Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 49 of 129
Found at i:6928868 original size:11 final size:10
Alignment explanation
Indices: 6928854--6928896 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
6928844 GGATCAATAG
*
6928854 AAAAAGAAAT
1 AAAAAGAAAA
6928864 AAAAAGAAGAA
1 AAAAAGAA-AA
*
6928875 AAAATGAAAA
1 AAAAAGAAAA
6928885 AAAAATGAAAA
1 AAAAA-GAAAA
6928896 A
1 A
6928897 GTTGTGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 14 0.50
11 14 0.50
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:6928896 original size:29 final size:29
Alignment explanation
Indices: 6928854--6928935 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 29
6928844 GGATCAATAG
*
6928854 AAAAAGAAAT-AAAAAGAAGAAAAAATG-
1 AAAAAAAAATGAAAAAGAAGAAAAAATGA
** *
6928881 AAAAAAAAATGAAAAAGTTGTGAAAAATGA
1 AAAAAAAAATGAAAAAGAAG-AAAAAATGA
*
6928911 AAAAAAAAATGAAAGAAAAAGAAAA
1 AAAAAAAAATGAAA-AAGAAGAAAA
6928936 CTCAAATTGA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
27 9 0.21
28 7 0.16
29 7 0.16
30 17 0.40
31 3 0.07
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.10
Consensus pattern (29 bp):
AAAAAAAAATGAAAAAGAAGAAAAAATGA
Found at i:6931757 original size:11 final size:11
Alignment explanation
Indices: 6931739--6931780 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
6931729 AATTCTATAA
6931739 GAGATTTGTTT
1 GAGATTTGTTT
* *
6931750 GGGATTTGTTA
1 GAGATTTGTTT
6931761 GAGATTTGTTT
1 GAGATTTGTTT
6931772 GAGATTTGT
1 GAGATTTGT
6931781 CATATATTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:6931766 original size:22 final size:22
Alignment explanation
Indices: 6931738--6931780 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
6931728 AAATTCTATA
*
6931738 AGAGATTTGTTTGGGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
6931760 AGAGATTTGTTTGAGATTTGT
1 AGAGATTTGTTTGAGATTTGT
6931781 CATATATTAC
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:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTT
Found at i:6931893 original size:52 final size:52
Alignment explanation
Indices: 6931805--6931950 Score: 168
Period size: 52 Copynumber: 2.8 Consensus size: 52
6931795 TGGACAAGAA
* * * *
6931805 GACTTGTAAAAAAAGAATTCTAAGA-TAAAGAGGATTCTTAATAAGTAAGTTT
1 GACTTGTAAGAGAAGAATTCTAAGAGGAAAGA-GATTCTTAATAAGCAAGTTT
* *
6931857 GACTTGTAAGAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGCAAGTTT
1 GACTTGTAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAAGCAAGTTT
** * * * *
6931909 GACTTACAGGAGAAAAATTCTAAGAGGAGAGGGATTCTTAAT
1 GACTTGTAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAAT
6931951 GGACAAGTTT
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
52 75 0.94
53 5 0.06
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (52 bp):
GACTTGTAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAAGCAAGTTT
Found at i:6932792 original size:21 final size:22
Alignment explanation
Indices: 6932751--6932792 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6932741 TAAATTTTAT
* *
6932751 AAAAAATTTTAGATTATAATAA
1 AAAAAATTGTAGATTAAAATAA
6932773 AAAAAATTGTAGA-TAAAATA
1 AAAAAATTGTAGATTAAAATA
6932793 TTCCTCTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (22 bp):
AAAAAATTGTAGATTAAAATAA
Found at i:6935261 original size:15 final size:15
Alignment explanation
Indices: 6935229--6935263 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6935219 AACAAATCTA
*
6935229 ATAAAACAAACATCG
1 ATAAAACAAACATAG
*
6935244 ATAAAACAAACTTAG
1 ATAAAACAAACATAG
6935259 ATAAA
1 ATAAA
6935264 GAGTTACATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.63, C:0.14, G:0.06, T:0.17
Consensus pattern (15 bp):
ATAAAACAAACATAG
Found at i:6945157 original size:185 final size:183
Alignment explanation
Indices: 6944856--6945233 Score: 503
Period size: 185 Copynumber: 2.0 Consensus size: 183
6944846 TTTTTGTCAT
* **
6944856 AAATGCCTTCAATAATCCTCATCATTTTTTTAGGATCATTCAAGGTGTTTTTGTGATTAAACACC
1 AAATGCCTTCAATAATCCTCACCATTTTTTTAGGATCATTCAAGGCATTTTTGTGATTAAACACC
* * *
6944921 TTGACTAATCCCCTTCAAGCATTTAAGACGAGATTAATAAATGCATTTTTGCTCAAAAAAATGCC
66 TTGAATAATCCCCTTCAAGCATTTAAGACAAGATTAATAAATG-ATTTTTGC-CAAAAAAATACC
* *
6944986 TTAAATCATCCTTAACAAAATATTAAATGGGGTTATAAAAGACATTTTTGGCCAA
129 TTAAATCATCCTTAACAAAATATTAAATGGAGTTATAAAAGACATTTCTGGCCAA
*
6945041 AAATGCCTTCAATAAT-CTCCACCCATTTTTTT-GGATCATTCAAGGCATTTTTGTGATTAAACG
1 AAATGCCTTCAATAATCCT-CA-CCATTTTTTTAGGATCATTCAAGGCATTTTTGTGATTAAACA
* * * *
6945104 CCTTGAATAAT-CCCTTCCAGGCATTTAAGACAAGATTAGTGAAAGTG-TTTTTGCCCAGAAAAT
64 CCTTGAATAATCCCCTT-CAAGCATTTAAGACAAGATTAAT-AAA-TGATTTTTGCCAAAAAAAT
* * * * *
6945167 ACCTTGAATCATCCTTAACAAAATATTCAATGGAGTTATTAAAGGCGTTTCTGGCCAA
126 ACCTTAAATCATCCTTAACAAAATATTAAATGGAGTTATAAAAGACATTTCTGGCCAA
6945225 AAATGCCTT
1 AAATGCCTT
6945234 GAAAAAATCT
Statistics
Matches: 170, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
184 73 0.43
185 83 0.49
186 12 0.07
187 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.34
Consensus pattern (183 bp):
AAATGCCTTCAATAATCCTCACCATTTTTTTAGGATCATTCAAGGCATTTTTGTGATTAAACACC
TTGAATAATCCCCTTCAAGCATTTAAGACAAGATTAATAAATGATTTTTGCCAAAAAAATACCTT
AAATCATCCTTAACAAAATATTAAATGGAGTTATAAAAGACATTTCTGGCCAA
Found at i:6945249 original size:477 final size:480
Alignment explanation
Indices: 6944559--6945515 Score: 1121
Period size: 477 Copynumber: 2.0 Consensus size: 480
6944549 GGCGCTTTAT
* *
6944559 GCCAAAAATGCCTTCAATAATCCTCTCCTTTTTTTTGGGAGCATTCAAGGCATTTTTGTGATTAA
1 GCCAAAAATGCCTTCAATAATCCTCCCCATTTTTTTGGGAGCATTCAAGGCATTTTTGTGATTAA
* ** * * * **
6944624 ACACCTTGAATTATCGCCTTCAGGTGCTTATGATAAGATTATTGAAGATGCTTGTGCTTAGAAAA
66 ACACCTTGAATAATCGCCTTCAGGCACTTAAGACAAGATTAGTGAAGATGCTTGTGCCCAGAAAA
** * * * * *
6944689 TGTCTTGAATTATCTCTAACAAAATATTGAGTAGGGTTATTGAAAGTGTTTCTGGCCAAAATTGC
131 TACCTTGAATCATCTCTAACAAAATATTCAATAGGGTTATTGAAAGCGTTTCTGGCCAAAAATGC
* * * * * *
6944754 ATTGAATAAGTTTTGGATTGTTGAAGGCA-TTTTGATCCAAAAACACCTTCAAGAATCCCCTCTA
196 ATTGAAAAAATCTTGGATTATTGAAGGCATTTTTG-GCCAAAAACACCTTCAAGAATCCCCTCCA
* * * *
6944818 ATTTTTTGGAGGGGATTA-T-TTA-AGGCATTTTTTGTC-ATAAATGCCTTCAATAATCCTCA-T
260 ATTTTTTGGAGGGGATTATTATTATAGGCATTTTTTG-CAAAAAAAGCCTTCAATAATCCCCACC
** * *
6944878 CATTTTTTTAGGATCATTCAAGGTGTTTTTGTGATTAAACACCTTGACTAATCCCCTTCAAGCAT
324 CATTTTTTTAGGATCATTCAAGGCATTTTTATGATTAAACACCTTGAATAATCCCCTTCAAGCAT
* * *
6944943 TTAAGACGAGATTAATAAATGCATTTTTGCTCAAAAAAATGCCTTAAATCATCCTTAACAAAATA
389 TTAAGACGAGATTAATAAAGGCATTTTTGCAC-AAAAAATGCCTTAAACCATCCTTAACAAAATA
6945008 TTAAATGGGGTTATAAAAGACATTTTTG
453 TTAAATGGGGTTATAAAAGACATTTTTG
*
6945036 GCCAAAAATGCCTTCAATAAT-CTCCACCCATTTTTTT-GGATCATTCAAGGCATTTTTGTGATT
1 GCCAAAAATGCCTTCAATAATCCT-C-CCCATTTTTTTGGGAGCATTCAAGGCATTTTTGTGATT
* * * *
6945099 AAACGCCTTGAATAATC-CCTTCCAGGCATTTAAGACAAGATTAGTGAA-AGTGTTTTTGCCCAG
64 AAACACCTTGAATAATCGCCTT-CAGGCACTTAAGACAAGATTAGTGAAGA-TGCTTGTGCCCAG
6945162 AAAATACCTTGAATCATC-CTTAACAAAATATTCAAT-GGAGTTATT-AAAGGCGTTTCTGGCCA
127 AAAATACCTTGAATCATCTC-TAACAAAATATTCAATAGG-GTTATTGAAA-GCGTTTCTGGCCA
* * * * * * *
6945224 AAAATGCCTTGAAAAAATCTTGGATTATTTAAGGCATTTTTGGCTAAAAACACTTTTAATAATCT
189 AAAATGCATTGAAAAAATCTTGGATTATTGAAGGCATTTTTGGCCAAAAACACCTTCAAGAATCC
*
6945289 CTTCCAATTTTTTGGAGGGGATTATTTTTTGGAAGAGATTATTCGAGGCATTTTTTGCAAAAAAA
254 CCTCCAATTTTTTGGAGGGGATTA----TT-------ATTA-T--AGGCATTTTTTGCAAAAAAA
* *
6945354 GCCTTCAATAATCCCCACCCCTTTTTTTGGGATCATTCAAGGCATTTTTATGATTAAACACCTTG
305 GCCTTCAATAATCCCCACCCATTTTTTTAGGATCATTCAAGGCATTTTTATGATTAAACACCTTG
* * * *
6945419 AATAATCCCCTTCAAGCATTTAAGATGAGATTAATGAAGGCATTTTTGCACAAAAAATGCTTTGA
370 AATAATCCCCTTCAAGCATTTAAGACGAGATTAATAAAGGCATTTTTGCACAAAAAATGCCTTAA
*
6945484 ACCATCCTTAACAAAATATTCAATGGGGTTAT
435 ACCATCCTTAACAAAATATTAAATGGGGTTAT
6945516 TGAAGGCATT
Statistics
Matches: 399, Mismatches: 54, Indels: 37
0.81 0.11 0.08
Matches are distributed among these distances:
476 13 0.03
477 206 0.52
478 14 0.04
482 1 0.00
490 3 0.01
493 1 0.00
494 74 0.19
495 87 0.22
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.36
Consensus pattern (480 bp):
GCCAAAAATGCCTTCAATAATCCTCCCCATTTTTTTGGGAGCATTCAAGGCATTTTTGTGATTAA
ACACCTTGAATAATCGCCTTCAGGCACTTAAGACAAGATTAGTGAAGATGCTTGTGCCCAGAAAA
TACCTTGAATCATCTCTAACAAAATATTCAATAGGGTTATTGAAAGCGTTTCTGGCCAAAAATGC
ATTGAAAAAATCTTGGATTATTGAAGGCATTTTTGGCCAAAAACACCTTCAAGAATCCCCTCCAA
TTTTTTGGAGGGGATTATTATTATAGGCATTTTTTGCAAAAAAAGCCTTCAATAATCCCCACCCA
TTTTTTTAGGATCATTCAAGGCATTTTTATGATTAAACACCTTGAATAATCCCCTTCAAGCATTT
AAGACGAGATTAATAAAGGCATTTTTGCACAAAAAATGCCTTAAACCATCCTTAACAAAATATTA
AATGGGGTTATAAAAGACATTTTTG
Found at i:6945317 original size:17 final size:17
Alignment explanation
Indices: 6945295--6945331 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
6945285 ATCTCTTCCA
* *
6945295 ATTTTTTGGAGGGGATT
1 ATTTTTTGGAAGAGATT
6945312 ATTTTTTGGAAGAGATT
1 ATTTTTTGGAAGAGATT
6945329 ATT
1 ATT
6945332 CGAGGCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (17 bp):
ATTTTTTGGAAGAGATT
Found at i:6945502 original size:310 final size:309
Alignment explanation
Indices: 6945028--6945611 Score: 841
Period size: 310 Copynumber: 1.9 Consensus size: 309
6945018 TTATAAAAGA
* * *
6945028 CATTTTTGGCCAAAAATGCCTTCAATAATCTCCACCCATTTTTTTGGATCATTCAAGGCATTTTT
1 CATTTTTGGCAAAAAAAGCCTTCAATAATCCCCACCCATTTTTTTGGATCATTCAAGGCATTTTT
* * * * **
6945093 GTGATTAAACGCCTTGAATAATCCCTTCCAGGCATTTAAGACAAGATTAGTGAAAGTGTTTTTGC
66 ATGATTAAACACCTTGAATAATCCCTTCCAAGCATTTAAGACAAGATTAATGAAAGCATTTTTGC
* * * * *
6945158 CCAGAAAATACCTTGAATCATCCTTAACAAAATATTCAATGGAGTTATTAAAGGCGTTTCT-GGC
131 ACAAAAAATACCTTGAACCATCCTTAACAAAATATTCAATGGAGTTATTAAAGGCATTTATAGG-
* * *
6945222 CAAAAATGCCTTGAAAAAATCTTGGATTATTTAAGGCATTTTTGGCTAAAAACACTTTTAATAAT
195 CAAAAATACCTTGAAAAAATCTTGGATTATTGAAGGCATTTTTGGCTAAAAACACCTTTAATAAT
6945287 -CTCTTCCAATTTTTTGGAGGGGATTATTTTTTGGAAGAGATTATTCGAGG
260 CCT-TTCCAATTTTTTGGAGGGGATTATTTTTTGGAAGAGATTATTCGAGG
* *
6945337 CATTTTTTGCAAAAAAAGCCTTCAATAATCCCCACCCCTTTTTTTGGGATCATTCAAGGCATTTT
1 CATTTTTGGCAAAAAAAGCCTTCAATAATCCCCACCCATTTTTTT-GGATCATTCAAGGCATTTT
** *
6945402 TATGATTAAACACCTTGAATAATCCCCTT-CAAGCATTTAAGATGAGATTAATGAAGGCATTTTT
65 TATGATTAAACACCTTGAATAAT-CCCTTCCAAGCATTTAAGACAAGATTAATGAAAGCATTTTT
* * * *
6945466 GCACAAAAAATGCTTTGAACCATCCTTAACAAAATATTCAATGGGGTTATTGAAGGCATTTATAG
129 GCACAAAAAATACCTTGAACCATCCTTAACAAAATATTCAATGGAGTTATTAAAGGCATTTATAG
* **
6945531 GCAAAAATACCTTGAATAAATCTTGGATTATTGAAGGCATTTTTGGCTAAAAATGCCTTTAATAA
194 GCAAAAATACCTTGAAAAAATCTTGGATTATTGAAGGCATTTTTGGCTAAAAACACCTTTAATAA
*
6945596 TCCTTTTCAATTTTTT
259 TCCTTTCCAATTTTTT
6945612 AAAGGGAAAT
Statistics
Matches: 241, Mismatches: 30, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
309 40 0.17
310 192 0.80
311 9 0.04
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (309 bp):
CATTTTTGGCAAAAAAAGCCTTCAATAATCCCCACCCATTTTTTTGGATCATTCAAGGCATTTTT
ATGATTAAACACCTTGAATAATCCCTTCCAAGCATTTAAGACAAGATTAATGAAAGCATTTTTGC
ACAAAAAATACCTTGAACCATCCTTAACAAAATATTCAATGGAGTTATTAAAGGCATTTATAGGC
AAAAATACCTTGAAAAAATCTTGGATTATTGAAGGCATTTTTGGCTAAAAACACCTTTAATAATC
CTTTCCAATTTTTTGGAGGGGATTATTTTTTGGAAGAGATTATTCGAGG
Found at i:6948910 original size:21 final size:21
Alignment explanation
Indices: 6948886--6948935 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
6948876 TTATCTTGTG
*
6948886 TTTTTTCA-TAATTACTTTTAT
1 TTTTTTCATTAAGTACTTTT-T
*
6948907 TTTTGT-ATTAAGTACTTTTT
1 TTTTTTCATTAAGTACTTTTT
6948927 TTTTGTTCA
1 TTTT-TTCA
6948936 ATTTAGGGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
20 6 0.26
21 16 0.70
22 1 0.04
ACGTcount: A:0.20, C:0.08, G:0.06, T:0.66
Consensus pattern (21 bp):
TTTTTTCATTAAGTACTTTTT
Found at i:6949866 original size:62 final size:63
Alignment explanation
Indices: 6949769--6949902 Score: 161
Period size: 62 Copynumber: 2.2 Consensus size: 63
6949759 GCATTTCTTG
* *
6949769 TTGAATAAT-CCTTTTAAATTTTTATGAGTGGATTATTGAAGGTGTTGTTGA-CCAAAAACAA-C
1 TTGAATAATCCCTTATAAATTTTTATGAGTGGATTATTAAAGGTGTT-TTGAGCCAAAAA-AACC
* *
6949831 TTGAATAATCCCTTATAATTTTTTA-GA-TGGGATTATTAAAGGTGTTTTTAGCCAAAAAAACC
1 TTGAATAATCCCTTATAAATTTTTATGAGT-GGATTATTAAAGGTGTTTTGAGCCAAAAAAACC
*
6949893 TTCAATAATC
1 TTGAATAATC
6949903 TCTTCCCAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
61 6 0.10
62 44 0.70
63 13 0.21
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (63 bp):
TTGAATAATCCCTTATAAATTTTTATGAGTGGATTATTAAAGGTGTTTTGAGCCAAAAAAACC
Found at i:6950177 original size:124 final size:125
Alignment explanation
Indices: 6949953--6950210 Score: 358
Period size: 124 Copynumber: 2.1 Consensus size: 125
6949943 AGAAAACACA
* * * *
6949953 TTGACTAATCACTTAGAAAAAATTGAATGGGTTTAGTCAAGGCGTTTATGGCAAAAAAATGCCTT
1 TTGAATAATCACTTAGAAAAAATTGAATGGGGTTAGTCAAGGCGTTTATGACAAAAAAATGCATT
* * * *
6950018 CAATAATCCCCTTCAATTTTTATGATTGGATTATTGAAGGTGTTTTTAGCTAGAAAATGCC
66 CAATAATCCCCTTCAATTTTTATGATGGGATTATTGAAGGTGTTTATAG-TAAAAAACGCC
* * *
6950079 TTGCATAATCCCTTA-AAAAAATTGAATGGGGTTAGTTAAGGCGTTTATGAC-AAAAAATGCATT
1 TTGAATAATCACTTAGAAAAAATTGAATGGGGTTAGTCAAGGCGTTTATGACAAAAAAATGCATT
* * * *
6950142 GAATAATCTCCTTCATTTTTTATGATGGGGTTATTGAAGGTGTTTATAGTAAAAAACGCC
66 CAATAATCCCCTTCAATTTTTATGATGGGATTATTGAAGGTGTTTATAGTAAAAAACGCC
6950202 TTGAATAAT
1 TTGAATAAT
6950211 TCATAGATTA
Statistics
Matches: 116, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
123 17 0.15
124 54 0.47
125 33 0.28
126 12 0.10
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (125 bp):
TTGAATAATCACTTAGAAAAAATTGAATGGGGTTAGTCAAGGCGTTTATGACAAAAAAATGCATT
CAATAATCCCCTTCAATTTTTATGATGGGATTATTGAAGGTGTTTATAGTAAAAAACGCC
Found at i:6950187 original size:62 final size:63
Alignment explanation
Indices: 6949991--6950210 Score: 186
Period size: 62 Copynumber: 3.6 Consensus size: 63
6949981 GGGTTTAGTC
* * *
6949991 AAGGCGTTTATG-GCAAAAAAATGCCTTCAATAATCCCCTTCAATTTTTATGATTGGATTATTG
1 AAGGCGTTTATGAGCAAAAAAATGCCTTGAATAAT-CCCTTCAATTTTTATGATGGGGTTATTG
* * * * * * ****
6950054 AAGGTGTTT-TTAGCTAGAAAATGCCTTGCATAATCCCTTAAAAAAAT-TGAATGGGGTTAGTT-
1 AAGGCGTTTATGAGCAAAAAAATGCCTTGAATAATCCCTTCAATTTTTATG-ATGGGGTTA-TTG
* *
6950116 AAGGCGTTTATGA-C-AAAAAATGCATTGAATAATCTCCTTCATTTTTTATGATGGGGTTATTG
1 AAGGCGTTTATGAGCAAAAAAATGCCTTGAATAATC-CCTTCAATTTTTATGATGGGGTTATTG
* * *
6950178 AAGGTGTTTAT-AG-TAAAAAACGCCTTGAATAAT
1 AAGGCGTTTATGAGCAAAAAAATGCCTTGAATAAT
6950211 TCATAGATTA
Statistics
Matches: 121, Mismatches: 27, Indels: 19
0.72 0.16 0.11
Matches are distributed among these distances:
61 22 0.18
62 67 0.55
63 32 0.26
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (63 bp):
AAGGCGTTTATGAGCAAAAAAATGCCTTGAATAATCCCTTCAATTTTTATGATGGGGTTATTG
Found at i:6953820 original size:23 final size:24
Alignment explanation
Indices: 6953776--6953820 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
6953766 TGTTTAAGGC
6953776 TTGCTATTCAAAACTTTTTTTTTT
1 TTGCTATTCAAAACTTTTTTTTTT
* *
6953800 TTGCTTTTTAAAA-TTTTTTTT
1 TTGCTATTCAAAACTTTTTTTT
6953821 AAGCTTTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.20, C:0.09, G:0.04, T:0.67
Consensus pattern (24 bp):
TTGCTATTCAAAACTTTTTTTTTT
Found at i:6955125 original size:22 final size:22
Alignment explanation
Indices: 6955092--6955152 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
6955082 TGAATCTTAA
*
6955092 TTGAAGGACTTACG-GATTATGC
1 TTGAAGGTCTTA-GAGATTATGC
6955114 TTAGAA-GTCTTAGAGATTATGC
1 TT-GAAGGTCTTAGAGATTATGC
*
6955136 TTGAAGGTCTTAAAGAT
1 TTGAAGGTCTTAGAGAT
6955153 ATTAAAATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 4 0.12
22 27 0.79
23 3 0.09
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (22 bp):
TTGAAGGTCTTAGAGATTATGC
Found at i:6955373 original size:104 final size:105
Alignment explanation
Indices: 6955115--6955742 Score: 467
Period size: 104 Copynumber: 6.0 Consensus size: 105
6955105 GGATTATGCT
* * * *
6955115 TAGAAGTCTT-AGAGATTATGCTTGAAGGTCTTAAAGATATT-AAAATCTTTGAATGCTCCTCAT
1 TAGAGGTCTTAAG-GATTGTGCCTGAAGGTCTTAGAGAT-TTCAAAATCTTTGAATGCTCCTCAT
* * * * * *
6955178 ACATTAGACGCATTAAAATTTTGAAATTTTAAAATGTTTCACC
64 ACA-TAGAGGCATTGAAACTTTAAAAATTTAAAATGTTTTACC
* ** * * * * * * *
6955221 T-GAAGGTTTTAAAAATTATG-CTCAAAGGTTTTACAAATCTCAAAATCTTTGAATGCTCATCAT
1 TAG-AGGTCTTAAGGATTGTGCCT-GAAGGTCTTAGAGATTTCAAAATCTTTGAATGCTCCTCAT
*
6955284 A-ATAGAGGCGTTGAAACTTTAAAAATTTAAAATGTTTTACC
64 ACATAGAGGCATTGAAACTTTAAAAATTTAAAATGTTTTACC
* * * * *
6955325 CATAGGTCTTAAGGATTGTGCTTGGAA-GTCTTAGAGATTTCAAAATCTTTGAATGCTCTTTATA
1 TAGAGGTCTTAAGGATTGTGCCT-GAAGGTCTTAGAGATTTCAAAATCTTTGAATGCTCCTCATA
* *
6955389 CATTAGAGGCATTAAAACTTTAAAAATTTTAAAATATTTTACC
65 CA-TAGAGGCATTGAAACTTTAAAAA-TTTAAAATGTTTTACC
* * * * * *
6955432 TAGAGGTCTTGAA-GATT-AGCGCTCGAAGGTC--AAAGATTTCCAAATCTTTGATTTCACCTCA
1 TAGAGGTCTT-AAGGATTGTGC-CT-GAAGGTCTTAGAGATTTCAAAATCTTTGAATGCTCCTCA
* * *
6955493 TACATTGAGGCATTGAAACTTTGAAAATTTAAAATGTTTCACC
63 TACATAGAGGCATTGAAACTTTAAAAATTTAAAATGTTTTACC
* * * * * * * * *
6955536 TGGATGTCTT--GGAAATTATGCC-CAGAGATCTTACAAATCTCAAAATCTTT-AAGTGCTCCCC
1 TAGAGGTCTTAAGG--ATTGTGCCTGA-AGGTCTTAGAGATTTCAAAATCTTTGAA-TGCTCCTC
* * * * *
6955597 GTA-ATAGAAGCATTGGAACTTTAAACATTTAAAATGTTTTGCC
62 ATACATAGAGGCATTGAAACTTTAAAAATTTAAAATGTTTTACC
* * * * **
6955640 TAAAAGTCTTAAGGATTGTGCCTGAAGGTCTTAGAGAATTCAAAATGTTTGAATGCTTTTCATAC
1 TAGAGGTCTTAAGGATTGTGCCTGAAGGTCTTAGAGATTTCAAAATCTTTGAATGCTCCTCATAC
* * *
6955705 ATTGGAGGCATTGAAACTTTGAAAATTCAAAATGTTTT
66 A-TAGAGGCATTGAAACTTTAAAAATTTAAAATGTTTT
6955743 GCTCGAAGGT
Statistics
Matches: 401, Mismatches: 95, Indels: 52
0.73 0.17 0.09
Matches are distributed among these distances:
102 2 0.00
103 4 0.01
104 176 0.44
105 55 0.14
106 127 0.32
107 32 0.08
108 5 0.01
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (105 bp):
TAGAGGTCTTAAGGATTGTGCCTGAAGGTCTTAGAGATTTCAAAATCTTTGAATGCTCCTCATAC
ATAGAGGCATTGAAACTTTAAAAATTTAAAATGTTTTACC
Found at i:6956083 original size:18 final size:18
Alignment explanation
Indices: 6956048--6956088 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
6956038 ATGATGCGAG
* *
6956048 TGCAAATGTCTATGCAAA
1 TGCAAATGTCAATACAAA
6956066 TGCAAATGTCAATACAAA
1 TGCAAATGTCAATACAAA
*
6956084 AGCAA
1 TGCAA
6956089 GAATGTGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.22
Consensus pattern (18 bp):
TGCAAATGTCAATACAAA
Found at i:6957125 original size:11 final size:11
Alignment explanation
Indices: 6957111--6957144 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
6957101 CTTTCTTTGC
*
6957111 TCTTTCTTTTT
1 TCTTTATTTTT
6957122 TCTTTATTTTT
1 TCTTTATTTTT
*
6957133 TATTTATTTTT
1 TCTTTATTTTT
6957144 T
1 T
6957145 ATTGACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (11 bp):
TCTTTATTTTT
Found at i:6957145 original size:11 final size:11
Alignment explanation
Indices: 6957117--6957147 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
6957107 TTGCTCTTTC
*
6957117 TTTTTTCTTTA
1 TTTTTTATTTA
6957128 TTTTTTATTTA
1 TTTTTTATTTA
6957139 TTTTTTATT
1 TTTTTTATT
6957148 GACTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTATTTA
Found at i:6957338 original size:19 final size:19
Alignment explanation
Indices: 6957288--6957331 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
6957278 TCCCTTTTTT
6957288 TTTTTGCTC-TTTTTTCTTC
1 TTTTT-CTCTTTTTTTCTTC
*
6957307 TTTTTCTCTTTTTTTTTTC
1 TTTTTCTCTTTTTTTCTTC
6957326 TGTTTT
1 T-TTTT
6957332 TGTTTTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 15 0.68
20 4 0.18
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.80
Consensus pattern (19 bp):
TTTTTCTCTTTTTTTCTTC
Found at i:6957774 original size:9 final size:8
Alignment explanation
Indices: 6957745--6957773 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
6957735 TTTTTCTCTC
6957745 TTTTTTA-
1 TTTTTTAT
6957752 TTTTTTAT
1 TTTTTTAT
6957760 TTTTTTAT
1 TTTTTTAT
6957768 TTTTTT
1 TTTTTT
6957774 TTACTTCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTAT
Found at i:6963055 original size:12 final size:11
Alignment explanation
Indices: 6963034--6963058 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6963024 TATCCGATTA
6963034 TTCCTTTTTTT
1 TTCCTTTTTTT
6963045 TTCCTTTTTTT
1 TTCCTTTTTTT
6963056 TTC
1 TTC
6963059 AACTTGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTCCTTTTTTT
Found at i:6967321 original size:161 final size:160
Alignment explanation
Indices: 6967029--6968052 Score: 958
Period size: 161 Copynumber: 6.4 Consensus size: 160
6967019 TAGTAAGTTT
* * * * * * * * * *
6967029 ATGATATTAAACTTATCCGAATGAATGAACTTGGTTACCATTGTTGATATATGTGTCATAATTTG
1 ATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCATAGTTGATATGTGTG-AAAAAGTTA
** ** ** * * *
6967094 CAATTTATGTCTATTTACAACTTTTTATGCCATTAAAAGGTAAAAATGCAAATTTAG-AGCTATT
65 TTATTTACATCTATTTAGGACTTTTTATGCCATT-AAAGGTAAAAATACAAATTT-GTTGTTATT
* ** *
6967158 GTTCTGTTTTAATAGTTTTAATAGTTTCAATAC
128 GTTCTATTTTAATAGTTTGGATAGCTTCAATAC
* * * * *
6967191 ATGATATTAAACTTATCCAAATTATTGAACTTAGTTTCCATGGTTGATATGTATGAAAAAGTTAT
1 ATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCATAGTTGATATGTGTGAAAAAGTTAT
* * *
6967256 TATTTACGTCTATTTAGGACTTTTTGTGCCATTAATAGGTGAAAATACAAATTTGTTGTTATTGT
66 TATTTACATCTATTTAGGACTTTTTATGCCATTAA-AGGTAAAAATACAAATTTGTTGTTATTGT
* * *
6967321 TCTATTTTTATAGTTTGCATAGCTTCAGTAC
130 TCTATTTTAATAGTTTGGATAGCTTCAATAC
*** * * * *
6967352 ATGATATTAAACTTGTTGGAATAATTGAACTTGGTATCCATAGTTGATATGTGTGAAAAAGCTAA
1 ATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCATAGTTGATATGTGTGAAAAAGTTAT
* * * * * * *
6967417 TGTTTACATCTGTTTAGGACTTTTTATGCCGTTAAGAGG-AAAAATGCAAAATTGATATTATTGT
66 TATTTACATCTATTTAGGACTTTTTATGCCATTAA-AGGTAAAAATACAAATTTGTTGTTATTGT
* * *
6967481 TCTATTTTAATAATTTGGTTAGTTTCAATAC
130 TCTATTTTAATAGTTTGGATAGCTTCAATAC
* * * * *
6967512 ATGATATTAAACTTGTCCGAGTGATTGAACTTAGTTTCTATGGTTGATATGTGTGAAAAAGTTAT
1 ATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCATAGTTGATATGTGTGAAAAAGTTAT
* ** * * *
6967577 CATTTACATCTATTTAGGACTATTTTTAT-CGTTTAAAGGCAAAAATACAAATTTATTGTTATTA
66 TATTTACATCTATTTAGGAC--TTTTTATGCCATTAAAGGTAAAAATACAAATTTGTTGTTATTG
** *
6967641 TTCTATTTTAATAGTTTTTATGGCTTCAATAC
129 TTCTATTTTAATAGTTTGGATAGCTTCAATAC
* * * * * *
6967673 ATGATATTAAACTTTTTCAAATGATTGAACTTGGTTTTCGTAGTTGATATATGTGAAAAAGTTGT
1 ATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCATAGTTGATATGTGTGAAAAAGTTAT
* * * * * * * * *
6967738 TGTTTACCTTTGTTTAGGATTTTTTGTGCCATTAAAATGCAACAATACAAATTTGTTGTTATTGT
66 TATTTACATCTATTTAGGACTTTTTATGCCATT-AAAGGTAAAAATACAAATTTGTTGTTATTGT
6967803 TCTATTTTAATAGTTTGGATAGCTTCAATAC
130 TCTATTTTAATAGTTTGGATAGCTTCAATAC
* * * * * * *
6967834 ATGGTATTAAACTTTTTCGAATGATTGAACTTGGTTTTCATAGTTGATATATGTGAAAAAGTTGT
1 ATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCATAGTTGATATGTGTGAAAAAGTTAT
* * * * * * * * * * *
6967899 TGTTTACCTCTGTTTAGGACTTTTTTTGTCGTTAAAAAGCAAAAATACAAAGTTGCTATTATTGT
66 TATTTACATCTATTTAGGACTTTTTATGCCATT-AAAGGTAAAAATACAAATTTGTTGTTATTGT
* * ** * * *
6967964 TTTGTTTTAGCAATTTGGATGGCTTCAATAT
130 TCTATTTTAATAGTTTGGATAGCTTCAATAC
* * *
6967995 ATAATATTAAACTTGTCCAAATGATTGAATTTGGTTTTCAT-GATTGATATGTGTGAAA
1 ATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCATAG-TTGATATGTGTGAAA
6968053 GGCCAAAATG
Statistics
Matches: 717, Mismatches: 137, Indels: 17
0.82 0.16 0.02
Matches are distributed among these distances:
159 6 0.01
160 127 0.18
161 530 0.74
162 54 0.08
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (160 bp):
ATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTCCATAGTTGATATGTGTGAAAAAGTTAT
TATTTACATCTATTTAGGACTTTTTATGCCATTAAAGGTAAAAATACAAATTTGTTGTTATTGTT
CTATTTTAATAGTTTGGATAGCTTCAATAC
Found at i:6967676 original size:321 final size:319
Alignment explanation
Indices: 6967113--6968052 Score: 1085
Period size: 321 Copynumber: 2.9 Consensus size: 319
6967103 TCTATTTACA
* * *
6967113 ACTTTTTATGCCATTAAAAGGTAAAAATGCAAATTTAGA-GCTATTGTTCTGTTTTAATAGTTTT
1 ACTTTTTATGCCATTAAAAGG-AAAAATGCAAATTT-GATGTTATTGTTCTATTTTAATAGTTTG
* * * *
6967177 AATAGTTTCAATACATGATATTAAACTTATCCAAATTATTGAACTTAGTTTCCATGGTTGATATG
64 GATAGTTTCAATACATGATATTAAACTTATCCGAATGATTGAACTTAGTTTCTATGGTTGATATG
* * * ** **
6967242 TATGAAAAAGTTATTATTTACGTCTATTTAGGACTTTTTGTGCCATTAATAGGTGAAAATACAAA
129 TGTGAAAAAGTTATTATTTACATCTATTTAGGACTTTTT-TTCGTTTAA-AGGCAAAAATACAAA
* * * **
6967307 TTTGTTGTTATTGTTCTATTTTTATAGTTTGCATAGCTTCAGTACATGATATTAAACTTGTTGGA
192 TTTGTTGTTATTGTTCTATTTTAATAGTTTGCATGGCTTCAATACATGATATTAAACTTGTTCAA
* * *
6967372 ATAATTGAACTTGGTATCCATAGTTGATATGTGTGAAAAAGCTAATGTTTACATCTGTTTAGG
257 ATGATTGAACTTGGTTTTCATAGTTGATATGTGTGAAAAAGCTAATGTTTACATCTGTTTAGG
* * * * * *
6967435 ACTTTTTATGCCGTTAAGAGGAAAAATGCAAAATTGATATTATTGTTCTATTTTAATAATTTGGT
1 ACTTTTTATGCCATTAAAAGGAAAAATGCAAATTTGATGTTATTGTTCTATTTTAATAGTTTGGA
* *
6967500 TAGTTTCAATACATGATATTAAACTTGTCCGAGTGATTGAACTTAGTTTCTATGGTTGATATGTG
66 TAGTTTCAATACATGATATTAAACTTATCCGAATGATTGAACTTAGTTTCTATGGTTGATATGTG
*
6967565 TGAAAAAGTTATCATTTACATCTATTTAGGACTATTTTTATCGTTTAAAGGCAAAAATACAAATT
131 TGAAAAAGTTATTATTTACATCTATTTAGGACT-TTTTT-TCGTTTAAAGGCAAAAATACAAATT
* * ** *
6967630 TATTGTTATTATTCTATTTTAATAGTTTTTATGGCTTCAATACATGATATTAAACTTTTTCAAAT
194 TGTTGTTATTGTTCTATTTTAATAGTTTGCATGGCTTCAATACATGATATTAAACTTGTTCAAAT
* * * ** * *
6967695 GATTGAACTTGGTTTTCGTAGTTGATATATGTGAAAAAGTTGTTGTTTACCTTTGTTTAGG
259 GATTGAACTTGGTTTTCATAGTTGATATGTGTGAAAAAGCTAATGTTTACATCTGTTTAGG
* * * * * *
6967756 ATTTTTTGTGCCATTAAAATGCAACAATACAAATTTGTTGTTATTGTTCTATTTTAATAGTTTGG
1 ACTTTTTATGCCATTAAAA-GGAAAAATGCAAATTTGATGTTATTGTTCTATTTTAATAGTTTGG
* * * * * * *
6967821 ATAGCTTCAATACATGGTATTAAACTTTTTCGAATGATTGAACTTGGTTT-TCATAGTTGATATA
65 ATAGTTTCAATACATGATATTAAACTTATCCGAATGATTGAACTTAGTTTCT-ATGGTTGATATG
* * * * * *
6967885 TGTGAAAAAGTTGTTGTTTACCTCTGTTTAGGACTTTTTTTGTCGTTAAAAAGCAAAAATACAAA
129 TGTGAAAAAGTTATTATTTACATCTATTTAGGAC-TTTTTT-TCGTTTAAAGGCAAAAATACAAA
* * * * * ** * * * * *
6967950 GTTGCTATTATTGTTTTGTTTTAGCAATTTGGATGGCTTCAATATATAATATTAAACTTGTCCAA
192 TTTGTTGTTATTGTTCTATTTTAATAGTTTGCATGGCTTCAATACATGATATTAAACTTGTTCAA
*
6968015 ATGATTGAATTTGGTTTTCAT-GATTGATATGTGTGAAA
257 ATGATTGAACTTGGTTTTCATAG-TTGATATGTGTGAAA
6968053 GGCCAAAATG
Statistics
Matches: 521, Mismatches: 90, Indels: 14
0.83 0.14 0.02
Matches are distributed among these distances:
320 2 0.00
321 262 0.50
322 256 0.49
323 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.43
Consensus pattern (319 bp):
ACTTTTTATGCCATTAAAAGGAAAAATGCAAATTTGATGTTATTGTTCTATTTTAATAGTTTGGA
TAGTTTCAATACATGATATTAAACTTATCCGAATGATTGAACTTAGTTTCTATGGTTGATATGTG
TGAAAAAGTTATTATTTACATCTATTTAGGACTTTTTTTCGTTTAAAGGCAAAAATACAAATTTG
TTGTTATTGTTCTATTTTAATAGTTTGCATGGCTTCAATACATGATATTAAACTTGTTCAAATGA
TTGAACTTGGTTTTCATAGTTGATATGTGTGAAAAAGCTAATGTTTACATCTGTTTAGG
Found at i:6971333 original size:14 final size:14
Alignment explanation
Indices: 6971314--6971340 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6971304 TTTTTATATT
6971314 ATTTTAATTTAATA
1 ATTTTAATTTAATA
6971328 ATTTTAATTTAAT
1 ATTTTAATTTAAT
6971341 TATTAATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTTAATTTAATA
Found at i:6971345 original size:31 final size:32
Alignment explanation
Indices: 6971269--6971350 Score: 87
Period size: 31 Copynumber: 2.5 Consensus size: 32
6971259 TAAACTTTGA
*
6971269 AATTTAATCTATTTATTATAATTTATATAAATTT
1 AATTTAAT-TA-TTATTTTAATTTATATAAATTT
* * *
6971303 ATTTTTA-TATTATTTTAATTTA-ATAATTTT
1 AATTTAATTATTATTTTAATTTATATAAATTT
6971333 AATTTAATTATTAATTTT
1 AATTTAATTATT-ATTTT
6971351 GTCTAATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
30 12 0.30
31 16 0.40
32 7 0.17
34 5 0.12
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (32 bp):
AATTTAATTATTATTTTAATTTATATAAATTT
Found at i:6971568 original size:21 final size:21
Alignment explanation
Indices: 6971543--6971583 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6971533 TAATAAAAAT
6971543 TTTATAAAAATATAAATATTA
1 TTTATAAAAATATAAATATTA
* *
6971564 TTTATATATATATAAATATT
1 TTTATAAAAATATAAATATT
6971584 TAATATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTATAAAAATATAAATATTA
Found at i:6971594 original size:21 final size:20
Alignment explanation
Indices: 6971552--6971600 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
6971542 TTTTATAAAA
*
6971552 ATATAAATATTATTTATATAT
1 ATATAAATATTA-ATATATAT
*
6971573 ATATAAATATTTAATATTTAT
1 ATATAAATA-TTAATATATAT
*
6971594 ATTTAAA
1 ATATAAA
6971601 ATAATTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATAAATATTAATATATAT
Found at i:6972773 original size:32 final size:31
Alignment explanation
Indices: 6972737--6972801 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 31
6972727 AGAAAATTTA
* *
6972737 CATAGTTTTTTTTAAAGAGCGAAAACAAAAAT
1 CATAGTTTTTTTAAAAGAGC-AAAAAAAAAAT
*
6972769 CATAGTTTTTTTAAAAGGGCAAAAAAAAAAT
1 CATAGTTTTTTTAAAAGAGCAAAAAAAAAAT
6972800 CA
1 CA
6972802 CAAATTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 12 0.40
32 18 0.60
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.29
Consensus pattern (31 bp):
CATAGTTTTTTTAAAAGAGCAAAAAAAAAAT
Found at i:6972781 original size:31 final size:32
Alignment explanation
Indices: 6972737--6972801 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
6972727 AGAAAATTTA
*
6972737 CATAGTTTTTTTTAAAGAGCG-AAAACAAAAAT
1 CATAGTTTTTTTTAAA-AGCGCAAAAAAAAAAT
*
6972769 CATAG-TTTTTTTAAAAGGGCAAAAAAAAAAT
1 CATAGTTTTTTTTAAAAGCGCAAAAAAAAAAT
6972800 CA
1 CA
6972802 CAAATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 3 0.10
31 22 0.73
32 5 0.17
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.29
Consensus pattern (32 bp):
CATAGTTTTTTTTAAAAGCGCAAAAAAAAAAT
Found at i:6974122 original size:3 final size:3
Alignment explanation
Indices: 6974109--6974157 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
6974099 AAGGTTTTGT
*
6974109 ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6974157 A
1 A
6974158 CGGAAAGTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:6974675 original size:36 final size:36
Alignment explanation
Indices: 6974603--6974675 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
6974593 TACTATTCAT
* * *
6974603 ATTAAGGATCAGATTAAAGAGTGCCGATTGACATTG
1 ATTAAGGATCAGATTAAAGAGTACCAACTGACATTG
*
6974639 ATTAAGGATCAGATTAAAGAGTACCAACTGATATTG
1 ATTAAGGATCAGATTAAAGAGTACCAACTGACATTG
6974675 A
1 A
6974676 ATGCATTACC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (36 bp):
ATTAAGGATCAGATTAAAGAGTACCAACTGACATTG
Found at i:6977574 original size:16 final size:16
Alignment explanation
Indices: 6977524--6977586 Score: 58
Period size: 15 Copynumber: 4.0 Consensus size: 16
6977514 GGTCAGGAGG
6977524 AAAAAAAGAAGAAAGAA
1 AAAAAAAGAAGAAA-AA
* ** *
6977541 GAAGGAA-AAGAAAGA
1 AAAAAAAGAAGAAAAA
*
6977556 AAAAAATG-AGAAAAA
1 AAAAAAAGAAGAAAAA
6977571 AAAAAAAGAAGAAAAA
1 AAAAAAAGAAGAAAAA
6977587 GGAAACGGAG
Statistics
Matches: 34, Mismatches: 10, Indels: 5
0.69 0.20 0.10
Matches are distributed among these distances:
15 17 0.50
16 13 0.38
17 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (16 bp):
AAAAAAAGAAGAAAAA
Found at i:6980509 original size:22 final size:23
Alignment explanation
Indices: 6980481--6980529 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
6980471 TAGACTTTTG
* *
6980481 GAAAA-TTGGGATTTGAATCCCA
1 GAAAATTTAGGATTTAAATCCCA
6980503 GAAAATTTAGGATTTAAATCCCA
1 GAAAATTTAGGATTTAAATCCCA
6980526 GAAA
1 GAAA
6980530 GTTCTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (23 bp):
GAAAATTTAGGATTTAAATCCCA
Found at i:6980787 original size:17 final size:15
Alignment explanation
Indices: 6980758--6980800 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 15
6980748 AACTAGTAAC
6980758 AAAAAAAAATTCCAA
1 AAAAAAAAATTCCAA
6980773 AAAAAGAAAATTTCCATA
1 AAAAA-AAAA-TTCCA-A
6980791 AACAAAAAAA
1 AA-AAAAAAA
6980801 AAATTCGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 5 0.21
16 4 0.17
17 5 0.21
18 7 0.29
19 3 0.12
ACGTcount: A:0.72, C:0.12, G:0.02, T:0.14
Consensus pattern (15 bp):
AAAAAAAAATTCCAA
Found at i:6981318 original size:25 final size:25
Alignment explanation
Indices: 6981290--6981348 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
6981280 TTTTAAAAAT
6981290 TTTTATTTCATCTTATTTCATTTTA
1 TTTTATTTCATCTTATTTCATTTTA
6981315 TTTTATTTCATCTTATTTCATTTTA
1 TTTTATTTCATCTTATTTCATTTTA
6981340 --TTATTTCAT
1 TTTTATTTCAT
6981349 TTTGTTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 9 0.26
25 25 0.74
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.68
Consensus pattern (25 bp):
TTTTATTTCATCTTATTTCATTTTA
Found at i:6981320 original size:15 final size:15
Alignment explanation
Indices: 6981290--6981363 Score: 57
Period size: 15 Copynumber: 5.1 Consensus size: 15
6981280 TTTTAAAAAT
*
6981290 TTTTATTTCATCTT-A
1 TTTTATTTTAT-TTCA
* *
6981305 TTTCATTTTATTTTA
1 TTTTATTTTATTTCA
* *
6981320 TTTCATCTTATTTCA
1 TTTTATTTTATTTCA
6981335 TTTTA--TTATTTCA
1 TTTTATTTTATTTCA
*
6981348 TTTTGTTTTA-TTCA
1 TTTTATTTTATTTCA
6981362 TT
1 TT
6981364 ATATGATATT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
13 12 0.24
14 8 0.16
15 30 0.60
ACGTcount: A:0.19, C:0.11, G:0.01, T:0.69
Consensus pattern (15 bp):
TTTTATTTTATTTCA
Found at i:6981379 original size:38 final size:38
Alignment explanation
Indices: 6981302--6981379 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
6981292 TTATTTCATC
*
6981302 TTATTTCATTTTATTTTATTTCATCTTATTTCATTTTA
1 TTATTTCATTTTATTTTATTTCATCTTATATCATTTTA
* * *
6981340 TTATTTCATTTTGTTTTA-TTCA--TTATATGATATTA
1 TTATTTCATTTTATTTTATTTCATCTTATATCATTTTA
6981375 TTATT
1 TTATT
6981380 GTTTATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 15 0.42
37 4 0.11
38 17 0.47
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.67
Consensus pattern (38 bp):
TTATTTCATTTTATTTTATTTCATCTTATATCATTTTA
Found at i:6981974 original size:50 final size:52
Alignment explanation
Indices: 6981895--6981997 Score: 122
Period size: 50 Copynumber: 2.0 Consensus size: 52
6981885 ATCTCGTCAG
* * *
6981895 AAAGTTGGGATGATCCTAAAATCTATTTAA-A-ATTTTTAAGATTTTGTTAA
1 AAAGTTGGGATAATCCTAAAATCTATTTAATATAATTTTAAGATTTTGCTAA
** *
6981945 AAAGTTGGGATAATTTTAAAATC-AGTTTAATATAATTTTGAGATTTTGCTAA
1 AAAGTTGGGATAATCCTAAAATCTA-TTTAATATAATTTTAAGATTTTGCTAA
6981997 A
1 A
6981998 GTACGAGATA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
49 1 0.02
50 25 0.57
51 1 0.02
52 17 0.39
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.42
Consensus pattern (52 bp):
AAAGTTGGGATAATCCTAAAATCTATTTAATATAATTTTAAGATTTTGCTAA
Found at i:6989719 original size:28 final size:28
Alignment explanation
Indices: 6989686--6989743 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
6989676 AAGTGAGAAT
*
6989686 GTGTGTTGATTATCAGGATCTGAATAGA
1 GTGTGTTGATTATCAAGATCTGAATAGA
*
6989714 GTGTGTTGATTATCAAGATCTTAATAGA
1 GTGTGTTGATTATCAAGATCTGAATAGA
6989742 GT
1 GT
6989744 AAGTCTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.26, T:0.38
Consensus pattern (28 bp):
GTGTGTTGATTATCAAGATCTGAATAGA
Found at i:6994011 original size:40 final size:40
Alignment explanation
Indices: 6993894--6994164 Score: 248
Period size: 41 Copynumber: 6.8 Consensus size: 40
6993884 TCCTCTCAGA
* * ** *
6993894 TTTTTAAATTTAAAGTTTCATTGCCTTTAGCCAGAGGAGC
1 TTTTTAAATTTAAAGTTTCATTGCCTCTGGTTAGAAGAGC
* * *
6993934 TTTTTAAATTCTAAAGTTTCATTGTCTTTGGTCAGAAGAGC
1 TTTTTAAATT-TAAAGTTTCATTGCCTCTGGTTAGAAGAGC
6993975 TTTTTAAATTTAAAGTTTCATTGCCTCTGGTTAGAAGAGC
1 TTTTTAAATTTAAAGTTTCATTGCCTCTGGTTAGAAGAGC
* * * * *
6994015 ------CATTTAAAGTTTCATTTCCTCTAGTCAGAGGAGC
1 TTTTTAAATTTAAAGTTTCATTGCCTCTGGTTAGAAGAGC
* * * *
6994049 CTTTTAAATTTAAAGTTTCATGGCCTTTGCTTAGAAGAGC
1 TTTTTAAATTTAAAGTTTCATTGCCTCTGGTTAGAAGAGC
* * * * *
6994089 TTTTTAAATTTTTAAGTTTCATTACCTCTAGTTAGAGGTGC
1 TTTTTAAA-TTTAAAGTTTCATTGCCTCTGGTTAGAAGAGC
* * *
6994130 CTTTTAAATTTTAAAGTTTTAGTGCCTCTGGTTAG
1 TTTTTAAA-TTTAAAGTTTCATTGCCTCTGGTTAG
6994165 TGAGCCATTT
Statistics
Matches: 188, Mismatches: 35, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
34 29 0.15
40 70 0.37
41 89 0.47
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (40 bp):
TTTTTAAATTTAAAGTTTCATTGCCTCTGGTTAGAAGAGC
Found at i:6994025 original size:34 final size:34
Alignment explanation
Indices: 6993982--6994056 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
6993972 AGCTTTTTAA
* *
6993982 ATTTAAAGTTTCATTGCCTCTGGTTAGAAGAGCC
1 ATTTAAAGTTTCATTGCCTCTAGTCAGAAGAGCC
* *
6994016 ATTTAAAGTTTCATTTCCTCTAGTCAGAGGAGCC
1 ATTTAAAGTTTCATTGCCTCTAGTCAGAAGAGCC
*
6994050 TTTTAAA
1 ATTTAAA
6994057 TTTAAAGTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (34 bp):
ATTTAAAGTTTCATTGCCTCTAGTCAGAAGAGCC
Found at i:6994042 original size:74 final size:74
Alignment explanation
Indices: 6993945--6994184 Score: 250
Period size: 74 Copynumber: 3.1 Consensus size: 74
6993935 TTTTAAATTC
* * * *
6993945 TAAAGTTTCATTGT-CTTTGGTCAGAAGAGCTTTTTAAATTTAAAGTTTCATTGCCTCTGGTTAG
1 TAAAGTTTCATT-TCCTCTAGTCAGAGGAGCCTTTTAAATTTAAAGTTTCATTGCCTCTGGTTAG
6994009 AAGAGCCATT
65 AAGAGCCATT
* * *
6994019 TAAAGTTTCATTTCCTCTAGTCAGAGGAGCCTTTTAAATTTAAAGTTTCATGGCCTTTGCTTAGA
1 TAAAGTTTCATTTCCTCTAGTCAGAGGAGCCTTTTAAATTTAAAGTTTCATTGCCTCTGGTTAGA
*
6994084 AGAGCTTTTTAAATTT
66 AGAGC------CA-TT
* * * * * *
6994100 TTAAGTTTCATTACCTCTAGTTAGAGGTGCCTTTTAAATTTTAAAGTTTTAGTGCCTCTGGTTAG
1 TAAAGTTTCATTTCCTCTAGTCAGAGGAGCCTTTTAAA-TTTAAAGTTTCATTGCCTCTGGTTAG
*
6994165 -TGAGCCATT
65 AAGAGCCATT
6994174 TAAAGTTTCAT
1 TAAAGTTTCAT
6994185 AGCTTATAGT
Statistics
Matches: 137, Mismatches: 20, Indels: 18
0.78 0.11 0.10
Matches are distributed among these distances:
73 1 0.01
74 73 0.53
75 1 0.01
80 1 0.01
81 40 0.29
82 21 0.15
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.42
Consensus pattern (74 bp):
TAAAGTTTCATTTCCTCTAGTCAGAGGAGCCTTTTAAATTTAAAGTTTCATTGCCTCTGGTTAGA
AGAGCCATT
Found at i:6994137 original size:115 final size:115
Alignment explanation
Indices: 6993901--6994124 Score: 333
Period size: 115 Copynumber: 1.9 Consensus size: 115
6993891 AGATTTTTAA
* * * * *
6993901 ATTTAAAGTTTCATTGCCTTTAGCCAGAGGAGCTTTTTAAATTCTAAAGTTTCATTGTCTTTGGT
1 ATTTAAAGTTTCATTGCCTCTAGCCAGAGGAGCCTTTTAAATTCTAAAGTTTCATGGCCTTTGCT
* *
6993966 CAGAAGAGCTTTTTAAATTTAAAGTTTCATTGCCTCTGGTTAGAAGAGCC
66 CAGAAGAGCTTTTTAAATTTAAAGTTTCATTACCTCTAGTTAGAAGAGCC
* *
6994016 ATTTAAAGTTTCATTTCCTCTAGTCAGAGGAGCCTTTTAAATT-TAAAGTTTCATGGCCTTTGCT
1 ATTTAAAGTTTCATTGCCTCTAGCCAGAGGAGCCTTTTAAATTCTAAAGTTTCATGGCCTTTGCT
* *
6994080 TAGAAGAGCTTTTTAAATTTTTAAGTTTCATTACCTCTAGTTAGA
66 CAGAAGAGCTTTTTAAA-TTTAAAGTTTCATTACCTCTAGTTAGA
6994125 GGTGCCTTTT
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
114 34 0.35
115 63 0.65
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.42
Consensus pattern (115 bp):
ATTTAAAGTTTCATTGCCTCTAGCCAGAGGAGCCTTTTAAATTCTAAAGTTTCATGGCCTTTGCT
CAGAAGAGCTTTTTAAATTTAAAGTTTCATTACCTCTAGTTAGAAGAGCC
Found at i:6994176 original size:81 final size:81
Alignment explanation
Indices: 6994021--6994177 Score: 201
Period size: 81 Copynumber: 1.9 Consensus size: 81
6994011 GAGCCATTTA
* *
6994021 AAGTTTCATTTCCTCTAGTCAGAGGAGCCTTTTAAATTTAAAGTTTCATGGCCTTTGCTTAGAAG
1 AAGTTTCATTACCTCTAGTCAGAGGAGCCTTTTAAATTTAAAGTTTCATGGCCTCTGCTTAGAAG
**
6994086 AGCTTTTTAAATTTTT
66 AGCCATTTAAATTTTT
* * * *
6994102 AAGTTTCATTACCTCTAGTTAGAGGTGCCTTTTAAATTTTAAAGTTTTA-GTGCCTCTGGTTAG-
1 AAGTTTCATTACCTCTAGTCAGAGGAGCCTTTTAAA-TTTAAAGTTTCATG-GCCTCTGCTTAGA
*
6994165 TGAGCCATTTAAA
64 AGAGCCATTTAAA
6994178 GTTTCATAGC
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 44 0.68
82 21 0.32
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (81 bp):
AAGTTTCATTACCTCTAGTCAGAGGAGCCTTTTAAATTTAAAGTTTCATGGCCTCTGCTTAGAAG
AGCCATTTAAATTTTT
Found at i:6994177 original size:155 final size:155
Alignment explanation
Indices: 6993895--6994184 Score: 404
Period size: 155 Copynumber: 1.9 Consensus size: 155
6993885 CCTCTCAGAT
* * **
6993895 TTTTAAATTTAAAGTTTCATTGCCTTTAGCCAGAGGAGCTTTTTAAATTCTAAAGTTTCATTGTC
1 TTTTAAATTTAAAGTTTCATGGCCTTTAGCCAGAAGAGCTTTTTAAATTCTAAAGTTTCATTACC
* * * *
6993960 TTTGGTCAGAAGAGCTTTTTAAATTTAAAGTTTCATTGCCTCTGGTTAGAAGAGCCATTTAAAGT
66 TCTAGTCAGAAGAGCCTTTTAAATTTAAAGTTTCAGTGCCTCTGGTTAGAAGAGCCATTTAAAGT
6994025 TTCATTTCCTCTAGTCAGAGGAGCC
131 TTCATTTCCTCTAGTCAGAGGAGCC
* * *
6994050 TTTTAAATTTAAAGTTTCATGGCCTTT-GCTTAGAAGAGCTTTTTAAATTTTTAAGTTTCATTAC
1 TTTTAAATTTAAAGTTTCATGGCCTTTAGC-CAGAAGAGCTTTTTAAATTCTAAAGTTTCATTAC
* * * * *
6994114 CTCTAGTTAGAGGTGCCTTTTAAATTTTAAAGTTTTAGTGCCTCTGGTTAG-TGAGCCATTTAAA
65 CTCTAGTCAGAAGAGCCTTTTAAA-TTTAAAGTTTCAGTGCCTCTGGTTAGAAGAGCCATTTAAA
6994178 GTTTCAT
129 GTTTCAT
6994185 AGCTTATAGT
Statistics
Matches: 117, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
154 2 0.02
155 91 0.78
156 24 0.21
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (155 bp):
TTTTAAATTTAAAGTTTCATGGCCTTTAGCCAGAAGAGCTTTTTAAATTCTAAAGTTTCATTACC
TCTAGTCAGAAGAGCCTTTTAAATTTAAAGTTTCAGTGCCTCTGGTTAGAAGAGCCATTTAAAGT
TTCATTTCCTCTAGTCAGAGGAGCC
Found at i:6998971 original size:26 final size:25
Alignment explanation
Indices: 6998942--6998990 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
6998932 CCTCTTTTTC
*
6998942 TTTTATTTTGATTTTGATTTTTTTGA
1 TTTTACTTTGATTTTG-TTTTTTTGA
* *
6998968 TTTTGCTTTGTTTTTGTTTTTTT
1 TTTTACTTTGATTTTGTTTTTTT
6998991 AATTAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.08, C:0.02, G:0.12, T:0.78
Consensus pattern (25 bp):
TTTTACTTTGATTTTGTTTTTTTGA
Found at i:6999459 original size:22 final size:22
Alignment explanation
Indices: 6999382--6999455 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
6999372 AATGTTTTGC
*
6999382 CCAGAGGTCTTAAAGATTATG-
1 CCAGAGGTCTTAGAGATTATGT
* *
6999403 CTCAAAGGTCTTAGAGATTATAT
1 C-CAGAGGTCTTAGAGATTATGT
* *
6999426 -CTGAAGGTTTTAGAGATTATGT
1 CCAG-AGGTCTTAGAGATTATGT
6999448 CCAGAGGT
1 CCAGAGGT
6999456 TTTACAAATC
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
21 2 0.05
22 37 0.90
23 2 0.05
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.32
Consensus pattern (22 bp):
CCAGAGGTCTTAGAGATTATGT
Found at i:6999538 original size:148 final size:148
Alignment explanation
Indices: 6999260--6999571 Score: 362
Period size: 148 Copynumber: 2.1 Consensus size: 148
6999250 TTTTATGTAG
* *
6999260 AGGTCTTACAGATTATACCCGGAGGTTTTGTAGATTATGCCCAAAAGTCTTACAAATTTCAACAT
1 AGGTCTTAGAGATTATACCCGAAGGTTTTGTAGATTATGCCCAAAAGTCTTACAAATTTCAACAT
* * * * * * *
6999325 CATTGAATGGTCCTTATATCAAATACTTTGAAGCATTGAAAATTTAAAATGTTTTGCCCAGAGGT
66 CATTGAATGCTCCTTATATCAAAGACATCGAAACATTGAAAATTTAAAATGTTTTACCCAAAGGT
6999390 CTT-AAAGATTATG-CTCAA
131 CTTGAAA-ATTATGCCT-AA
* * * * * *
6999408 AGGTCTTAGAGATTATATCTGAAGGTTTTAG-AGATTATGTCCAGAGGTTTTACAAATCTT-AAC
1 AGGTCTTAGAGATTATACCCGAAGGTTTT-GTAGATTATGCCCAAAAGTCTTACAAAT-TTCAAC
* * * *
6999471 ATCTTTGAATGCTCCTTATATCAAAGGCATCGAAACTTTGAAATTTTAAAATGTTTTACCCAAAG
64 ATCATTGAATGCTCCTTATATCAAAGACATCGAAACATTGAAAATTTAAAATGTTTTACCCAAAG
* *
6999536 GTCTTGGAAATTATGCCTGA
129 GTCTTGAAAATTATGCCTAA
*
6999556 AGGTCTTAGGGATTAT
1 AGGTCTTAGAGATTAT
6999572 GATCAGAGAT
Statistics
Matches: 138, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
148 131 0.95
149 7 0.05
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (148 bp):
AGGTCTTAGAGATTATACCCGAAGGTTTTGTAGATTATGCCCAAAAGTCTTACAAATTTCAACAT
CATTGAATGCTCCTTATATCAAAGACATCGAAACATTGAAAATTTAAAATGTTTTACCCAAAGGT
CTTGAAAATTATGCCTAA
Found at i:6999632 original size:126 final size:125
Alignment explanation
Indices: 6999405--6999697 Score: 349
Period size: 126 Copynumber: 2.3 Consensus size: 125
6999395 AGATTATGCT
* * * * * *
6999405 CAAAGGTCTTAGAGATTATATCTGAAGGTTTTAGAGATTATGTCCAGAGGTTTTACAAATCTTAA
1 CAAAGGTCTTGGAAATTAT-GCTGAAGGTCTTAGAGATTATGTCCAGAGATCTTACAAATCTTAA
* * *
6999470 CATCTTTGAATGCTCCTTATATCAAAGGCATCGAAACTTTGAAATTTTAAAATGTTTTACC
65 CATCTTTGAATGCTCCTCATATCAAAGGCATCGAAACTTTGAAAATTTAAAATCTTTTACC
* *
6999531 CAAAGGTCTTGGAAATTATGCCTGAAGGTCTTAGGGATTATGAT-CAGAGATCTTACAAATCTTG
1 CAAAGGTCTTGGAAATTATG-CTGAAGGTCTTAGAGATTATG-TCCAGAGATCTTACAAATCTTA
* * *
6999595 ATATCTTTGAATGCTTCC-CATATCAGAA-GCATTGAAACTTTGAAAATTTAAAATCTTTTATC
64 ACATCTTTGAATGC-TCCTCATATCA-AAGGCATCGAAACTTTGAAAATTTAAAATCTTTTACC
* * * *
6999657 CAGACGTATTGAAAATTATGCTGGAAGGTCTTAGAGATTAT
1 CAAAGGTCTTGGAAATTATGCT-GAAGGTCTTAGAGATTAT
6999698 ACTTGAAGGT
Statistics
Matches: 143, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
125 2 0.01
126 135 0.94
127 6 0.04
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (125 bp):
CAAAGGTCTTGGAAATTATGCTGAAGGTCTTAGAGATTATGTCCAGAGATCTTACAAATCTTAAC
ATCTTTGAATGCTCCTCATATCAAAGGCATCGAAACTTTGAAAATTTAAAATCTTTTACC
Found at i:6999705 original size:22 final size:22
Alignment explanation
Indices: 6999671--6999733 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
6999661 CGTATTGAAA
*
6999671 ATTATGCTGGAAGGTCTTAGAG
1 ATTATGCTCGAAGGTCTTAGAG
* *
6999693 ATTATACTTGAAGGTCTTAGAG
1 ATTATGCTCGAAGGTCTTAGAG
*
6999715 ATTATGCCCGAAGGTCTTA
1 ATTATGCTCGAAGGTCTTA
6999734 CAAATCTCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (22 bp):
ATTATGCTCGAAGGTCTTAGAG
Found at i:6999823 original size:148 final size:148
Alignment explanation
Indices: 6999533--6999801 Score: 369
Period size: 148 Copynumber: 1.8 Consensus size: 148
6999523 GTTTTACCCA
* * * * ** *
6999533 AAGGTCTTGGAAATTATGCCTGAAGGTCTTAGGGATTATGATCAGAGATCTTACAAATCTTGATA
1 AAGGTCTTAGAAATTATACCTGAAGGTCTTAGAGATTATGACCAGAGATCTTACAAATCTCAACA
** *
6999598 TCTTTGAATGCTTCCCATATCAGAAGCATTGAAACTTTGAAAATTTAAAATCTTTTATCCAGACG
66 TCTTTGAATGCAACCCATATAAGAAGCATTGAAACTTTGAAAATTTAAAATCTTTTATCCAGACG
6999663 TATTGAAAATTATGCTGG
131 TATTGAAAATTATGCTGG
* * * *
6999681 AAGGTCTTAGAGATTATACTTGAAGGTCTTAGAGATTATG-CCCGAAGGTCTTACAAATCTCAAC
1 AAGGTCTTAGAAATTATACCTGAAGGTCTTAGAGATTATGACCAG-AGATCTTACAAATCTCAAC
* * *
6999745 ATCTTTGAATGCAACTCGTATAAGAAGCATTGAAACTTTGAAAATTTAAAATGTTTT
65 ATCTTTGAATGCAACCCATATAAGAAGCATTGAAACTTTGAAAATTTAAAATCTTTT
6999802 GACTAGGGGT
Statistics
Matches: 103, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
147 2 0.02
148 101 0.98
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (148 bp):
AAGGTCTTAGAAATTATACCTGAAGGTCTTAGAGATTATGACCAGAGATCTTACAAATCTCAACA
TCTTTGAATGCAACCCATATAAGAAGCATTGAAACTTTGAAAATTTAAAATCTTTTATCCAGACG
TATTGAAAATTATGCTGG
Found at i:6999853 original size:103 final size:103
Alignment explanation
Indices: 6999702--7000005 Score: 334
Period size: 103 Copynumber: 3.0 Consensus size: 103
6999692 GATTATACTT
* ** * *
6999702 GAAGGTCTTAGAGATTATGCCCGAAGGTCTTACAAATCTCAACATCTTTGAATGCAACTCGTATA
1 GAAGGTCTTAGAGATTATGACCTCAGGTCTTACAAATCTTAACATCTTTGAATGC-TCTCGTATA
*
6999767 AGAAGCATTGAAACTTTGAAAATTTAAAATGTTTTGACTA
65 AGAGGCATTGAAACTTTGAAAATTTAAAATGTTTTG-CTA
* * * * *
6999807 G-GGGTCTTGGAGATTAT-ACTTGGAGGT-TTACAAATCTTAACATCTTTGAATGCTTTTCGTAT
1 GAAGGTCTTAGAGATTATGACCT-CAGGTCTTACAAATCTTAACATCTTTGAATGC-TCTCGTAT
* *
6999869 CAA-AGGCATTGAAAATTTGAAAATTTAAAATGTTTTGCTT
64 -AAGAGGCATTGAAACTTTGAAAATTTAAAATGTTTTGCTA
* * *
6999909 GAAGGTCTTATAGATTATGCCCTCAGGTCTTACAAATTTTAACATCTTTGAATGCTCAT-GT-T-
1 GAAGGTCTTAGAGATTATGACCTCAGGTCTTACAAATCTTAACATCTTTGAATGCTC-TCGTATA
* * *
6999971 AGAGGTATTGGAACTTTGAAAATTTATAATGTTTT
65 AGAGGCATTGAAACTTTGAAAATTTAAAATGTTTT
7000006 ACCCAGAGGT
Statistics
Matches: 167, Mismatches: 25, Indels: 18
0.80 0.12 0.09
Matches are distributed among these distances:
100 1 0.01
101 29 0.17
102 4 0.02
103 84 0.50
104 48 0.29
105 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (103 bp):
GAAGGTCTTAGAGATTATGACCTCAGGTCTTACAAATCTTAACATCTTTGAATGCTCTCGTATAA
GAGGCATTGAAACTTTGAAAATTTAAAATGTTTTGCTA
Found at i:7000281 original size:28 final size:28
Alignment explanation
Indices: 7000227--7000292 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
7000217 TAGGCTTTTA
*
7000227 TTTTTATTTTCATTATTTAATATATATAT
1 TTTTTATTTTCATTATCTAATATATAT-T
** *
7000256 TTTTTATTTTTTTTATCTATTA-ATATT
1 TTTTTATTTTCATTATCTAATATATATT
7000283 TTTATTATTT
1 TTT-TTATTT
7000293 ATCTGTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 4 0.12
28 10 0.31
29 18 0.56
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (28 bp):
TTTTTATTTTCATTATCTAATATATATT
Found at i:7000301 original size:17 final size:17
Alignment explanation
Indices: 7000279--7000383 Score: 71
Period size: 17 Copynumber: 6.4 Consensus size: 17
7000269 TATCTATTAA
7000279 TATTTTTATTATTTATC
1 TATTTTTATTATTTATC
*
7000296 TGTTTTTA-T-TTT-T-
1 TATTTTTATTATTTATC
*
7000309 TATTATTATTATTTATC
1 TATTTTTATTATTTATC
7000326 TATTTCTT-TTATTTATC
1 TATTT-TTATTATTTATC
* *
7000343 TAATTATTTTTTTTGTTATC
1 T-ATT-TTTATTAT-TTATC
**
7000363 TATTAATA-TATTTATC
1 TATTTTTATTATTTATC
7000379 T-TTTT
1 TATTTT
7000384 ATTTTGATTA
Statistics
Matches: 68, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
13 6 0.09
14 2 0.03
15 8 0.12
16 8 0.12
17 23 0.34
18 8 0.12
19 7 0.10
20 6 0.09
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (17 bp):
TATTTTTATTATTTATC
Found at i:7000341 original size:30 final size:30
Alignment explanation
Indices: 7000224--7000350 Score: 91
Period size: 30 Copynumber: 4.1 Consensus size: 30
7000214 CAATAGGCTT
*
7000224 TTATTT-T-TATTTTCATTATTTAATATATATA
1 TTATTTATCTATTTTTATTATTT-AT-TAT-TA
* * *
7000255 TTTTTTAT-TTTTTTTATCTATTAATATTTTTA
1 TTATTTATCTATTTTTAT-TATT--TATTATTA
* *
7000287 TTATTTATCTGTTTTTATTTTTTATTATTA
1 TTATTTATCTATTTTTATTATTTATTATTA
7000317 TTATTTATCTATTTCTT-TTATTTATCTAATTA
1 TTATTTATCTATTT-TTATTATTTAT-T-ATTA
7000349 TT
1 TT
7000351 TTTTTTGTTA
Statistics
Matches: 78, Mismatches: 10, Indels: 15
0.76 0.10 0.15
Matches are distributed among these distances:
30 27 0.35
31 8 0.10
32 26 0.33
33 14 0.18
34 2 0.03
35 1 0.01
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.70
Consensus pattern (30 bp):
TTATTTATCTATTTTTATTATTTATTATTA
Found at i:7000343 original size:47 final size:52
Alignment explanation
Indices: 7000279--7000383 Score: 125
Period size: 47 Copynumber: 2.1 Consensus size: 52
7000269 TATCTATTAA
*
7000279 TATTTTTATTATTTATCT-GTT-TTTATTTT-TTAT-TATT-AT-TATTTATC
1 TATTTTT-TTATTTATCTAATTATTTATTTTGTTATCTATTAATATATTTATC
*
7000326 TATTTCTTTTATTTATCTAATTATTTTTTTTGTTATCTATTAATATATTTATC
1 TATTT-TTTTATTTATCTAATTATTTATTTTGTTATCTATTAATATATTTATC
7000379 T-TTTT
1 TATTTT
7000384 ATTTTGATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
47 15 0.31
48 4 0.08
49 7 0.14
50 4 0.08
51 5 0.10
52 5 0.10
53 9 0.18
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (52 bp):
TATTTTTTTATTTATCTAATTATTTATTTTGTTATCTATTAATATATTTATC
Found at i:7000355 original size:20 final size:21
Alignment explanation
Indices: 7000326--7000364 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
7000316 ATTATTTATC
7000326 TATTTCTTTTAT-TTATCTAAT
1 TATTTCTTTT-TGTTATCTAAT
7000347 TATTT-TTTTTGTTATCTA
1 TATTTCTTTTTGTTATCTA
7000365 TTAATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 11 0.65
21 5 0.29
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (21 bp):
TATTTCTTTTTGTTATCTAAT
Found at i:7000361 original size:24 final size:23
Alignment explanation
Indices: 7000253--7000387 Score: 73
Period size: 24 Copynumber: 5.7 Consensus size: 23
7000243 TTAATATATA
*
7000253 TATTTTTTATTTTTTTTATCT-AT
1 TATTTTTT-TTTTATTTATCTAAT
* * *
7000276 TAATATTTTTATTATTTATCT-GT
1 T-ATTTTTTTTTTATTTATCTAAT
* *
7000299 T-TTTATTTTTTATTATTAT-TATT
1 TATTTTTTTTTTA-T-TTATCTAAT
*
7000322 TATCTATTTCTTTTATTTATCTAAT
1 TAT-T-TTTTTTTTATTTATCTAAT
*
7000347 TATTTTTTTTGTTATCTAT-TAAT
1 TATTTTTTTT-TTATTTATCTAAT
*
7000370 ATATTTATCTTTTTATTT
1 -TATTT-TTTTTTTATTT
7000388 TGATTAATTT
Statistics
Matches: 86, Mismatches: 15, Indels: 21
0.70 0.12 0.17
Matches are distributed among these distances:
21 8 0.09
22 2 0.02
23 28 0.33
24 29 0.34
25 12 0.14
26 7 0.08
ACGTcount: A:0.22, C:0.05, G:0.01, T:0.71
Consensus pattern (23 bp):
TATTTTTTTTTTATTTATCTAAT
Found at i:7001245 original size:11 final size:11
Alignment explanation
Indices: 7001225--7001310 Score: 56
Period size: 11 Copynumber: 7.8 Consensus size: 11
7001215 TTTTTTTTCA
7001225 TTTTTT-TTAT
1 TTTTTTATTAT
7001235 TTTTTTATTAT
1 TTTTTTATTAT
*
7001246 TATTATTATTAGAT
1 T-TTTTTATT--AT
* *
7001260 TTGTTTAATAT
1 TTTTTTATTAT
7001271 TTTTTTA--AT
1 TTTTTTATTAT
*
7001280 TTTATT-TTAT
1 TTTTTTATTAT
7001290 TTCTATTT-TTAT
1 TT-T-TTTATTAT
7001302 TTTTTTATT
1 TTTTTTATT
7001311 TTATTTTCTT
Statistics
Matches: 60, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
9 7 0.12
10 13 0.22
11 17 0.28
12 15 0.25
13 5 0.08
14 3 0.05
ACGTcount: A:0.21, C:0.01, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTTTTATTAT
Found at i:7001296 original size:6 final size:5
Alignment explanation
Indices: 7001214--7001317 Score: 54
Period size: 5 Copynumber: 19.8 Consensus size: 5
7001204 GTTCCCAGGT
* * * *
7001214 TTTTT TTTTCA TTTT- TTTTA TTTTT TTATTA TTATTA TTATTA GATTTG
1 TTTTA TTTT-A TTTTA TTTTA TTTTA TT-TTA TT-TTA TT-TTA -TTTTA
*
7001263 TTTAATA TTTT- TTTAA TTTTA TTTTA TTTCTA TTTT- TATTT- TTTTA
1 TTT--TA TTTTA TTTTA TTTTA TTTTA TTT-TA TTTTA T-TTTA TTTTA
7001309 TTTTA TTTT
1 TTTTA TTTT
7001318 CTTTAAATAA
Statistics
Matches: 80, Mismatches: 9, Indels: 20
0.73 0.08 0.18
Matches are distributed among these distances:
4 11 0.14
5 39 0.49
6 25 0.31
7 5 0.06
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:7001296 original size:25 final size:25
Alignment explanation
Indices: 7001268--7001316 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
7001258 ATTTGTTTAA
7001268 TATTTTT-TTAATTTTATTTTATTTC
1 TATTTTTATT-ATTTTATTTTATTTC
*
7001293 TATTTTTATTTTTTTATTTTATTT
1 TATTTTTATTATTTTATTTTATTT
7001317 TCTTTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (25 bp):
TATTTTTATTATTTTATTTTATTTC
Found at i:7001391 original size:44 final size:45
Alignment explanation
Indices: 7001330--7001414 Score: 129
Period size: 44 Copynumber: 1.9 Consensus size: 45
7001320 TTAAATAAAA
7001330 TTCAAAAAACTATTTTTGA-AGAAAAGTTGAAAGTATCAATTTTCT
1 TTCAAAAAACTATTTTTGAGA-AAAAGTTGAAAGTATCAATTTTCT
* *
7001375 TTCAAACAA-TATTTTTGGGAAAAAGTTGAAAGTATCAATT
1 TTCAAAAAACTATTTTTGAGAAAAAGTTGAAAGTATCAATT
7001415 CTCCTTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
44 28 0.76
45 9 0.24
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.36
Consensus pattern (45 bp):
TTCAAAAAACTATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCT
Found at i:7001522 original size:116 final size:114
Alignment explanation
Indices: 7001374--7001647 Score: 387
Period size: 116 Copynumber: 2.4 Consensus size: 114
7001364 ATCAATTTTC
* *
7001374 TTTCAAACAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTCTCCTTAAAAATAAGTTTTC-AA
1 TTTCAAA-AAAATTTTTGAGGAAAAAGTTGAAAGTATCAATT-TCCTTAAAAACAAGTTTTCAAA
7001437 AATGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAC-AAGT
64 AATGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC-TAGAAACAAAGT
7001488 TTTCAAAAGTGAAATTTTTGAGG-AAAAGTTGAAAGTATCAAATTTCCTTAAAAACAAGTTTTCA
1 TTTCAAAA---AAATTTTTGAGGAAAAAGTTGAAAGTATC-AATTTCCTTAAAAACAAGTTTTCA
* * *
7001552 AAAATGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAACTAAAGT
62 AAAATGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAC-AAAGT
7001606 TTTCAAAAAAATATTTT-AGGAAAAAGTTGAAAGTATCAATTT
1 TTTCAAAAAAAT-TTTTGAGGAAAAAGTTGAAAGTATCAATTT
7001648 TCCCTATATA
Statistics
Matches: 145, Mismatches: 5, Indels: 19
0.86 0.03 0.11
Matches are distributed among these distances:
113 1 0.01
114 7 0.05
115 12 0.08
116 68 0.47
117 45 0.31
118 12 0.08
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (114 bp):
TTTCAAAAAAATTTTTGAGGAAAAAGTTGAAAGTATCAATTTCCTTAAAAACAAGTTTTCAAAAA
TGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTAGAAACAAAGT
Found at i:7001528 original size:59 final size:57
Alignment explanation
Indices: 7001385--7001650 Score: 333
Period size: 58 Copynumber: 4.6 Consensus size: 57
7001375 TTCAAACAAT
* * *
7001385 ATTTTTG-GGAAAAAGTTGAAAGTATCAATTCTCCTTAAAAATAAGTTTTCAAAATGG
1 ATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAGTTTTCAAAATGA
*
7001442 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAACAAGTTTTCAAAAGTGAA
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAGTTTTCAAAA-TG-A
* *
7001501 ATTTTTGAGGAAAAGTTGAAAGTATCAAATTTCCTTAAAAACAAGTTTTCAAAAATGG
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAGTTTTC-AAAATGA
* * ** *
7001559 GTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC-TCGAAACTAAAGTTTTCAAAA-AA
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAC--AAGTTTTCAAAATGA
7001616 ATATTTT-AGGAAAAAGTTGAAAGTATCAATTTTCC
1 AT-TTTTGAGG-AAAAGTTGAAAGTATCAATTTTCC
7001651 CTATATAAAA
Statistics
Matches: 185, Mismatches: 16, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
57 57 0.31
58 66 0.36
59 58 0.31
60 4 0.02
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.35
Consensus pattern (57 bp):
ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAGTTTTCAAAATGA
Found at i:7001531 original size:28 final size:28
Alignment explanation
Indices: 7001442--7001532 Score: 71
Period size: 32 Copynumber: 3.1 Consensus size: 28
7001432 TTCAAAATGG
7001442 ATTTTTGAGGAAAAGTTGAAAGTATC-A
1 ATTTTTGAGGAAAAGTTGAAAGTATCAA
* * * *
7001469 ATTTTCCTTAGAAACAAGTTTTCAAA--AGTGAA
1 ATTTT--TGAGGAA-AAG--TTGAAAGTA-TCAA
7001501 ATTTTTGAGGAAAAGTTGAAAGTATCAA
1 ATTTTTGAGGAAAAGTTGAAAGTATCAA
7001529 ATTT
1 ATTT
7001533 CCTTAAAAAC
Statistics
Matches: 47, Mismatches: 8, Indels: 17
0.65 0.11 0.24
Matches are distributed among these distances:
27 10 0.21
28 7 0.15
29 9 0.19
30 9 0.19
31 1 0.02
32 11 0.23
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.35
Consensus pattern (28 bp):
ATTTTTGAGGAAAAGTTGAAAGTATCAA
Found at i:7001631 original size:58 final size:55
Alignment explanation
Indices: 7001374--7001650 Score: 274
Period size: 59 Copynumber: 4.8 Consensus size: 55
7001364 ATCAATTTTC
* * * *
7001374 TTTCAAACAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTCTCCTTAAAAATAAGT
1 TTTCAAA-AAAATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCC-TGAAACTAAGT
**
7001431 TTTCAAAATGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAC-AAGT
1 TTTCAAAA-AAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC-T-GAAACTAAGT
* *
7001488 TTTCAAAAGTGAAATTTTTGAGGAAAAGTTGAAAGTATCAAATTTCCTTAAAAAC-AAGT
1 TTTCAAAA---AAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC-T-GAAACTAAGT
** *
7001547 TTTCAAAAATGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAACTAAAGT
1 TTTCAAAAA--AATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-GAAACT-AAGT
7001606 TTTCAAAAAAATATTTT-AGGAAAAAGTTGAAAGTATCAATTTTCC
1 TTTCAAAAAAAT-TTTTGAGG-AAAAGTTGAAAGTATCAATTTTCC
7001651 CTATATAAAA
Statistics
Matches: 190, Mismatches: 19, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
56 2 0.01
57 60 0.32
58 63 0.33
59 65 0.34
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (55 bp):
TTTCAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTGAAACTAAGT
Found at i:7002823 original size:5 final size:5
Alignment explanation
Indices: 7002803--7002838 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
7002793 NNNNNNNNNN
*
7002803 ACAAA AAAAA AGCAAA ACAAA ACAAA ACAAA ACAAA
1 ACAAA ACAAA A-CAAA ACAAA ACAAA ACAAA ACAAA
7002839 GAAGAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.86
6 4 0.14
ACGTcount: A:0.81, C:0.17, G:0.03, T:0.00
Consensus pattern (5 bp):
ACAAA
Found at i:7002833 original size:15 final size:16
Alignment explanation
Indices: 7002803--7002860 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
7002793 NNNNNNNNNN
7002803 ACAAAAAAAAAGCAAA
1 ACAAAAAAAAAGCAAA
*
7002819 ACAAAACAAAA-CAAA
1 ACAAAAAAAAAGCAAA
**
7002834 ACAAAGAAGAAAAAAAAA
1 ACAAA-AA-AAAAGCAAA
7002852 ACAAAAAAA
1 ACAAAAAAA
7002861 GTGTCAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 9 0.25
16 13 0.36
17 6 0.17
18 8 0.22
ACGTcount: A:0.83, C:0.12, G:0.05, T:0.00
Consensus pattern (16 bp):
ACAAAAAAAAAGCAAA
Found at i:7002857 original size:10 final size:10
Alignment explanation
Indices: 7002803--7002860 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
7002793 NNNNNNNNNN
7002803 ACAAAAAAAA
1 ACAAAAAAAA
*
7002813 AGCAAAACAAA
1 A-CAAAAAAAA
*
7002824 ACAAAACAAA
1 ACAAAAAAAA
* *
7002834 AC-AAAGAAG
1 ACAAAAAAAA
7002843 A-AAAAAAAA
1 ACAAAAAAAA
7002852 ACAAAAAAA
1 ACAAAAAAA
7002861 GTGTCAAGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 12 0.30
10 19 0.47
11 9 0.22
ACGTcount: A:0.83, C:0.12, G:0.05, T:0.00
Consensus pattern (10 bp):
ACAAAAAAAA
Found at i:7003133 original size:17 final size:16
Alignment explanation
Indices: 7003083--7003208 Score: 87
Period size: 16 Copynumber: 8.4 Consensus size: 16
7003073 ATATATATAT
*
7003083 TTTTATT-TTTAT-TT
1 TTTTATTATTTATCTA
* *
7003097 TTTTATCTATTAATAT-
1 TTTTAT-TATTTATCTA
7003113 TTTTATTATTTATCTA
1 TTTTATTATTTATCTA
*
7003129 -CTT-TTATTTAT-TA
1 TTTTATTATTTATCTA
7003142 --TTATTATTTATCTA
1 TTTTATTATTTATCTA
*
7003156 TTTTTTTATTTATCTA
1 TTTTATTATTTATCTA
7003172 TTTT-TT-TGTTATCTA
1 TTTTATTAT-TTATCTA
*
7003187 -TTAATATATTTATCT-
1 TTTTAT-TATTTATCTA
7003202 TTTTATT
1 TTTTATT
7003209 TTGATTAATT
Statistics
Matches: 92, Mismatches: 7, Indels: 25
0.74 0.06 0.20
Matches are distributed among these distances:
12 2 0.02
13 10 0.11
14 19 0.21
15 21 0.23
16 38 0.41
17 2 0.02
ACGTcount: A:0.23, C:0.06, G:0.01, T:0.71
Consensus pattern (16 bp):
TTTTATTATTTATCTA
Found at i:7003140 original size:27 final size:25
Alignment explanation
Indices: 7003051--7003166 Score: 94
Period size: 27 Copynumber: 4.4 Consensus size: 25
7003041 CCCAATGGGC
*
7003051 TTTTATTT-TTTTTCATTATTTAATATA
1 TTTT-TTTATTTTT-ATTATTT-ATCTA
*
7003078 TATATTTTTATTTTTATTTTTTTATCTA
1 T-T-TTTTTATTTTTA-TTATTTATCTA
**
7003106 --TTAATATTTTTATTATTTATCTA
1 TTTTTTTATTTTTATTATTTATCTA
*
7003129 CTTTTATTTATTATTATTATTTATCTA
1 -TTTT-TTTATTTTTATTATTTATCTA
7003156 TTTTTTTATTT
1 TTTTTTTATTT
7003167 ATCTATTTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 18
0.73 0.09 0.18
Matches are distributed among these distances:
23 10 0.14
24 10 0.14
25 6 0.08
26 6 0.08
27 19 0.26
28 9 0.12
29 12 0.17
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (25 bp):
TTTTTTTATTTTTATTATTTATCTA
Found at i:7003171 original size:43 final size:43
Alignment explanation
Indices: 7003110--7003209 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 43
7003100 TATCTATTAA
*
7003110 TATTTTTATTATTTATCTACTTTTATTTATTAT-TATT-ATTTATC
1 TATTTTT-TTATTTATCTA-TTTT-TTTATTATCTATTAATATATC
* *
7003154 TATTTTTTTATTTATCTATTTTTTTGTTATCTATTAATATATT
1 TATTTTTTTATTTATCTATTTTTTTATTATCTATTAATATATC
*
7003197 TATCTTTTTATTT
1 TATTTTTTTATTT
7003210 TGATTAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
41 7 0.14
42 8 0.16
43 28 0.56
44 7 0.14
ACGTcount: A:0.23, C:0.06, G:0.01, T:0.70
Consensus pattern (43 bp):
TATTTTTTTATTTATCTATTTTTTTATTATCTATTAATATATC
Found at i:7003187 original size:31 final size:31
Alignment explanation
Indices: 7003112--7003211 Score: 87
Period size: 31 Copynumber: 3.2 Consensus size: 31
7003102 TCTATTAATA
* *
7003112 TTTTTATTATTTATCTACTTTTATTTAT-TATT
1 TTTTTGTTATCTAT-TA-TTTTATTTATCTATT
* * *
7003144 ATTAT-TTATCTATTTTTTTATTTATCTATT
1 TTTTTGTTATCTATTATTTTATTTATCTATT
* * *
7003174 TTTTTGTTATCTATTAATATATTTATCTTTT
1 TTTTTGTTATCTATTATTTTATTTATCTATT
7003205 TATTTTG
1 T-TTTTG
7003212 ATTAATTTTC
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
29 10 0.18
30 8 0.15
31 29 0.53
32 8 0.15
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (31 bp):
TTTTTGTTATCTATTATTTTATTTATCTATT
Found at i:7004102 original size:5 final size:5
Alignment explanation
Indices: 7004088--7004135 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
7004078 TGTTTAATAT
* *
7004088 TTTTT TTTTA TTTTA TTTACA TTTTA TTTTA TTTTA --TTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTT-TA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
7004136 CTTTAAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
3 3 0.08
5 30 0.81
6 4 0.11
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:7004303 original size:58 final size:58
Alignment explanation
Indices: 7004152--7004367 Score: 292
Period size: 58 Copynumber: 3.7 Consensus size: 58
7004142 ATAAAATTCA
*
7004152 AAAAAAT--ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTCT
1 AAAAAATGAATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAG-TTT-T
** ** * *
7004210 AAAAAACAATATTTTTGGGGAAAAGTTGAATGTATCAATTCTCCTTAAAAATAAGTTTT
1 AAAAAATGA-ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTT
7004269 AAAAAATGAATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTT
1 AAAAAATGAATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTT
* ** *
7004327 CAAAAATGGCTTTTTGAGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAATGAATTTTTAAGGAAAAGTTGAAAGTATCAATTTT
7004368 TCCTATAGAA
Statistics
Matches: 139, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
58 88 0.63
59 8 0.06
60 3 0.02
61 40 0.29
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (58 bp):
AAAAAATGAATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTT
Found at i:7005277 original size:26 final size:26
Alignment explanation
Indices: 7005246--7005309 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
7005236 ATATGTAATT
*
7005246 ATGCAAATGCAAATTTCTTTCTT-ATG
1 ATGCAAATGCAAATGTCTTT-TTCATG
* *
7005272 GTGCAAATGTAAATGTCTTTTTCATG
1 ATGCAAATGCAAATGTCTTTTTCATG
*
7005298 ATGCACATGCAA
1 ATGCAAATGCAA
7005310 GTGATGCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
25 2 0.06
26 29 0.94
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (26 bp):
ATGCAAATGCAAATGTCTTTTTCATG
Found at i:7006534 original size:148 final size:148
Alignment explanation
Indices: 7006261--7006566 Score: 378
Period size: 148 Copynumber: 2.1 Consensus size: 148
7006251 TCTTTATTCT
* * * * * *
7006261 TTTATTTTTTAGAAACATTTGACTTTAACTTTTGCATTCTACTTTTTTAAATTCTATTTTCTTTT
1 TTTATTTTTTAGAAACATTTGACCTTAACTTTAGCATTCTACTTTCTTAAATTCTATCTTATTTA
* * * * *
7006326 TTACTTGGGATTCTAACTAAAGCTTTGTTCATTTTTTGCCCTAAATTCTAATATCTGAAGTGCAT
66 TTACTTGGAATTCTAACTAAAGCTTTATTCACTTTTTGCCATAAATTCTAATATCCGAAGTGCAT
* * *
7006391 GTCTTTTTTTCTTTGCTC
131 GTCTTTCTTCCATTGCTC
*
7006409 TTTATTTTTTAGAAACATTTGACCTTAACTTTAGCATTCTACTTTCTTGAATTCTATCTTATTTA
1 TTTATTTTTTAGAAACATTTGACCTTAACTTTAGCATTCTACTTTCTTAAATTCTATCTTATTTA
* ** * ** * * * *
7006474 TTACTTGGAATTCTAATTGTAGCTTTATTTACTTTTTGCCATGGATTTTCATCTCCGAAGTGTAT
66 TTACTTGGAATTCTAACTAAAGCTTTATTCACTTTTTGCCATAAATTCTAATATCCGAAGTGCAT
7006539 GTCTTTCTTCCATTGCTC
131 GTCTTTCTTCCATTGCTC
*
7006557 TTTCTTTTTT
1 TTTATTTTTT
7006567 TTTCTTTTGC
Statistics
Matches: 132, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
148 132 1.00
ACGTcount: A:0.21, C:0.16, G:0.10, T:0.53
Consensus pattern (148 bp):
TTTATTTTTTAGAAACATTTGACCTTAACTTTAGCATTCTACTTTCTTAAATTCTATCTTATTTA
TTACTTGGAATTCTAACTAAAGCTTTATTCACTTTTTGCCATAAATTCTAATATCCGAAGTGCAT
GTCTTTCTTCCATTGCTC
Found at i:7014009 original size:13 final size:13
Alignment explanation
Indices: 7013991--7014015 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7013981 AAATAAGAAA
7013991 TTGAAAAAAAAAC
1 TTGAAAAAAAAAC
7014004 TTGAAAAAAAAA
1 TTGAAAAAAAAA
7014016 AAAAAGAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.08, T:0.16
Consensus pattern (13 bp):
TTGAAAAAAAAAC
Found at i:7014098 original size:24 final size:25
Alignment explanation
Indices: 7014071--7014135 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
7014061 AAGAAAAATT
7014071 GAAAAAGAAAAGAAA-TCGTGAAAA
1 GAAAAAGAAAAGAAAGTCGTGAAAA
* * *
7014095 GAAAAA-ACAATAAAGTGGTGAAAA
1 GAAAAAGAAAAGAAAGTCGTGAAAA
*
7014119 AAAAGAAGAAAAGAAAG
1 GAAA-AAGAAAAGAAAG
7014136 AAAAATGGGC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
23 6 0.19
24 17 0.53
25 2 0.06
26 7 0.22
ACGTcount: A:0.68, C:0.03, G:0.22, T:0.08
Consensus pattern (25 bp):
GAAAAAGAAAAGAAAGTCGTGAAAA
Found at i:7016042 original size:17 final size:18
Alignment explanation
Indices: 7016010--7016051 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
7016000 GATGGAGTGC
7016010 ATGCACTATCTATTAAGAT
1 ATGCA-TATCTATTAAGAT
7016029 ATGCATAT-TATTAAGAT
1 ATGCATATCTATTAAGAT
*
7016046 GTGCAT
1 ATGCAT
7016052 GGAAGGCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.64
18 3 0.14
19 5 0.23
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (18 bp):
ATGCATATCTATTAAGAT
Found at i:7022234 original size:18 final size:18
Alignment explanation
Indices: 7022211--7022245 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7022201 AAACAAAAAA
7022211 AAAAAGGAAAAAGAAGAC
1 AAAAAGGAAAAAGAAGAC
*
7022229 AAAAAGGGAAAAGAAGA
1 AAAAAGGAAAAAGAAGA
7022246 AAGAGAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (18 bp):
AAAAAGGAAAAAGAAGAC
Found at i:7025087 original size:3 final size:3
Alignment explanation
Indices: 7025079--7025127 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
7025069 AGCTTCATGC
7025079 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7025126 AA
1 AA
7025128 ATAAAATTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7025405 original size:17 final size:16
Alignment explanation
Indices: 7025380--7025418 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
7025370 TGTATCTTTC
7025380 AAATAAATTAAATTAAA
1 AAATAAATT-AATTAAA
* *
7025397 AAATTAATTGATTAAA
1 AAATAAATTAATTAAA
7025413 AAATAA
1 AAATAA
7025419 TAATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
AAATAAATTAATTAAA
Found at i:7026816 original size:272 final size:272
Alignment explanation
Indices: 7026330--7027148 Score: 1620
Period size: 272 Copynumber: 3.0 Consensus size: 272
7026320 TCTGGATAAG
7026330 TTTAAGTAGTGATTGTTAAGAAGTCTTTAGGTGGGAAAATTCCTCTTAATATGGCCAGAGTATTA
1 TTTAAGTAGTGATTGTTAAGAAGTCTTTAGGTGGGAAAATTCCTCTTAATATGGCCAGAGTATTA
7026395 GAATATTTTTAGAGATTATTCAATATGCAAGGTTTTTATTTACTTTTCAAATAAACAATTAAAAA
66 GAATATTTTTAGAGATTATTCAATATGCAAGGTTTTTATTTACTTTTCAAATAAACAATTAAAAA
7026460 TAAAAATATATCTTACTACAATAAAGAAAGTTAAAGAAAATTTAAATTTAAATACCAAAATTAAG
131 TAAAAATATATCTTACTACAATAAAGAAAGTTAAAGAAAATTTAAATTTAAATACCAAAATTAAG
7026525 ACCTTTTTATCAAAATTAAAAGATAAAACATAATGAATTGGTATTATTTTTTAATGGGTGTTATA
196 ACCTTTTTATCAAAATTAAAAGATAAAACATAATGAATTGGTATTATTTTTTAATGGGTGTTATA
7026590 GGGGTATTAATC
261 GGGGTATTAATC
7026602 TTTAAGTAGTGATTGTTAAGAAGTCTTTAGGTGGGAAAATTCCTCTTAATATGGCCAGAGTATTA
1 TTTAAGTAGTGATTGTTAAGAAGTCTTTAGGTGGGAAAATTCCTCTTAATATGGCCAGAGTATTA
7026667 GAATATTTTTAGAGATTATTCAATATGCAAGGTTTTTATTTACTTTTCAAATAAACAATTAAAAA
66 GAATATTTTTAGAGATTATTCAATATGCAAGGTTTTTATTTACTTTTCAAATAAACAATTAAAAA
7026732 TAAAAATATATCTTACTACAATAAAGAAAGTTAAAGAAAATTTAAATTTAAATACCAAAATTAAG
131 TAAAAATATATCTTACTACAATAAAGAAAGTTAAAGAAAATTTAAATTTAAATACCAAAATTAAG
7026797 ACCTTTTTATCAAAATTAAAAGATAAAACATAATGAATTGGTATTATTTTTTAATGGGTGTTATA
196 ACCTTTTTATCAAAATTAAAAGATAAAACATAATGAATTGGTATTATTTTTTAATGGGTGTTATA
7026862 GGGGTATTAATC
261 GGGGTATTAATC
7026874 TTTAAGTAGTGATTGTTAAGAAGTCTTTAGGTGGGAAAATTCCTCTTAATATGGCCAGAGTATTA
1 TTTAAGTAGTGATTGTTAAGAAGTCTTTAGGTGGGAAAATTCCTCTTAATATGGCCAGAGTATTA
7026939 GAATATTTTTAGAGATTATTCAATATGCAAGGTTTTTATTTACTTTTCAAATAAACAATTAAAAA
66 GAATATTTTTAGAGATTATTCAATATGCAAGGTTTTTATTTACTTTTCAAATAAACAATTAAAAA
*
7027004 TAAAAATATGTCTTACTACAATAAAGAAAGTTAAAGAAAATTTAAATTTAAATACCAAAATTAAG
131 TAAAAATATATCTTACTACAATAAAGAAAGTTAAAGAAAATTTAAATTTAAATACCAAAATTAAG
*
7027069 ACCTTTTTATCAAAATTAAAAGATAAAACATAATGAATTGGTACTATTTTTTAATGGGTGTTATA
196 ACCTTTTTATCAAAATTAAAAGATAAAACATAATGAATTGGTATTATTTTTTAATGGGTGTTATA
7027134 GGGGTATTAATC
261 GGGGTATTAATC
7027146 TTT
1 TTT
7027149 CTCCATGCAT
Statistics
Matches: 545, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
272 545 1.00
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (272 bp):
TTTAAGTAGTGATTGTTAAGAAGTCTTTAGGTGGGAAAATTCCTCTTAATATGGCCAGAGTATTA
GAATATTTTTAGAGATTATTCAATATGCAAGGTTTTTATTTACTTTTCAAATAAACAATTAAAAA
TAAAAATATATCTTACTACAATAAAGAAAGTTAAAGAAAATTTAAATTTAAATACCAAAATTAAG
ACCTTTTTATCAAAATTAAAAGATAAAACATAATGAATTGGTATTATTTTTTAATGGGTGTTATA
GGGGTATTAATC
Found at i:7027505 original size:3 final size:3
Alignment explanation
Indices: 7027492--7027538 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
7027482 AAAAAATAGC
* *
7027492 AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7027539 AAGGGAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:7031666 original size:123 final size:123
Alignment explanation
Indices: 7031453--7031708 Score: 306
Period size: 123 Copynumber: 2.1 Consensus size: 123
7031443 AAAAAAAAAG
* * * *
7031453 GATAGAATTTAAGAAAGTAGAATGCTAAATTTGAAGTTAGATGTTTCCAAAAATAAAGAGTAAAG
1 GATAGAATTCAAGAAAGTAGAATGCTAAAGTTGAAGTCAAATGTTTCCAAAAATAAAGAGTAAAG
* *
7031518 AAAGAAAGACATAAACCTCAGAGATGA-AGATCCTA-GGCAAAAAGTGAATAAAGTTTCA
66 AAAGAAAAACATAAACCTCAGAGATGAGAG-TCC-AGGGCAAAAAATGAATAAAGTTTCA
* *
7031576 GATAGAATTCAATAAAGTAGAATGCTAAAGTTGAAGTCAAATGTTTCTAAAAATAAA-AGATCAA
1 GATAGAATTCAAGAAAGTAGAATGCTAAAGTTGAAGTCAAATGTTTCCAAAAATAAAGAG-T-AA
** * * *
7031640 AGAAA-AAAAACATGCACTTC-GAAGATGAGAGTTCAGGGCAAAAAATGAATAAAGTTTTA
64 AGAAAGAAAAACATAAACCTCAG-AGATGAGAGTCCAGGGCAAAAAATGAATAAAGTTTCA
*
7031699 GTTAGAATTC
1 GATAGAATTC
7031709 CAAGTTAAAA
Statistics
Matches: 114, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
122 4 0.04
123 101 0.89
124 9 0.08
ACGTcount: A:0.48, C:0.09, G:0.19, T:0.24
Consensus pattern (123 bp):
GATAGAATTCAAGAAAGTAGAATGCTAAAGTTGAAGTCAAATGTTTCCAAAAATAAAGAGTAAAG
AAAGAAAAACATAAACCTCAGAGATGAGAGTCCAGGGCAAAAAATGAATAAAGTTTCA
Found at i:7031854 original size:152 final size:145
Alignment explanation
Indices: 7031575--7032096 Score: 432
Period size: 152 Copynumber: 3.5 Consensus size: 145
7031565 ATAAAGTTTC
* * *
7031575 AGATAGAATTCAATAAAGTAGAATGCTAAAGTTGAAGTCAAATGTTTCTAAAAATAAAAGATCAA
1 AGATAGAATTCAAGAAAGTAGAATGCTAAAGTTGAAGTCAAATGTTTC-AAAAAAAAAAGAGCAA
* * * *
7031640 AGAAAAAAAACATGCACTTCGAAGATGAGAGTTCAGGGCAAAAAATGAATAAAGTTTTAGTTAGA
65 AGAAAAAAAACATGCACTTCAAAGATGAGAGATCAGGGCAAAAAATGAATAAAGCTTCAGTTAGA
7031705 ATTCCAAGTTAAAAAAAAAAAA
130 A-T-C---TT-AAAAAAAAAAA
* * *
7031727 AGATAGAATTCAAGAAAGTAGAATGCTAAAGATGTAGTCAAATATTTCAAAAAAAAAAGAGCAAA
1 AGATAGAATTCAAGAAAGTAGAATGCTAAAGTTGAAGTCAAATGTTTCAAAAAAAAAAGAGCAAA
* * * * *
7031792 GAAAGAAAGACATGCACCTT-AAAGATGA-AGATCTGGGGCAGAAAGTGAATGAAGCTTCAGTTA
66 GAAA-AAAAACATGCA-CTTCAAAGATGAGAGATC-AGGGCAAAAAATGAATAAAGCTTCAGTTA
*
7031855 GAATCTTAAGAAAAAAAA
128 GAATCTTAAAAAAAAAAA
* * *
7031873 AGATAAAATTCACGAAAGTAAAATGCTAAAGTTGAAGTCAAATGTTTCCAAACAAAAGAAAATGA
1 AGATAGAATTCAAGAAAGTAGAATGCTAAAGTTGAAGTCAAATGTTT-C-AA-AAAA-AAAA-GA
* ** * * *
7031938 G-AAAGAGCAAAGAAAGA-AAG-ACTTGCACCTTGAATGATAGTTCAGGGCAAAAAGTGAATGAA
61 GCAAAGA--AAA-AAA-ACATGCACTT-CA--AAG-ATGAGAGATCAGGGCAAAAAATGAAT-AA
* *** **
7032000 A--TATCAGTTAGAATCCTAAGTGAAAGGA
117 AGCT-TCAGTTAGAATCTTAAAAAAAAAAA
* * *
7032028 AGATAGAATTCAAGAAACTATAATGCTACAGTTGAAGTCAAATGTTTCCCAAAAAAAAAA-A-CA
1 AGATAGAATTCAAGAAAGTAGAATGCTAAAGTTGAAGTCAAATGTTT--CAAAAAAAAAAGAGCA
7032091 AAGAAA
64 AAGAAA
7032097 GAAAGATACA
Statistics
Matches: 308, Mismatches: 40, Indels: 47
0.78 0.10 0.12
Matches are distributed among these distances:
146 51 0.17
147 3 0.01
148 2 0.01
149 6 0.02
150 13 0.04
151 35 0.11
152 94 0.31
153 8 0.03
154 6 0.02
155 82 0.27
156 8 0.03
ACGTcount: A:0.51, C:0.10, G:0.18, T:0.21
Consensus pattern (145 bp):
AGATAGAATTCAAGAAAGTAGAATGCTAAAGTTGAAGTCAAATGTTTCAAAAAAAAAAGAGCAAA
GAAAAAAAACATGCACTTCAAAGATGAGAGATCAGGGCAAAAAATGAATAAAGCTTCAGTTAGAA
TCTTAAAAAAAAAAA
Found at i:7032031 original size:155 final size:155
Alignment explanation
Indices: 7031719--7032088 Score: 399
Period size: 155 Copynumber: 2.4 Consensus size: 155
7031709 CAAGTTAAAA
* * * * * *
7031719 AAAAAAAAAGATAGAATTCAAGAAAGTAGAATGCTAAAGATGTAGTCAAATATTT--C-----AA
1 AAAAAAAAAGATAAAATTCAAGAAACTAAAATGCTAAAGTTGAAGTCAAATGTTTCCCAAAAAAA
* *
7031777 AAAA--A-AAAGAGCAAAGAAAGAAAGACATGCACCTTAAAGATGAAGATCTGGGGCAGAAAGTG
66 AAAATGAGAAAGAGCAAAGAAAGAAAGACATGCACCTTAAAGAT-AAGATCTAGGGCAAAAAGTG
* *
7031839 AATGAAGCTTCAGTTAGAATCTTAAG
130 AATGAAGATTCAGTTAGAATCCTAAG
* *
7031865 AAAAAAAAAGATAAAATTCACGAAAGTAAAATGCTAAAGTTGAAGTCAAATGTTT-CCAAACAAA
1 AAAAAAAAAGATAAAATTCAAGAAACTAAAATGCTAAAGTTGAAGTCAAATGTTTCCCAAA-AAA
* * *
7031929 AGAAAATGAGAAAGAGCAAAGAAAGAAAGACTTGCACCTTGAATGAT-AGTTC-AGGGCAAAAAG
65 A-AAAATGAGAAAGAGCAAAGAAAGAAAGACATGCACCTT-AAAGATAAGATCTAGGGCAAAAAG
7031992 TGAATGAA-ATATCAGTTAGAATCCTAAG
128 TGAATGAAGAT-TCAGTTAGAATCCTAAG
** ** * * *
7032020 TGAAAGGAAGATAGAATTCAAGAAACTATAATGCTACAGTTGAAGTCAAATGTTTCCCAAAAAAA
1 AAAAAAAAAGATAAAATTCAAGAAACTAAAATGCTAAAGTTGAAGTCAAATGTTTCCCAAAAAAA
7032085 AAAA
66 AAAA
7032089 CAAAGAAAGA
Statistics
Matches: 188, Mismatches: 22, Indels: 20
0.82 0.10 0.09
Matches are distributed among these distances:
146 49 0.26
147 1 0.01
153 2 0.01
154 9 0.05
155 83 0.44
156 10 0.05
157 29 0.15
158 5 0.03
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.20
Consensus pattern (155 bp):
AAAAAAAAAGATAAAATTCAAGAAACTAAAATGCTAAAGTTGAAGTCAAATGTTTCCCAAAAAAA
AAAATGAGAAAGAGCAAAGAAAGAAAGACATGCACCTTAAAGATAAGATCTAGGGCAAAAAGTGA
ATGAAGATTCAGTTAGAATCCTAAG
Found at i:7033453 original size:14 final size:15
Alignment explanation
Indices: 7033434--7033466 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
7033424 AGTAAAAAAT
7033434 AAAAAAAAG-G-AAG
1 AAAAAAAAGAGAAAG
7033447 AAAAAAAAGAGAAAG
1 AAAAAAAAGAGAAAG
7033462 AAAAA
1 AAAAA
7033467 GTAAGAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 1 0.06
15 8 0.44
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAGAAAG
Found at i:7033638 original size:13 final size:12
Alignment explanation
Indices: 7033620--7033693 Score: 85
Period size: 12 Copynumber: 6.0 Consensus size: 12
7033610 TGAAAAATTT
7033620 GAAAAAAAAAAA
1 GAAAAAAAAAAA
* *
7033632 GAGAAAATAAAA
1 GAAAAAAAAAAA
* *
7033644 TAAAAAAGAAAA
1 GAAAAAAAAAAA
7033656 GAAAAAATAAAAA
1 GAAAAAA-AAAAA
*
7033669 GAAAAAAATAAA
1 GAAAAAAAAAAA
7033681 GAAAGAAAAAAAA
1 GAAA-AAAAAAAA
7033694 TAGTAAAAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
12 33 0.65
13 18 0.35
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (12 bp):
GAAAAAAAAAAA
Found at i:7033648 original size:18 final size:16
Alignment explanation
Indices: 7033621--7033695 Score: 82
Period size: 17 Copynumber: 4.6 Consensus size: 16
7033611 GAAAAATTTG
*
7033621 AAAAAAA-AAAAGAGA
1 AAAAAAATAAAAAAGA
7033636 AAATAAAATAAAAAAGA
1 AAA-AAAATAAAAAAGA
*
7033653 AAAGAAAAAATAAAAAG-
1 AAA-AAAATA-AAAAAGA
7033670 AAAAAAATAAAGAAAGA
1 AAAAAAATAAA-AAAGA
7033687 AAAAAAATA
1 AAAAAAATA
7033696 GTAAAAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
15 5 0.10
16 13 0.25
17 27 0.53
18 6 0.12
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (16 bp):
AAAAAAATAAAAAAGA
Found at i:7033648 original size:19 final size:19
Alignment explanation
Indices: 7033621--7033673 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
7033611 GAAAAATTTG
7033621 AAAAA-AAAAAAGAGAAA-A
1 AAAAATAAAAAAGA-AAAGA
*
7033639 TAAAATAAAAAAGAAAAGA
1 AAAAATAAAAAAGAAAAGA
7033658 AAAAAT-AAAAAGAAAA
1 AAAAATAAAAAAGAAAA
7033674 AAATAAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 17 0.55
19 14 0.45
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (19 bp):
AAAAATAAAAAAGAAAAGA
Found at i:7033655 original size:24 final size:24
Alignment explanation
Indices: 7033621--7033706 Score: 93
Period size: 24 Copynumber: 3.5 Consensus size: 24
7033611 GAAAAATTTG
*
7033621 AAAAAAAAAAAGAGAAAATAAAAT
1 AAAAAAAAAAAGAAAAAATAAAAT
*
7033645 AAAAAAGAAAAGAAAAAATAAAA-
1 AAAAAAAAAAAGAAAAAATAAAAT
*
7033668 AGAAAAAAATAAAGAAAGAAAAAAAAT
1 A-AAAAAAA-AAAGAAA-AAATAAAAT
**
7033695 AGTAAAAAAAAG
1 AAAAAAAAAAAG
7033707 GCAAGAAGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
23 1 0.02
24 27 0.52
25 11 0.21
26 12 0.23
27 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (24 bp):
AAAAAAAAAAAGAAAAAATAAAAT
Found at i:7033661 original size:30 final size:30
Alignment explanation
Indices: 7033620--7033691 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
7033610 TGAAAAATTT
* *
7033620 GAAAAAAAAAAAGAGAAAATAAAATAAA-AAA
1 GAAAAGAAAAAAGA-AAAAGAAAA-AAATAAA
*
7033651 GAAAAGAAAAAATAAAAAGAAAAAAATAAA
1 GAAAAGAAAAAAGAAAAAGAAAAAAATAAA
7033681 G-AAAGAAAAAA
1 GAAAAGAAAAAA
7033692 AATAGTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 13 0.35
30 12 0.32
31 12 0.32
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (30 bp):
GAAAAGAAAAAAGAAAAAGAAAAAAATAAA
Found at i:7033692 original size:19 final size:18
Alignment explanation
Indices: 7033621--7033703 Score: 77
Period size: 19 Copynumber: 4.7 Consensus size: 18
7033611 GAAAAATTTG
7033621 AAAAA-AAAAAAGAGAAAA
1 AAAAATAAAAAAGA-AAAA
*
7033639 TAAAATAAAAAAGAAAAGA
1 AAAAATAAAAAAGAAAA-A
7033658 AAAAAT-AAAAAG---AA
1 AAAAATAAAAAAGAAAAA
7033672 AAAAATAAAGAAAGAAAAA
1 AAAAATAAA-AAAGAAAAA
*
7033691 AAATAGTAAAAAA
1 AAA-AATAAAAAA
7033704 AAGGCAAGAA
Statistics
Matches: 54, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
14 7 0.13
15 3 0.06
16 4 0.07
18 13 0.24
19 22 0.41
20 5 0.09
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (18 bp):
AAAAATAAAAAAGAAAAA
Found at i:7034580 original size:38 final size:36
Alignment explanation
Indices: 7034509--7034585 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 36
7034499 TCAAACAAGA
*
7034509 TTTTAAAGTTTCAAAGCTCTGTTTAGAGGGAGCCAAT
1 TTTTAAAGTTTCAAACCTCTGTTTAGAGGGAGCC-AT
*
7034546 TTTTAAAGTTTCAAAACCTCTGTTTAG-GATGAGCCAT
1 TTTTAAAGTTTC-AAACCTCTGTTTAGAG-GGAGCCAT
7034583 TTT
1 TTT
7034586 CCAAAATCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
37 18 0.50
38 18 0.50
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (36 bp):
TTTTAAAGTTTCAAACCTCTGTTTAGAGGGAGCCAT
Found at i:7034760 original size:4 final size:4
Alignment explanation
Indices: 7034753--7034816 Score: 53
Period size: 4 Copynumber: 16.5 Consensus size: 4
7034743 AAAAAAAGAT
* * * *
7034753 AATA AATA AAT- AATA AATC AATC AATC AAGA AAT- AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
*
7034799 AA-A AGATA AAAA AATA AA
1 AATA A-ATA AATA AATA AA
7034817 AAACAAAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
3 8 0.16
4 40 0.80
5 2 0.04
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:7034767 original size:11 final size:11
Alignment explanation
Indices: 7034751--7034799 Score: 62
Period size: 11 Copynumber: 4.4 Consensus size: 11
7034741 TTAAAAAAAG
7034751 ATAATAAATAA
1 ATAATAAATAA
*
7034762 ATAATAAATCA
1 ATAATAAATAA
* *
7034773 ATCAATCAAGAA
1 AT-AATAAATAA
7034785 ATAATAAATAA
1 ATAATAAATAA
7034796 ATAA
1 ATAA
7034800 AAAGATAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
11 23 0.74
12 8 0.26
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.24
Consensus pattern (11 bp):
ATAATAAATAA
Found at i:7034817 original size:8 final size:8
Alignment explanation
Indices: 7034787--7034836 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
7034777 ATCAAGAAAT
*
7034787 AATAAATA
1 AATAAAAA
7034795 AATAAAAA
1 AATAAAAA
*
7034803 GATAAAAA
1 AATAAAAA
7034811 AATAAAAA
1 AATAAAAA
*
7034819 ACA-AAAAC
1 A-ATAAAAA
7034827 AA-AAAAA
1 AATAAAAA
7034834 AAT
1 AAT
7034837 TATTAAAAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
7 7 0.20
8 27 0.77
9 1 0.03
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.12
Consensus pattern (8 bp):
AATAAAAA
Found at i:7034832 original size:23 final size:24
Alignment explanation
Indices: 7034787--7034836 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
7034777 ATCAAGAAAT
* * *
7034787 AATAAATAAATAAAAAGATAAAAA
1 AATAAATAAACAAAAACAAAAAAA
7034811 AATAAA-AAACAAAAACAAAAAAA
1 AATAAATAAACAAAAACAAAAAAA
7034834 AAT
1 AAT
7034837 TATTAAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.12
Consensus pattern (24 bp):
AATAAATAAACAAAAACAAAAAAA
Found at i:7035841 original size:11 final size:11
Alignment explanation
Indices: 7035825--7035859 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
7035815 GCAATGGAAG
*
7035825 AAATAAAAATA
1 AAATAAAAAGA
7035836 AAATAAAAAGA
1 AAATAAAAAGA
7035847 AAA-AAAAAGA
1 AAATAAAAAGA
7035857 AAA
1 AAA
7035860 ATGAGAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.86, C:0.00, G:0.06, T:0.09
Consensus pattern (11 bp):
AAATAAAAAGA
Found at i:7035853 original size:10 final size:10
Alignment explanation
Indices: 7035822--7035860 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
7035812 AACGCAATGG
*
7035822 AAGAAATAAA
1 AAGAAAAAAA
*
7035832 AATAAAATAAA
1 AAGAAAA-AAA
7035843 AAGAAAAAAA
1 AAGAAAAAAA
7035853 AAGAAAAA
1 AAGAAAAA
7035861 TGAGAGTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:7036973 original size:18 final size:19
Alignment explanation
Indices: 7036932--7036974 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
7036922 TAATAGAAAT
*
7036932 TAAAAATTGAAGATTAGAA
1 TAAAAATTGAAGATAAGAA
7036951 TAAAAATT-AA-ATAAGAA
1 TAAAAATTGAAGATAAGAA
7036968 TGAAAAA
1 T-AAAAA
7036975 AAGTAAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 7 0.32
19 8 0.36
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.23
Consensus pattern (19 bp):
TAAAAATTGAAGATAAGAA
Found at i:7042165 original size:3 final size:3
Alignment explanation
Indices: 7042157--7042186 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
7042147 ATATAATTCC
7042157 AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7042187 TTTAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7042175 original size:14 final size:14
Alignment explanation
Indices: 7042158--7042187 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7042148 TATAATTCCA
7042158 ATAATAATAATAAT
1 ATAATAATAATAAT
7042172 ATAATAATAATAAT
1 ATAATAATAATAAT
7042186 AT
1 AT
7042188 TTAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:7045561 original size:18 final size:19
Alignment explanation
Indices: 7045535--7045571 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
7045525 AGATTTTTAG
7045535 ATTCATAAGAA-TTCAAAT
1 ATTCATAAGAATTTCAAAT
*
7045553 ATTCGTAAGAATTTCAAAT
1 ATTCATAAGAATTTCAAAT
7045572 TCGCAAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (19 bp):
ATTCATAAGAATTTCAAAT
Found at i:7045816 original size:22 final size:21
Alignment explanation
Indices: 7045776--7045825 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
7045766 AAACTTAGAG
**
7045776 ATTCACATTAAAATTTTAAAA
1 ATTCACATTAAAAAATTAAAA
*
7045797 ATTCACATTAAAAAAATTAATA
1 ATTCACATT-AAAAAATTAAAA
*
7045819 TTTCACA
1 ATTCACA
7045826 ACCAAACTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (21 bp):
ATTCACATTAAAAAATTAAAA
Found at i:7045897 original size:17 final size:17
Alignment explanation
Indices: 7045875--7045908 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
7045865 TTTTACATCC
7045875 AAAATTTCTA-AGATTCA
1 AAAATTT-TAGAGATTCA
7045892 AAAATTTTAGAGATTCA
1 AAAATTTTAGAGATTCA
7045909 CATCCAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (17 bp):
AAAATTTTAGAGATTCA
Found at i:7047291 original size:10 final size:9
Alignment explanation
Indices: 7047261--7047303 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
7047251 CATCAATTTC
7047261 TTTTTCTTT
1 TTTTTCTTT
* *
7047270 TTCCTTATTT
1 TT-TTTCTTT
7047280 TTTTTCTCTT
1 TTTTTCT-TT
7047290 TTTTTCTTT
1 TTTTTCTTT
7047299 TTTTT
1 TTTTT
7047304 TTCATGTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 12 0.43
10 16 0.57
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:7052070 original size:22 final size:22
Alignment explanation
Indices: 7052035--7052084 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
7052025 AATCATTTAA
* *
7052035 AAATAAATACCATGTAAAA-ACT
1 AAATAAACACCATG-AAAATAAT
*
7052057 AAATAAACATCATGAAAATAAT
1 AAATAAACACCATGAAAATAAT
7052079 AAATAA
1 AAATAA
7052085 CATTTCCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.64, C:0.10, G:0.04, T:0.22
Consensus pattern (22 bp):
AAATAAACACCATGAAAATAAT
Found at i:7052170 original size:8 final size:8
Alignment explanation
Indices: 7052147--7052183 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
7052137 AATAAAAAAT
*
7052147 AAAATAAG
1 AAAATTAG
7052155 ATAAATTAG
1 A-AAATTAG
7052164 AAAATTAG
1 AAAATTAG
7052172 AAAATTAG
1 AAAATTAG
7052180 AAAA
1 AAAA
7052184 AAACAAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.22
Consensus pattern (8 bp):
AAAATTAG
Found at i:7053205 original size:13 final size:12
Alignment explanation
Indices: 7053166--7053207 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
7053156 TTTTTGAAAA
7053166 TAAATAAATAAA-
1 TAAAT-AATAAAT
7053178 TAAATAATAATAT
1 TAAATAATAA-AT
7053191 TAAATAATACAAT
1 TAAATAATA-AAT
7053204 TAAA
1 TAAA
7053208 ATTTTTCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 5 0.19
12 6 0.22
13 15 0.56
14 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAATAATAAAT
Found at i:7053991 original size:81 final size:80
Alignment explanation
Indices: 7053841--7053991 Score: 207
Period size: 81 Copynumber: 1.9 Consensus size: 80
7053831 TACACTCACA
* * * *
7053841 TAATAATTTTAACAAATAACGGTTTTAAAGAACATAAATAGAAGAAAAAAAAGTTATAAATCCAT
1 TAATAATTTTAACAAATAACGATTTTAAAGAACATAAATAGAAGAAAAAAAAGTAAAAAATCCAA
7053906 AAAAACTAAAAATTT
66 AAAAACTAAAAATTT
*
7053921 TAATAAATTTTAACAAATAACGATTTTAAAGAACATAAATA-AA-AAAATCTAAAGTAAAAAATC
1 TAAT-AATTTTAACAAATAACGATTTTAAAGAACATAAATAGAAGAAAA--AAAAGTAAAAAATC
*
7053984 TAAAAAAA
63 CAAAAAAA
7053992 TACAAATATG
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 4 0.06
80 6 0.10
81 52 0.84
ACGTcount: A:0.60, C:0.07, G:0.06, T:0.26
Consensus pattern (80 bp):
TAATAATTTTAACAAATAACGATTTTAAAGAACATAAATAGAAGAAAAAAAAGTAAAAAATCCAA
AAAAACTAAAAATTT
Found at i:7058326 original size:22 final size:22
Alignment explanation
Indices: 7058301--7058359 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
7058291 TAATTAAAAA
*
7058301 TTCAAAGATTCTCGACTTAAAG
1 TTCAAAGATTCTCAACTTAAAG
* * *
7058323 TTCAAAGGTTTTCAATTTAAAG
1 TTCAAAGATTCTCAACTTAAAG
*
7058345 TCCAAAGATTCTCAA
1 TTCAAAGATTCTCAA
7058360 TAAATTCGAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (22 bp):
TTCAAAGATTCTCAACTTAAAG
Found at i:7058465 original size:56 final size:55
Alignment explanation
Indices: 7058381--7058551 Score: 164
Period size: 56 Copynumber: 3.0 Consensus size: 55
7058371 GCTAATAATT
* * * *
7058381 ATTCAAAATTTCATAAAACATTTGAAGATTTGAAAAAGATTCGAGGGTTCGCAAAAG
1 ATTCAAAATTT-GTAAAA-ATTTAAAGATTTGAAAAAGATTCAAAGGTTCGCAAAAG
* **
7058438 ATTCAAAAATTTGTAAAAATTTAAAGATTTGTAAAAGATTCAAAAATTCGCAAGAA-
1 ATTC-AAAATTTGTAAAAATTTAAAGATTTGAAAAAGATTCAAAGGTTCGCAA-AAG
* * * * * * *
7058494 CTCCAAGATTTGTAAAAACTCAAAGATTTGCAAAAACATTCAAAGGTTTGCAAAAG
1 ATTCAAAATTTGTAAAAATTTAAAGATTTG-AAAAAGATTCAAAGGTTCGCAAAAG
7058550 AT
1 AT
7058552 CCCAAGGTTC
Statistics
Matches: 92, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
55 25 0.27
56 49 0.53
57 11 0.12
58 7 0.08
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (55 bp):
ATTCAAAATTTGTAAAAATTTAAAGATTTGAAAAAGATTCAAAGGTTCGCAAAAG
Found at i:7058469 original size:18 final size:18
Alignment explanation
Indices: 7058440--7058530 Score: 83
Period size: 18 Copynumber: 5.0 Consensus size: 18
7058430 CGCAAAAGAT
* *
7058440 TCAAAAATTTGTAAAAAT
1 TCAAAGATTTGTAAAAAC
* *
7058458 TTAAAGATTTGTAAAAGAT
1 TCAAAGATTTGTAAAA-AC
* * * *
7058477 TCAAAAATTCGCAAGAAC
1 TCAAAGATTTGTAAAAAC
*
7058495 TCCAAGATTTGTAAAAAC
1 TCAAAGATTTGTAAAAAC
*
7058513 TCAAAGATTTGCAAAAAC
1 TCAAAGATTTGTAAAAAC
7058531 ATTCAAAGGT
Statistics
Matches: 57, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
18 44 0.77
19 13 0.23
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.27
Consensus pattern (18 bp):
TCAAAGATTTGTAAAAAC
Found at i:7058474 original size:37 final size:37
Alignment explanation
Indices: 7058433--7058551 Score: 123
Period size: 37 Copynumber: 3.2 Consensus size: 37
7058423 GAGGGTTCGC
* * *
7058433 AAAAGATTCAAAAATTTGTAAAAATTTAAAGATTTGT
1 AAAAGATTCAAAAATTTGCAAAAACTCAAAGATTTGT
* * *
7058470 AAAAGATTCAAAAATTCGCAAGAACTCCAAGATTTGT
1 AAAAGATTCAAAAATTTGCAAAAACTCAAAGATTTGT
* * * *
7058507 AAAA-ACTCAAAGATTTGCAAAAACATTCAAAGGTTTGC
1 AAAAGATTCAAAAATTTGCAAAAAC--TCAAAGATTTGT
7058545 AAAAGAT
1 AAAAGAT
7058552 CCCAAGGTTC
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
36 16 0.25
37 35 0.54
38 13 0.20
39 1 0.02
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.27
Consensus pattern (37 bp):
AAAAGATTCAAAAATTTGCAAAAACTCAAAGATTTGT
Done.