTAAAACT
Found at i:91794 original size:55 final size:55
Alignment explanation
Indices: 91710--92757 Score: 778
Period size: 55 Copynumber: 19.1 Consensus size: 55
91700 ATACTTGAAA
* * * * *
91710 AATCTTAGGAAAACGGGTCCGCTCCCTCTTATTTTC-GGGAGTATAGGACTCAAAC
1 AATCTTCGAAAAATGGGTCCGCTCCCTCTT-CTTTCAGGGAGTATAGGACTCGAAC
* * *
91765 AATCTTCGAAAAATGGGTCCGCTCCCTCTTTTTTCAGGGAGTATAGAACTTGAAC
1 AATCTTCGAAAAATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAC
* *
91820 AATCTTCGAAAAATGTGTCCGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAAC
1 AATCTTCGAAAAATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAC
* * ** * * * * ** *
91875 AATCTT-AAGAAAATGTGTATGCTCCTTTTTATTTCAAGGAGTATAAAACTTGAAC
1 AATCTTCGA-AAAATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAC
* * ** * * * *
91930 GATCTTTGGGAAATGGGCCCGCTCCCTCTTCTTTCAGAGAGTATAGGACTTGAAT
1 AATCTTCGAAAAATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAC
** * * * ** *
91985 AATCTTCGGCAAACGGGTCCGCTCCATCTTCTTTCAAGGAGTATAATACTTGAAC
1 AATCTTCGAAAAATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAC
* * * * * *
92040 AATTTTC-AGCAAACGTGTCCTCTCCCTCTTCTTTCAAGGAGTATAGGACTCGAAC
1 AATCTTCGA-AAAATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAC
* *
92095 AATCTTCAGAAAACAT--GTACGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAAC
1 AATCTTC-GAAAA-ATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAC
* ** ** * * * **
92150 AATCTTCAGCAAACA--GGTATGCTCTATCTTCATTCAAGGACTATAGGACTTAAAC
1 AATCTTC-G-AAAAATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAC
* ** ** * *
92205 AATCTTC-AGAAAATGTGTATGCTCTTTCTTCTTTCAAGGAGTATAGGACTTGAAC
1 AATCTTCGA-AAAATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAC
* * * *
92260 AATCTTC-AGGAAACGGGTCTGCTCCCTCTTCTTTC-GAAGAGTATAGGACTCGAAC
1 AATCTTCGA-AAAATGGGTCCGCTCCCTCTTCTTTCAG-GGAGTATAGGACTCGAAC
** * * * * **
92315 AATCTTCGGTAAACGGGTCCGATCCATCTTCTTTCAAGGAGTATAGGACTTAAAC
1 AATCTTCGAAAAATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAC
* * * * * *
92370 AATCTTCAAAAAACT-TGTCCGCT-CCTATTTCTTTTAAGGAGTATAGGACTTGAAC
1 AATCTTCGAAAAA-TGGGTCCGCTCCCT-CTTCTTTCAGGGAGTATAGGACTCGAAC
** *
92425 AATCTTCGGGAAATGGGTCTGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAC
1 AATCTTCGAAAAATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAC
* * * * * * *
92480 ACTCTTC-AGTAAACGTGTTCGCTCCCTCTTCTTTTAGGGAGTATAAGACTCGAAC
1 AATCTTCGA-AAAATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAC
* * * * *
92535 AATCTTCAAAAAATAGGTCCACTCCGTCTTCTTTCAAGGAGTATAGGACTCGAAC
1 AATCTTCGAAAAATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAC
* * * *
92590 AATCTTCAGCAAAA-GTGTCCTCTCCCTATTCTTTCAGGGAGTATAGGACTCGAAC
1 AATCTTC-GAAAAATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAC
* * ** * * *
92645 AATCTT-TAGTAAATGGGTTTGTTCCCTAATT-TTTCAGGGAGTATAGGACTTGAAC
1 AATCTTCGA-AAAATGGGTCCGCTCCCT-CTTCTTTCAGGGAGTATAGGACTCGAAC
* * ** * * ** ** * *
92700 AATTTTTGGCAAACGAGTCCATTCATTCTTCTTTCAAGGAGTATAGGACTTGAAC
1 AATCTTCGAAAAATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAC
92755 AAT
1 AAT
92758 TGATCTGCTT
Statistics
Matches: 800, Mismatches: 166, Indels: 54
0.78 0.16 0.05
Matches are distributed among these distances:
52 1 0.00
53 3 0.00
54 14 0.02
55 764 0.95
56 16 0.02
57 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (55 bp):
AATCTTCGAAAAATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAC
Found at i:91899 original size:110 final size:110
Alignment explanation
Indices: 91702--92757 Score: 910
Period size: 110 Copynumber: 9.6 Consensus size: 110
91692 AATAAGTGAT
* * * * * *
91702 ACTTGAAAAATCTTAGGAAAACGGGTCCGCTCCCTCTTATTTTC-GGGAGTATAGGACTCAAACA
1 ACTTGAACAATCTTCGAAAAACGTGTCCGCTCCCTCTT-CTTTCAGGGAGTATAGGACTCGAACA
* * *
91766 ATCTTC-GAAAAATGGGTCCGCTCCCTCTTTTTTCAGGGAGTATAGA
65 ATCTTCAG-AAAATGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGG
* *
91812 ACTTGAACAATCTTCGAAAAATGTGTCCGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAA
1 ACTTGAACAATCTTCGAAAAACGTGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAA
* * ** * * * **
91877 TCTTAAGAAAATGTGTATGCTCCTTTTTATTTCAAGGAGTATAAA
66 TCTTCAGAAAATGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGG
* * ** * * * * * *
91922 ACTTGAACGATCTTTGGGAAATGGGCCCGCTCCCTCTTCTTTCAGAGAGTATAGGACTTGAATAA
1 ACTTGAACAATCTTCGAAAAACGTGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAA
* * * * **
91987 TCTTCGGCAAACGGGTCCGCTCCATCTTCTTTCAAGGAGTATAAT
66 TCTTCAGAAAATGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGG
* * * *
92032 ACTTGAACAATTTTC-AGCAAACGTGTCCTCTCCCTCTTCTTTCAAGGAGTATAGGACTCGAACA
1 ACTTGAACAATCTTCGA-AAAACGTGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACA
*** * * *
92096 ATCTTCAGAAAACATGTACGCTCCCTATTCTTTCAGGGAGTATAGG
65 ATCTTCAGAAAATGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGG
* * ** ** * * * **
92142 ACTCGAACAATCTTC-AGCAAACAG-GTATGCTCTATCTTCATTCAAGGACTATAGGACTTAAAC
1 ACTTGAACAATCTTCGA-AAAAC-GTGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAAC
* ** **
92205 AATCTTCAGAAAATGTGTATGCTCTTTCTTCTTTCAAGGAGTATAGG
64 AATCTTCAGAAAATGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGG
* * * *
92252 ACTTGAACAATCTTC-AGGAAACGGGTCTGCTCCCTCTTCTTTC-GAAGAGTATAGGACTCGAAC
1 ACTTGAACAATCTTCGA-AAAACGTGTCCGCTCCCTCTTCTTTCAG-GGAGTATAGGACTCGAAC
* * * * *
92315 AATCTTCGGTAAACGGGTCCGATCCATCTTCTTTCAAGGAGTATAGG
64 AATCTTCAGAAAATGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGG
* * * * * * *
92362 ACTTAAACAATCTTCAAAAAACTTGTCCGCT-CCTATTTCTTTTAAGGAGTATAGGACTTGAACA
1 ACTTGAACAATCTTCGAAAAACGTGTCCGCTCCCT-CTTCTTTCAGGGAGTATAGGACTCGAACA
* * * *
92426 ATCTTCGGGAAATGGGTCTGCTCCCTCTTCTTTCAGGGAGTATAGG
65 ATCTTCAGAAAATGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGG
* * * * * *
92472 ACTCGAACACTCTTC-AGTAAACGTGTTCGCTCCCTCTTCTTTTAGGGAGTATAAGACTCGAACA
1 ACTTGAACAATCTTCGA-AAAACGTGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACA
* * * *
92536 ATCTTCAAAAAATAGGTCCACTCCGTCTTCTTTCAAGGAGTATAGG
65 ATCTTCAGAAAATGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGG
* * * *
92582 ACTCGAACAATCTTCAGCAAAA-GTGTCCTCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACA
1 ACTTGAACAATCTTC-GAAAAACGTGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACA
* * ** * * *
92646 ATCTTTAGTAAATGGGTTTGTTCCCTAATT-TTTCAGGGAGTATAGG
65 ATCTTCAGAAAATGGGTCCGCTCCCT-CTTCTTTCAAGGAGTATAGG
* * ** * ** ** * *
92692 ACTTGAACAATTTTTGGCAAACGAGTCCATTCATTCTTCTTTCAAGGAGTATAGGACTTGAACAA
1 ACTTGAACAATCTTCGAAAAACGTGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAA
92757 T
66 T
92758 TGATCTGCTT
Statistics
Matches: 766, Mismatches: 165, Indels: 30
0.80 0.17 0.03
Matches are distributed among these distances:
109 13 0.02
110 742 0.97
111 11 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (110 bp):
ACTTGAACAATCTTCGAAAAACGTGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAA
TCTTCAGAAAATGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGG
Found at i:91983 original size:165 final size:165
Alignment explanation
Indices: 91747--92757 Score: 939
Period size: 165 Copynumber: 6.1 Consensus size: 165
91737 CTTATTTTCG
** * *
91747 GGAGTATAGGACTCAAACAATCTTC-GAAAAATGGGTCCGCTCCCTCTTTTTTCAGGGAGTATAG
1 GGAGTATAGGACTTGAACAATCTTCAG-GAAATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAG
* * * * * * * * *
91811 AACTTGAACAATCTTCGAAAAATGTGTCCGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACA
65 GACTCGAACAATCTTCGATAAACGGGTCCGCTCCATCTTCTTTCAAGGAGTATAGGACTTGAACA
* *
91876 ATCTTAAGAAAATGTGTATGCTCCTTTTTATTTCAA
130 ATCTTAAGAAAATGTGTCTGCTCCTTTTTCTTTCAA
** * ** * *
91912 GGAGTATAAAACTTGAACGATCTTTGGGAAATGGGCCCGCTCCCTCTTCTTTCAGAGAGTATAGG
1 GGAGTATAGGACTTGAACAATCTTCAGGAAATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGG
* * ** **
91977 ACTTGAATAATCTTCGGCAAACGGGTCCGCTCCATCTTCTTTCAAGGAGTATAATACTTGAACAA
66 ACTCGAACAATCTTCGATAAACGGGTCCGCTCCATCTTCTTTCAAGGAGTATAGGACTTGAACAA
* * * * * *
92042 TTTTCAGCAAACGTGTCCT-CTCCCTCTTCTTTCAA
131 TCTTAAGAAAATGTGT-CTGCTCCTTTTTCTTTCAA
* * *** * *
92077 GGAGTATAGGACTCGAACAATCTTCAGAAAACATGTACGCTCCCTATTCTTTCAGGGAGTATAGG
1 GGAGTATAGGACTTGAACAATCTTCAGGAAATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGG
* * ** * * * *
92142 ACTCGAACAATCTTC-AGCAAACAGGTATGCTCTATCTTCATTCAAGGACTATAGGACTTAAACA
66 ACTCGAACAATCTTCGA-TAAACGGGTCCGCTCCATCTTCTTTCAAGGAGTATAGGACTTGAACA
* *
92206 ATCTTCAGAAAATGTGTATGCT-CTTTCTTCTTTCAA
130 ATCTTAAGAAAATGTGTCTGCTCCTTT-TTCTTTCAA
* * *
92242 GGAGTATAGGACTTGAACAATCTTCAGGAAACGGGTCTGCTCCCTCTTCTTTC-GAAGAGTATAG
1 GGAGTATAGGACTTGAACAATCTTCAGGAAATGGGTCCGCTCCCTCTTCTTTCAG-GGAGTATAG
* * *
92306 GACTCGAACAATCTTCGGTAAACGGGTCCGATCCATCTTCTTTCAAGGAGTATAGGACTTAAACA
65 GACTCGAACAATCTTCGATAAACGGGTCCGCTCCATCTTCTTTCAAGGAGTATAGGACTTGAACA
* * *
92371 ATCTTCAA-AAAACT-TGTCCGCTCCTATTTCTTTTAA
130 ATCTT-AAGAAAA-TGTGTCTGCTCCTTTTTCTTTCAA
* *
92407 GGAGTATAGGACTTGAACAATCTTCGGGAAATGGGTCTGCTCCCTCTTCTTTCAGGGAGTATAGG
1 GGAGTATAGGACTTGAACAATCTTCAGGAAATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGG
* * * * * * * *
92472 ACTCGAACACTCTTC-AGTAAACGTGTTCGCTCCCTCTTCTTTTAGGGAGTATAAGACTCGAACA
66 ACTCGAACAATCTTCGA-TAAACGGGTCCGCTCCATCTTCTTTCAAGGAGTATAGGACTTGAACA
** * *
92536 ATCTTCAA-AAAATAG-GTCCACTCCGTCTTCTTTCAA
130 ATCTT-AAGAAAAT-GTGTCTGCTCCTTTTTCTTTCAA
* * * * * *
92572 GGAGTATAGGACTCGAACAATCTTCAGCAAAAGTGTCCTCTCCCTATTCTTTCAGGGAGTATAGG
1 GGAGTATAGGACTTGAACAATCTTCAGGAAATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGG
* * ** * * * *
92637 ACTCGAACAATCTT-TAGTAAATGGGTTTGTTCCCTAATT-TTTCAGGGAGTATAGGACTTGAAC
66 ACTCGAACAATCTTCGA-TAAACGGGTCCGCTCCAT-CTTCTTTCAAGGAGTATAGGACTTGAAC
* ** * * * *** * *
92700 AATTTTTGGCAAACGAGTCCATTCATTCTTCTTTCAA
129 AATCTTAAGAAAATGTGTCTGCTCCTTTTTCTTTCAA
92737 GGAGTATAGGACTTGAACAAT
1 GGAGTATAGGACTTGAACAAT
92758 TGATCTGCTT
Statistics
Matches: 699, Mismatches: 129, Indels: 36
0.81 0.15 0.04
Matches are distributed among these distances:
164 6 0.01
165 683 0.98
166 10 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (165 bp):
GGAGTATAGGACTTGAACAATCTTCAGGAAATGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGG
ACTCGAACAATCTTCGATAAACGGGTCCGCTCCATCTTCTTTCAAGGAGTATAGGACTTGAACAA
TCTTAAGAAAATGTGTCTGCTCCTTTTTCTTTCAA
Found at i:94366 original size:170 final size:170
Alignment explanation
Indices: 94080--94403 Score: 639
Period size: 170 Copynumber: 1.9 Consensus size: 170
94070 AATTGCTGAA
94080 AGACCGAGTCCATCTTCTTATTGTTTAAATTTAATGCATTTTCGGGGATAATCCTCTATGGTAAA
1 AGACCGAGTCCATCTTCTTATTGTTTAAATTTAATGCATTTTCGGGGATAATCCTCTATGGTAAA
94145 CCATATCTACAAATGATTTCCTTCTTTAAGAATTTACATACTGTAGACTGGGTAACATTTTCATA
66 CCATATCTACAAATGATTTCCTTCTTTAAGAATTTACATACTGTAGACTGGGTAACATTTTCATA
94210 GGAAGTTGATTCTACCCATTTGGTAAACCAGTATGCTCAC
131 GGAAGTTGATTCTACCCATTTGGTAAACCAGTATGCTCAC
94250 AGACCGAGTCCATCTTCTTATTGTTTAAATTTAATGCATTTTCGGGGATAATCCTCTATGGTAAA
1 AGACCGAGTCCATCTTCTTATTGTTTAAATTTAATGCATTTTCGGGGATAATCCTCTATGGTAAA
*
94315 CCATATCTACAAATGATTTCCTTCTTTAAGAATTTACATACTGTCGACTGGGTAACATTTTCATA
66 CCATATCTACAAATGATTTCCTTCTTTAAGAATTTACATACTGTAGACTGGGTAACATTTTCATA
94380 GGAAGTTGATTCTACCCATTTGGT
131 GGAAGTTGATTCTACCCATTTGGT
94404 GAAATGATCT
Statistics
Matches: 153, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 153 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (170 bp):
AGACCGAGTCCATCTTCTTATTGTTTAAATTTAATGCATTTTCGGGGATAATCCTCTATGGTAAA
CCATATCTACAAATGATTTCCTTCTTTAAGAATTTACATACTGTAGACTGGGTAACATTTTCATA
GGAAGTTGATTCTACCCATTTGGTAAACCAGTATGCTCAC
Found at i:95831 original size:472 final size:472
Alignment explanation
Indices: 94947--95890 Score: 1861
Period size: 472 Copynumber: 2.0 Consensus size: 472
94937 AAATTTAATG
94947 CATTTTCGGGGATAATCCTCTATGGTAAACCATATCTACAAATGATTTCCTTCTTTAAGAATTTA
1 CATTTTCGGGGATAATCCTCTATGGTAAACCATATCTACAAATGATTTCCTTCTTTAAGAATTTA
95012 CATACTGTCGACTGGGTAACATTTTCATAGGAAGTTGATTCTACCCATTTGGTGAAATGATCTAT
66 CATACTGTCGACTGGGTAACATTTTCATAGGAAGTTGATTCTACCCATTTGGTGAAATGATCTAT
95077 TGCTACCAGAATAAAGCAATGACCATTTGAAGCTTTGGGCAAGATTTGTCCAATCACTTCCATGC
131 TGCTACCAGAATAAAGCAATGACCATTTGAAGCTTTGGGCAAGATTTGTCCAATCACTTCCATGC
95142 CCCACATTGAGAATGGCTACGGAGCTGTATCACATGCAACGGATGAGGAGGGGTATGTATCCTAT
196 CCCACATTGAGAATGGCTACGGAGCTGTATCACATGCAACGGATGAGGAGGGGTATGTATCCTAT
*
95207 CTCCATAAATCCGACATTTGTGACATTTTTTGGCATACTTGATACAGTCAGTTTCCATAGTTCAC
261 CTCAATAAATCCGACATTTGTGACATTTTTTGGCATACTTGATACAGTCAGTTTCCATAGTTCAC
95272 CAATAACACCCAAATCTCATAATTTGCCTAGCCATTACATGCCCATTGGCATGGGTATCACATAT
326 CAATAACACCCAAATCTCATAATTTGCCTAGCCATTACATGCCCATTGGCATGGGTATCACATAT
95337 TCATTCATGCAATTCTTCAAGAATTATTTTAGCTTCTTTAGTGTCCACACACCTTAATAGGACAT
391 TCATTCATGCAATTCTTCAAGAATTATTTTAGCTTCTTTAGTGTCCACACACCTTAATAGGACAT
95402 GATCCAAGCTTTTCTTA
456 GATCCAAGCTTTTCTTA
95419 CATTTTCGGGGATAATCCTCTATGGTAAACCATATCTACAAATGATTTCCTTCTTTAAGAATTTA
1 CATTTTCGGGGATAATCCTCTATGGTAAACCATATCTACAAATGATTTCCTTCTTTAAGAATTTA
*
95484 CATACTGTCGACTTGGTAACATTTTCATAGGAAGTTGATTCTACCCATTTGGTGAAATGATCTAT
66 CATACTGTCGACTGGGTAACATTTTCATAGGAAGTTGATTCTACCCATTTGGTGAAATGATCTAT
*
95549 TGCTACCAGAATAAAGCGATGACCATTTGAAGCTTTGGGCAAGATTTGTCCAATCACTTCCATGC
131 TGCTACCAGAATAAAGCAATGACCATTTGAAGCTTTGGGCAAGATTTGTCCAATCACTTCCATGC
95614 CCCACATTGAGAATGGCTACGGAGCTGTATCACATGCAACGGATGAGGAGGGGTATGTATCCTAT
196 CCCACATTGAGAATGGCTACGGAGCTGTATCACATGCAACGGATGAGGAGGGGTATGTATCCTAT
95679 CTCAATAAATCCGACATTTGTGACATTTTTTGGCATACTTGATACAGTCAGTTTCCATAGTTCAC
261 CTCAATAAATCCGACATTTGTGACATTTTTTGGCATACTTGATACAGTCAGTTTCCATAGTTCAC
95744 CAATAACACCCAAATCTCATAATTTGCCTAGCCATTACATGCCCATTGGCATGGGTATCACATAT
326 CAATAACACCCAAATCTCATAATTTGCCTAGCCATTACATGCCCATTGGCATGGGTATCACATAT
95809 TCATTCATGCAATTCTTCAAGAATTATTTTAGCTTCTTTAGTGTCCACACACCTTAATAGGACAT
391 TCATTCATGCAATTCTTCAAGAATTATTTTAGCTTCTTTAGTGTCCACACACCTTAATAGGACAT
95874 GATCCAAGCTTTTCTTA
456 GATCCAAGCTTTTCTTA
95891 TATAGGCTCT
Statistics
Matches: 469, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
472 469 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (472 bp):
CATTTTCGGGGATAATCCTCTATGGTAAACCATATCTACAAATGATTTCCTTCTTTAAGAATTTA
CATACTGTCGACTGGGTAACATTTTCATAGGAAGTTGATTCTACCCATTTGGTGAAATGATCTAT
TGCTACCAGAATAAAGCAATGACCATTTGAAGCTTTGGGCAAGATTTGTCCAATCACTTCCATGC
CCCACATTGAGAATGGCTACGGAGCTGTATCACATGCAACGGATGAGGAGGGGTATGTATCCTAT
CTCAATAAATCCGACATTTGTGACATTTTTTGGCATACTTGATACAGTCAGTTTCCATAGTTCAC
CAATAACACCCAAATCTCATAATTTGCCTAGCCATTACATGCCCATTGGCATGGGTATCACATAT
TCATTCATGCAATTCTTCAAGAATTATTTTAGCTTCTTTAGTGTCCACACACCTTAATAGGACAT
GATCCAAGCTTTTCTTA
Found at i:101917 original size:20 final size:21
Alignment explanation
Indices: 101894--101937 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
101884 ATGCGGTGCA
**
101894 AAAAAATTTAAATGCAT-TGC
1 AAAAAATAAAAATGCATATGC
101914 -AAAAATAAAAATGCATATGC
1 AAAAAATAAAAATGCATATGC
101934 AAAA
1 AAAA
101938 TGCAAGGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
19 14 0.70
20 3 0.15
21 3 0.15
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.23
Consensus pattern (21 bp):
AAAAAATAAAAATGCATATGC
Found at i:106048 original size:2 final size:2
Alignment explanation
Indices: 106041--106116 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
106031 ACATACATAC
106041 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
106083 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
106117 CCATACAACA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112037 original size:45 final size:45
Alignment explanation
Indices: 111968--112202 Score: 335
Period size: 45 Copynumber: 5.2 Consensus size: 45
111958 AAATAAATGA
* *
111968 ATAAATGAAATGCGTAACGGTGCATTATAGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAACAGTGCATTATAGGCATGAAAGGATGCC
* * * * *
112013 ATAAATGAAATTCATAACAATGCATTATAGGTATAAAAGGATGTC
1 ATAAATGAAATGCATAACAGTGCATTATAGGCATGAAAGGATGCC
* *
112058 ATAAATGAAATTCATAACAGTACATTATAGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAACAGTGCATTATAGGCATGAAAGGATGCC
*
112103 ATAAATGAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAACAGTGCATTATAGGCATGAAAGGATGCC
* * * * *
112148 ATAAATGAAATGCATAACAATACATTCTAGGAATGAAAGTATGCC
1 ATAAATGAAATGCATAACAGTGCATTATAGGCATGAAAGGATGCC
112193 ATAAATGAAA
1 ATAAATGAAA
112203 GTAAGGAATA
Statistics
Matches: 169, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 169 1.00
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.24
Consensus pattern (45 bp):
ATAAATGAAATGCATAACAGTGCATTATAGGCATGAAAGGATGCC
Found at i:118025 original size:20 final size:20
Alignment explanation
Indices: 117996--118047 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
117986 TAGTATAGAA
* *
117996 GTATCGATACTAAGAGAAAG
1 GTATCAATACCAAGAGAAAG
*
118016 GTATCAATACCATGAGAAAG
1 GTATCAATACCAAGAGAAAG
118036 GTATCAATACCA
1 GTATCAATACCA
118048 TGGATTACAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.21
Consensus pattern (20 bp):
GTATCAATACCAAGAGAAAG
Found at i:118048 original size:20 final size:20
Alignment explanation
Indices: 118009--118049 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
117999 TCGATACTAA
118009 GAGAAAGGTATCAATACCAT
1 GAGAAAGGTATCAATACCAT
118029 GAGAAAGGTATCAATACCAT
1 GAGAAAGGTATCAATACCAT
118049 G
1 G
118050 GATTACAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.20
Consensus pattern (20 bp):
GAGAAAGGTATCAATACCAT
Found at i:118101 original size:115 final size:115
Alignment explanation
Indices: 117899--118120 Score: 365
Period size: 115 Copynumber: 1.9 Consensus size: 115
117889 ATATTGCTGT
* * * *
117899 AGGTATCGATACCGAGAGAAAGGTATCGATACCAGGGATTCCAGAATGTAGAAATGGTATCGATA
1 AGGTATCAATACCGAGAGAAAGGTATCAATACCAGGGATTACAGAATGTAGAAATGATATCGATA
* *
117964 CTGAAATGGAGTATCTGTACCATAGTATAGAAGTATCGATACTAAGAGAA
66 CTGAAAGGGAGTATCGGTACCATAGTATAGAAGTATCGATACTAAGAGAA
*
118014 AGGTATCAATACC-ATGAGAAAGGTATCAATACCATGGATTACAGAATGTAGAAATGATATCGAT
1 AGGTATCAATACCGA-GAGAAAGGTATCAATACCAGGGATTACAGAATGTAGAAATGATATCGAT
118078 ACTGAAAGGGAGTATCGGTACCATAGTATAGAAGTATCGATAC
65 ACTGAAAGGGAGTATCGGTACCATAGTATAGAAGTATCGATAC
118121 CATGGTGGGG
Statistics
Matches: 99, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
114 1 0.01
115 98 0.99
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (115 bp):
AGGTATCAATACCGAGAGAAAGGTATCAATACCAGGGATTACAGAATGTAGAAATGATATCGATA
CTGAAAGGGAGTATCGGTACCATAGTATAGAAGTATCGATACTAAGAGAA
Found at i:118571 original size:45 final size:45
Alignment explanation
Indices: 118532--118901 Score: 560
Period size: 45 Copynumber: 8.2 Consensus size: 45
118522 AAATGAATGA
* * * *
118532 ATAAATGAAATACATAACGGTACATTATATGCATGAAATGATGCC
1 ATAAATGAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCC
118577 ATAAATGAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCC
* *
118622 ATAAATGAAATGCATAACGGTGCATTCTAGGCATGAAAGGATGCT
1 ATAAATGAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCC
* * * *
118667 ATAAATTAAATGCATAACGGTACATTCTAGTCATGAAAGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCC
* *
118712 ATAAATGAAATGCATAACGGTGCATTATTGGCATGAAAGGATGTC
1 ATAAATGAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCC
* * * *
118757 ATAAATGAAATACATGACGGTGCATTCTAGGCATGAATGGATGCC
1 ATAAATGAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCC
* *
118802 ATAAATGAAATGCATAATGGTGCATTATAGGCATGAAATGATGCC
1 ATAAATGAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCC
* *
118847 ATAAATGAAATGCATAACGGTGCATTCTAGGCATGAAAGGATTCC
1 ATAAATGAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCC
118892 ATAAATGAAA
1 ATAAATGAAA
118902 ATAATGAATA
Statistics
Matches: 293, Mismatches: 32, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 293 1.00
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (45 bp):
ATAAATGAAATGCATAACGGTGCATTATAGGCATGAAAGGATGCC
Done.