Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 75 of 427
Found at i:18557451 original size:46 final size:46
Alignment explanation
Indices: 18557401--18557576 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
18557391 TGGTTGAGCA
18557401 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18557447 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
18557492 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18557540 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18557577 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:18557557 original size:93 final size:93
Alignment explanation
Indices: 18557398--18557569 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18557388 GGATGGTTGA
* *
18557398 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18557463 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
18557491 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18557556 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
18557570 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18565034 original size:46 final size:46
Alignment explanation
Indices: 18564984--18565159 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
18564974 TGGTTGAGCA
18564984 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18565030 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
18565075 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18565123 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18565160 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:18565140 original size:93 final size:93
Alignment explanation
Indices: 18564981--18565152 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
18564971 GGATGGTTGA
* *
18564981 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18565046 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
18565074 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
18565139 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
18565153 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18573700 original size:8 final size:8
Alignment explanation
Indices: 18573687--18573726 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
18573677 CTTCTTTGAT
18573687 ATTTTATA
1 ATTTTATA
*
18573695 ATTTTAAA
1 ATTTTATA
18573703 TATTTTAATA
1 -ATTTT-ATA
18573713 ATTTTATA
1 ATTTTATA
18573721 ATTTTA
1 ATTTTA
18573727 ATGATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 16 0.57
9 10 0.36
10 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATTTTATA
Found at i:18573716 original size:26 final size:28
Alignment explanation
Indices: 18573687--18573753 Score: 86
Period size: 26 Copynumber: 2.5 Consensus size: 28
18573677 CTTCTTTGAT
18573687 ATTTTATAATTTTAA-ATATTTTAAT-A
1 ATTTTATAATTTTAAGATATTTTAATAA
* *
18573713 ATTTTATAATTTTAATGATTTTTTTATAA
1 ATTTTATAATTTTAA-GATATTTTAATAA
18573742 ATTTTA-AATTTT
1 ATTTTATAATTTT
18573754 TTTTATAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
26 15 0.42
28 14 0.39
29 7 0.19
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (28 bp):
ATTTTATAATTTTAAGATATTTTAATAA
Found at i:18573733 original size:9 final size:9
Alignment explanation
Indices: 18573687--18573734 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
18573677 CTTCTTTGAT
18573687 ATTTT-ATA
1 ATTTTAATA
18573695 ATTTTAA-A
1 ATTTTAATA
18573703 TATTTTAATA
1 -ATTTTAATA
18573713 ATTTT-ATA
1 ATTTTAATA
*
18573721 ATTTTAATG
1 ATTTTAATA
18573730 ATTTT
1 ATTTT
18573735 TTTATAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
8 14 0.40
9 20 0.57
10 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (9 bp):
ATTTTAATA
Found at i:18573739 original size:20 final size:19
Alignment explanation
Indices: 18573714--18573771 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 19
18573704 ATTTTAATAA
18573714 TTTTATAATTTT-AATGATTT
1 TTTTATAATTTTAAAT--TTT
18573734 TTTTATAAATTTTAAATTTT
1 TTTTAT-AATTTTAAATTTT
18573754 TTTTATAATTTTAGAATT
1 TTTTATAATTTTA-AATT
18573772 AACTGAAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.20
20 19 0.54
21 6 0.17
22 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTAAATTTT
Found at i:18573752 original size:19 final size:19
Alignment explanation
Indices: 18573714--18573771 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 19
18573704 ATTTTAATAA
18573714 TTTTAT-AATTTTAATGATTT
1 TTTTATAAATTTTAA--ATTT
18573734 TTTTATAAATTTTAAATTT
1 TTTTATAAATTTTAAATTT
18573753 TTTT-TATAATTTTAGAATT
1 TTTTATA-AATTTTA-AATT
18573772 AACTGAAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
18 2 0.06
19 15 0.43
20 10 0.29
21 8 0.23
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTTATAAATTTTAAATTT
Found at i:18573889 original size:25 final size:27
Alignment explanation
Indices: 18573857--18573914 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
18573847 TTTAAATTAA
18573857 TTTT-AAAAAAT-ATTTTT-TTTATTT
1 TTTTGAAAAAATAATTTTTCTTTATTT
18573881 TTTTGAAAAAATGAATTTTTCTTTATTT
1 TTTTGAAAAAAT-AATTTTTCTTTATTT
*
18573909 ATTTGA
1 TTTTGA
18573915 TGTGGCATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 4 0.14
25 7 0.24
27 6 0.21
28 12 0.41
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (27 bp):
TTTTGAAAAAATAATTTTTCTTTATTT
Found at i:18576184 original size:21 final size:19
Alignment explanation
Indices: 18576144--18576191 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
18576134 TATATGTTAT
18576144 AAAATAAAGAGAGATGGAG
1 AAAATAAAGAGAGATGGAG
*
18576163 AAAATAAAGAGAGATTGAG
1 AAAATAAAGAGAGATGGAG
*
18576182 AGAATAAAGA
1 AAAATAAAGA
18576192 ACAAAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.27, T:0.12
Consensus pattern (19 bp):
AAAATAAAGAGAGATGGAG
Found at i:18577302 original size:17 final size:19
Alignment explanation
Indices: 18577260--18577303 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
18577250 ATGAAATTTT
*
18577260 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
18577279 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
18577297 AA-TATTA
1 AATTATTA
18577304 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:18577414 original size:15 final size:15
Alignment explanation
Indices: 18577396--18577424 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18577386 ATATTTATAA
18577396 AATTATTATTATTAT
1 AATTATTATTATTAT
18577411 AATTATTATTATTA
1 AATTATTATTATTA
18577425 GATAGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:18582256 original size:25 final size:24
Alignment explanation
Indices: 18582216--18582289 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 24
18582206 AGATGATTAT
*
18582216 ATATAAAATT-TT-AATAAATAAAA
1 ATATATAATTATTAAAT-AATAAAA
*
18582239 ATATATAATTATTAAATATTAAAA
1 ATATATAATTATTAAATAATAAAA
*
18582263 AT-TA-AATTA--AAATTAATATAA
1 ATATATAATTATTAAA-TAATAAAA
18582284 ATATAT
1 ATATAT
18582290 TTACTTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 3 0.07
21 8 0.19
22 7 0.17
23 11 0.26
24 10 0.24
25 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
ATATATAATTATTAAATAATAAAA
Found at i:18585730 original size:101 final size:101
Alignment explanation
Indices: 18585555--18585755 Score: 280
Period size: 101 Copynumber: 2.0 Consensus size: 101
18585545 ATTGCTGAGG
*
18585555 AGGTTAAGCACTCTTAATGCAAAAATAGAGACCGTGAGAGGGGTAAGAGTAAAAAGGATTTGAAG
1 AGGTTAAGCACTCTTAATGCAAAAATAGAGACCATGAGAGGGGTAAGAGTAAAAAGGATTTGAAG
* * * *
18585620 CCCTCTAGTTTTGTTTAGAGGCTTAAGAAATGAGCC
66 CCCTCTAGTTCTGTTCAGAAGCCTAAGAAATGAGCC
* * * * *
18585656 AGGTTAAGCCCTCTTAATGCGAAAATAGGGACCATGAGAGGGGTAGGAG-AAAGAGGGATTT-AG
1 AGGTTAAGCACTCTTAATGCAAAAATAGAGACCATGAGAGGGGTAAGAGTAAA-AAGGATTTGA-
18585719 AGCCCTCTAGTTCTGTTCAGAAGCCTAAGAAATGAGC
64 AGCCCTCTAGTTCTGTTCAGAAGCCTAAGAAATGAGC
18585756 TAAGTTTGAT
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
100 4 0.05
101 84 0.95
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.23
Consensus pattern (101 bp):
AGGTTAAGCACTCTTAATGCAAAAATAGAGACCATGAGAGGGGTAAGAGTAAAAAGGATTTGAAG
CCCTCTAGTTCTGTTCAGAAGCCTAAGAAATGAGCC
Found at i:18588279 original size:12 final size:12
Alignment explanation
Indices: 18588256--18588289 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
18588246 TATATTTTTT
18588256 AAAATT-ATATA
1 AAAATTAATATA
18588267 AAAATTAATATA
1 AAAATTAATATA
18588279 AAAATTAATAT
1 AAAATTAATAT
18588290 GAACGGGCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:18588906 original size:39 final size:39
Alignment explanation
Indices: 18588847--18588960 Score: 131
Period size: 39 Copynumber: 2.9 Consensus size: 39
18588837 CAGAAAATCT
* * * *
18588847 TATTCAATAAAATTAGTGGATAATGCTCGTTTGAGCAAGC
1 TATTCAATAGAATCAATGGATATTGCTCGTTTGAGCAA-C
* * *
18588887 -ATTCAGTATAATCAATGGATATTGCTCATTTGAGCAAC
1 TATTCAATAGAATCAATGGATATTGCTCGTTTGAGCAAC
* *
18588925 TATTCAATAGAATCAGTAGATATTGCTCGTTTGAGC
1 TATTCAATAGAATCAATGGATATTGCTCGTTTGAGC
18588961 GCTGCAGTAG
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
38 1 0.02
39 61 0.98
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.34
Consensus pattern (39 bp):
TATTCAATAGAATCAATGGATATTGCTCGTTTGAGCAAC
Found at i:18588979 original size:36 final size:37
Alignment explanation
Indices: 18588870--18589080 Score: 201
Period size: 36 Copynumber: 5.6 Consensus size: 37
18588860 TAGTGGATAA
* * * *
18588870 TGCTCGTTTGAGCAAGCATTCAGTATAATCAATGGATAT
1 TGCTCGTTTGAGC-A-CATTCAGTAGAATCAGTAGACAT
* * *
18588909 TGCTCATTTGAGCAACTATTCAATAGAATCAGTAGATAT
1 TGCTCGTTTGAGC-AC-ATTCAGTAGAATCAGTAGACAT
* *
18588948 TGCTCGTTTGAGCGC-TGCAGTAGAATCAGTAGACAT
1 TGCTCGTTTGAGCACATTCAGTAGAATCAGTAGACAT
* * * * *
18588984 TGCTTGTTTGAGCACATTAAGTAGGATCGGTAGATAT
1 TGCTCGTTTGAGCACATTCAGTAGAATCAGTAGACAT
* * *
18589021 TGTTCG-TTGAACACTTTCAGTAGAATCAGTAGACAT
1 TGCTCGTTTGAGCACATTCAGTAGAATCAGTAGACAT
* *
18589057 TGCTTGTTTGAGCACATTAAGTAG
1 TGCTCGTTTGAGCACATTCAGTAG
18589081 GATTAAAATG
Statistics
Matches: 139, Mismatches: 30, Indels: 8
0.79 0.17 0.05
Matches are distributed among these distances:
36 59 0.42
37 34 0.24
38 2 0.01
39 44 0.32
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.33
Consensus pattern (37 bp):
TGCTCGTTTGAGCACATTCAGTAGAATCAGTAGACAT
Found at i:18589419 original size:2 final size:2
Alignment explanation
Indices: 18589412--18589454 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
18589402 ATTTTATTTA
18589412 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18589454 A
1 A
18589455 AGGAAAGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18590062 original size:28 final size:28
Alignment explanation
Indices: 18590022--18590078 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
18590012 AATTTTATTG
18590022 AATCTAGTTTCTTATAGAAGAAACGTGT
1 AATCTAGTTTCTTATAGAAGAAACGTGT
18590050 AATCTAGTTTCTTATAGAAGAAACGTGT
1 AATCTAGTTTCTTATAGAAGAAACGTGT
18590078 A
1 A
18590079 GGCAATAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.35
Consensus pattern (28 bp):
AATCTAGTTTCTTATAGAAGAAACGTGT
Found at i:18592207 original size:33 final size:33
Alignment explanation
Indices: 18592169--18592311 Score: 146
Period size: 33 Copynumber: 4.3 Consensus size: 33
18592159 AATTGACAGA
* *
18592169 TAAGACCATGGCTAGGCCATGGCAATATATGTG
1 TAAGACCATAGCTAGGCCATGGCAATACATGTG
* *
18592202 TAAGACCATAGCTAGGCCATGGC-ATCCTAATG-A
1 TAAGACCATAGCTAGGCCATGGCAATAC--ATGTG
* ** ** *
18592235 TAAGACCATATCTAGGATATGGCACCACAAGTG
1 TAAGACCATAGCTAGGCCATGGCAATACATGTG
* *
18592268 TAAGACCATGGCTAGGCCATGGCAATACACGTG
1 TAAGACCATAGCTAGGCCATGGCAATACATGTG
18592301 TAAGACCATAG
1 TAAGACCATAG
18592312 TTGAACTATG
Statistics
Matches: 86, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
32 4 0.05
33 78 0.91
34 4 0.05
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.21
Consensus pattern (33 bp):
TAAGACCATAGCTAGGCCATGGCAATACATGTG
Found at i:18592250 original size:66 final size:66
Alignment explanation
Indices: 18592167--18592291 Score: 169
Period size: 66 Copynumber: 1.9 Consensus size: 66
18592157 TGAATTGACA
* * * * *
18592167 GATAAGACCATGGCTAGGCCATGGCAATATATGTGTAAGACCATAGCTAGGCCATGGCATCCTAA
1 GATAAGACCATAGCTAGGACATGGCAACACAAGTGTAAGACCATAGCTAGGCCATGGCATCCTAA
18592232 T
66 T
* * * *
18592233 GATAAGACCATATCTAGGATATGGCACCACAAGTGTAAGACCATGGCTAGGCCATGGCA
1 GATAAGACCATAGCTAGGACATGGCAACACAAGTGTAAGACCATAGCTAGGCCATGGCA
18592292 ATACACGTGT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 50 1.00
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.21
Consensus pattern (66 bp):
GATAAGACCATAGCTAGGACATGGCAACACAAGTGTAAGACCATAGCTAGGCCATGGCATCCTAA
T
Found at i:18592439 original size:46 final size:46
Alignment explanation
Indices: 18592379--18592635 Score: 343
Period size: 46 Copynumber: 5.6 Consensus size: 46
18592369 ATCGCGATTC
* *
18592379 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATA
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATA
* * *
18592425 AAATGTGTAAGACCATGGTTGAAAGATATCATGGCAACATGATATA
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATA
* * *
18592471 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATA
* * ***
18592517 AAATGAATAAGACTATGGTTGAAAGATACCATGGCAACATGACGGGG
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC-ATA
* * *
18592564 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACAGA
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATA
* *
18592610 AAATGAGTAAAACCATAGTTGAAAGA
1 AAATGAGTAAGACCATGGTTGAAAGA
18592636 CGCTATGGCA
Statistics
Matches: 192, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 150 0.78
47 42 0.22
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.21
Consensus pattern (46 bp):
AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATA
Found at i:18593152 original size:24 final size:23
Alignment explanation
Indices: 18593121--18593167 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
18593111 ATTATATGAT
*
18593121 TATTCTGGTGTGTTTTGGTTGGA
1 TATTCTGGTGTGTTTGGGTTGGA
18593144 TATTACTGGTGTGTTTGGGTTGGA
1 TATT-CTGGTGTGTTTGGGTTGGA
18593168 ATCCGTGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.11, C:0.04, G:0.36, T:0.49
Consensus pattern (23 bp):
TATTCTGGTGTGTTTGGGTTGGA
Found at i:18593481 original size:18 final size:19
Alignment explanation
Indices: 18593458--18593496 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
18593448 TGGAATTAAG
*
18593458 AATTGAAATGTGA-ATTGA
1 AATTGAAATATGAGATTGA
*
18593476 AATTGAGATATGAGATTGA
1 AATTGAAATATGAGATTGA
18593495 AA
1 AA
18593497 GTTTGAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (19 bp):
AATTGAAATATGAGATTGA
Found at i:18594956 original size:2 final size:2
Alignment explanation
Indices: 18594949--18595000 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
18594939 TTATTTTATT
18594949 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18594991 TA TA TA TA TA
1 TA TA TA TA TA
18595001 AGGAAAGAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18607310 original size:17 final size:17
Alignment explanation
Indices: 18607288--18607322 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
18607278 GTATGGGAAG
18607288 TTAATTTCTTACAAATC
1 TTAATTTCTTACAAATC
18607305 TTAATTTCTTACAAATC
1 TTAATTTCTTACAAATC
18607322 T
1 T
18607323 GTTGTGTAGG
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:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAATTTCTTACAAATC
Found at i:18616013 original size:23 final size:25
Alignment explanation
Indices: 18615987--18616032 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
18615977 TCCATTTCTG
18615987 TTCTC-TTTCTTTT-TCTTTCCTGT
1 TTCTCTTTTCTTTTATCTTTCCTGT
*
18616010 TTCTCTTTTCTTTTATTTTTCCT
1 TTCTCTTTTCTTTTATCTTTCCT
18616033 TTTGATTGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 8 0.40
25 7 0.35
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.72
Consensus pattern (25 bp):
TTCTCTTTTCTTTTATCTTTCCTGT
Found at i:18625151 original size:58 final size:60
Alignment explanation
Indices: 18625045--18625162 Score: 136
Period size: 58 Copynumber: 2.0 Consensus size: 60
18625035 GGTTTAAACT
*
18625045 TTTTTTTAAGTCTAAGTTAATCTTTGAACTTGACAACTATTCTCATGTT-AGGGCCTGAAC
1 TTTTTTT-AGTCTAAGTTAATCTTTGAACTTGACAACTATCCTCATGTTGAGGGCCTGAAC
* ** *
18625105 TTTTTTT-GTCTAAGTTAAT-TCTTGAATTTGACATTTATACCT-ATGTTGGGGGCCTGAA
1 TTTTTTTAGTCTAAGTTAATCT-TTGAACTTGACAACTAT-CCTCATGTTGAGGGCCTGAA
18625163 TTAAGCAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
57 1 0.02
58 31 0.62
59 11 0.22
60 7 0.14
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (60 bp):
TTTTTTTAGTCTAAGTTAATCTTTGAACTTGACAACTATCCTCATGTTGAGGGCCTGAAC
Found at i:18626806 original size:10 final size:9
Alignment explanation
Indices: 18626784--18626828 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 9
18626774 AATTTTAAAA
*
18626784 TTTTAACTT
1 TTTTAATTT
18626793 TTTTATATTT
1 TTTTA-ATTT
18626803 TTTTGAATTT
1 TTTT-AATTT
18626813 TTTTAAATTT
1 TTTT-AATTT
18626823 TTTTAA
1 TTTTAA
18626829 AAAATTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 7 0.22
10 24 0.75
11 1 0.03
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (9 bp):
TTTTAATTT
Found at i:18626829 original size:10 final size:10
Alignment explanation
Indices: 18626791--18626829 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
18626781 AAATTTTAAC
*
18626791 TTTTTTATAT
1 TTTTTTAAAT
*
18626801 TTTTTTGAAT
1 TTTTTTAAAT
18626811 TTTTTTAAAT
1 TTTTTTAAAT
18626821 TTTTTTAAA
1 TTTTTTAAA
18626830 AAATTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:18626886 original size:19 final size:19
Alignment explanation
Indices: 18626855--18626916 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
18626845 ATTTTAAATT
*
18626855 TTTTATAAA-TATTTTTAA
1 TTTTAAAAATTATTTTTAA
*
18626873 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATTTTTAA
*
18626892 TCTTGT-AAATTTATTTTGTAA
1 T-TT-TAAAAATTATTTT-TAA
18626913 TTTT
1 TTTT
18626917 TGTTGCGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
18 8 0.22
19 10 0.28
20 14 0.39
21 4 0.11
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.60
Consensus pattern (19 bp):
TTTTAAAAATTATTTTTAA
Found at i:18629514 original size:21 final size:21
Alignment explanation
Indices: 18629490--18629535 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
18629480 GCTCGTGCCT
*
18629490 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
18629511 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
18629532 CTGC
1 CTGC
18629536 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:18634875 original size:14 final size:15
Alignment explanation
Indices: 18634851--18634880 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
18634841 CACAAACTTC
18634851 AGAATTTATGTATTT
1 AGAATTTATGTATTT
18634866 AGAA-TTATGTATTT
1 AGAATTTATGTATTT
18634880 A
1 A
18634881 TATAAACACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (15 bp):
AGAATTTATGTATTT
Found at i:18636886 original size:21 final size:22
Alignment explanation
Indices: 18636862--18636908 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
18636852 TGTTTTATGA
*
18636862 TTTAAAATTTAAGGTTT-AGGG
1 TTTAAAATTTAAGATTTAAGGG
**
18636883 TTTAATGTTTAAGATTTAAGGG
1 TTTAAAATTTAAGATTTAAGGG
18636905 TTTA
1 TTTA
18636909 CAGAAAGCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (22 bp):
TTTAAAATTTAAGATTTAAGGG
Found at i:18637242 original size:41 final size:41
Alignment explanation
Indices: 18637197--18637454 Score: 193
Period size: 41 Copynumber: 6.6 Consensus size: 41
18637187 AACTTTTTGC
* *
18637197 GGCGTTTGGGCCAAAAACGCCGCTATTAATCAGTTTTTAGT
1 GGCGTTTGGGACAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * * **
18637238 GGCGTTTTGGATAAAAACGCCACAATTGATCAGTTTTTTTT
1 GGCGTTTGGGACAAAAACGCCGCTATTGATCAGTTTTTAGT
*
18637279 GGCGTTTGGGACAAAAACG-C-C------TCA--ATTTAGT
1 GGCGTTTGGGACAAAAACGCCGCTATTGATCAGTTTTTAGT
* ** * *
18637310 GGCGTTTGAGATTAAAATGCCGCTATTGATCAGCTTTTAGT
1 GGCGTTTGGGACAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * *
18637351 GGCGTTT-TGATAAAAACGCCGCTATTGACCAGTTTTTAAT
1 GGCGTTTGGGACAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * * *
18637391 GGCGTTTTTGG-CAAAAACGCCGCTATAGTTTAGCTTTTAGT
1 GGCG-TTTGGGACAAAAACGCCGCTATTGATCAGTTTTTAGT
*
18637432 GGCGTTTCGGAC--AAACGCCGCTA
1 GGCGTTTGGGACAAAAACGCCGCTA
18637455 ATGTATATTA
Statistics
Matches: 171, Mismatches: 33, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
31 19 0.11
32 1 0.01
33 4 0.02
39 15 0.09
40 37 0.22
41 94 0.55
42 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (41 bp):
GGCGTTTGGGACAAAAACGCCGCTATTGATCAGTTTTTAGT
Found at i:18637312 original size:72 final size:71
Alignment explanation
Indices: 18637232--18637370 Score: 172
Period size: 72 Copynumber: 1.9 Consensus size: 71
18637222 TTAATCAGTT
* **
18637232 TTTAGTGGCGTTTTG-GATAAAAACGCCACAATTGATCAGTTTTTTTTGGCGTTTGGGACAAAAA
1 TTTAGTGGCG-TTTGAGATAAAAACGCCACAATTGATCAGCTTTTAGTGGCGTTT-GGACAAAAA
18637296 CGCCTCAA
64 CGCCTCAA
* * * * * *
18637304 TTTAGTGGCGTTTGAGATTAAAATGCCGCTATTGATCAGCTTTTAGTGGCGTTTTGATAAAAACG
1 TTTAGTGGCGTTTGAGATAAAAACGCCACAATTGATCAGCTTTTAGTGGCGTTTGGACAAAAACG
18637369 CC
66 CC
18637371 GCTATTGACC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
71 15 0.26
72 42 0.74
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.35
Consensus pattern (71 bp):
TTTAGTGGCGTTTGAGATAAAAACGCCACAATTGATCAGCTTTTAGTGGCGTTTGGACAAAAACG
CCTCAA
Found at i:18637504 original size:12 final size:12
Alignment explanation
Indices: 18637482--18637510 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18637472 CGTTTTTTGT
18637482 TAAAA-CGCCAC
1 TAAAAGCGCCAC
18637493 TAAAAGCGCCAC
1 TAAAAGCGCCAC
18637505 TAAAAG
1 TAAAAG
18637511 TCTATTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.48, C:0.28, G:0.14, T:0.10
Consensus pattern (12 bp):
TAAAAGCGCCAC
Found at i:18637949 original size:18 final size:17
Alignment explanation
Indices: 18637900--18637951 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
18637890 TAAAGTTTTA
*
18637900 AAAAACTATGAAAAACTTT
1 AAAAA-TAT-AAAAAATTT
* *
18637919 TAAAATATTAAAAATTT
1 AAAAATATAAAAAATTT
18637936 AAAAATTATAAAAAAT
1 AAAAA-TATAAAAAAT
18637952 AAAAAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 11 0.41
18 12 0.44
19 4 0.15
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (17 bp):
AAAAATATAAAAAATTT
Found at i:18639330 original size:17 final size:16
Alignment explanation
Indices: 18639286--18639340 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
18639276 GGGTTACTAT
*
18639286 TTTTTATTTTTTTGAAA
1 TTTTTAATTTTTT-AAA
*
18639303 TTCTTATATTTTTTAAA
1 TTTTTA-ATTTTTTAAA
18639320 CTTTTTAATTTTTTATAA
1 -TTTTTAATTTTTTA-AA
18639338 TTT
1 TTT
18639341 CGAATAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 19 0.59
18 13 0.41
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (16 bp):
TTTTTAATTTTTTAAA
Found at i:18639368 original size:22 final size:21
Alignment explanation
Indices: 18639326--18639368 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
18639316 TAAACTTTTT
* *
18639326 AATTTTTTATAATTTCGAATA
1 AATTTTTTAAAATTTAGAATA
*
18639347 AATTTTTTGAAAATTTATAATA
1 AATTTTTT-AAAATTTAGAATA
18639369 TTTTAGTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (21 bp):
AATTTTTTAAAATTTAGAATA
Found at i:18641565 original size:80 final size:79
Alignment explanation
Indices: 18641428--18641583 Score: 231
Period size: 80 Copynumber: 2.0 Consensus size: 79
18641418 TATAGTTCTT
* ** * *
18641428 TCCCAACCCATAATTAGAAGGATAATGTGCTTCAGTGCACTCGAATCCACATTCTCCTGTATTGA
1 TCCCAACCCATAATTAGAAGGATAATGTACTTCAACGCACTCGAATCCACATTCTCCTATATTAA
18641493 CAACAATGTTCTCC
66 CAACAATGTTCTCC
* *
18641507 TCCCTAACCCATAATTAGAAGGATAATGTACTTCAACGCACTCGAATTCACGTTCTCCTATATTA
1 TCCC-AACCCATAATTAGAAGGATAATGTACTTCAACGCACTCGAATCCACATTCTCCTATATTA
*
18641572 ACAATAATGTTC
65 ACAACAATGTTC
18641584 ATGCCAATCA
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
79 4 0.06
80 64 0.94
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.30
Consensus pattern (79 bp):
TCCCAACCCATAATTAGAAGGATAATGTACTTCAACGCACTCGAATCCACATTCTCCTATATTAA
CAACAATGTTCTCC
Found at i:18663234 original size:18 final size:19
Alignment explanation
Indices: 18663211--18663250 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
18663201 GTTTATTCTC
*
18663211 TTAATT-ATTTTTTTATAA
1 TTAATTAATTTTATTATAA
18663229 TTAATTAGATTTTATTATAA
1 TTAATTA-ATTTTATTATAA
18663249 TT
1 TT
18663251 TACACTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
20 13 0.68
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TTAATTAATTTTATTATAA
Found at i:18663989 original size:15 final size:15
Alignment explanation
Indices: 18663971--18664005 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
18663961 AAAGAATAAT
18663971 TTTAATTTT-TTTCTA
1 TTTAATTTTATTTC-A
18663986 TTTAATTTTATTTCA
1 TTTAATTTTATTTCA
18664001 TTTAA
1 TTTAA
18664006 AATTATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTAATTTTATTTCA
Found at i:18670600 original size:559 final size:560
Alignment explanation
Indices: 18669504--18670608 Score: 1689
Period size: 559 Copynumber: 2.0 Consensus size: 560
18669494 TGATTCCAAA
*
18669504 ATTGAGTTAAAGCAGAATAAGTAGCATTAACATCGAAATTACTTGGTATATTTAATAAAGTTGTA
1 ATTGAGTTAAAGCAGAATAAGCAGCATTAACATCGAAATTACTTGGTATATTTAATAAAGTTGTA
* * *
18669569 TGGTAGGGATTAGTTTGAACATCATTAGGGTTACCAAAACCCATAACGATGTTAAAATCTGAAAT
66 TGGTAGGAATTAGTTTGAACATCATCAGGGTTACCAAAACCCATAACGATGTTAAAATCTAAAAT
*
18669634 TGACATTCTAAAATATTTACCAAGTAATCGAAAATAGACAACATCATGAGTTTTAACAGTTTACA
131 TGACATTCTAAAATATTTACCAAGTAATCGAAAACAGACAACATCATGAGTTTTAACAGTTTACA
* ** * *
18669699 ATGCATTAATATTGAAGTTAAATGTTGCATTGAATTCATAGACTAGTTCATAATATGCAGCACAA
196 ATGCATTAATATTGAAGTTAAATATTGCATAAAACTCATAAACTAGTTCATAATATGCAGCACAA
* * *
18669764 GAAATATTTACAAACGAATTCCAACCAATTGTATCAAAATAGTTCAATACAGCATCACATATATT
261 GAAACATTTACAAACGAATTCCAACCAATAGCATCAAAATAGTTCAATACAGCATCACATATATT
* *
18669829 AAGCATATCAAGAGTGTAAAGATCAATTTTCTCACAGATCGAGAGTGATCATTGCCAAATTTTGT
326 AAGCATATCAAGAGTGTAAAGATCAATTTTCTCACAGATCGAGAGTGACCATTGCCAAATGTTGT
* * * *
18669894 TGTATCTTGCGCGATGCTCCAAGGTTGCAAAGTTCAAAGAACCTCGTAGTCGTGCTTCTGTCAGC
391 CGTATCTTACGCGATGCTCCAAGGTTGCAAAGTTCAAAGAACCTCGTAGTCATGCTTCTATCAGC
* * * *
18669959 ACAGTGAAAGTATAACATTACCTATTACGTTGATCGTCCTAGGGTGGCTGAACAGTTTCTTCAAG
456 ACAGTGAAAGTACAACATTACCTATTACGTTGACCATCCTAAGGTGGCTGAACAGTTTCTTCAAG
** *
18670024 CGAGTTTGATAGTGGACTCGAATTTCTAACAGCTTTCTAG
521 CGAGTCGGATAGTGGACTCAAATTTCTAACAGCTTTCTAG
*
18670064 ATTGAGTTAAAGTAGAATAAGCAGCATT-ACATCGAAATTACTTGGTATATTTAATAAA-TCTGT
1 ATTGAGTTAAAGCAGAATAAGCAGCATTAACATCGAAATTACTTGGTATATTTAATAAAGT-TGT
* * * * *
18670127 ATGGTAGGAATTAGTTTGAACATCATCAGGGTTAGCGAAACCTATGATGATGTTAAAATCTAAAA
65 ATGGTAGGAATTAGTTTGAACATCATCAGGGTTACCAAAACCCATAACGATGTTAAAATCTAAAA
* *
18670192 TTGACATTCTAAAATATTTACCAAGTAATCGAAAACAGACAACATCATGAGTTTTAATAGTTTGC
130 TTGACATTCTAAAATATTTACCAAGTAATCGAAAACAGACAACATCATGAGTTTTAACAGTTTAC
18670257 AATGCATTAATATTGAAGTTAAATATTGCATAAAACTCATAAACTAGTTCATAATATGCAGCACA
195 AATGCATTAATATTGAAGTTAAATATTGCATAAAACTCATAAACTAGTTCATAATATGCAGCACA
* * *
18670322 TGAAACATTTGA-AAATGAATTCCAACCAATAGCATCAAAATAGTTCAATAC-GACATCACGTAT
260 AGAAACATTT-ACAAACGAATTCCAACCAATAGCATCAAAATAGTTCAATACAG-CATCACATAT
* * *
18670385 ATTAAGCATATCAAGAGTGTAAAGATCAA-TTTCTTTATAGATCGAGAGTGACCGTTGCCAAATG
323 ATTAAGCATATCAAGAGTGTAAAGATCAATTTTC-TCACAGATCGAGAGTGACCATTGCCAAATG
* * *
18670449 TTGTCGTATCTTACGTGATGCTCCAGGGTTGCAAAGTTCAAAGACCCTCGTAGTCATGCTTCTAT
387 TTGTCGTATCTTACGCGATGCTCCAAGGTTGCAAAGTTCAAAGAACCTCGTAGTCATGCTTCTAT
* * * * *
18670514 TAGCACAGTGTAAGTACAACATTACCTATTACGTTGACCATCTTAAGGTGGTTGAACATTTTCTT
452 CAGCACAGTGAAAGTACAACATTACCTATTACGTTGACCATCCTAAGGTGGCTGAACAGTTTCTT
* *
18670579 CAAGTGAGTCGGATGGTGGACTCAAATTTC
517 CAAGCGAGTCGGATAGTGGACTCAAATTTC
18670609 CAGTAGCTTT
Statistics
Matches: 491, Mismatches: 50, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
558 6 0.01
559 458 0.93
560 27 0.05
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (560 bp):
ATTGAGTTAAAGCAGAATAAGCAGCATTAACATCGAAATTACTTGGTATATTTAATAAAGTTGTA
TGGTAGGAATTAGTTTGAACATCATCAGGGTTACCAAAACCCATAACGATGTTAAAATCTAAAAT
TGACATTCTAAAATATTTACCAAGTAATCGAAAACAGACAACATCATGAGTTTTAACAGTTTACA
ATGCATTAATATTGAAGTTAAATATTGCATAAAACTCATAAACTAGTTCATAATATGCAGCACAA
GAAACATTTACAAACGAATTCCAACCAATAGCATCAAAATAGTTCAATACAGCATCACATATATT
AAGCATATCAAGAGTGTAAAGATCAATTTTCTCACAGATCGAGAGTGACCATTGCCAAATGTTGT
CGTATCTTACGCGATGCTCCAAGGTTGCAAAGTTCAAAGAACCTCGTAGTCATGCTTCTATCAGC
ACAGTGAAAGTACAACATTACCTATTACGTTGACCATCCTAAGGTGGCTGAACAGTTTCTTCAAG
CGAGTCGGATAGTGGACTCAAATTTCTAACAGCTTTCTAG
Found at i:18675863 original size:2 final size:2
Alignment explanation
Indices: 18675856--18675943 Score: 176
Period size: 2 Copynumber: 44.0 Consensus size: 2
18675846 TGCAGATTTG
18675856 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
18675898 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
18675940 CT CT
1 CT CT
18675944 AATATTTTTT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 86 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:18680733 original size:17 final size:17
Alignment explanation
Indices: 18680713--18680745 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
18680703 ATTAAGAATG
18680713 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
18680730 TTATTAAATTATATTT
1 TTATTAAATTATATTT
18680746 AATAATAATT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:18680754 original size:58 final size:59
Alignment explanation
Indices: 18680688--18680823 Score: 153
Period size: 58 Copynumber: 2.4 Consensus size: 59
18680678 TTTTAATTCA
*
18680688 TATAATAATAATTATATTAAGAATGTTA-TTAAA-T-TATA-T-TTTTTATTAAATTATAT
1 TATAATAATAATTATATTAA-AAT-ATAGTTAAACTATATATTATTTTTATTAAATTATAT
* *
18680744 T-TAATAATAATTATGTTAAAATATAGTTAAACTATTTATTATTTTTATTAAATTAT-T
1 TATAATAATAATTATATTAAAATATAGTTAAACTATATATTATTTTTATTAAATTATAT
*
18680801 TTTAATAATAATCT-TATTAAAAT
1 TATAATAATAAT-TATATTAAAAT
18680824 TTAATAACAA
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
53 2 0.03
54 8 0.12
55 18 0.26
56 4 0.06
57 3 0.04
58 33 0.48
59 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (59 bp):
TATAATAATAATTATATTAAAATATAGTTAAACTATATATTATTTTTATTAAATTATAT
Found at i:18681009 original size:46 final size:44
Alignment explanation
Indices: 18680917--18681010 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
18680907 ATTACAACAT
*
18680917 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
* ***
18680961 CATTCTATTCAACCAAACAGTTGAATTACTTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAA-TAC-TATTACAGCTCTATTC
18681007 CATT
1 CATT
18681011 ACAGCTCTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 21 0.49
45 3 0.07
46 19 0.44
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
Found at i:18681013 original size:16 final size:16
Alignment explanation
Indices: 18680992--18681047 Score: 87
Period size: 16 Copynumber: 3.5 Consensus size: 16
18680982 TGAATTACTT
18680992 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
18681008 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
18681024 ATTACAG-TCCTATTCC
1 ATTACAGCT-CTATTCC
18681040 ATTACAGC
1 ATTACAGC
18681048 CAACCAAACG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
15 1 0.03
16 35 0.97
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:18681593 original size:12 final size:12
Alignment explanation
Indices: 18681576--18681602 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18681566 CCAGTGAGTT
18681576 CACGGCCTAGCA
1 CACGGCCTAGCA
18681588 CACGGCCTAGCA
1 CACGGCCTAGCA
18681600 CAC
1 CAC
18681603 AGACGTGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.44, G:0.22, T:0.07
Consensus pattern (12 bp):
CACGGCCTAGCA
Found at i:18687610 original size:44 final size:40
Alignment explanation
Indices: 18687562--18687690 Score: 105
Period size: 42 Copynumber: 3.0 Consensus size: 40
18687552 TGTAAAACTG
* *
18687562 TGTCTAGGACATAGGCCTCGATTTGAGAATTACGTGTAAGACCA
1 TGTCT-GGACATAGGCATCGATCT---AATTACGTGTAAGACCA
* * *
18687606 TGTCTGAGACATCGGCATCGTATCTAATTTCGTGTAAGACCC
1 TGTCTG-GACATAGGCATCG-ATCTAATTACGTGTAAGACCA
* * *
18687648 TGTCTGGGACAGAGGCATCGATACTGAATTACATATAAGACCA
1 TGTCT-GGACATAGGCATCGAT-CT-AATTACGTGTAAGACCA
18687691 CGTTTGGGAC
Statistics
Matches: 69, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
41 2 0.03
42 33 0.48
43 15 0.22
44 16 0.23
45 3 0.04
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (40 bp):
TGTCTGGACATAGGCATCGATCTAATTACGTGTAAGACCA
Found at i:18692900 original size:2 final size:2
Alignment explanation
Indices: 18692893--18692939 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
18692883 TTGGTTGTGT
18692893 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18692935 TA TA T
1 TA TA T
18692940 TCGGAATTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18694870 original size:14 final size:15
Alignment explanation
Indices: 18694843--18694872 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
18694833 AATAAAAGTG
18694843 AATAAAACATGGCAA
1 AATAAAACATGGCAA
18694858 AATAAAA-ATGGCAA
1 AATAAAACATGGCAA
18694872 A
1 A
18694873 TGATAACGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.63, C:0.10, G:0.13, T:0.13
Consensus pattern (15 bp):
AATAAAACATGGCAA
Found at i:18694975 original size:20 final size:19
Alignment explanation
Indices: 18694943--18694984 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
18694933 ATATGTATGG
*
18694943 TATTAAAATATATACGTAA
1 TATTAAAATATATACATAA
18694962 TATTAAAGATATATACATAA
1 TATTAAA-ATATATACATAA
18694982 TAT
1 TAT
18694985 ATACATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
TATTAAAATATATACATAA
Found at i:18694984 original size:11 final size:11
Alignment explanation
Indices: 18694949--18695048 Score: 52
Period size: 11 Copynumber: 9.3 Consensus size: 11
18694939 ATGGTATTAA
*
18694949 AATATATACGT
1 AATATATACAT
18694960 AATAT-TA-A-
1 AATATATACAT
18694968 AGATATATACAT
1 A-ATATATACAT
18694980 AATATATACAT
1 AATATATACAT
* *
18694991 AA-A-AAATAT
1 AATATATACAT
*
18695000 AATAT-TA-AA
1 AATATATACAT
*
18695009 AATATATATAT
1 AATATATACAT
*
18695020 AAATTATATATAT
1 -AA-TATATACAT
18695033 GAAATATATACAT
1 --AATATATACAT
18695046 AAT
1 AAT
18695049 GTAGTTATTA
Statistics
Matches: 71, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
8 1 0.01
9 16 0.23
10 9 0.13
11 22 0.31
12 3 0.04
13 17 0.24
14 3 0.04
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (11 bp):
AATATATACAT
Found at i:18695000 original size:15 final size:15
Alignment explanation
Indices: 18694970--18695032 Score: 65
Period size: 15 Copynumber: 4.3 Consensus size: 15
18694960 AATATTAAAG
* *
18694970 ATATATACATAATAT
1 ATATATAAAAAATAT
*
18694985 ATACATAAAAAATAT
1 ATATATAAAAAATAT
*
18695000 A-ATATTAAAAATAT
1 ATATATAAAAAATAT
**
18695014 ATATATAAATTATAT
1 ATATATAAAAAATAT
18695029 ATAT
1 ATAT
18695033 GAAATATATA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
14 12 0.31
15 27 0.69
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
ATATATAAAAAATAT
Found at i:18695011 original size:14 final size:15
Alignment explanation
Indices: 18694980--18695042 Score: 60
Period size: 15 Copynumber: 4.4 Consensus size: 15
18694970 ATATATACAT
* *
18694980 AATATATACATAAAA
1 AATATATATATTAAA
18694995 AATATA-ATATTAAA
1 AATATATATATTAAA
18695009 AATATATATA-T-AA
1 AATATATATATTAAA
* *
18695022 ATTATATATATGAAA
1 AATATATATATTAAA
*
18695037 TATATA
1 AATATA
18695043 CATAATGTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
13 11 0.28
14 13 0.33
15 15 0.38
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (15 bp):
AATATATATATTAAA
Found at i:18695023 original size:26 final size:26
Alignment explanation
Indices: 18694994--18695095 Score: 75
Period size: 26 Copynumber: 3.8 Consensus size: 26
18694984 TATACATAAA
18694994 AAATATAATATTAAAAATATATATAT
1 AAATATAATATTAAAAATATATATAT
* *
18695020 AAAT-T-ATATATATGAAATATATACAT
1 AAATATAATAT-TA-AAAATATATATAT
* *
18695046 -AATGTAGTTATTAAAAATATATATATAT
1 AAATATA-ATATT-AAAA-ATATATATAT
* *
18695074 ACAATATAGTATTAAGAATATA
1 A-AATATAATATTAAAAATATA
18695096 CACAACACGT
Statistics
Matches: 59, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
24 4 0.07
25 6 0.10
26 16 0.27
27 8 0.14
28 16 0.27
29 4 0.07
30 5 0.08
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (26 bp):
AAATATAATATTAAAAATATATATAT
Found at i:18695042 original size:15 final size:14
Alignment explanation
Indices: 18694970--18695095 Score: 68
Period size: 13 Copynumber: 9.1 Consensus size: 14
18694960 AATATTAAAG
*
18694970 ATATATACATAATAT
1 ATATATA-AAAATAT
*
18694985 ATACATAAAAA-AT
1 ATATATAAAAATAT
18694998 ATAATATTAAAAATAT
1 AT-ATA-TAAAAATAT
*
18695014 ATATAT-AAATTAT
1 ATATATAAAAATAT
*
18695027 ATATAT-GAAATAT
1 ATATATAAAAATAT
* **
18695040 ATACAT-AATGTAGT
1 ATATATAAAAATA-T
18695054 -TAT-TAAAAATAT
1 ATATATAAAAATAT
*
18695066 ATATATATACAATAT
1 ATATATA-AAAATAT
*
18695081 AGTAT-TAAGAATAT
1 A-TATATAAAAATAT
18695095 A
1 A
18695096 CACAACACGT
Statistics
Matches: 87, Mismatches: 15, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
12 2 0.02
13 38 0.44
14 16 0.18
15 24 0.28
16 7 0.08
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (14 bp):
ATATATAAAAATAT
Found at i:18695072 original size:30 final size:29
Alignment explanation
Indices: 18695036--18695122 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 29
18695026 TATATATGAA
* *
18695036 ATATATACATAATGTAGTTATTAAAAATAT
1 ATATATACACAATATAG-TATTAAAAATAT
* *
18695066 ATATATATACAATATAGTATTAAGAATAT
1 ATATATACACAATATAGTATTAAAAATAT
* * * *
18695095 ACACA-ACAC-GTATGGTATTAAAAATAT
1 ATATATACACAATATAGTATTAAAAATAT
18695122 A
1 A
18695123 GTATTAAAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
27 16 0.34
28 3 0.06
29 14 0.30
30 14 0.30
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.34
Consensus pattern (29 bp):
ATATATACACAATATAGTATTAAAAATAT
Found at i:18695395 original size:22 final size:22
Alignment explanation
Indices: 18695353--18695414 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
18695343 TAAATAATAA
18695353 TACTATAT-ATAAATATATACA-
1 TACTATATAATAAA-ATATACAC
*
18695374 TACGTATGTAATAAAATATACAC
1 TAC-TATATAATAAAATATACAC
18695397 TACTATATAATAATAATA
1 TACTATATAATAA-AATA
18695415 ATAATAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 3 0.09
22 20 0.57
23 12 0.34
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.35
Consensus pattern (22 bp):
TACTATATAATAAAATATACAC
Found at i:18695409 original size:3 final size:3
Alignment explanation
Indices: 18695403--18695446 Score: 79
Period size: 3 Copynumber: 14.3 Consensus size: 3
18695393 ACACTACTAT
18695403 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A
18695447 ATGCAAAAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:18695562 original size:9 final size:9
Alignment explanation
Indices: 18695538--18695597 Score: 65
Period size: 9 Copynumber: 6.9 Consensus size: 9
18695528 AGATATACAC
*
18695538 TAATATATAA
1 TAATA-ATAG
18695548 TAATAATAG
1 TAATAATAG
18695557 TAATAATAG
1 TAATAATAG
18695566 T-A-AATA-
1 TAATAATAG
18695572 TAATAATAG
1 TAATAATAG
18695581 TAATAAT-G
1 TAATAATAG
18695589 ATAATAATA
1 -TAATAATA
18695598 CGAAAATAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
6 1 0.02
7 5 0.11
8 6 0.14
9 27 0.61
10 5 0.11
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (9 bp):
TAATAATAG
Found at i:18695608 original size:3 final size:3
Alignment explanation
Indices: 18695538--18695597 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
18695528 AGATATACAC
* * *
18695538 TAA TATA TAA TAA TAA TAG TAA TAA TAG TAA -ATA TAA TAA TAG TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
*
18695584 TAA TGA TAA TAA TA
1 TAA TAA TAA TAA TA
18695598 CGAAAATAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 1 0.02
3 41 0.89
4 4 0.09
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:18695676 original size:20 final size:20
Alignment explanation
Indices: 18695653--18695742 Score: 71
Period size: 20 Copynumber: 4.5 Consensus size: 20
18695643 TTTTAATGGC
*
18695653 AATAATAATAATAGTACAAT
1 AATAATAATAATAGTAAAAT
* * *
18695673 AATAACAA-AGTAGTAGAAAA
1 AATAATAATAATAGTA-AAAT
18695693 AATAACT-ATAATAGTAAAAT
1 AATAA-TAATAATAGTAAAAT
* *
18695713 -ATAATAAATAGTAGTAAAAG
1 AATAAT-AATAATAGTAAAAT
18695733 AA-AATAATAA
1 AATAATAATAA
18695743 AATTATCTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
18 1 0.02
19 14 0.26
20 32 0.59
21 7 0.13
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.24
Consensus pattern (20 bp):
AATAATAATAATAGTAAAAT
Found at i:18695697 original size:40 final size:40
Alignment explanation
Indices: 18695653--18695742 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
18695643 TTTTAATGGC
*
18695653 AATAATAATAATAGTACAATAATAACAAAGTAGTAG-AAAA-
1 AATAATAATAATAGTAAAAT-ATAACAAA-TAGTAGTAAAAG
*
18695693 AATAACT-ATAATAGTAAAATATAATAAATAGTAGTAAAAG
1 AATAA-TAATAATAGTAAAATATAACAAATAGTAGTAAAAG
18695733 AA-AATAATAA
1 AATAATAATAA
18695743 AATTATCTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
38 7 0.16
39 17 0.39
40 19 0.43
41 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.24
Consensus pattern (40 bp):
AATAATAATAATAGTAAAATATAACAAATAGTAGTAAAAG
Found at i:18695722 original size:17 final size:17
Alignment explanation
Indices: 18695657--18695725 Score: 50
Period size: 19 Copynumber: 3.8 Consensus size: 17
18695647 AATGGCAATA
*
18695657 ATAAT-AATAGTACAAT
1 ATAATAAATAGTAAAAT
* *
18695673 AATAACAAAGTAGTAGAAAAA
1 -ATAATAAA-TAGT--AAAAT
18695694 ATAACTATAATAGTAAAAT
1 ATAA-TA-AATAGTAAAAT
18695713 ATAATAAATAGTA
1 ATAATAAATAGTA
18695726 GTAAAAGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
17 11 0.27
18 4 0.10
19 12 0.29
20 4 0.10
21 8 0.20
22 2 0.05
ACGTcount: A:0.61, C:0.04, G:0.09, T:0.26
Consensus pattern (17 bp):
ATAATAAATAGTAAAAT
Found at i:18697407 original size:43 final size:43
Alignment explanation
Indices: 18697357--18697456 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 43
18697347 GATCTGTTTT
*
18697357 CCTACTGCTTAGGCGATTT-AGATCTGTACATTCAACCTGTTAC
1 CCTACTGCTTAGG-GATTTAAGATCTGTAAATTCAACCTGTTAC
* *** *
18697400 CCTACTGCTTAGGGATTTAAGGTCTGTAAATTTGGCTTGTTAC
1 CCTACTGCTTAGGGATTTAAGATCTGTAAATTCAACCTGTTAC
18697443 CCTACTGCTTAGGG
1 CCTACTGCTTAGGG
18697457 GGTTAAAGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
42 5 0.10
43 45 0.90
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (43 bp):
CCTACTGCTTAGGGATTTAAGATCTGTAAATTCAACCTGTTAC
Found at i:18709764 original size:14 final size:15
Alignment explanation
Indices: 18709737--18709766 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
18709727 AATAAAAGTG
18709737 AATAAAACATGGCAA
1 AATAAAACATGGCAA
18709752 AATAAAA-ATGGCAA
1 AATAAAACATGGCAA
18709766 A
1 A
18709767 TGGTAACGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.63, C:0.10, G:0.13, T:0.13
Consensus pattern (15 bp):
AATAAAACATGGCAA
Found at i:18709869 original size:20 final size:19
Alignment explanation
Indices: 18709836--18709945 Score: 74
Period size: 19 Copynumber: 6.1 Consensus size: 19
18709826 GATATGTATG
*
18709836 ATATTAAAATATATACGTA
1 ATATTAAAATATATACATA
18709855 ATATTAAAGATATATACATA
1 ATATTAAA-ATATATACATA
* * * *
18709875 ATA-TATACATAAAAATATA
1 ATATTA-AAATATATACATA
*
18709894 ATATT-AAATATATATAT-
1 ATATTAAAATATATACATA
*
18709911 ATA-TAAAA-AT-TATAT-
1 ATATTAAAATATATACATA
*
18709926 ATA-TGAAATATATACATA
1 ATATTAAAATATATACATA
18709944 AT
1 AT
18709946 GTAGTTATTA
Statistics
Matches: 74, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
15 12 0.16
16 5 0.07
17 10 0.14
18 11 0.15
19 21 0.28
20 15 0.20
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (19 bp):
ATATTAAAATATATACATA
Found at i:18709878 original size:11 final size:11
Alignment explanation
Indices: 18709843--18709945 Score: 54
Period size: 11 Copynumber: 9.3 Consensus size: 11
18709833 ATGATATTAA
*
18709843 AATATATACGT
1 AATATATACAT
18709854 AATAT-TA-A-
1 AATATATACAT
18709862 AGATATATACAT
1 A-ATATATACAT
18709874 AATATATACAT
1 AATATATACAT
*
18709885 AAAAATATA-AT
1 -AATATATACAT
* * *
18709896 ATTAAATATAT
1 AATATATACAT
*
18709907 ATATATATA-AA
1 A-ATATATACAT
*
18709918 AATTATATATAT
1 AA-TATATACAT
18709930 GAAATATATACAT
1 --AATATATACAT
18709943 AAT
1 AAT
18709946 GTAGTTATTA
Statistics
Matches: 71, Mismatches: 10, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
8 1 0.01
9 4 0.06
10 10 0.14
11 32 0.45
12 14 0.20
13 8 0.11
14 2 0.03
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (11 bp):
AATATATACAT
Found at i:18709911 original size:30 final size:32
Alignment explanation
Indices: 18709875--18709939 Score: 98
Period size: 30 Copynumber: 2.1 Consensus size: 32
18709865 TATATACATA
*
18709875 ATATATACATAAAAA-TATA-ATATTAAATAT
1 ATATATACATAAAAATTATATATATGAAATAT
*
18709905 ATATATATATAAAAATTATATATATGAAATAT
1 ATATATACATAAAAATTATATATATGAAATAT
18709937 ATA
1 ATA
18709940 CATAATGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 14 0.45
31 4 0.13
32 13 0.42
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (32 bp):
ATATATACATAAAAATTATATATATGAAATAT
Found at i:18709914 original size:17 final size:17
Alignment explanation
Indices: 18709889--18709939 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 17
18709879 ATACATAAAA
18709889 ATATA-ATATTAAATAT
1 ATATATATATTAAATAT
*
18709905 ATATATATA-TAAAAAT
1 ATATATATATTAAATAT
*
18709921 -TATATATATGAAATAT
1 ATATATATATTAAATAT
18709937 ATA
1 ATA
18709940 CATAATGTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 8 0.28
16 16 0.55
17 5 0.17
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
ATATATATATTAAATAT
Found at i:18709936 original size:28 final size:30
Alignment explanation
Indices: 18709874--18709944 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 30
18709864 ATATATACAT
18709874 AATATATACATAAAAATATAATATTAAATA
1 AATATATACATAAAAATATAATATTAAATA
* * *
18709904 TATATATATATAAAAAT-T-ATA-TATATGA
1 AATATATACATAAAAATATAATATTAAAT-A
18709932 AATATATACATAA
1 AATATATACATAA
18709945 TGTAGTTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 4 0.11
28 15 0.43
29 1 0.03
30 15 0.43
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (30 bp):
AATATATACATAAAAATATAATATTAAATA
Found at i:18709937 original size:13 final size:14
Alignment explanation
Indices: 18709864--18709944 Score: 67
Period size: 14 Copynumber: 5.6 Consensus size: 14
18709854 AATATTAAAG
*
18709864 ATATATACATAATAT
1 ATATATA-AAAATAT
*
18709879 ATACATAAAAATAT
1 ATATATAAAAATAT
18709893 A-ATATTAAATATATAT
1 ATATA-TAAA-A-ATAT
18709909 ATATATAAAAAT-T
1 ATATATAAAAATAT
*
18709922 ATATATATGAAATAT
1 ATATATA-AAAATAT
*
18709937 ATACATAA
1 ATATATAA
18709945 TGTAGTTATT
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
13 10 0.19
14 17 0.31
15 15 0.28
16 9 0.17
17 3 0.06
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (14 bp):
ATATATAAAAATAT
Found at i:18710153 original size:22 final size:20
Alignment explanation
Indices: 18710104--18710160 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 20
18710094 ATGTAGTATA
*
18710104 ATAATGAAAATATAA-ATAG
1 ATAATGAAAATATAATAGAG
18710123 ATAA-G-AAATATAATAGATG
1 ATAATGAAAATATAATAGA-G
18710142 AGTAATGAAAATATAATAG
1 A-TAATGAAAATATAATAG
18710161 TAGTCATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
17 8 0.25
18 3 0.09
19 6 0.19
20 3 0.09
21 1 0.03
22 11 0.34
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (20 bp):
ATAATGAAAATATAATAGAG
Found at i:18710162 original size:17 final size:17
Alignment explanation
Indices: 18710105--18710162 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 17
18710095 TGTAGTATAA
18710105 TAATGAAAATATAAATAG
1 TAATGAAAATAT-AATAG
18710123 ATAA-GAAATATAATAGATGAG
1 -TAATGAAA-AT-ATA-AT-AG
18710144 TAATGAAAATATAATAG
1 TAATGAAAATATAATAG
18710161 TA
1 TA
18710163 GTCATAATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
17 4 0.12
18 6 0.18
19 9 0.26
20 9 0.26
21 6 0.18
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.28
Consensus pattern (17 bp):
TAATGAAAATATAATAG
Found at i:18710274 original size:23 final size:23
Alignment explanation
Indices: 18710238--18710302 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
18710228 AGTAAATAAT
* *
18710238 ACTACTATAT-ATAAATATATAC
1 ACTACTATATAATAAAAATACAC
*
18710260 A-TACGTATGTAATAAAAATACAC
1 ACTAC-TATATAATAAAAATACAC
*
18710283 ACTACTATATAATAATAATA
1 ACTACTATATAATAAAAATA
18710303 ATAATAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 3 0.09
22 5 0.14
23 24 0.69
24 3 0.09
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.32
Consensus pattern (23 bp):
ACTACTATATAATAAAAATACAC
Found at i:18710297 original size:3 final size:3
Alignment explanation
Indices: 18710291--18710356 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
18710281 ACACTACTAT
18710291 ATA ATA 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
18710339 ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA
18710357 TAGAAATGCA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18710483 original size:9 final size:9
Alignment explanation
Indices: 18710459--18710518 Score: 65
Period size: 9 Copynumber: 6.9 Consensus size: 9
18710449 AGATATACAC
*
18710459 TAATATATAA
1 TAATA-ATAG
18710469 TAATAATAG
1 TAATAATAG
18710478 TAATAATAG
1 TAATAATAG
18710487 T-A-AATA-
1 TAATAATAG
18710493 TAATAATAG
1 TAATAATAG
18710502 TAATAAT-G
1 TAATAATAG
18710510 ATAATAATA
1 -TAATAATA
18710519 CGAAAATAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
6 1 0.02
7 5 0.11
8 6 0.14
9 27 0.61
10 5 0.11
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (9 bp):
TAATAATAG
Found at i:18710529 original size:3 final size:3
Alignment explanation
Indices: 18710459--18710518 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
18710449 AGATATACAC
* * *
18710459 TAA TATA TAA TAA TAA TAG TAA TAA TAG TAA -ATA TAA TAA TAG TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
*
18710505 TAA TGA TAA TAA TA
1 TAA TAA TAA TAA TA
18710519 CGAAAATAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 1 0.02
3 41 0.89
4 4 0.09
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:18710596 original size:20 final size:20
Alignment explanation
Indices: 18710573--18710662 Score: 71
Period size: 20 Copynumber: 4.5 Consensus size: 20
18710563 TTTTAATGGC
*
18710573 AATAATAATAATAGTACAAT
1 AATAATAATAATAGTAAAAT
* * *
18710593 AATAACAA-AGTAGTAGAAAA
1 AATAATAATAATAGTA-AAAT
18710613 AATAACT-ATAATAGTAAAAT
1 AATAA-TAATAATAGTAAAAT
* *
18710633 -ATAATAAATAGTAGTAAAAG
1 AATAAT-AATAATAGTAAAAT
18710653 AA-AATAATAA
1 AATAATAATAA
18710663 AATTATCTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
18 1 0.02
19 14 0.26
20 32 0.59
21 7 0.13
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.24
Consensus pattern (20 bp):
AATAATAATAATAGTAAAAT
Found at i:18710642 original size:17 final size:17
Alignment explanation
Indices: 18710577--18710645 Score: 50
Period size: 19 Copynumber: 3.8 Consensus size: 17
18710567 AATGGCAATA
*
18710577 ATAAT-AATAGTACAAT
1 ATAATAAATAGTAAAAT
* *
18710593 AATAACAAAGTAGTAGAAAAA
1 -ATAATAAA-TAGT--AAAAT
18710614 ATAACTATAATAGTAAAAT
1 ATAA-TA-AATAGTAAAAT
18710633 ATAATAAATAGTA
1 ATAATAAATAGTA
18710646 GTAAAAGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
17 11 0.27
18 4 0.10
19 12 0.29
20 4 0.10
21 8 0.20
22 2 0.05
ACGTcount: A:0.61, C:0.04, G:0.09, T:0.26
Consensus pattern (17 bp):
ATAATAAATAGTAAAAT
Found at i:18715890 original size:21 final size:18
Alignment explanation
Indices: 18715857--18715897 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 18
18715847 ACCTGTAATA
18715857 TTATATATTAATTTTGATT
1 TTATATATTAATTTT-ATT
18715876 TTATATATTAAAATTTTATT
1 TTATATATT--AATTTTATT
18715896 TT
1 TT
18715898 TATTTTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 9 0.45
20 5 0.25
21 6 0.30
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TTATATATTAATTTTATT
Found at i:18716189 original size:29 final size:29
Alignment explanation
Indices: 18716147--18716206 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
18716137 TATCTCTTAG
18716147 TGATTGAAGTGCTATTTTTTAAAAATCTA
1 TGATTGAAGTGCTATTTTTTAAAAATCTA
18716176 TGATTGAAGTGCTATTTTTTAAAAATCTA
1 TGATTGAAGTGCTATTTTTTAAAAATCTA
18716205 TG
1 TG
18716207 TTAGATTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (29 bp):
TGATTGAAGTGCTATTTTTTAAAAATCTA
Found at i:18716239 original size:49 final size:49
Alignment explanation
Indices: 18716182--18716283 Score: 204
Period size: 49 Copynumber: 2.1 Consensus size: 49
18716172 TCTATGATTG
18716182 AAGTGCTATTTTTTAAAAATCTATGTTAGATTTATTTAAGGGGTATTTC
1 AAGTGCTATTTTTTAAAAATCTATGTTAGATTTATTTAAGGGGTATTTC
18716231 AAGTGCTATTTTTTAAAAATCTATGTTAGATTTATTTAAGGGGTATTTC
1 AAGTGCTATTTTTTAAAAATCTATGTTAGATTTATTTAAGGGGTATTTC
18716280 AAGT
1 AAGT
18716284 TGTTGGGGAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (49 bp):
AAGTGCTATTTTTTAAAAATCTATGTTAGATTTATTTAAGGGGTATTTC
Found at i:18716365 original size:101 final size:99
Alignment explanation
Indices: 18716246--18716450 Score: 385
Period size: 99 Copynumber: 2.1 Consensus size: 99
18716236 CTATTTTTTA
18716246 AAAAT-CTATGTTAGATTTATTTAAGGGGTATTTCAAGTTGTTGGGGAACTTGTTTATATGAAGG
1 AAAATCCTATGTTAGATTTATTTAAGGGGTATTTCAAGTTGTTGGGGAACTTG-TT-TATGAAGG
18716310 CTATTATGAGATAAATACTGAAGATAATTAATGGAT
64 CTATTATGAGATAAATACTGAAGATAATTAATGGAT
18716346 AAAATCCTATGTTAGATTTATTTAAGGGGTATTTCAAGTTGTTGGGGAACTTGTTTATGAAGGCT
1 AAAATCCTATGTTAGATTTATTTAAGGGGTATTTCAAGTTGTTGGGGAACTTGTTTATGAAGGCT
18716411 ATTATGAGATAAATACTGAAGATAATTAATGGAT
66 ATTATGAGATAAATACTGAAGATAATTAATGGAT
18716445 AAAATC
1 AAAATC
18716451 AACCTTTAAA
Statistics
Matches: 104, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
99 50 0.48
100 7 0.07
101 47 0.45
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.37
Consensus pattern (99 bp):
AAAATCCTATGTTAGATTTATTTAAGGGGTATTTCAAGTTGTTGGGGAACTTGTTTATGAAGGCT
ATTATGAGATAAATACTGAAGATAATTAATGGAT
Found at i:18718798 original size:15 final size:15
Alignment explanation
Indices: 18718778--18718806 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18718768 CTATATTCAA
18718778 CATAATTATGCAAAG
1 CATAATTATGCAAAG
18718793 CATAATTATGCAAA
1 CATAATTATGCAAA
18718807 TTCATCATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (15 bp):
CATAATTATGCAAAG
Found at i:18719390 original size:25 final size:25
Alignment explanation
Indices: 18719362--18719413 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
18719352 TTTGGCTTGA
**
18719362 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
18719387 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
18719412 CA
1 CA
18719414 AATTAATCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:18723387 original size:14 final size:15
Alignment explanation
Indices: 18723351--18723387 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
18723341 TTTCTTTTAT
*
18723351 TTATTATAACTATTA
1 TTATTATATCTATTA
18723366 -TATTATATC-ATTA
1 TTATTATATCTATTA
18723379 TTATTATAT
1 TTATTATAT
18723388 TTTAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTATATCTATTA
Found at i:18736689 original size:39 final size:40
Alignment explanation
Indices: 18736646--18736735 Score: 130
Period size: 40 Copynumber: 2.3 Consensus size: 40
18736636 TTTAGGGTAA
18736646 CAACCTTTTCA-TAGATA-TCCATTTAGGATATATCCTTTT
1 CAACCTTTTCATTAGATATTCCATTTA-GATATATCCTTTT
***
18736685 CAACCTTTTCATTAGATATTTGTTTTAGATATATCCTTTT
1 CAACCTTTTCATTAGATATTCCATTTAGATATATCCTTTT
18736725 CAACCTTTTCA
1 CAACCTTTTCA
18736736 AGAATTCGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 11 0.24
40 30 0.65
41 5 0.11
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (40 bp):
CAACCTTTTCATTAGATATTCCATTTAGATATATCCTTTT
Found at i:18741838 original size:62 final size:61
Alignment explanation
Indices: 18741765--18741915 Score: 155
Period size: 61 Copynumber: 2.5 Consensus size: 61
18741755 TTGGTGTAGT
*
18741765 AATAAAATTAGCCCTCTAATATTTACATATTCTATTAATTTTA-TCCTAAATATAAAAAATTC
1 AATAAAATTAGCCCTCTAATATTTACAAATT-T-TTAATTTTAGTCCTAAATATAAAAAATTC
* * * * * * *
18741827 AATAAATTTAGCCCTC-ATTGTTTACAAAATTTTTCATTTTAGTTCTAATTCTAAAAAATTC
1 AATAAAATTAGCCCTCTAATATTTAC-AAATTTTTAATTTTAGTCCTAAATATAAAAAATTC
* * *
18741888 AATAAACTTACCCCT-TAACATTTACAAA
1 AATAAAATTAGCCCTCTAATATTTACAAA
18741916 ATATATCAAT
Statistics
Matches: 73, Mismatches: 13, Indels: 8
0.78 0.14 0.09
Matches are distributed among these distances:
60 11 0.15
61 43 0.59
62 19 0.26
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.40
Consensus pattern (61 bp):
AATAAAATTAGCCCTCTAATATTTACAAATTTTTAATTTTAGTCCTAAATATAAAAAATTC
Found at i:18741882 original size:61 final size:61
Alignment explanation
Indices: 18741804--18741944 Score: 158
Period size: 61 Copynumber: 2.3 Consensus size: 61
18741794 TTCTATTAAT
* * * * *** * * *
18741804 TTTA-TCCTAAATATAAAAAATTCAATAAATTTAGCCCTCATTGTTTACAAAATTTTTCAT
1 TTTAGTCCTAATTCTAAAAAATTCAATAAACTTACCCCTCAACATTTACAAAATATATCAA
* *
18741864 TTTAGTTCTAATTCTAAAAAATTCAATAAACTTACCCCTTAACATTTACAAAATATATCAA
1 TTTAGTCCTAATTCTAAAAAATTCAATAAACTTACCCCTCAACATTTACAAAATATATCAA
*
18741925 TTTAGTCCTAATTGTAAAAA
1 TTTAGTCCTAATTCTAAAAA
18741945 TAATATATAT
Statistics
Matches: 66, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
60 4 0.06
61 62 0.94
ACGTcount: A:0.42, C:0.16, G:0.04, T:0.39
Consensus pattern (61 bp):
TTTAGTCCTAATTCTAAAAAATTCAATAAACTTACCCCTCAACATTTACAAAATATATCAA
Found at i:18747173 original size:24 final size:24
Alignment explanation
Indices: 18747136--18747183 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
18747126 TCATTAATAA
* *
18747136 ATAAATGAGTCAATAAAAGAGCTT
1 ATAAACGAGCCAATAAAAGAGCTT
* *
18747160 ATAAACGAGCCAATGAATGAGCTT
1 ATAAACGAGCCAATAAAAGAGCTT
18747184 GTTCGTGAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.23
Consensus pattern (24 bp):
ATAAACGAGCCAATAAAAGAGCTT
Found at i:18761198 original size:21 final size:20
Alignment explanation
Indices: 18761168--18761221 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
18761158 AAAGAAATTG
*
18761168 TTGTTCTTTTTTACTGTTTTC
1 TTGTT-TTTTTTACTGTTTTA
*
18761189 TTGTTATTTTTTATTGTTTTA
1 TTGTT-TTTTTTACTGTTTTA
18761210 TTGCTTTTTTTT
1 TTG-TTTTTTTT
18761222 GTTATTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 27 0.93
22 2 0.07
ACGTcount: A:0.07, C:0.07, G:0.09, T:0.76
Consensus pattern (20 bp):
TTGTTTTTTTTACTGTTTTA
Found at i:18761240 original size:24 final size:23
Alignment explanation
Indices: 18761195--18761240 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
18761185 TTTCTTGTTA
*
18761195 TTTTTTATTGTTTTATTGCTTTT
1 TTTTTTATTGTTTTATTACTTTT
18761218 TTTTGTTATT-TTTTCATTACTTT
1 TTTT-TTATTGTTTT-ATTACTTT
18761241 ACAGTTTCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.11, C:0.07, G:0.07, T:0.76
Consensus pattern (23 bp):
TTTTTTATTGTTTTATTACTTTT
Found at i:18761279 original size:25 final size:25
Alignment explanation
Indices: 18761251--18761319 Score: 61
Period size: 25 Copynumber: 2.8 Consensus size: 25
18761241 ACAGTTTCAC
*
18761251 TATTATATTGTTATTATTTTGTTGT
1 TATTATATTGTTATTATTTTATTGT
* *** *
18761276 TATTGTATAACTCTTATTTTATTGT
1 TATTATATTGTTATTATTTTATTGT
*
18761301 TA--ATTTTGTTATTATTTTA
1 TATTATATTGTTATTATTTTA
18761320 AATGCATTTG
Statistics
Matches: 32, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
23 11 0.34
25 21 0.66
ACGTcount: A:0.23, C:0.03, G:0.09, T:0.65
Consensus pattern (25 bp):
TATTATATTGTTATTATTTTATTGT
Found at i:18762253 original size:22 final size:22
Alignment explanation
Indices: 18762228--18762276 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
18762218 TATTTTCTCC
*
18762228 TTATTTTGCTACCATTTTACTA
1 TTATTTTACTACCATTTTACTA
* * **
18762250 TTATATTACTACTATTTTGTTA
1 TTATTTTACTACCATTTTACTA
18762272 TTATT
1 TTATT
18762277 GTTTGGATTT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.24, C:0.12, G:0.04, T:0.59
Consensus pattern (22 bp):
TTATTTTACTACCATTTTACTA
Found at i:18762340 original size:30 final size:30
Alignment explanation
Indices: 18762304--18762366 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
18762294 ATTTATTTTA
18762304 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
18762334 TTGTTAATTTTGTTATTATTTTAGAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
18762364 TTG
1 TTG
18762367 ATTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:18764126 original size:80 final size:79
Alignment explanation
Indices: 18764028--18764181 Score: 195
Period size: 80 Copynumber: 1.9 Consensus size: 79
18764018 ACACTTGTTT
* * *
18764028 ACTTGTGGAGTATAAAACCT-TTACTAACAGTACACCAAATATTTTCTCATAAT-TTTAATATCA
1 ACTTGTGGAGTATAAAACCTCCT-CCAACAGTACACCAAATATTTTCTCAT-ATGCTT-ATATCA
18764091 TTAAACATACATGGTTA
63 TTAAACATACATGGTTA
* * * * *
18764108 ACTTGTGGAGTCTAAAACCTCCTCCAATAGTGCATCAAATATTTTCTCATATGCTTATATTATTA
1 ACTTGTGGAGTATAAAACCTCCTCCAACAGTACACCAAATATTTTCTCATATGCTTATATCATTA
18764173 AACATACAT
66 AACATACAT
18764182 ATTTACATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
79 19 0.30
80 44 0.69
81 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (79 bp):
ACTTGTGGAGTATAAAACCTCCTCCAACAGTACACCAAATATTTTCTCATATGCTTATATCATTA
AACATACATGGTTA
Found at i:18764861 original size:35 final size:36
Alignment explanation
Indices: 18764822--18764905 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 36
18764812 CTATGATTTT
* *
18764822 TTAGGGTTTTAG-GTTTAGGGTTTTGATAAAATAAG
1 TTAGGGTTTTAGTATTTAGGGTTTTGATAAAACAAG
* * *
18764857 TTAGGG-TTTAGTATTTATGTTTTTGTTAAAACAAG
1 TTAGGGTTTTAGTATTTAGGGTTTTGATAAAACAAG
18764892 TTAGGGTTTTAGTA
1 TTAGGGTTTTAGTA
18764906 GTTTTTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
34 5 0.12
35 30 0.71
36 7 0.17
ACGTcount: A:0.27, C:0.01, G:0.25, T:0.46
Consensus pattern (36 bp):
TTAGGGTTTTAGTATTTAGGGTTTTGATAAAACAAG
Found at i:18765071 original size:34 final size:34
Alignment explanation
Indices: 18765024--18765107 Score: 159
Period size: 34 Copynumber: 2.5 Consensus size: 34
18765014 AGGTTTTGAA
*
18765024 TTTAAATAGATTAAGTAAATTATGGTTCTAGGAT
1 TTTAAATAAATTAAGTAAATTATGGTTCTAGGAT
18765058 TTTAAATAAATTAAGTAAATTATGGTTCTAGGAT
1 TTTAAATAAATTAAGTAAATTATGGTTCTAGGAT
18765092 TTTAAATAAATTAAGT
1 TTTAAATAAATTAAGT
18765108 TAGCGTTTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.42, C:0.02, G:0.14, T:0.42
Consensus pattern (34 bp):
TTTAAATAAATTAAGTAAATTATGGTTCTAGGAT
Found at i:18765116 original size:21 final size:21
Alignment explanation
Indices: 18765092--18765137 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
18765082 GTTCTAGGAT
18765092 TTTA-AATAAATTAAGTTAGCG
1 TTTATAATAAATTAA-TTAGCG
*
18765113 TTTATAATAAATTAATTAGGG
1 TTTATAATAAATTAATTAGCG
18765134 TTTA
1 TTTA
18765138 GGGTTTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.41, C:0.02, G:0.13, T:0.43
Consensus pattern (21 bp):
TTTATAATAAATTAATTAGCG
Found at i:18765213 original size:35 final size:34
Alignment explanation
Indices: 18765146--18765215 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 34
18765136 TAGGGTTTAT
* * *
18765146 TAAATTAGGGTTTATGTTTTTTAAATAGATTAAG
1 TAAATTAGGGTTTAGGGTTTTTAAATAAATTAAG
*
18765180 TAAATTGGGGTTTTAGGGTTTTTAAATAAATTAAG
1 TAAATTAGGG-TTTAGGGTTTTTAAATAAATTAAG
18765215 T
1 T
18765216 TAGGGTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 9 0.29
35 22 0.71
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (34 bp):
TAAATTAGGGTTTAGGGTTTTTAAATAAATTAAG
Found at i:18765231 original size:22 final size:22
Alignment explanation
Indices: 18765192--18765268 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
18765182 AATTGGGGTT
* *
18765192 TTAGGGTTTTTAAATAAATTAAG
1 TTAGGG-TTTAAAATAAATTAAA
18765215 TTAGGGTTTAAAATAAATTAAA
1 TTAGGGTTTAAAATAAATTAAA
* * * **
18765237 TTAGTGTTTCAGATTTATTAAA
1 TTAGGGTTTAAAATAAATTAAA
18765259 TTAGGGTTTA
1 TTAGGGTTTA
18765269 TATTTTTTGG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
22 39 0.87
23 6 0.13
ACGTcount: A:0.38, C:0.01, G:0.17, T:0.44
Consensus pattern (22 bp):
TTAGGGTTTAAAATAAATTAAA
Found at i:18765345 original size:52 final size:52
Alignment explanation
Indices: 18765282--18765472 Score: 154
Period size: 52 Copynumber: 3.6 Consensus size: 52
18765272 TTTTTGGTTA
* *
18765282 AAAATTAATTAAATTAGGGTTTCAAGGTTTTAAATAAATTAAGTTACAGTTT
1 AAAATAAATTAAATTAGGGTTTTAAGGTTTTAAATAAATTAAGTTACAGTTT
* ** ** * **
18765334 AAAATAAATTAATTTA-GGTTTTTGGGTTTATTAAATTAGGGTTTATATTTTTTTAG-TT
1 AAAATAAATTAAATTAGGGTTTTAAGG-TT-TTAAA-TA--AATTA-A--GTTACAGTTT
* * * **
18765392 AAAATTAATTAAATTTGGGTTTTAAGATTTTAAATAAATTAAGTTAGGGTTT
1 AAAATAAATTAAATTAGGGTTTTAAGGTTTTAAATAAATTAAGTTACAGTTT
18765444 AAAATAAATTAAATTAGGGTTTT-AGGTTT
1 AAAATAAATTAAATTAGGGTTTTAAGGTTT
18765473 ATCAAATTAG
Statistics
Matches: 104, Mismatches: 25, Indels: 21
0.69 0.17 0.14
Matches are distributed among these distances:
51 15 0.14
52 39 0.38
53 6 0.06
54 5 0.05
56 5 0.05
57 6 0.06
58 17 0.16
59 11 0.11
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.46
Consensus pattern (52 bp):
AAAATAAATTAAATTAGGGTTTTAAGGTTTTAAATAAATTAAGTTACAGTTT
Found at i:18765354 original size:21 final size:21
Alignment explanation
Indices: 18765306--18765354 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
18765296 TAGGGTTTCA
*
18765306 AGGTTTTAAATAAATTAAGTT
1 AGGTTTAAAATAAATTAAGTT
* *
18765327 ACAGTTTAAAATAAATTAATTT
1 A-GGTTTAAAATAAATTAAGTT
18765349 AGGTTT
1 AGGTTT
18765355 TTGGGTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (21 bp):
AGGTTTAAAATAAATTAAGTT
Found at i:18765450 original size:22 final size:22
Alignment explanation
Indices: 18765423--18765465 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
18765413 TTAAGATTTT
*
18765423 AAATAAATTAAGTTAGGGTTTA
1 AAATAAATTAAATTAGGGTTTA
18765445 AAATAAATTAAATTAGGGTTT
1 AAATAAATTAAATTAGGGTTT
18765466 TAGGTTTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (22 bp):
AAATAAATTAAATTAGGGTTTA
Found at i:18765500 original size:21 final size:22
Alignment explanation
Indices: 18765451--18765500 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
18765441 TTTAAAATAA
*
18765451 ATTAAATTAGGGTTTTAGGTTT
1 ATTAAATTAGGGTCTTAGGTTT
* *
18765473 ATCAAATTAGGG-CTTATGTTT
1 ATTAAATTAGGGTCTTAGGTTT
*
18765494 TTTAAAT
1 ATTAAAT
18765501 AGATTAAGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.30, C:0.04, G:0.18, T:0.48
Consensus pattern (22 bp):
ATTAAATTAGGGTCTTAGGTTT
Found at i:18765565 original size:110 final size:107
Alignment explanation
Indices: 18765057--18765552 Score: 577
Period size: 110 Copynumber: 4.6 Consensus size: 107
18765047 GGTTCTAGGA
* * *
18765057 TTTTAAATAAATTAAGTAAATTATGGTTCTAGGATTTTAAATAAATTAAGTTAGCGTTTATAATA
1 TTTTAAATAAATTAAGTAAATTAGGGTT-TAGGATTTTAAATAAATTAAGTTAGGGTTTAAAATA
18765122 AATT-AATTAGGG-TTTAGGGTTTATTAAATTAGGGTTTATGTT
65 AATTAAATTAGGGTTTTA-GGTTTATTAAATTAGGGTTTATGTT
* * *
18765164 TTTTAAATAGATTAAGTAAATTGGGGTTTTAGGGTTTTTAAATAAATTAAGTTAGGGTTTAAAAT
1 TTTTAAATAAATTAAGTAAATTAGGG-TTTA-GGATTTTAAATAAATTAAGTTAGGGTTTAAAAT
* * * *
18765229 AAATTAAATTAGTGTTTCAGATTTATTAAATTAGGGTTTATATTT
64 AAATTAAATTAGGGTTTTAGGTTTATTAAATTAGGGTTTAT-GTT
* * **
18765274 TTTGGTTAA-AAATTAATTAAATTAGGGTTTCAAGG-TTTTAAATAAATTAAGTTACAGTTTAAA
1 TTT--TAAATAAATTAAGTAAATTAGGGTTT--AGGATTTTAAATAAATTAAGTTAGGGTTTAAA
* * * *
18765337 ATAAATTAATTTAGGTTTTTGGGTTTATTAAATTAGGGTTTATATTT
62 ATAAATTAAATTAGGGTTTTAGGTTTATTAAATTAGGGTTTAT-GTT
** * * *
18765384 TTTTAGTTAAAATTAATTAAATTTGGGTTTTAAGATTTTAAATAAATTAAGTTAGGGTTTAAAAT
1 TTTTAAAT-AAATTAAGTAAATTAGGG-TTTAGGATTTTAAATAAATTAAGTTAGGGTTTAAAAT
* *
18765449 AAATTAAATTAGGGTTTTAGGTTTATCAAATTAGGGCTTATGTT
64 AAATTAAATTAGGGTTTTAGGTTTATTAAATTAGGGTTTATGTT
* ** * *
18765493 TTTTAAATAGATTAAGTAAATTAGAATGTTAGGATTTTAAATGAATTAAATTAGGGTTTA
1 TTTTAAATAAATTAAGTAAATTAGGGT-TTAGGATTTTAAATAAATTAAGTTAGGGTTTA
18765553 GGGTTAAAAT
Statistics
Matches: 330, Mismatches: 45, Indels: 27
0.82 0.11 0.07
Matches are distributed among these distances:
107 26 0.08
108 80 0.24
109 38 0.12
110 162 0.49
111 20 0.06
112 4 0.01
ACGTcount: A:0.37, C:0.01, G:0.17, T:0.45
Consensus pattern (107 bp):
TTTTAAATAAATTAAGTAAATTAGGGTTTAGGATTTTAAATAAATTAAGTTAGGGTTTAAAATAA
ATTAAATTAGGGTTTTAGGTTTATTAAATTAGGGTTTATGTT
Found at i:18765945 original size:127 final size:126
Alignment explanation
Indices: 18765639--18766140 Score: 686
Period size: 127 Copynumber: 4.0 Consensus size: 126
18765629 TTTTACCCTG
* * *
18765639 AAAAAATAATTTTGAGAAAACGTTTTTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAA
* * *
18765704 TGTCAGCAAAAATAC-AGAAAAAAGCTTCCACGTAGACGCTCTTTTGCTACAGTAGTTCCT
66 TGTCAGCAAAAATACAAAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCT
* * *
18765764 AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAAGATGAAA
1 AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAA
* * ** * * * *
18765829 TGTCAGCAAAATTTCTGAAAAAAA-TTCCCAGGTGGACACTCTTTTTCTACAGTAGTTCCT
66 TGTCAGCAAAAATACAAAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCT
*
18765889 AAAAAAATAATTTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGC
1 -AAAAAATAA-TTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* * *
18765954 AATGTCAGCAAAAATACAAAAAAAAAGCTCCTACATGGACGCTCTTTTGCTACAGTTGTTCCT
64 AATGTCAGCAAAAATACAAAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCT
* *
18766017 GAAAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCA
1 -AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCA
* * * * * * *
18766082 ATGTCAGCAAAATTTCTAAAAAAAAGCTCCAATGTGTACGCTCTTTTTCTACA-TAGTTC
65 ATGTCAGCAAAAATACAAAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTC
18766141 ATGCTTGGCC
Statistics
Matches: 331, Mismatches: 42, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
125 102 0.31
126 20 0.06
127 171 0.52
128 38 0.11
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.27
Consensus pattern (126 bp):
AAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAA
TGTCAGCAAAAATACAAAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCT
Found at i:18766095 original size:254 final size:251
Alignment explanation
Indices: 18765639--18766140 Score: 774
Period size: 254 Copynumber: 2.0 Consensus size: 251
18765629 TTTTACCCTG
* *
18765639 AAAAAATAATTTTGAGAAAACGTTTTTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAAACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAA
* *
18765704 TGTCAGCAAAAATACAGAAAAAAGCTTCCACGTAGACGCTCTTTTGCTACAGTAGTTCCTAAAAA
66 TGTCAGCAAAAATACAAAAAAAAGCTTCCACATAGACGCTCTTTTGCTACAGTAGTTCCTAAAAA
* *
18765769 ATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAAGATGAAATGTCA
131 ATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAAGATGAAATGTCA
* * *
18765834 GCAAAATTTCTGAAAAAAA-TTCCCAGGTGGACACTCTTTTTCTACAGTAGTTCCTA
196 GCAAAATTTCTAAAAAAAAGCTCCAAGGTGGACACTCTTTTTCTACA-TAGTTCCTA
* *
18765890 AAAAAATAATTTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCA
1 AAAAAATAA-TTTTGAGAAAACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCA
* *
18765955 ATGTCAGCAAAAATACAAAAAAAAAGC-TCCTACATGGACGCTCTTTTGCTACAGTTGTTCCTGA
65 ATGTCAGCAAAAATAC-AAAAAAAAGCTTCC-ACATAGACGCTCTTTTGCTACAGTAGTTCCT-A
* * *
18766019 AAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCAAT
127 AAAAATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAAGATGAAAT
* * *
18766084 GTCAGCAAAATTTCTAAAAAAAAGCTCCAATGTGTACGCTCTTTTTCTACATAGTTC
192 GTCAGCAAAATTTCTAAAAAAAAGCTCCAAGGTGGACACTCTTTTTCTACATAGTTC
18766141 ATGCTTGGCC
Statistics
Matches: 227, Mismatches: 19, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
251 9 0.04
252 70 0.31
253 37 0.16
254 89 0.39
255 22 0.10
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.27
Consensus pattern (251 bp):
AAAAAATAATTTTGAGAAAACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAA
TGTCAGCAAAAATACAAAAAAAAGCTTCCACATAGACGCTCTTTTGCTACAGTAGTTCCTAAAAA
ATAATTTTGAAAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAAGATGAAATGTCA
GCAAAATTTCTAAAAAAAAGCTCCAAGGTGGACACTCTTTTTCTACATAGTTCCTA
Found at i:18770276 original size:7 final size:7
Alignment explanation
Indices: 18770261--18770298 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
18770251 TATTAGTTAT
*
18770261 ATACAAA
1 ATACTAA
18770268 ATACTAA
1 ATACTAA
18770275 ATACTAA
1 ATACTAA
18770282 ATACTAA
1 ATACTAA
18770289 ATACTAA
1 ATACTAA
18770296 ATA
1 ATA
18770299 TGAAACGACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (7 bp):
ATACTAA
Found at i:18771264 original size:42 final size:41
Alignment explanation
Indices: 18771218--18771349 Score: 130
Period size: 40 Copynumber: 3.1 Consensus size: 41
18771208 ATACTGTTAT
*
18771218 AAAAAATTATAAAATAAAAATT-AATTAAAATTACATAAATG
1 AAAAAAATAT-AAATAAAAATTAAATTAAAATTACATAAATG
*
18771259 AAAAAAAT-TAAAT-AATATTCAAATTAAAATTACATAAATG
1 AAAAAAATATAAATAAAAATT-AAATTAAAATTACATAAATG
*
18771299 AAAAAAATATTAAATAATATTAA-AAAATTAAAATTA-ATTAAAATG
1 AAAAAAATA-TAAATAA-A--AATTAAATTAAAATTACA-T-AAATG
18771344 AAAAAA
1 AAAAAA
18771350 TGTTAAAAAT
Statistics
Matches: 77, Mismatches: 4, Indels: 16
0.79 0.04 0.16
Matches are distributed among these distances:
38 5 0.06
39 4 0.05
40 28 0.36
41 7 0.09
42 5 0.06
43 2 0.03
44 14 0.18
45 11 0.14
46 1 0.01
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (41 bp):
AAAAAAATATAAATAAAAATTAAATTAAAATTACATAAATG
Found at i:18771283 original size:44 final size:43
Alignment explanation
Indices: 18771240--18771366 Score: 174
Period size: 44 Copynumber: 3.0 Consensus size: 43
18771230 AATAAAAATT
18771240 AATTAAAATTACATAAATGAAAAAA-ATTAAATAATATTC--A
1 AATTAAAATTACATAAATGAAAAAATATTAAATAATATTCAAA
*
18771280 AATTAAAATTACATAAATGAAAAAAATATTAAATAATATTAAAA
1 AATTAAAATTACATAAATG-AAAAAATATTAAATAATATTCAAA
*
18771324 AATTAAAATTA-ATTAAAATGAAAAAATGTTAAA-AATATTCAAA
1 AATTAAAATTACA-T-AAATGAAAAAATATTAAATAATATTCAAA
18771367 GTTTAAAACA
Statistics
Matches: 78, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
40 19 0.24
41 6 0.08
42 13 0.17
43 10 0.13
44 25 0.32
45 5 0.06
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (43 bp):
AATTAAAATTACATAAATGAAAAAATATTAAATAATATTCAAA
Found at i:18771326 original size:20 final size:19
Alignment explanation
Indices: 18771244--18771330 Score: 72
Period size: 18 Copynumber: 4.5 Consensus size: 19
18771234 AAAATTAATT
* *
18771244 AAAATTACATAA-ATGAAA
1 AAAATTAAATAATATTAAA
18771262 AAAATTAAATAATATTCAAA
1 AAAATTAAATAATATT-AAA
* *
18771282 TTAAAATTACATAA-ATGAAAA
1 --AAAATTAAATAATAT-TAAA
18771303 AAATATTAAATAATATT-AA
1 AAA-ATTAAATAATATTAAA
18771322 AAAATTAAA
1 AAAATTAAA
18771331 ATTAATTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
18 17 0.30
19 10 0.18
20 11 0.20
21 7 0.12
22 11 0.20
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAATTAAATAATATTAAA
Found at i:18771347 original size:24 final size:23
Alignment explanation
Indices: 18771279--18771350 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 23
18771269 AATAATATTC
18771279 AAATTAAAATTACAT-AAATG-AA
1 AAATTAAAATTA-ATAAAATGAAA
* * *
18771301 AAA--AATATTAAATAATATTAAA
1 AAATTAAAATT-AATAAAATGAAA
18771323 AAATTAAAATTAATTAAAATGAAA
1 AAATTAAAATTAA-TAAAATGAAA
18771347 AAAT
1 AAAT
18771351 GTTAAAAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
20 7 0.18
21 4 0.11
22 8 0.21
23 2 0.05
24 17 0.45
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (23 bp):
AAATTAAAATTAATAAAATGAAA
Found at i:18772551 original size:39 final size:41
Alignment explanation
Indices: 18772497--18772591 Score: 122
Period size: 39 Copynumber: 2.3 Consensus size: 41
18772487 ATAAAATTTA
** * *
18772497 TTTTTAATACGATAAAATATTTATTATATTTAT-TTGTATT
1 TTTTTAATATAATAAAAGATTTATTATATTTATGTAGTATT
*
18772537 TTTTT-ATATAATAAAAGATTTATTATATTTGTGGTAGTATT
1 TTTTTAATATAATAAAAGATTTATTATATTTAT-GTAGTATT
18772578 TTTTTAATATAATA
1 TTTTTAATATAATA
18772592 TATTTTTAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 23 0.49
40 5 0.11
41 11 0.23
42 8 0.17
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.56
Consensus pattern (41 bp):
TTTTTAATATAATAAAAGATTTATTATATTTATGTAGTATT
Found at i:18787749 original size:42 final size:42
Alignment explanation
Indices: 18787620--18787772 Score: 130
Period size: 42 Copynumber: 3.6 Consensus size: 42
18787610 AGATATCGTA
* * * ** *
18787620 TAAGACCGTGTCTGGGACACTGACATCGATTAAAGATTACATA
1 TAAGACCATGTCTGGGACAGTGGCATCGA-TATTGATTACATG
* ** * * *
18787663 TAAGACCATGTCTAGGACA-TCAACATC-ATATTTAATTTCGTG
1 TAAGACCATGTCTGGGACAGT-GGCATCGATA-TTGATTACATG
*
18787705 TAAGACCATATCTGGGACAGTGGCATCGATATTGATTACATG
1 TAAGACCATGTCTGGGACAGTGGCATCGATATTGATTACATG
* *
18787747 TAAGACCACGTCTGGGACATTGGCAT
1 TAAGACCATGTCTGGGACAGTGGCAT
18787773 TGTACGAGCT
Statistics
Matches: 87, Mismatches: 19, Indels: 9
0.76 0.17 0.08
Matches are distributed among these distances:
41 2 0.02
42 59 0.68
43 26 0.30
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACAGTGGCATCGATATTGATTACATG
Done.