Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 74 of 328
Found at i:20351403 original size:29 final size:29
Alignment explanation
Indices: 20351370--20351425 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
20351360 TATTTTCTGG
* * *
20351370 AAAATGATTTTTGGAAAATAATTTATTGA
1 AAAATAATTTCTGAAAAATAATTTATTGA
*
20351399 AAAATAATTTCTGAAAAATGATTTATT
1 AAAATAATTTCTGAAAAATAATTTATT
20351426 TTTCTAGTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.41
Consensus pattern (29 bp):
AAAATAATTTCTGAAAAATAATTTATTGA
Found at i:20351404 original size:15 final size:14
Alignment explanation
Indices: 20351356--20351422 Score: 64
Period size: 14 Copynumber: 4.7 Consensus size: 14
20351346 GTTTGCAGAT
*
20351356 AAAAT-ATTTTCTGG
1 AAAATAATTTT-TGA
* *
20351370 AAAATGATTTTTGG
1 AAAATAATTTTTGA
20351384 AAAATAATTTATTGA
1 AAAATAATTT-TTGA
*
20351399 AAAATAATTTCTGA
1 AAAATAATTTTTGA
*
20351413 AAAATGATTT
1 AAAATAATTT
20351423 ATTTTTCTAG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
14 29 0.62
15 18 0.38
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.40
Consensus pattern (14 bp):
AAAATAATTTTTGA
Found at i:20351575 original size:2 final size:2
Alignment explanation
Indices: 20351568--20351596 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
20351558 GAGTTTACTT
20351568 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20351597 TAATAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20351920 original size:22 final size:22
Alignment explanation
Indices: 20351895--20351943 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
20351885 ATCCAAGTAC
* *
20351895 ATAAGTAATATTACACCATATG
1 ATAACTAATATTACACCACATG
20351917 ATAACTAATATTACACCACATG
1 ATAACTAATATTACACCACATG
20351939 ATAAC
1 ATAAC
20351944 AACAATATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (22 bp):
ATAACTAATATTACACCACATG
Found at i:20351941 original size:68 final size:68
Alignment explanation
Indices: 20351857--20351983 Score: 218
Period size: 68 Copynumber: 1.9 Consensus size: 68
20351847 ACATAATTAG
*
20351857 TATTACACCACATGATAACAACAACATTATCCAAGTACATAAGTAATATTACACCATATGATAAC
1 TATTACACCACATGATAACAACAACATTATCCAAGTACATAACTAATATTACACCATATGATAAC
20351922 TAA
66 TAA
* * *
20351925 TATTACACCACATGATAACAACAATATTGTCCAAGTGCATAACTAATATTACACCATAT
1 TATTACACCACATGATAACAACAACATTATCCAAGTACATAACTAATATTACACCATAT
20351984 TAAAAGTATC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 55 1.00
ACGTcount: A:0.45, C:0.21, G:0.06, T:0.28
Consensus pattern (68 bp):
TATTACACCACATGATAACAACAACATTATCCAAGTACATAACTAATATTACACCATATGATAAC
TAA
Found at i:20353450 original size:46 final size:44
Alignment explanation
Indices: 20353346--20353453 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
20353336 TGTCTTTGAC
** * * *
20353346 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
20353390 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
20353436 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
20353454 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:20359567 original size:19 final size:19
Alignment explanation
Indices: 20359543--20359580 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
20359533 AAATTTTAGT
20359543 CAAAAATCAATAAAAAATA
1 CAAAAATCAATAAAAAATA
20359562 CAAAAATCAATAAAAAATA
1 CAAAAATCAATAAAAAATA
20359581 TCATGTGTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.16
Consensus pattern (19 bp):
CAAAAATCAATAAAAAATA
Found at i:20365199 original size:17 final size:17
Alignment explanation
Indices: 20365177--20365209 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
20365167 CTGTAGAATA
20365177 GGTATTTATGTTCTATG
1 GGTATTTATGTTCTATG
20365194 GGTATTTATGTTCTAT
1 GGTATTTATGTTCTAT
20365210 CTTTGCATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.06, G:0.21, T:0.55
Consensus pattern (17 bp):
GGTATTTATGTTCTATG
Found at i:20375136 original size:1 final size:1
Alignment explanation
Indices: 20375130--20375183 Score: 54
Period size: 1 Copynumber: 54.0 Consensus size: 1
20375120 CCTTTGAAGC
* * * * * *
20375130 AAAAAAAAAAAAAAAAAAAAAAAAGAAAAGAAAAGAAAAGAAAAGAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
20375184 GGAATTGATT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (1 bp):
A
Found at i:20375140 original size:5 final size:5
Alignment explanation
Indices: 20375130--20375184 Score: 75
Period size: 5 Copynumber: 12.0 Consensus size: 5
20375120 CCTTTGAAGC
20375130 AAAA- AAAA- AAAA- AAAA- AAAA- AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
20375175 AAAAG AAAAG
1 AAAAG AAAAG
20375185 GAATTGATTA
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 20 0.40
5 30 0.60
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:20375247 original size:43 final size:43
Alignment explanation
Indices: 20375186--20375273 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
20375176 AAAGAAAAGG
*
20375186 AATTGATTACTAAATGCTTAGTCTGCTGCACAAATGTTAAACT
1 AATTGATTACTAAATGCTTAGTCTGCTGCACAAATATTAAACT
*
20375229 AATTGATTACTAAATGCTTAGTCTGCTGCACAACTATTAAACT
1 AATTGATTACTAAATGCTTAGTCTGCTGCACAAATATTAAACT
20375272 AA
1 AA
20375274 CCTATGCTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (43 bp):
AATTGATTACTAAATGCTTAGTCTGCTGCACAAATATTAAACT
Found at i:20377591 original size:348 final size:347
Alignment explanation
Indices: 20376955--20377646 Score: 1177
Period size: 348 Copynumber: 2.0 Consensus size: 347
20376945 AAATTATAAT
*
20376955 TAGGAGAGATCCTGAAGGATAGGCCTCAGTTGGGATTCTAAAAGCTTCCAAGTGGAAAAGGCTGT
1 TAGGAGAGATCCTGAAGGATAGGCCTCAGTTGGGATTCTAAAAGCTTCCAAGTGCAAAAGGCTGT
20377020 CTGTTGTCACCATAGAAGTTAGGCATTTGCCAATAGCCTTATTGTTTTTGGTAGAGTGCTGAACT
66 CTGTTGTCACCATAGAAGTTAGGCATTTGCCAATAGCCTTATTGTTTTTGGTAGAGTGCTGAACT
** * *
20377085 CTTAGTTCTAGCGAGTACTGACCATGGATCAAAGCTTTGGAAACCTCCAATGTAAAAGGAATAAG
131 CTTAGTTCTAGCGAGTACTGACCATGGATCAAAGCTTCAGAAACCTCCAATATAAAAGGAAAAAG
*
20377150 TAGGAAACAGACCATGAGGTTTTAAGCTTCACTCATGTCCACCGCAGAATAACTTATCCGCCCTT
196 TAGGAAACAGACCATGAGGTTTTAAGCTTCACTCATGTCCACCACAGAATAACTTATCCGCCCTT
* * * * *
20377215 CAATTAAAAGTTGGATTTGTAACTGTCTCCTTTTTGCTAAATTCTTTAGGCAAATCCTATGTCTG
261 CAACTAAAAATTGGATTTGTAACTGTCTCCTTTTTGCTAAATTCTTTAGGCAAACCCTATGTATA
20377280 TGAATCATTTAAAAATGAGAAC
326 TGAATCATTTAAAAATGAGAAC
* *
20377302 TAGGAGAGATCCTGAAGGATAGGCCTTAGTTGGGATTCTAAAAGCTTCCAAGTGCAAAATGCTGT
1 TAGGAGAGATCCTGAAGGATAGGCCTCAGTTGGGATTCTAAAAGCTTCCAAGTGCAAAAGGCTGT
* * *
20377367 CTGTTGTCACCATAGAAGTTAGGCATTTTCCAATGGCCTTGTTGTTTTTTGGTAGAGTGCTGAAC
66 CTGTTGTCACCATAGAAGTTAGGCATTTGCCAATAGCCTTATTG-TTTTTGGTAGAGTGCTGAAC
* * *
20377432 TCTTAGTTCTAGTGAGTAGTGACCATGGGTCAAAGCTTCAGAAACCTCCAATATAAAAGGAAAAA
130 TCTTAGTTCTAGCGAGTACTGACCATGGATCAAAGCTTCAGAAACCTCCAATATAAAAGGAAAAA
* *
20377497 GTAGGAATCAGACCATGAGGTTTTAAGCTTCACTCATGTCCAGCACAGAATAACTTATCCGCCCT
195 GTAGGAAACAGACCATGAGGTTTTAAGCTTCACTCATGTCCACCACAGAATAACTTATCCGCCCT
*
20377562 TTAACTAAAAATTGGATTTGTAACTGTCTCCTTTTTGCTAAATTCTTTAGGCAAACCCTATGTAT
260 TCAACTAAAAATTGGATTTGTAACTGTCTCCTTTTTGCTAAATTCTTTAGGCAAACCCTATGTAT
20377627 ATGAATCATTTAAAAATGAG
325 ATGAATCATTTAAAAATGAG
20377647 TGTTTCATCC
Statistics
Matches: 322, Mismatches: 22, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
347 103 0.32
348 219 0.68
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (347 bp):
TAGGAGAGATCCTGAAGGATAGGCCTCAGTTGGGATTCTAAAAGCTTCCAAGTGCAAAAGGCTGT
CTGTTGTCACCATAGAAGTTAGGCATTTGCCAATAGCCTTATTGTTTTTGGTAGAGTGCTGAACT
CTTAGTTCTAGCGAGTACTGACCATGGATCAAAGCTTCAGAAACCTCCAATATAAAAGGAAAAAG
TAGGAAACAGACCATGAGGTTTTAAGCTTCACTCATGTCCACCACAGAATAACTTATCCGCCCTT
CAACTAAAAATTGGATTTGTAACTGTCTCCTTTTTGCTAAATTCTTTAGGCAAACCCTATGTATA
TGAATCATTTAAAAATGAGAAC
Found at i:20385606 original size:11 final size:11
Alignment explanation
Indices: 20385589--20385622 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
20385579 ACCTAACCCA
20385589 AAAAAAACAAAG
1 AAAAAAA-AAAG
20385601 AAAAAAAAAAG
1 AAAAAAAAAAG
20385612 AAAAAGAAAAA
1 AAAAA-AAAAA
20385623 CTTACCCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:20385608 original size:17 final size:17
Alignment explanation
Indices: 20385588--20385622 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
20385578 AACCTAACCC
*
20385588 AAAAAAA-ACAAAGAAA
1 AAAAAAAGAAAAAGAAA
20385604 AAAAAAAGAAAAAGAAA
1 AAAAAAAGAAAAAGAAA
20385621 AA
1 AA
20385623 CTTACCCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.89, C:0.03, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAAAAGAAA
Found at i:20385745 original size:12 final size:12
Alignment explanation
Indices: 20385728--20385757 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
20385718 TCCCACTTGC
20385728 CCCATTTTTCCT
1 CCCATTTTTCCT
20385740 CCCATTTTTCCT
1 CCCATTTTTCCT
20385752 CCCATT
1 CCCATT
20385758 GTCTACCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.43, G:0.00, T:0.47
Consensus pattern (12 bp):
CCCATTTTTCCT
Found at i:20386103 original size:31 final size:31
Alignment explanation
Indices: 20386068--20386131 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
20386058 CCACCGTGGG
20386068 CGGTGGCCGGCGACCGGCGGAAACCGACGAT
1 CGGTGGCCGGCGACCGGCGGAAACCGACGAT
20386099 CGGTGGCCGGCGACCGGCGGAAACCGACGAT
1 CGGTGGCCGGCGACCGGCGGAAACCGACGAT
20386130 CG
1 CG
20386132 ACCGGTGACC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.19, C:0.33, G:0.42, T:0.06
Consensus pattern (31 bp):
CGGTGGCCGGCGACCGGCGGAAACCGACGAT
Found at i:20386288 original size:39 final size:39
Alignment explanation
Indices: 20386216--20386290 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
20386206 TTTATATATA
* * *
20386216 TTATGTATATATTTTTTAATGCCATTAGTTATATATTTC
1 TTATGTATATATTCTTAAATACCATTAGTTATATATTTC
*
20386255 TTATGTATATATTCTTAAATACTATTA-TATATATAT
1 TTATGTATATATTCTTAAATACCATTAGT-TATATAT
20386291 ATATTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.03
39 30 0.97
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (39 bp):
TTATGTATATATTCTTAAATACCATTAGTTATATATTTC
Found at i:20388302 original size:12 final size:12
Alignment explanation
Indices: 20388282--20388317 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
20388272 ATTCATTTAA
20388282 CATTCATGCATT
1 CATTCATGCATT
*
20388294 CATTTATGCATT
1 CATTCATGCATT
*
20388306 CATTCATTCATT
1 CATTCATGCATT
20388318 GCATATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:20395368 original size:71 final size:69
Alignment explanation
Indices: 20395192--20395396 Score: 277
Period size: 70 Copynumber: 2.9 Consensus size: 69
20395182 TTTTTGTTTT
* *
20395192 TCAAAATCAACTCATATTGCTAGA-GTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTT
1 TCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGCACGCTGAGGTATTTTCAATTT
*
20395256 TTGTG
65 CTGTG
*** * * *
20395261 TTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTT
1 TCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACGCTGAGGTATTTTCAATTT
20395326 CTGTTG
65 CTG-TG
* *
20395332 TCAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGCACGCCGAGGTATTTTCAATTTC
1 TCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACGCTGAGGTATTTTCAATTTC
20395397 CGTTTTTTCA
Statistics
Matches: 116, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
69 22 0.19
70 55 0.47
71 39 0.34
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (69 bp):
TCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACGCTGAGGTATTTTCAATTTC
TGTG
Found at i:20395570 original size:14 final size:14
Alignment explanation
Indices: 20395551--20395585 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
20395541 CGCCGAGGTA
20395551 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
20395565 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
20395579 CTTTCAA
1 TTTTCAA
20395586 AAAAAATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:20395611 original size:164 final size:164
Alignment explanation
Indices: 20395265--20396050 Score: 1284
Period size: 164 Copynumber: 4.8 Consensus size: 164
20395255 TTTGTGTTTT
* *
20395265 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
20395330 TGTC-AAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGG---CACGCCGAGGTATTTTC
66 TGTCAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
*
20395391 AATTTCCGTTTTTTCAATTTCTGTCTTTCAAAAAA
131 AATTTCCG-TTTTTCAATTTCTGCCTTTCAAAAAA
*
20395426 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
*
20395491 TGTCAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCGCACGCCGAGGTATTTTC
66 TGTCAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
*
20395556 AATTTCCGTTTTTCAATTTCTGTCTTTCAAAAAA
131 AATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAA
20395590 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
* *
20395655 TGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTT
66 TGTC--AAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTT
20395720 TCAATTTCCGTTTTTCAATTTCTGCCTTTC-AAAAA
129 TCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAA
20395755 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
*
20395820 TGTCAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCG-GGTATTTT
66 TGTCAAAAA-TCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTT
* *
20395884 CAATTTCCATTTTTCAATTTTTGCCTTTCAAAAAA
130 CAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAA
* * *
20395919 AATCAACTCATATTGCGAGAGGTTAGTTGAGCCTCGGGACACGCTGAGGTAATTGCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
* * * * * **
20395984 TTTCAAAATTCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAG--ACACGTTGAGGTATTTT-
66 TGTCAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
20396046 AATTT
131 AATTT
20396051 TGTTTTCAAA
Statistics
Matches: 592, Mismatches: 24, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
161 77 0.13
162 48 0.08
163 72 0.12
164 211 0.36
165 99 0.17
166 85 0.14
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (164 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
TGTCAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
AATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAA
Found at i:20395691 original size:74 final size:77
Alignment explanation
Indices: 20395566--20395727 Score: 240
Period size: 74 Copynumber: 2.1 Consensus size: 77
20395556 AATTTCCGTT
* *
20395566 TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-AC
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
*
20395630 ACGCTGAGGTAA
66 ACGCCGAGGTAA
* *
20395642 TTTCAATTTCTGT-TGTC-AAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CA
*
20395705 CACGCCGAGGTAT
65 CACGCCGAGGTAA
20395718 TTTCAATTTC
1 TTTCAATTTC
20395728 CGTTTTTCAA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
74 40 0.51
75 3 0.04
76 35 0.45
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (77 bp):
TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
ACGCCGAGGTAA
Found at i:20395853 original size:73 final size:74
Alignment explanation
Indices: 20395732--20395890 Score: 216
Period size: 73 Copynumber: 2.1 Consensus size: 74
20395722 AATTTCCGTT
*
20395732 TTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACA
1 TTTCAATTTCTG-CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACA
*
20395796 CGCTGAGGTAA
65 CGCCG-GGTAA
* *
20395807 TTTCAATTTCTG-TTGTC-AAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
1 TTTCAATTTCTGCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-CAC
*
20395870 ACGCCGGGTAT
64 ACGCCGGGTAA
20395881 TTTCAATTTC
1 TTTCAATTTC
20395891 CATTTTTCAA
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
73 41 0.54
74 16 0.21
75 19 0.25
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (74 bp):
TTTCAATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACAC
GCCGGGTAA
Found at i:20395882 original size:329 final size:327
Alignment explanation
Indices: 20395265--20396050 Score: 1296
Period size: 329 Copynumber: 2.4 Consensus size: 327
20395255 TTTGTGTTTT
* *
20395265 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
20395330 TGTC-AAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGG-CACGCCGAGGTATTTTCAA
66 TGTCAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTTCAA
*
20395393 TTTCCGTTTTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
131 TTTCCGTTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
20395458 CTCAGGACACGTTGAGGTAATTTCAATTTCTGTTGTCAAAAATCAACTCGTATTGCGAGAGGTGA
196 CTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAATCAACTCGTATTGCGAGAGGTGA
* * * *
20395523 GTTGAGCCTCAGGTCGCACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGTCTTTCAAAA
261 GTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAA
20395588 AA
326 AA
20395590 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
* *
20395655 TGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTT
66 TGTC--AAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCCGAGGTATTT
20395720 TCAATTTCCG-TTTTTCAATTTCTGCCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTT
127 TCAATTTCCGTTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
20395783 GAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAGTCAACTCGTATTGCGAGA
192 GAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA-TCAACTCGTATTGCGAGA
*
20395848 GGTGAGTTGAGCCTCAGATCACACGCCG-GGTATTTTCAATTTCCATTTTTCAATTTTTGCCTTT
256 GGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCCTTT
20395912 CAAAAAA
321 CAAAAAA
* * *
20395919 AATCAACTCATATTGCGAGAGGTTAGTTGAGCCTCGGGACACGCTGAGGTAATTGCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
* * * * * **
20395984 TTTCAAAATTCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT-AA
66 TGTCAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTTCAA
20396048 TTT
131 TTT
20396051 TGTTTTCAAA
Statistics
Matches: 431, Mismatches: 23, Indels: 15
0.92 0.05 0.03
Matches are distributed among these distances:
324 5 0.01
325 82 0.19
327 35 0.08
328 38 0.09
329 183 0.42
330 63 0.15
331 25 0.06
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.32
Consensus pattern (327 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
TGTCAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCCGAGGTATTTTCAA
TTTCCGTTTTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
CTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAATCAACTCGTATTGCGAGAGGTGA
GTTGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAA
AA
Found at i:20396087 original size:69 final size:70
Alignment explanation
Indices: 20395917--20396114 Score: 292
Period size: 69 Copynumber: 2.8 Consensus size: 70
20395907 CCTTTCAAAA
* * **
20395917 AAAATCAACTCATATTGCGAGAGGTTAGTTGAGCCTCGGGACACGCTGAGGTAATTGCAATTTCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGT-ATTTTAATTTCT
20395982 GTTTTC
65 GTTTTC
** *
20395988 AAAATTCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTAATTT-
1 AAAA-TCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCGGGACACGCTGAGGTATTTTAATTTC
20396051 TGTTTTC
64 TGTTTTC
20396058 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTT
20396115 TAGTTTTAAA
Statistics
Matches: 114, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
69 47 0.41
70 13 0.11
71 13 0.11
72 41 0.36
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTAATTTCTG
TTTTC
Found at i:20396277 original size:72 final size:71
Alignment explanation
Indices: 20396156--20396321 Score: 226
Period size: 72 Copynumber: 2.3 Consensus size: 71
20396146 GAGTTAAGCC
** * *
20396156 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
*
20396220 TGAGGTA
65 TGAGATA
* *
20396227 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGCGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
20396292 TGAGATA
65 TGAGATA
* *
20396299 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
20396322 ACGTTGTTCA
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
71 12 0.14
72 68 0.81
73 4 0.05
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGATA
Found at i:20396652 original size:74 final size:76
Alignment explanation
Indices: 20396546--20396690 Score: 224
Period size: 74 Copynumber: 1.9 Consensus size: 76
20396536 TTTTTGCCTT
*
20396546 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACG-CTGAGGTAATTT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTC-GAGGTAATTT
20396608 CAATTTCTGTTG
65 CAATTTCTGTTG
* * *
20396620 TCAAAAAATTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTC
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
20396685 AATTTC
66 AATTTC
20396691 CATTTTTCAA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 42 0.66
76 21 0.33
77 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (76 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
AATTTCTGTTG
Found at i:20396811 original size:72 final size:73
Alignment explanation
Indices: 20396726--20397232 Score: 397
Period size: 72 Copynumber: 6.5 Consensus size: 73
20396716 AAAAAAAAAA
*
20396726 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
20396791 CTGTTTTC
66 CTGTTTTC
* * ** ** *
20396799 -AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
20396863 CTGTTTTC
66 CTGTTTTC
* * * ** *
20396871 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATTTTCAAT
*
20396936 TTCTATCTTTC
64 TTCTGT-TTTC
* ** *
20396947 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA--TTTTC
* *
20397012 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* * *
20397026 AAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTCAA
**
20397090 AATCTGTTTTTC
63 TTTCTG-TTTTC
* * **
20397102 AAATTCTGCTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 --A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC--GCTGA
* *
20397167 GCTATTTTCAATTTCTTTTTTTTTTTTC
52 GGTATTTTCAATTTC------TGTTTTC
20397195 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
20397233 TTTTTAATTT
Statistics
Matches: 344, Mismatches: 54, Indels: 62
0.75 0.12 0.13
Matches are distributed among these distances:
72 64 0.19
73 33 0.10
75 21 0.06
76 18 0.05
77 45 0.13
78 47 0.14
79 18 0.05
80 1 0.00
82 5 0.01
83 29 0.08
86 2 0.01
88 52 0.15
89 1 0.00
92 2 0.01
93 5 0.01
94 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:20397058 original size:78 final size:75
Alignment explanation
Indices: 20396726--20397442 Score: 401
Period size: 88 Copynumber: 9.0 Consensus size: 75
20396716 AAAAAAAAAA
** *
20396726 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTAATTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAAT
20396789 TTCTGTTTTC
66 TTCTGTTTTC
* * ** * *
20396799 -AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAAT
20396861 TTCTGTTTTC
66 TTCTGTTTTC
* * ** * ** *
20396871 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAAT
*
20396936 TTCTATCTTTC
66 TTCTGT-TTTC
* *
20396947 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTA--TTTTC
* *
20397012 AATTTATATTTTTC
63 AATTTCT-GTTTTC
* * * * * *
20397026 AAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCT-GAGGTATTTTCAA
**
20397090 AATCTGTTTTTC
65 TTTCTG-TTTTC
* ** * **
20397102 AAATTCTGCTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 --A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
* *
20397167 GCTATTTTCAATTTCTTTTTTTTTTTTC
54 GGTATTTTCAATTTC------TGTTTTC
* * * * * *
20397195 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTT
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTCAGA--TC-AC-A-CGCTGAGGT
*
20397259 GAGTCTTTTAATTTCTGTTTTTC
57 -A-T-TTTCAATTTCTG-TTTTC
* **
20397282 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACA-TATCGAGGTATTTTCA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGATCACACGCT-GAGGTATTTTC-
*
20397344 AAATCTGCTTTTCAAGTTAAGTTTC
63 -AA------TTTC-TG-T---TTTC
** * * *
20397369 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAAT
20397434 TTCTGTTTT
66 TTCTGTTTT
20397443 TAATGTCTGT
Statistics
Matches: 500, Mismatches: 83, Indels: 120
0.71 0.12 0.17
Matches are distributed among these distances:
72 64 0.13
73 31 0.06
75 28 0.06
76 19 0.04
77 52 0.10
78 53 0.11
79 17 0.03
80 6 0.01
81 2 0.00
82 6 0.01
83 34 0.07
84 32 0.06
85 7 0.01
86 5 0.01
87 11 0.02
88 106 0.21
89 8 0.02
90 1 0.00
91 1 0.00
92 11 0.02
93 5 0.01
94 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (75 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAAT
TTCTGTTTTC
Found at i:20397102 original size:155 final size:149
Alignment explanation
Indices: 20396726--20397104 Score: 428
Period size: 155 Copynumber: 2.5 Consensus size: 149
20396716 AAAAAAAAAA
* *
20396726 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-ACACGCTGAGGTAATTTCAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTACATGCTGAGGTATTTTCAATT
* * * **
20396790 TCTG-TTTTC--AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
66 TCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAACACACACTGAGGT
*
20396852 ATTTTCAATTTCTGTTTTC
131 ATTTTCAATTTATGTTTTC
* * * * *
20396871 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCT-CATGCGCTGAGCTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTACAT--GCTGAGGTATTTTCAA
* * ** *
20396935 TTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTG
64 TTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-CACACACTG
*
20397000 AGGTATTTTTTCAATTTATATTTTTC
127 AGGTA--TTTTCAATTTAT-GTTTTC
* *
20397026 AAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-TACATGCT-GAGGTATTTTCAA
**
20397090 AATCTGTTTTTCAAA
64 TTTCTGTTTTTCAAA
20397105 TTCTGCTTTC
Statistics
Matches: 190, Mismatches: 30, Indels: 18
0.80 0.13 0.08
Matches are distributed among these distances:
145 40 0.21
147 19 0.10
148 4 0.02
150 34 0.18
151 1 0.01
152 11 0.06
154 12 0.06
155 65 0.34
156 1 0.01
157 3 0.02
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (149 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTACATGCTGAGGTATTTTCAATT
TCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAACACACACTGAGGT
ATTTTCAATTTATGTTTTC
Found at i:20397250 original size:30 final size:30
Alignment explanation
Indices: 20397214--20397275 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
20397204 CAACTCATAT
20397214 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
20397244 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
20397274 TG
1 TG
20397276 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:20397336 original size:255 final size:247
Alignment explanation
Indices: 20396853--20397443 Score: 757
Period size: 255 Copynumber: 2.4 Consensus size: 247
20396843 CGTTGAGGTA
* * * *
20396853 TTTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATG
1 TTTTCAAATTCTG-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
*
20396918 CGCTGAGCTATTTTCAATTTC----TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
65 CGCTGAGCTATTTTCAATTTCTTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
*
20396979 TGAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAATCAACTCACATT
130 TGAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATT
* * ** * * *
20397044 GCGAGATGTGAGTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTGT
195 GCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
*
20397097 TTTTCAAATTCTGCTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAAATTCTG-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
* *
20397161 TGCTGAGCTATTTTCAATTTCTTTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGA
65 CGCTGAGCTATTTTCAATTTC-TTTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGA
* * * * * * *
20397226 GTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAAT
128 GTTGAGC--TTCAGA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAAT
*
20397288 CAACTCATATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
184 CAACTCACATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
* **
20397352 TTTTCAAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
1 TTTTCAAATTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
*
20397417 GCTGAGCTATTTTCAATTTCTGTTTTT
66 GCTGAGCTATTTTCAATTTCTTTTTTT
20397444 AATGTCTGTT
Statistics
Matches: 300, Mismatches: 31, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
243 62 0.21
244 16 0.05
248 13 0.04
249 30 0.10
250 1 0.00
251 3 0.01
252 2 0.01
253 1 0.00
254 12 0.04
255 142 0.47
256 13 0.04
257 5 0.02
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.37
Consensus pattern (247 bp):
TTTTCAAATTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
GCTGAGCTATTTTCAATTTCTTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTG
CGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGC
Found at i:20398100 original size:6 final size:6
Alignment explanation
Indices: 20398091--20398124 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
20398081 AACCTAACCC
* *
20398091 AAAAAA AAAAAG AAAAAA AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
20398125 CTTACCCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:20398106 original size:12 final size:12
Alignment explanation
Indices: 20398091--20398124 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
20398081 AACCTAACCC
20398091 AAAAAAAAAAAG
1 AAAAAAAAAAAG
20398103 AAAAAAAAAAAG
1 AAAAAAAAAAAG
20398115 AAAAAGAAAA
1 AAAAA-AAAA
20398125 CTTACCCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:20398258 original size:11 final size:12
Alignment explanation
Indices: 20398230--20398255 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20398220 TCCCACTTGC
20398230 CCCATTTTTCCT
1 CCCATTTTTCCT
20398242 CCCATTTTTCCT
1 CCCATTTTTCCT
20398254 CC
1 CC
20398256 ATTGTCTACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.46, G:0.00, T:0.46
Consensus pattern (12 bp):
CCCATTTTTCCT
Found at i:20398755 original size:39 final size:39
Alignment explanation
Indices: 20398683--20398757 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
20398673 TTTATATATA
* * *
20398683 TTATGTATATATTTTTTAATGCCATTAGTTATATATTTC
1 TTATGTATATATTCTTAAATACCATTAGTTATATATTTC
*
20398722 TTATGTATATATTCTTAAATACTATTA-TATATATAT
1 TTATGTATATATTCTTAAATACCATTAGT-TATATAT
20398758 ATATATTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.03
39 30 0.97
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (39 bp):
TTATGTATATATTCTTAAATACCATTAGTTATATATTTC
Found at i:20403865 original size:57 final size:57
Alignment explanation
Indices: 20403777--20403888 Score: 215
Period size: 57 Copynumber: 2.0 Consensus size: 57
20403767 CATAGACTTG
20403777 ATAGGTCATTTTGCAATGATGATTGGTAGAGGTTTGCCCTGAATACAACAATCAAGC
1 ATAGGTCATTTTGCAATGATGATTGGTAGAGGTTTGCCCTGAATACAACAATCAAGC
*
20403834 ATAGGTCATTTTGCAATGATGATTGGTAGAGGTTTGCCTTGAATACAACAATCAA
1 ATAGGTCATTTTGCAATGATGATTGGTAGAGGTTTGCCCTGAATACAACAATCAA
20403889 ACACCTTTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.31
Consensus pattern (57 bp):
ATAGGTCATTTTGCAATGATGATTGGTAGAGGTTTGCCCTGAATACAACAATCAAGC
Found at i:20410693 original size:13 final size:13
Alignment explanation
Indices: 20410675--20410711 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
20410665 AGAAAATTAG
20410675 CAAATCATACATA
1 CAAATCATACATA
20410688 CAAATCATACATA
1 CAAATCATACATA
*
20410701 TAAATTCATAC
1 CAAA-TCATAC
20410712 CAAACTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (13 bp):
CAAATCATACATA
Found at i:20411595 original size:19 final size:19
Alignment explanation
Indices: 20411573--20411614 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
20411563 TCCCTTCGTA
20411573 TTTTATATAAAATAATAAC
1 TTTTATATAAAATAATAAC
20411592 TTTTATATAAAATAATAAC
1 TTTTATATAAAATAATAAC
20411611 TTTT
1 TTTT
20411615 CATGTAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTTATATAAAATAATAAC
Found at i:20412120 original size:21 final size:21
Alignment explanation
Indices: 20412095--20412136 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
20412085 TTTCTTGTTT
* *
20412095 TTCTTTCTTTTATTTTATTTA
1 TTCTTTATTTCATTTTATTTA
20412116 TTCTTTATTTCATTTTATTTA
1 TTCTTTATTTCATTTTATTTA
20412137 CTTAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.74
Consensus pattern (21 bp):
TTCTTTATTTCATTTTATTTA
Found at i:20412267 original size:3 final size:3
Alignment explanation
Indices: 20412253--20412334 Score: 155
Period size: 3 Copynumber: 27.0 Consensus size: 3
20412243 CTATCTCAAT
20412253 TAA TAGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
20412299 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
20412335 GTATCTTTTA
Statistics
Matches: 78, Mismatches: 0, Indels: 2
0.98 0.00 0.03
Matches are distributed among these distances:
3 75 0.96
4 3 0.04
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:20414053 original size:8 final size:7
Alignment explanation
Indices: 20414028--20414058 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
20414018 CGATATCGGT
20414028 ACCCTAA
1 ACCCTAA
20414035 ACCCTAA
1 ACCCTAA
20414042 ACCCTAAA
1 ACCCT-AA
20414050 ACCCTAA
1 ACCCTAA
20414057 AC
1 AC
20414059 TAACAAAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.45, C:0.42, G:0.00, T:0.13
Consensus pattern (7 bp):
ACCCTAA
Found at i:20414053 original size:15 final size:14
Alignment explanation
Indices: 20414028--20414058 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
20414018 CGATATCGGT
20414028 ACCCTAAACCCTAA
1 ACCCTAAACCCTAA
20414042 ACCCTAAAACCCTAA
1 ACCCT-AAACCCTAA
20414057 AC
1 AC
20414059 TAACAAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.45, C:0.42, G:0.00, T:0.13
Consensus pattern (14 bp):
ACCCTAAACCCTAA
Found at i:20415745 original size:21 final size:21
Alignment explanation
Indices: 20415721--20415760 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
20415711 CCATTCTACT
* *
20415721 AATTTTCATATCCCTTAAAGC
1 AATTTACATAACCCTTAAAGC
*
20415742 AATTTACTTAACCCTTAAA
1 AATTTACATAACCCTTAAA
20415761 AAAATCCCTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.38
Consensus pattern (21 bp):
AATTTACATAACCCTTAAAGC
Found at i:20417142 original size:25 final size:25
Alignment explanation
Indices: 20417108--20417157 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
20417098 ACTGGAAATA
20417108 TGAAAAAATTAGAGATGACTCAATT
1 TGAAAAAATTAGAGATGACTCAATT
20417133 TGAAAAAATTAGAGATGACTCAATT
1 TGAAAAAATTAGAGATGACTCAATT
20417158 CGAAGTACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (25 bp):
TGAAAAAATTAGAGATGACTCAATT
Found at i:20423583 original size:27 final size:27
Alignment explanation
Indices: 20423484--20423580 Score: 115
Period size: 27 Copynumber: 3.6 Consensus size: 27
20423474 CATCCTGTCA
* *
20423484 ACCTTTGTGGCATACTCTGAATGAATC
1 ACCTTTGTGGCATACTCTGTATGGATC
* * *
20423511 ACCTTTGTGGCATACCCTCTATAGAT-
1 ACCTTTGTGGCATACTCTGTATGGATC
*
20423537 AGCCTTTGTGGCATACTTTGTATGGATC
1 A-CCTTTGTGGCATACTCTGTATGGATC
*
20423565 ACCTTTGTGGCGTACT
1 ACCTTTGTGGCATACT
20423581 TTGATTATAT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
26 1 0.02
27 56 0.97
28 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
ACCTTTGTGGCATACTCTGTATGGATC
Found at i:20427832 original size:20 final size:20
Alignment explanation
Indices: 20427807--20427848 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
20427797 AAAAACAAAA
20427807 ATAGTCCAAATAGAATGTTT
1 ATAGTCCAAATAGAATGTTT
20427827 ATAGTCCAAATAGAATGTTT
1 ATAGTCCAAATAGAATGTTT
20427847 AT
1 AT
20427849 CACTTACCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
ATAGTCCAAATAGAATGTTT
Found at i:20432662 original size:48 final size:48
Alignment explanation
Indices: 20432579--20432859 Score: 303
Period size: 48 Copynumber: 5.8 Consensus size: 48
20432569 ATACTAAGGG
* * *
20432579 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGATATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTA
* * * *
20432627 TATGAGAGCTAATGTAAGACCATGTTTGGGACATGGCATCGACCTTGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTA
*
20432675 TAT-ACGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTA
1 TATGA-GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTA
* * * * * **
20432723 TACGAGAACTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTA
* * * **
20432771 TATGTGGGCTAGTGTAAGACCATGTTTGGAACATGGAATCAGCACAGATA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATC-G-ACATTTA
* * * * *
20432821 TATGAGTGCCAGTGTAAGACCATGTCTGGGATATGGCAT
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCAT
20432860 TGGCATCTTG
Statistics
Matches: 191, Mismatches: 38, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
47 1 0.01
48 154 0.81
49 2 0.01
50 34 0.18
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTA
Found at i:20432748 original size:96 final size:96
Alignment explanation
Indices: 20432584--20432859 Score: 381
Period size: 96 Copynumber: 2.9 Consensus size: 96
20432574 AAGGGTATGT
* *
20432584 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGATATTTATATGAGAGCTAATGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCTAGTGTAAGACCA
*
20432649 TGTTTGGGACATGGCATCGACCTTGATATAC
66 TGTTTGGGACATGGCATCGACCTCGATATAC
* *
20432680 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATACGAGAACTAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCTAGTGTAAGACCA
* **
20432745 TGTTTGGGACATGGCATCGGCCTCGATATGT
66 TGTTTGGGACATGGCATCGACCTCGATATAC
* * * ** * *
20432776 GGGCTAGTGTAAGACCATGTTTGGAACATGGAATCAGCACAGATATATGAGTGCCAGTGTAAGAC
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATC-G-ACATTTATATGAGAGCTAGTGTAAGAC
* *
20432841 CATGTCTGGGATATGGCAT
64 CATGTTTGGGACATGGCAT
20432860 TGGCATCTTG
Statistics
Matches: 159, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
96 120 0.75
97 1 0.01
98 38 0.24
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.26
Consensus pattern (96 bp):
GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCTAGTGTAAGACCA
TGTTTGGGACATGGCATCGACCTCGATATAC
Found at i:20433184 original size:33 final size:33
Alignment explanation
Indices: 20433147--20433214 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
20433137 TAATTATTTA
*
20433147 CTTGTAACTTACTAAGCTTTATGCTTACTTCTT
1 CTTGTAACTTAATAAGCTTTATGCTTACTTCTT
20433180 CTTGTAACTTAATAAGCTTTATGCTTACTTCTT
1 CTTGTAACTTAATAAGCTTTATGCTTACTTCTT
20433213 CT
1 CT
20433215 CTTTTCCATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.49
Consensus pattern (33 bp):
CTTGTAACTTAATAAGCTTTATGCTTACTTCTT
Found at i:20438587 original size:28 final size:28
Alignment explanation
Indices: 20438555--20438612 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
20438545 TCCCCCAATG
20438555 ATATGCATTATCTCTAAGGAAAGATACT
1 ATATGCATTATCTCTAAGGAAAGATACT
20438583 ATATGCATTATCTCTAAGGAAAGATACT
1 ATATGCATTATCTCTAAGGAAAGATACT
20438611 AT
1 AT
20438613 GTATTTGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (28 bp):
ATATGCATTATCTCTAAGGAAAGATACT
Found at i:20439616 original size:30 final size:30
Alignment explanation
Indices: 20439559--20439635 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
20439549 CATGGCCGAC
*
20439559 CACATGCCCATGT-GCCA-GCCCGTGTGTCT
1 CACATGCCCA-GTAGACACGCCCGTGTGTCT
*
20439588 CACATGCCCAGTAGACACGCCTGTGTGTCT
1 CACATGCCCAGTAGACACGCCCGTGTGTCT
*
20439618 CACATGACCAGTAGACAC
1 CACATGCCCAGTAGACAC
20439636 ACCCTTATGT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 2 0.05
29 13 0.30
30 28 0.65
ACGTcount: A:0.22, C:0.35, G:0.22, T:0.21
Consensus pattern (30 bp):
CACATGCCCAGTAGACACGCCCGTGTGTCT
Found at i:20439647 original size:30 final size:30
Alignment explanation
Indices: 20439583--20439647 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
20439573 CCAGCCCGTG
* * *
20439583 TGTCTCACATGCCCAGTAGACACGCCTGTG
1 TGTCTCACATGACCAGTAGACACCCCTGTA
20439613 TGTCTCACATGACCAGTAGACACACCCT-TA
1 TGTCTCACATGACCAGTAGACAC-CCCTGTA
20439643 TGTCT
1 TGTCT
20439648 AGGCCGTGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.26
Consensus pattern (30 bp):
TGTCTCACATGACCAGTAGACACCCCTGTA
Found at i:20444547 original size:41 final size:41
Alignment explanation
Indices: 20444490--20444572 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
20444480 TAGTTCGAAA
20444490 TTATTCGCAGCAATAGCAGGTTTAACTATACTAGACTAAGT
1 TTATTCGCAGCAATAGCAGGTTTAACTATACTAGACTAAGT
20444531 TTATTCGCAGCAATAGCAGGTTTAACTATACTAGACTAAGT
1 TTATTCGCAGCAATAGCAGGTTTAACTATACTAGACTAAGT
20444572 T
1 T
20444573 CCTGTTAAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (41 bp):
TTATTCGCAGCAATAGCAGGTTTAACTATACTAGACTAAGT
Found at i:20445186 original size:13 final size:13
Alignment explanation
Indices: 20445164--20445196 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
20445154 AAGGATTTGT
20445164 TTAT-TAAACTAA
1 TTATCTAAACTAA
20445176 TTATCTAAACTAA
1 TTATCTAAACTAA
*
20445189 TTAACTAA
1 TTATCTAA
20445197 GTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:20446049 original size:13 final size:13
Alignment explanation
Indices: 20446031--20446055 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20446021 GAAAAAGGGA
20446031 CACGCCCGTGTGC
1 CACGCCCGTGTGC
20446044 CACGCCCGTGTG
1 CACGCCCGTGTG
20446056 ACGTGATTGC
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:0.08, C:0.44, G:0.32, T:0.16
Consensus pattern (13 bp):
CACGCCCGTGTGC
Found at i:20448203 original size:43 final size:43
Alignment explanation
Indices: 20448156--20448270 Score: 151
Period size: 43 Copynumber: 2.7 Consensus size: 43
20448146 ATCGTATGTC
* ** *
20448156 GATGCCAACGTCCCAGATGTGGTCTTACACAAAATCA-TATAA
1 GATGCCAATGTCCCAGACATGGTCTTACACAAAATCACGATAA
*
20448198 TGATGCCAATGTCCCAGACATGGTCTTACACATAATCACGATAA
1 -GATGCCAATGTCCCAGACATGGTCTTACACAAAATCACGATAA
* *
20448242 AATTCCAATGTCCCAGACATGGTCTTACA
1 GATGCCAATGTCCCAGACATGGTCTTACA
20448271 TGTAATCTCA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
43 60 0.94
44 4 0.06
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
GATGCCAATGTCCCAGACATGGTCTTACACAAAATCACGATAA
Found at i:20453289 original size:6 final size:6
Alignment explanation
Indices: 20453278--20453317 Score: 71
Period size: 6 Copynumber: 6.5 Consensus size: 6
20453268 ACACCCCCAT
20453278 TTACCA TTACCA TTACCA TTACCA TTAACCA TTACCA TTA
1 TTACCA TTACCA TTACCA TTACCA TT-ACCA TTACCA TTA
20453318 ACTTCCTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (6 bp):
TTACCA
Found at i:20453308 original size:13 final size:13
Alignment explanation
Indices: 20453274--20453319 Score: 76
Period size: 13 Copynumber: 3.6 Consensus size: 13
20453264 ATCTACACCC
*
20453274 CCATTTACCATTA
1 CCATTAACCATTA
20453287 CCATT-ACCATTA
1 CCATTAACCATTA
20453299 CCATTAACCATTA
1 CCATTAACCATTA
20453312 CCATTAAC
1 CCATTAAC
20453320 TTCCTTCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.38
13 20 0.62
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.33
Consensus pattern (13 bp):
CCATTAACCATTA
Found at i:20454267 original size:22 final size:21
Alignment explanation
Indices: 20454238--20454282 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 21
20454228 CTGCTGTTAA
20454238 AAGTA-TTTTGTTAGTGTATTT
1 AAGTATTTTTGTTAGT-TATTT
20454259 AAGTCATTTTTGTTAGTTATTT
1 AAGT-ATTTTTGTTAGTTATTT
20454281 AA
1 AA
20454283 AAAAAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.18
22 8 0.36
23 10 0.45
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.56
Consensus pattern (21 bp):
AAGTATTTTTGTTAGTTATTT
Found at i:20456929 original size:15 final size:15
Alignment explanation
Indices: 20456888--20456931 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
20456878 TAATTATCAA
* *
20456888 GAAAAATATATATAT
1 GAAATATATATTTAT
*
20456903 TAAATATATATTTAT
1 GAAATATATATTTAT
20456918 GAAATATATATTTA
1 GAAATATATATTTA
20456932 ACATTTTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (15 bp):
GAAATATATATTTAT
Found at i:20458948 original size:16 final size:16
Alignment explanation
Indices: 20458927--20458960 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20458917 ACTAACATTC
*
20458927 TTTATTAAATTATTAT
1 TTTATTAAATTAATAT
*
20458943 TTTATTTAATTAATAT
1 TTTATTAAATTAATAT
20458959 TT
1 TT
20458961 GAGGAAGTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATTAAATTAATAT
Found at i:20462253 original size:20 final size:20
Alignment explanation
Indices: 20462191--20462263 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
20462181 GTTTAGGGTA
20462191 TTAGGGTTAATTGATTAAA-
1 TTAGGGTTAATTGATTAAAT
* **
20462210 TTATGG---ATTGATTTAGGGT
1 TTAGGGTTAATTGA-TTA-AAT
20462229 TTAGGGTTAATTGATTAAAT
1 TTAGGGTTAATTGATTAAAT
20462249 TTAGGGTTAATTGAT
1 TTAGGGTTAATTGAT
20462264 ACATACAAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
16 5 0.12
17 3 0.07
19 10 0.24
20 16 0.38
21 3 0.07
22 5 0.12
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (20 bp):
TTAGGGTTAATTGATTAAAT
Found at i:20462795 original size:126 final size:126
Alignment explanation
Indices: 20462570--20463073 Score: 748
Period size: 126 Copynumber: 4.0 Consensus size: 126
20462560 TTTCTGCAAG
* * * * *
20462570 AATAATTCTAAGCAGACATTTCTGGAA-AAATAGTGTCGGAAAACGCTTCAAGCAGGATGCACTG
1 AATAATTCTGAGTAGACGTTTCT-AAACAAATAGTG-CCGAAAACGCTTCAAGCAGGATGCACTG
* * *
20462634 TCAGTAAAATTT-TCGAAAAAGCTCCTACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
64 TCAGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* *
20462696 AATAATTTTGAGTAGACGTTTCTAAACAAATAGTGCCGAAAACGCTTCAAGTAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTAAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
* * *
20462761 AGCAAAATTTCTAGAAAAAGCTCCCCCGTGGACGCTTTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* *
20462822 AATAATTCTGAGTAGACGTTTCTCAACAAATAGCGCCGAAAACGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTAAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
*
20462887 AGCAAAATTTCTGGAAAAAGCTCTCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * * * *
20462948 AATAATTCTGAGTAGACATTTCTGAACAAATAGTGCCG--AA-GTTTTAAACAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTAAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
* *
20463010 AGCAAAATTTCTGGAAAAAGCTCCGACGTGGACGCTCTTTTGCTACAGTAGTTAGTAGAAA
66 AGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
20463071 AAT
1 AAT
20463074 GAGGCTATAA
Statistics
Matches: 347, Mismatches: 29, Indels: 7
0.91 0.08 0.02
Matches are distributed among these distances:
123 80 0.23
124 2 0.01
125 39 0.11
126 226 0.65
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTAAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
AGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:20466586 original size:18 final size:18
Alignment explanation
Indices: 20466560--20466602 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
20466550 GACTAGGAAA
* *
20466560 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
20466578 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
20466596 AGGATAC
1 AGGATAC
20466603 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:20466990 original size:25 final size:25
Alignment explanation
Indices: 20466962--20467014 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
20466952 TGTGCTCATC
* *
20466962 ATCAAACACATCGGGTGCCATGAGA
1 ATCAAACACATCGAGTGCCACGAGA
20466987 ATCAAACACATCGAGTGCCACGAGA
1 ATCAAACACATCGAGTGCCACGAGA
20467012 ATC
1 ATC
20467015 GGTTGTCGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.15
Consensus pattern (25 bp):
ATCAAACACATCGAGTGCCACGAGA
Found at i:20468294 original size:48 final size:47
Alignment explanation
Indices: 20468242--20468349 Score: 148
Period size: 48 Copynumber: 2.3 Consensus size: 47
20468232 AAAAAAAGCT
20468242 GTATTGAAATTGTAATTATAA-TTGCATAAATGAATAA-AATATCAAATA
1 GTATTGAAATT-TAATTA-AATTTGCATAAATGAA-AATAATATCAAATA
* *
20468290 GTATTGCAAATTTAATTAAATTTGCATAAATTAAAATAATATCGAATA
1 GTATTG-AAATTTAATTAAATTTGCATAAATGAAAATAATATCAAATA
20468338 GTATTGAAATTT
1 GTATTGAAATTT
20468350 TAAAATTATC
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
47 10 0.18
48 40 0.73
49 5 0.09
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (47 bp):
GTATTGAAATTTAATTAAATTTGCATAAATGAAAATAATATCAAATA
Found at i:20468504 original size:11 final size:11
Alignment explanation
Indices: 20468485--20468541 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
20468475 TTTTAAACAA
*
20468485 AGAATTTTGAT
1 AGAAATTTGAT
20468496 AGAAATTTGAT
1 AGAAATTTGAT
* *
20468507 AGAATTTTGAG
1 AGAAATTTGAT
*
20468518 A-AAATTTCA-
1 AGAAATTTGAT
20468527 ATGAAATTTGAT
1 A-GAAATTTGAT
20468539 AGA
1 AGA
20468542 TTTTTTAAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 1 0.03
10 6 0.16
11 29 0.78
12 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.37
Consensus pattern (11 bp):
AGAAATTTGAT
Found at i:20468510 original size:22 final size:21
Alignment explanation
Indices: 20468484--20468541 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
20468474 ATTTTAAACA
*
20468484 AAGAATTTTGATAGAAATTTG
1 AAGAATTTTGATAGAAATTTC
*
20468505 ATAGAATTTTGAGA-AAATTTC
1 A-AGAATTTTGATAGAAATTTC
*
20468526 AATGAAATTTGATAGA
1 AA-GAATTTTGATAGA
20468542 TTTTTTAAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 1 0.03
21 17 0.57
22 12 0.40
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (21 bp):
AAGAATTTTGATAGAAATTTC
Found at i:20469479 original size:21 final size:20
Alignment explanation
Indices: 20469454--20469499 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
20469444 TTGGGTTTGG
*
20469454 AATTTAAGGTTCATGGTTCA
1 AATTTAAGGTTCAGGGTTCA
*
20469474 AGATTTAATGTTCAGGGTTCA
1 A-ATTTAAGGTTCAGGGTTCA
20469495 AATTT
1 AATTT
20469500 GAGTTTGGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (20 bp):
AATTTAAGGTTCAGGGTTCA
Found at i:20471535 original size:171 final size:171
Alignment explanation
Indices: 20471250--20471592 Score: 650
Period size: 171 Copynumber: 2.0 Consensus size: 171
20471240 ATAATATTTG
*
20471250 TTGTTTAGTAAAAAAATGAAATTTTAGTAATTTCATAACTAAGTTGAAACTCAATTAAGAGATAA
1 TTGTTTAGTAAAAAAATGAAATTTCAGTAATTTCATAACTAAGTTGAAACTCAATTAAGAGATAA
*
20471315 CATTAACTCAATCTTAATAATAATATGAATATAATTATGAGAAGCAGAAAATGTCACATTAGTGT
66 CATTAACTCAATCTTAATAATAATATGAATATAAATATGAGAAGCAGAAAATGTCACATTAGTGT
20471380 TCAAAGGGATAAATAAAATTAAGCAAGATAACAAATACTTA
131 TCAAAGGGATAAATAAAATTAAGCAAGATAACAAATACTTA
*
20471421 TTGTTTAGTAAAAAAATGAAATTTCAGTAATTTCATAACTAAGTTGAAACTCAATTGAGAGATAA
1 TTGTTTAGTAAAAAAATGAAATTTCAGTAATTTCATAACTAAGTTGAAACTCAATTAAGAGATAA
20471486 CATTAACTCAATCTTAATAATAATATGAATATAAATATGAGAAGCAGAAAATGTCACATTAGTGT
66 CATTAACTCAATCTTAATAATAATATGAATATAAATATGAGAAGCAGAAAATGTCACATTAGTGT
*
20471551 TCAAAGGGATAAATAAAATTAAGCACGATAACAAATACTTA
131 TCAAAGGGATAAATAAAATTAAGCAAGATAACAAATACTTA
20471592 T
1 T
20471593 AGTTATATTA
Statistics
Matches: 168, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
171 168 1.00
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.31
Consensus pattern (171 bp):
TTGTTTAGTAAAAAAATGAAATTTCAGTAATTTCATAACTAAGTTGAAACTCAATTAAGAGATAA
CATTAACTCAATCTTAATAATAATATGAATATAAATATGAGAAGCAGAAAATGTCACATTAGTGT
TCAAAGGGATAAATAAAATTAAGCAAGATAACAAATACTTA
Found at i:20471682 original size:23 final size:23
Alignment explanation
Indices: 20471656--20471699 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
20471646 ATTGTAATAA
*
20471656 ATATTTTATATTAAAATATTAGT
1 ATATTTTATAATAAAATATTAGT
*
20471679 ATATTTTTTAATAAAATATTA
1 ATATTTTATAATAAAATATTA
20471700 AGAATGTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
ATATTTTATAATAAAATATTAGT
Found at i:20476927 original size:25 final size:25
Alignment explanation
Indices: 20476899--20476989 Score: 148
Period size: 25 Copynumber: 3.6 Consensus size: 25
20476889 CATATATATT
*
20476899 CGCACACATAGTGCCATAAAATTTC
1 CGCACACTTAGTGCCATAAAATTTC
*
20476924 CGCACACTTAGTGCCATATAATTTC
1 CGCACACTTAGTGCCATAAAATTTC
20476949 CGCACACTTAGTGCCATATAAA-TTC
1 CGCACACTTAGTGCCATA-AAATTTC
20476974 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
20476990 AGTCATTTCG
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
25 60 0.97
26 2 0.03
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.26
Consensus pattern (25 bp):
CGCACACTTAGTGCCATAAAATTTC
Found at i:20476998 original size:50 final size:50
Alignment explanation
Indices: 20476886--20476989 Score: 160
Period size: 50 Copynumber: 2.1 Consensus size: 50
20476876 TACACACCAA
20476886 TGCCATAT-ATATT-CGCACACATAGTGCCATAAAATTTCCGCACACTTAG
1 TGCCATATAAT-TTCCGCACACATAGTGCCATAAAATTTCCGCACACTTAG
*
20476935 TGCCATATAATTTCCGCACACTTAGTGCCATATAAA-TTCCGCACACTTAG
1 TGCCATATAATTTCCGCACACATAGTGCCATA-AAATTTCCGCACACTTAG
20476985 TGCCA
1 TGCCA
20476990 AGTCATTTCG
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
49 10 0.20
50 38 0.75
51 3 0.06
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (50 bp):
TGCCATATAATTTCCGCACACATAGTGCCATAAAATTTCCGCACACTTAG
Found at i:20480276 original size:15 final size:16
Alignment explanation
Indices: 20480243--20480291 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
20480233 AATTTTGGTG
*
20480243 AAAAGAAAAGGGGAG-
1 AAAAGAAAAGGAGAGA
* *
20480258 AAAAGAAAAGGATATA
1 AAAAGAAAAGGAGAGA
20480274 AAAAGAAAAGAGAGAGA
1 AAAAGAAAAG-GAGAGA
20480291 A
1 A
20480292 TTCAAATTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 12 0.44
16 10 0.37
17 5 0.19
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (16 bp):
AAAAGAAAAGGAGAGA
Found at i:20487096 original size:3 final size:3
Alignment explanation
Indices: 20487088--20487146 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
20487078 AAAATAAAGG
20487088 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
20487136 AAT AAT AAT AA
1 AAT AAT AAT AA
20487147 GGAAAATGGG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:20488746 original size:40 final size:40
Alignment explanation
Indices: 20488699--20488794 Score: 192
Period size: 40 Copynumber: 2.4 Consensus size: 40
20488689 GACTTATAGT
20488699 CCGCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATC
1 CCGCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATC
20488739 CCGCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATC
1 CCGCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATC
20488779 CCGCAGGCTTTGTGCT
1 CCGCAGGCTTTGTGCT
20488795 AGAAATTGGA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (40 bp):
CCGCAGGCTTTGTGCTGGTAATAGATATCCGGGTTAAATC
Found at i:20492281 original size:45 final size:45
Alignment explanation
Indices: 20492212--20492334 Score: 129
Period size: 45 Copynumber: 2.7 Consensus size: 45
20492202 TAGCAACCTG
* * * * * * *
20492212 ATGAGTAGTTTATGCATAATGTACTAGCAGCTTTTATTTGCATCA
1 ATGAGTGGTTTATCCACAACGTACTAGCAGCTTTTATCTACACCA
* *
20492257 ATGAGTGGTTTATTCACAACGTACTAGCAACTTTTATCTACACCA
1 ATGAGTGGTTTATCCACAACGTACTAGCAGCTTTTATCTACACCA
* * * *
20492302 ATAAATGGTTTATCCACACCGTACTACCAGCTT
1 ATGAGTGGTTTATCCACAACGTACTAGCAGCTT
20492335 GTCTGCAAAC
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (45 bp):
ATGAGTGGTTTATCCACAACGTACTAGCAGCTTTTATCTACACCA
Found at i:20495129 original size:18 final size:18
Alignment explanation
Indices: 20495108--20495142 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
20495098 TCCTCATGAA
20495108 ACTATAATACTTAGGAGG
1 ACTATAATACTTAGGAGG
20495126 ACTATAATACTTAGGAG
1 ACTATAATACTTAGGAG
20495143 AATTTCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (18 bp):
ACTATAATACTTAGGAGG
Found at i:20499695 original size:17 final size:16
Alignment explanation
Indices: 20499670--20499716 Score: 62
Period size: 14 Copynumber: 3.0 Consensus size: 16
20499660 CATTATAAAA
*
20499670 ATATAAAAATCAAATT
1 ATATAAAAATTAAATT
20499686 ATATTAAAAATTAAA--
1 ATA-TAAAAATTAAATT
20499701 ATATAAAAATTAAATT
1 ATATAAAAATTAAATT
20499717 TTAAATTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 11 0.41
15 3 0.11
16 3 0.11
17 10 0.37
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATAAAAATTAAATT
Found at i:20499720 original size:7 final size:7
Alignment explanation
Indices: 20499710--20499749 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
20499700 AATATAAAAA
20499710 TTAAATT
1 TTAAATT
20499717 TTAAATT
1 TTAAATT
*
20499724 TTGAATT
1 TTAAATT
20499731 TTAAATT
1 TTAAATT
20499738 TTAAA-T
1 TTAAATT
20499744 TTAAAT
1 TTAAAT
20499750 ATAATAGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (7 bp):
TTAAATT
Found at i:20504114 original size:21 final size:21
Alignment explanation
Indices: 20504088--20504128 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20504078 AGACAAGCGA
* *
20504088 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
20504109 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
20504129 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:20507366 original size:3 final size:3
Alignment explanation
Indices: 20507360--20507387 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
20507350 ATAATTATAC
20507360 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
20507388 TATCTATGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:20510187 original size:18 final size:19
Alignment explanation
Indices: 20510166--20510205 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
20510156 TGATTTTTAG
*
20510166 TTTTTTATATATTTAT-AT
1 TTTTTTATAAATTTATAAT
20510184 TTTTTTATAAATTTATAAT
1 TTTTTTATAAATTTATAAT
20510203 TTT
1 TTT
20510206 CTAATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTTATAAATTTATAAT
Found at i:20510198 original size:26 final size:28
Alignment explanation
Indices: 20510169--20510235 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 28
20510159 TTTTTAGTTT
*
20510169 TTTATATATTTATAT-TTTTTTAT-AAA
1 TTTATATATTTATATAATTTTTATCAAA
* *
20510195 TTTATA-ATTT-TCTAATTTTTATCAAT
1 TTTATATATTTATATAATTTTTATCAAA
20510221 TTTATATA-TTATATA
1 TTTATATATTTATATA
20510236 CTATAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
24 2 0.06
25 11 0.33
26 16 0.48
27 4 0.12
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTATATATTTATATAATTTTTATCAAA
Found at i:20510937 original size:41 final size:41
Alignment explanation
Indices: 20510870--20511046 Score: 295
Period size: 41 Copynumber: 4.4 Consensus size: 41
20510860 CGTTTTACAA
*
20510870 AAAACGCCGCT-AAAACCAGGGCATTAGAGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGGGCATTAGCGGCGCTTTTGGT
*
20510910 AAAACGCCGCTAAAAACCAGGACATTAGCGGCGC-TTTGGT
1 AAAACGCCGCTAAAAACCAGGGCATTAGCGGCGCTTTTGGT
*
20510950 AAAACGCCGCTAAAAACCAGGGCATTAGCGGTGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGGGCATTAGCGGCGCTTTTGGT
* *
20510991 AAAACGCCGCTAAAAACCAGGGCATTAGCGGCGTTTTTGAT
1 AAAACGCCGCTAAAAACCAGGGCATTAGCGGCGCTTTTGGT
20511032 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
20511047 GTCATATAAC
Statistics
Matches: 128, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
40 49 0.38
41 79 0.62
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGGGCATTAGCGGCGCTTTTGGT
Found at i:20510974 original size:81 final size:82
Alignment explanation
Indices: 20510870--20511046 Score: 295
Period size: 81 Copynumber: 2.2 Consensus size: 82
20510860 CGTTTTACAA
20510870 AAAACGCCGCT-AAAACCAGGGCATTAGAGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGGACA
1 AAAACGCCGCTAAAAACCAGGGCATTAGAGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGGACA
*
20510934 TTAGCGGCG-CTTTGGT
66 TTAGCGGCGTCTTTGAT
* * *
20510950 AAAACGCCGCTAAAAACCAGGGCATTAGCGGTGCTTTTGGTAAAACGCCGCTAAAAACCAGGGCA
1 AAAACGCCGCTAAAAACCAGGGCATTAGAGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGGACA
*
20511015 TTAGCGGCGTTTTTGAT
66 TTAGCGGCGTCTTTGAT
20511032 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
20511047 GTCATATAAC
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
80 11 0.12
81 59 0.66
82 20 0.22
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (82 bp):
AAAACGCCGCTAAAAACCAGGGCATTAGAGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGGACA
TTAGCGGCGTCTTTGAT
Found at i:20511226 original size:14 final size:14
Alignment explanation
Indices: 20511204--20511248 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
20511194 TTAATTATCA
*
20511204 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
20511218 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
20511232 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
20511246 TTA
1 TTA
20511249 AGCAGGTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:20511277 original size:49 final size:46
Alignment explanation
Indices: 20511219--20511315 Score: 140
Period size: 49 Copynumber: 2.0 Consensus size: 46
20511209 GTTTAAGGTT
* *
20511219 TATGGTTTAAGATATATGGTTTAGGGTTTAAGCAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATACGGTTTAGGGTTT-A--AGGTTTAGGAGTTAAC
*
20511268 TATGGTTTAAGATGTACGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
1 TATGGTTTAAGATATACGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
20511314 TA
1 TA
20511316 GTATTTGAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
46 17 0.38
48 1 0.02
49 27 0.60
ACGTcount: A:0.28, C:0.04, G:0.28, T:0.40
Consensus pattern (46 bp):
TATGGTTTAAGATATACGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
Found at i:20512110 original size:27 final size:24
Alignment explanation
Indices: 20512071--20512129 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 24
20512061 ATCTCAGCAC
20512071 AAAAATTTTAAAAGA-AAAAATAGAA
1 AAAAATTTTAAAA-ATAAAAATA-AA
20512096 AAAAATATGTTAAAAATAAAAATAAA
1 AAAAAT-T-TTAAAAATAAAAATAAA
20512122 ATAAAATT
1 A-AAAATT
20512130 GAGCAATAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
25 6 0.20
26 6 0.20
27 18 0.60
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (24 bp):
AAAAATTTTAAAAATAAAAATAAA
Found at i:20515442 original size:19 final size:19
Alignment explanation
Indices: 20515419--20515465 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
20515409 ATTTAATCTA
*
20515419 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
20515437 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
20515457 ATTTTTATT
1 ATTTTTATT
20515466 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:20517509 original size:15 final size:15
Alignment explanation
Indices: 20517489--20517584 Score: 88
Period size: 15 Copynumber: 6.4 Consensus size: 15
20517479 GTTATAGGTT
20517489 CACATAAAGGGTTCG
1 CACATAAAGGGTTCG
*
20517504 CACATATAGGGTTCG
1 CACATAAAGGGTTCG
* *
20517519 CGCATATAGGGTTCG
1 CACATAAAGGGTTCG
*
20517534 CACATACAA-GGATCG
1 CACATA-AAGGGTTCG
* * *
20517549 TACATATAA-AGTTCA
1 CACATA-AAGGGTTCG
*
20517564 CACATATAGGGTTCG
1 CACATAAAGGGTTCG
20517579 CACATA
1 CACATA
20517585 CAAGAACGCT
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
14 1 0.02
15 63 0.97
16 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (15 bp):
CACATAAAGGGTTCG
Found at i:20517531 original size:30 final size:30
Alignment explanation
Indices: 20517489--20517703 Score: 114
Period size: 30 Copynumber: 7.2 Consensus size: 30
20517479 GTTATAGGTT
*
20517489 CACATAAAGGGTTCGCACATATAGGGTTCG
1 CACATATAGGGTTCGCACATATAGGGTTCG
* * * *
20517519 CGCATATAGGGTTCGCACATACAAGGATCG
1 CACATATAGGGTTCGCACATATAGGGTTCG
* ** *
20517549 TACATATAAAGTTCACACATATAGGGTTCG
1 CACATATAGGGTTCGCACATATAGGGTTCG
* * ** ** * *
20517579 CACATACA-AGAACGCTTATATAGTGTTTAG
1 CACATATAGGGTTCGCACATATAG-GGTTCG
* * * *
20517609 -ACGTAT-GGGTTCTCACAT-TCAAGGTTCA
1 CACATATAGGGTTCGCACATAT-AGGGTTCG
* *** * **
20517637 CACATATAGGATTTATACATGTAGGGTTTA
1 CACATATAGGGTTCGCACATATAGGGTTCG
* *
20517667 CACATACAGGGTTTGCACATATAGGGTTCG
1 CACATATAGGGTTCGCACATATAGGGTTCG
20517697 CACATAT
1 CACATAT
20517704 TAATTCACAA
Statistics
Matches: 130, Mismatches: 49, Indels: 12
0.68 0.26 0.06
Matches are distributed among these distances:
28 4 0.03
29 25 0.19
30 100 0.77
31 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (30 bp):
CACATATAGGGTTCGCACATATAGGGTTCG
Found at i:20517656 original size:15 final size:15
Alignment explanation
Indices: 20517631--20517694 Score: 74
Period size: 15 Copynumber: 4.3 Consensus size: 15
20517621 TCACATTCAA
*
20517631 GGTTCACACATATAG
1 GGTTTACACATATAG
* * *
20517646 GATTTATACATGTAG
1 GGTTTACACATATAG
*
20517661 GGTTTACACATACAG
1 GGTTTACACATATAG
*
20517676 GGTTTGCACATATAG
1 GGTTTACACATATAG
20517691 GGTT
1 GGTT
20517695 CGCACATATT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (15 bp):
GGTTTACACATATAG
Found at i:20517699 original size:15 final size:15
Alignment explanation
Indices: 20517637--20517703 Score: 71
Period size: 15 Copynumber: 4.5 Consensus size: 15
20517627 TCAAGGTTCA
* *
20517637 CACATATAGGATTTA
1 CACATATAGGGTTTG
* * *
20517652 TACATGTAGGGTTTA
1 CACATATAGGGTTTG
*
20517667 CACATACAGGGTTTG
1 CACATATAGGGTTTG
*
20517682 CACATATAGGGTTCG
1 CACATATAGGGTTTG
20517697 CACATAT
1 CACATAT
20517704 TAATTCACAA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (15 bp):
CACATATAGGGTTTG
Found at i:20517769 original size:34 final size:34
Alignment explanation
Indices: 20517719--20517833 Score: 189
Period size: 34 Copynumber: 3.4 Consensus size: 34
20517709 CACAAAGTAC
20517719 ATAACAT-GGGGTTCACATACTA-TGTCATACTAT
1 ATAACATGGGGGTTCACATACTACT-TCATACTAT
*
20517752 ATAACATGGGGGTTCACATACTACTTCATATTAT
1 ATAACATGGGGGTTCACATACTACTTCATACTAT
20517786 ATAACATGGGGGTTCACATACTACTTCATACTAT
1 ATAACATGGGGGTTCACATACTACTTCATACTAT
*
20517820 ATAACATTGGGGTT
1 ATAACATGGGGGTT
20517834 TGCATGCTAA
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
33 7 0.09
34 69 0.90
35 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (34 bp):
ATAACATGGGGGTTCACATACTACTTCATACTAT
Found at i:20517931 original size:15 final size:15
Alignment explanation
Indices: 20517911--20517962 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
20517901 TTCGTCTTTA
20517911 GGGTTCACATACAGG
1 GGGTTCACATACAGG
* *
20517926 GGGTTCGCATACA-T
1 GGGTTCACATACAGG
* **
20517940 GGGCTCATGTACAGG
1 GGGTTCACATACAGG
20517955 GGGTTCAC
1 GGGTTCAC
20517963 CTATACAAAT
Statistics
Matches: 27, Mismatches: 9, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
14 9 0.33
15 18 0.67
ACGTcount: A:0.21, C:0.21, G:0.35, T:0.23
Consensus pattern (15 bp):
GGGTTCACATACAGG
Found at i:20522326 original size:22 final size:24
Alignment explanation
Indices: 20522292--20522342 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
20522282 ATATTTCAAC
* *
20522292 TATTTTTTCTTCTTTGTTTATT-T
1 TATTTTATCTTCTTTCTTTATTAT
*
20522315 TATTTTAT-TTCTTTCTTTCTTAT
1 TATTTTATCTTCTTTCTTTATTAT
20522338 TATTT
1 TATTT
20522343 ATAGTATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (24 bp):
TATTTTATCTTCTTTCTTTATTAT
Found at i:20548007 original size:20 final size:20
Alignment explanation
Indices: 20547970--20548009 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
20547960 AAGTTATTTC
*
20547970 TGGTAAGAAATTACAGAAAT
1 TGGTAAGAAAATACAGAAAT
20547990 TGGTAGAGAAAATA-AGAAAT
1 TGGTA-AGAAAATACAGAAAT
20548010 AGTTAAGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.53, C:0.03, G:0.23, T:0.23
Consensus pattern (20 bp):
TGGTAAGAAAATACAGAAAT
Found at i:20555272 original size:21 final size:21
Alignment explanation
Indices: 20555248--20555287 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
20555238 TCTTCGCCTT
20555248 ATTTCTCTTTGATGTTTGCAA
1 ATTTCTCTTTGATGTTTGCAA
20555269 ATTTCTCTTTGATGTTTGC
1 ATTTCTCTTTGATGTTTGC
20555288 GAACTATACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.55
Consensus pattern (21 bp):
ATTTCTCTTTGATGTTTGCAA
Found at i:20567299 original size:27 final size:27
Alignment explanation
Indices: 20567267--20567318 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
20567257 TTATAATAAA
*
20567267 TAATAACTTAAGT-TTAATTTGATGAAC
1 TAATAAC-TAAATATTAATTTGATGAAC
*
20567294 TAATAACTAAATATTAATTTTATGA
1 TAATAACTAAATATTAATTTGATGA
20567319 TCTCACCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (27 bp):
TAATAACTAAATATTAATTTGATGAAC
Found at i:20569798 original size:10 final size:9
Alignment explanation
Indices: 20569783--20569807 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
20569773 TAGAGATGGC
20569783 AAAAAAATA
1 AAAAAAATA
20569792 AAAAAAATA
1 AAAAAAATA
20569801 AAAAAAA
1 AAAAAAA
20569808 CCCCAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATA
Found at i:20570698 original size:17 final size:17
Alignment explanation
Indices: 20570678--20570712 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
20570668 GACATGATTC
20570678 AATATTCAGAGGGATAT
1 AATATTCAGAGGGATAT
20570695 AATATTCAGAGGGATAT
1 AATATTCAGAGGGATAT
20570712 A
1 A
20570713 TTGAAGCACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.06, G:0.23, T:0.29
Consensus pattern (17 bp):
AATATTCAGAGGGATAT
Found at i:20571309 original size:44 final size:44
Alignment explanation
Indices: 20571246--20571335 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
20571236 CAAACACCTC
20571246 CCATATCCATTCCCCTTTTTATTTTCGACAAGAAAGGTTAATTA
1 CCATATCCATTCCCCTTTTTATTTTCGACAAGAAAGGTTAATTA
20571290 CCATATCCATTCCCCTTTTTATTTTCGACAAGAAAGGTTAATTA
1 CCATATCCATTCCCCTTTTTATTTTCGACAAGAAAGGTTAATTA
20571334 CC
1 CC
20571336 CAAACAATCC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (44 bp):
CCATATCCATTCCCCTTTTTATTTTCGACAAGAAAGGTTAATTA
Found at i:20573110 original size:10 final size:10
Alignment explanation
Indices: 20573078--20573136 Score: 75
Period size: 10 Copynumber: 5.9 Consensus size: 10
20573068 TTAAATTCTA
20573078 AAAGATAAAT
1 AAAGATAAAT
*
20573088 ACAA-TTAAAT
1 A-AAGATAAAT
*
20573098 AAAGATAATT
1 AAAGATAAAT
20573108 AAAGATAAAT
1 AAAGATAAAT
*
20573118 AAGGATAAAT
1 AAAGATAAAT
20573128 AAAGATAAA
1 AAAGATAAA
20573137 AGCTAAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
9 2 0.05
10 37 0.90
11 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:20573776 original size:1 final size:1
Alignment explanation
Indices: 20573770--20573815 Score: 56
Period size: 1 Copynumber: 46.0 Consensus size: 1
20573760 AATACATTAC
* * * *
20573770 TTTTTTTCTTTTCTTCTTTTTTTTTTTTTTTTTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
20573816 ATTATTATAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:20574011 original size:99 final size:99
Alignment explanation
Indices: 20573838--20574021 Score: 260
Period size: 99 Copynumber: 1.9 Consensus size: 99
20573828 ATTATTATTG
* * * * *
20573838 CTTAAGAATACATTGAACCTTTTGACGCGAAGAGAGATGATAGCCAAGCAACCCACCCCGGTTAC
1 CTTAAGAACACATCGAACCTTTTGACGCGAAGAGAAATGACAGCCAAGCAACCCACCCCAGTTAC
20573903 TCAGCCCAACATACTCCTAATTTATTATATTTTT
66 TCAGCCCAACATACTCCTAATTTATTATATTTTT
* * * * *
20573937 CTTAAGAACATATCGAACTTTTTGACGCGAAGAGAAATGACAGCCAAGTACCCCACCTCAGTTAC
1 CTTAAGAACACATCGAACCTTTTGACGCGAAGAGAAATGACAGCCAAGCAACCCACCCCAGTTAC
* *
20574002 TCAGTCCAACATATTCCTAA
66 TCAGCCCAACATACTCCTAA
20574022 AAAATAATTT
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
99 73 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (99 bp):
CTTAAGAACACATCGAACCTTTTGACGCGAAGAGAAATGACAGCCAAGCAACCCACCCCAGTTAC
TCAGCCCAACATACTCCTAATTTATTATATTTTT
Found at i:20576601 original size:7 final size:7
Alignment explanation
Indices: 20576582--20576661 Score: 92
Period size: 7 Copynumber: 11.3 Consensus size: 7
20576572 AATATCCAAA
20576582 AATAAAGT
1 AATAAA-T
20576590 AATAAAT
1 AATAAAT
20576597 AATAAAAT
1 AAT-AAAT
*
20576605 TATAAAT
1 AATAAAT
*
20576612 TATAAAT
1 AATAAAT
*
20576619 TAT-AA-
1 AATAAAT
20576624 AATAAAT
1 AATAAAT
20576631 AATAAAT
1 AATAAAT
20576638 AATAAAT
1 AATAAAT
20576645 AATAAAT
1 AATAAAT
20576652 AATAATAT
1 AATAA-AT
20576660 AA
1 AA
20576662 AATATAAAAT
Statistics
Matches: 66, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
5 2 0.03
6 4 0.06
7 44 0.67
8 16 0.24
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (7 bp):
AATAAAT
Found at i:20576617 original size:30 final size:29
Alignment explanation
Indices: 20576582--20576661 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 29
20576572 AATATCCAAA
*
20576582 AATAAAGTAATAAATAATAAAATTATAAAT
1 AATAAA-TAATAAATAATAAAATAATAAAT
* *
20576612 TATAAATTAT-AA-AAT-AAATAATAAAT
1 AATAAATAATAAATAATAAAATAATAAAT
*
20576638 AATAAATAATAAATAATAATATAA
1 AATAAATAATAAATAATAAAATAA
20576662 AATATAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
26 18 0.44
27 5 0.12
28 5 0.12
29 8 0.20
30 5 0.12
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (29 bp):
AATAAATAATAAATAATAAAATAATAAAT
Found at i:20576650 original size:33 final size:34
Alignment explanation
Indices: 20576590--20576683 Score: 113
Period size: 33 Copynumber: 2.8 Consensus size: 34
20576580 AAAATAAAGT
* * *
20576590 AATAAATAATAAAATTATAAATTATAAATTATAA
1 AATAAATAATAAAATAATAAATAATAAATAATAA
20576624 AATAAATAAT-AAATAATAAATAATAAATAATAA
1 AATAAATAATAAAATAATAAATAATAAATAATAA
* *
20576657 TATAAA-ATATAAAATAAGAAA-AATAAA
1 AATAAATA-ATAAAATAATAAATAATAAA
20576684 CAAAAATAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
32 1 0.02
33 33 0.62
34 19 0.36
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (34 bp):
AATAAATAATAAAATAATAAATAATAAATAATAA
Found at i:20576661 original size:45 final size:49
Alignment explanation
Indices: 20576582--20576673 Score: 138
Period size: 45 Copynumber: 2.0 Consensus size: 49
20576572 AATATCCAAA
* *
20576582 AATAAAGTAATAAATAATAAAATTATAAATTATAAATTATAAAATAAAT
1 AATAAAGTAATAAATAATAAAATAATAAATTATAAAATATAAAATAAAT
20576631 AATAAA-TAATAAATAAT-AAATAAT-AA-TATAAAATATAAAATAA
1 AATAAAGTAATAAATAATAAAATAATAAATTATAAAATATAAAATAA
20576674 GAAAAATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
45 16 0.39
46 2 0.05
47 6 0.15
48 11 0.27
49 6 0.15
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.30
Consensus pattern (49 bp):
AATAAAGTAATAAATAATAAAATAATAAATTATAAAATATAAAATAAAT
Found at i:20576682 original size:14 final size:14
Alignment explanation
Indices: 20576579--20576683 Score: 71
Period size: 14 Copynumber: 7.6 Consensus size: 14
20576569 ATCAATATCC
*
20576579 AAAAATAAAGTAAT
1 AAAAATAAAATAAT
*
20576593 AAATAATAAAATTAT
1 AAA-AATAAAATAAT
* *
20576608 -AAATTATAAATTAT
1 AAAAATA-AAATAAT
20576622 -AAAAT-AAATAAT
1 AAAAATAAAATAAT
20576634 AAATAAT-AAATAAT
1 AAA-AATAAAATAAT
20576648 --AAATAATAAT-AT
1 AAAAATAA-AATAAT
*
20576660 AAAATATAAAATAAG
1 AAAA-ATAAAATAAT
20576675 AAAAATAAA
1 AAAAATAAA
20576684 CAAAAATAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 20
0.74 0.06 0.20
Matches are distributed among these distances:
11 3 0.04
12 10 0.13
13 8 0.11
14 36 0.48
15 18 0.24
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (14 bp):
AAAAATAAAATAAT
Found at i:20591519 original size:10 final size:10
Alignment explanation
Indices: 20591487--20591545 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
20591477 TTAAATTCTA
20591487 AAAGATAAAT
1 AAAGATAAAT
*
20591497 ACAA-TTAAAT
1 A-AAGATAAAT
* *
20591507 AAATATAATT
1 AAAGATAAAT
20591517 AAAGATAAAT
1 AAAGATAAAT
*
20591527 AAGGATAAAT
1 AAAGATAAAT
*
20591537 AAATATAAA
1 AAAGATAAA
20591546 AGCTAAAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
9 2 0.05
10 35 0.90
11 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:20591521 original size:30 final size:29
Alignment explanation
Indices: 20591487--20591544 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 29
20591477 TTAAATTCTA
20591487 AAAGATAAATACA-ATTAAATAAATATAATT
1 AAAGATAAATA-AGA-TAAATAAATATAATT
20591517 AAAGATAAATAAGGATAAATAAATATAA
1 AAAGATAAATAA-GATAAATAAATATAA
20591545 AAGCTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 1 0.04
30 24 0.92
31 1 0.04
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.26
Consensus pattern (29 bp):
AAAGATAAATAAGATAAATAAATATAATT
Found at i:20592387 original size:90 final size:90
Alignment explanation
Indices: 20592219--20592389 Score: 225
Period size: 90 Copynumber: 1.9 Consensus size: 90
20592209 TATAATTCTA
* * *
20592219 GTGGTTCATCCACATATTAGCAGGCAGCTTTTATCTACAATTAAGTTGTGTATTTACAACCATTT
1 GTGGTTCATCCACACATTAGCAGGCAGCTTTCATCTACAATTAAGTTGTGTATTCACAACCATTT
* *
20592284 GACCGCGTTTTAACTTGCAATACTG
66 GACAGCGTATTAACTTGCAATACTG
* * * * * *
20592309 GTGGTTCATCCACCCATTATCTGGCAGCTTTCATCTGCATTTATGTTGTGTATTCACAACCATTT
1 GTGGTTCATCCACACATTAGCAGGCAGCTTTCATCTACAATTAAGTTGTGTATTCACAACCATTT
**
20592374 GGTAGCGTATTAACTT
66 GACAGCGTATTAACTT
20592390 ACAACTTTTT
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
90 68 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (90 bp):
GTGGTTCATCCACACATTAGCAGGCAGCTTTCATCTACAATTAAGTTGTGTATTCACAACCATTT
GACAGCGTATTAACTTGCAATACTG
Found at i:20594165 original size:16 final size:16
Alignment explanation
Indices: 20594140--20594171 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20594130 AATGATAATT
20594140 AGATTAAATTAATTAA
1 AGATTAAATTAATTAA
*
20594156 AGATTTAATTAATTAA
1 AGATTAAATTAATTAA
20594172 GTAATGTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
AGATTAAATTAATTAA
Found at i:20595447 original size:15 final size:15
Alignment explanation
Indices: 20595419--20595523 Score: 54
Period size: 15 Copynumber: 6.9 Consensus size: 15
20595409 TATTTTTATT
20595419 AAATACAAAT-TAATA
1 AAATA-AAATATAATA
* *
20595434 AAATAATATATAATT
1 AAATAAAATATAATA
*
20595449 TAATAAAATATAATTA
1 AAATAAAATATAA-TA
* *
20595465 TTATTAAAATATGAAT-
1 -AAATAAAATAT-AATA
*
20595481 TAATAAAATTATAAT-
1 AAATAAAA-TATAATA
* * *
20595496 ATATATAATATTATA
1 AAATAAAATATAATA
*
20595511 AAATAACATATAA
1 AAATAAAATATAA
20595524 CCTACTTTAT
Statistics
Matches: 69, Mismatches: 15, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
14 8 0.12
15 44 0.64
16 4 0.06
17 11 0.16
18 2 0.03
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (15 bp):
AAATAAAATATAATA
Found at i:20595460 original size:17 final size:17
Alignment explanation
Indices: 20595438--20595495 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
20595428 TTAATAAAAT
20595438 AATATATAATTTAATAA
1 AATATATAATTTAATAA
* *
20595455 AATATA-ATTATTATTAA
1 AATATATAAT-TTAATAA
*
20595472 AATAT-GAA-TTAATAA
1 AATATATAATTTAATAA
20595487 AAT-TATAAT
1 AATATATAAT
20595496 ATATATAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 9
0.70 0.11 0.20
Matches are distributed among these distances:
14 1 0.03
15 11 0.34
16 2 0.06
17 18 0.56
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
AATATATAATTTAATAA
Found at i:20595471 original size:20 final size:19
Alignment explanation
Indices: 20595426--20595475 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
20595416 ATTAAATACA
20595426 AATTAATAAAATAATATAT
1 AATTAATAAAATAATATAT
20595445 AATTTAATAAAAT-ATA-AT
1 AA-TTAATAAAATAATATAT
* *
20595463 TATTATTAAAATA
1 AATTAATAAAATA
20595476 TGAATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 9 0.33
18 3 0.11
19 5 0.19
20 10 0.37
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTAATAAAATAATATAT
Found at i:20601404 original size:30 final size:30
Alignment explanation
Indices: 20601347--20601404 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
20601337 CGCATACCTG
*
20601347 AAATCGAACGGGAATGAGGAAACAGAAAAA
1 AAATCGAACGGGAATGAGGAAAAAGAAAAA
*
20601377 AAATCGAACGGGAA-GATGTAAAAAGAAA
1 AAATCGAACGGGAATGA-GGAAAAAGAAA
20601405 GATACCCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.57, C:0.09, G:0.26, T:0.09
Consensus pattern (30 bp):
AAATCGAACGGGAATGAGGAAAAAGAAAAA
Done.