Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007995.1 Hibiscus syriacus cultivar Beakdansim tig00110445_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: 866869
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 4
Found at i:695272 original size:20 final size:20
Alignment explanation
Indices: 695238--695277 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
695228 ATTTATTTTT
*
695238 CAATAATAAGTAATATTATA
1 CAATAATAAGTAATAATATA
695258 CAATAATAA-TAAATAATATA
1 CAATAATAAGT-AATAATATA
695278 TTAAATTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
CAATAATAAGTAATAATATA
Found at i:695362 original size:17 final size:18
Alignment explanation
Indices: 695326--695365 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
695316 AATAGATCAT
695326 AAATTGACAACAACAACA
1 AAATTGACAACAACAACA
695344 AAATTGA-AACCAA-AACA
1 AAATTGACAA-CAACAACA
695361 AAATT
1 AAATT
695366 TAAGCATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.62, C:0.17, G:0.05, T:0.15
Consensus pattern (18 bp):
AAATTGACAACAACAACA
Found at i:700135 original size:29 final size:30
Alignment explanation
Indices: 700102--700177 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
700092 GGTGATAGAG
* *
700102 TTTAGGGGGTTAACTT-AAATTTTAAAAAA
1 TTTAGAGGGTTAAATTAAAATTTTAAAAAA
* *
700131 TTTAGAGGTTTAAATTAAAATTTTCAAAAA
1 TTTAGAGGGTTAAATTAAAATTTTAAAAAA
* *
700161 TTTTGAAGGGTTCAATT
1 TTTAG-AGGGTTAAATT
700178 TATAGTTATT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 13 0.34
30 16 0.42
31 9 0.24
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.41
Consensus pattern (30 bp):
TTTAGAGGGTTAAATTAAAATTTTAAAAAA
Found at i:700692 original size:20 final size:20
Alignment explanation
Indices: 700643--700697 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
700633 AAAACAGTTT
*
700643 TTTAGCGGTATTTTTCAGTCA
1 TTTAGCGGCA-TTTTCAGTCA
* *
700664 TATAACGGCATTTTCAGTCA
1 TTTAGCGGCATTTTCAGTCA
*
700684 TTTAGCGGCGTTTT
1 TTTAGCGGCATTTT
700698 TATGTGCCGC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (20 bp):
TTTAGCGGCATTTTCAGTCA
Found at i:703233 original size:18 final size:18
Alignment explanation
Indices: 703210--703255 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
703200 CATTATCCCT
703210 AGTCATTTAATACACATA
1 AGTCATTTAATACACATA
703228 AGTCATTTAATACACATA
1 AGTCATTTAATACACATA
703246 AGTCATTTAA
1 AGTCATTTAA
703256 CACCTCTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (18 bp):
AGTCATTTAATACACATA
Found at i:707715 original size:41 final size:42
Alignment explanation
Indices: 707667--707859 Score: 125
Period size: 41 Copynumber: 4.7 Consensus size: 42
707657 ACCATATTAT
*
707667 GGCATTTGTATAAAAATGCCGCTAAAGTACT-ACTCTGTTGC
1 GGCATTTGTATAAAAATGCCGCTAAAGTACTAACTCTATTGC
* ** * * *
707708 GGTATTTGT-TGAAAAACACCACTATAG-A-TGAACTCTATTAC
1 GGCATTTGTAT-AAAAATGCCGCTAAAGTACT-AACTCTATTGC
* ** *
707749 GACATTTGTATAAAAACACCGCTAACA-TACT-ACTCTGTT-C
1 GGCATTTGTATAAAAATGCCGCTAA-AGTACTAACTCTATTGC
* * * *
707789 TGGCATTTGT-TGAAAAAATGCCACTATAG-ATTAACCCTATTGC
1 -GGCATTTGTAT--AAAAATGCCGCTAAAGTACTAACTCTATTGC
*
707832 GGCGTTTGTATAAAAATGCCGCTAAAGT
1 GGCATTTGTATAAAAATGCCGCTAAAGT
707860 TATTATTTGA
Statistics
Matches: 114, Mismatches: 23, Indels: 29
0.69 0.14 0.17
Matches are distributed among these distances:
39 1 0.01
40 4 0.04
41 79 0.69
42 27 0.24
43 3 0.03
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (42 bp):
GGCATTTGTATAAAAATGCCGCTAAAGTACTAACTCTATTGC
Found at i:707759 original size:82 final size:81
Alignment explanation
Indices: 707600--707859 Score: 292
Period size: 82 Copynumber: 3.1 Consensus size: 81
707590 GTTGCAGAAC
* * * * * *
707600 GCCGCTAAATTACTCCTCTATTGCGGCGTTTGTTGAACAAAAAGCCACTGTAGATTCACCATATT
1 GCCGCTAAAGTACTACTCTGTTGCGGCATTTGTTG-A-AAAAAGCCACTATAGATTAACC-TATT
*
707665 ATGGCATTTGTATAAAAAT
63 ACGGCATTTGTATAAAAAT
* *
707684 GCCGCTAAAGTACTACTCTGTTGCGGTATTTGTTGAAAAACA-CCACTATAGATGAACTCTATTA
1 GCCGCTAAAGTACTACTCTGTTGCGGCATTTGTTGAAAAA-AGCCACTATAGATTAAC-CTATTA
* *
707748 CGACATTTGTATAAAAAC
64 CGGCATTTGTATAAAAAT
*
707766 ACCGCTAACA-TACTACTCTGTT-CTGGCATTTGTTGAAAAAATGCCACTATAGATTAACCCTAT
1 GCCGCTAA-AGTACTACTCTGTTGC-GGCATTTGTTGAAAAAA-GCCACTATAGATTAA-CCTAT
* *
707829 TGCGGCGTTTGTATAAAAAT
62 TACGGCATTTGTATAAAAAT
707849 GCCGCTAAAGT
1 GCCGCTAAAGT
707860 TATTATTTGA
Statistics
Matches: 149, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
81 2 0.01
82 71 0.48
83 45 0.30
84 31 0.21
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (81 bp):
GCCGCTAAAGTACTACTCTGTTGCGGCATTTGTTGAAAAAAGCCACTATAGATTAACCTATTACG
GCATTTGTATAAAAAT
Found at i:708513 original size:21 final size:22
Alignment explanation
Indices: 708478--708541 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
708468 AAATTCTTTG
708478 AGAAAGTTGAAAGAAAATGATA
1 AGAAAGTTGAAAGAAAATGATA
* * *
708500 A-AAAGTAGAGAGAAAATGGTTA
1 AGAAAGTTGAAAGAAAAT-GATA
*
708522 AGAAAGTTGATAGAAAATGA
1 AGAAAGTTGAAAGAAAATGA
708542 GAGAATTCTC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 14 0.41
22 6 0.18
23 14 0.41
ACGTcount: A:0.56, C:0.00, G:0.25, T:0.19
Consensus pattern (22 bp):
AGAAAGTTGAAAGAAAATGATA
Found at i:708536 original size:23 final size:23
Alignment explanation
Indices: 708478--708540 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
708468 AAATTCTTTG
708478 AGAAAGTTGAAAGAAAAT-GATA
1 AGAAAGTTGAAAGAAAATGGATA
* * *
708500 A-AAAGTAGAGAGAAAATGGTTA
1 AGAAAGTTGAAAGAAAATGGATA
*
708522 AGAAAGTTGATAGAAAATG
1 AGAAAGTTGAAAGAAAATG
708541 AGAGAATTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 14 0.41
22 5 0.15
23 15 0.44
ACGTcount: A:0.56, C:0.00, G:0.25, T:0.19
Consensus pattern (23 bp):
AGAAAGTTGAAAGAAAATGGATA
Found at i:709012 original size:22 final size:23
Alignment explanation
Indices: 708978--709038 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
708968 AAATTGATTG
708978 TATGACACATTTTCATT-TGTCTT
1 TATGACACATTTTC-TTATGTCTT
* *
709001 TATG-CACGTTTTCTTATGTTTT
1 TATGACACATTTTCTTATGTCTT
* *
709023 TATGACATAATTTCTT
1 TATGACACATTTTCTT
709039 CTTTATTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 2 0.06
22 17 0.55
23 12 0.39
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.54
Consensus pattern (23 bp):
TATGACACATTTTCTTATGTCTT
Found at i:709948 original size:25 final size:25
Alignment explanation
Indices: 709920--709968 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
709910 ATCATATTAG
*
709920 AAATATACAATAAATCAGATATCAA
1 AAATATACAATAAATAAGATATCAA
709945 AAATATACAATAAATAAGATATCA
1 AAATATACAATAAATAAGATATCA
709969 GATAAAGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.61, C:0.10, G:0.04, T:0.24
Consensus pattern (25 bp):
AAATATACAATAAATAAGATATCAA
Found at i:711071 original size:29 final size:30
Alignment explanation
Indices: 711013--711071 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
711003 GAACTTAGAT
* * *
711013 CTAAATTTAATCAAAATTTCACTTTTGTCC
1 CTAAATTAAATCAAAATTTCAATTTAGTCC
711043 CTAAATTAAATCAAAA-TTCAATTTAGTCC
1 CTAAATTAAATCAAAATTTCAATTTAGTCC
711072 TCAAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.39, C:0.19, G:0.03, T:0.39
Consensus pattern (30 bp):
CTAAATTAAATCAAAATTTCAATTTAGTCC
Found at i:716669 original size:35 final size:35
Alignment explanation
Indices: 716624--716705 Score: 141
Period size: 35 Copynumber: 2.4 Consensus size: 35
716614 GATACTTGGG
716624 AAGGT-AGTATCGATATCAAGAT-TACCGATACCAT
1 AAGGTAAGTATCGATATCAAG-TGTACCGATACCAT
716658 AAGGTAAGTATCGATATCAAGTGTACCGATACCAT
1 AAGGTAAGTATCGATATCAAGTGTACCGATACCAT
716693 AAGGTAAGTATCG
1 AAGGTAAGTATCG
716706 GTACCCATTT
Statistics
Matches: 46, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
34 6 0.13
35 40 0.87
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.26
Consensus pattern (35 bp):
AAGGTAAGTATCGATATCAAGTGTACCGATACCAT
Found at i:717316 original size:2 final size:2
Alignment explanation
Indices: 717309--717342 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
717299 CTAAAGAAGC
*
717309 AT AT AT AT AT AT AT AA 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
717343 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:719428 original size:2 final size:2
Alignment explanation
Indices: 719421--719453 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
719411 ACGATAAATT
*
719421 TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
719454 CGAAAAACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:719877 original size:39 final size:39
Alignment explanation
Indices: 719821--719967 Score: 145
Period size: 39 Copynumber: 3.8 Consensus size: 39
719811 GTACACCCAA
* * * *
719821 TAAGGGCTTACCCTGTGCACAAAGCAGAGGTGTCTGCGG
1 TAAGGTCTTATCCTGTGCACAAAGCAGAGGAGCCTGCGG
* * * *
719860 TAAGGTCTTATCATGTGCACAAAGAAGAGGAGCCTACAG
1 TAAGGTCTTATCCTGTGCACAAAGCAGAGGAGCCTGCGG
* * * * *
719899 TAAGGACTTACCCTGAGCATAAAGCCA-ATGAGCCTGCGG
1 TAAGGTCTTATCCTGTGCACAAAG-CAGAGGAGCCTGCGG
*
719938 TAAGGTCTTATCCTTTG-ACAAAGCAGAGGA
1 TAAGGTCTTATCCTGTGCACAAAGCAGAGGA
719968 ACCTACGAAA
Statistics
Matches: 83, Mismatches: 23, Indels: 5
0.75 0.21 0.05
Matches are distributed among these distances:
37 2 0.02
38 8 0.10
39 72 0.87
40 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (39 bp):
TAAGGTCTTATCCTGTGCACAAAGCAGAGGAGCCTGCGG
Found at i:723858 original size:24 final size:24
Alignment explanation
Indices: 723764--723858 Score: 93
Period size: 24 Copynumber: 4.0 Consensus size: 24
723754 ATTTTCGACT
* * *
723764 TGAATTCTGTTATGA-TACTTGACC
1 TGAATTCTGTTCTGATTTC-TGATC
* *
723788 TGAATTCTGTTCTGATTTCTAATT
1 TGAATTCTGTTCTGATTTCTGATC
* * *
723812 TGGATTCTGTTCTGATATATGATC
1 TGAATTCTGTTCTGATTTCTGATC
*
723836 TGAATTCTGTTTTGATTTCTGAT
1 TGAATTCTGTTCTGATTTCTGAT
723859 ATCTCTGTTT
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
24 54 0.96
25 2 0.04
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.49
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTCTGATC
Found at i:724500 original size:22 final size:22
Alignment explanation
Indices: 724474--724530 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
724464 CTCGGAGGGA
724474 ACCGATTCCCCCCCTAGGGGGT
1 ACCGATTCCCCCCCTAGGGGGT
724496 ACCGATTCCCCCCCTAGGGGGT
1 ACCGATTCCCCCCCTAGGGGGT
724518 ACCGATTCCCCCC
1 ACCGATTCCCCCC
724531 TGTTCAACGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.14, C:0.46, G:0.23, T:0.18
Consensus pattern (22 bp):
ACCGATTCCCCCCCTAGGGGGT
Found at i:730235 original size:22 final size:23
Alignment explanation
Indices: 730210--730255 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
730200 AACACAAGAA
*
730210 TTTTCCAAA-AAAAAAATT-ATT
1 TTTTTCAAATAAAAAAATTGATT
*
730231 TTTTTGAAATAAAAAAATTGATT
1 TTTTTCAAATAAAAAAATTGATT
730254 TT
1 TT
730256 CAAATTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 9 0.43
23 5 0.24
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.43
Consensus pattern (23 bp):
TTTTTCAAATAAAAAAATTGATT
Found at i:731827 original size:17 final size:17
Alignment explanation
Indices: 731794--731827 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
731784 TTGAATATTT
* *
731794 TGGATTGTTTGATTTTG
1 TGGATTGTTAGACTTTG
731811 TGGATTGTTAGACTTTG
1 TGGATTGTTAGACTTTG
731828 GATTTGTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.29, T:0.53
Consensus pattern (17 bp):
TGGATTGTTAGACTTTG
Found at i:732113 original size:8 final size:8
Alignment explanation
Indices: 732100--732132 Score: 52
Period size: 7 Copynumber: 4.4 Consensus size: 8
732090 TAAAAGTTTT
732100 AGTGTTAA
1 AGTGTTAA
732108 AGTGTTAA
1 AGTGTTAA
732116 A-TGTTAA
1 AGTGTTAA
732123 A-TGTTAA
1 AGTGTTAA
732130 AGT
1 AGT
732133 AAGGGAGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 14 0.58
8 10 0.42
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (8 bp):
AGTGTTAA
Found at i:736642 original size:24 final size:24
Alignment explanation
Indices: 736608--736678 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 24
736598 ATTTTCGACT
*
736608 TGAATTATGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATTTCTGATC
* * *
736632 TGGATTCTGTTCTGATATATGATC
1 TGAATTCTGTTCTGATTTCTGATC
*
736656 TGAATTCTGTTTTGATTTCTGAT
1 TGAATTCTGTTCTGATTTCTGAT
736679 ATCTCCGTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.20, C:0.11, G:0.18, T:0.51
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTCTGATC
Found at i:738232 original size:2 final size:2
Alignment explanation
Indices: 738227--738277 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
738217 ATTGAACATA
738227 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
738269 AT AT AT AT A
1 AT AT AT AT A
738278 GCATGCACAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:739133 original size:15 final size:15
Alignment explanation
Indices: 739106--739358 Score: 86
Period size: 15 Copynumber: 16.9 Consensus size: 15
739096 TATGATGTAT
*
739106 ATTATAGTCTTATAC
1 ATTATAGTATTATAC
* *
739121 ATTATGGTATTATAT
1 ATTATAGTATTATAC
*
739136 ATTATAGTATTATAT
1 ATTATAGTATTATAC
*
739151 A-TATA-TATATATAT
1 ATTATAGTAT-TATAC
* *
739165 ATTATAATATTATATT
1 ATTATAGTATTATA-C
* *
739181 ATATATATTATAGTATAT
1 AT-TATAGTAT--TATAC
* *
739199 ATT-TATTATTATAT
1 ATTATAGTATTATAC
*
739213 A-TATTA-CAGTTAT--
1 ATTA-TAGTA-TTATAC
739226 ATTATA-TATTATA-
1 ATTATAGTATTATAC
*
739239 ATATATTTATTATTATAC
1 AT-TA--TAGTATTATAC
*
739257 ATTATA-TAGTTATAT
1 ATTATAGTA-TTATAC
* *
739272 ATTATATATATTATAT
1 ATTATA-GTATTATAC
*
739288 ATTATAGTA-TATAT
1 ATTATAGTATTATAC
*
739302 ATT-TAGTATTATAT
1 ATTATAGTATTATAC
*
739316 ATTATA-TAGTTATAT
1 ATTATAGTA-TTATAC
* *
739331 TTTATA-TATTATAT
1 ATTATAGTATTATAC
739345 A-TATTAGTATTATA
1 ATTA-TAGTATTATA
739359 TTATGAGTGT
Statistics
Matches: 202, Mismatches: 11, Indels: 50
0.77 0.04 0.19
Matches are distributed among these distances:
12 4 0.02
13 17 0.08
14 49 0.24
15 78 0.39
16 26 0.13
17 19 0.09
18 5 0.02
19 4 0.02
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (15 bp):
ATTATAGTATTATAC
Found at i:739151 original size:2 final size:2
Alignment explanation
Indices: 739131--739348 Score: 137
Period size: 2 Copynumber: 118.5 Consensus size: 2
739121 ATTATGGTAT
739131 TA TA TA T- TA TA GTA T- TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
739171 -A TA T- TA TA T- TA TA TA TA T- TA TA GTA TA TA TT TA T- TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* *
739208 TA TA TA TA T- TA CA GT- TA TA T- TA TA TA T- TA TA -A TA TA TT
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
739246 TA T- TA T- TA TA CA T- TA TA TA GT- TA TA TA T- TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
*
739283 TA TA TA T- TA TA GTA TA TA TA TT TA GTA T- TA TA TA T- TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
*
739324 GT- TA TA T- TT TA TA TA T- TA TA TA TA T
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA T
739349 TAGTATTATA
Statistics
Matches: 172, Mismatches: 11, Indels: 66
0.69 0.04 0.27
Matches are distributed among these distances:
1 26 0.15
2 136 0.79
3 10 0.06
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (2 bp):
TA
Found at i:739169 original size:44 final size:41
Alignment explanation
Indices: 739131--739359 Score: 194
Period size: 44 Copynumber: 5.5 Consensus size: 41
739121 ATTATGGTAT
*
739131 TATATATTATAGTATTATATATATATATATATATATTATAA
1 TATATATTATAGTATTATATATATATATATATATATTATTA
739172 TATTATATTATA-TA-TAT-TATAGTATATAT-T-TATTATTA
1 TA-TATATTATAGTATTATATATA-TATATATATATATTATTA
*
739210 TATATATTACAG--TTATAT-TATATATTATAATATATTTATTA
1 TATATATTATAGTATTATATATATATA-TAT-ATATA-TTATTA
*
739251 TTATACATTATA-TAGTTATATATTATATATATTATATATTATAGTA
1 -TATATATTATAGTA-TTATATA-TATATATA-TATATATTAT--TA
*
739297 TATATATT-TAGTATTATATAT-TATATAGT-TATATTTTATA
1 TATATATTATAGTATTATATATATATATA-TATATATTAT-TA
739337 TATTATATATATTAGTATTATAT
1 TA-TATAT-TA-TAGTATTATAT
739360 TATGAGTGTT
Statistics
Matches: 156, Mismatches: 8, Indels: 45
0.75 0.04 0.22
Matches are distributed among these distances:
36 4 0.03
37 16 0.10
38 10 0.06
39 6 0.04
40 16 0.10
41 22 0.14
42 26 0.17
43 1 0.01
44 30 0.19
45 16 0.10
46 9 0.06
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (41 bp):
TATATATTATAGTATTATATATATATATATATATATTATTA
Found at i:739678 original size:13 final size:13
Alignment explanation
Indices: 739657--739698 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 13
739647 TTTAGTCATT
739657 TTTTA-TTTTTTA
1 TTTTATTTTTTTA
739669 TTTTATTTTTTTA
1 TTTTATTTTTTTA
739682 TTTAATATTTTTTTA
1 TTT--TATTTTTTTA
739697 TT
1 TT
739699 CATTTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.19
13 10 0.37
15 12 0.44
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:739690 original size:20 final size:20
Alignment explanation
Indices: 739655--739692 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
739645 AATTTAGTCA
**
739655 TTTTTTATTTTTTATTTTAT
1 TTTTTTATTTAATATTTTAT
739675 TTTTTTATTTAATATTTT
1 TTTTTTATTTAATATTTT
739693 TTTATTCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTTTATTTAATATTTTAT
Found at i:739714 original size:20 final size:18
Alignment explanation
Indices: 739656--739714 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 18
739646 ATTTAGTCAT
739656 TTTTTATT-TTTTATTTTA
1 TTTTTATTATTTTA-TTTA
*
739674 TTTTT-TTATTTAATATT-
1 TTTTTATTATTTTAT-TTA
739691 TTTTTATTCATTTTATTTCA
1 TTTTTATT-ATTTTATTT-A
739711 TTTT
1 TTTT
739715 ACAATTTAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
17 8 0.24
18 15 0.45
19 6 0.18
20 4 0.12
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTATTATTTTATTTA
Found at i:739722 original size:37 final size:35
Alignment explanation
Indices: 739627--739727 Score: 93
Period size: 37 Copynumber: 2.9 Consensus size: 35
739617 AACTTTTAAG
*
739627 ATTTTTTAATTTC--TTTACAATTTAGTCATTTTTT
1 ATTTTTT-ATTTCATTTTACAATTTAATCATTTTTT
* ***
739661 ATTTTTTATTTTATTTTTTTATTTAAT-ATTTTTTT
1 ATTTTTTATTTCATTTTACAATTTAATCA-TTTTTT
739696 ATTCATTTTATTTCATTTTACAATTTAA-CATT
1 ATT--TTTTATTTCATTTTACAATTTAATCATT
739728 AATTTGATTT
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
33 4 0.08
34 8 0.15
35 18 0.35
36 2 0.04
37 20 0.38
ACGTcount: A:0.25, C:0.07, G:0.01, T:0.67
Consensus pattern (35 bp):
ATTTTTTATTTCATTTTACAATTTAATCATTTTTT
Found at i:740545 original size:9 final size:9
Alignment explanation
Indices: 740531--740572 Score: 57
Period size: 9 Copynumber: 4.3 Consensus size: 9
740521 TGGGGTTTTG
740531 TTTATATTT
1 TTTATATTT
740540 TTTATATTTTTT
1 TTTATA---TTT
740552 TTTATATTT
1 TTTATATTT
740561 TTTATATTT
1 TTTATATTT
740570 TTT
1 TTT
740573 GGTAATATCG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 21 0.70
12 9 0.30
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATATTT
Found at i:740552 original size:12 final size:12
Alignment explanation
Indices: 740537--740563 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
740527 TTTGTTTATA
740537 TTTTTTATATTT
1 TTTTTTATATTT
740549 TTTTTTATATTT
1 TTTTTTATATTT
740561 TTT
1 TTT
740564 ATATTTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTATATTT
Found at i:740572 original size:21 final size:21
Alignment explanation
Indices: 740526--740572 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
740516 AATTTTGGGG
*
740526 TTTTGTTTATATTTTTTATAT
1 TTTTTTTTATATTTTTTATAT
740547 TTTTTTTTATATTTTTTATAT
1 TTTTTTTTATATTTTTTATAT
740568 TTTTT
1 TTTTT
740573 GGTAATATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (21 bp):
TTTTTTTTATATTTTTTATAT
Found at i:742337 original size:2 final size:2
Alignment explanation
Indices: 742330--742358 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
742320 AAAAATAAAT
742330 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
742359 TTAGGTCAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:747545 original size:21 final size:21
Alignment explanation
Indices: 747521--747569 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
747511 TTCAATTAGG
747521 GAGTATGGATACTCAAAC-GAA
1 GAGTATGGATACTCAAACAG-A
* * *
747542 GAGTTTAGATATTCAAACAGA
1 GAGTATGGATACTCAAACAGA
747563 GAGTATG
1 GAGTATG
747570 TGTATTTGAG
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.24
Consensus pattern (21 bp):
GAGTATGGATACTCAAACAGA
Found at i:747614 original size:19 final size:20
Alignment explanation
Indices: 747590--747628 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
747580 TATCGATACT
*
747590 CAATGA-TATTGATACCAAA
1 CAATGAGTATCGATACCAAA
747609 CAATGAGTATCGATACCAAA
1 CAATGAGTATCGATACCAAA
747629 ATGATACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (20 bp):
CAATGAGTATCGATACCAAA
Found at i:754976 original size:21 final size:21
Alignment explanation
Indices: 754950--754993 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
754940 TGGGTTATTT
754950 GGATTGGGTGGAGGAATAAGA
1 GGATTGGGTGGAGGAATAAGA
754971 GGATTGGGTGGAGGAATAAGA
1 GGATTGGGTGGAGGAATAAGA
754992 GG
1 GG
754994 TCGGTTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.50, T:0.18
Consensus pattern (21 bp):
GGATTGGGTGGAGGAATAAGA
Found at i:764060 original size:40 final size:39
Alignment explanation
Indices: 764005--764080 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 39
763995 TTTAGAGCAA
*
764005 AAAAATGCCACTAATGTTCTGAAATATTGCAGCATTTAAT
1 AAAAATGCCACTAATGTGCTGAAAT-TTGCAGCATTTAAT
* *
764045 AAAAATGCCACTAATGTGGTGAAATTTGCGGCATTT
1 AAAAATGCCACTAATGTGCTGAAATTTGCAGCATTT
764081 CTGATTGTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 10 0.30
40 23 0.70
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (39 bp):
AAAAATGCCACTAATGTGCTGAAATTTGCAGCATTTAAT
Found at i:767173 original size:35 final size:36
Alignment explanation
Indices: 767099--767179 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 36
767089 AACACAATCA
* **
767099 TCAATTACATTCTAAACCCCAAATTCCAAAAATGTT
1 TCAATTACATTATAAACCCCAAATTCCAAAAATACT
*
767135 TCAATTACATTATAAACCTCAAATTCC-AAAATACT
1 TCAATTACATTATAAACCCCAAATTCCAAAAATACT
767170 TCAATTACAT
1 TCAATTACAT
767180 GCCCAATCCC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 16 0.39
36 25 0.61
ACGTcount: A:0.43, C:0.23, G:0.01, T:0.32
Consensus pattern (36 bp):
TCAATTACATTATAAACCCCAAATTCCAAAAATACT
Found at i:768037 original size:35 final size:35
Alignment explanation
Indices: 767991--768070 Score: 124
Period size: 35 Copynumber: 2.3 Consensus size: 35
767981 GGGGTTGGGC
*
767991 ATGTAATTGAAGTATTTTGGAATCTGAGGTTTAGA
1 ATGTAATTGAAGCATTTTGGAATCTGAGGTTTAGA
* *
768026 ATGTAATTGAAGCATTTTGGAATTTGGGGTTTAGA
1 ATGTAATTGAAGCATTTTGGAATCTGAGGTTTAGA
*
768061 ATATAATTGA
1 ATGTAATTGA
768071 TGATTGTGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.40
Consensus pattern (35 bp):
ATGTAATTGAAGCATTTTGGAATCTGAGGTTTAGA
Found at i:772448 original size:148 final size:149
Alignment explanation
Indices: 772139--773144 Score: 1660
Period size: 148 Copynumber: 6.8 Consensus size: 149
772129 GCACAAACAT
* * *
772139 GATAAATATTTATAATTACATTTAAATAGAAACTCGAAAATTCAATTCAATTCGACTTAATTTAA
1 GATAAATATTTATAATTAAATTTAAACAGAAACTCGAAAATTCAATTCAATTCGACTTGATTTAA
* *
772204 ATTTTATAAACTTAGATCGGAAAAAATTTCGAGTCAACTATTTTATAAACGGAACTGAATTAGAA
66 ATTTTATAAACTCAAATCGGAAAAAATTTCGAGTCAACTATTTTATAAACGGAACTGAATTAGAA
772269 TCAAATAATATTATAATAA
131 TCAAATAATATTATAATAA
* *
772288 GATAAATATTTATAATTAAATTTAAACAGAAACTTGAAAATTTAATTCAATTCGACTTGATTTAA
1 GATAAATATTTATAATTAAATTTAAACAGAAACTCGAAAATTCAATTCAATTCGACTTGATTTAA
* * *
772353 ATTTTAAAAACTCAAATC-AAAAAAATTTCGAGTCAACTATTTTATAAACGGAACTGCATTAGAA
66 ATTTTATAAACTCAAATCGGAAAAAATTTCGAGTCAACTATTTTATAAACGGAACTGAATTAGAA
772417 TCAAATAATATTATAATAA
131 TCAAATAATATTATAATAA
772436 GATAAATATTTATAATTAAATTTAAACAGAAACTCGAAAATTCAATTCAATTCGACTTGATTTAA
1 GATAAATATTTATAATTAAATTTAAACAGAAACTCGAAAATTCAATTCAATTCGACTTGATTTAA
* *** * *
772501 ATTTTATAAACTCAGATCGGAAATTTTTTTGAATCAACTATTTTATAAACGGAACTGAATTAGAA
66 ATTTTATAAACTCAAATCGGAAAAAATTTCGAGTCAACTATTTTATAAACGGAACTGAATTAGAA
772566 TCAAATAATATTATAATAA
131 TCAAATAATATTATAATAA
*
772585 GATAAATATTTATAATTAAATTTAAACAGAAACTTGAAAATTCAATTCAATTCGACTTGATTTAA
1 GATAAATATTTATAATTAAATTTAAACAGAAACTCGAAAATTCAATTCAATTCGACTTGATTTAA
* *
772650 ATTTTACAAACTCAAATC-GAAAAAATTTCGAGTCAACTATTTTATAAACGGAACTGCATTAGAA
66 ATTTTATAAACTCAAATCGGAAAAAATTTCGAGTCAACTATTTTATAAACGGAACTGAATTAGAA
772714 TCAAATAATATTATAATAA
131 TCAAATAATATTATAATAA
*
772733 GATAAATATTTATAATTAAATTTAAACAGAAACTCAAAAATTCAATTCAATTCGACTTGATTTAA
1 GATAAATATTTATAATTAAATTTAAACAGAAACTCGAAAATTCAATTCAATTCGACTTGATTTAA
* *** * *
772798 ATTTTATAAACTCATATCGGAAATTTTTTTTGAATCAACTATTTTATAAACGGAACTGAATTAGA
66 ATTTTATAAACTCAAATCGGAAA-AAATTTCGAGTCAACTATTTTATAAACGGAACTGAATTAGA
772863 ATCAAATAATATTATAATAA
130 ATCAAATAATATTATAATAA
772883 GATAAATATTTATAATTAAATTTAAACAGAAACTCGAAAATTCAATTCAATTCGACTTGATTTAA
1 GATAAATATTTATAATTAAATTTAAACAGAAACTCGAAAATTCAATTCAATTCGACTTGATTTAA
* * * *
772948 ATTTTACAAACTCAAATC-GAAAAAATTTCGAGCCAACTATTTTATAAATGAAACTGAATTAGAA
66 ATTTTATAAACTCAAATCGGAAAAAATTTCGAGTCAACTATTTTATAAACGGAACTGAATTAGAA
773012 TCAAATAATATTATAATAA
131 TCAAATAATATTATAATAA
*
773031 GATAAATATTTATAATTAAATTTAAACAGAAACTCTAAAATTCAATTCAATTCGACTTGATTTAA
1 GATAAATATTTATAATTAAATTTAAACAGAAACTCGAAAATTCAATTCAATTCGACTTGATTTAA
* * *
773096 ATTTTATAAACTCATATC-GAAAAAATTTTTGAATCAACTATTTTATAAA
66 ATTTTATAAACTCAAATCGGAAAAAA-TTTCGAGTCAACTATTTTATAAA
773145 TTGAATTGAA
Statistics
Matches: 796, Mismatches: 57, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
148 420 0.53
149 241 0.30
150 135 0.17
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (149 bp):
GATAAATATTTATAATTAAATTTAAACAGAAACTCGAAAATTCAATTCAATTCGACTTGATTTAA
ATTTTATAAACTCAAATCGGAAAAAATTTCGAGTCAACTATTTTATAAACGGAACTGAATTAGAA
TCAAATAATATTATAATAA
Found at i:772979 original size:298 final size:297
Alignment explanation
Indices: 772139--773144 Score: 1787
Period size: 297 Copynumber: 3.4 Consensus size: 297
772129 GCACAAACAT
* * *
772139 GATAAATATTTATAATTACATTTAAATAGAAACTCGAAAATTCAATTCAATTCGACTTAATTTAA
1 GATAAATATTTATAATTAAATTTAAACAGAAACTCGAAAATTCAATTCAATTCGACTTGATTTAA
* * * *
772204 ATTTTATAAACTTAGATCGGAAAAAATTTCGAGTCAACTATTTTATAAACGGAACTGAATTAGAA
66 ATTTTATAAACTCAGATCGGAAAAATTTTTGAATCAACTATTTTATAAACGGAACTGAATTAGAA
*
772269 TCAAATAATATTATAATAAGATAAATATTTATAATTAAATTTAAACAGAAACTTGAAAATTTAAT
131 TCAAATAATATTATAATAAGATAAATATTTATAATTAAATTTAAACAGAAACTTGAAAATTCAAT
* *
772334 TCAATTCGACTTGATTTAAATTTTAAAAACTCAAATCAAAAAAATTTCGAGTCAACTATTTTATA
196 TCAATTCGACTTGATTTAAATTTTACAAACTCAAATCGAAAAAATTTCGAGTCAACTATTTTATA
772399 AACGGAACTGCATTAGAATCAAATAATATTATAATAA
261 AACGGAACTGCATTAGAATCAAATAATATTATAATAA
772436 GATAAATATTTATAATTAAATTTAAACAGAAACTCGAAAATTCAATTCAATTCGACTTGATTTAA
1 GATAAATATTTATAATTAAATTTAAACAGAAACTCGAAAATTCAATTCAATTCGACTTGATTTAA
**
772501 ATTTTATAAACTCAGATCGGAAATTTTTTTGAATCAACTATTTTATAAACGGAACTGAATTAGAA
66 ATTTTATAAACTCAGATCGGAAAAATTTTTGAATCAACTATTTTATAAACGGAACTGAATTAGAA
772566 TCAAATAATATTATAATAAGATAAATATTTATAATTAAATTTAAACAGAAACTTGAAAATTCAAT
131 TCAAATAATATTATAATAAGATAAATATTTATAATTAAATTTAAACAGAAACTTGAAAATTCAAT
772631 TCAATTCGACTTGATTTAAATTTTACAAACTCAAATCGAAAAAATTTCGAGTCAACTATTTTATA
196 TCAATTCGACTTGATTTAAATTTTACAAACTCAAATCGAAAAAATTTCGAGTCAACTATTTTATA
772696 AACGGAACTGCATTAGAATCAAATAATATTATAATAA
261 AACGGAACTGCATTAGAATCAAATAATATTATAATAA
*
772733 GATAAATATTTATAATTAAATTTAAACAGAAACTCAAAAATTCAATTCAATTCGACTTGATTTAA
1 GATAAATATTTATAATTAAATTTAAACAGAAACTCGAAAATTCAATTCAATTCGACTTGATTTAA
* **
772798 ATTTTATAAACTCATATCGGAAATTTTTTTTGAATCAACTATTTTATAAACGGAACTGAATTAGA
66 ATTTTATAAACTCAGATCGGAAA-AATTTTTGAATCAACTATTTTATAAACGGAACTGAATTAGA
*
772863 ATCAAATAATATTATAATAAGATAAATATTTATAATTAAATTTAAACAGAAACTCGAAAATTCAA
130 ATCAAATAATATTATAATAAGATAAATATTTATAATTAAATTTAAACAGAAACTTGAAAATTCAA
*
772928 TTCAATTCGACTTGATTTAAATTTTACAAACTCAAATCGAAAAAATTTCGAGCCAACTATTTTAT
195 TTCAATTCGACTTGATTTAAATTTTACAAACTCAAATCGAAAAAATTTCGAGTCAACTATTTTAT
* * *
772993 AAATGAAACTGAATTAGAATCAAATAATATTATAATAA
260 AAACGGAACTGCATTAGAATCAAATAATATTATAATAA
*
773031 GATAAATATTTATAATTAAATTTAAACAGAAACTCTAAAATTCAATTCAATTCGACTTGATTTAA
1 GATAAATATTTATAATTAAATTTAAACAGAAACTCGAAAATTCAATTCAATTCGACTTGATTTAA
* *
773096 ATTTTATAAACTCATATCGAAAAAATTTTTGAATCAACTATTTTATAAA
66 ATTTTATAAACTCAGATCGGAAAAATTTTTGAATCAACTATTTTATAAA
773145 TTGAATTGAA
Statistics
Matches: 685, Mismatches: 23, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
297 395 0.58
298 290 0.42
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (297 bp):
GATAAATATTTATAATTAAATTTAAACAGAAACTCGAAAATTCAATTCAATTCGACTTGATTTAA
ATTTTATAAACTCAGATCGGAAAAATTTTTGAATCAACTATTTTATAAACGGAACTGAATTAGAA
TCAAATAATATTATAATAAGATAAATATTTATAATTAAATTTAAACAGAAACTTGAAAATTCAAT
TCAATTCGACTTGATTTAAATTTTACAAACTCAAATCGAAAAAATTTCGAGTCAACTATTTTATA
AACGGAACTGCATTAGAATCAAATAATATTATAATAA
Found at i:773366 original size:35 final size:35
Alignment explanation
Indices: 773327--773406 Score: 135
Period size: 35 Copynumber: 2.3 Consensus size: 35
773317 GGGGTTGGGC
773327 ATGTAATTGAAGTATTTTGAAATTT-GAGGTTTAGA
1 ATGTAATTGAAGTATTTTGAAATTTAG-GGTTTAGA
773362 ATGTAATTGAAGTATTTTGAAATTTAGGGTTTAGA
1 ATGTAATTGAAGTATTTTGAAATTTAGGGTTTAGA
*
773397 ATATAATTGA
1 ATGTAATTGA
773407 TGATTGTGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
35 42 0.98
36 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.42
Consensus pattern (35 bp):
ATGTAATTGAAGTATTTTGAAATTTAGGGTTTAGA
Found at i:777894 original size:29 final size:29
Alignment explanation
Indices: 777852--777919 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
777842 AATGGGACCA
* * *
777852 TAACCGTAATGATTAAAAGAATAAGGCTC
1 TAACTGTAAAGATTAAAAGAATAAGGCCC
* *
777881 TAATTGTAAAGATTAAAAGAATAGGGCCC
1 TAACTGTAAAGATTAAAAGAATAAGGCCC
777910 TAACTGTAAA
1 TAACTGTAAA
777920 TATTGAAGGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.25
Consensus pattern (29 bp):
TAACTGTAAAGATTAAAAGAATAAGGCCC
Found at i:780091 original size:24 final size:24
Alignment explanation
Indices: 780064--780110 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
780054 GCTTCTTCCC
*
780064 CTTCTTATCTTTCTT-TTTCTCTTT
1 CTTCTT-TCTCTCTTCTTTCTCTTT
*
780088 CTTCTTTGTCTCTTCTTTCTCTT
1 CTTCTTTCTCTCTTCTTTCTCTT
780111 CACCTTCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.02, C:0.28, G:0.02, T:0.68
Consensus pattern (24 bp):
CTTCTTTCTCTCTTCTTTCTCTTT
Found at i:780194 original size:18 final size:18
Alignment explanation
Indices: 780173--780270 Score: 56
Period size: 18 Copynumber: 5.1 Consensus size: 18
780163 CTCTTTGCTT
780173 TTCTTCTTCTTCTCTTTC
1 TTCTTCTTCTTCTCTTTC
* *
780191 TTC-TCCTCTTTGTCTTTC
1 TTCTTCTTC-TTCTCTTTC
780209 TTCTCATCTTTCTTCTCCTCTT-
1 TTCT--TC-TTCTTCT-CT-TTC
* *
780231 TGTCTTTCTTCTCCTCTTTA
1 T-TC-TTCTTCTTCTCTTTC
* *
780251 TCCTTCTTCTTATCTTTC
1 TTCTTCTTCTTCTCTTTC
780269 TT
1 TT
780271 TGTCTCTTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
17 4 0.07
18 27 0.45
19 3 0.05
20 3 0.05
21 11 0.18
22 7 0.12
23 4 0.07
24 1 0.02
ACGTcount: A:0.03, C:0.33, G:0.02, T:0.62
Consensus pattern (18 bp):
TTCTTCTTCTTCTCTTTC
Found at i:780199 original size:33 final size:33
Alignment explanation
Indices: 780149--780242 Score: 117
Period size: 30 Copynumber: 3.0 Consensus size: 33
780139 TTTGTCTTTC
* *
780149 CTTC-CTTCCTTCACCTCTTTG-CTTTTCTTCTT
1 CTTCTCTTTCTTCTCCTCTTTGTC-TTTCTTCTT
780181 CTTCTCTTTCTTCTCCTCTTTGTCTTTCTTC-T
1 CTTCTCTTTCTTCTCCTCTTTGTCTTTCTTCTT
*
780213 C--ATCTTTCTTCTCCTCTTTGTCTTTCTTCT
1 CTTCTCTTTCTTCTCCTCTTTGTCTTTCTTCT
780243 CCTCTTTATC
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
30 27 0.48
32 6 0.11
33 22 0.39
34 1 0.02
ACGTcount: A:0.02, C:0.35, G:0.03, T:0.60
Consensus pattern (33 bp):
CTTCTCTTTCTTCTCCTCTTTGTCTTTCTTCTT
Found at i:780212 original size:30 final size:30
Alignment explanation
Indices: 780176--780249 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
780166 TTTGCTTTTC
780176 TTCTTCTTCTCTTTCTTCTCCTCTTTGTCT
1 TTCTTCTTCTCTTTCTTCTCCTCTTTGTCT
780206 TTCTTC-TCATCTTTCTTCTCCTCTTTGTCT
1 TTCTTCTTC-TCTTTCTTCTCCTCTTTGTCT
*
780236 TTCTTCTCCTCTTT
1 TTCTTCTTCTCTTT
780250 ATCCTTCTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 2 0.05
30 38 0.93
31 1 0.02
ACGTcount: A:0.01, C:0.34, G:0.03, T:0.62
Consensus pattern (30 bp):
TTCTTCTTCTCTTTCTTCTCCTCTTTGTCT
Found at i:780261 original size:21 final size:18
Alignment explanation
Indices: 780185--780260 Score: 83
Period size: 18 Copynumber: 4.6 Consensus size: 18
780175 CTTCTTCTTC
*
780185 TCTTTCTTCTCCTCTTTG
1 TCTTTCTTCTCCTCTTTA
780203 TCTTTC-T-T-CTC---A
1 TCTTTCTTCTCCTCTTTA
*
780215 TCTTTCTTCTCCTCTTTG
1 TCTTTCTTCTCCTCTTTA
780233 TCTTTCTTCTCCTCTTTA
1 TCTTTCTTCTCCTCTTTA
*
780251 TCCTTCTTCT
1 TCTTTCTTCT
780261 TATCTTTCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
12 6 0.12
13 1 0.02
14 1 0.02
15 6 0.12
16 1 0.02
17 1 0.02
18 32 0.67
ACGTcount: A:0.03, C:0.34, G:0.03, T:0.61
Consensus pattern (18 bp):
TCTTTCTTCTCCTCTTTA
Found at i:780346 original size:18 final size:18
Alignment explanation
Indices: 780311--780348 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
780301 TTCTACCTCA
*
780311 TCTTTCTTTTTCTTCTTT
1 TCTTTCTTTTTCTCCTTT
780329 TCTTTCTTCTTT-TCCTTT
1 TCTTTCTT-TTTCTCCTTT
780347 TC
1 TC
780349 ATCCTTGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (18 bp):
TCTTTCTTTTTCTCCTTT
Found at i:780360 original size:27 final size:26
Alignment explanation
Indices: 780330--780444 Score: 78
Period size: 27 Copynumber: 4.4 Consensus size: 26
780320 TTCTTCTTTT
780330 CTTTCTTCTTTTCCTTTTCATCCTTGC
1 CTTTCTTCTTTTCCTTTTCATCCTT-C
* *
780357 CTTTCTTC--TT-CTTCTCCATCTCTTT
1 CTTTCTTCTTTTCCTT-TTCATC-CTTC
* * * *
780382 CTCTTCTCCCTCTTCCTCTTCAT-CTTT
1 CT-TTCT-TCTTTTCCTTTTCATCCTTC
*
780409 C-ATCTTCTTTTCCTTTTCATCCTTGC
1 CTTTCTTCTTTTCCTTTTCATCCTT-C
780435 CTTTCTTCTT
1 CTTTCTTCTT
780445 CTCCATCTCT
Statistics
Matches: 67, Mismatches: 11, Indels: 20
0.68 0.11 0.20
Matches are distributed among these distances:
24 15 0.22
25 15 0.22
26 8 0.12
27 21 0.31
29 6 0.09
30 2 0.03
ACGTcount: A:0.04, C:0.37, G:0.02, T:0.57
Consensus pattern (26 bp):
CTTTCTTCTTTTCCTTTTCATCCTTC
Found at i:780490 original size:75 final size:77
Alignment explanation
Indices: 780333--780494 Score: 292
Period size: 75 Copynumber: 2.1 Consensus size: 77
780323 TTCTTTTCTT
780333 TCTTCTTTTCCTTTTCATCCTTGCCTTTCTTCTTCTTCTCCATCTCTTTCTCTTCTCCCTCTTCC
1 TCTTCTTTTCCTTTTCATCCTTGCC-TTCTTCTTCTTCTCCATCTCTTTCTCTTCTCCCTCTTCC
780398 TCTTCATCTTTCA
65 TCTTCATCTTTCA
*
780411 TCTTCTTTTCCTTTTCATCCTTGCC-T-TTCTTCTTCTCCATCTCTTTCTCTTCTCCCTCTTTCT
1 TCTTCTTTTCCTTTTCATCCTTGCCTTCTTCTTCTTCTCCATCTCTTTCTCTTCTCCCTCTTCCT
780474 CTTCATCTTTCA
66 CTTCATCTTTCA
780486 TCTTCTTTT
1 TCTTCTTTT
780495 TCTCCTTATC
Statistics
Matches: 83, Mismatches: 1, Indels: 3
0.95 0.01 0.03
Matches are distributed among these distances:
75 57 0.69
76 1 0.01
78 25 0.30
ACGTcount: A:0.05, C:0.37, G:0.01, T:0.57
Consensus pattern (77 bp):
TCTTCTTTTCCTTTTCATCCTTGCCTTCTTCTTCTTCTCCATCTCTTTCTCTTCTCCCTCTTCCT
CTTCATCTTTCA
Found at i:780535 original size:75 final size:75
Alignment explanation
Indices: 780333--780522 Score: 245
Period size: 75 Copynumber: 2.5 Consensus size: 75
780323 TTCTTTTCTT
* * *
780333 TCTTCTTTTCCTTTTCATCCTTGCCTTTCTTCTTCTTCTCCATCTCTTTCTCTTCTCCCTCTTCC
1 TCTTCTTTTCCTTATCATCCTTACC--T-TTCGTCTTCTCCATCTCTTTCTCTTCTCCCTCTTCC
780398 TCTTCATCTTTCA
63 TCTTCATCTTTCA
* * * *
780411 TCTTCTTTTCCTTTTCATCCTTGCCTTTCTTCTTCTCCATCTCTTTCTCTTCTCCCTCTTTCTCT
1 TCTTCTTTTCCTTATCATCCTTACCTTTCGTCTTCTCCATCTCTTTCTCTTCTCCCTCTTCCTCT
780476 TCATCTTTCA
66 TCATCTTTCA
* *
780486 TCTTCTTTTTCTCCTTATCCTCCTTATCTTTCGTCTT
1 TCTTC--TTT-TCCTTATCATCCTTACCTTTCGTCTT
780523 TTTCTTCTTC
Statistics
Matches: 103, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
75 53 0.51
76 1 0.01
77 3 0.03
78 46 0.45
ACGTcount: A:0.05, C:0.37, G:0.02, T:0.56
Consensus pattern (75 bp):
TCTTCTTTTCCTTATCATCCTTACCTTTCGTCTTCTCCATCTCTTTCTCTTCTCCCTCTTCCTCT
TCATCTTTCA
Found at i:780644 original size:27 final size:27
Alignment explanation
Indices: 780583--780653 Score: 65
Period size: 27 Copynumber: 2.6 Consensus size: 27
780573 TATCCTTGTG
*
780583 CTTTTCTTTCTTC-TTCTCTTTCTCCT
1 CTTTTCTTTCTTCTTTCTCTTTCTCAT
* *
780609 CCTTGTCTTTCTTCTTTTTC-TTCTCAT
1 -CTTTTCTTTCTTCTTTCTCTTTCTCAT
780636 CTTTCTCTTCATCTTCTT
1 CTTT-TCTT--TCTTCTT
780654 CTACCTCAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
26 3 0.08
27 22 0.61
28 4 0.11
29 7 0.19
ACGTcount: A:0.03, C:0.32, G:0.01, T:0.63
Consensus pattern (27 bp):
CTTTTCTTTCTTCTTTCTCTTTCTCAT
Found at i:780678 original size:96 final size:91
Alignment explanation
Indices: 780545--780835 Score: 287
Period size: 90 Copynumber: 3.2 Consensus size: 91
780535 TCCCGTCTCT
* ** * *
780545 TCTTCATCTTCTTCTACCTTGTGCTCCTTATCCTTGTGCTTTTCTTTCTTCTTCTCTTTCTCCTC
1 TCTTCATCTTCTTCTACCTCGACCTCTTTTTCCTTGTGCTTTTCTTTCTTCTTCTC-TTCTCCTC
780610 CTTGTCTTTCTTCTTTTTCTTCTCATCTTTC
65 C---TCTTTC-TCTTTTTCTTCTCATCTTTC
* *
780641 TCTTCATCTTCTTCTACCTCAACCTCTTTTTCCTTGTGCTTCTT-TTCCTT-TT-TCTTCTCCTT
1 TCTTCATCTTCTTCTACCTCGACCTCTTTTTCCTTGTGCTT-TTCTTTCTTCTTCTCTTCTCC-T
* *
780703 CCCACCTTTGTC-TTTT-TTCTCATCTTTC
64 -CC-TCTTTCTCTTTTTCTTCTCATCTTTC
* * * *
780731 ACTTCATTTTCTTCTCCCTCGACCTCTTTTTCCTTGTGC--TTCTTT-TTCTTCTCCTTCTCATC
1 TCTTCATCTTCTTCTACCTCGACCTCTTTTTCCTTGTGCTTTTCTTTCTTCTTCT-CTTCTCCTC
* *
780793 CTC-GTC-CTTTTTCTTCTCTTCTTTC
65 CTCTTTCTCTTTTTCTTCTCATCTTTC
780818 TCTTCATCTTCTTCTACC
1 TCTTCATCTTCTTCTACC
780836 GCCTCTTTAC
Statistics
Matches: 163, Mismatches: 23, Indels: 27
0.77 0.11 0.13
Matches are distributed among these distances:
85 1 0.01
86 5 0.03
87 31 0.19
88 6 0.04
89 2 0.01
90 53 0.33
91 4 0.02
92 2 0.01
93 10 0.06
94 3 0.02
95 4 0.02
96 40 0.25
97 2 0.01
ACGTcount: A:0.05, C:0.34, G:0.04, T:0.56
Consensus pattern (91 bp):
TCTTCATCTTCTTCTACCTCGACCTCTTTTTCCTTGTGCTTTTCTTTCTTCTTCTCTTCTCCTCC
TCTTTCTCTTTTTCTTCTCATCTTTC
Found at i:781869 original size:79 final size:80
Alignment explanation
Indices: 781695--781948 Score: 411
Period size: 80 Copynumber: 3.2 Consensus size: 80
781685 GACCCTCCAA
* * * *
781695 ATACATCATCAAGAATCAAAACAGAAGACATAGATATTCACCCGCATGATACTTATCAGTCCAGA
1 ATACATCAACAAGAATCGAAACAGCAGACATAGATATTCACCCGCATGATACTAATCAGTCCAGA
781760 TCTTATTCAATCTAT
66 TCTTATTCAATCTAT
* * *
781775 ACACATCAAAAAGAATCGAAACAGCAGACATAGATATTCACCCGCATGATA-TAATCAGTCCATA
1 ATACATCAACAAGAATCGAAACAGCAGACATAGATATTCACCCGCATGATACTAATCAGTCCAGA
781839 TCTTATTCAATCTAT
66 TCTTATTCAATCTAT
*
781854 ATACATCAACAAGAATCGAAACAGCAGACACAGATATTCACCCGCATGATACTAATCAGTCCAGA
1 ATACATCAACAAGAATCGAAACAGCAGACATAGATATTCACCCGCATGATACTAATCAGTCCAGA
*
781919 TCTAATTCAATCTAT
66 TCTTATTCAATCTAT
*
781934 ATACATCAGCAAGAA
1 ATACATCAACAAGAA
781949 GGTAGTTGAA
Statistics
Matches: 160, Mismatches: 13, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
79 74 0.46
80 86 0.54
ACGTcount: A:0.42, C:0.23, G:0.11, T:0.24
Consensus pattern (80 bp):
ATACATCAACAAGAATCGAAACAGCAGACATAGATATTCACCCGCATGATACTAATCAGTCCAGA
TCTTATTCAATCTAT
Found at i:782269 original size:251 final size:249
Alignment explanation
Indices: 781817--782269 Score: 800
Period size: 251 Copynumber: 1.8 Consensus size: 249
781807 GATATTCACC
*
781817 CGCATGATATAATCAGTCCATATCTTATTCAATCTATATACATCAACAAGAATCGAAACAGCAGA
1 CGCATGATATAATCAGTCCAGATCTTATTCAATCTATATACATCAACAAGAATCGAAACAGCAGA
781882 CACAGATATTCACCCGCATGATACTAATCAGTCCAGATCTAATTCAATCTATATACATCAGCAAG
66 CACAGATATTCACCCGCATGATACTAATCAGTCCAGATCTAATTCAATCTATATACATCAGCAAG
* * *
781947 AAGGTAGTTGAAAACACACACACACATGTTTTGAAGTCTCTGTTTATTATCTACTCAACCTGTAA
131 AAGATAGTTGAAAACACACACACACACGTTTCGAAG-CTCTGTTTATTATCTACTCAACCTGTAA
782012 GAAAATCGAAACGATCTAAAATAAGATTAACATGGTAGTTGAAAACACACACACA
195 GAAAATCGAAACGATCTAAAATAAGATTAACATGGTAGTTGAAAACACACACACA
*
782067 CGCATGATACTAATCAGTCCAGATCTTATTCAATCTATATACATCAACAAGAATTGAAACAGCAG
1 CGCATGATA-TAATCAGTCCAGATCTTATTCAATCTATATACATCAACAAGAATCGAAACAGCAG
*
782132 ACACAGATATTCACCCGCATGATACTAATCAGTCCTGATCTAATTCAATCTATATACATCAGCAA
65 ACACAGATATTCACCCGCATGATACTAATCAGTCCAGATCTAATTCAATCTATATACATCAGCAA
*
782197 GAAGATAGTTGAAAACAAACACACACACACGTTTCGAAG-TCTGTTTATTATCTATTCAACCTGT
130 GAAGATAGTTGAAAAC--ACACACACACACGTTTCGAAGCTCTGTTTATTATCTACTCAACCTGT
782261 AAGAAAATC
193 AAGAAAATC
782270 TAAGATTAAC
Statistics
Matches: 193, Mismatches: 7, Indels: 5
0.94 0.03 0.02
Matches are distributed among these distances:
250 9 0.05
251 165 0.85
253 19 0.10
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.26
Consensus pattern (249 bp):
CGCATGATATAATCAGTCCAGATCTTATTCAATCTATATACATCAACAAGAATCGAAACAGCAGA
CACAGATATTCACCCGCATGATACTAATCAGTCCAGATCTAATTCAATCTATATACATCAGCAAG
AAGATAGTTGAAAACACACACACACACGTTTCGAAGCTCTGTTTATTATCTACTCAACCTGTAAG
AAAATCGAAACGATCTAAAATAAGATTAACATGGTAGTTGAAAACACACACACA
Found at i:783852 original size:35 final size:35
Alignment explanation
Indices: 783812--783888 Score: 145
Period size: 35 Copynumber: 2.2 Consensus size: 35
783802 TGTATTTTTT
*
783812 TAATATTATTATGTTATAGACTTTAGTTTTGTTTA
1 TAATATTATTATGTTATACACTTTAGTTTTGTTTA
783847 TAATATTATTATGTTATACACTTTAGTTTTGTTTA
1 TAATATTATTATGTTATACACTTTAGTTTTGTTTA
783882 TAATATT
1 TAATATT
783889 GTTTATAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (35 bp):
TAATATTATTATGTTATACACTTTAGTTTTGTTTA
Found at i:784109 original size:12 final size:13
Alignment explanation
Indices: 784088--784121 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
784078 TGTAATCGGC
*
784088 AATATCTAACA-A
1 AATATATAACATA
784100 AATATATAACATA
1 AATATATAACATA
784113 AATATATAA
1 AATATATAA
784122 ATCTGCATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (13 bp):
AATATATAACATA
Found at i:784230 original size:17 final size:17
Alignment explanation
Indices: 784204--784305 Score: 71
Period size: 17 Copynumber: 5.6 Consensus size: 17
784194 AAATAAAATG
784204 TAATATTTTATAAATTTT
1 TAATA-TTTATAAATTTT
*
784222 TAATATTTATAAATATT
1 TAATATTTATAAATTTT
* *
784239 AAAGATTTGATAAA-TTT
1 TAATATTT-ATAAATTTT
* * *
784256 TAATATTATATATATATA
1 TAATATT-TATAAATTTT
*
784274 TATATATATTATATAATTGTG
1 TA-ATAT-TTATA-AATT-TT
784295 TAATATTTATA
1 TAATATTTATA
784306 TTTTAGTATG
Statistics
Matches: 65, Mismatches: 12, Indels: 13
0.72 0.13 0.14
Matches are distributed among these distances:
17 28 0.43
18 14 0.22
19 13 0.20
20 7 0.11
21 3 0.05
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (17 bp):
TAATATTTATAAATTTT
Found at i:784415 original size:23 final size:22
Alignment explanation
Indices: 784374--784419 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
784364 TTCTACAAAT
*
784374 TTTGTTAAATTACTATTTATAA
1 TTTGTTAAATTAATATTTATAA
*
784396 TTTGTTAAATTTAATTTTTATAA
1 TTTGTTAAA-TTAATATTTATAA
784419 T
1 T
784420 ATGTATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (22 bp):
TTTGTTAAATTAATATTTATAA
Found at i:784785 original size:58 final size:58
Alignment explanation
Indices: 784695--784810 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
784685 AATTATATCA
784695 TTATTAAGTATTAAACTATTTTTGGAGATTTAGTTGGGGTTTTGTTGAAAAGTTCATG
1 TTATTAAGTATTAAACTATTTTTGGAGATTTAGTTGGGGTTTTGTTGAAAAGTTCATG
784753 TTATTAAGTATTAAACTATTTTTGGAGATTTAGTTGGGGTTTTGTTGAAAAGTTCATG
1 TTATTAAGTATTAAACTATTTTTGGAGATTTAGTTGGGGTTTTGTTGAAAAGTTCATG
784811 GTCGTTTCAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.28, C:0.03, G:0.22, T:0.47
Consensus pattern (58 bp):
TTATTAAGTATTAAACTATTTTTGGAGATTTAGTTGGGGTTTTGTTGAAAAGTTCATG
Found at i:786504 original size:28 final size:27
Alignment explanation
Indices: 786451--786502 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 27
786441 AATTTAAAAC
*
786451 AAAATAGAAAATAAATAGTAAATATAT
1 AAAATAGAAAATAAATAATAAATATAT
786478 AAAATAG--AA-AAATAATAAATATAT
1 AAAATAGAAAATAAATAATAAATATAT
786502 A
1 A
786503 TACATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 15 0.62
25 2 0.08
27 7 0.29
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (27 bp):
AAAATAGAAAATAAATAATAAATATAT
Found at i:786513 original size:12 final size:12
Alignment explanation
Indices: 786496--786524 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
786486 AAAATAATAA
786496 ATATATATACAT
1 ATATATATACAT
786508 ATATATATACAT
1 ATATATATACAT
786520 A-ATAT
1 ATATAT
786525 GATAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATACAT
Found at i:786860 original size:36 final size:37
Alignment explanation
Indices: 786820--786895 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 37
786810 AAATAAAACT
786820 TGACTTATTGCATAGATTCATGTACCGTTTAAGT-TA
1 TGACTTATTGCATAGATTCATGTACCGTTTAAGTATA
786856 TGACTTATTGCATAGATTCATGTACCGTTTAAGTATA
1 TGACTTATTGCATAGATTCATGTACCGTTTAAGTATA
786893 TGA
1 TGA
786896 ACTAAAATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
36 34 0.87
37 5 0.13
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (37 bp):
TGACTTATTGCATAGATTCATGTACCGTTTAAGTATA
Found at i:798059 original size:30 final size:30
Alignment explanation
Indices: 797992--798091 Score: 155
Period size: 31 Copynumber: 3.3 Consensus size: 30
797982 GTACATATAT
*
797992 CACATTAGGAATTTTGTCGAAGTATAAGTA
1 CACATTAGGAATTTTGTCAAAGTATAAGTA
*
798022 GCACATTAGGAATTTTGTCAAAGTATAGGTA
1 -CACATTAGGAATTTTGTCAAAGTATAAGTA
*
798053 CACATTAGGCATTTTGTCAAAGTATAAGTA
1 CACATTAGGAATTTTGTCAAAGTATAAGTA
798083 CAACATTAG
1 C-ACATTAG
798092 ACTTTTTTGA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
30 29 0.45
31 35 0.55
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (30 bp):
CACATTAGGAATTTTGTCAAAGTATAAGTA
Found at i:804415 original size:80 final size:80
Alignment explanation
Indices: 804277--804611 Score: 537
Period size: 80 Copynumber: 4.2 Consensus size: 80
804267 GACCCTCCAA
* * * *
804277 ATACATCAACAAGAATCAAAACAGAAGACAGAGATATTCACCCGCATGATACTTATCAGTCCATA
1 ATACATCAACAAGAATCGAAACAGAAGACACAGATATTCACCCGCATGATACTAATCAGTCCAGA
804342 TCTTATTCAATCTAT
66 TCTTATTCAATCTAT
* *
804357 ATACATCAAAAAGAATCGAAACA-ACAGACATAGATATTCACCCGCATGATACTAATCAGTCCAG
1 ATACATCAACAAGAATCGAAACAGA-AGACACAGATATTCACCCGCATGATACTAATCAGTCCAG
804421 ATCTTATTCAATCTAT
65 ATCTTATTCAATCTAT
* *
804437 ATATATCAACAAGAATCGAAACAGCAGACACAGATATTCACCCGCATGATACTAATCAGTCCAGA
1 ATACATCAACAAGAATCGAAACAGAAGACACAGATATTCACCCGCATGATACTAATCAGTCCAGA
804502 TCTTATTCAATCTAT
66 TCTTATTCAATCTAT
* * *
804517 ATACATCAACAAGAATCGAAACAGAAGATACATATATTCACCCGCATGATACTAATCAGTCCATA
1 ATACATCAACAAGAATCGAAACAGAAGACACAGATATTCACCCGCATGATACTAATCAGTCCAGA
*
804582 TCTAATTCAATCTAT
66 TCTTATTCAATCTAT
*
804597 ATACATCAGCAAGAA
1 ATACATCAACAAGAA
804612 GGTAGTTGAA
Statistics
Matches: 237, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
79 1 0.00
80 236 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (80 bp):
ATACATCAACAAGAATCGAAACAGAAGACACAGATATTCACCCGCATGATACTAATCAGTCCAGA
TCTTATTCAATCTAT
Found at i:806138 original size:35 final size:36
Alignment explanation
Indices: 806099--806178 Score: 94
Period size: 35 Copynumber: 2.2 Consensus size: 36
806089 ATATAACTTT
806099 TTTTTAGTGTAACAT-AAAATGTT-ATTATTT-TAATA
1 TTTTTAGTG-AA-ATGAAAATGTTAATTATTTATAATA
* *
806134 TTTTTGATTGAAATGAAAATGTTAATTTTTTATAATA
1 TTTTT-AGTGAAATGAAAATGTTAATTATTTATAATA
806171 TTTTTAGT
1 TTTTTAGT
806179 TCAACCTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
34 2 0.05
35 15 0.39
36 11 0.29
37 10 0.26
ACGTcount: A:0.35, C:0.01, G:0.10, T:0.54
Consensus pattern (36 bp):
TTTTTAGTGAAATGAAAATGTTAATTATTTATAATA
Found at i:806927 original size:18 final size:18
Alignment explanation
Indices: 806902--806955 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
806892 ATATTTTTTT
806902 TGTTTATAATATT-GTTA
1 TGTTTATAATATTAGTTA
* *
806919 TGTTATATACT-TTAGTTT
1 TGTT-TATAATATTAGTTA
*
806937 TGTTTATAATATTAATTA
1 TGTTTATAATATTAGTTA
806955 T
1 T
806956 AAATTTGTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 11 0.38
18 18 0.62
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.59
Consensus pattern (18 bp):
TGTTTATAATATTAGTTA
Found at i:807317 original size:17 final size:17
Alignment explanation
Indices: 807295--807350 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
807285 TATTATTTTA
807295 TATAAATTTTTAATATT
1 TATAAATTTTTAATATT
* *
807312 TATAAATTTTAAAGATT
1 TATAAATTTTTAATATT
807329 TGATAAA-TTTTAATATT
1 T-ATAAATTTTTAATATT
807346 ATATA
1 -TATA
807351 TATATGTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 27 0.82
18 6 0.18
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (17 bp):
TATAAATTTTTAATATT
Found at i:809742 original size:20 final size:20
Alignment explanation
Indices: 809717--809772 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
809707 ATTGTGAATT
*
809717 TAAAAAATATAAAAATTTAA
1 TAAAAAATATAAAAATTAAA
*
809737 TAAAAAATAGAAAAA-TAAA
1 TAAAAAATATAAAAATTAAA
*
809756 TAATAAATATATAAAAT
1 TAAAAAATATA-AAAAT
809773 AGAAAAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (20 bp):
TAAAAAATATAAAAATTAAA
Found at i:809750 original size:19 final size:18
Alignment explanation
Indices: 809713--809764 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 18
809703 TTAAATTGTG
*
809713 AATTTAA-AAAATATAAA
1 AATTTAATAAAAAATAAA
809730 AATTTAATAAAAAATAGAA
1 AATTTAATAAAAAATA-AA
* * *
809749 AAATAAATAATAAATA
1 AATTTAATAAAAAATA
809765 TATAAAATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 7 0.24
18 7 0.24
19 15 0.52
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (18 bp):
AATTTAATAAAAAATAAA
Found at i:809750 original size:28 final size:28
Alignment explanation
Indices: 809719--809796 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
809709 TGTGAATTTA
*
809719 AAAAATATAAAAATTTAATA-A-AAAATAG
1 AAAAATA-AAAAA-TAAATATATAAAATAG
*
809747 AAAAATAAATAATAAATATATAAAATAG
1 AAAAATAAAAAATAAATATATAAAATAG
* * *
809775 AAAAATAATATATATATATATA
1 AAAAATAAAAAATAAATATATA
809797 CATAATATGA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
26 5 0.12
27 5 0.12
28 32 0.76
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (28 bp):
AAAAATAAAAAATAAATATATAAAATAG
Found at i:809755 original size:15 final size:15
Alignment explanation
Indices: 809735--809782 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
809725 ATAAAAATTT
809735 AATAAAAAATAGAAA
1 AATAAAAAATAGAAA
*
809750 AATAAATAAT--AAA
1 AATAAAAAATAGAAA
* *
809763 TATATAAAATAGAAA
1 AATAAAAAATAGAAA
809778 AATAA
1 AATAA
809783 TATATATATA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
13 10 0.40
15 15 0.60
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (15 bp):
AATAAAAAATAGAAA
Found at i:809773 original size:20 final size:19
Alignment explanation
Indices: 809721--809788 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
809711 TGAATTTAAA
* *
809721 AAATATAAAAATTTAATAAA
1 AAATATAAAAA-TAAATAAT
*
809741 AAATAGAAAAATAAATAAT
1 AAATATAAAAATAAATAAT
*
809760 AAATATATAAAATAGAAAAAT
1 AAATATA-AAAATA-AATAAT
809781 AATATATA
1 AA-ATATA
809789 TATATATACA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 12 0.30
20 16 0.40
21 7 0.17
22 5 0.12
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (19 bp):
AAATATAAAAATAAATAAT
Found at i:811294 original size:27 final size:27
Alignment explanation
Indices: 811256--811310 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
811246 GGAAAAGGAG
811256 GCCAATGCCATAGCTCAACTCCTGACA
1 GCCAATGCCATAGCTCAACTCCTGACA
811283 GCCAATGCCATAGCTCAACTCCTGACA
1 GCCAATGCCATAGCTCAACTCCTGACA
811310 G
1 G
811311 AAAAGTCTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.36, G:0.16, T:0.18
Consensus pattern (27 bp):
GCCAATGCCATAGCTCAACTCCTGACA
Found at i:822448 original size:30 final size:30
Alignment explanation
Indices: 822381--822480 Score: 146
Period size: 31 Copynumber: 3.3 Consensus size: 30
822371 GTACATATAT
*
822381 CACATTAGGAATTTTGTCGAAGTATAAGTA
1 CACATTAGGAATTTTGTCAAAGTATAAGTA
* *
822411 GCACATTAGGAATTATGTCAAAGTATAGGTA
1 -CACATTAGGAATTTTGTCAAAGTATAAGTA
*
822442 CACATTAGGCATTTTGTCAAAGTATAAGTA
1 CACATTAGGAATTTTGTCAAAGTATAAGTA
822472 CAACATTAG
1 C-ACATTAG
822481 ACTTTTTTGA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
30 28 0.45
31 34 0.55
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (30 bp):
CACATTAGGAATTTTGTCAAAGTATAAGTA
Found at i:823295 original size:22 final size:22
Alignment explanation
Indices: 823267--823332 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
823257 AGAGGTACTG
* *
823267 ATACCCCTATCAATGGGCATCA
1 ATACCCCTATGAATGGGTATCA
* *
823289 ATACCCCTATGAATGGGTACCG
1 ATACCCCTATGAATGGGTATCA
823311 ATACCCCTATGAATGGGTATCA
1 ATACCCCTATGAATGGGTATCA
823333 TGAAGGCTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (22 bp):
ATACCCCTATGAATGGGTATCA
Found at i:823655 original size:20 final size:20
Alignment explanation
Indices: 823603--823648 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
823593 ACACTTGAAG
*
823603 AAGCAAGAAAACAACTATCC
1 AAGCAAGAAAACAACTATAC
823623 AAGCAAGAAAACAACTATAC
1 AAGCAAGAAAACAACTATAC
823643 AAGCAA
1 AAGCAA
823649 ACAAACACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.59, C:0.22, G:0.11, T:0.09
Consensus pattern (20 bp):
AAGCAAGAAAACAACTATAC
Found at i:825644 original size:85 final size:86
Alignment explanation
Indices: 825531--825713 Score: 323
Period size: 87 Copynumber: 2.1 Consensus size: 86
825521 CTTCAACTTT
*
825531 ATCATATAAAATATGTAATCAGATAAGA-TTTTATAGTCTGAAAACGACAAAGTATTTCCTAAAG
1 ATCATATAAAATATGTAATCAGAAAAGATTTTTATAGTCTGAAAACGACAAAGTATTTCCTAAAG
825595 TTTCCAACTTTAATTTTTTTA
66 TTTCCAACTTTAATTTTTTTA
825616 ATCATATAAAATATGTAATCAGAAAAGATTTTTTATAGTCTGAAAACGACAAAGTATTTCCTAAA
1 ATCATATAAAATATGTAATCAGAAAAGA-TTTTTATAGTCTGAAAACGACAAAGTATTTCCTAAA
* *
825681 GTTTTCAATTTTAATTTTTTTA
65 GTTTCCAACTTTAATTTTTTTA
825703 ATCATATAAAA
1 ATCATATAAAA
825714 GAAAAAAAGT
Statistics
Matches: 93, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
85 27 0.29
87 66 0.71
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (86 bp):
ATCATATAAAATATGTAATCAGAAAAGATTTTTATAGTCTGAAAACGACAAAGTATTTCCTAAAG
TTTCCAACTTTAATTTTTTTA
Found at i:828960 original size:2 final size:2
Alignment explanation
Indices: 828955--828989 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
828945 TGTTTTTTTA
828955 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
828990 AAACTTTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:829736 original size:31 final size:31
Alignment explanation
Indices: 829701--829765 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
829691 ATTTGGTCGG
* * *
829701 ATTCAAGGGTTAAAATGTTATTTTATTTAAA
1 ATTCAAGGGTCAAAATGATATTTTATATAAA
* *
829732 ATTCAATGGTCAAATTGATATTTTATATAAA
1 ATTCAAGGGTCAAAATGATATTTTATATAAA
829763 ATT
1 ATT
829766 TAGGAATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.45
Consensus pattern (31 bp):
ATTCAAGGGTCAAAATGATATTTTATATAAA
Found at i:829797 original size:30 final size:31
Alignment explanation
Indices: 829744--829802 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
829734 TCAATGGTCA
* *
829744 AATTGATATTTTATATAAAATTTAGGAATTT
1 AATTGACATTTTATATAAAATTTACGAATTT
*
829775 AATTGACATTTTATCT-AAATTTACGAAT
1 AATTGACATTTTATATAAAATTTACGAAT
829803 CAGGTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (31 bp):
AATTGACATTTTATATAAAATTTACGAATTT
Found at i:839745 original size:6 final size:6
Alignment explanation
Indices: 839734--839778 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
839724 CTCTATTTTT
* *
839734 ATGTAG ATGTAG ATGTAG ATTTAG ATGTAG ATGTCG ATGTAG ATG
1 ATGTAG ATGTAG ATGTAG ATGTAG ATGTAG ATGTAG ATGTAG ATG
839779 ATATATCATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.31, C:0.02, G:0.31, T:0.36
Consensus pattern (6 bp):
ATGTAG
Found at i:841569 original size:21 final size:21
Alignment explanation
Indices: 841518--841576 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
841508 AAATCAGTTC
841518 CCAGAATCGCAATGCGATAGT
1 CCAGAATCGCAATGCGATAGT
* * **
841539 ACA-AATTCGCATTGCGATTTT
1 CCAGAA-TCGCAATGCGATAGT
*
841560 CCAGAATCGCAACGCGA
1 CCAGAATCGCAATGCGA
841577 ATATGAAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 2 0.07
21 25 0.86
22 2 0.07
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (21 bp):
CCAGAATCGCAATGCGATAGT
Found at i:841589 original size:20 final size:20
Alignment explanation
Indices: 841564--841747 Score: 184
Period size: 20 Copynumber: 9.5 Consensus size: 20
841554 GATTTTCCAG
* *
841564 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGTA
* *
841584 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
*
841604 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
841624 AATCGCAACGCG-----G-A
1 AATCGCAACGCGAATACGTA
*
841638 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
* * * * *
841658 AATAGTAATGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
*
841678 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATACGTA
*
841698 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATACGTA
*
841718 AATCGCAATGCGAAT-CTGTA
1 AATCGCAACGCGAATAC-GTA
841738 AATCGCAACG
1 AATCGCAACG
841748 AGATTCTGAC
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
14 12 0.09
15 1 0.01
19 2 0.01
20 122 0.89
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGAATACGTA
Found at i:841685 original size:74 final size:74
Alignment explanation
Indices: 841564--841705 Score: 212
Period size: 74 Copynumber: 1.9 Consensus size: 74
841554 GATTTTCCAG
* * *
841564 AATCGCAACGCGAATATGAAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATCG
1 AATCGCAACGAGAATACGAAAATAGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATCG
841629 CAACGCGGA
66 CAACGCGGA
* * * * *
841638 AATCGCAACGAGAATACGTAAATAGTAATGCGTATCCGTAAATCGCAATGCGAATACGTAAATCG
1 AATCGCAACGAGAATACGAAAATAGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATCG
841703 CAA
66 CAA
841706 TGCGAATACG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 60 1.00
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (74 bp):
AATCGCAACGAGAATACGAAAATAGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATCG
CAACGCGGA
Found at i:845180 original size:14 final size:14
Alignment explanation
Indices: 845163--845230 Score: 55
Period size: 14 Copynumber: 4.5 Consensus size: 14
845153 CAAAATTACT
*
845163 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
845177 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
* *
845196 ATCGCAATGTGAAA
1 ATCGCAACGAGAAA
*
845210 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
845224 ATCGCAA
1 ATCGCAA
845231 TGCAAAATGA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
14 29 0.67
16 2 0.05
17 1 0.02
18 1 0.02
19 10 0.23
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:845278 original size:31 final size:32
Alignment explanation
Indices: 845205--845281 Score: 106
Period size: 32 Copynumber: 2.4 Consensus size: 32
845195 AATCGCAATG
845205 TGAAAATCGCAACGAGAGAATCGCAATGCAAAA
1 TGAAAATCGCAACGAGAGAATC-CAATGCAAAA
*
845238 TG-AAATCGCAACGA-AGGAAT-CAATGCGAAA
1 TGAAAATCGCAACGAGA-GAATCCAATGCAAAA
845268 TGAAAATCGCAACG
1 TGAAAATCGCAACG
845282 CGAATTTAGT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
30 11 0.27
31 12 0.29
32 16 0.39
33 2 0.05
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (32 bp):
TGAAAATCGCAACGAGAGAATCCAATGCAAAA
Found at i:845303 original size:19 final size:19
Alignment explanation
Indices: 845281--845343 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
845271 AAATCGCAAC
* *
845281 GCGAATTTAGTTTCGTGTT
1 GCGATTTTAGTTTCGCGTT
845300 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
* *
845319 GCGATTTTAATTTCGCATT
1 GCGATTTTAGTTTCGCGTT
845338 GCGATT
1 GCGATT
845344 CTCTCGTTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.16, C:0.14, G:0.24, T:0.46
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:845374 original size:19 final size:19
Alignment explanation
Indices: 845298--845375 Score: 78
Period size: 19 Copynumber: 4.4 Consensus size: 19
845288 TAGTTTCGTG
*
845298 TTGCGATTTT-AGTTTCGCG
1 TTGCGATTTTCA-TTTCGCA
*
845317 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
845336 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
845350 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
845369 TTGCGAT
1 TTGCGAT
845376 AGTCATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
14 6 0.12
16 7 0.14
17 6 0.12
19 29 0.59
20 1 0.02
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:845497 original size:13 final size:14
Alignment explanation
Indices: 845481--845515 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
845471 CATCAATTAA
845481 ACAAATCA-CTTTT
1 ACAAATCATCTTTT
845494 ACAAATCATCTTTT
1 ACAAATCATCTTTT
845508 ACAAATCA
1 ACAAATCA
845516 ATTAAACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (14 bp):
ACAAATCATCTTTT
Found at i:846919 original size:21 final size:21
Alignment explanation
Indices: 846853--846919 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
846843 ATGAATCAGG
*
846853 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
846873 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
846895 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
846916 CTCT
1 CTCT
846920 CGGGAATGAT
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:848158 original size:20 final size:20
Alignment explanation
Indices: 848133--848175 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
848123 GATTTCTGGG
* *
848133 CAAGGGAATCGGTACCCATT
1 CAAGGGAACCGATACCCATT
*
848153 CAAGGGAACCGATACCCCTT
1 CAAGGGAACCGATACCCATT
848173 CAA
1 CAA
848176 ACGAACAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.30, G:0.21, T:0.16
Consensus pattern (20 bp):
CAAGGGAACCGATACCCATT
Found at i:849892 original size:23 final size:22
Alignment explanation
Indices: 849833--849899 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
849823 TATGGACATC
*
849833 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
849855 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
849877 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
849900 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:852103 original size:16 final size:15
Alignment explanation
Indices: 852073--852116 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 15
852063 GTCAATTAAA
852073 GATTGATAAGAATTT
1 GATTGATAAGAATTT
*
852088 GATTGATTAAGGATTTT
1 GATTGA-TAA-GAATTT
*
852105 GAGTGATAAGAA
1 GATTGATAAGAA
852117 CTGATGCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 8 0.33
16 6 0.25
17 10 0.42
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (15 bp):
GATTGATAAGAATTT
Found at i:853011 original size:21 final size:21
Alignment explanation
Indices: 852985--853029 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
852975 GATTTCTGGG
* *
852985 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
853006 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
853027 CAA
1 CAA
853030 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:854744 original size:21 final size:22
Alignment explanation
Indices: 854690--854752 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
854680 TTATGGACCA
*
854690 TCTACGGGCACTACGGTGCAAT
1 TCTACGGGCACTTCGGTGCAAT
854712 TCTACGGGCACTTCGGTGCAAT
1 TCTACGGGCACTTCGGTGCAAT
854734 TCTAC-GGCACTTCGGTGCA
1 TCTACGGGCACTTCGGTGCA
854753 TTTATACGAG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
21 14 0.35
22 26 0.65
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.25
Consensus pattern (22 bp):
TCTACGGGCACTTCGGTGCAAT
Found at i:856424 original size:33 final size:33
Alignment explanation
Indices: 856360--856458 Score: 157
Period size: 33 Copynumber: 3.1 Consensus size: 33
856350 AAACATGAAA
* *
856360 AATAAGTTGGTCACCTACCAA-A-GAATTTTCC
1 AATAAGTTGGCCACCAACCAAGATGAATTTTCC
856391 AATAAGTTGGCCACCAACCAAGATGAATTTTCC
1 AATAAGTTGGCCACCAACCAAGATGAATTTTCC
*
856424 AATAAGTTGGCCACCAACCAAGATGAAATTTCC
1 AATAAGTTGGCCACCAACCAAGATGAATTTTCC
856457 AA
1 AA
856459 CTTGCCAATT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
31 19 0.30
32 1 0.02
33 43 0.68
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.24
Consensus pattern (33 bp):
AATAAGTTGGCCACCAACCAAGATGAATTTTCC
Found at i:857830 original size:39 final size:39
Alignment explanation
Indices: 857775--857851 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 39
857765 AGGATGATTA
*
857775 TTTTTCCTCCTCCTCTGCTCGTAGCATTGAGTTGGTCAT
1 TTTTTCCTCCTCCTCTGCACGTAGCATTGAGTTGGTCAT
* * * * *
857814 TTTTTCCTCTTGCTCTGCACTTGGCATTGTGTTGGTCA
1 TTTTTCCTCCTCCTCTGCACGTAGCATTGAGTTGGTCA
857852 ATTTGCAGGG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.09, C:0.26, G:0.19, T:0.45
Consensus pattern (39 bp):
TTTTTCCTCCTCCTCTGCACGTAGCATTGAGTTGGTCAT
Found at i:861894 original size:31 final size:31
Alignment explanation
Indices: 861810--861886 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
861800 CTAATGTGAC
* *
861810 TCTTAGGTAGGCTCTGCGGCCCTGAGATCAT
1 TCTTGGGTAGGCTCTGCGGCCCTGAAATCAT
* *
861841 TCTCGGGTAGGCCCTGCGGCCCTGAAATC-T
1 TCTTGGGTAGGCTCTGCGGCCCTGAAATCAT
861871 ATCTTGGGTAGGCTCT
1 -TCTTGGGTAGGCTCT
861887 AAGGCCCTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 1 0.03
31 38 0.97
ACGTcount: A:0.14, C:0.27, G:0.30, T:0.29
Consensus pattern (31 bp):
TCTTGGGTAGGCTCTGCGGCCCTGAAATCAT
Found at i:863358 original size:36 final size:34
Alignment explanation
Indices: 863315--863390 Score: 91
Period size: 36 Copynumber: 2.2 Consensus size: 34
863305 AATATTTTTT
* *
863315 ATTATAATCGAAAATATTCA-AATATTAACATTTCCA
1 ATTATAATAGAAAATATT-ATAA-ATTAACATTT-AA
*
863351 ATTATAATATAAAATATTATAAATTAACATTTAA
1 ATTATAATAGAAAATATTATAAATTAACATTTAA
863385 ATTATA
1 ATTATA
863391 TTCAATCGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 7 0.19
35 11 0.31
36 18 0.50
ACGTcount: A:0.51, C:0.08, G:0.01, T:0.39
Consensus pattern (34 bp):
ATTATAATAGAAAATATTATAAATTAACATTTAA
Done.