Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_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: 12923621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 59 of 65
Found at i:11607962 original size:21 final size:21
Alignment explanation
Indices: 11607938--11607983 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
11607928 TATTCGCATT
11607938 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
11607959 GCGAATTCGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
11607980 GCGA
1 GCGA
11607984 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.20, G:0.28, T:0.15
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:11616877 original size:15 final size:15
Alignment explanation
Indices: 11616857--11616894 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
11616847 AGATCGAAAT
*
11616857 TGAGGTCCAGCAATG
1 TGAGGTCCAACAATG
11616872 TGAGGTCCAACAATG
1 TGAGGTCCAACAATG
*
11616887 TGATGTCC
1 TGAGGTCC
11616895 TGACAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (15 bp):
TGAGGTCCAACAATG
Found at i:11617423 original size:27 final size:30
Alignment explanation
Indices: 11617369--11617426 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 30
11617359 TATTTAAAAA
*
11617369 TAAATATTATTATAAATAAATAATAATAAT
1 TAAATATTATTATAAATAAATAAAAATAAT
*
11617399 TAAAT-TTATTA-AATTAAA-AAAAATAAT
1 TAAATATTATTATAAATAAATAAAAATAAT
11617426 T
1 T
11617427 GGGGCTTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 9 0.35
28 6 0.23
29 6 0.23
30 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (30 bp):
TAAATATTATTATAAATAAATAAAAATAAT
Found at i:11619711 original size:20 final size:20
Alignment explanation
Indices: 11619634--11619704 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
11619624 ATCCTATTCC
11619634 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
11619654 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
* *
11619674 CTGATAATCTTTTATTCCTA
1 CTGGTAATCTTTTATTCCCA
11619694 CTGGTAATCTT
1 CTGGTAATCTT
11619705 ACATTCCGGG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.21, C:0.23, G:0.10, T:0.46
Consensus pattern (20 bp):
CTGGTAATCTTTTATTCCCA
Found at i:11632092 original size:133 final size:133
Alignment explanation
Indices: 11631920--11632163 Score: 330
Period size: 133 Copynumber: 1.8 Consensus size: 133
11631910 AGTTCGAGTA
* * * * ** *
11631920 TTGTTGAGTTTGGTTCGTCTCGAAAAGTTTAAATTTGAGTTTGGTTCA-AAAGCTTACGAGTTTA
1 TTGTTGAGTTTGGTTCGACTCGAAAAGTTAAAAGTTGAGTTCGACT-AGAAAGCTCACGAGTTTA
*
11631984 AAATTATCAAGTTTGACTCGAACTCGAAATTAAAAATTAAAGTTCGAGAAAACTTAAAATATTCT
65 AAATTATCAAGTTTGACTCGAACTCGAAATTAAAAATTAAAGATCGAGAAAACTTAAAATATTCT
11632049 AAGG
130 AAGG
* *
11632053 TTGTTGA-TCTTGGTTCGACTCGAAAAGTTAAAAGTTGAGTTCGACTAGAAATCTCATGAGTTTA
1 TTGTTGAGT-TTGGTTCGACTCGAAAAGTTAAAAGTTGAGTTCGACTAGAAAGCTCACGAGTTTA
* ** *
11632117 AAATTATCGAGTTTGGTTCGAACTTGAAATTAAAAATTAAAGATCGA
65 AAATTATCAAGTTTGACTCGAACTCGAAATTAAAAATTAAAGATCGA
11632164 TTTGAGCTCG
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
132 2 0.02
133 93 0.98
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.35
Consensus pattern (133 bp):
TTGTTGAGTTTGGTTCGACTCGAAAAGTTAAAAGTTGAGTTCGACTAGAAAGCTCACGAGTTTAA
AATTATCAAGTTTGACTCGAACTCGAAATTAAAAATTAAAGATCGAGAAAACTTAAAATATTCTA
AGG
Found at i:11639557 original size:2 final size:2
Alignment explanation
Indices: 11639550--11639607 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
11639540 CGTTGAGATA
11639550 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
11639592 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
11639608 CGAGTATAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11643966 original size:35 final size:35
Alignment explanation
Indices: 11643920--11643995 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
11643910 AAAACAGTCC
* *
11643920 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
11643955 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
11643990 TCAATT
1 TCAATT
11643996 AAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:11644532 original size:130 final size:130
Alignment explanation
Indices: 11644391--11644638 Score: 397
Period size: 130 Copynumber: 1.9 Consensus size: 130
11644381 TATTTATATA
* ** *
11644391 ATCAATTTGGTCATAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGATATGTG
1 ATCAATTTGGTCATAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
11644456 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGAACATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
*
11644521 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCATAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
11644586 TTAACACATGAACATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGAACATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
11644639 GAAGAAAATT
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
130 107 1.00
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCATAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGAACATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:11644669 original size:130 final size:128
Alignment explanation
Indices: 11644403--11644666 Score: 289
Period size: 130 Copynumber: 2.0 Consensus size: 128
11644393 CAATTTGGTC
* ** * * *
11644403 ATAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGATATGTGTTAGCACATGAT
1 ATAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGAA
* *** * * * **
11644468 CATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTC
66 CATGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAA--TAGAA
*
11644533 CTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGAA
1 ATAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGAA
* * * *
11644598 CATGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAA-AGA
66 CATGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAATAGA
11644661 A
128 A
11644662 ATAAA
1 ATAAA
11644667 ATTTGGGTCT
Statistics
Matches: 110, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
129 5 0.05
130 94 0.85
132 6 0.05
133 5 0.05
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (128 bp):
ATAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGAA
CATGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAATAGAA
Found at i:11644993 original size:28 final size:27
Alignment explanation
Indices: 11644962--11645024 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
11644952 AGTTGATACA
*
11644962 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
11644990 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
11645018 ATATTTT
1 ATATTTT
11645025 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:11645125 original size:16 final size:18
Alignment explanation
Indices: 11645104--11645137 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
11645094 ATTTCTTATT
11645104 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
11645120 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
11645138 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:11648471 original size:34 final size:36
Alignment explanation
Indices: 11648395--11648488 Score: 120
Period size: 34 Copynumber: 2.6 Consensus size: 36
11648385 AATTATAACT
*
11648395 AATAATATTAATTATTATATTTTATATTATTATATTTCG
1 AATAATATT-ATT-TT-TATTTTATATTATTAAATTTCG
11648434 AATAATATTATTTTTATTTT-TATT-TTAAATTTCG
1 AATAATATTATTTTTATTTTATATTATTAAATTTCG
* *
11648468 AATAATATAATTTATATTTTA
1 AATAATATTATTTTTATTTTA
11648489 AAAACATTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
34 27 0.53
35 4 0.08
36 6 0.12
37 2 0.04
38 3 0.06
39 9 0.18
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (36 bp):
AATAATATTATTTTTATTTTATATTATTAAATTTCG
Found at i:11649040 original size:21 final size:21
Alignment explanation
Indices: 11649010--11649103 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
11649000 TATGGTATAA
*
11649010 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
11649031 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
* *
11649052 AATCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
11649073 AACCCTGCGGGC-ACGGAATGT
1 AACCCTGCGGGCTA-GGAATGT
11649094 AACCCTGCGG
1 AACCCTGCGG
11649104 AGATGGTATA
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
20 3 0.05
21 60 0.91
22 3 0.05
ACGTcount: A:0.21, C:0.27, G:0.34, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:11652208 original size:20 final size:21
Alignment explanation
Indices: 11652183--11652234 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
11652173 TTTTCCCAAT
*
11652183 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
11652203 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
11652224 TCGCAATGCGA
1 TCGCAATGCGA
11652235 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:11652248 original size:20 final size:20
Alignment explanation
Indices: 11652223--11652357 Score: 121
Period size: 20 Copynumber: 6.7 Consensus size: 20
11652213 AATTGGGAAA
11652223 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
11652243 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
11652263 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
11652284 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
11652304 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
11652324 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
11652344 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
11652358 TTTCAAAGCG
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
19 4 0.04
20 66 0.69
21 24 0.25
22 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:11652267 original size:61 final size:61
Alignment explanation
Indices: 11652220--11652351 Score: 183
Period size: 61 Copynumber: 2.2 Consensus size: 61
11652210 GCGAATTGGG
* * * * *
11652220 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
11652281 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
*
11652342 ATAATCGCAA
1 AAAATCGCAA
11652352 TGCGATTTTC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:11652553 original size:22 final size:22
Alignment explanation
Indices: 11652525--11652568 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
11652515 CACTCTCTCA
*
11652525 CCCATCTCCGATGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
11652547 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
11652569 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:11652859 original size:20 final size:20
Alignment explanation
Indices: 11652810--11652868 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
11652800 GCGATTCTCT
* **
11652810 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
11652830 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
11652850 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
11652869 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:11653059 original size:25 final size:24
Alignment explanation
Indices: 11653005--11653059 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
11652995 TGTTTATTAT
* *
11653005 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
11653029 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
11653055 TGTTT
1 TGTTT
11653060 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:11654208 original size:18 final size:18
Alignment explanation
Indices: 11654187--11654231 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
11654177 TCCACTTCGG
*
11654187 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
11654205 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
11654223 GAGCCATCA
1 GAGCCATCA
11654232 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:11654761 original size:19 final size:20
Alignment explanation
Indices: 11654707--11654773 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
11654697 TAGGTTACTT
* *
11654707 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
11654727 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
11654747 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
11654766 TCGCAACG
1 TCGCAACG
11654774 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:11654781 original size:14 final size:14
Alignment explanation
Indices: 11654762--11654819 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
11654752 ATGCGAAATG
11654762 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
11654776 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
11654792 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
11654808 AAAATCGCAACG
1 AAAATCGCAACG
11654820 CGAAAGACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:11654804 original size:32 final size:33
Alignment explanation
Indices: 11654746--11654836 Score: 150
Period size: 32 Copynumber: 2.8 Consensus size: 33
11654736 GGAAATGGCT
11654746 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
11654779 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
11654811 ATCGCAACGCGAAA-GACAAATCGCAA
1 ATCGCAATGCGAAATGA-AAATCGCAA
11654837 TGCGATTTTA
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
31 1 0.02
32 29 0.53
33 25 0.45
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:11656854 original size:20 final size:20
Alignment explanation
Indices: 11656829--11656867 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11656819 ATGTTGAAGG
11656829 CAAAACAGACTATCGCAACA
1 CAAAACAGACTATCGCAACA
*
11656849 CAAAACTGACTATCGCAAC
1 CAAAACAGACTATCGCAAC
11656868 GAGAGAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.31, G:0.10, T:0.13
Consensus pattern (20 bp):
CAAAACAGACTATCGCAACA
Found at i:11656897 original size:19 final size:19
Alignment explanation
Indices: 11656873--11656937 Score: 95
Period size: 19 Copynumber: 3.7 Consensus size: 19
11656863 GCAACGAGAG
11656873 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
11656892 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
11656911 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
11656925 AATCGCAATGCGA
1 AATCGCAATGCGA
11656938 TTTTCATTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
14 11 0.26
15 1 0.02
16 2 0.05
17 2 0.05
19 27 0.63
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:11656988 original size:19 final size:20
Alignment explanation
Indices: 11656964--11657012 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
11656954 CGATTTTGTT
11656964 GTTGCGATAGCCA-TTTCGC
1 GTTGCGATAGCCATTTTCGC
11656983 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
11657003 GTTGCGATAG
1 GTTGCGATAG
11657013 TCAAATGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:11657246 original size:16 final size:17
Alignment explanation
Indices: 11657225--11657266 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 17
11657215 AAATGATTAC
11657225 CTTTCG-GCGATTCTGA
1 CTTTCGAGCGATTCTGA
11657241 CTTTCGCAACGCGATTCTGA
1 CTTTCG--A-GCGATTCTGA
11657261 CTTTCG
1 CTTTCG
11657267 CAACGAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.27
20 16 0.73
ACGTcount: A:0.14, C:0.29, G:0.21, T:0.36
Consensus pattern (17 bp):
CTTTCGAGCGATTCTGA
Found at i:11657256 original size:20 final size:20
Alignment explanation
Indices: 11657231--11657271 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
11657221 TTACCTTTCG
11657231 GCGATTCTGACTTTCGCAAC
1 GCGATTCTGACTTTCGCAAC
11657251 GCGATTCTGACTTTCGCAAC
1 GCGATTCTGACTTTCGCAAC
11657271 G
1 G
11657272 AGATAATACA
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (20 bp):
GCGATTCTGACTTTCGCAAC
Found at i:11658043 original size:24 final size:24
Alignment explanation
Indices: 11658016--11658069 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
11658006 GTATTCAAAA
*
11658016 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
11658040 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
11658064 TTTGAT
1 TTTGAT
11658070 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:11658261 original size:12 final size:12
Alignment explanation
Indices: 11658244--11658268 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11658234 ATATAATCCT
11658244 GAAGAAGAAAAA
1 GAAGAAGAAAAA
11658256 GAAGAAGAAAAA
1 GAAGAAGAAAAA
11658268 G
1 G
11658269 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:11660572 original size:33 final size:33
Alignment explanation
Indices: 11660526--11660652 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
11660516 GGAAATTACT
* *
11660526 ATCGCAATACGAAATGAAAATCTCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
11660559 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
11660591 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
11660625 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
11660653 CGAATTTAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
32 1 0.01
33 81 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:11660582 original size:19 final size:19
Alignment explanation
Indices: 11660526--11660656 Score: 76
Period size: 19 Copynumber: 7.7 Consensus size: 19
11660516 GGAAATTACT
*
11660526 ATCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
11660545 ATCTCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
11660559 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
11660578 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
11660592 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
11660611 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
11660625 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
11660644 ATCGCAACGCGAA
1 ATCGCAATGCGAA
11660657 TTTAATTTCG
Statistics
Matches: 82, Mismatches: 15, Indels: 30
0.65 0.12 0.24
Matches are distributed among these distances:
14 26 0.32
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 38 0.46
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:11660633 original size:66 final size:66
Alignment explanation
Indices: 11660527--11660659 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
11660517 GAAATTACTA
* *
11660527 TCGCAATACGAAATGAAAATCTCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATACGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
11660592 T
66 T
* *
11660593 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATACGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
11660658 T
66 T
11660659 T
1 T
11660660 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.42, C:0.20, G:0.21, T:0.17
Consensus pattern (66 bp):
TCGCAATACGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:11660674 original size:19 final size:19
Alignment explanation
Indices: 11660652--11660693 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
11660642 AAATCGCAAC
11660652 GCGAATTTAATTTCGCGTT
1 GCGAATTTAATTTCGCGTT
* *
11660671 GCGATTTTCATTTCGCGTT
1 GCGAATTTAATTTCGCGTT
11660690 GCGA
1 GCGA
11660694 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (19 bp):
GCGAATTTAATTTCGCGTT
Found at i:11660694 original size:19 final size:19
Alignment explanation
Indices: 11660661--11660724 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
11660651 CGCGAATTTA
11660661 ATTTCGCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
11660680 ATTTCGCGTTGCGA--TTC
1 ATTTCGCGTTGCGATTTTC
*
11660697 ---TCTCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
*
11660713 ATTTCGCATTGC
1 ATTTCGCGTTGC
11660725 AATAGTACTT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 10 0.27
16 3 0.08
17 3 0.08
19 21 0.57
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.45
Consensus pattern (19 bp):
ATTTCGCGTTGCGATTTTC
Found at i:11660860 original size:14 final size:14
Alignment explanation
Indices: 11660843--11660869 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11660833 AACAAGCCAA
11660843 CTTTTACAAATCAC
1 CTTTTACAAATCAC
11660857 CTTTTACAAATCA
1 CTTTTACAAATCA
11660870 ATTAAACAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (14 bp):
CTTTTACAAATCAC
Found at i:11662284 original size:42 final size:41
Alignment explanation
Indices: 11662225--11662430 Score: 157
Period size: 42 Copynumber: 4.9 Consensus size: 41
11662215 GTGAATCAGG
* *
11662225 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGA-CTCTTCAAGGATGACAGTGGC
* * * *
11662267 CTCTTGAACAGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * *
11662309 CTCTTCAATGATAGGAGTGGACTCTT-AAGGGATGACAGTGGC
1 CTCTTGAACGGTGGGAG-GGACTCTTCAA-GGATGACAGTGGC
* * *
11662351 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * *
11662393 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAG
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAG
11662431 GCGAGTCGGG
Statistics
Matches: 126, Mismatches: 28, Indels: 20
0.72 0.16 0.11
Matches are distributed among these distances:
41 9 0.07
42 106 0.84
43 11 0.09
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGACTCTTCAAGGATGACAGTGGC
Found at i:11662366 original size:84 final size:84
Alignment explanation
Indices: 11662255--11662430 Score: 325
Period size: 84 Copynumber: 2.1 Consensus size: 84
11662245 CCTCTTCAAC
*
11662255 GATGACAGTGGCCTCTTGAACAGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGA
1 GATGACAGTGGCCTCTTGAACAGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
11662320 TAGGAGTGGACTCTTAAGG
66 TAGGAGTGGACTCTTAAGG
*
11662339 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACAGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
*
11662404 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTAAGG
11662423 GATGACAG
1 GATGACAG
11662431 GCGAGTCGGG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.24, C:0.17, G:0.37, T:0.22
Consensus pattern (84 bp):
GATGACAGTGGCCTCTTGAACAGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAGGAGTGGACTCTTAAGG
Found at i:11662828 original size:91 final size:93
Alignment explanation
Indices: 11662647--11662833 Score: 310
Period size: 91 Copynumber: 2.0 Consensus size: 93
11662637 ATATTTCAAA
11662647 ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTA
11662712 GCAGAATTGGCAGCAACCGAATAAATTT
66 GCAGAATTGGCAGCAACCGAATAAATTT
*
11662740 ACTTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAA-ACA-A-TT
1 ACTTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
*
11662801 TAGCAGTATTGGCAGCAACCGAATAAATTT
64 TAGCAGAATTGGCAGCAACCGAATAAATTT
11662831 ACT
1 ACT
11662834 AAGCAATCTA
Statistics
Matches: 90, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
91 34 0.38
92 1 0.01
93 24 0.27
94 4 0.04
95 27 0.30
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (93 bp):
ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTA
GCAGAATTGGCAGCAACCGAATAAATTT
Found at i:11663036 original size:63 final size:63
Alignment explanation
Indices: 11662977--11663118 Score: 160
Period size: 63 Copynumber: 2.3 Consensus size: 63
11662967 CTTAGAGCGG
* * *
11662977 CAACCTCAC-CACGTAAAGTAGACACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTAC
1 CAACCTC-CTCACGCAAAGCAGACACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGCAC
* * * *** *
11663040 CGATCTCCTCACGCAAGGCATTGACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTAC
1 CAACCTCCTCACGCAAAGCAGACACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGCAC
* *
11663103 CGATCTCCTCACGCAA
1 CAACCTCCTCACGCAA
11663119 GGCATTGACC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
62 1 0.01
63 69 0.99
ACGTcount: A:0.27, C:0.37, G:0.17, T:0.19
Consensus pattern (63 bp):
CAACCTCCTCACGCAAAGCAGACACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGCAC
Found at i:11663119 original size:63 final size:63
Alignment explanation
Indices: 11663000--11663130 Score: 262
Period size: 63 Copynumber: 2.1 Consensus size: 63
11662990 TAAAGTAGAC
11663000 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
1 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
11663063 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
1 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
11663126 ACCTC
1 ACCTC
11663131 ATCACGTAAC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 68 1.00
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.21
Consensus pattern (63 bp):
ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
Found at i:11664638 original size:19 final size:19
Alignment explanation
Indices: 11664583--11664746 Score: 159
Period size: 19 Copynumber: 9.1 Consensus size: 19
11664573 TCTTTTGGTT
* *
11664583 GAAATGAAAATCGCAATGA
1 GAAATGAAAATCGCAACGC
*
11664602 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
** *
11664622 GAAATGACTATCTCAA--C
1 GAAATGAAAATCGCAACGC
*
11664639 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
11664655 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
11664674 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
11664693 GAAATGAAAATCACAA--C
1 GAAATGAAAATCGCAACGC
*
11664710 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
11664726 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
11664745 GA
1 GA
11664747 TTTTGGTTTC
Statistics
Matches: 119, Mismatches: 15, Indels: 22
0.76 0.10 0.14
Matches are distributed among these distances:
14 17 0.14
15 2 0.02
16 4 0.03
17 4 0.03
18 2 0.02
19 74 0.62
20 16 0.13
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:11664650 original size:33 final size:33
Alignment explanation
Indices: 11664608--11664737 Score: 170
Period size: 33 Copynumber: 3.8 Consensus size: 33
11664598 ATGAGATAAT
** *
11664608 GAGAATCGCAACGCGAAATGACTATCTCAACGA
1 GAGAATCGCAACGCGAAATGAAAATCACAACGA
*
11664641 GAGAATCGCAACGCGAAATGAAAATCGCAACGCGAAA
1 GAGAATCGCAACGCGAAATGAAAATCACAA--CG--A
*
11664678 TGAAAATCGCAACGCGAAATGAAAATCACAACGA
1 -GAGAATCGCAACGCGAAATGAAAATCACAACGA
11664712 GAGAATCGCAACGCGAAATGAAAATC
1 GAGAATCGCAACGCGAAATGAAAATC
11664738 GCAATGCGAT
Statistics
Matches: 86, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
33 52 0.60
34 1 0.01
35 2 0.02
36 2 0.02
37 1 0.01
38 28 0.33
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAAAATCACAACGA
Found at i:11664710 original size:71 final size:72
Alignment explanation
Indices: 11664583--11664747 Score: 269
Period size: 71 Copynumber: 2.3 Consensus size: 72
11664573 TCTTTTGGTT
* * ** *
11664583 GAAATGAAAATCGCAATGAGATAATGAGAATCGCAACGCGAAATGACTATCTCAACGAGAGAATC
1 GAAATGAAAATCGCAATGCGATAATGAAAATCGCAACGCGAAATGAAAATCACAACGAGAGAATC
11664648 GCAACGC
66 GCAACGC
*
11664655 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAACGCGAAATGAAAATCACAACGAGAGAATC
1 GAAATGAAAATCGCAATGCGATAATGAAAATCGCAACGCGAAATGAAAATCACAACGAGAGAATC
11664719 GCAACGC
66 GCAACGC
11664726 GAAATGAAAATCGCAATGCGAT
1 GAAATGAAAATCGCAATGCGAT
11664748 TTTGGTTTCG
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
71 66 0.78
72 19 0.22
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.13
Consensus pattern (72 bp):
GAAATGAAAATCGCAATGCGATAATGAAAATCGCAACGCGAAATGAAAATCACAACGAGAGAATC
GCAACGC
Found at i:11664764 original size:19 final size:19
Alignment explanation
Indices: 11664742--11664786 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
11664732 AAAATCGCAA
*
11664742 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
* *
11664761 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
11664780 TGCGATT
1 TGCGATT
11664787 ATCTCGTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.07, C:0.16, G:0.27, T:0.51
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:11665365 original size:20 final size:20
Alignment explanation
Indices: 11665340--11665392 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
11665330 GCGCTATGTA
11665340 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
11665360 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
11665380 TATCTCGTTGCGA
1 AATCGCGTTGCGA
11665393 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:11665426 original size:20 final size:20
Alignment explanation
Indices: 11665401--11665454 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
11665391 GATTTTGTAT
11665401 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
11665421 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
11665441 TATCGCATTGCGAT
1 TATCGCATTGCGAT
11665455 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:11665439 original size:61 final size:61
Alignment explanation
Indices: 11665341--11665457 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
11665331 CGCTATGTAA
* * * * *
11665341 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * *
11665402 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
11665458 CCCAATTCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:11670993 original size:32 final size:32
Alignment explanation
Indices: 11670952--11671021 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
11670942 GTTGTGCACA
* *
11670952 TCATCTTCAATCTCTTACATAACACACTCCTT
1 TCATCTTCAATCTCTTACACAACAAACTCCTT
*
11670984 TCATCTTCAATCTCTTACACAACAAACTTCTT
1 TCATCTTCAATCTCTTACACAACAAACTCCTT
11671016 TCATCT
1 TCATCT
11671022 AAACAAAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.29, C:0.33, G:0.00, T:0.39
Consensus pattern (32 bp):
TCATCTTCAATCTCTTACACAACAAACTCCTT
Found at i:11676812 original size:29 final size:29
Alignment explanation
Indices: 11676778--11676836 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
11676768 CCTAAATTAA
11676778 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
11676807 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
11676836 T
1 T
11676837 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:11681500 original size:29 final size:29
Alignment explanation
Indices: 11681466--11681524 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
11681456 CCTAAATTAA
*
11681466 TTTGATGTCATTGTTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
11681495 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
11681524 T
1 T
11681525 AGGTGAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.51
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:11683647 original size:16 final size:16
Alignment explanation
Indices: 11683626--11683658 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11683616 TACTATTTGT
*
11683626 GTGAATAGTGAATTTC
1 GTGAATAGTGAAATTC
11683642 GTGAATAGTGAAATTC
1 GTGAATAGTGAAATTC
11683658 G
1 G
11683659 ATCGGTGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (16 bp):
GTGAATAGTGAAATTC
Found at i:11687376 original size:16 final size:16
Alignment explanation
Indices: 11687355--11687387 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11687345 TACTATTTGT
*
11687355 GTGAATAGTGAATTTC
1 GTGAATAGTGAAATTC
11687371 GTGAATAGTGAAATTC
1 GTGAATAGTGAAATTC
11687387 G
1 G
11687388 GTCGGTGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (16 bp):
GTGAATAGTGAAATTC
Found at i:11692348 original size:7 final size:7
Alignment explanation
Indices: 11692336--11692378 Score: 86
Period size: 7 Copynumber: 6.1 Consensus size: 7
11692326 GAAAACCTGG
11692336 AGAGAGA
1 AGAGAGA
11692343 AGAGAGA
1 AGAGAGA
11692350 AGAGAGA
1 AGAGAGA
11692357 AGAGAGA
1 AGAGAGA
11692364 AGAGAGA
1 AGAGAGA
11692371 AGAGAGA
1 AGAGAGA
11692378 A
1 A
11692379 ATTTCTATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (7 bp):
AGAGAGA
Found at i:11695419 original size:33 final size:32
Alignment explanation
Indices: 11695372--11695475 Score: 147
Period size: 33 Copynumber: 3.2 Consensus size: 32
11695362 ACAAAGTTTA
*
11695372 CGAT-AATTGAAATACTTAAATACTTCCAAGTT
1 CGATAAATTCAAATACTTAAA-ACTTCCAAGTT
* *
11695404 CGATAAATTCAAATACTTTAAAACTTTCAATTT
1 CGATAAATTCAAATAC-TTAAAACTTCCAAGTT
11695437 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
1 CGATAAATTCAAATACTT-AAAACTTCCAAGTT
11695470 CGATAA
1 CGATAA
11695476 TTGAAACAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
32 6 0.09
33 53 0.83
34 5 0.08
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (32 bp):
CGATAAATTCAAATACTTAAAACTTCCAAGTT
Found at i:11695495 original size:21 final size:21
Alignment explanation
Indices: 11695470--11695511 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
11695460 CTTCCAAGTT
11695470 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
11695491 CGATAATTGAAATAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
11695512 AAAATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:11696108 original size:25 final size:25
Alignment explanation
Indices: 11695989--11696107 Score: 184
Period size: 25 Copynumber: 4.8 Consensus size: 25
11695979 TGCAAAATCA
*
11695989 TGTCATAAAAGCATATGAAAAACTT
1 TGTCATAAAAGCAGATGAAAAACTT
*
11696014 TGTCATAAAAGCATATGAAAAACTT
1 TGTCATAAAAGCAGATGAAAAACTT
11696039 TGTCATAAAAGCAGATGAAAAACTT
1 TGTCATAAAAGCAGATGAAAAACTT
* **
11696064 TGTCATAAAAGCAGATGAACAACCG
1 TGTCATAAAAGCAGATGAAAAACTT
*
11696089 TGTCATAAAAGCAAATGAA
1 TGTCATAAAAGCAGATGAA
11696108 CCTATACGTT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 89 1.00
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.24
Consensus pattern (25 bp):
TGTCATAAAAGCAGATGAAAAACTT
Found at i:11697870 original size:109 final size:111
Alignment explanation
Indices: 11697757--11697962 Score: 335
Period size: 109 Copynumber: 1.9 Consensus size: 111
11697747 AAATTAAAAA
* * *
11697757 TATTATATTATATAAATATTATATCTAAATAAAATTTTAATTAAAAATTTAATATTGAAT-AAAA
1 TATTATATCATATAAATATTATATCTAAATAAAATTTTAATTAAAAAATTAATATTAAATAAAAA
11697821 ATAAAGT-AAACTATTTAAAAATTATAAAACACGAACTAAGTGACT
66 ATAAAGTAAAACTATTTAAAAATTATAAAACACGAACTAAGTGACT
* *
11697866 TATTATATCATTTAAATATTATATTTAAATAAAATTTTAATTAAAAAATTAATATTAAATAAAAA
1 TATTATATCATATAAATATTATATCTAAATAAAATTTTAATTAAAAAATTAATATTAAATAAAAA
* *
11697931 ATGAAGTAAAACTATTTAAAAATTATGAAACA
66 ATAAAGTAAAACTATTTAAAAATTATAAAACA
11697963 TTGAACCAAG
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
109 55 0.62
110 10 0.11
111 23 0.26
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (111 bp):
TATTATATCATATAAATATTATATCTAAATAAAATTTTAATTAAAAAATTAATATTAAATAAAAA
ATAAAGTAAAACTATTTAAAAATTATAAAACACGAACTAAGTGACT
Found at i:11700680 original size:37 final size:37
Alignment explanation
Indices: 11700624--11700698 Score: 109
Period size: 37 Copynumber: 2.0 Consensus size: 37
11700614 TCAAATTTAT
11700624 AACTTTATTTAAGAATTTTAATGTCTTATCT-TATTAA
1 AACTTTATTTAAGAATTTTAATGTCTTAT-TATATTAA
*
11700661 AACTTTATTTAA-ATTTTTTAATGTCTTATTATATTAA
1 AACTTTATTTAAGA-ATTTTAATGTCTTATTATATTAA
11700698 A
1 A
11700699 TCAACAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
36 2 0.06
37 33 0.94
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (37 bp):
AACTTTATTTAAGAATTTTAATGTCTTATTATATTAA
Found at i:11701894 original size:21 final size:21
Alignment explanation
Indices: 11701842--11701887 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
11701832 TTTATCTTTA
11701842 CCACATCAATACCAACAATAC
1 CCACATCAATACCAACAATAC
* *
11701863 CCACATCAATACCTATAATAC
1 CCACATCAATACCAACAATAC
11701884 CCAC
1 CCAC
11701888 TATAATATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.17
Consensus pattern (21 bp):
CCACATCAATACCAACAATAC
Found at i:11702144 original size:20 final size:20
Alignment explanation
Indices: 11702116--11702158 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
11702106 TTATTTAATA
*
11702116 TTGTCGTGTCTTCTGAAACT
1 TTGTCGTGTCTTCTAAAACT
*
11702136 TTGTGGTGTCTTCTAAAACT
1 TTGTCGTGTCTTCTAAAACT
11702156 TTG
1 TTG
11702159 CTTTGGAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.16, C:0.16, G:0.21, T:0.47
Consensus pattern (20 bp):
TTGTCGTGTCTTCTAAAACT
Found at i:11703634 original size:30 final size:30
Alignment explanation
Indices: 11703600--11703658 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
11703590 TATTTTATTA
*
11703600 TATTTCATATTTG-TTAGTATTTTATTTAAT
1 TATTTAAT-TTTGTTTAGTATTTTATTTAAT
*
11703630 TATTTAATTTTGTTTATTATTTTATTTAA
1 TATTTAATTTTGTTTAGTATTTTATTTAA
11703659 ATATGTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (30 bp):
TATTTAATTTTGTTTAGTATTTTATTTAAT
Found at i:11703650 original size:17 final size:18
Alignment explanation
Indices: 11703618--11703656 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
11703608 ATTTGTTAGT
11703618 ATTTTATTTAATTATTTA
1 ATTTTATTTAATTATTTA
* *
11703636 ATTTTGTTT-ATTATTTT
1 ATTTTATTTAATTATTTA
11703653 ATTT
1 ATTT
11703657 AAATATGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
ATTTTATTTAATTATTTA
Found at i:11703665 original size:22 final size:20
Alignment explanation
Indices: 11703629--11703673 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
11703619 TTTTATTTAA
* *
11703629 TTATTTAATTTTGTTTATTATT
1 TTATTTAAATATG-TTATT-TT
11703651 TTATTTAAATATGTTATTTT
1 TTATTTAAATATGTTATTTT
11703671 TTA
1 TTA
11703674 CAATTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 5 0.24
22 11 0.52
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (20 bp):
TTATTTAAATATGTTATTTT
Found at i:11703670 original size:30 final size:29
Alignment explanation
Indices: 11703599--11703671 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
11703589 ATATTTTATT
*
11703599 ATATTTCATATTTGTTAGTATTTTATTTAA
1 ATATTTAAT-TTTGTTAGTATTTTATTTAA
* *
11703629 TTATTTAATTTTGTTTATTATTTTATTTAA
1 ATATTTAATTTTG-TTAGTATTTTATTTAA
*
11703659 ATATGTTATTTTT
1 ATAT-TTAATTTT
11703672 TACAATTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 4 0.11
30 25 0.69
31 7 0.19
ACGTcount: A:0.27, C:0.01, G:0.05, T:0.66
Consensus pattern (29 bp):
ATATTTAATTTTGTTAGTATTTTATTTAA
Found at i:11720916 original size:6 final size:6
Alignment explanation
Indices: 11720905--11720951 Score: 73
Period size: 6 Copynumber: 8.3 Consensus size: 6
11720895 TCATTCTTTA
11720905 TTTCTC TTTCTC -TTCTC TTTCTC -TTCTC TTTCTC -TTCTC TTTCTC
1 TTTCTC TTTCTC TTTCTC TTTCTC TTTCTC TTTCTC TTTCTC TTTCTC
11720950 TT
1 TT
11720952 GTAAATATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 15 0.39
6 23 0.61
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTCTC
Found at i:11720922 original size:11 final size:11
Alignment explanation
Indices: 11720906--11720951 Score: 92
Period size: 11 Copynumber: 4.2 Consensus size: 11
11720896 CATTCTTTAT
11720906 TTCTCTTTCTC
1 TTCTCTTTCTC
11720917 TTCTCTTTCTC
1 TTCTCTTTCTC
11720928 TTCTCTTTCTC
1 TTCTCTTTCTC
11720939 TTCTCTTTCTC
1 TTCTCTTTCTC
11720950 TT
1 TT
11720952 GTAAATATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (11 bp):
TTCTCTTTCTC
Found at i:11727032 original size:37 final size:36
Alignment explanation
Indices: 11726990--11727168 Score: 112
Period size: 37 Copynumber: 5.2 Consensus size: 36
11726980 GGTCCTCGAT
*
11726990 TATTATTTAGGGTAAATTATGTATTTAGTCACTTATA
1 TATTATTTAGGGTAAA-TATGTATTTGGTCACTTATA
* *
11727027 TATTATCTA----ATATATGT-TTTGGTCACTCTAT-
1 TATTATTTAGGGTAAATATGTATTTGGTCACT-TATA
* **
11727058 TATTAGTTAGGGTAAACTACCTATTTGGTCACTTATA
1 TATTATTTAGGGTAAA-TATGTATTTGGTCACTTATA
* ** *
11727095 TATTATCTA----ATTTATGT-TTTGGTCACTCGAT-
1 TATTATTTAGGGTAAATATGTATTTGGTCACT-TATA
* **
11727126 TATTATTTAAGGTAAACTACCTATTTGGTCACTTATA
1 TATTATTTAGGGTAAA-TATGTATTTGGTCACTTATA
11727163 TATTAT
1 TATTAT
11727169 CTAATATAAT
Statistics
Matches: 105, Mismatches: 21, Indels: 32
0.66 0.13 0.20
Matches are distributed among these distances:
31 34 0.32
32 13 0.12
33 3 0.03
35 3 0.03
36 11 0.10
37 41 0.39
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.47
Consensus pattern (36 bp):
TATTATTTAGGGTAAATATGTATTTGGTCACTTATA
Found at i:11727089 original size:68 final size:68
Alignment explanation
Indices: 11726931--11727264 Score: 421
Period size: 68 Copynumber: 5.0 Consensus size: 68
11726921 GGGTTTTTTA
* * * *
11726931 AGGGTAAACTACCTATTTGATCATTTATATATTATTTAATTTATGTTTTGGTC-CTCGATTATTA
1 AGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCTATTATTA
11726995 TTT
66 TTT
* ** * *
11726998 AGGGTAAATTATGTATTTAGTCACTTATATATTATCTAATATATGTTTTGGTCACTCTATTATTA
1 AGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCTATTATTA
*
11727063 GTT
66 TTT
*
11727066 AGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTATTA
1 AGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCTATTATTA
11727131 TTT
66 TTT
* ** ** * *
11727134 AAGGTAAACTACCTATTTGGTCACTTATATATTATCTAA--TAT-AATTCAT-A-TATATTTTTA
1 AGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCTATTATTA
11727194 TTT
66 TTT
* * *
11727197 AAGGTAAACTACCTTTTTGGTCACTTATATATTATTTAATTTATGTTTTGGTCACT-TGATTATT
1 AGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCT-ATTATT
11727261 ATTT
65 ATTT
11727265 TTTTTTCAAA
Statistics
Matches: 228, Mismatches: 32, Indels: 13
0.84 0.12 0.05
Matches are distributed among these distances:
63 47 0.21
64 1 0.00
65 6 0.03
66 6 0.03
67 47 0.21
68 121 0.53
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (68 bp):
AGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCTATTATTA
TTT
Found at i:11727250 original size:131 final size:134
Alignment explanation
Indices: 11726927--11727264 Score: 468
Period size: 131 Copynumber: 2.5 Consensus size: 134
11726917 GTTAGGGTTT
* *
11726927 TTTAAGGGTAAACTACCTATTTGATCATTTATATATTATTTAATTTATGTTTTGGTC-CTCGATT
1 TTTAA-GGTAAACTACCTATTTGGTCACTTATATATTATTTAATTTATGTTTTGGTCACTCGATT
* * ** * ** *
11726991 ATTATTTAGGGTAAATTATGTATTTAGTCACTTATATATTATCTAATATATGTTTTGGTCACTCT
65 ATTATTTAAGGTAAACTACCTATTTAGTCACTTATATATTATCTAATATA--TATTCATCACTAT
11727056 ATTATTA
128 ATTATTA
* * *
11727063 GTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTA
1 TTTAAGGTAAACTACCTATTTGGTCACTTATATATTATTTAATTTATGTTTTGGTCACTCGATTA
*
11727128 TTATTTAAGGTAAACTACCTATTTGGTCACTTATATATTATCTAATATA-ATTCAT-A-TATATT
66 TTATTTAAGGTAAACTACCTATTTAGTCACTTATATATTATCTAATATATATTCATCACTATATT
*
11727190 TTTA
131 ATTA
* *
11727194 TTTAAGGTAAACTACCTTTTTGGTCACTTATATATTATTTAATTTATGTTTTGGTCACTTGATTA
1 TTTAAGGTAAACTACCTATTTGGTCACTTATATATTATTTAATTTATGTTTTGGTCACTCGATTA
11727259 TTATTT
66 TTATTT
11727265 TTTTTTCAAA
Statistics
Matches: 181, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
131 74 0.41
132 1 0.01
133 3 0.02
135 48 0.27
136 55 0.30
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (134 bp):
TTTAAGGTAAACTACCTATTTGGTCACTTATATATTATTTAATTTATGTTTTGGTCACTCGATTA
TTATTTAAGGTAAACTACCTATTTAGTCACTTATATATTATCTAATATATATTCATCACTATATT
ATTA
Found at i:11728270 original size:2 final size:2
Alignment explanation
Indices: 11728263--11728308 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
11728253 ATCATTAATA
11728263 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
11728305 AT AT
1 AT AT
11728309 GTAATTGTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11734400 original size:18 final size:19
Alignment explanation
Indices: 11734377--11734414 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11734367 CTATAATTAC
11734377 AAAAAAT-ACAAATCCCTA
1 AAAAAATCACAAATCCCTA
*
11734395 AAAAAATCTCAAATCCCTA
1 AAAAAATCACAAATCCCTA
11734414 A
1 A
11734415 CCCTAAACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.58, C:0.24, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAAAATCACAAATCCCTA
Found at i:11734487 original size:19 final size:18
Alignment explanation
Indices: 11734463--11734501 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
11734453 CACCGCCCTT
11734463 GTCATCTC-CTTTGTCAGTC
1 GTCATCTCTC-TTGTC-GTC
11734482 GTCATCTCTCTTGTCGTC
1 GTCATCTCTCTTGTCGTC
11734500 GT
1 GT
11734502 GCGCGTCGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 13 0.68
20 1 0.05
ACGTcount: A:0.08, C:0.31, G:0.18, T:0.44
Consensus pattern (18 bp):
GTCATCTCTCTTGTCGTC
Found at i:11736972 original size:23 final size:23
Alignment explanation
Indices: 11736946--11737001 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
11736936 ATCCATGAAC
11736946 GTTAAACAAATATGTTGGCAAAT
1 GTTAAACAAATATGTTGGCAAAT
* * * **
11736969 GTTAAACGAATGTGTTTGTGAAT
1 GTTAAACAAATATGTTGGCAAAT
11736992 GTTAAACAAA
1 GTTAAACAAA
11737002 CCAAACACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (23 bp):
GTTAAACAAATATGTTGGCAAAT
Found at i:11738149 original size:18 final size:18
Alignment explanation
Indices: 11738126--11738169 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
11738116 AACATTCCCA
*
11738126 GTAATCTTATTCCCGCTG
1 GTAATCTTATTCCCACTG
*
11738144 GTAATCATATTCCCACTG
1 GTAATCTTATTCCCACTG
11738162 GTAATCTT
1 GTAATCTT
11738170 GCATTCCGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.39
Consensus pattern (18 bp):
GTAATCTTATTCCCACTG
Found at i:11738700 original size:13 final size:14
Alignment explanation
Indices: 11738676--11738705 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
11738666 AGGGGCATGT
11738676 TGTTAGTAATGAGC
1 TGTTAGTAATGAGC
11738690 TGTTA-TAATGAGC
1 TGTTAGTAATGAGC
11738703 TGT
1 TGT
11738706 CATAGTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.40
Consensus pattern (14 bp):
TGTTAGTAATGAGC
Found at i:11742276 original size:24 final size:26
Alignment explanation
Indices: 11742249--11742310 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 26
11742239 GTTTATATAT
11742249 ATAATTAATATATTA-TTTAAAA-TA
1 ATAATTAATATATTATTTTAAAATTA
* * *
11742273 ATAATAAATCTAATATTTTAAAATTA
1 ATAATTAATATATTATTTTAAAATTA
*
11742299 A-ATTTAATATAT
1 ATAATTAATATAT
11742311 ATGTAAATAA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
24 12 0.41
25 14 0.48
26 3 0.10
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (26 bp):
ATAATTAATATATTATTTTAAAATTA
Found at i:11742306 original size:20 final size:20
Alignment explanation
Indices: 11742277--11742345 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
11742267 AAAATAATAA
*
11742277 TAAATCTAATATTTTAAAAT
1 TAAATTTAATATTTTAAAAT
11742297 TAAATTTAATATATATGT-AAA-
1 TAAATTTAATAT-T-T-TAAAAT
11742318 TAAATTTAA-ATTTTGAAAAT
1 TAAATTTAATATTTT-AAAAT
*
11742338 TAATTTTA
1 TAAATTTA
11742346 TTAGATTTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
17 1 0.02
18 1 0.02
19 4 0.10
20 20 0.49
21 10 0.24
22 4 0.10
23 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (20 bp):
TAAATTTAATATTTTAAAAT
Found at i:11742539 original size:12 final size:12
Alignment explanation
Indices: 11742492--11742533 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
11742482 AAGGAAATAT
*
11742492 ATAAAAATATAA
1 ATAAAAATAAAA
*
11742504 ATATAGAATAAAA
1 ATA-AAAATAAAA
11742517 ATAAAAATAAAA
1 ATAAAAATAAAA
11742529 ATAAA
1 ATAAA
11742534 TCTAAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (12 bp):
ATAAAAATAAAA
Found at i:11750101 original size:3 final size:3
Alignment explanation
Indices: 11750088--11750167 Score: 55
Period size: 3 Copynumber: 27.3 Consensus size: 3
11750078 ATTACTATAT
* *
11750088 TTA TATA TTA TTA -TA TT- TTAA TTA TT- TT- TTA -TA TT- TAA TAA
1 TTA T-TA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
*
11750129 TTA ATA TTAA TTA TTA TTA TTA TTA TTA TTA TTTA TTA T
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA -TTA TTA T
11750168 ATTCATTTAA
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
2 11 0.17
3 42 0.66
4 11 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:11750102 original size:16 final size:16
Alignment explanation
Indices: 11750078--11750292 Score: 72
Period size: 16 Copynumber: 14.7 Consensus size: 16
11750068 ATCTATTTTA
*
11750078 ATTACTATATTTATAT
1 ATTATTATATTTATAT
11750094 ATTATTATATTT-TA-
1 ATTATTATATTTATAT
11750108 ATTATT-T-TTTATAT
1 ATTATTATATTTATAT
*
11750122 -TTA--ATAATTA-AT
1 ATTATTATATTTATAT
11750134 ATTAATTAT-TATTAT-T
1 ATT-ATTATAT-TTATAT
11750150 ATTATTATTATTTATTAT
1 ATTATTA-TATTTA-TAT
*
11750168 ATTCATT-TAATTTACA-
1 ATT-ATTAT-ATTTATAT
**
11750184 A--AACATA-TTATA-
1 ATTATTATATTTATAT
11750196 ATTATT-T-TTTATA-
1 ATTATTATATTTATAT
**
11750209 AAAATATATATTT-TA-
1 ATTAT-TATATTTATAT
*
11750224 ATTACTATATTTATAT
1 ATTATTATATTTATAT
11750240 ATTATTATA-TT-T-T
1 ATTATTATATTTATAT
11750253 -TTATT-TATTTATTAT
1 ATTATTATATTTA-TAT
* *
11750268 ATT-TAATAATTAT-T
1 ATTATTATATTTATAT
11750282 ATTATTATATT
1 ATTATTATATT
11750293 CATTTAATTT
Statistics
Matches: 148, Mismatches: 19, Indels: 65
0.64 0.08 0.28
Matches are distributed among these distances:
11 2 0.01
12 18 0.12
13 23 0.16
14 23 0.16
15 23 0.16
16 43 0.29
17 4 0.03
18 9 0.06
19 3 0.02
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTATTATATTTATAT
Found at i:11750103 original size:10 final size:10
Alignment explanation
Indices: 11750088--11750167 Score: 51
Period size: 10 Copynumber: 8.1 Consensus size: 10
11750078 ATTACTATAT
11750088 TTATATATTA
1 TTATATATTA
*
11750098 TTATATTTTAA
1 TTATATATT-A
* *
11750109 TTATTTTTTA
1 TTATATATTA
* *
11750119 -TATTTAATAA
1 TTATAT-ATTA
11750129 TTA-ATATTAA
1 TTATATATT-A
11750139 TTAT-TATTA
1 TTATATATTA
11750148 TTAT-TATTA
1 TTATATATTA
*
11750157 TTATTTATTA
1 TTATATATTA
11750167 T
1 T
11750168 ATTCATTTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
9 21 0.36
10 26 0.45
11 11 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTATATATTA
Found at i:11750175 original size:13 final size:13
Alignment explanation
Indices: 11750085--11750176 Score: 58
Period size: 13 Copynumber: 7.5 Consensus size: 13
11750075 TTAATTACTA
11750085 TATTTA-TA-TAT
1 TATTTATTATTAT
11750096 TATTATATT-TTAAT
1 TATT-TATTATT-AT
11750110 TA-TT-TT-TTA-
1 TATTTATTATTAT
* *
11750119 TATTTAATAATTAA
1 TATTT-ATTATTAT
*
11750133 TATTAATTATTAT
1 TATTTATTATTAT
11750146 TA-TTATTATTAT
1 TATTTATTATTAT
11750158 TATTTATTA-TAT
1 TATTTATTATTAT
11750170 TCATTTA
1 T-ATTTA
11750177 ATTTACAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
9 2 0.03
10 3 0.05
11 8 0.12
12 19 0.29
13 25 0.38
14 8 0.12
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTTATTATTAT
Found at i:11750280 original size:20 final size:22
Alignment explanation
Indices: 11750234--11750292 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 22
11750224 ATTACTATAT
** *
11750234 TTATATATTATTATATTTTTTAT
1 TTAT-TATTATTATATTTAATAA
11750257 TTA-T-TTATTATATTTAATAA
1 TTATTATTATTATATTTAATAA
11750277 TTATTATTATTATATT
1 TTATTATTATTATATT
11750293 CATTTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 16 0.52
21 2 0.06
22 10 0.32
23 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TTATTATTATTATATTTAATAA
Found at i:11757569 original size:31 final size:32
Alignment explanation
Indices: 11757452--11757591 Score: 153
Period size: 32 Copynumber: 4.4 Consensus size: 32
11757442 AGTCGAGGGT
*
11757452 TTACCTATGTTCTACGGAACATATGGACAGAA
1 TTACCTATGTTCTAAGGAACATATGGACAGAA
* *
11757484 TTACCTATGTCTTTCAGG-ACATATGGACAGAA
1 TTACCTATGT-TCTAAGGAACATATGGACAGAA
*** *
11757516 TTACCTATG-TCTTTTGAGACATATGGACAGTA
1 TTACCTATGTTCTAAGGA-ACATATGGACAGAA
*
11757548 -TACCTATGTTCTAAGGAACATATGGACAG-T
1 TTACCTATGTTCTAAGGAACATATGGACAGAA
*
11757578 TTACCTAGGTTCTA
1 TTACCTATGTTCTA
11757592 CGAGACCTAT
Statistics
Matches: 90, Mismatches: 13, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
30 3 0.03
31 32 0.36
32 51 0.57
33 4 0.04
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (32 bp):
TTACCTATGTTCTAAGGAACATATGGACAGAA
Found at i:11758050 original size:6 final size:6
Alignment explanation
Indices: 11758041--11759036 Score: 1859
Period size: 6 Copynumber: 166.7 Consensus size: 6
11758031 GATGATGATG
*
11758041 GTATAT GTATAC GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
11758089 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
11758137 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
11758185 GTATAT GTATATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT G--TATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
11758235 GTATAT G--TAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
11758281 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
11758329 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
11758377 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
11758425 GTATAT G--TAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
11758471 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
11758519 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
11758567 G--TAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
11758613 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
11758661 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
11758709 GTATAT GTATAT GTATAT GTATAT GTATATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT G--TATAT GTATAT GTATAT GTATAT
11758759 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT G--TAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
11758805 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
11758853 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
11758901 GTATAT GTATGTAT GTATAT GTATAT GTATAT GTATAT GTATAT G--TAT
1 GTATAT GTA--TAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
11758949 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
11758997 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTAT
11759037 GCATTTTAAT
Statistics
Matches: 972, Mismatches: 2, Indels: 32
0.97 0.00 0.03
Matches are distributed among these distances:
4 20 0.02
6 934 0.96
8 18 0.02
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:11759432 original size:21 final size:21
Alignment explanation
Indices: 11759402--11759444 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
11759392 ACGAAAGTCG
*
11759402 CTGTAGCAGTGCATCGATGCA
1 CTGTAACAGTGCATCGATGCA
11759423 CTGTAACAGTGCATCGATGCA
1 CTGTAACAGTGCATCGATGCA
11759444 C
1 C
11759445 AATTTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (21 bp):
CTGTAACAGTGCATCGATGCA
Found at i:11759492 original size:21 final size:21
Alignment explanation
Indices: 11759466--11759506 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
11759456 AAAATTTTAG
*
11759466 TGCATCGGTGCACTGTAGCAA
1 TGCATCGATGCACTGTAGCAA
11759487 TGCATCGATGCACTGTAGCA
1 TGCATCGATGCACTGTAGCA
11759507 CTATTCATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (21 bp):
TGCATCGATGCACTGTAGCAA
Found at i:11760774 original size:19 final size:18
Alignment explanation
Indices: 11760726--11760770 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
11760716 TCATGTTTAG
11760726 ATTTTTAAAAAA-A--TT
1 ATTTTTAAAAAATATTTT
*
11760741 ATTTTTAAATAATATTTT
1 ATTTTTAAAAAATATTTT
11760759 ATTTTTAAAAAA
1 ATTTTTAAAAAA
11760771 ATATATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 11 0.44
16 1 0.04
18 13 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTTTAAAAAATATTTT
Found at i:11766612 original size:21 final size:21
Alignment explanation
Indices: 11766582--11766645 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
11766572 AATGCTGGAG
11766582 GGGTACCGATACCCTGCTATA
1 GGGTACCGATACCCTGCTATA
* * * *
11766603 GGGTATCGATATCCTGTTACA
1 GGGTACCGATACCCTGCTATA
11766624 GGGTACCGATACCCTGCTATA
1 GGGTACCGATACCCTGCTATA
11766645 G
1 G
11766646 TACTGCTACA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (21 bp):
GGGTACCGATACCCTGCTATA
Found at i:11767308 original size:30 final size:31
Alignment explanation
Indices: 11767269--11767389 Score: 77
Period size: 31 Copynumber: 3.9 Consensus size: 31
11767259 GAATGACCTA
* * * *
11767269 TCCAGAGGTCATAAAGAACCTCGG-CAACTG
1 TCCATAGGTCACAAAGAACCTAGGTAAACTG
* *
11767299 TCCATAGGTCCCGAAGAACCTAGGTAAACTG
1 TCCATAGGTCACAAAGAACCTAGGTAAACTG
* * ** * *
11767330 TCCATATGTTC-CATAGAAAATAAGTAAATTG
1 TCCATA-GGTCACAAAGAACCTAGGTAAACTG
* *
11767361 TCCATATGTC-CAGAAGAACATAGGTAAAC
1 TCCATAGGTCACA-AAGAACCTAGGTAAAC
11767390 CCTCGACTCT
Statistics
Matches: 69, Mismatches: 19, Indels: 5
0.74 0.20 0.05
Matches are distributed among these distances:
30 23 0.33
31 43 0.62
32 3 0.04
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.22
Consensus pattern (31 bp):
TCCATAGGTCACAAAGAACCTAGGTAAACTG
Found at i:11767332 original size:31 final size:31
Alignment explanation
Indices: 11767294--11767389 Score: 113
Period size: 31 Copynumber: 3.1 Consensus size: 31
11767284 GAACCTCGGC
* *
11767294 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* * *
11767325 AACTGTCCATATGTTCC-ATAGAAAATAAGTA
1 AACTGTCCATATGTCCCGA-AGAACATAGGTA
* *
11767356 AATTGTCCATATGTCCAGAAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
11767387 AAC
1 AAC
11767390 CCTCGACTCT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
30 1 0.02
31 50 0.96
32 1 0.02
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.24
Consensus pattern (31 bp):
AACTGTCCATATGTCCCGAAGAACATAGGTA
Found at i:11780285 original size:29 final size:29
Alignment explanation
Indices: 11780243--11780298 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
11780233 AGCGAGCAAG
11780243 GGTAGGTCGCCATGCACGCTGGGCGACAT
1 GGTAGGTCGCCATGCACGCTGGGCGACAT
11780272 GGTAGGTCGCCATGCACGCTGGGCGAC
1 GGTAGGTCGCCATGCACGCTGGGCGAC
11780299 CTTGTCCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.16, C:0.29, G:0.39, T:0.16
Consensus pattern (29 bp):
GGTAGGTCGCCATGCACGCTGGGCGACAT
Found at i:11780351 original size:22 final size:22
Alignment explanation
Indices: 11780323--11780382 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
11780313 ATTCCTGCGT
*
11780323 GCCTGCTCCTCACTGCATGCTC
1 GCCTGCTCCCCACTGCATGCTC
*
11780345 GCCTGCTCCCCGCTGCATGCTC
1 GCCTGCTCCCCACTGCATGCTC
* *
11780367 GTCTGCTCCCCGCTGC
1 GCCTGCTCCCCACTGC
11780383 TCCATGCACC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.05, C:0.48, G:0.22, T:0.25
Consensus pattern (22 bp):
GCCTGCTCCCCACTGCATGCTC
Found at i:11780437 original size:24 final size:22
Alignment explanation
Indices: 11780410--11780462 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 22
11780400 GCTGCATTAT
11780410 TGCAACATAATTTTCGTTGCTTCA
1 TGCAACATAA-TTT-GTTGCTTCA
* *
11780434 TGCAGCATCATTTGTTGCTTCA
1 TGCAACATAATTTGTTGCTTCA
11780456 TGCAACA
1 TGCAACA
11780463 ATTATTGCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 15 0.58
23 3 0.12
24 8 0.31
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (22 bp):
TGCAACATAATTTGTTGCTTCA
Found at i:11780705 original size:18 final size:19
Alignment explanation
Indices: 11780677--11780712 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
11780667 AAATTTTCAT
11780677 TTTATTTAATTTAAATTAG
1 TTTATTTAATTTAAATTAG
11780696 TTTA-TTAATTTAAATTA
1 TTTATTTAATTTAAATTA
11780713 TTAGTTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
TTTATTTAATTTAAATTAG
Found at i:11780950 original size:30 final size:30
Alignment explanation
Indices: 11780899--11781016 Score: 184
Period size: 30 Copynumber: 3.9 Consensus size: 30
11780889 TAGTAGTAAA
* *
11780899 TTATAATTAAAAAATCA-TTTATTAGTTTAAG
1 TTAT-ATTAAAGAAT-AGTTTATTAGTTGAAG
11780930 TTATATTAAAGAATAGTTTATTAGTTGAAG
1 TTATATTAAAGAATAGTTTATTAGTTGAAG
*
11780960 CTATATTAAAGAATAGTTTATTAGTTGAAG
1 TTATATTAAAGAATAGTTTATTAGTTGAAG
11780990 TTATATTAAAGAATAGTTTATTAGTTG
1 TTATATTAAAGAATAGTTTATTAGTTG
11781017 TTTAAGGGAA
Statistics
Matches: 82, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
29 1 0.01
30 77 0.94
31 4 0.05
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.44
Consensus pattern (30 bp):
TTATATTAAAGAATAGTTTATTAGTTGAAG
Found at i:11780951 original size:15 final size:15
Alignment explanation
Indices: 11780928--11781012 Score: 52
Period size: 15 Copynumber: 5.6 Consensus size: 15
11780918 TATTAGTTTA
11780928 AGTTATATTAAAGAAT
1 AGTT-TATTAAAGAAT
**
11780944 AGTTTATTAGTTG-A-
1 AGTTTATTA-AAGAAT
*
11780958 AGCTATATTAAAGAAT
1 AG-TTTATTAAAGAAT
**
11780974 AGTTTATTAGTTG-A-
1 AGTTTATTA-AAGAAT
11780988 AGTTATATTAAAGAAT
1 AGTT-TATTAAAGAAT
11781004 AGTTTATTA
1 AGTTTATTA
11781013 GTTGTTTAAG
Statistics
Matches: 51, Mismatches: 10, Indels: 17
0.65 0.13 0.22
Matches are distributed among these distances:
14 8 0.16
15 31 0.61
16 12 0.24
ACGTcount: A:0.41, C:0.01, G:0.15, T:0.42
Consensus pattern (15 bp):
AGTTTATTAAAGAAT
Found at i:11781098 original size:15 final size:16
Alignment explanation
Indices: 11781070--11781103 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
11781060 GTTTGTTACT
11781070 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
11781086 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
11781101 TTA
1 TTA
11781104 AATTTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:11783539 original size:14 final size:14
Alignment explanation
Indices: 11783520--11783546 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11783510 TAATAATAAT
11783520 TATTAAATCATTAG
1 TATTAAATCATTAG
11783534 TATTAAATCATTA
1 TATTAAATCATTA
11783547 ATAATGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (14 bp):
TATTAAATCATTAG
Found at i:11783577 original size:11 final size:11
Alignment explanation
Indices: 11783563--11783593 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
11783553 ATTTATTATC
11783563 AAATCATTACT
1 AAATCATTACT
*
11783574 AAATCATTATT
1 AAATCATTACT
11783585 AAATCATTA
1 AAATCATTA
11783594 TTATCATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (11 bp):
AAATCATTACT
Found at i:11783619 original size:26 final size:26
Alignment explanation
Indices: 11783505--11783843 Score: 220
Period size: 26 Copynumber: 13.7 Consensus size: 26
11783495 TTATTTCATA
* * *
11783505 ATTATTAAT-AATAATTATTA-AATC
1 ATTATTATTAAATCATTATTATAATG
*
11783529 ATTAGTATTAAATCATTA--ATAATG
1 ATTATTATTAAATCATTATTATAATG
* *
11783553 ATTTATTATCAAATCATTA--CTAA--
1 A-TTATTATTAAATCATTATTATAATG
* *
11783576 ATCATTATTAAATCATTA-T-T-ATC
1 ATTATTATTAAATCATTATTATAATG
*
11783599 ATTGTTATTAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
* *
11783625 ATTATTACTAAATCATTTTTATAATG
1 ATTATTATTAAATCATTATTATAATG
* * *
11783651 ATTATTATCAAATCATTACTA-AATC
1 ATTATTATTAAATCATTATTATAATG
* * *
11783676 ATCAAATCATT-AA--A-TATT-GAA--
1 AT--TATTATTAAATCATTATTATAATG
*
11783697 ATTATTATTAAATCATTA-T-T-ATC
1 ATTATTATTAAATCATTATTATAATG
11783720 ATTATTATTAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
*
11783746 ATTATTACTAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
* * *
11783772 ATTATTATCAAATCATTACTA-AATC
1 ATTATTATTAAATCATTATTATAATG
* * * *
11783797 ATTAAATATTGAAATCATTAAATAAAATC
1 ATT-ATTATT-AAATCATT-ATTATAATG
*
11783826 ATTATTATCAAATCATTA
1 ATTATTATTAAATCATTA
11783844 AATCATTAAA
Statistics
Matches: 252, Mismatches: 38, Indels: 48
0.75 0.11 0.14
Matches are distributed among these distances:
19 5 0.02
20 2 0.01
21 4 0.02
22 18 0.07
23 43 0.17
24 14 0.06
25 38 0.15
26 94 0.37
27 20 0.08
28 7 0.03
29 7 0.03
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (26 bp):
ATTATTATTAAATCATTATTATAATG
Found at i:11783715 original size:121 final size:121
Alignment explanation
Indices: 11783573--11783819 Score: 426
Period size: 121 Copynumber: 2.0 Consensus size: 121
11783563 AAATCATTAC
*
11783573 TAAATCATTATTAAATCATTATTATCATTGTTATTAAATCATTATTATAATGATTATTACTAAAT
1 TAAATCATTATTAAATCATTATTATCATTATTATTAAATCATTATTATAATGATTATTACTAAAT
*
11783638 CATTTTTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATT-AAAT-AT
66 CATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAAT-ATTGAAATCAT
*
11783693 TGAAATTATTATTAAATCATTATTATCATTATTATTAAATCATTATTATAATGATTATTACTAAA
1 T-AAATCATTATTAAATCATTATTATCATTATTATTAAATCATTATTATAATGATTATTACTAAA
*
11783758 TCATTATTATAATGATTATTATCAAATCATTACTAAATCATTAAATATTGAAATCAT
65 TCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATATTGAAATCAT
11783815 TAAAT
1 TAAAT
11783820 AAAATCATTA
Statistics
Matches: 120, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
120 4 0.03
121 113 0.94
122 3 0.03
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (121 bp):
TAAATCATTATTAAATCATTATTATCATTATTATTAAATCATTATTATAATGATTATTACTAAAT
CATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATATTGAAATCAT
Found at i:11783811 original size:16 final size:14
Alignment explanation
Indices: 11783791--11783860 Score: 65
Period size: 16 Copynumber: 4.9 Consensus size: 14
11783781 AAATCATTAC
11783791 TAAATCATTAAATA
1 TAAATCATTAAATA
11783805 TTGAAATCATTAAATA
1 -T-AAATCATTAAATA
*
11783821 -AAATCATT-ATTA
1 TAAATCATTAAATA
11783833 TCAAATCATTAAATCA
1 T-AAATCATTAAAT-A
11783849 TTAAAT-ATTAAA
1 -TAAATCATTAAA
11783861 ATCATTACTA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
12 3 0.06
13 8 0.17
14 8 0.17
15 9 0.19
16 18 0.38
17 1 0.02
ACGTcount: A:0.53, C:0.09, G:0.01, T:0.37
Consensus pattern (14 bp):
TAAATCATTAAATA
Found at i:11783815 original size:27 final size:27
Alignment explanation
Indices: 11783781--11784059 Score: 104
Period size: 27 Copynumber: 10.7 Consensus size: 27
11783771 GATTATTATC
*
11783781 AAATCATTACTAAATCATTAAATATTG
1 AAATCATTACTAAATCATTAAATATTA
* * *
11783808 AAATCATTAAATAAAATCATT-ATTA-TC
1 AAATCATT-ACT-AAATCATTAAATATTA
11783835 AAATCA-T--TAAATCATTAAATATTA
1 AAATCATTACTAAATCATTAAATATTA
* *
11783859 AAATCATTACTAAATCATCAAATCA-TC
1 AAATCATTACTAAATCATTAAAT-ATTA
*
11783886 AAAT-A-T--TAAA--ATT-ATTATT-
1 AAATCATTACTAAATCATTAAATATTA
* * *
11783905 AAATCATTATTATCAAATCATT-ACTA-GA
1 AAATCATTA--CT-AAATCATTAAATATTA
** *
11783933 TCATCAAATTATTAAAT-ATTAAAATCATTA
1 AAATC--ATTACTAAATCATT-AAAT-ATTA
11783963 CTAAATCA-T-C-AAATCATTAAATATTA
1 --AAATCATTACTAAATCATTAAATATTA
* * *
11783989 AAATCATTAGTAAATCCTCAAATCATT-
1 AAATCATTACTAAATCATTAAAT-ATTA
*
11784016 AAATCATTACTAAATCATCAAATCATT-
1 AAATCATTACTAAATCATTAAAT-ATTA
11784043 AAAT-ATTA--AAATCATTA
1 AAATCATTACTAAATCATTA
11784060 CTAAATCATC
Statistics
Matches: 195, Mismatches: 25, Indels: 67
0.68 0.09 0.23
Matches are distributed among these distances:
19 5 0.03
20 4 0.02
21 3 0.02
22 8 0.04
23 8 0.04
24 21 0.11
25 4 0.02
26 16 0.08
27 83 0.43
28 24 0.12
29 10 0.05
30 6 0.03
32 3 0.02
ACGTcount: A:0.50, C:0.13, G:0.01, T:0.36
Consensus pattern (27 bp):
AAATCATTACTAAATCATTAAATATTA
Found at i:11783854 original size:35 final size:34
Alignment explanation
Indices: 11783800--11783913 Score: 117
Period size: 35 Copynumber: 3.3 Consensus size: 34
11783790 CTAAATCATT
11783800 AAAT-ATTGAAATCATTAAATA-AAATCATTATTATC
1 AAATCATT-AAATCATTAAATATAAA--ATTATTATC
*
11783835 AAATCATTAAATCATTAAATATTAAAATCATTA-C
1 AAATCATTAAATCATTAAATA-TAAAATTATTATC
* * *
11783869 TAAATCATCAAATCATCAAATATTAAAATTATTATT
1 -AAATCATTAAATCATTAAATA-TAAAATTATTATC
11783905 AAATCATTA
1 AAATCATTA
11783914 TTATCAAATC
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
34 1 0.01
35 61 0.90
36 3 0.04
37 3 0.04
ACGTcount: A:0.52, C:0.11, G:0.01, T:0.37
Consensus pattern (34 bp):
AAATCATTAAATCATTAAATATAAAATTATTATC
Found at i:11783862 original size:8 final size:9
Alignment explanation
Indices: 11783835--11784094 Score: 110
Period size: 8 Copynumber: 29.0 Consensus size: 9
11783825 CATTATTATC
11783835 AAATCATT-
1 AAATCATTA
11783843 AAATCATT-
1 AAATCATTA
11783851 AAAT-ATTA
1 AAATCATTA
11783859 AAATCATTA
1 AAATCATTA
*
11783868 CTAAATCA-TC
1 --AAATCATTA
*
11783878 AAATCA-TC
1 AAATCATTA
11783886 AAAT-ATTA
1 AAATCATTA
*
11783894 AAATTATTA
1 AAATCATTA
11783903 TTAAATCATTATTA
1 --AAATC---ATTA
11783917 TCAAATCATTA
1 --AAATCATTA
* *
11783928 CTAGATCA-TC
1 --AAATCATTA
*
11783938 AAATTATT-
1 AAATCATTA
11783946 AAAT-ATTA
1 AAATCATTA
11783954 AAATCATTA
1 AAATCATTA
*
11783963 CTAAATCA-TC
1 --AAATCATTA
11783973 AAATCATT-
1 AAATCATTA
11783981 AAAT-ATTA
1 AAATCATTA
11783989 AAATCATTA
1 AAATCATTA
* *
11783998 GTAAATC-CTC
1 --AAATCATTA
11784008 AAATCATT-
1 AAATCATTA
11784016 AAATCATTA
1 AAATCATTA
*
11784025 CTAAATCA-TC
1 --AAATCATTA
11784035 AAATCATT-
1 AAATCATTA
11784043 AAAT-ATTA
1 AAATCATTA
11784051 AAATCATTA
1 AAATCATTA
*
11784060 CTAAATCA-TC
1 --AAATCATTA
11784070 AAATCATT-
1 AAATCATTA
11784078 AAAT-ATTA
1 AAATCATTA
11784086 AAATCATTA
1 AAATCATTA
11784095 CTAAATAATC
Statistics
Matches: 203, Mismatches: 16, Indels: 65
0.71 0.06 0.23
Matches are distributed among these distances:
7 16 0.08
8 100 0.49
9 29 0.14
10 6 0.03
11 42 0.21
14 10 0.05
ACGTcount: A:0.50, C:0.13, G:0.01, T:0.36
Consensus pattern (9 bp):
AAATCATTA
Found at i:11783874 original size:62 final size:61
Alignment explanation
Indices: 11783808--11784085 Score: 246
Period size: 62 Copynumber: 4.4 Consensus size: 61
11783798 TTAAATATTG
* *
11783808 AAATCATTAAAT-A-AAATCATTATTATCAAATCATTAAATCATTAAATATTAAAATCATTACT
1 AAATCATCAAATCATAAAT-ATTA-TAT-AAATCATCAAATCATTAAATATTAAAATCATTACT
* * * *
11783870 AAATCATCAAATCATCAAATATTA-A-AATTATTATTAAATCATT-ATTA-TCAAATCATTACT
1 AAATCATCAAATCAT-AAATATTATATAA--ATCATCAAATCATTAAATATTAAAATCATTACT
* *
11783930 AGATCATCAAATTATTAAATATTAAAATCATTACTAAATCATCAAATCATTAAATATTAAAATCA
1 AAATCATCAAATCA-TAAATA-T----T-A-TA-TAAATCATCAAATCATTAAATATTAAAATCA
*
11783995 TTAGT
57 TTACT
* *
11784000 AAATCCTCAAATCATTAAATCATTA-CTAAATCATCAAATCATTAAATATTAAAATCATTACT
1 AAATCATCAAATCA-TAAAT-ATTATATAAATCATCAAATCATTAAATATTAAAATCATTACT
11784062 AAATCATCAAATCATTAAATATTA
1 AAATCATCAAATCA-TAAATATTA
11784086 AAATCATTAC
Statistics
Matches: 180, Mismatches: 17, Indels: 39
0.76 0.07 0.17
Matches are distributed among these distances:
60 31 0.17
61 9 0.05
62 79 0.44
63 1 0.01
64 4 0.02
65 6 0.03
66 2 0.01
68 13 0.07
69 3 0.02
70 31 0.17
71 1 0.01
ACGTcount: A:0.50, C:0.13, G:0.01, T:0.36
Consensus pattern (61 bp):
AAATCATCAAATCATAAATATTATATAAATCATCAAATCATTAAATATTAAAATCATTACT
Found at i:11783915 original size:14 final size:14
Alignment explanation
Indices: 11783896--11783927 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
11783886 AAATATTAAA
*
11783896 ATTATTATTAAATC
1 ATTATTATCAAATC
11783910 ATTATTATCAAATC
1 ATTATTATCAAATC
11783924 ATTA
1 ATTA
11783928 CTAGATCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTATTATCAAATC
Found at i:11783938 original size:60 final size:62
Alignment explanation
Indices: 11783840--11784115 Score: 283
Period size: 62 Copynumber: 4.3 Consensus size: 62
11783830 TTATCAAATC
*
11783840 ATTAAATCATTAAATATTAAAATCATTACTAAATCATCAAATCATCAAATATTAAAATTATT
1 ATTAAATCATTAAATATTAAAATCATTACTAAATCATCAAATCATCAAATATTAAAATCATT
* * * * *
11783902 ATTAAATCATT-ATTA-TCAAATCATTACTAGATCATCAAATTATTAAATATTAAAATCATTACT
1 ATTAAATCATTAAATATTAAAATCATTACTAAATCATCAAATCATCAAATATTAAAATCA-T--T
* * *
11783965 AAATCATCAAATCATTAAATATTAAAATCATTAGTAAATCCTCAAATCATTAAATCATTACTAAA
1 --AT--T-AAATCATTAAATATTAAAATCATTACTAAATCATCAAATCATCAAAT-ATTA--AAA
11784030 TC---
58 TCATT
* *
11784032 ATCAAATCATTAAATATTAAAATCATTACTAAATCATCAAATCATTAAATATTAAAATCATT
1 ATTAAATCATTAAATATTAAAATCATTACTAAATCATCAAATCATCAAATATTAAAATCATT
* * *
11784094 ACTAAATAATCAAATTATTAAA
1 ATTAAATCATTAAA-TATTAAA
11784116 TATTAAAATT
Statistics
Matches: 178, Mismatches: 19, Indels: 33
0.77 0.08 0.14
Matches are distributed among these distances:
59 5 0.03
60 38 0.21
61 8 0.04
62 66 0.37
63 8 0.04
65 4 0.02
67 1 0.01
68 8 0.04
69 3 0.02
70 28 0.16
71 4 0.02
73 5 0.03
ACGTcount: A:0.50, C:0.13, G:0.01, T:0.36
Consensus pattern (62 bp):
ATTAAATCATTAAATATTAAAATCATTACTAAATCATCAAATCATCAAATATTAAAATCATT
Found at i:11783960 original size:35 final size:35
Alignment explanation
Indices: 11783919--11784138 Score: 312
Period size: 35 Copynumber: 6.5 Consensus size: 35
11783909 CATTATTATC
* *
11783919 AAATCATTACTAGATCATCAAATTATTAAATATTA
1 AAATCATTACTAAATCATCAAATCATTAAATATTA
11783954 AAATCATTACTAAATCATCAAATCATTAAATATTA
1 AAATCATTACTAAATCATCAAATCATTAAATATTA
* *
11783989 AAATCATTAGTAAATCCTCAAATC-------ATT-
1 AAATCATTACTAAATCATCAAATCATTAAATATTA
11784016 AAATCATTACTAAATCATCAAATCATTAAATATTA
1 AAATCATTACTAAATCATCAAATCATTAAATATTA
11784051 AAATCATTACTAAATCATCAAATCATTAAATATTA
1 AAATCATTACTAAATCATCAAATCATTAAATATTA
* *
11784086 AAATCATTACTAAATAATCAAATTATTAAATATTA
1 AAATCATTACTAAATCATCAAATCATTAAATATTA
* *
11784121 AAATTATTATTAAATCAT
1 AAATCATTACTAAATCAT
11784139 TTTTATGGTT
Statistics
Matches: 166, Mismatches: 11, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
27 22 0.13
28 3 0.02
34 3 0.02
35 138 0.83
ACGTcount: A:0.50, C:0.13, G:0.01, T:0.36
Consensus pattern (35 bp):
AAATCATTACTAAATCATCAAATCATTAAATATTA
Found at i:11784101 original size:19 final size:19
Alignment explanation
Indices: 11783850--11784135 Score: 98
Period size: 19 Copynumber: 15.3 Consensus size: 19
11783840 ATTAAATCAT
11783850 TAAATATTAAAATCATTAC
1 TAAATATTAAAATCATTAC
*
11783869 TAAATCA-TCAAATCA-T-C
1 TAAAT-ATTAAAATCATTAC
* *
11783886 -AAATATTAAAATTATTAT
1 TAAATATTAAAATCATTAC
11783904 TAAATCATTATTATCAAATCATTAC
1 T-AA--A-TATTA--AAATCATTAC
* * *
11783929 TAGATCA-T-CAA--ATTAT
1 TAAAT-ATTAAAATCATTAC
11783945 TAAATATTAAAATCATTAC
1 TAAATATTAAAATCATTAC
*
11783964 TAAATCA-TCAAATCA-T--
1 TAAAT-ATTAAAATCATTAC
11783980 TAAATATTAAAATCATTAGTAAATCC
1 TAAATATTAAAATCA-T--T--A--C
11784006 TCAAATCATT-AAATCATTAC
1 T-AAAT-ATTAAAATCATTAC
*
11784026 TAAATCA-TCAAATCA-T--
1 TAAAT-ATTAAAATCATTAC
11784042 TAAATATTAAAATCATTAC
1 TAAATATTAAAATCATTAC
*
11784061 TAAATCA-TCAAATCA-T--
1 TAAAT-ATTAAAATCATTAC
11784077 TAAATATTAAAATCATTAC
1 TAAATATTAAAATCATTAC
* * *
11784096 TAAATAAT-CAA--ATTAT
1 TAAATATTAAAATCATTAC
* *
11784112 TAAATATTAAAATTATTAT
1 TAAATATTAAAATCATTAC
11784131 TAAAT
1 TAAAT
11784136 CATTTTTATG
Statistics
Matches: 202, Mismatches: 22, Indels: 86
0.65 0.07 0.28
Matches are distributed among these distances:
15 5 0.02
16 66 0.33
17 8 0.04
18 9 0.04
19 69 0.34
20 8 0.04
21 2 0.01
22 4 0.02
23 5 0.02
24 2 0.01
25 9 0.04
26 2 0.01
27 10 0.05
28 3 0.01
ACGTcount: A:0.50, C:0.12, G:0.01, T:0.37
Consensus pattern (19 bp):
TAAATATTAAAATCATTAC
Found at i:11784139 original size:97 final size:96
Alignment explanation
Indices: 11783835--11784123 Score: 413
Period size: 97 Copynumber: 3.0 Consensus size: 96
11783825 CATTATTATC
* * *
11783835 AAATCATTAAATCATTAAATATTAAAATCATTACTAAATCATCAAATCATCAAATATTAAAATTA
1 AAATCATCAAATCATTAAATATTAAAATCATTACTAAATCATCAAATCATTAAATATTAAAATCA
* * * *
11783900 TTATTAAATCAT--TATTATCAAATCATTACT
66 TTACTAAATCATCAAATTATTAAATCATTA-A
* *
11783930 AGATCATCAAATTATTAAATATTAAAATCATTACTAAATCATCAAATCATTAAATATTAAAATCA
1 AAATCATCAAATCATTAAATATTAAAATCATTACTAAATCATCAAATCATTAAATATTAAAATCA
* * * *
11783995 TTAGTAAATCCTCAAATCATTAAATCATTACT
66 TTACTAAATCATCAAATTATTAAATCATTA-A
11784027 AAATCATCAAATCATTAAATATTAAAATCATTACTAAATCATCAAATCATTAAATATTAAAATCA
1 AAATCATCAAATCATTAAATATTAAAATCATTACTAAATCATCAAATCATTAAATATTAAAATCA
*
11784092 TTACTAAATAATCAAATTATTAAAT-ATTAA
66 TTACTAAATCATCAAATTATTAAATCATTAA
11784122 AA
1 AA
11784124 TTATTATTAA
Statistics
Matches: 175, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
95 72 0.41
96 4 0.02
97 99 0.57
ACGTcount: A:0.51, C:0.13, G:0.01, T:0.36
Consensus pattern (96 bp):
AAATCATCAAATCATTAAATATTAAAATCATTACTAAATCATCAAATCATTAAATATTAAAATCA
TTACTAAATCATCAAATTATTAAATCATTAA
Found at i:11784407 original size:13 final size:14
Alignment explanation
Indices: 11784389--11784421 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
11784379 AATAATAATT
*
11784389 TCATTATTA-CTAA
1 TCATTATTACCAAA
11784402 TCATTATTACCAAA
1 TCATTATTACCAAA
11784416 TCATTA
1 TCATTA
11784422 AATATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.42
Consensus pattern (14 bp):
TCATTATTACCAAA
Found at i:11784421 original size:49 final size:49
Alignment explanation
Indices: 11784344--11784470 Score: 209
Period size: 49 Copynumber: 2.6 Consensus size: 49
11784334 ATTACTAATA
11784344 ATTACTAAATCATTACTATCAAATCATTAAATACTAATAATAATTTCATT
1 ATTACT-AATCATTACTATCAAATCATTAAATACTAATAATAATTTCATT
* * *
11784394 ATTACTAATCATTATTACCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAATACTAATAATAATTTCATT
*
11784443 ATTACTAATCATTACTATCAAATAATTA
1 ATTACTAATCATTACTATCAAATCATTA
11784471 TTATAATTTT
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 65 0.92
50 6 0.08
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (49 bp):
ATTACTAATCATTACTATCAAATCATTAAATACTAATAATAATTTCATT
Found at i:11784516 original size:14 final size:14
Alignment explanation
Indices: 11784493--11784533 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
11784483 ATATAAAATC
11784493 ATTATTAAATCATG
1 ATTATTAAATCATG
*
11784507 ATTATCAAATCATG
1 ATTATTAAATCATG
11784521 ATTATTAAATCAT
1 ATTATTAAATCAT
11784534 TACTAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (14 bp):
ATTATTAAATCATG
Found at i:11787553 original size:15 final size:16
Alignment explanation
Indices: 11787533--11787562 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11787523 AATAAACACT
11787533 AAATAT-TTTTAAACA
1 AAATATCTTTTAAACA
11787548 AAATATCTTTTAAAC
1 AAATATCTTTTAAAC
11787563 GGGAATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATATCTTTTAAACA
Found at i:11787617 original size:83 final size:83
Alignment explanation
Indices: 11787444--11787605 Score: 299
Period size: 82 Copynumber: 2.0 Consensus size: 83
11787434 TTTTTAAAAC
* *
11787444 AACACTAAATATTTTTAAACACAATATTTTTTTAAACGGGAATAAATTAAACAAATTAATTTTAT
1 AACACTAAATATTTTTAAACAAAATATTCTTTTAAACGGGAATAAATTAAACAAATTAATTTTAT
11787509 ATAATCTAATATAAAATA
66 ATAATCTAATATAAAATA
11787527 AACACTAAATATTTTTAAACAAAATA-TCTTTTAAACGGGAATAAATTAAACAAATTAATTTTAT
1 AACACTAAATATTTTTAAACAAAATATTCTTTTAAACGGGAATAAATTAAACAAATTAATTTTAT
11787591 ATAATCTAATATAAA
66 ATAATCTAATATAAA
11787606 CTAACTAACT
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
82 52 0.68
83 25 0.32
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (83 bp):
AACACTAAATATTTTTAAACAAAATATTCTTTTAAACGGGAATAAATTAAACAAATTAATTTTAT
ATAATCTAATATAAAATA
Found at i:11793617 original size:20 final size:20
Alignment explanation
Indices: 11793581--11793625 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
11793571 GATAAAAAGT
*
11793581 AAAAGTTAAAAATGAAATAG
1 AAAAGTTAAAAATGAAAGAG
*
11793601 AAAAGTTAAGGAA-GAAAGAG
1 AAAAGTTAA-AAATGAAAGAG
11793621 AAAAG
1 AAAAG
11793626 AAAAAGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.64, C:0.00, G:0.22, T:0.13
Consensus pattern (20 bp):
AAAAGTTAAAAATGAAAGAG
Found at i:11800506 original size:23 final size:23
Alignment explanation
Indices: 11800480--11800528 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
11800470 ACAAAGAACC
11800480 AAAATAAA-CTTAAATATAACATT
1 AAAATAAAGCTTAAATAT-ACATT
* *
11800503 AAAATAAAGTTTAAATATCCATT
1 AAAATAAAGCTTAAATATACATT
11800526 AAA
1 AAA
11800529 CCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAATAAAGCTTAAATATACATT
Done.