Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, 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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 23 of 138
Found at i:6071903 original size:23 final size:22
Alignment explanation
Indices: 6071869--6071923 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
6071859 AATTTTTTTC
*
6071869 TTTTTTTCTTTCCCTTTTT-CT
1 TTTTTTTTTTTCCCTTTTTACT
*
6071890 TTTCATTTTTTTTCCTTTTTTACT
1 TTT--TTTTTTTTCCCTTTTTACT
6071914 TTTTTTTTTT
1 TTTTTTTTTT
6071924 AGATTTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 3 0.10
22 7 0.24
23 14 0.48
24 5 0.17
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTTTTTTTCCCTTTTTACT
Found at i:6077075 original size:42 final size:41
Alignment explanation
Indices: 6077020--6077101 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
6077010 TTAGGGTCTA
*
6077020 TTGTTCTTCATAGTTAGGCAATCTGTGGATTAGGGTTTTCTG
1 TTGTTCTTCATAGTTAGGC-ATCTCTGGATTAGGGTTTTCTG
* *
6077062 TTGTTCGTT-ATAGTTAGGCATTTCTGGTTTAGGGTTTTCT
1 TTGTTC-TTCATAGTTAGGCATCTCTGGATTAGGGTTTTCT
6077102 TTTATTATTC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 18 0.50
42 16 0.44
43 2 0.06
ACGTcount: A:0.15, C:0.11, G:0.26, T:0.49
Consensus pattern (41 bp):
TTGTTCTTCATAGTTAGGCATCTCTGGATTAGGGTTTTCTG
Found at i:6078561 original size:33 final size:33
Alignment explanation
Indices: 6078524--6078597 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 33
6078514 ATAGGAATTG
6078524 AAGATGTAGTTGAGAAAA-CAAAGGTA-GAGAATA
1 AAGATGTAGTTGA-AAAACCAAAGGTATG-GAATA
*
6078557 AAGATGTAGTTGAAAAACCAAAGGTATGGAATG
1 AAGATGTAGTTGAAAAACCAAAGGTATGGAATA
6078590 AAGATGTA
1 AAGATGTA
6078598 ATTAAAGTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
32 4 0.11
33 33 0.87
34 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.27, T:0.20
Consensus pattern (33 bp):
AAGATGTAGTTGAAAAACCAAAGGTATGGAATA
Found at i:6078623 original size:33 final size:33
Alignment explanation
Indices: 6078522--6078629 Score: 105
Period size: 33 Copynumber: 3.3 Consensus size: 33
6078512 GGATAGGAAT
*
6078522 TGAAGATGTAGTTGAGAAAA-CAAAGGTAGAGAA
1 TGAAGATGTAATTGA-AAAACCAAAGGTAGAGAA
* *
6078555 TAAAGATGTAGTTGAAAAACCAAAGGTATG-GAA
1 TGAAGATGTAATTGAAAAACCAAAGGTA-GAGAA
* * *
6078588 TGAAGATGTAATT-AAAGTAGCAAAGGTAGAAAA
1 TGAAGATGTAATTGAAA-AACCAAAGGTAGAGAA
*
6078621 TGAAAATGT
1 TGAAGATGT
6078630 GGTTGGTATA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
32 8 0.12
33 55 0.86
34 1 0.02
ACGTcount: A:0.49, C:0.04, G:0.26, T:0.21
Consensus pattern (33 bp):
TGAAGATGTAATTGAAAAACCAAAGGTAGAGAA
Found at i:6081567 original size:19 final size:19
Alignment explanation
Indices: 6081545--6081582 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6081535 TTGTTTTATG
6081545 CTAAAAATTCCTGAAACAA
1 CTAAAAATTCCTGAAACAA
*
6081564 CTAAAAATTCTTGAAACAA
1 CTAAAAATTCCTGAAACAA
6081583 TCTCTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.18, G:0.05, T:0.24
Consensus pattern (19 bp):
CTAAAAATTCCTGAAACAA
Found at i:6082840 original size:24 final size:24
Alignment explanation
Indices: 6082813--6082866 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
6082803 TTAAGTTTAG
6082813 TTTCAAATCCATCCTT-AAATCCAA
1 TTTCAAATCCA-CCTTCAAATCCAA
* *
6082837 TTTCAAATCTAGCTTCAAATCCAA
1 TTTCAAATCCACCTTCAAATCCAA
6082861 TTTCAA
1 TTTCAA
6082867 TTCTAGTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 3 0.11
24 24 0.89
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (24 bp):
TTTCAAATCCACCTTCAAATCCAA
Found at i:6082871 original size:24 final size:24
Alignment explanation
Indices: 6082829--6082878 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
6082819 ATCCATCCTT
6082829 AAATCCAATTTCAAATCTAGCTTC
1 AAATCCAATTTCAAATCTAGCTTC
* *
6082853 AAATCCAATTTCAATTCTAGTTTC
1 AAATCCAATTTCAAATCTAGCTTC
6082877 AA
1 AA
6082879 TTACTGCTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (24 bp):
AAATCCAATTTCAAATCTAGCTTC
Found at i:6083580 original size:17 final size:18
Alignment explanation
Indices: 6083555--6083592 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
6083545 ATTCATTTTC
6083555 ATTAATAGATTGCCTC-T
1 ATTAATAGATTGCCTCAT
*
6083572 ATTATTAGATTGCCTCAT
1 ATTAATAGATTGCCTCAT
6083590 ATT
1 ATT
6083593 GCTTTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.45
Consensus pattern (18 bp):
ATTAATAGATTGCCTCAT
Found at i:6092558 original size:25 final size:25
Alignment explanation
Indices: 6092530--6092577 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6092520 ACCCTCTAGG
*
6092530 AAACCACTCAAAAATACCATTTAAT
1 AAACCACTCAAAAACACCATTTAAT
* *
6092555 AAACCATTCAGAAACACCATTTA
1 AAACCACTCAAAAACACCATTTA
6092578 GCATACGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.50, C:0.25, G:0.02, T:0.23
Consensus pattern (25 bp):
AAACCACTCAAAAACACCATTTAAT
Found at i:6093856 original size:186 final size:185
Alignment explanation
Indices: 6093245--6094681 Score: 1458
Period size: 186 Copynumber: 7.7 Consensus size: 185
6093235 AAAAATTTTA
* ** * *
6093245 AAGGAATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAGCTA-TTTTAAAATTTTAGTA
1 AAGGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTA-AAAGTCTTAAAATTTGAGTA
* * * *** * * * * *
6093309 GTGGAATATTTAAGATGTTTTTCACTGAAAAATGCCTTTAATAAT-CAAAAAATTTAAAAAG-AA
65 GTAGAAAATTGAAGGCATTTTTCACTGGAAGACGCCTTTAATAATCCAAAAAATTTTAAGAGAAA
* * * * * *
6093372 ATTATTGAAAGCATT-TTTTGAAAAAAAATTCCTTTAATAATTATGTAAGTAAATTAT
130 ATTATTGAAGGCATTATTTT--CAAAAAATACCTTCAATAATTATGTACGTAAATTAG
* * * ** * *
6093429 AGGGAATTAGTGAAAGCATTTTTCTATAATAAATACCTTCACTAAATGTCTTAAAATTTG-GATT
1 AAGGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAAAAGTCTTAAAATTTGAG-TA
* * * *
6093493 GTGGAAAATTGAAGGCTTTTTTCATTGGAAGATGCCTTTAATAATCTC-AAAAATTTTAAGAGAA
65 GTAGAAAATTGAAGGCATTTTTCACTGGAAGACGCCTTTAATAATC-CAAAAAATTTTAAGAGAA
* * * *
6093557 AATTATTGAAGGTGATTGTTTTCAAAAAAATACCTTCAATAATTATCTACGTCAATTAG
129 AATTATTGAAGG-CATTATTTTC-AAAAAATACCTTCAATAATTATGTACGTAAATTAG
* * * * *
6093616 AAAGAATTAGTAAAGGTATTTTTCTAGAATAAACGCCTTCACTAACCA-TCTTAAAATTTGAGCA
1 AAGGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAA-AAGTCTTAAAATTTGAGTA
* * * * *
6093680 GTAGAATATTGAATGCATTTTTCAGTGGAAGACGCATTTAATAATCACAAAAAATTTTAA-AAAA
65 GTAGAAAATTGAAGGCATTTTTCACTGGAAGACGCCTTTAATAATC-CAAAAAATTTTAAGAGAA
* *
6093744 AATTATTGAAGGCATTTATTTTCAAAAAATACCTTCAATAATTATGTATGTTAATTAG
129 AATTATTGAAGGCA-TTATTTTCAAAAAATACCTTCAATAATTATGTACGTAAATTAG
* * * *
6093802 AAGGAATTAGTGAAGGCATTTTTCTAAAATAAACACCTTCACTAAAAGTCTTAAAATTTAAGTTG
1 AAGGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAAAAGTCTTAAAATTTGAGTAG
** * *
6093867 T-GAAAAATTGAAGGTGTTTTTCACTGGAAGACGCGTTTAATAATCCAAAAAATTTTAAGAGGAA
66 TAG-AAAATTGAAGGCATTTTTCACTGGAAGACGCCTTTAATAATCCAAAAAATTTTAAGAGAAA
*
6093931 ATTATTGAAGGTAATTATTTTCAAAAAAATACCTTCAATAATTATGTACGTAAATTAG
130 ATTATTGAAGG-CATTATTTTC-AAAAAATACCTTCAATAATTATGTACGTAAATTAG
* * *
6093989 AAGGAATTA-TGAAGGCATTTTTCTAAAATAAATGCCTTCACTAAACGTCTTAAAATTTGAGTTA
1 AAGGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAAAAGTCTTAAAATTTGAG-TA
* **** ** * *
6094053 -TGGAAAATTGAAAATGTTTTTCGTTGGAAGACACCTTTAATAATCCCAAAAATTTTAAGAGAAA
65 GTAGAAAATTGAAGGCATTTTTCACTGGAAGACGCCTTTAATAATCCAAAAAATTTTAAGAGAAA
* * *
6094117 ATTATTGAAGGCGATTATTTTCAAAAAAACACCTTCAATAATTATGTACATTAATTAG
130 ATTATTGAAGGC-ATTATTTTC-AAAAAATACCTTCAATAATTATGTACGTAAATTAG
* * * *
6094175 AAGGAATTAGTGAAGGCATTTTTCTAGAATAAACACCTTCACTAAATGTCTTAAATTTTGGGTTA
1 AAGGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAAAAGTCTTAAAATTTGAG-TA
** * ** ** * * * *
6094240 -TAG-AAATTGAATTCGTTTTTTGCTAAAAGACACATTTAATAATCCCAAAAATTTTAAGAGGAA
65 GTAGAAAATTGAAGGCATTTTTCACTGGAAGACGCCTTTAATAATCCAAAAAATTTTAAGAGAAA
* * *
6094303 ATTATTGAAGGCGATTGTTTTCAAAAAA-ACGCCTTTAATAATTATGTACGTTAATTAG
130 ATTATTGAAGGC-ATTATTTTCAAAAAATA--CCTTCAATAATTATGTACGTAAATTAG
* * * *
6094361 AAGAAATTAGTGAAGGTATTTTTCTAGAATAAACGCCTTCACTAAACGTATTAAAATTTGAGT--
1 AAGGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAAAAGTCTTAAAATTTGAGTAG
* * * *
6094424 TATGAAAAATTGAAGGTATTTTTCACTTGAAGACGCCTTTAATAATCCTAAAAATTTTAATAGAA
66 TA-G-AAAATTGAAGGCATTTTTCACTGGAAGACGCCTTTAATAATCCAAAAAATTTTAAGAGAA
* *
6094489 AATTATTGAAGGCAATTGTTTTCAAAAAATACCTTTAATAATTATGTACGTAAATTAG
129 AATTATTGAAGGC-ATTATTTTCAAAAAATACCTTCAATAATTATGTACGTAAATTAG
* * * * * *
6094547 AAGGAATTAGTGAAGGCATTTTT-TAAAAATAAACGCATTTACTAACCA-TCTTAGAATTTAAGT
1 AAGGAATTAGTGAAGGCATTTTTCT-AGAATAAACGCCTTCACTAA-AAGTCTTAAAATTTGAGT
* * * * * *
6094610 --TACGGAATATTGAAGGCATTTTTCACTAGAAGATGCCTTTAATAATTCCAAAAACTTTAAAAA
64 AGTA--GAAAATTGAAGGCATTTTTCACTGGAAGACGCCTTTAATAA-TCCAAAAAATTTTAAGA
6094673 G-AAATTATT
126 GAAAATTATT
6094682 AAACACGTTT
Statistics
Matches: 1070, Mismatches: 152, Indels: 60
0.83 0.12 0.05
Matches are distributed among these distances:
183 1 0.00
184 91 0.09
185 36 0.03
186 597 0.56
187 328 0.31
188 17 0.02
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (185 bp):
AAGGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAAAAGTCTTAAAATTTGAGTAG
TAGAAAATTGAAGGCATTTTTCACTGGAAGACGCCTTTAATAATCCAAAAAATTTTAAGAGAAAA
TTATTGAAGGCATTATTTTCAAAAAATACCTTCAATAATTATGTACGTAAATTAG
Found at i:6093908 original size:373 final size:372
Alignment explanation
Indices: 6093248--6094681 Score: 1598
Period size: 373 Copynumber: 3.9 Consensus size: 372
6093238 AATTTTAAAG
* * * * *
6093248 GAATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACT-AGCTATTTTAAAATTTTAGTAGTG
1 GAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAAAC-ATCTTAAAATTTGAGTAGTA
* * * * *
6093312 GAATATTTAA-GATGTTTTTCACTGAAAAATGCCTTTAATAAT-CAAAAAA-TTTAA-AAAGAAA
65 GAAAATTGAATGA--TTTTTCACTGGAAGACGCCTTTAATAATCCAAAAAATTTTAAGAAA-AAA
* ** * * * * *
6093373 TTATTGAAAGCATTT-TTTGAAAAAAAATTCCTTTAATAATTATGTAAGTAAATTATAGGGAATT
127 TTATTGAAGGCATTTATTT-TCAAAAAATACCTTCAATAATTATGTACGTAAATTAGAAGGAATT
* * * * * * *
6093437 AGTGAAAGCATTTTTCTATAATAAATACCTTCACTAAATGTCTTAAAATTT-GGATTGTGGAAAA
191 AGTGAAGGCATTTTTCTAAAATAAACACCTTCACTAAAAGTCTTAAAATTTAAG-TTATGAAAAA
* * * *
6093501 TTGAAGGCT-TTTTTCATTGGAAGATGCCTTTAATAATCTCAAAAATTTTAAGAGAAAATTATTG
255 TTGAAGG-TGTTTTTCACTAGAAGACGCCTTTAATAATCTCAAAAATTTTAAGAGGAAATTATTG
* *
6093565 AAGGTGATTGTTTTCAAAAAAATACCTTCAATAATTATCTACGTCAATTAGAAA
319 AAGGTGATTGTTTTCAAAAAAATACCTTCAATAATTATGTACGTAAATTAGAAA
* * * *
6093619 GAATTAGTAAAGGTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGCAGTAG
1 GAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAAACATCTTAAAATTTGAGTAGTAG
* * *
6093684 AATATTGAATGCATTTTTCAGTGGAAGACGCATTTAATAATCACAAAAAATTTTAA-AAAAAATT
66 AAAATTGAATG-ATTTTTCACTGGAAGACGCCTTTAATAATC-CAAAAAATTTTAAGAAAAAATT
* *
6093748 ATTGAAGGCATTTATTTTCAAAAAATACCTTCAATAATTATGTATGTTAATTAGAAGGAATTAGT
129 ATTGAAGGCATTTATTTTCAAAAAATACCTTCAATAATTATGTACGTAAATTAGAAGGAATTAGT
*
6093813 GAAGGCATTTTTCTAAAATAAACACCTTCACTAAAAGTCTTAAAATTTAAGTTGTGAAAAATTGA
194 GAAGGCATTTTTCTAAAATAAACACCTTCACTAAAAGTCTTAAAATTTAAGTTATGAAAAATTGA
* *
6093878 AGGTGTTTTTCACTGGAAGACGCGTTTAATAATC-CAAAAAATTTTAAGAGGAAATTATTGAAGG
259 AGGTGTTTTTCACTAGAAGACGCCTTTAATAATCTC-AAAAATTTTAAGAGGAAATTATTGAAGG
* * *
6093942 TAATTATTTTCAAAAAAATACCTTCAATAATTATGTACGTAAATTAGAAG
323 TGATTGTTTTCAAAAAAATACCTTCAATAATTATGTACGTAAATTAGAAA
* * * *
6093992 GAATTA-TGAAGGCATTTTTCTAAAATAAATGCCTTCACTAAACGTCTTAAAATTTGAGTTA-TG
1 GAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAAACATCTTAAAATTTGAG-TAGTA
** * * *
6094055 GAAAATTGAAAATG-TTTTTCGTTGGAAGACACCTTTAATAATCCCAAAAATTTTAAGAGAAAAT
65 GAAAATTG--AATGATTTTTCACTGGAAGACGCCTTTAATAATCCAAAAAATTTTAAGAAAAAAT
* * *
6094119 TATTGAAGGCGA-TTATTTTCAAAAAAACACCTTCAATAATTATGTACATTAATTAGAAGGAATT
128 TATTGAAGGC-ATTTATTTTC-AAAAAATACCTTCAATAATTATGTACGTAAATTAGAAGGAATT
* * * ** *
6094183 AGTGAAGGCATTTTTCTAGAATAAACACCTTCACTAAATGTCTTAAATTTTGGGTTAT-AGAAAT
191 AGTGAAGGCATTTTTCTAAAATAAACACCTTCACTAAAAGTCTTAAAATTTAAGTTATGAAAAAT
* ** * * * *
6094247 TGAA-TTCGTTTTTTGCTAAAAGACACATTTAATAATCCCAAAAATTTTAAGAGGAAATTATTGA
256 TGAAGGT-GTTTTTCACTAGAAGACGCCTTTAATAATCTCAAAAATTTTAAGAGGAAATTATTGA
* ** * *
6094311 AGGCGATTGTTTTCAAAAAAACGCCTTTAATAATTATGTACGTTAATTAG-AA
320 AGGTGATTGTTTTCAAAAAAATACCTTCAATAATTATGTACGTAAATTAGAAA
* * *
6094363 GAAATTAGTGAAGGTATTTTTCTAGAATAAACGCCTTCACTAAACGTATTAAAATTTGAGT--TA
1 G-AATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAAACATCTTAAAATTTGAGTAGTA
* * * * *
6094426 TGAAAAATTGAAGGTATTTTTCACTTGAAGACGCCTTTAATAATCCTAAAAATTTTAATAGAAAA
65 -G-AAAATTGAATG-ATTTTTCACTGGAAGACGCCTTTAATAATCCAAAAAATTTTAAGAAAAAA
* * *
6094491 TTATTGAAGGCAATTGTTTTCAAAAAATACCTTTAATAATTATGTACGTAAATTAGAAGGAATTA
127 TTATTGAAGGCATTTATTTTCAAAAAATACCTTCAATAATTATGTACGTAAATTAGAAGGAATTA
* * * * * * * *
6094556 GTGAAGGCATTTTT-TAAAAATAAACGCATTTACTAACCA-TCTTAGAATTTAAGTTACGGAATA
192 GTGAAGGCATTTTTCT-AAAATAAACACCTTCACTAA-AAGTCTTAAAATTTAAGTTATGAAAAA
** * * * *
6094619 TTGAAGGCATTTTTCACTAGAAGATGCCTTTAATAAT-TCCAAAAACTTTAAAAAGAAATTATT
255 TTGAAGGTGTTTTTCACTAGAAGACGCCTTTAATAATCT-CAAAAATTTTAAGAGGAAATTATT
6094682 AAACACGTTT
Statistics
Matches: 911, Mismatches: 122, Indels: 58
0.84 0.11 0.05
Matches are distributed among these distances:
371 105 0.12
372 300 0.33
373 490 0.54
374 16 0.02
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (372 bp):
GAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAAACATCTTAAAATTTGAGTAGTAG
AAAATTGAATGATTTTTCACTGGAAGACGCCTTTAATAATCCAAAAAATTTTAAGAAAAAATTAT
TGAAGGCATTTATTTTCAAAAAATACCTTCAATAATTATGTACGTAAATTAGAAGGAATTAGTGA
AGGCATTTTTCTAAAATAAACACCTTCACTAAAAGTCTTAAAATTTAAGTTATGAAAAATTGAAG
GTGTTTTTCACTAGAAGACGCCTTTAATAATCTCAAAAATTTTAAGAGGAAATTATTGAAGGTGA
TTGTTTTCAAAAAAATACCTTCAATAATTATGTACGTAAATTAGAAA
Found at i:6094345 original size:559 final size:558
Alignment explanation
Indices: 6093245--6094669 Score: 1773
Period size: 559 Copynumber: 2.6 Consensus size: 558
6093235 AAAAATTTTA
* ** * * *
6093245 AAGGAATTAGTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAGCTA-TTTTAAAATTTTAGTA
1 AAGGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTA-AAAGTATTAAAATTTAAGTT
* * * * * * * *
6093309 GTGGAATATTTAAGATGTTTTTCACTGAAAAATGCCTTTAATAAT-CAAAAAA-TTTAAAAAGAA
65 GTGAAAAATTGAAGGTGTTTTTCACTGGAAGACGCCTTTAATAATCCAAAAAATTTTAAAAGGAA
* * * * * * *
6093372 ATTATTGAAAGCATTTTTTGAAAAAAAATTCCTTTAATAATTATGTAAGTAAATTATAGGGAATT
130 ATTATTGAAGGAATTTTTT-CAAAAAAATACCTTTAATAATTATGTACGTAAATTAGAAGGAATT
* * * * *
6093437 AGTGAAAGCATTTTTCTATAATAAATACCTTCACTAAATGTCTTAAAATTTG-GATTGTGGAAAA
194 AGTGAAGGCATTTTTCTAAAATAAATGCCTTCACTAAACGTCTTAAAATTTGAG-TTATGGAAAA
** ** *
6093501 TTGAAGGCTTTTTTCATTGGAAGATGCCTTTAATAATCTCAAAAATTTTAAGAGAAAATTATTGA
258 TTGAAGAATTTTTTCATTGGAAGACACCTTTAATAATCCCAAAAATTTTAAGAGAAAATTATTGA
* * * *
6093566 AGGTGATTGTTTTCAAAAAAATACCTTCAATAATTATCTACGTCAATTAGAAAGAATTAGTAAAG
323 AGGCGATTATTTTCAAAAAAACACCTTCAATAATTATCTACATCAATTAGAAAGAATTAGTAAAG
* * *
6093631 GTATTTTTCTAGAATAAACGCCTTCACTAACCATCTTAAAATTTGAGCAGTAGAATATTGAATGC
388 GCATTTTTCTAGAATAAACACCTTCACTAAACATCTTAAAATTTGAGCAGTAGAATATTGAATGC
** *
6093696 ATTTTTCAGTGGAAGACGCATTTAATAATCACAAAAAATTTTAAAAAAAATTATTGAAGGCATTT
453 ATTTTTCAGTAAAAGACACATTTAATAATCACAAAAAATTTTAAAAAAAATTATTGAAGGCATTT
*
6093761 ATTTTCAAAAAATACCTTCAATAATTATGTATGTTAATTAG
518 ATTTTCAAAAAATACCTTCAATAATTATGTACGTTAATTAG
* * *
6093802 AAGGAATTAGTGAAGGCATTTTTCTAAAATAAACACCTTCACTAAAAGTCTTAAAATTTAAGTTG
1 AAGGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAAAAGTATTAAAATTTAAGTTG
* *
6093867 TGAAAAATTGAAGGTGTTTTTCACTGGAAGACGCGTTTAATAATCCAAAAAATTTTAAGAGGAAA
66 TGAAAAATTGAAGGTGTTTTTCACTGGAAGACGCCTTTAATAATCCAAAAAATTTTAAAAGGAAA
*
6093932 TTATTGAAGGTAATTATTTTCAAAAAAATACCTTCAATAATTATGTACGTAAATTAGAAGGAATT
131 TTATTGAAGG-AATT-TTTTCAAAAAAATACCTTTAATAATTATGTACGTAAATTAGAAGGAATT
6093997 A-TGAAGGCATTTTTCTAAAATAAATGCCTTCACTAAACGTCTTAAAATTTGAGTTATGGAAAAT
194 AGTGAAGGCATTTTTCTAAAATAAATGCCTTCACTAAACGTCTTAAAATTTGAGTTATGGAAAAT
*
6094061 TGAA-AATGTTTTTCGTTGGAAGACACCTTTAATAATCCCAAAAATTTTAAGAGAAAATTATTGA
259 TGAAGAAT-TTTTTCATTGGAAGACACCTTTAATAATCCCAAAAATTTTAAGAGAAAATTATTGA
* * * *
6094125 AGGCGATTATTTTCAAAAAAACACCTTCAATAATTATGTACATTAATTAGAAGGAATTAGTGAAG
323 AGGCGATTATTTTCAAAAAAACACCTTCAATAATTATCTACATCAATTAGAAAGAATTAGTAAAG
** * * * *
6094190 GCATTTTTCTAGAATAAACACCTTCACTAAATGTCTTAAATTTTGGGTTA-TAGAA-ATTGAATT
388 GCATTTTTCTAGAATAAACACCTTCACTAAACATCTTAAAATTTGAG-CAGTAGAATATTGAATG
* * * **
6094253 CGTTTTT-TGCTAAAAGACACATTTAATAATC-CCAAAAATTTTAAGAGGAAATTATTGAAGGCG
452 CATTTTTCAG-TAAAAGACACATTTAATAATCACAAAAAATTTTAA-AAAAAATTATTGAAGGC-
* *
6094316 A-TTGTTTTCAAAAAA-ACGCCTTTAATAATTATGTACGTTAATTAG
514 ATTTATTTTCAAAAAATA--CCTTCAATAATTATGTACGTTAATTAG
* * * * *
6094361 AAGAAATTAGTGAAGGTATTTTTCTAGAATAAACGCCTTCACTAAACGTATTAAAATTTGAGTTA
1 AAGGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAAAAGTATTAAAATTTAAGTTG
* * * * *
6094426 TGAAAAATTGAAGGTATTTTTCACTTGAAGACGCCTTTAATAATCCTAAAAATTTTAATAGAAAA
66 TGAAAAATTGAAGGTGTTTTTCACTGGAAGACGCCTTTAATAATCCAAAAAATTTTAAAAGGAAA
6094491 TTATTGAAGGCAATTGTTTTC-AAAAAATACCTTTAATAATTATGTACGTAAATTAGAAGGAATT
131 TTATTGAAGG-AATT-TTTTCAAAAAAATACCTTTAATAATTATGTACGTAAATTAGAAGGAATT
* * * * * * * * *
6094555 AGTGAAGGCATTTTT-TAAAAATAAACGCATTTACTAACCATCTTAGAATTTAAGTTACGGAATA
194 AGTGAAGGCATTTTTCT-AAAATAAATGCCTTCACTAAACGTCTTAAAATTTGAGTTATGGAAAA
* * * ** * *
6094619 TTGAAGGCA-TTTTTCACTAGAAGATGCCTTTAATAATTCCAAAAACTTTAA
258 TTGAA-GAATTTTTTCATTGGAAGACACCTTTAATAATCCCAAAAATTTTAA
6094670 AAAGAAATTA
Statistics
Matches: 752, Mismatches: 99, Indels: 32
0.85 0.11 0.04
Matches are distributed among these distances:
556 1 0.00
557 105 0.14
558 111 0.15
559 485 0.64
560 45 0.06
561 5 0.01
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (558 bp):
AAGGAATTAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAAAAGTATTAAAATTTAAGTTG
TGAAAAATTGAAGGTGTTTTTCACTGGAAGACGCCTTTAATAATCCAAAAAATTTTAAAAGGAAA
TTATTGAAGGAATTTTTTCAAAAAAATACCTTTAATAATTATGTACGTAAATTAGAAGGAATTAG
TGAAGGCATTTTTCTAAAATAAATGCCTTCACTAAACGTCTTAAAATTTGAGTTATGGAAAATTG
AAGAATTTTTTCATTGGAAGACACCTTTAATAATCCCAAAAATTTTAAGAGAAAATTATTGAAGG
CGATTATTTTCAAAAAAACACCTTCAATAATTATCTACATCAATTAGAAAGAATTAGTAAAGGCA
TTTTTCTAGAATAAACACCTTCACTAAACATCTTAAAATTTGAGCAGTAGAATATTGAATGCATT
TTTCAGTAAAAGACACATTTAATAATCACAAAAAATTTTAAAAAAAATTATTGAAGGCATTTATT
TTCAAAAAATACCTTCAATAATTATGTACGTTAATTAG
Found at i:6100359 original size:59 final size:58
Alignment explanation
Indices: 6100260--6100429 Score: 218
Period size: 59 Copynumber: 2.9 Consensus size: 58
6100250 TTTTTTTAGG
*
6100260 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGAAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAACACTTTTTTGAAAATTT--ATTTCT-AA
* *
6100319 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAACAC-TTTTTTGAAAATTTATTTCTAA
* * *
6100378 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAAATTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAACA--CTTTTTTGAAAATTT
6100430 TTATTTTTAT
Statistics
Matches: 98, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
59 69 0.70
60 15 0.15
61 14 0.14
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.43
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAACACTTTTTTGAAAATTTATTTCTAA
Found at i:6100850 original size:20 final size:20
Alignment explanation
Indices: 6100815--6100866 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
6100805 CACCGGTGGG
* *
6100815 ATTTCGTCGGATTCTGGA-A
1 ATTTCGCCGGAATCTGGAGA
6100834 ATTCTCGCCGGAATCTGGAGA
1 ATT-TCGCCGGAATCTGGAGA
6100855 ATTTCGCCGGAA
1 ATTTCGCCGGAA
6100867 GTTCGCCGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 3 0.10
20 22 0.76
21 4 0.14
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (20 bp):
ATTTCGCCGGAATCTGGAGA
Found at i:6100873 original size:11 final size:11
Alignment explanation
Indices: 6100857--6100896 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
6100847 TCTGGAGAAT
6100857 TTCGCCGGAAG
1 TTCGCCGGAAG
6100868 TTCGCCGGAAG
1 TTCGCCGGAAG
*
6100879 TT-GCCGAAAG
1 TTCGCCGGAAG
*
6100889 ATCGCCGG
1 TTCGCCGG
6100897 TTTCTGGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.20, C:0.28, G:0.35, T:0.17
Consensus pattern (11 bp):
TTCGCCGGAAG
Found at i:6100936 original size:19 final size:20
Alignment explanation
Indices: 6100900--6100940 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
6100890 TCGCCGGTTT
6100900 CTGGGATTCTTCGCCGGAAA
1 CTGGGATTCTTCGCCGGAAA
*
6100920 CTGGGATTGTT-GCCGGAAA
1 CTGGGATTCTTCGCCGGAAA
6100939 CT
1 CT
6100941 TCAAGTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.20, C:0.22, G:0.32, T:0.27
Consensus pattern (20 bp):
CTGGGATTCTTCGCCGGAAA
Found at i:6101376 original size:43 final size:45
Alignment explanation
Indices: 6101328--6101436 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 45
6101318 AATCAAAAAT
* * *
6101328 AAAAAAATACTAGATAATAATCA-GATAAATCA-AA-AGATATTTA
1 AAAAAAATAATA-ATAATAATCAGGAAAAATCAGAACAGATAATTA
* * *
6101371 AAAAAAAAAATATCTGATAATCAGGAAAAATCAGAACAGATAATTA
1 AAAAAAATAATA-ATAATAATCAGGAAAAATCAGAACAGATAATTA
*
6101417 AAAATAATAATAATAATAAT
1 AAAAAAATAATAATAATAAT
6101437 AATAATAATA
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
43 18 0.35
44 8 0.15
45 8 0.15
46 18 0.35
ACGTcount: A:0.62, C:0.06, G:0.07, T:0.24
Consensus pattern (45 bp):
AAAAAAATAATAATAATAATCAGGAAAAATCAGAACAGATAATTA
Found at i:6101427 original size:3 final size:3
Alignment explanation
Indices: 6101419--6101457 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
6101409 GATAATTAAA
6101419 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6101458 ACCCAAGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:6110942 original size:24 final size:24
Alignment explanation
Indices: 6110914--6110973 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
6110904 CAACATAGTG
6110914 ATGCAAAAATTATATCAAGATATC
1 ATGCAAAAATTATATCAAGATATC
6110938 ATGCAATAAA-TATATCAAGATATC
1 ATGCAA-AAATTATATCAAGATATC
6110962 ATGACAAAAATT
1 ATG-CAAAAATT
6110974 CATGCAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
24 26 0.79
25 7 0.21
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.28
Consensus pattern (24 bp):
ATGCAAAAATTATATCAAGATATC
Found at i:6111001 original size:24 final size:25
Alignment explanation
Indices: 6110974--6111063 Score: 83
Period size: 24 Copynumber: 3.9 Consensus size: 25
6110964 GACAAAAATT
6110974 CATGC-AATA-AATATAAACTCATAC
1 CATGCAAATATAATATAAA-TCATAC
6110998 CATGCAAATATAATATAAATCATAC
1 CATGCAAATATAATATAAATCATAC
6111023 CAT---AA-AT-ATA-AAATCATAC
1 CATGCAAATATAATATAAATCATAC
*
6111042 CAGGCAAATAATAA-AT-AATCAT
1 CATGCAAAT-ATAATATAAATCAT
6111064 GTAAATAATA
Statistics
Matches: 56, Mismatches: 1, Indels: 18
0.75 0.01 0.24
Matches are distributed among these distances:
19 11 0.20
20 3 0.05
21 2 0.04
22 4 0.07
24 14 0.25
25 14 0.25
26 8 0.14
ACGTcount: A:0.53, C:0.17, G:0.04, T:0.26
Consensus pattern (25 bp):
CATGCAAATATAATATAAATCATAC
Found at i:6111020 original size:25 final size:24
Alignment explanation
Indices: 6110974--6111063 Score: 86
Period size: 25 Copynumber: 3.9 Consensus size: 24
6110964 GACAAAAATT
6110974 CATGCAATA-AATATAAACTCATAC
1 CATGCAATATAATATAAA-TCATAC
6110998 CATGCAAATATAATATAAATCATAC
1 CATGC-AATATAATATAAATCATAC
6111023 CAT--AA-AT-ATA-AAATCATAC
1 CATGCAATATAATATAAATCATAC
* *
6111042 CAGGCAA-ATAATAAATAATCAT
1 CATGCAATATAATATA-AATCAT
6111064 GTAAATAATA
Statistics
Matches: 58, Mismatches: 1, Indels: 14
0.79 0.01 0.19
Matches are distributed among these distances:
19 11 0.19
20 3 0.05
21 6 0.10
22 5 0.09
23 1 0.02
24 11 0.19
25 13 0.22
26 8 0.14
ACGTcount: A:0.53, C:0.17, G:0.04, T:0.26
Consensus pattern (24 bp):
CATGCAATATAATATAAATCATAC
Found at i:6111030 original size:44 final size:43
Alignment explanation
Indices: 6110980--6111063 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 43
6110970 AATTCATGCA
* *
6110980 ATAAATATAAACTCATACCATGCAAAT-ATAATATAAATCATACC
1 ATAAATATAAAATCATACCAGGCAAATAATAA-AT-AATCATACC
6111024 ATAAATATAAAATCATACCAGGCAAATAATAAATAATCAT
1 ATAAATATAAAATCATACCAGGCAAATAATAAATAATCAT
6111064 GTAAATAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
43 6 0.16
44 27 0.73
45 4 0.11
ACGTcount: A:0.55, C:0.15, G:0.04, T:0.26
Consensus pattern (43 bp):
ATAAATATAAAATCATACCAGGCAAATAATAAATAATCATACC
Found at i:6111038 original size:19 final size:19
Alignment explanation
Indices: 6110980--6111043 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 19
6110970 AATTCATGCA
*
6110980 ATAAATATAAACTCATACC
1 ATAAATATAAAATCATACC
6110999 ATGCAAATATAATATAAATCATACC
1 AT---AA-AT-ATA-AAATCATACC
6111024 ATAAATATAAAATCATACC
1 ATAAATATAAAATCATACC
6111043 A
1 A
6111044 GGCAAATAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
19 13 0.34
20 3 0.08
21 2 0.05
22 4 0.11
23 2 0.05
24 3 0.08
25 11 0.29
ACGTcount: A:0.55, C:0.17, G:0.02, T:0.27
Consensus pattern (19 bp):
ATAAATATAAAATCATACC
Found at i:6111194 original size:21 final size:21
Alignment explanation
Indices: 6111118--6111197 Score: 78
Period size: 22 Copynumber: 3.9 Consensus size: 21
6111108 TAAATTAATC
*
6111118 ATATA-ATAATCATGCAAATT
1 ATATATATAATCATGCAAATA
*
6111138 A-ATATATAATTAGTTG--AATA
1 ATATATATAATCA--TGCAAATA
*
6111158 ATATATATTTATCATGCAAATA
1 ATATATA-TAATCATGCAAATA
6111180 ATATATATAATCATGCAA
1 ATATATATAATCATGCAA
6111198 GTAAGAAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
19 3 0.06
20 13 0.27
21 15 0.31
22 17 0.35
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.38
Consensus pattern (21 bp):
ATATATATAATCATGCAAATA
Found at i:6111269 original size:24 final size:24
Alignment explanation
Indices: 6111121--6111278 Score: 97
Period size: 24 Copynumber: 6.8 Consensus size: 24
6111111 ATTAATCATA
*
6111121 TAATAATCATGCAAATTAATATA-
1 TAATAATCATGCAAATAAATATAT
*
6111144 TAATTAGT--TG--AATAATATATAT
1 TAA-TAATCATGCAAATAA-ATATAT
6111166 T--T-ATCATGCAAAT-AATATA-
1 TAATAATCATGCAAATAAATATAT
* *
6111185 T-ATAATCATGCAAGTAAGAAATAAT
1 TAATAATCATGCAAATAA-ATAT-AT
* * *
6111210 T-ATGCATTCATACAAACAAATATAT
1 TAAT--AATCATGCAAATAAATATAT
*
6111235 TAATAATCATGTAAATAAATATAT
1 TAATAATCATGCAAATAAATATAT
*
6111259 TAATAATCATGCAATTAAAT
1 TAATAATCATGCAAATAAAT
6111279 TAAATTCATG
Statistics
Matches: 103, Mismatches: 16, Indels: 31
0.69 0.11 0.21
Matches are distributed among these distances:
18 1 0.01
19 2 0.02
20 12 0.12
21 16 0.16
22 7 0.07
23 6 0.06
24 38 0.37
25 6 0.06
26 5 0.05
27 10 0.10
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.35
Consensus pattern (24 bp):
TAATAATCATGCAAATAAATATAT
Found at i:6111299 original size:19 final size:20
Alignment explanation
Indices: 6111226--6111301 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 20
6111216 TTCATACAAA
6111226 CAAATATATTAATAATCATG
1 CAAATATATTAATAATCATG
*
6111246 TAAATAAATATATTAATAATCATG
1 ----CAAATATATTAATAATCATG
* * *
6111270 CAATTAAATTAA-ATTCATG
1 CAAATATATTAATAATCATG
6111289 CAAATATATTAAT
1 CAAATATATTAAT
6111302 CATACAAATA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
19 16 0.36
20 9 0.20
24 19 0.43
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (20 bp):
CAAATATATTAATAATCATG
Found at i:6111309 original size:17 final size:18
Alignment explanation
Indices: 6111262--6111330 Score: 52
Period size: 20 Copynumber: 3.7 Consensus size: 18
6111252 AATATATTAA
* *
6111262 TAATCATGCAATTAA-AT
1 TAATCATACAAATAATAT
*
6111279 TAAATTCATGCAAAT-ATAT
1 T-AA-TCATACAAATAATAT
6111298 TAATCATACAAATAAAATAT
1 TAATCATACAAAT--AATAT
*
6111318 TAGTCATACAAAT
1 TAATCATACAAAT
6111331 TCATGTAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
17 10 0.23
18 5 0.12
19 12 0.28
20 16 0.37
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (18 bp):
TAATCATACAAATAATAT
Found at i:6111427 original size:22 final size:22
Alignment explanation
Indices: 6111395--6111441 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
6111385 TATGCAAAAG
*
6111395 TAAATACCATGTAAA-AACTAAA
1 TAAATACCATGCAAATAA-TAAA
*
6111417 TAAATAGCATGCAAATAATAAA
1 TAAATACCATGCAAATAATAAA
6111439 TAA
1 TAA
6111442 TCTTTACATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.60, C:0.11, G:0.06, T:0.23
Consensus pattern (22 bp):
TAAATACCATGCAAATAATAAA
Found at i:6111545 original size:25 final size:24
Alignment explanation
Indices: 6111511--6111573 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
6111501 TAGAAAATAT
* *
6111511 AAATATAAATAAAAT-AAAGCCAA
1 AAATAAAAATAAAATAAAAACCAA
6111534 AAATTAGAAAATAAAATAAAAACCAA
1 AAA-TA-AAAATAAAATAAAAACCAA
6111560 AAATAAAAATAAAA
1 AAATAAAAATAAAA
6111574 CTTTGCAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 3 0.09
24 11 0.31
25 11 0.31
26 10 0.29
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.16
Consensus pattern (24 bp):
AAATAAAAATAAAATAAAAACCAA
Found at i:6111567 original size:6 final size:6
Alignment explanation
Indices: 6111492--6111573 Score: 60
Period size: 6 Copynumber: 13.3 Consensus size: 6
6111482 ATCACACAAT
* * ***
6111492 AAATAA AAATAGA AAATAT AAATAT AAAT-A AAATAA AGCCAA AAATTAGA
1 AAATAA AAATA-A AAATAA AAATAA AAATAA AAATAA AAATAA AAA-TA-A
*
6111542 AAAT-A AAATAA AAACCAA AAATAA AAATAA AA
1 AAATAA AAATAA AAA-TAA AAATAA AAATAA AA
6111574 CTTTGCAATC
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
5 9 0.15
6 34 0.57
7 13 0.22
8 4 0.07
ACGTcount: A:0.74, C:0.05, G:0.04, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:6113184 original size:3 final size:3
Alignment explanation
Indices: 6113178--6113229 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
6113168 TTGATTTTTT
* * *
6113178 TAA TAA TAA -AA AAA TAA TAA TAA TAAA TAA TGA TAA TAA GAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
6113223 -AA TAA TA
1 TAA TAA TA
6113230 GTTTTTTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:6117351 original size:132 final size:131
Alignment explanation
Indices: 6117131--6117448 Score: 356
Period size: 132 Copynumber: 2.4 Consensus size: 131
6117121 GCCTCTGGAT
* * * * * *
6117131 ATAATTTTGATTTACGGTATTATCCCGATCGATTCTTTATTTTTTAACTTGCGGTGTTGTCCCGA
1 ATAATTTTGATTTACGGTGTTATCTCGATCGATTCTTTATTTTTTAACTTGCGATATTATCCAGA
* * *
6117196 TCGATTCTGTAAGACCTCCAGGCACGAT-TTCTAAGACCTCCGGACATAATCTTTAAGACCTCCA
66 TCGATTCTATAAGACCTCCAGGCACAATCTT-TAAAACCTCCGGACATAATCTTTAAGACCT-CA
6117260 AAC
129 AAC
** *
6117263 ATAATTTCAATTTACGGTGTTATCTTGATCGATT-TTTAATTTTTTAACTTGCGATATTATCTCA
1 ATAATTTTGATTTACGGTGTTATCTCGATCGATTCTTT-ATTTTTTAACTTGCGATATTATC-CA
* * * * *
6117327 G-TCGATTCTATAAGACC-CCTAGGCATAATCTTTAAAACCTTCGGGCATAATCTTTAAGATCTT
64 GATCGATTCTATAAGACCTCC-AGGCACAATCTTTAAAACCTCCGGACATAATCTTTAAGACCTC
**
6117390 AGGC
128 AAAC
*** *
6117394 ATAATTTTGATTCGTGGTGTTATCTCGATCGATTCTTTATTTTTTGACTTGCGAT
1 ATAATTTTGATTTACGGTGTTATCTCGATCGATTCTTTATTTTTTAACTTGCGAT
6117449 GTTGTTCCAG
Statistics
Matches: 155, Mismatches: 26, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
131 51 0.33
132 100 0.65
133 4 0.03
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.40
Consensus pattern (131 bp):
ATAATTTTGATTTACGGTGTTATCTCGATCGATTCTTTATTTTTTAACTTGCGATATTATCCAGA
TCGATTCTATAAGACCTCCAGGCACAATCTTTAAAACCTCCGGACATAATCTTTAAGACCTCAAA
C
Found at i:6117396 original size:21 final size:21
Alignment explanation
Indices: 6117346--6117398 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 21
6117336 ATAAGACCCC
6117346 TAGGCATAATCTTTAAAACCT
1 TAGGCATAATCTTTAAAACCT
* * *
6117367 TCGGGCATAATCTTTAAGATCT
1 T-AGGCATAATCTTTAAAACCT
6117389 TAGGCATAAT
1 TAGGCATAAT
6117399 TTTGATTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (21 bp):
TAGGCATAATCTTTAAAACCT
Found at i:6117574 original size:22 final size:22
Alignment explanation
Indices: 6117468--6117563 Score: 102
Period size: 22 Copynumber: 4.4 Consensus size: 22
6117458 GTTAATTCTG
* * * *
6117468 TAAGATCTCCGGGCATATTCTA
1 TAAGACCTCCAGGCATAATCTC
*
6117490 TAAGACCTCCAGGTATAATCTC
1 TAAGACCTCCAGGCATAATCTC
* *
6117512 TAAGGCCTTCAGGCATAATCTC
1 TAAGACCTCCAGGCATAATCTC
* * *
6117534 TAAAACCTCCGGGCATAATCTT
1 TAAGACCTCCAGGCATAATCTC
6117556 TAAGACCT
1 TAAGACCT
6117564 TCGGATATAA
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 60 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (22 bp):
TAAGACCTCCAGGCATAATCTC
Found at i:6117816 original size:175 final size:177
Alignment explanation
Indices: 6117349--6117881 Score: 675
Period size: 175 Copynumber: 3.0 Consensus size: 177
6117339 AGACCCCTAG
* * * * *
6117349 GCATAATCTTTAAAACCTTCGGGCATAATCTTTAAGA-TCTTAGGCATAATTTTGATTCGTGGTG
1 GCATAATCTCTAAAACCTTCGGGCATAATCTTTAAGACTTTTGGGTATAATTTTGATTCGAGGTG
* * **
6117413 TTATCTCGATCGATTCTTTATTTTTTGACTTGCGATGTTGTTCCAGTTAATTCTGTAAGATCTCC
66 TTATCTCGATCGATTCTTTATTTTTTGACTTGCGGTGTTGTCCCAGTCGATTCTGTAAGATCTCC
* * *
6117478 GGGCAT-ATTCTATAAGACCTCCAGGTATAATCTCTAAG-GCCTTCAG
131 GGGCATGATT-TCTAAGACCTCCAGGCATAATCTCTAAGAGCCTTCAA
* * * * * *
6117524 GCATAATCTCTAAAACCTCCGGGCATAATCTTTAAGACCTTCGGATATAATTTCGATTCGCGGTG
1 GCATAATCTCTAAAACCTTCGGGCATAATCTTTAAGACTTTTGGGTATAATTTTGATTCGAGGTG
* * *
6117589 TTATCTCGATCGATTCTTTATTTTTTAACTTGCGGTGTTGTCCCAATCGATTCTGTAATATCTCC
66 TTATCTCGATCGATTCTTTATTTTTTGACTTGCGGTGTTGTCCCAGTCGATTCTGTAAGATCTCC
** * *
6117654 GAACATGATTTCTAAGACCTCCAGGCATAATCTGTAAGATGTC-T-AA
131 GGGCATGATTTCTAAGACCTCCAGGCATAATCTCTAAGA-GCCTTCAA
* * * *
6117700 GCATGATTTCTAAGACCTTCGGGCATAATCTTTAA-ACTTTTGGGTATAATTTTGATTCGAAGTG
1 GCATAATCTCTAAAACCTTCGGGCATAATCTTTAAGACTTTTGGGTATAATTTTGATTCGAGGTG
* * * *
6117764 TTATCTCGATCAATTCTTTATTTTTCGACTTGTGGTGTTGTCCCAGTCGATTCTGTAAGACCTCC
66 TTATCTCGATCGATTCTTTATTTTTTGACTTGCGGTGTTGTCCCAGTCGATTCTGTAAGATCTCC
* * *
6117829 GGGCATGATTTCTAATACCTCCAGGCATAATCTTTAAGA-CCTTCGA
131 GGGCATGATTTCTAAGACCTCCAGGCATAATCTCTAAGAGCCTTCAA
6117875 GCATAAT
1 GCATAAT
6117882 TTTGACTCGC
Statistics
Matches: 304, Mismatches: 48, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
173 1 0.00
174 1 0.00
175 158 0.52
176 138 0.45
177 4 0.01
178 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (177 bp):
GCATAATCTCTAAAACCTTCGGGCATAATCTTTAAGACTTTTGGGTATAATTTTGATTCGAGGTG
TTATCTCGATCGATTCTTTATTTTTTGACTTGCGGTGTTGTCCCAGTCGATTCTGTAAGATCTCC
GGGCATGATTTCTAAGACCTCCAGGCATAATCTCTAAGAGCCTTCAA
Found at i:6117870 original size:22 final size:22
Alignment explanation
Indices: 6117819--6117883 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
6117809 GTCGATTCTG
* *
6117819 TAAGACCTCCGGGCATGATTTC
1 TAAGACCTCCAGGCATAATTTC
*
6117841 TAATACCTCCAGGCATAATCTT-
1 TAAGACCTCCAGGCATAAT-TTC
*
6117863 TAAGACCTTC-GAGCATAATTT
1 TAAGACCTCCAG-GCATAATTT
6117884 TGACTCGCGA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 3 0.08
22 31 0.86
23 2 0.06
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (22 bp):
TAAGACCTCCAGGCATAATTTC
Found at i:6118113 original size:22 final size:23
Alignment explanation
Indices: 6118078--6118121 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
6118068 ATTCAATCCT
6118078 AAAAAAAGAAAACAAAACAAAAC
1 AAAAAAAGAAAACAAAACAAAAC
* *
6118101 AAAAAAA-ACAACAAAATAAAA
1 AAAAAAAGAAAACAAAACAAAA
6118122 ACTTTTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.84, C:0.11, G:0.02, T:0.02
Consensus pattern (23 bp):
AAAAAAAGAAAACAAAACAAAAC
Found at i:6119398 original size:8 final size:8
Alignment explanation
Indices: 6119385--6119429 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
6119375 GGTTCAGATA
6119385 TTTTTTAT
1 TTTTTTAT
6119393 TTTTTTAAT
1 TTTTTT-AT
*
6119402 TTTTTAAT
1 TTTTTTAT
6119410 TTTTTTAT
1 TTTTTTAT
* *
6119418 ATTATTAT
1 TTTTTTAT
6119426 TTTT
1 TTTT
6119430 GGTATTTTGA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
8 23 0.77
9 7 0.23
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTAT
Found at i:6119516 original size:3 final size:3
Alignment explanation
Indices: 6119508--6119580 Score: 80
Period size: 3 Copynumber: 24.7 Consensus size: 3
6119498 TGATTGTTTT
* *
6119508 TAA TAA TAA TAA AAA TTAA -AA CAA TAA -AA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
6119552 TAAA TAA TAA TAA TAA GAA TAA -AA TAA TA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA
6119581 TTTTTTTATT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
2 6 0.10
3 49 0.82
4 5 0.08
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:6119703 original size:3 final size:3
Alignment explanation
Indices: 6119697--6119738 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
6119687 AAGAAGATAT
* *
6119697 TAA TAA TAA -AA AAA TTAA TAA TAA TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
6119739 ATTTTCATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:6119730 original size:15 final size:16
Alignment explanation
Indices: 6119695--6119739 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
6119685 AAAAGAAGAT
6119695 ATTAATAATAA-AAAA
1 ATTAATAATAATAAAA
*
6119710 ATTAATAATAATAATA
1 ATTAATAATAATAAAA
*
6119726 A-TAATAGTAATAAA
1 ATTAATAATAATAAA
6119740 TTTTCATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (16 bp):
ATTAATAATAATAAAA
Found at i:6120026 original size:29 final size:30
Alignment explanation
Indices: 6119992--6120255 Score: 152
Period size: 30 Copynumber: 9.3 Consensus size: 30
6119982 ACCTTTAAAT
6119992 CCTAAACCCTCCAAACCCTAAAA-CAAAAC
1 CCTAAACCCTCCAAACCCTAAAATCAAAAC
* *
6120021 CCTAAACTCTCTAAACCCTAAAAT------
1 CCTAAACCCTCCAAACCCTAAAATCAAAAC
* * *
6120045 --TAAACCCTCTAAACCCTAAAACCAAAAT
1 CCTAAACCCTCCAAACCCTAAAATCAAAAC
* * *
6120073 CTTAAAACCTCCAAACCCTAAAATCGAAAC
1 CCTAAACCCTCCAAACCCTAAAATCAAAAC
* * *
6120103 CCTAAAGCTTTCAAACCCTAAAATCAAAA-
1 CCTAAACCCTCCAAACCCTAAAATCAAAAC
* * *
6120132 -TTAAACCCT-CTAACCC-AAACATCGAAAC
1 CCTAAACCCTCCAAACCCTAAA-ATCAAAAC
* ** *
6120160 CTTAAATTCTTCAAACCCTAAAA-CTAAAAC
1 CCTAAACCCTCCAAACCCTAAAATC-AAAAC
** *
6120190 CCTCGA-CCT-CAAACCCTAAAATCAAAAA
1 CCTAAACCCTCCAAACCCTAAAATCAAAAC
** *
6120218 CCTAAA-CC-CCAAAATCTAAAACTCAAAAT
1 CCTAAACCCTCCAAACCCTAAAA-TCAAAAC
6120247 CCT-AACCCT
1 CCTAAACCCT
6120256 AAAATTCAAA
Statistics
Matches: 182, Mismatches: 33, Indels: 39
0.72 0.13 0.15
Matches are distributed among these distances:
22 20 0.11
26 3 0.02
27 12 0.07
28 40 0.22
29 43 0.24
30 61 0.34
31 3 0.02
ACGTcount: A:0.46, C:0.34, G:0.02, T:0.19
Consensus pattern (30 bp):
CCTAAACCCTCCAAACCCTAAAATCAAAAC
Found at i:6120048 original size:22 final size:22
Alignment explanation
Indices: 6120023--6120065 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
6120013 AACAAAACCC
*
6120023 TAAACTCTCTAAACCCTAAAAT
1 TAAACCCTCTAAACCCTAAAAT
6120045 TAAACCCTCTAAACCCTAAAA
1 TAAACCCTCTAAACCCTAAAA
6120066 CCAAAATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (22 bp):
TAAACCCTCTAAACCCTAAAAT
Found at i:6120158 original size:57 final size:59
Alignment explanation
Indices: 6120055--6120224 Score: 163
Period size: 57 Copynumber: 2.9 Consensus size: 59
6120045 TAAACCCTCT
6120055 AAACCCTAAAACCAAAATCTTAAAACCTCCAAACCCTAAAATCGAAACCCTAAAGCT-TTC
1 AAACCCTAAAACCAAAA-CTTAAAACCTCCAAACCCTAAAATCGAAACCCTAAA-CTCTTC
* * * * *
6120115 AAACCCTAAAATCAAAA-TTAAACCCT-CTAACCC-AAACATCGAAACCTTAAATTCTTC
1 AAACCCTAAAACCAAAACTTAAAACCTCCAAACCCTAAA-ATCGAAACCCTAAACTCTTC
* * ** * *
6120172 AAACCCTAAAACTAAAACCCT-CGACCT-CAAACCCTAAAATCAAAAACCTAAAC
1 AAACCCTAAAACCAAAA-CTTAAAACCTCCAAACCCTAAAATCGAAACCCTAAAC
6120225 CCCAAAATCT
Statistics
Matches: 89, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
56 4 0.04
57 37 0.42
58 28 0.31
59 4 0.04
60 16 0.18
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.18
Consensus pattern (59 bp):
AAACCCTAAAACCAAAACTTAAAACCTCCAAACCCTAAAATCGAAACCCTAAACTCTTC
Found at i:6120220 original size:22 final size:21
Alignment explanation
Indices: 6120195--6120291 Score: 70
Period size: 21 Copynumber: 4.2 Consensus size: 21
6120185 AAAACCCTCG
6120195 ACCTCAAACCCTAAAATCAAAA
1 ACCT-AAACCCTAAAATCAAAA
6120217 ACCTAAACCCCAAAATCTAAAACTCAAAA
1 ACCTAAA--CC-----CTAAAA-TCAAAA
*
6120246 TCCT-AACCCTAAAATTCAAAA
1 ACCTAAACCCTAAAA-TCAAAA
* *
6120267 CCCTAAACCCTAAAATCCAAA
1 ACCTAAACCCTAAAATCAAAA
6120288 ACCT
1 ACCT
6120292 TAAAATCCAA
Statistics
Matches: 61, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
21 26 0.43
22 14 0.23
23 2 0.03
26 2 0.03
28 8 0.13
29 9 0.15
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.16
Consensus pattern (21 bp):
ACCTAAACCCTAAAATCAAAA
Found at i:6120267 original size:28 final size:29
Alignment explanation
Indices: 6120205--6120260 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
6120195 ACCTCAAACC
6120205 CTAAAA-TCAAAAACCTAAACCCCAAAAT
1 CTAAAACTCAAAAACCTAAACCCCAAAAT
* *
6120233 CTAAAACTCAAAATCCT-AACCCTAAAAT
1 CTAAAACTCAAAAACCTAAACCCCAAAAT
6120261 TCAAAACCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 16 0.64
29 9 0.36
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.18
Consensus pattern (29 bp):
CTAAAACTCAAAAACCTAAACCCCAAAAT
Found at i:6120304 original size:22 final size:22
Alignment explanation
Indices: 6120233--6120295 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
6120223 ACCCCAAAAT
*
6120233 CTAAAA-CTCAAAATCCT-AACC
1 CTAAAATC-CAAAACCCTAAACC
*
6120254 CTAAAATTCAAAACCCTAAACC
1 CTAAAATCCAAAACCCTAAACC
*
6120276 CTAAAATCCAAAACCTTAAA
1 CTAAAATCCAAAACCCTAAA
6120296 ATCCAAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 14 0.39
22 22 0.61
ACGTcount: A:0.51, C:0.30, G:0.00, T:0.19
Consensus pattern (22 bp):
CTAAAATCCAAAACCCTAAACC
Found at i:6122057 original size:17 final size:16
Alignment explanation
Indices: 6122037--6122086 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
6122027 ACCTTTTTTC
6122037 CTTTTCTGATTTTCTGA
1 CTTTTCTGATTTT-TGA
* *
6122054 CTTTTTTTATTTTTGA
1 CTTTTCTGATTTTTGA
6122070 CTTTT-T-ATTTTT-A
1 CTTTTCTGATTTTTGA
6122083 CTTT
1 CTTT
6122087 GGACCTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 5 0.16
14 6 0.19
15 1 0.03
16 8 0.26
17 11 0.35
ACGTcount: A:0.12, C:0.12, G:0.06, T:0.70
Consensus pattern (16 bp):
CTTTTCTGATTTTTGA
Found at i:6122072 original size:16 final size:16
Alignment explanation
Indices: 6122045--6122086 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
6122035 TCCTTTTCTG
6122045 ATTTTCTGACTTTTTTT
1 ATTTT-TGACTTTTTTT
6122062 ATTTTTGAC--TTTTT
1 ATTTTTGACTTTTTTT
6122076 ATTTTT-ACTTT
1 ATTTTTGACTTT
6122087 GGACCTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 2 0.09
14 11 0.48
15 1 0.04
16 4 0.17
17 5 0.22
ACGTcount: A:0.14, C:0.10, G:0.05, T:0.71
Consensus pattern (16 bp):
ATTTTTGACTTTTTTT
Found at i:6122095 original size:20 final size:19
Alignment explanation
Indices: 6122055--6122099 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
6122045 ATTTTCTGAC
* * *
6122055 TTTTTTTATTTTTGACTTT
1 TTTTTTTACTTTGGACCTT
6122074 TTATTTTTACTTTGGACCTT
1 TT-TTTTTACTTTGGACCTT
6122094 TTTTTT
1 TTTTTT
6122100 ACTAGAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.11, C:0.09, G:0.07, T:0.73
Consensus pattern (19 bp):
TTTTTTTACTTTGGACCTT
Found at i:6122165 original size:13 final size:12
Alignment explanation
Indices: 6122143--6122235 Score: 87
Period size: 13 Copynumber: 7.4 Consensus size: 12
6122133 AATCCCAATA
*
6122143 AAAATTAAAATT
1 AAAATAAAAATT
6122155 AAAACTAAAAATT
1 AAAA-TAAAAATT
* *
6122168 AAAATCAAAATC
1 AAAATAAAAATT
6122180 AAAATCAAAAATT
1 AAAAT-AAAAATT
*
6122193 AAAATTAAAATT
1 AAAATAAAAATT
* * *
6122205 CCAATTAAAAATC
1 -AAAATAAAAATT
6122218 AAAATTAAAAATT
1 AAAA-TAAAAATT
6122231 AAAAT
1 AAAAT
6122236 CTCAATTAAA
Statistics
Matches: 64, Mismatches: 13, Indels: 8
0.75 0.15 0.09
Matches are distributed among these distances:
12 24 0.38
13 40 0.62
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAATAAAAATT
Found at i:6122165 original size:19 final size:18
Alignment explanation
Indices: 6122106--6122252 Score: 107
Period size: 19 Copynumber: 7.9 Consensus size: 18
6122096 TTTTACTAGA
*
6122106 AAAAATGAAAATTAAAA-
1 AAAAATTAAAATTAAAAT
* ***
6122123 ACAAAATCAAAATCCCAAT
1 A-AAAATTAAAATTAAAAT
6122142 AAAAATTAAAATTAAAACT
1 AAAAATTAAAATTAAAA-T
*
6122161 AAAAATTAAAATCAAAAT
1 AAAAATTAAAATTAAAAT
* *
6122179 CAAAATCAAAAATTAAAAT
1 AAAAAT-TAAAATTAAAAT
* **
6122198 TAAAATTCCAATTAAAAAT
1 AAAAATTAAAATT-AAAAT
*
6122217 CAAAATTAAAAATTAAAAT
1 AAAAATT-AAAATTAAAAT
***
6122236 CTCAATTAAAATTAAAA
1 AAAAATTAAAATTAAAA
6122253 AGTCAAAATC
Statistics
Matches: 103, Mismatches: 21, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
17 1 0.01
18 44 0.43
19 54 0.52
20 4 0.04
ACGTcount: A:0.66, C:0.10, G:0.01, T:0.24
Consensus pattern (18 bp):
AAAAATTAAAATTAAAAT
Found at i:6122177 original size:25 final size:24
Alignment explanation
Indices: 6122107--6122252 Score: 112
Period size: 25 Copynumber: 5.9 Consensus size: 24
6122097 TTTACTAGAA
* ** *
6122107 AAAATGAAAATTAAAAACAAAATC
1 AAAATAAAAATTAAAATTAAAATT
*** *
6122131 AAAATCCCAATAAAAATTAAAATT
1 AAAATAAAAATTAAAATTAAAATT
* *
6122155 AAAACTAAAAATTAAAATCAAAATC
1 AAAA-TAAAAATTAAAATTAAAATT
6122180 AAAATCAAAAATTAAAATTAAAATT
1 AAAAT-AAAAATTAAAATTAAAATT
* * *
6122205 CCAATTAAAAATCAAAATTAAAAATT
1 -AAAATAAAAATTAAAATT-AAAATT
***
6122231 AAAATCTCAATTAAAATTAAAA
1 AAAATAAAAATTAAAATTAAAA
6122253 AGTCAAAATC
Statistics
Matches: 94, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
24 26 0.28
25 59 0.63
26 9 0.10
ACGTcount: A:0.66, C:0.10, G:0.01, T:0.24
Consensus pattern (24 bp):
AAAATAAAAATTAAAATTAAAATT
Found at i:6122190 original size:7 final size:6
Alignment explanation
Indices: 6122107--6122268 Score: 72
Period size: 6 Copynumber: 25.8 Consensus size: 6
6122097 TTTACTAGAA
* * * ** * * *
6122107 AAAATG AAAATT AAAAAC AAAATC AAAATC CCAATA AAAATT AAAATT
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
* * * *
6122155 AAAACTA AAAATT AAAATC AAAATC AAAATC AAAAATT AAAATT AAAATTC
1 AAAA-TC AAAATC AAAATC AAAATC AAAATC -AAAATC AAAATC AAAA-TC
* * * * * ** * *
6122206 CAATTA AAAATC AAAATTA AAAATT AAAATC TCAATT AAAATTA AAAAGTC
1 AAAATC AAAATC AAAA-TC AAAATC AAAATC AAAATC AAAA-TC AAAA-TC
6122257 AAAATCC AAAAT
1 AAAAT-C AAAAT
6122269 TTTAGTTTGG
Statistics
Matches: 118, Mismatches: 32, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
6 84 0.71
7 34 0.29
ACGTcount: A:0.65, C:0.10, G:0.01, T:0.23
Consensus pattern (6 bp):
AAAATC
Found at i:6122202 original size:38 final size:37
Alignment explanation
Indices: 6122149--6122269 Score: 127
Period size: 38 Copynumber: 3.2 Consensus size: 37
6122139 AATAAAAATT
* *
6122149 AAAATTAAAACTAAAAATTAAAATCAAAATCAAAATCA
1 AAAATTAAAA-TTAAAATTAAAATAAAAATCAAAATCA
* * *
6122187 AAAATTAAAATTAAAATTCCAATTAAAAATCAAAATTA
1 AAAATTAAAATTAAAATT-AAAATAAAAATCAAAATCA
* *
6122225 AAAATTAAAATCT-CAATTAAAATTAAAAAGTCAAAATCC
1 AAAATTAAAAT-TAAAATTAAAA-TAAAAA-TCAAAATCA
6122264 AAAATT
1 AAAATT
6122270 TTAGTTTGGA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
37 9 0.13
38 46 0.67
39 14 0.20
ACGTcount: A:0.64, C:0.10, G:0.01, T:0.26
Consensus pattern (37 bp):
AAAATTAAAATTAAAATTAAAATAAAAATCAAAATCA
Found at i:6123459 original size:21 final size:21
Alignment explanation
Indices: 6123435--6123497 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
6123425 CAATTCTAAG
* *
6123435 CTGATATTTAATGATTTCAAT
1 CTGATATTTAACGATTTCAAA
*
6123456 CTGATATTTAACGATTTTAAA
1 CTGATATTTAACGATTTCAAA
* * *
6123477 CTGATCTCTAACGATTCCAAA
1 CTGATATTTAACGATTTCAAA
6123498 TCAAATACTC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.40
Consensus pattern (21 bp):
CTGATATTTAACGATTTCAAA
Found at i:6123770 original size:22 final size:22
Alignment explanation
Indices: 6123745--6123790 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
6123735 TTTTTGTCTA
* * *
6123745 TTAAATAATATCTAATCAATTT
1 TTAAAAAATATCAAATAAATTT
6123767 TTAAAAAATATCAAATAAATTT
1 TTAAAAAATATCAAATAAATTT
6123789 TT
1 TT
6123791 TATGAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (22 bp):
TTAAAAAATATCAAATAAATTT
Found at i:6127552 original size:29 final size:29
Alignment explanation
Indices: 6127519--6127574 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
6127509 AAATATATGA
*
6127519 AAATGATAATTAAATCTAAATGGGAGTGT
1 AAATGATAATTAAATCTAAATAGGAGTGT
6127548 AAATGATAATTAAATCTAAATAGGAGT
1 AAATGATAATTAAATCTAAATAGGAGT
6127575 ATTATAGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.48, C:0.04, G:0.18, T:0.30
Consensus pattern (29 bp):
AAATGATAATTAAATCTAAATAGGAGTGT
Found at i:6129982 original size:52 final size:51
Alignment explanation
Indices: 6129896--6130040 Score: 191
Period size: 52 Copynumber: 2.8 Consensus size: 51
6129886 TATAAACATA
* * * *
6129896 CAAACTTGCCCATTAAGAATCTCTCTTCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTACCTATTAAGAATC-CTTTTCTCTTAGAATTCTTCTCCTGCAAGT
* *
6129948 CAAACTTACCTATTAAGAATCCTTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTACCTATTAAGAATCCTTTT-CTCTTAGAATTCTTCTCCTGCAAGT
* *
6130000 CAAACTTACCTATTAAGAATCTTTTTTCTCTTAGACTTCTT
1 CAAACTTACCTATTAAGAATC-CTTTTCTCTTAGAATTCTT
6130041 TTTTTGTAAG
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
51 4 0.05
52 74 0.90
53 4 0.05
ACGTcount: A:0.26, C:0.24, G:0.08, T:0.42
Consensus pattern (51 bp):
CAAACTTACCTATTAAGAATCCTTTTCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:6130383 original size:25 final size:26
Alignment explanation
Indices: 6130344--6130412 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
6130334 TCAAACCAAG
*
6130344 CTCTTCTTACATCTCGAACT-ATCAA
1 CTCTTCTCACATCTCGAACTCATCAA
* ** *
6130369 CTCTTTTCATGTCTCGAA-TCATCAG
1 CTCTTCTCACATCTCGAACTCATCAA
6130394 CTCTTCTCACATCTCGAAC
1 CTCTTCTCACATCTCGAAC
6130413 ATTTGACTCT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
24 1 0.03
25 33 0.97
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.36
Consensus pattern (26 bp):
CTCTTCTCACATCTCGAACTCATCAA
Found at i:6131097 original size:52 final size:50
Alignment explanation
Indices: 6131011--6131166 Score: 186
Period size: 52 Copynumber: 3.0 Consensus size: 50
6131001 TATAACCATA
* * *
6131011 CAAACTTGCTTATTAAGAATCCCTCTCTTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGC-TATTAAGAATCCTTTTCTT-TTAGAATTCTTCTCTTGTAAGT
*
6131063 CAAACTTGTCTATTAAGAATTCTTTTCATTTTAGAATTCTTCTCTTGTAAGT
1 CAAACTTG-CTATTAAGAATCCTTTTC-TTTTAGAATTCTTCTCTTGTAAGT
* * * *
6131115 CAAACTTACCTATTAAGAATCCTCTTTCTCTTAGAATTTTTCTTTTGTAAGT
1 CAAACTT-GCTATTAAGAATCCT-TTTCTTTTAGAATTCTTCTCTTGTAAGT
6131167 TTTTTTATCC
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
52 84 0.92
53 7 0.08
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.45
Consensus pattern (50 bp):
CAAACTTGCTATTAAGAATCCTTTTCTTTTAGAATTCTTCTCTTGTAAGT
Found at i:6131233 original size:11 final size:11
Alignment explanation
Indices: 6131191--6131230 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
6131181 AGTAATATCT
6131191 AATAAATCTCA
1 AATAAATCTCA
*
6131202 AAAAAATCTCA
1 AATAAATCTCA
* *
6131213 AACAAATTTCA
1 AATAAATCTCA
6131224 AATAAAT
1 AATAAAT
6131231 TTCTTATGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.25
Consensus pattern (11 bp):
AATAAATCTCA
Found at i:6131343 original size:2 final size:2
Alignment explanation
Indices: 6131336--6131366 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6131326 AGTGAATTTC
6131336 TA 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 TA T
6131367 CCAACAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6136562 original size:2 final size:2
Alignment explanation
Indices: 6136555--6136586 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
6136545 TCCCTTTTGA
*
6136555 AT AT AT AT AA 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
6136587 CTTGGAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6141996 original size:22 final size:22
Alignment explanation
Indices: 6141970--6142013 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6141960 TGTATATTTA
*
6141970 TATTTGTATCTCTAGAAATAAG
1 TATTTGTATCCCTAGAAATAAG
*
6141992 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAAATAAG
6142014 GACAAAAATT
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:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (22 bp):
TATTTGTATCCCTAGAAATAAG
Found at i:6142312 original size:26 final size:26
Alignment explanation
Indices: 6142249--6142313 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
6142239 AATTTTTCAA
**
6142249 CCTTCATTGCTAACTTCTATTTTAGG
1 CCTTCATTGCCGACTTCTATTTTAGG
6142275 CCTTCATTGCCGACTTCTATTTTAGG
1 CCTTCATTGCCGACTTCTATTTTAGG
6142301 CCTTCATTGCCGA
1 CCTTCATTGCCGA
6142314 ACCCTGTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.17, C:0.28, G:0.14, T:0.42
Consensus pattern (26 bp):
CCTTCATTGCCGACTTCTATTTTAGG
Found at i:6142355 original size:25 final size:25
Alignment explanation
Indices: 6142298--6142357 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
6142288 CTTCTATTTT
* *
6142298 AGGCCTTCATTGCCGAACCCTGTTT
1 AGGCCTTCATCGCCGAACCCTGTTA
** * *
6142323 AGATCTTCATCGTCGAACCTTGTTA
1 AGGCCTTCATCGCCGAACCCTGTTA
6142348 AGGCCTTCAT
1 AGGCCTTCAT
6142358 AGCCATTTTA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.33
Consensus pattern (25 bp):
AGGCCTTCATCGCCGAACCCTGTTA
Found at i:6146073 original size:22 final size:22
Alignment explanation
Indices: 6146036--6146079 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6146026 TGTATATTTA
**
6146036 TATTTGTATCTTTAGAAATAAG
1 TATTTGTATCCCTAGAAATAAG
*
6146058 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAAATAAG
6146080 GACAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAAATAAG
Found at i:6150936 original size:2 final size:2
Alignment explanation
Indices: 6150929--6150971 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
6150919 GACAGTTCCT
6150929 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6150970 TA
1 TA
6150972 AATGAATACT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6163322 original size:121 final size:123
Alignment explanation
Indices: 6163188--6163497 Score: 306
Period size: 125 Copynumber: 2.5 Consensus size: 123
6163178 TTTTTTTTAA
* * * *
6163188 TTTTTTAAGAATGTAATTCTAATTTAAATCATCAGTTTCTATCTTTTATTTGGATAAAAAAATTC
1 TTTTTTAAGAATGTAATTCTAATTTAAATAATCAGCTTCTATCTTTTAGTTGGATAAAAAAAATC
* * * *
6163253 AAAAGTTTGAACT-ATAGTT-TCTTTT-TTTTTTTA-AGTATGATTCAAATTCTTTTTT
66 -AAAGTTCGAACTGAGAATTCTCTTTTATTTTTTTAGAATATGATTCAAATTCTTTTTT
* * * * * * * *
6163308 TTTTTTAAAGAATGTGATTCGAATTTAATTTAGCGGCTTCTAATTTTTTGGTTGGATAAAAAAAA
1 TTTTTT-AAGAATGTAATTCTAATTTAAATAATCAGCTTCT-ATCTTTTAGTTGGATAAAAAAAA
* * * *
6163373 TCTAAGTTCGAATTGAGAATTCTTTTTTATTTTTTTAGAATGTGATTCAAATTCTTTTTTT
64 TCAAAGTTCGAACTGAGAATTCTCTTTTATTTTTTTAGAATATGATTCAAATTC-TTTTTT
** * * *
6163434 TTTTTTAAGAATGCCATT-TGAATTTAAATAATCAACTTCTAACTTCTTAGTTAGATAAAAAAAA
1 TTTTTTAAGAATGTAATTCT-AATTTAAATAATCAGCTTCTATCTT-TTAGTTGGATAAAAAAAA
6163498 AAAAAAAAGA
Statistics
Matches: 150, Mismatches: 31, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
120 6 0.04
121 36 0.24
122 25 0.17
123 5 0.03
124 11 0.07
125 55 0.37
126 12 0.08
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (123 bp):
TTTTTTAAGAATGTAATTCTAATTTAAATAATCAGCTTCTATCTTTTAGTTGGATAAAAAAAATC
AAAGTTCGAACTGAGAATTCTCTTTTATTTTTTTAGAATATGATTCAAATTCTTTTTT
Found at i:6164920 original size:19 final size:19
Alignment explanation
Indices: 6164898--6164938 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
6164888 TTTTTTTTTC
*
6164898 TTTTGATTTTATTTGTATT
1 TTTTGATGTTATTTGTATT
* *
6164917 TTTTTATGTTATTTTTATT
1 TTTTGATGTTATTTGTATT
6164936 TTT
1 TTT
6164939 GTTGTTGTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (19 bp):
TTTTGATGTTATTTGTATT
Found at i:6164964 original size:3 final size:3
Alignment explanation
Indices: 6164946--6165016 Score: 106
Period size: 3 Copynumber: 23.7 Consensus size: 3
6164936 TTTGTTGTTG
* * * *
6164946 TTA TTG TTA TTG TTA TTA TTA TTA TTA TGA TTA TGA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6164994 TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
6165017 CATTTTTTAG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:6165584 original size:15 final size:15
Alignment explanation
Indices: 6165561--6165605 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
6165551 TATTCATTTC
*
6165561 AAAAGTAAAATAATA
1 AAAAATAAAATAATA
*
6165576 AAAAATAAAATAATC
1 AAAAATAAAATAATA
*
6165591 ACAAA-AAAATAATA
1 AAAAATAAAATAATA
6165605 A
1 A
6165606 TTAATTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (15 bp):
AAAAATAAAATAATA
Found at i:6175463 original size:13 final size:13
Alignment explanation
Indices: 6175445--6175470 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6175435 TTAGTTAAAG
6175445 AAAAATCAAAATA
1 AAAAATCAAAATA
6175458 AAAAATCAAAATA
1 AAAAATCAAAATA
6175471 GAAAGGAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATCAAAATA
Found at i:6175649 original size:5 final size:5
Alignment explanation
Indices: 6175641--6175713 Score: 55
Period size: 5 Copynumber: 14.4 Consensus size: 5
6175631 AAAATAGAAT
*
6175641 AATAA AATAA AA-AA AATGAA AGTGAA AAT-A AATAA AA-ATA AA-AA
1 AATAA AATAA AATAA AAT-AA AAT-AA AATAA AATAA AATA-A AATAA
*
6175685 AACAA AATAAA AATAA AATAA AGATAA AA
1 AATAA AAT-AA AATAA AATAA A-ATAA AA
6175714 AGAATGTTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
4 12 0.21
5 27 0.47
6 19 0.33
ACGTcount: A:0.78, C:0.01, G:0.05, T:0.15
Consensus pattern (5 bp):
AATAA
Found at i:6175675 original size:30 final size:30
Alignment explanation
Indices: 6175641--6175728 Score: 83
Period size: 30 Copynumber: 2.8 Consensus size: 30
6175631 AAAATAGAAT
*
6175641 AATAAAATAAAAAAAATGAAAGTGAAAAT-A
1 AATAAAATAAAAAAAATGAAA-TAAAAATAA
6175671 AATAAAAATAAAAAAACA--AAATAAAAATAA
1 AAT-AAAATAAAAAAA-ATGAAATAAAAATAA
*
6175701 AATAAAGATAAAAAGAATGTTAAATAAA
1 AATAAA-ATAAAAAAAATG--AAATAAA
6175729 CCTAATCTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
29 10 0.21
30 18 0.38
31 12 0.25
32 1 0.02
33 7 0.15
ACGTcount: A:0.75, C:0.01, G:0.07, T:0.17
Consensus pattern (30 bp):
AATAAAATAAAAAAAATGAAATAAAAATAA
Found at i:6175679 original size:6 final size:6
Alignment explanation
Indices: 6175670--6175714 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
6175660 AAGTGAAAAT
* *
6175670 AAATAA AAATAA AAAAACA AAATAA AAAT-A AAATAA AGATAA AAA
1 AAATAA AAATAA AAATA-A AAATAA AAATAA AAATAA AAATAA AAA
6175715 GAATGTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 5 0.15
6 23 0.70
7 5 0.15
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.13
Consensus pattern (6 bp):
AAATAA
Found at i:6175766 original size:26 final size:26
Alignment explanation
Indices: 6175737--6175793 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
6175727 AACCTAATCT
*
6175737 AATAAATAAATAAAAT-AAAAAAAACA
1 AATAAACAAAT-AAATGAAAAAAAACA
6175763 AATAAACAAATAAATGAAAAAAAA-A
1 AATAAACAAATAAATGAAAAAAAACA
6175788 AA-AAAC
1 AATAAAC
6175794 CTGGAGCGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 4 0.14
25 7 0.24
26 18 0.62
ACGTcount: A:0.81, C:0.05, G:0.02, T:0.12
Consensus pattern (26 bp):
AATAAACAAATAAATGAAAAAAAACA
Found at i:6176633 original size:21 final size:22
Alignment explanation
Indices: 6176609--6176653 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
6176599 AAAACTAGAT
6176609 AATTA-GAAAAGATAAATAAAA
1 AATTATGAAAAGATAAATAAAA
* * *
6176630 AATTATTATAGGATAAATAAAA
1 AATTATGAAAAGATAAATAAAA
6176652 AA
1 AA
6176654 AATAATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (22 bp):
AATTATGAAAAGATAAATAAAA
Found at i:6176662 original size:23 final size:23
Alignment explanation
Indices: 6176617--6176672 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
6176607 ATAATTAGAA
* *
6176617 AAGATAAAT-AAAAAATTATTAT
1 AAGATAAATAAAAAAAATAATAT
*
6176639 AGGATAAATAAAAAAAATAATAT
1 AAGATAAATAAAAAAAATAATAT
*
6176662 AAGATATATAA
1 AAGATAAATAA
6176673 TTAGATAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 8 0.29
23 20 0.71
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (23 bp):
AAGATAAATAAAAAAAATAATAT
Found at i:6176690 original size:22 final size:22
Alignment explanation
Indices: 6176646--6176733 Score: 78
Period size: 22 Copynumber: 4.1 Consensus size: 22
6176636 TATAGGATAA
*
6176646 ATAAAAA-AAAT-AATATAAGAT
1 ATAAAAATAAATAAATA-AAAAT
* * *
6176667 ATATAATTAGATAAATAAAAAT
1 ATAAAAATAAATAAATAAAAAT
6176689 ATAAAAATAAATAAAT-AAAAT
1 ATAAAAATAAATAAATAAAAAT
*
6176710 A-AAAGATAAA-AAATAAAATAT
1 ATAAAAATAAATAAATAAAA-AT
6176731 ATA
1 ATA
6176734 TATATTAGTA
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
19 4 0.07
20 11 0.20
21 14 0.26
22 21 0.39
23 4 0.07
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (22 bp):
ATAAAAATAAATAAATAAAAAT
Found at i:6176698 original size:14 final size:15
Alignment explanation
Indices: 6176679--6176733 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 15
6176669 ATAATTAGAT
6176679 AAATAAAA-ATATAA
1 AAATAAAAGATATAA
6176693 AAATAAATA-A-AT-A
1 AAATAAA-AGATATAA
6176706 AAATAAAAGATA-AA
1 AAATAAAAGATATAA
*
6176720 AAATAAAATATATA
1 AAATAAAAGATATA
6176734 TATATTAGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 1 0.03
13 9 0.26
14 22 0.63
15 3 0.09
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (15 bp):
AAATAAAAGATATAA
Found at i:6176713 original size:19 final size:20
Alignment explanation
Indices: 6176675--6176729 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
6176665 ATATATAATT
*
6176675 AGATAAATAAA-AATATAAA
1 AGATAAATAAATAAAATAAA
6176694 A-ATAAATAAATAAAATAAA
1 AGATAAATAAATAAAATAAA
6176713 AGATAAA-AAATAAAATA
1 AGATAAATAAATAAAATA
6176730 TATATATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 9 0.27
19 19 0.58
20 5 0.15
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (20 bp):
AGATAAATAAATAAAATAAA
Found at i:6176720 original size:7 final size:7
Alignment explanation
Indices: 6176679--6176727 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
6176669 ATAATTAGAT
6176679 AAAT-AA
1 AAATAAA
6176685 AAATATAA
1 AAATA-AA
6176693 AAATAAA
1 AAATAAA
6176700 TAAAT--A
1 -AAATAAA
6176706 AAATAAA
1 AAATAAA
*
6176713 AGATAAA
1 AAATAAA
6176720 AAATAAA
1 AAATAAA
6176727 A
1 A
6176728 TATATATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
5 4 0.11
6 5 0.14
7 16 0.44
8 11 0.31
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (7 bp):
AAATAAA
Found at i:6176795 original size:12 final size:12
Alignment explanation
Indices: 6176778--6176814 Score: 65
Period size: 12 Copynumber: 3.0 Consensus size: 12
6176768 TAGGATATAC
6176778 ATAAAATAAAAA
1 ATAAAATAAAAA
6176790 ATAAAATAAAAA
1 ATAAAATAAAAA
6176802 ATAAAAATAAAAA
1 AT-AAAATAAAAA
6176815 TGACAAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
ATAAAATAAAAA
Found at i:6176981 original size:1 final size:1
Alignment explanation
Indices: 6176975--6177054 Score: 61
Period size: 1 Copynumber: 80.0 Consensus size: 1
6176965 CGACATTGTC
* * * * * * * * * *
6176975 TTTTTTTTTTGTTTTTTTTTTCTTGTGTTGTTTTTTTTGTGTTTTTTTTTGTGTTTTTTTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
6177040 TGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTT
6177055 ACCAAAGCTC
Statistics
Matches: 57, Mismatches: 22, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.00, C:0.01, G:0.12, T:0.86
Consensus pattern (1 bp):
T
Found at i:6176994 original size:14 final size:14
Alignment explanation
Indices: 6176975--6177054 Score: 106
Period size: 14 Copynumber: 5.7 Consensus size: 14
6176965 CGACATTGTC
6176975 TTTTTTTTTTGTTT
1 TTTTTTTTTTGTTT
* *
6176989 TTTTTTTCTTGTGT
1 TTTTTTTTTTGTTT
* *
6177003 TGTTTTTTTTGTGT
1 TTTTTTTTTTGTTT
*
6177017 TTTTTTTTGTGTTT
1 TTTTTTTTTTGTTT
*
6177031 TTTTTTTGTTGTTT
1 TTTTTTTTTTGTTT
6177045 TTTTTTTTTT
1 TTTTTTTTTT
6177055 ACCAAAGCTC
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 56 1.00
ACGTcount: A:0.00, C:0.01, G:0.12, T:0.86
Consensus pattern (14 bp):
TTTTTTTTTTGTTT
Found at i:6177019 original size:28 final size:26
Alignment explanation
Indices: 6176970--6177051 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
6176960 CAACTCGACA
* *
6176970 TTGTCTTTTTTTTTTGTTTTTTTTTT
1 TTGTGTTTTTTTTTTGTGTTTTTTTT
6176996 CTTGTGTTGTTTTTTTTGTG-TTTTTTT
1 -TTGTGTT-TTTTTTTTGTGTTTTTTTT
6177023 TTGTGTTTTTTTTTTGTTGTTTTTTTT
1 TTGTGTTTTTTTTTTG-TGTTTTTTTT
6177050 TT
1 TT
6177052 TTTACCAAAG
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
25 9 0.18
26 9 0.18
27 22 0.44
28 10 0.20
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.84
Consensus pattern (26 bp):
TTGTGTTTTTTTTTTGTGTTTTTTTT
Found at i:6177034 original size:42 final size:41
Alignment explanation
Indices: 6176970--6177054 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 41
6176960 CAACTCGACA
6176970 TTGTCTTTTTTTTTTGTTTTTTTTTTCTTGTGTTGTTTTTT
1 TTGTCTTTTTTTTTTGTTTTTTTTTTCTTGTGTTGTTTTTT
* * * *
6177011 TTGTGTTTTTTTTTGTGTTTTTTTTTTGTTGTTTTTTTTTTT
1 TTGTCTTTTTTTTT-TGTTTTTTTTTTCTTGTGTTGTTTTTT
6177053 TT
1 TT
6177055 ACCAAAGCTC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 13 0.33
42 26 0.67
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (41 bp):
TTGTCTTTTTTTTTTGTTTTTTTTTTCTTGTGTTGTTTTTT
Found at i:6177196 original size:42 final size:40
Alignment explanation
Indices: 6177061--6177474 Score: 530
Period size: 42 Copynumber: 10.0 Consensus size: 40
6177051 TTTTACCAAA
** * *
6177061 GCTCCTCTACGCAGAGGCTCAACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCAC-ACGACTTTGAAAAGTAAATT
*
6177102 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA-CACGACTTTGAAAAGTAAATT
*
6177143 GCTCCTCTAAACAGAGGCA-ACGGAACTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACAC-G-ACTTTG-AAAAGTAAATT
6177185 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCA-CACGACTTTGAAAAGTAAATT
6177225 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA-CACGACTTTG-AAAAGTAAATT
6177267 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA-CACGAC-TTTGAAAAGTAAATT
* *
6177309 GCTCCTCTAAACAGAGGTA-ACGAACTTGGAAAGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACACG-ACTTTG--A-AAAGTAAATT
*
6177352 GCTCTTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA-CACGACTTT-GAAAAGTAAATT
6177394 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA-CACGAC-TTTGAAAAGTAAATT
* *
6177436 GCTCCTCTAAACAGAGGCA-ACGAACTTGGAAAGGTAAAT
1 GCTCCTCTAAACAGAGGCACACG-ACTTTGAAAAGTAAAT
6177475 ACTCCTAGAC
Statistics
Matches: 339, Mismatches: 16, Indels: 37
0.86 0.04 0.09
Matches are distributed among these distances:
39 2 0.01
40 61 0.18
41 63 0.19
42 167 0.49
43 36 0.11
44 6 0.02
45 4 0.01
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (40 bp):
GCTCCTCTAAACAGAGGCACACGACTTTGAAAAGTAAATT
Found at i:6177218 original size:82 final size:83
Alignment explanation
Indices: 6177061--6177474 Score: 578
Period size: 82 Copynumber: 5.0 Consensus size: 83
6177051 TTTTACCAAA
** *
6177061 GCTCCTCTACGCAGAGGCTCAACGACTTTG-AAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCAC-ACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
6177125 GACTTTGG-AAAGTAAATT
65 GACTTTGGAAAAGTAAATT
6177143 GCTCCTCTAAACAGAGGCA-ACGGAACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCACAC-G-ACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACCA
6177207 CGACTTT-G-AAAGTAAATT
64 CGACTTTGGAAAAGTAAATT
*
6177225 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCA-CACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
*
6177290 GACTTTTGAAAAGTAAATT
65 GACTTTGGAAAAGTAAATT
* * *
6177309 GCTCCTCTAAACAGAGGTA-ACGAACTTGGAAAGAAAGTAAATTGCTCTTCTAAACAGAGGCACC
1 GCTCCTCTAAACAGAGGCACACG-ACTTTGAAA-AAA-TAAATTGCTCCTCTAAACAGAGGCACC
6177373 ACGACTTTGGAAAAGTAAATT
63 ACGACTTTGGAAAAGTAAATT
*
6177394 GCTCCTCTAAACAGAGGCACCACGACTTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCA--A
1 GCTCCTCTAAACAGAGGCA-CACGAC-TTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACCA
*
6177456 CGAAC-TTGGAAAGGTAAAT
64 CG-ACTTTGGAAAAGTAAAT
6177475 ACTCCTAGAC
Statistics
Matches: 304, Mismatches: 14, Indels: 28
0.88 0.04 0.08
Matches are distributed among these distances:
80 2 0.01
81 1 0.00
82 117 0.38
83 52 0.17
84 56 0.18
85 66 0.22
86 4 0.01
87 6 0.02
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCACACGACTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
ACTTTGGAAAAGTAAATT
Found at i:6177399 original size:127 final size:127
Alignment explanation
Indices: 6177096--6177468 Score: 593
Period size: 127 Copynumber: 3.0 Consensus size: 127
6177086 CTTTGAAAAA
6177096 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG
* *
6177160 CA--ACGGAAC-TTTGAAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG-ACTT----TGAA
66 CACCAC-G-ACTTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGAACTTGGAAAGAA
6177217 AG
126 AG
*
6177219 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG
*
6177284 CACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTAACGAACTTGGAAAGAAAG
66 CACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAGAAAG
*
6177346 TAAATTGCTCTTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG
1 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG
6177411 CACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAG
66 CACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAG
6177469 GTAAATACTC
Statistics
Matches: 234, Mismatches: 7, Indels: 14
0.92 0.03 0.05
Matches are distributed among these distances:
122 3 0.01
123 40 0.17
124 59 0.25
125 5 0.02
126 2 0.01
127 125 0.53
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (127 bp):
TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG
CACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAGAAAG
Found at i:6178741 original size:11 final size:10
Alignment explanation
Indices: 6178726--6178751 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6178716 CATTTTTCCC
6178726 CTTTTTTTTT
1 CTTTTTTTTT
6178736 CTTTTTTTTT
1 CTTTTTTTTT
6178746 CTTTTT
1 CTTTTT
6178752 CTATTTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:6178752 original size:16 final size:16
Alignment explanation
Indices: 6178727--6178759 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6178717 ATTTTTCCCC
6178727 TTTTTTTTTCT-TTTT
1 TTTTTTTTTCTATTTT
6178742 TTTTCTTTTTCTATTTT
1 TTTT-TTTTTCTATTTT
6178759 T
1 T
6178760 CATCCATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 7 0.44
17 5 0.31
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (16 bp):
TTTTTTTTTCTATTTT
Found at i:6182553 original size:13 final size:13
Alignment explanation
Indices: 6182535--6182560 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6182525 TTAGTTAAAG
6182535 AAAAATCAAAATA
1 AAAAATCAAAATA
6182548 AAAAATCAAAATA
1 AAAAATCAAAATA
6182561 GAAAGGAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATCAAAATA
Found at i:6182661 original size:58 final size:59
Alignment explanation
Indices: 6182596--6182770 Score: 232
Period size: 58 Copynumber: 2.9 Consensus size: 59
6182586 TTTTGTGTAG
6182596 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTCGATTTTC-AA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT-GATTTTCTAA
* * *
6182655 -AAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTGAAAATTT-A-TTTCTAA
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAA---TATTTTTTGGAAATTTGATTTTCTAA
*
6182714 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTT
1 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAA-TTTGATTTT
6182771 TATTTAAAGA
Statistics
Matches: 100, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
57 1 0.01
58 45 0.45
59 6 0.06
60 31 0.31
61 17 0.17
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (59 bp):
GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTGATTTTCTAA
Found at i:6182798 original size:5 final size:5
Alignment explanation
Indices: 6182790--6182862 Score: 64
Period size: 5 Copynumber: 14.4 Consensus size: 5
6182780 AAAATAGAAT
*
6182790 AATAA AATAA AA-AA AATGAA AGTGAA AAT-A AATAA AA-ATA AA-AA
1 AATAA AATAA AATAA AAT-AA AAT-AA AATAA AATAA AATA-A AATAA
6182834 AATAA AATAAA AATAA AATAA AGATAA AA
1 AATAA AAT-AA AATAA AATAA A-ATAA AA
6182863 AGAATGTTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
4 12 0.20
5 28 0.47
6 19 0.32
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (5 bp):
AATAA
Found at i:6182824 original size:30 final size:31
Alignment explanation
Indices: 6182790--6182877 Score: 92
Period size: 30 Copynumber: 2.8 Consensus size: 31
6182780 AAAATAGAAT
* *
6182790 AATAAAATAAAAAAAATGAAAGTGAAAAT-A
1 AATAAAATAAAAAAAATGAAAATAAAAATAA
6182820 AATAAAA-ATAAAAAAAT-AAAATAAAAATAA
1 AATAAAATA-AAAAAAATGAAAATAAAAATAA
* *
6182850 AATAAAGATAAAAAGAATGTTAAATAAA
1 AATAAA-ATAAAAAAAATG-AAAATAAA
6182878 CCTAATCTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
29 10 0.21
30 22 0.46
31 8 0.17
32 1 0.02
33 7 0.15
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (31 bp):
AATAAAATAAAAAAAATGAAAATAAAAATAA
Found at i:6182828 original size:6 final size:6
Alignment explanation
Indices: 6182819--6182863 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
6182809 AAGTGAAAAT
* *
6182819 AAATAA AAATAA AAAAATA AAATAA AAAT-A AAATAA AGATAA AAA
1 AAATAA AAATAA AAATA-A AAATAA AAATAA AAATAA AAATAA AAA
6182864 GAATGTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 5 0.15
6 23 0.70
7 5 0.15
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:6182843 original size:19 final size:18
Alignment explanation
Indices: 6182787--6182851 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 18
6182777 AAGAAAATAG
*
6182787 AATAATAAAATAAA-AAA
1 AATAAAAAAATAAATAAA
6182804 AATGAAAGTGAAAATAAATAAA
1 AAT-AAA---AAAATAAATAAA
6182826 AATAAAAAAATAAAATAAA
1 AATAAAAAAAT-AAATAAA
6182845 AATAAAA
1 AATAAAA
6182852 TAAAGATAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
17 3 0.07
18 7 0.17
19 14 0.34
21 11 0.27
22 6 0.15
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (18 bp):
AATAAAAAAATAAATAAA
Found at i:6182915 original size:26 final size:27
Alignment explanation
Indices: 6182886--6182936 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
6182876 AACCTAATCT
*
6182886 AATAAATAAAAAAAT-AAAAAAAAACA
1 AATAAACAAAAAAATGAAAAAAAAACA
*
6182912 AATAAACAAATAAATGAAAAAAAAA
1 AATAAACAAAAAAATGAAAAAAAAA
6182937 AAACCTGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.12
Consensus pattern (27 bp):
AATAAACAAAAAAATGAAAAAAAAACA
Found at i:6182931 original size:22 final size:22
Alignment explanation
Indices: 6182889--6182937 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
6182879 CTAATCTAAT
* *
6182889 AAATAAAAAAATAAAAAAAAAC
1 AAATAAACAAATAAAAAAAAAA
6182911 AAATAAACAAATAAATGAAAAAAA
1 AAATAAACAAATAAA--AAAAAAA
6182935 AAA
1 AAA
6182938 AACCTGGAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 14 0.61
24 9 0.39
ACGTcount: A:0.84, C:0.04, G:0.02, T:0.10
Consensus pattern (22 bp):
AAATAAACAAATAAAAAAAAAA
Found at i:6183297 original size:19 final size:20
Alignment explanation
Indices: 6183264--6183302 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
6183254 GGTGCCAGAT
6183264 TCTGGAAAATATCACCGGAA
1 TCTGGAAAATATCACCGGAA
*
6183284 TCTGG-AAATTTCACCGGAA
1 TCTGGAAAATATCACCGGAA
6183303 GTTGGCCGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (20 bp):
TCTGGAAAATATCACCGGAA
Found at i:6183791 original size:21 final size:22
Alignment explanation
Indices: 6183767--6183811 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
6183757 AAAACTAGAT
6183767 AATTA-GAAAAGATAAATAAAA
1 AATTATGAAAAGATAAATAAAA
* * *
6183788 AATTATTATAGGATAAATAAAA
1 AATTATGAAAAGATAAATAAAA
6183810 AA
1 AA
6183812 AAAATAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (22 bp):
AATTATGAAAAGATAAATAAAA
Found at i:6183850 original size:22 final size:22
Alignment explanation
Indices: 6183837--6183893 Score: 84
Period size: 21 Copynumber: 2.7 Consensus size: 22
6183827 ATATAATTAG
6183837 ATAAATAAAAATATAAAAATAA
1 ATAAATAAAAATATAAAAATAA
6183859 ATAAAT-AAAATA-AAAAATAA
1 ATAAATAAAAATATAAAAATAA
6183879 A-AAATAAAAAATATA
1 ATAAAT-AAAAATATA
6183894 TATATATTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.12
20 9 0.28
21 12 0.38
22 7 0.22
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (22 bp):
ATAAATAAAAATATAAAAATAA
Found at i:6183877 original size:7 final size:7
Alignment explanation
Indices: 6183839--6183891 Score: 67
Period size: 7 Copynumber: 7.7 Consensus size: 7
6183829 ATAATTAGAT
6183839 AAAT-AA
1 AAATAAA
6183845 AAATATAA
1 AAATA-AA
6183853 AAATAAA
1 AAATAAA
6183860 TAAAT--A
1 -AAATAAA
6183866 AAATAAA
1 AAATAAA
6183873 AAATAAA
1 AAATAAA
6183880 AAATAAA
1 AAATAAA
6183887 AAATA
1 AAATA
6183892 TATATATATT
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
5 4 0.10
6 5 0.12
7 22 0.52
8 11 0.26
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (7 bp):
AAATAAA
Found at i:6183881 original size:27 final size:26
Alignment explanation
Indices: 6183839--6183891 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
6183829 ATAATTAGAT
6183839 AAATAAAAATATAAAAATAAATAAATA
1 AAATAAAAATATAAAAATAAA-AAATA
6183866 AAATAAAAA-ATAAAAAATAAAAAATA
1 AAATAAAAATAT-AAAAATAAAAAATA
6183892 TATATATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (26 bp):
AAATAAAAATATAAAAATAAAAAATA
Found at i:6183957 original size:12 final size:12
Alignment explanation
Indices: 6183940--6183975 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
6183930 TAGGATATAC
6183940 ATAAAATATAAA
1 ATAAAATATAAA
*
6183952 ATAAAATAAAAA
1 ATAAAATATAAA
6183964 ATAAAA-ATAAA
1 ATAAAATATAAA
6183975 A
1 A
6183976 ATGACAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
ATAAAATATAAA
Found at i:6195234 original size:85 final size:84
Alignment explanation
Indices: 6195070--6195236 Score: 217
Period size: 85 Copynumber: 2.0 Consensus size: 84
6195060 TCTCAAACTT
* *
6195070 TTAAATTTAAAGTTTCATTGCCTCTGGTCAAAAGAGCCTTTTAACATTTAAAGTTTCATAACCTC
1 TTAAATTTAAAGTTTCATAGCCTCTGGTCAAAAGAACCTTTTAACATTTAAAGTTTCATAACCTC
** *
6195135 TGGTTAGAAAAGCTTTTTC
66 TCATCAGAAAAGCTTTTTC
* * * *
6195154 TTAAATTTTAAAGTTTCATAGCCTCTGGTTAGAAGAACTTTTTAACATTTAAAGTTTCATAGCCT
1 TTAAA-TTTAAAGTTTCATAGCCTCTGGTCAAAAGAACCTTTTAACATTTAAAGTTTCATAACCT
* **
6195219 TTCATCAGAGGAGCTTTT
65 CTCATCAGAAAAGCTTTT
6195237 AAATTTTCAA
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
84 5 0.07
85 65 0.93
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.40
Consensus pattern (84 bp):
TTAAATTTAAAGTTTCATAGCCTCTGGTCAAAAGAACCTTTTAACATTTAAAGTTTCATAACCTC
TCATCAGAAAAGCTTTTTC
Found at i:6195236 original size:41 final size:40
Alignment explanation
Indices: 6195068--6195242 Score: 181
Period size: 41 Copynumber: 4.2 Consensus size: 40
6195058 TCTCTCAAAC
* * *
6195068 TTTTAAATTTAAAGTTTCATTGCCTCTGGTCAAAAGAGCC
1 TTTTAAATTTAAAGTTTCATAGCCTCTGGTCAGAAGAGCT
* * *
6195108 TTTTAACATTTAAAGTTTCATAACCTCTGGTTAGAAAAGCTTT
1 TTTTAA-ATTTAAAGTTTCATAGCCTCTGGTCAGAAGAGC--T
* *
6195151 TTCTTAAATTTTAAAGTTTCATAGCCTCTGGTTAGAAGAACT
1 TT-TTAAA-TTTAAAGTTTCATAGCCTCTGGTCAGAAGAGCT
* ** *
6195193 TTTTAACATTTAAAGTTTCATAGCCTTTCATCAGAGGAGC-
1 TTTTAA-ATTTAAAGTTTCATAGCCTCTGGTCAGAAGAGCT
6195233 TTTTAAATTT
1 TTTTAAATTT
6195243 TCAAAAGTTG
Statistics
Matches: 114, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
39 4 0.04
40 12 0.11
41 58 0.51
42 4 0.04
43 3 0.03
44 33 0.29
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (40 bp):
TTTTAAATTTAAAGTTTCATAGCCTCTGGTCAGAAGAGCT
Found at i:6195260 original size:42 final size:42
Alignment explanation
Indices: 6195214--6195296 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
6195204 AAAGTTTCAT
*
6195214 AGCCTTT-CATCAGAGGAGCTTTTAAATTTTCAAAAGTTGTTG
1 AGCCTTTAC-TCAGAAGAGCTTTTAAATTTTCAAAAGTTGTTG
* * *
6195256 AGCCTTTACTTAGAAGAGTTTTTAAATTTTTAAAAGTTGTT
1 AGCCTTTACTCAGAAGAGCTTTTAAATTTTCAAAAGTTGTT
6195297 AAACCTCTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 35 0.97
43 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (42 bp):
AGCCTTTACTCAGAAGAGCTTTTAAATTTTCAAAAGTTGTTG
Found at i:6195515 original size:16 final size:16
Alignment explanation
Indices: 6195488--6195526 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
6195478 AAATATATAT
6195488 AATAATAAAATAAACAA
1 AATAA-AAAATAAACAA
*
6195505 AATAAAAAATAAAGAA
1 AATAAAAAATAAACAA
6195521 AA-AAAA
1 AATAAAA
6195527 GTCAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.19
16 12 0.57
17 5 0.24
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (16 bp):
AATAAAAAATAAACAA
Found at i:6204148 original size:2 final size:2
Alignment explanation
Indices: 6204141--6204173 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6204131 AGCCTAAAAG
6204141 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6204174 CACAGCTGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6213266 original size:114 final size:112
Alignment explanation
Indices: 6213135--6213370 Score: 323
Period size: 114 Copynumber: 2.1 Consensus size: 112
6213125 TTTTTTCTTA
* * *
6213135 AAAAAATAATTTTAAATTTTTGAGAAAAAAGTTGAAATA-TAATTTTT-TTTAAAAATCGAAAAC
1 AAAAAATAATTTCAAATTTTTGAGAAAAAAGTTGAAACATTAATTTTTCCTT-AAAAT-GAAAAC
*
6213198 CATTTCAAAGATTTGAGAAAAAAAGTTAAAATATCAAAATTTCCTTAAAAC
64 AATTTCAAA-ATTTGAG-AAAAAAGTTAAAATATCAAAATTTCCTTAAAAC
* *
6213249 AAAAAATAATTTCAAATTTTTGAGAAAAAAGTTGAAACATTAATTTTTCCTTAGAATGAAAATAA
1 AAAAAATAATTTCAAATTTTTGAGAAAAAAGTTGAAACATTAATTTTTCCTTAAAATGAAAACAA
* * ** *
6213314 TTTCACAATTTGAGAAAAAAGTTGAAATATCAATTTTTCCTTAAGAC
66 TTTCAAAATTTGAGAAAAAAGTTAAAATATCAAAATTTCCTTAAAAC
6213361 AAAAAATAAT
1 AAAAAATAAT
6213371 GCCAAAAATA
Statistics
Matches: 109, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
112 39 0.36
113 7 0.06
114 49 0.45
115 12 0.11
116 2 0.02
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.33
Consensus pattern (112 bp):
AAAAAATAATTTCAAATTTTTGAGAAAAAAGTTGAAACATTAATTTTTCCTTAAAATGAAAACAA
TTTCAAAATTTGAGAAAAAAGTTAAAATATCAAAATTTCCTTAAAAC
Found at i:6213367 original size:56 final size:54
Alignment explanation
Indices: 6213113--6213370 Score: 247
Period size: 57 Copynumber: 4.6 Consensus size: 54
6213103 TAAGAAAATT
* *
6213113 TTGAAATATCAATTTTTTCTT--AAAAAAATAATTTTAAATTTTTGAGAAAAAAG
1 TTGAAATATCAATTTTTCCTTAAAAAAAAATAATTTCAAA-TTTTGAGAAAAAAG
* ** *
6213166 TTGAAATAT-AATTTTT-TTTAAAAATCGAAAACCATTTCAAAGATTTGAGAAAAAAAG
1 TTGAAATATCAATTTTTCCTTAAAAA---AAAATAATTTCAAA-TTTTGAG-AAAAAAG
* **
6213223 TTAAAATATCAAAATTTCCTTAAAACAAAAAATAATTTCAAATTTTTGAGAAAAAAG
1 TTGAAATATCAATTTTTCCTT-AAA-AAAAAATAATTTCAAA-TTTTGAGAAAAAAG
* * **
6213280 TTGAAACATTAATTTTTCCTTAGAATGAAAATAATTTCACAA-TTTGAGAAAAAAG
1 TTGAAATATCAATTTTTCCTTA-AAAAAAAATAATTTCA-AATTTTGAGAAAAAAG
6213335 TTGAAATATCAATTTTTCCTTAAGACAAAAAATAAT
1 TTGAAATATCAATTTTTCCTTAA-A-AAAAAATAAT
6213371 GCCAAAAATA
Statistics
Matches: 166, Mismatches: 25, Indels: 25
0.77 0.12 0.12
Matches are distributed among these distances:
51 2 0.01
52 7 0.04
53 12 0.07
54 1 0.01
55 34 0.20
56 38 0.23
57 42 0.25
58 23 0.14
59 2 0.01
60 3 0.02
61 2 0.01
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (54 bp):
TTGAAATATCAATTTTTCCTTAAAAAAAAATAATTTCAAATTTTGAGAAAAAAG
Found at i:6213387 original size:92 final size:90
Alignment explanation
Indices: 6213291--6213460 Score: 218
Period size: 92 Copynumber: 1.9 Consensus size: 90
6213281 TGAAACATTA
* ** *
6213291 ATTTTTCCTTAGAA-TGAAAATAATTTCACAAT-TTGAGAAAAAAGTTGAAATATCAATTTTTCC
1 ATTTTTCCTTA-AAGCGAAAATAATTTCA-AATATCAAGAAAAAAGTTAAAATATCAATTTTT-C
*
6213354 TTAAGACAAAAAATAATGCCAAAAATATC
63 TTAAAAC-AAAAATAATGCCAAAAATATC
* * *
6213383 ATTTTTCCTTAAAGCGAAAATAATTTTAAATATCAAGGAAATAGTTAAAATATCAATTTTTCTTA
1 ATTTTTCCTTAAAGCGAAAATAATTTCAAATATCAAGAAAAAAGTTAAAATATCAATTTTTCTTA
6213448 AAACAAAAATAAT
66 AAACAAAAATAAT
6213461 TTTAAAATTT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
90 9 0.13
91 12 0.18
92 47 0.69
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.34
Consensus pattern (90 bp):
ATTTTTCCTTAAAGCGAAAATAATTTCAAATATCAAGAAAAAAGTTAAAATATCAATTTTTCTTA
AAACAAAAATAATGCCAAAAATATC
Found at i:6213489 original size:55 final size:55
Alignment explanation
Indices: 6213375--6213530 Score: 181
Period size: 56 Copynumber: 2.8 Consensus size: 55
6213365 AATAATGCCA
* * * ** * *
6213375 AAAATATC-ATTTTTCCTTAAAGCGAAAATAATTTT-AAATATCAAGGAAATAGTT
1 AAAATATCAATTTTT-CTTAAAACAAAAATAATTTTAAAATTTTGAGGAAAAAATT
6213429 AAAATATCAATTTTTCTTAAAACAAAAATAATTTTAAAATTTTGAGGAAAAAATT
1 AAAATATCAATTTTTCTTAAAACAAAAATAATTTTAAAATTTTGAGGAAAAAATT
* * * *
6213484 GAAATATCAATTTTTTCTTAAAACAAGAATAATTTCACAATTTTGAG
1 AAAATATCAA-TTTTTCTTAAAACAAAAATAATTTTAAAATTTTGAG
6213531 AAAGAACATA
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
54 26 0.30
55 29 0.33
56 33 0.38
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (55 bp):
AAAATATCAATTTTTCTTAAAACAAAAATAATTTTAAAATTTTGAGGAAAAAATT
Found at i:6222194 original size:20 final size:20
Alignment explanation
Indices: 6222161--6222200 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6222151 TTTTTGGTTG
*
6222161 AATTTTTTGATAAAATTCAA
1 AATTTTTGGATAAAATTCAA
* *
6222181 AATTTTTGGCTAAATTTCAA
1 AATTTTTGGATAAAATTCAA
6222201 TGACATCCCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (20 bp):
AATTTTTGGATAAAATTCAA
Found at i:6223150 original size:28 final size:28
Alignment explanation
Indices: 6223063--6223156 Score: 68
Period size: 28 Copynumber: 3.4 Consensus size: 28
6223053 AAAAATAATT
6223063 TCAAATTTTTGAAGAAAAAA-TTGAAATA
1 TCAAATTTTTG-AGAAAAAAGTTGAAATA
**** * * *
6223091 TC-AATTTTTCCTTAAAATG-AGAATAATT
1 TCAAATTTTTGAGAAAAAAGTTG-A-AATA
6223119 TCAAATTTTTGAGAAAAAAGTTGAAATA
1 TCAAATTTTTGAGAAAAAAGTTGAAATA
*
6223147 TCAATTTTTT
1 TCAAATTTTT
6223157 CTTAAAATTA
Statistics
Matches: 46, Mismatches: 15, Indels: 10
0.65 0.21 0.14
Matches are distributed among these distances:
26 5 0.11
27 8 0.17
28 19 0.41
29 13 0.28
30 1 0.02
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (28 bp):
TCAAATTTTTGAGAAAAAAGTTGAAATA
Found at i:6223155 original size:56 final size:55
Alignment explanation
Indices: 6222808--6223164 Score: 321
Period size: 56 Copynumber: 6.4 Consensus size: 55
6222798 CCTTAAAGAT
* *** * *
6222808 AAATATCAAATTTTCCTTAAAATGAAAACCTTTTTAGAAATTT-A-AAAACAAGTTG
1 AAATATCAATTTTTCCTTAAAATGAAAATAATTTCA-AATTTTGAGAAAA-AAGTTG
* * *
6222863 AAATATCAAGTTTTCTTTAAAATGAAAGATAATTTCAAAATTTTGAG-AAAAAGTGG
1 AAATATCAATTTTTCCTTAAAATGAAA-ATAATTTC-AAATTTTGAGAAAAAAGTTG
* * * * * * * *
6222919 AAATATTAATATTTCCTTACAATGAAAAACAATTCCATAAATTTGAGGAAAATGTTG
1 AAATATCAATTTTTCCTTAAAATG-AAAATAATTTCA-AATTTTGAGAAAAAAGTTG
* * * * * **
6222976 AAATATCAAATTTTCCTTAAAGTGAAAACAATTTTAAATGTCAAGGAAAAAA-TTG
1 AAATATCAATTTTTCCTTAAAATGAAAATAATTTCAAATTTTGA-GAAAAAAGTTG
* **
6223031 AAATATCAA-TTTTCCCTAAAACAAAAATAATTTCAAATTTTTGAAGAAAAAA-TTG
1 AAATATCAATTTTTCCTTAAAATGAAAATAATTTCAAA-TTTTG-AGAAAAAAGTTG
*
6223086 AAATATCAATTTTTCCTTAAAATGAGAATAATTTCAAATTTTTGAGAAAAAAGTTG
1 AAATATCAATTTTTCCTTAAAATGAAAATAATTTCAAA-TTTTGAGAAAAAAGTTG
*
6223142 AAATATCAATTTTTTCTTAAAAT
1 AAATATCAATTTTTCCTTAAAAT
6223165 TAAGTTCTTG
Statistics
Matches: 245, Mismatches: 45, Indels: 23
0.78 0.14 0.07
Matches are distributed among these distances:
54 22 0.09
55 71 0.29
56 118 0.48
57 34 0.14
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (55 bp):
AAATATCAATTTTTCCTTAAAATGAAAATAATTTCAAATTTTGAGAAAAAAGTTG
Done.