Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 53 of 205
Found at i:15905742 original size:36 final size:33
Alignment explanation
Indices: 15905645--15905757 Score: 97
Period size: 36 Copynumber: 3.3 Consensus size: 33
15905635 AATATTAAAT
15905645 TTAATTTAATATTTATCTTGATAGT-AT-TTTA
1 TTAATTTAATATTTATCTTGATAGTAATATTTA
* ** * * *
15905676 TTAATTTAATATTAAAGTGGTTATTTAATATTTAA
1 TTAATTTAATATTTATCTTGATA-GTAATATTT-A
15905711 TTTAATTTAATATTTATCTTG-TAGATAAATATTCTA
1 -TTAATTTAATATTTATCTTGATAG-T-AATATT-TA
15905747 TTAATTTAATA
1 TTAATTTAATA
15905758 AGATTTAATA
Statistics
Matches: 63, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
31 18 0.29
32 1 0.02
33 2 0.03
34 3 0.05
35 15 0.24
36 23 0.37
37 1 0.02
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (33 bp):
TTAATTTAATATTTATCTTGATAGTAATATTTA
Found at i:15916291 original size:50 final size:50
Alignment explanation
Indices: 15916196--15916319 Score: 149
Period size: 50 Copynumber: 2.5 Consensus size: 50
15916186 GAGGTTATCG
* * * * * * *
15916196 TTATCCAACTTGCAGAAGCTTACCGATATTTAGCTCACATGAGCTTTCCA
1 TTATCCAGCTTGGAGGAGCTTACCGATATTCAACTCACATCAGCTTACCA
* *
15916246 TTATCCAGCTTGGAGGAGCTTACCGATATTCAACTCATATCAGCTTACCG
1 TTATCCAGCTTGGAGGAGCTTACCGATATTCAACTCACATCAGCTTACCA
* *
15916296 TTATTCAGCTCGGAGGAGCTTACC
1 TTATCCAGCTTGGAGGAGCTTACC
15916320 AATTATCGCT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (50 bp):
TTATCCAGCTTGGAGGAGCTTACCGATATTCAACTCACATCAGCTTACCA
Found at i:15916315 original size:25 final size:25
Alignment explanation
Indices: 15916212--15916319 Score: 83
Period size: 25 Copynumber: 4.3 Consensus size: 25
15916202 AACTTGCAGA
* * *
15916212 AGCTTACCGATATTTAGCTCACATG
1 AGCTTACCGATATTCAGCTCAGAGG
* * **
15916237 AGCTTTCC-ATTATCCAGCTTGGAGG
1 AGCTTACCGA-TATTCAGCTCAGAGG
* * **
15916262 AGCTTACCGATATTCAACTCATATC
1 AGCTTACCGATATTCAGCTCAGAGG
* *
15916287 AGCTTACCGTTATTCAGCTCGGAGG
1 AGCTTACCGATATTCAGCTCAGAGG
15916312 AGCTTACC
1 AGCTTACC
15916320 AATTATCGCT
Statistics
Matches: 60, Mismatches: 21, Indels: 4
0.71 0.25 0.05
Matches are distributed among these distances:
24 1 0.02
25 58 0.97
26 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (25 bp):
AGCTTACCGATATTCAGCTCAGAGG
Found at i:15923556 original size:34 final size:34
Alignment explanation
Indices: 15923512--15923579 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
15923502 GCCCAGTTGA
* *
15923512 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTA-CAGTG
*
15923547 ACAGT-TTGGGCCTTAGCCCATCTCAGTACAGTG
1 ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
15923580 TCAAAAATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGGCCTAAGCCCATCTCAGTACAGTG
Found at i:15927765 original size:21 final size:21
Alignment explanation
Indices: 15927723--15927765 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
15927713 AAATAAAGTC
** * *
15927723 CAGTCCATTTACAAATACAAA
1 CAGTCCAAATACAAAAAAAAA
15927744 CAGTCCAAATACAAAAAAAAA
1 CAGTCCAAATACAAAAAAAAA
15927765 C
1 C
15927766 CCTAATGGTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.23, G:0.05, T:0.16
Consensus pattern (21 bp):
CAGTCCAAATACAAAAAAAAA
Found at i:15932918 original size:19 final size:20
Alignment explanation
Indices: 15932883--15932921 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
15932873 TTTTTGTATT
*
15932883 CATTTCATTCATCTGCATTA
1 CATTTCATTCATATGCATTA
15932903 CATTTCA-TCATATGCATTA
1 CATTTCATTCATATGCATTA
15932922 AGTTTCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (20 bp):
CATTTCATTCATATGCATTA
Found at i:15934338 original size:51 final size:51
Alignment explanation
Indices: 15934250--15934348 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 51
15934240 TTGAAGTTAC
* * *
15934250 AAATCTTATTTCCCTGAAGTTGTAGTGGAATAGATTAAAGTTACAGATTAA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAATAAATTAAAGTTACAGATTAA
*
15934301 AAATTTTATCTCCCTGAAGTTGCAGTGGAGA-AAATTAAAGTTACAGAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGA-ATAAATTAAAGTTACAGAT
15934349 CTTACCTCCC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.33
Consensus pattern (51 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAATAAATTAAAGTTACAGATTAA
Found at i:15934342 original size:95 final size:89
Alignment explanation
Indices: 15934211--15934462 Score: 240
Period size: 95 Copynumber: 2.8 Consensus size: 89
15934201 GCTATAAACC
* * * ** *
15934211 TTATCTCCATGAAGTTGTAGTGGAGCAGGTTGAAGTTACAAATCTTATTTCCCTGAAGTTGTAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGAAAATTAAAGTTACAAATCTTATTTCCCTGAAGTTGTAGT
15934276 GGAATAGATTAAAGTTACAGATTA-AAAATT
66 GGAATAGATT---G--A-AGA-TAGAAAATT
* **
15934306 TTATCTCCCTGAAGTTGCAGTGGAGAAAATTAAAGTTACAGATCTTACCTCCCTGAAGTTGTAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGAAAATTAAAGTTACAAATCTTATTTCCCTGAAGTTGTAGT
* * *
15934371 GGAGTGGATTGAAGATAGCAAATT
66 GGAATAGATTGAAGATAGAAAATT
* * * * * *
15934395 TTATCTCTCTGAAGTTGCAGTAGAGTAAAA-TAAAGCTATAAACCTTATCTT-CCTAAAGTTGTA
1 TTATCTCCCTGAAGTTGCAGTGGAG-AAAATTAAAGTTACAAATCTTAT-TTCCCTGAAGTTGTA
15934458 GTGGA
64 GTGGA
15934463 GCGGGTTGAA
Statistics
Matches: 133, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
88 2 0.02
89 60 0.45
90 6 0.05
92 1 0.01
95 64 0.48
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (89 bp):
TTATCTCCCTGAAGTTGCAGTGGAGAAAATTAAAGTTACAAATCTTATTTCCCTGAAGTTGTAGT
GGAATAGATTGAAGATAGAAAATT
Found at i:15934410 original size:45 final size:44
Alignment explanation
Indices: 15934175--15934463 Score: 164
Period size: 44 Copynumber: 6.4 Consensus size: 44
15934165 TCTTATCACT
* * * * * **
15934175 CTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCC
1 CTGAAGTTGCAGTGGAGTAAATTAAAGATACAAATTTTATCTCC
* * * ** * * * *
15934219 ATGAAGTTGTAGTGGAGCAGGTTGAAGTTACAAATCTTATTTCC
1 CTGAAGTTGCAGTGGAGTAAATTAAAGATACAAATTTTATCTCC
* * *
15934263 CTGAAGTTGTAGTGGAATAGATTAAAGTTACAGATTAAAAATTTTATCTCC
1 CTGAAGTTGCAGTGG---AG--TAAA-TTAAAGA-TACAAATTTTATCTCC
* * * * *
15934314 CTGAAGTTGCAGTGGAGAAAATTAAAGTTACAGATCTTACCTCC
1 CTGAAGTTGCAGTGGAGTAAATTAAAGATACAAATTTTATCTCC
* ** * *
15934358 CTGAAGTTGTAGTGGAGTGGATTGAAGATAGCAAATTTTATCTCT
1 CTGAAGTTGCAGTGGAGTAAATTAAAGATA-CAAATTTTATCTCC
* * * * ** *
15934403 CTGAAGTTGCAGTAGAGTAAAATAAAGCTATAAACCTTATCTTC
1 CTGAAGTTGCAGTGGAGTAAATTAAAGATACAAATTTTATCTCC
* *
15934447 CTAAAGTTGTAGTGGAG
1 CTGAAGTTGCAGTGGAG
15934464 CGGGTTGAAG
Statistics
Matches: 185, Mismatches: 52, Indels: 16
0.73 0.21 0.06
Matches are distributed among these distances:
44 108 0.58
45 38 0.21
46 3 0.02
47 2 0.01
48 2 0.01
49 1 0.01
50 4 0.02
51 27 0.15
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (44 bp):
CTGAAGTTGCAGTGGAGTAAATTAAAGATACAAATTTTATCTCC
Found at i:15934454 original size:89 final size:89
Alignment explanation
Indices: 15934301--15934473 Score: 231
Period size: 89 Copynumber: 1.9 Consensus size: 89
15934291 TACAGATTAA
* * * * *
15934301 AAATTTTATCTCCCTGAAGTTGCAGTGGAGAAAATTAAAGTTACAGATCTTACCTCCCTGAAGTT
1 AAATTTTATCTCCCTGAAGTTGCAGTAGAGAAAATTAAAGCTACAAACCTTACCTCCCTAAAGTT
*
15934366 GTAGTGGAGTGGATTGAAGATAGC
66 GTAGTGGAGCGGATTGAAGATAGC
* * * *
15934390 AAATTTTATCTCTCTGAAGTTGCAGTAGAGTAAAA-TAAAGCTATAAACCTTATCTTCCTAAAGT
1 AAATTTTATCTCCCTGAAGTTGCAGTAGAG-AAAATTAAAGCTACAAACCTTACCTCCCTAAAGT
*
15934454 TGTAGTGGAGCGGGTTGAAG
65 TGTAGTGGAGCGGATTGAAG
15934474 TTACTTGAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
89 68 0.94
90 4 0.06
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (89 bp):
AAATTTTATCTCCCTGAAGTTGCAGTAGAGAAAATTAAAGCTACAAACCTTACCTCCCTAAAGTT
GTAGTGGAGCGGATTGAAGATAGC
Found at i:15935981 original size:73 final size:72
Alignment explanation
Indices: 15935893--15936152 Score: 207
Period size: 73 Copynumber: 3.7 Consensus size: 72
15935883 TTTTAATACC
*
15935893 TAAATTTAATATTATTCA-A-ATCTATTAT-ATTTATTTATTTATTTGTTCGTTATTCTTTTA-T
1 TAAATTTAATATTATTCATAGATCTATTATAATTTATTTATTTATTT-TTC---ATTCTCTTACT
*
15935954 CTTTCAAATATT
62 -TTTAAAATATT
* * * * *
15935966 TAAATGTAATATTATTTATAGTTGTGTTATCAATTTATTTATTTATTTTTCATTCTCTTACTTTT
1 TAAATTTAATATTATTCATAGATCTATTAT-AATTTATTTATTTATTTTTCATTCTCTTACTTTT
15936031 AAAATATT
65 AAAATATT
* * * * * * *
15936039 TAAATTTAATATTA-T-GTACATTTATT-TTATCTATTTACTTA--TTT-ATTCTTTTACTTTTA
1 TAAATTTAATATTATTCATAGATCTATTATAATTTATTTATTTATTTTTCATTCTCTTACTTTTA
15936098 AAATATT
66 AAATATT
** ** * *
15936105 TAAATTCGATATTATTCATATTTGTTTTATCAATTTATTTATTTATTT
1 TAAATTTAATATTATTCATAGATCTATTAT-AATTTATTTATTTATTT
15936153 ATTCTTTTAC
Statistics
Matches: 149, Mismatches: 27, Indels: 23
0.75 0.14 0.12
Matches are distributed among these distances:
66 33 0.22
67 4 0.03
68 6 0.04
69 12 0.08
70 12 0.08
71 6 0.04
72 2 0.01
73 47 0.32
74 2 0.01
75 6 0.04
76 3 0.02
77 16 0.11
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.59
Consensus pattern (72 bp):
TAAATTTAATATTATTCATAGATCTATTATAATTTATTTATTTATTTTTCATTCTCTTACTTTTA
AAATATT
Found at i:15936012 original size:66 final size:66
Alignment explanation
Indices: 15935942--15936151 Score: 219
Period size: 66 Copynumber: 3.1 Consensus size: 66
15935932 TATTTGTTCG
* * *
15935942 TTATTCTTTTATC-TTTCAAATATTTAAATGTAATATTATTTATAGTTGTGTTATCAATTTATTT
1 TTATTCTTTTATCTTTTAAAATATTTAAAT-TAATATTATTTATATTTGTTTTATCAATTTATTT
15936006 AT
65 AT
* * * *
15936008 TTATTTTTCATTCTCT-TACTTTTAAAATATTTAAATTTAATATTATGTACATTTATTTTATCTA
1 TTA---TTC-TT-T-TAT-CTTTTAAAATATTTAAA-TTAATATTATTTATATTTGTTTTATCAA
*
15936072 TTTACTTAT
58 TTTATTTAT
* *
15936081 TTATTCTTTTA-CTTTTAAAATATTTAAATTCGATATTATTCATATTTGTTTTATCAATTTATTT
1 TTATTCTTTTATCTTTTAAAATATTTAAATT-AATATTATTTATATTTGTTTTATCAATTTATTT
15936145 AT
65 AT
15936147 TTATT
1 TTATT
15936152 TATTCTTTTA
Statistics
Matches: 118, Mismatches: 15, Indels: 22
0.76 0.10 0.14
Matches are distributed among these distances:
65 2 0.02
66 53 0.45
67 1 0.01
68 1 0.01
69 5 0.04
70 5 0.04
71 2 0.02
72 2 0.02
73 46 0.39
74 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (66 bp):
TTATTCTTTTATCTTTTAAAATATTTAAATTAATATTATTTATATTTGTTTTATCAATTTATTTA
T
Found at i:15936121 original size:35 final size:33
Alignment explanation
Indices: 15936017--15936121 Score: 83
Period size: 35 Copynumber: 3.1 Consensus size: 33
15936007 TTTATTTTTC
*
15936017 ATTCTCTTACTTTTAAAATATTTAAATTTAATATT
1 ATTCTTTTACTTTTAAAATATTTAAA-TT-ATATT
* ** *
15936052 ATGTACATTTA-TTTT-ATCTATTT-ACTTAT-TT
1 AT-T-CTTTTACTTTTAAAATATTTAAATTATATT
15936083 ATTCTTTTACTTTTAAAATATTTAAATTCGATATT
1 ATTCTTTTACTTTTAAAATATTTAAATT--ATATT
15936118 ATTC
1 ATTC
15936122 ATATTTGTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
29 5 0.09
30 5 0.09
31 10 0.19
32 5 0.09
33 2 0.04
34 3 0.06
35 14 0.26
36 5 0.09
37 4 0.08
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (33 bp):
ATTCTTTTACTTTTAAAATATTTAAATTATATT
Found at i:15936217 original size:70 final size:70
Alignment explanation
Indices: 15935859--15936180 Score: 187
Period size: 73 Copynumber: 4.6 Consensus size: 70
15935849 TATTTATATA
* * * ** * * *
15935859 TTAACTTATTTA-TTATTC-TTCACTTTT-TAATACCTAAATTTAATATTATTCAAATCTATTAT
1 TTAA-TTATTTATTTATTCTTTTACTTTTAAAATACTTAAATTCGATATTATTCATATTTATTTT
**
15935921 ATTTAT
65 ATCAAT
* * * * * * * *
15935927 TTATTTATTTGTTCGTTATTCTTTTA-TCTTTCAAATATTTAAATGT-AATATTATTTATAGTTG
1 TTAATTATTT-AT--TTATTCTTTTACT-TTTAAAATACTTAAAT-TCGATATTATTCATATTTA
*
15935990 TGTTATCAAT
61 TTTTATCAAT
* * * ** *
15936000 TTATTTATTTATTTTTCATTCTCTTACTTTTAAAATATTTAAATTTAATATTATGT-ACATTTAT
1 TTAATTATTTA--TTT-ATTCTTTTACTTTTAAAATACTTAAATTCGATATTAT-TCATATTTAT
15936064 TTTATC---
62 TTTATCAAT
* * * *
15936070 -TATTTACTTATTTATTCTTTTACTTTTAAAATATTTAAATTCGATATTATTCATATTTGTTTTA
1 TTAATTATTTATTTATTCTTTTACTTTTAAAATACTTAAATTCGATATTATTCATATTTATTTTA
15936134 TCAAT
66 TCAAT
* ** *
15936139 TTATTTATTTATTTATTCTTTTACTTTTTGAATACTTCAATT
1 TTAATTATTTATTTATTCTTTTACTTTTAAAATACTTAAATT
15936181 TATGTTATTT
Statistics
Matches: 202, Mismatches: 33, Indels: 36
0.75 0.12 0.13
Matches are distributed among these distances:
65 1 0.00
66 46 0.23
67 9 0.04
68 3 0.01
69 9 0.04
70 36 0.18
71 7 0.03
72 9 0.04
73 78 0.39
74 4 0.02
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (70 bp):
TTAATTATTTATTTATTCTTTTACTTTTAAAATACTTAAATTCGATATTATTCATATTTATTTTA
TCAAT
Found at i:15936986 original size:24 final size:24
Alignment explanation
Indices: 15936954--15937005 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
15936944 TTTATTGTGT
15936954 GTATGATAATCCTAAGTATCCTCA
1 GTATGATAATCCTAAGTATCCTCA
15936978 GTATGATAATCCTAAGTATCCTCA
1 GTATGATAATCCTAAGTATCCTCA
15937002 GTAT
1 GTAT
15937006 TCCAAGTGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (24 bp):
GTATGATAATCCTAAGTATCCTCA
Found at i:15941213 original size:10 final size:10
Alignment explanation
Indices: 15941189--15941234 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 10
15941179 ATGACATCTC
*
15941189 AATTTTTAATT
1 AATTTTTAA-A
15941200 AATTTTTAAA
1 AATTTTTAAA
15941210 AATTTTTAAA
1 AATTTTTAAA
*
15941220 ATATTTTAAAA
1 A-ATTTTTAAA
15941231 AATT
1 AATT
15941235 AAATTTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 14 0.44
11 18 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:15941234 original size:21 final size:20
Alignment explanation
Indices: 15941189--15941231 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
15941179 ATGACATCTC
15941189 AATTTTTAATTAATTTTTAAA
1 AATTTTTAA-TAATTTTTAAA
15941210 AATTTTTAA-AATATTTTAAA
1 AATTTTTAATAAT-TTTTAAA
15941230 AA
1 AA
15941232 ATTAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 9 0.43
21 9 0.43
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATTTTTAATAATTTTTAAA
Found at i:15944419 original size:22 final size:22
Alignment explanation
Indices: 15944398--15944438 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
15944388 CAAAGATTTA
*
15944398 AATTT-TTTTCTTAATTCTTTT
1 AATTTATTTTATTAATTCTTTT
*
15944419 ATTTTATTTTATTAATTCTT
1 AATTTATTTTATTAATTCTT
15944439 CGATGGCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (22 bp):
AATTTATTTTATTAATTCTTTT
Found at i:15944574 original size:52 final size:52
Alignment explanation
Indices: 15944505--15944606 Score: 152
Period size: 52 Copynumber: 2.0 Consensus size: 52
15944495 CAAATGGTAA
**
15944505 GAAAATATTATTTAATTATTTAATTTT-AATATGTTAATTATTATGATGTTAG
1 GAAAATATTATCAAATTATTTAATTTTAAATA-GTTAATTATTATGATGTTAG
* *
15944557 GAAAATATTATCAAATTATTTAATTTTAAATAGTTAATTGTTATGTTGTT
1 GAAAATATTATCAAATTATTTAATTTTAAATAGTTAATTATTATGATGTT
15944607 TAGAATAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 41 0.91
53 4 0.09
ACGTcount: A:0.38, C:0.01, G:0.10, T:0.51
Consensus pattern (52 bp):
GAAAATATTATCAAATTATTTAATTTTAAATAGTTAATTATTATGATGTTAG
Found at i:15948478 original size:30 final size:31
Alignment explanation
Indices: 15948442--15948504 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
15948432 TCCATATTTG
* * *
15948442 AAATTTAGTTATTTTATTTTTC-ATTTTAAA
1 AAATTTAATTATTTTAATTTTCGAATTTAAA
*
15948472 AAATTTAATTTTTTTAATTTTCGAATTTAAA
1 AAATTTAATTATTTTAATTTTCGAATTTAAA
15948503 AA
1 AA
15948505 TATAAGTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 19 0.68
31 9 0.32
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (31 bp):
AAATTTAATTATTTTAATTTTCGAATTTAAA
Found at i:15949984 original size:25 final size:25
Alignment explanation
Indices: 15949949--15950005 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
15949939 AAGAATAAAC
* *
15949949 TATATACATAATAGATTTGAAAGGAAA
1 TATATATA-AATAGATTT-AAAAGAAA
15949976 TATATATAAATAGATTTAAAAGAAA
1 TATATATAAATAGATTTAAAAGAAA
15950001 T-TATA
1 TATATA
15950006 CATATAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 4 0.14
25 8 0.29
26 9 0.32
27 7 0.25
ACGTcount: A:0.54, C:0.02, G:0.11, T:0.33
Consensus pattern (25 bp):
TATATATAAATAGATTTAAAAGAAA
Found at i:15949992 original size:26 final size:26
Alignment explanation
Indices: 15949949--15950009 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
15949939 AAGAATAAAC
*
15949949 TATATACATAATAGATTTGAAAGGAAA
1 TATATACATAATAGATTT-AAAAGAAA
*
15949976 TATATATA-AATAGATTTAAAAGAAA
1 TATATACATAATAGATTTAAAAGAAA
15950001 T-TATACATA
1 TATATACATA
15950010 TAAAATAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 5 0.17
25 9 0.30
26 9 0.30
27 7 0.23
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.33
Consensus pattern (26 bp):
TATATACATAATAGATTTAAAAGAAA
Found at i:15956587 original size:3 final size:3
Alignment explanation
Indices: 15956579--15956608 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
15956569 TGTTATTTCT
15956579 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15956609 AGTAGCAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:15957200 original size:30 final size:30
Alignment explanation
Indices: 15957156--15957215 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
15957146 GTGTGTAATC
*
15957156 ATATACACAAACTTTAATTTT-ATTCAATT
1 ATATACAAAAACTTTAATTTTGATTCAATT
15957185 ATATACATAAAACTTTAATTTTGATTCAATT
1 ATATACA-AAAACTTTAATTTTGATTCAATT
15957216 TTTTCGTATC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 7 0.25
30 13 0.46
31 8 0.29
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.45
Consensus pattern (30 bp):
ATATACAAAAACTTTAATTTTGATTCAATT
Found at i:15965509 original size:27 final size:27
Alignment explanation
Indices: 15965468--15965532 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
15965458 GGGCAAAACA
* * *
15965468 ATCATTTTACCCTATAGGGGTATTTCG
1 ATCATTTTACACTATAAGAGTATTTCG
*
15965495 TTCATTTTACACTATAAGAGTATTTCG
1 ATCATTTTACACTATAAGAGTATTTCG
*
15965522 ATAATTTTACA
1 ATCATTTTACA
15965533 AATCGAGGCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.43
Consensus pattern (27 bp):
ATCATTTTACACTATAAGAGTATTTCG
Found at i:15965547 original size:27 final size:27
Alignment explanation
Indices: 15965514--15965771 Score: 286
Period size: 27 Copynumber: 9.6 Consensus size: 27
15965504 CACTATAAGA
15965514 GTATTTCGATAATTTTACAAATCGAGG
1 GTATTTCGATAATTTTACAAATCGAGG
* * * *
15965541 CTGTTTCGGTAATTTTACAAATTGAGG
1 GTATTTCGATAATTTTACAAATCGAGG
**
15965568 GTATTTCGATAATTTTACAAATTAAGG
1 GTATTTCGATAATTTTACAAATCGAGG
*
15965595 GTGTTTCGATAATTTTACAAATCGAGG
1 GTATTTCGATAATTTTACAAATCGAGG
15965622 GTATTTC-AGTAATTTTACAAATCGAGG
1 GTATTTCGA-TAATTTTACAAATCGAGG
* * **
15965649 GTGTTTCGGTAATTTTACAAATTAAGG
1 GTATTTCGATAATTTTACAAATCGAGG
* ** ** *
15965676 GTGTTTTTATAATTTTACAAATTAAAG
1 GTATTTCGATAATTTTACAAATCGAGG
* *
15965703 GTATTTCGATAATTTCACAAATCGGGG
1 GTATTTCGATAATTTTACAAATCGAGG
* * *
15965730 GTACTTT-GGTAATTTTACAAACCGGGG
1 GTA-TTTCGATAATTTTACAAATCGAGG
15965757 GTATTTCGATAATTT
1 GTATTTCGATAATTT
15965772 CTCTTTATTA
Statistics
Matches: 195, Mismatches: 32, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.02
27 188 0.96
28 3 0.02
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
GTATTTCGATAATTTTACAAATCGAGG
Found at i:15965606 original size:81 final size:80
Alignment explanation
Indices: 15965485--15965750 Score: 320
Period size: 81 Copynumber: 3.3 Consensus size: 80
15965475 TACCCTATAG
* * * * * *
15965485 GGGTATTTCGTTCATTTTAC-ACTATAAGAGTATTTCGATAATTTTACAAATCGAGGCTGTTTCG
1 GGGTATTTCGGTAATTTTACAAAT-TAAGGGTGTTTCGATAATTTTACAAATCGAGG-TATTTCG
*
15965549 GTAATTTTACAAATTGA
64 GTAATTTTACAAATCGA
* *
15965566 GGGTATTTCGATAATTTTACAAATTAAGGGTGTTTCGATAATTTTACAAATCGAGGGTATTTCAG
1 GGGTATTTCGGTAATTTTACAAATTAAGGGTGTTTCGATAATTTTACAAATCGA-GGTATTTCGG
15965631 TAATTTTACAAATCGA
65 TAATTTTACAAATCGA
* ** ** *
15965647 GGGTGTTTCGGTAATTTTACAAATTAAGGGTGTTTTTATAATTTTACAAATTAAAGGTATTTCGA
1 GGGTATTTCGGTAATTTTACAAATTAAGGGTGTTTCGATAATTTTACAAA-TCGAGGTATTTCGG
* *
15965712 TAATTTCACAAATCGG
65 TAATTTTACAAATCGA
15965728 GGGTACTTT-GGTAATTTTACAAA
1 GGGTA-TTTCGGTAATTTTACAAA
15965751 CCGGGGGTAT
Statistics
Matches: 162, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
81 153 0.94
82 9 0.06
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (80 bp):
GGGTATTTCGGTAATTTTACAAATTAAGGGTGTTTCGATAATTTTACAAATCGAGGTATTTCGGT
AATTTTACAAATCGA
Found at i:15966085 original size:28 final size:28
Alignment explanation
Indices: 15966054--15966132 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
15966044 GCCCAACTCG
* *
15966054 TTCACATGGCCTATCAGGCCTAATCACA
1 TTCACATGGCCCATCAGGCCCAATCACA
* *
15966082 TTCATATGGCCCATCAGGCCCAGTCACA
1 TTCACATGGCCCATCAGGCCCAATCACA
* * * *
15966110 TTCATACGACCCATCAAGCCCAA
1 TTCACATGGCCCATCAGGCCCAA
15966133 CTCCTTCCCA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.29, C:0.35, G:0.14, T:0.22
Consensus pattern (28 bp):
TTCACATGGCCCATCAGGCCCAATCACA
Found at i:15974510 original size:57 final size:57
Alignment explanation
Indices: 15974427--15974567 Score: 230
Period size: 57 Copynumber: 2.5 Consensus size: 57
15974417 AAGTCCTCTT
*
15974427 GAGCATATGTTAT-GGATTGGATTTAGCCCGAACAGGTAATCCAGATCAAGCTCCTTA
1 GAGCATATGTTATAGGA-AGGATTTAGCCCGAACAGGTAATCCAGATCAAGCTCCTTA
*
15974484 GAGCATATGTCATAGGAAGGATTTAGCCCGAACAGGTAATCCAGATCAAGCTCCTTA
1 GAGCATATGTTATAGGAAGGATTTAGCCCGAACAGGTAATCCAGATCAAGCTCCTTA
**
15974541 GAGCATATGTTATAAAAAGGATTTAGC
1 GAGCATATGTTATAGGAAGGATTTAGC
15974568 TTGGACTGGT
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
57 75 0.96
58 3 0.04
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (57 bp):
GAGCATATGTTATAGGAAGGATTTAGCCCGAACAGGTAATCCAGATCAAGCTCCTTA
Found at i:15977761 original size:26 final size:26
Alignment explanation
Indices: 15977702--15977761 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
15977692 TGGTACAAAT
*
15977702 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATGGGTTAGGTAAATGTTCAA
*
15977728 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCAA
15977754 TGATAATG
1 TGATAATG
15977762 ATTTCATGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCAA
Found at i:15979476 original size:27 final size:27
Alignment explanation
Indices: 15979379--15979483 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
15979369 AGGAAGCGTC
*
15979379 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
15979406 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
15979433 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
15979460 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
15979484 GCAGCCTCGC
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 9 0.13
27 61 0.86
28 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:15982196 original size:48 final size:47
Alignment explanation
Indices: 15982120--15982349 Score: 224
Period size: 48 Copynumber: 4.9 Consensus size: 47
15982110 AGGATATGCA
* *
15982120 TGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGAAATG
1 TGATCTCATGTAAGACCATGTCTGGGACATGGCATTGGCAT-GAAATG
*
15982168 TGATCTCATGTAAGACCATGTCTGGGACATGGCATTGGCAT-AAATA
1 TGATCTCATGTAAGACCATGTCTGGGACATGGCATTGGCATGAAATG
* * *
15982214 TGAGACATCGTGTAAGACCATAG-CTGGG-CTATCGGC-TTTG-ATG---TG
1 TGA-TC-TCATGTAAGACCAT-GTCTGGGAC-AT-GGCATTGGCATGAAATG
*
15982259 CATGATCTCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGATATG
1 --TGATCTCATGTAAGACCATGTCTGGGACATGGCATTGGCA-TGAAATG
* * * *
15982309 TGATCCCATGTAAGACCATATCTGGGATATAGCATTGGCAT
1 TGATCTCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
15982350 CCAACTATGT
Statistics
Matches: 152, Mismatches: 14, Indels: 33
0.76 0.07 0.17
Matches are distributed among these distances:
44 4 0.03
45 24 0.16
46 10 0.07
47 10 0.07
48 98 0.64
49 4 0.03
50 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (47 bp):
TGATCTCATGTAAGACCATGTCTGGGACATGGCATTGGCATGAAATG
Found at i:16000671 original size:120 final size:120
Alignment explanation
Indices: 16000455--16000686 Score: 401
Period size: 120 Copynumber: 1.9 Consensus size: 120
16000445 AAAAAGGCTC
16000455 TGTAACATCCCGAAATAGGGCCTAGTCAGAATAGTGGTTTCAGAACCACAAATCTGACATCAAAA
1 TGTAACATCCCGAAATAGGGCCTAGTCAGAATAGTGGTTTCAGAACCACAAATCTGACATCAAAA
*
16000520 TATTTATTTTATGATTAATATGAGGCCTAGAATATGAGTATATGCATAGGAGAAA
66 TATTTATTTTATGATTAATATGAGGCCTAGAATATGAGTATAGGCATAGGAGAAA
* * * * *
16000575 TGTAACATCGCGACATAGGGCCTAGTCAGAATAGTGGTTTCGGGACCACAAATCTGACATTAAAA
1 TGTAACATCCCGAAATAGGGCCTAGTCAGAATAGTGGTTTCAGAACCACAAATCTGACATCAAAA
*
16000640 TATTTATTTTATGATTAATATGAGGCTTAGAATATGAGTATAGGCAT
66 TATTTATTTTATGATTAATATGAGGCCTAGAATATGAGTATAGGCAT
16000687 GTGTTAAAGT
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 105 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (120 bp):
TGTAACATCCCGAAATAGGGCCTAGTCAGAATAGTGGTTTCAGAACCACAAATCTGACATCAAAA
TATTTATTTTATGATTAATATGAGGCCTAGAATATGAGTATAGGCATAGGAGAAA
Found at i:16014043 original size:29 final size:29
Alignment explanation
Indices: 16013997--16014111 Score: 117
Period size: 29 Copynumber: 4.0 Consensus size: 29
16013987 GTGAGCATGA
* * *
16013997 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
16014025 ATATAAATTTGATTTGGGCCTAATGTGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * * *
16014054 ATATACAGGTGATTTGGGCCTAATTGGTC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
16014083 ATATGAATGTGA-TTGGGCTTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
16014111 A
1 A
16014112 GATACAGGTA
Statistics
Matches: 69, Mismatches: 17, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
28 24 0.35
29 45 0.65
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:16014120 original size:57 final size:58
Alignment explanation
Indices: 16014010--16014120 Score: 143
Period size: 57 Copynumber: 1.9 Consensus size: 58
16014000 TGAATGTGAC
* * *
16014010 TGGGCCTAACGGGCCATATAAATTTGATTTGGGCCTAATGTGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCAGATACAGGTGATT
** * * *
16014068 TGGGCCTAATTGGTCATATGAATGTGA-TTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCAGATACAGGT
16014121 ATGTGAAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 23 0.51
58 22 0.49
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (58 bp):
TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:16016063 original size:29 final size:29
Alignment explanation
Indices: 16016017--16016131 Score: 117
Period size: 29 Copynumber: 4.0 Consensus size: 29
16016007 GTGAGCATGA
* * *
16016017 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
16016045 ATATAAATTTGATTTGGGCCTAATGTGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * * *
16016074 ATATACAGGTGATTTGGGCCTAATTGGTC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
16016103 ATATGAATGTGA-TTGGGCTTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
16016131 A
1 A
16016132 GATACAGGTA
Statistics
Matches: 69, Mismatches: 17, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
28 24 0.35
29 45 0.65
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:16016140 original size:57 final size:58
Alignment explanation
Indices: 16016030--16016140 Score: 143
Period size: 57 Copynumber: 1.9 Consensus size: 58
16016020 TGAATGTGAC
* * *
16016030 TGGGCCTAACGGGCCATATAAATTTGATTTGGGCCTAATGTGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCAGATACAGGTGATT
** * * *
16016088 TGGGCCTAATTGGTCATATGAATGTGA-TTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCAGATACAGGT
16016141 ATGTGAAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 23 0.51
58 22 0.49
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (58 bp):
TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:16018215 original size:8 final size:8
Alignment explanation
Indices: 16018193--16018227 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
16018183 CATATATTGA
16018193 AAAAAAAT
1 AAAAAAAT
* *
16018201 GAGAAAAT
1 AAAAAAAT
16018209 AAAAAAAT
1 AAAAAAAT
16018217 AAAAAAAT
1 AAAAAAAT
16018225 AAA
1 AAA
16018228 CATGAAAATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:16022432 original size:15 final size:15
Alignment explanation
Indices: 16022412--16022443 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16022402 CATTTCACTA
*
16022412 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
16022427 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
16022442 TT
1 TT
16022444 TGCATGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:16023780 original size:43 final size:44
Alignment explanation
Indices: 16023731--16023889 Score: 175
Period size: 43 Copynumber: 3.7 Consensus size: 44
16023721 GATTACCTAG
*
16023731 ATGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
**
16023775 -TGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCAT-TAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTAT
* * * *
16023819 ATG-G-TTTCGTGTAAGACCATGTCTAGGACATTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * *
16023860 ATGTTATAACATGTAAGACCATATCTGGGA
1 ATGTGATTACATGTAAGACCATGTCTGGGA
16023890 TATGGTATTG
Statistics
Matches: 96, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
41 5 0.05
43 84 0.88
44 4 0.04
45 3 0.03
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.34
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:16025329 original size:13 final size:13
Alignment explanation
Indices: 16025311--16025374 Score: 92
Period size: 13 Copynumber: 4.9 Consensus size: 13
16025301 AGTTTGGCAA
16025311 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
16025324 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
16025337 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
16025350 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
16025363 TGCTTTTGAAAA
1 TGCTTTTGAAAA
16025375 TTTTGGTTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:16025340 original size:26 final size:26
Alignment explanation
Indices: 16025311--16025374 Score: 110
Period size: 26 Copynumber: 2.5 Consensus size: 26
16025301 AGTTTGGCAA
16025311 TGCTTTTGAAAAGTGCTTTTGAGAAG
1 TGCTTTTGAAAAGTGCTTTTGAGAAG
* *
16025337 TGCTGTGGAAAAGTGCTTTTGAGAAG
1 TGCTTTTGAAAAGTGCTTTTGAGAAG
16025363 TGCTTTTGAAAA
1 TGCTTTTGAAAA
16025375 TTTTGGTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (26 bp):
TGCTTTTGAAAAGTGCTTTTGAGAAG
Found at i:16026281 original size:48 final size:48
Alignment explanation
Indices: 16026213--16026443 Score: 183
Period size: 48 Copynumber: 4.9 Consensus size: 48
16026203 TAGGGTCATG
* * *
16026213 TGTGATCCCATTTAAGACCATGTCTGGGACAT-GAATATGGCATCGATA
1 TGTGATTCCATGTAAGACCATGTCTGGGACATAGCAT-TGGCATCGATA
* * * * *
16026261 TGTAATTTCGTGTAAGACCATAG-CTGGG---T--TATCGGCATCGATA
1 TGTGATTCCATGTAAGACCAT-GTCTGGGACATAGCATTGGCATCGATA
* * *
16026304 TGTGA-TCTTATGTAAGACCATGTCTGGGATATAGCATTGGCATCGATC
1 TGTGATTC-CATGTAAGACCATGTCTGGGACATAGCATTGGCATCGATA
** * *
16026352 TACGA-TCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATA
1 TGTGATTCC-ATGTAAGACCATGTCTGGGACATAGCATTGGCATCGATA
* * * * *
16026400 TGTGATCCCATGTAAGACCATATCCGGGATATGGCATTGGCATC
1 TGTGATTCCATGTAAGACCATGTCTGGGACATAGCATTGGCATC
16026444 CTATCATGTG
Statistics
Matches: 146, Mismatches: 27, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
42 2 0.01
43 30 0.21
44 2 0.01
45 1 0.01
46 1 0.01
48 107 0.73
49 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (48 bp):
TGTGATTCCATGTAAGACCATGTCTGGGACATAGCATTGGCATCGATA
Found at i:16029390 original size:11 final size:12
Alignment explanation
Indices: 16029374--16029406 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
16029364 TGGACCCAAG
16029374 TGAATTAATTT-
1 TGAATTAATTTC
*
16029385 TGAATTCATTTC
1 TGAATTAATTTC
16029397 TGAATTAATT
1 TGAATTAATT
16029407 CACTTGTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (12 bp):
TGAATTAATTTC
Found at i:16034553 original size:21 final size:21
Alignment explanation
Indices: 16034528--16034569 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
16034518 CTAATTTTAC
16034528 TTAAGTACAAGTAATTAATTA
1 TTAAGTACAAGTAATTAATTA
16034549 TTAAGTACAAGTAATTAATTA
1 TTAAGTACAAGTAATTAATTA
16034570 AGTCTAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (21 bp):
TTAAGTACAAGTAATTAATTA
Found at i:16038847 original size:313 final size:312
Alignment explanation
Indices: 16038279--16038908 Score: 1215
Period size: 313 Copynumber: 2.0 Consensus size: 312
16038269 GTGCCCTAAG
16038279 CATGGGTTACCACTCTGGCTACAGGTTCAAACGTTTCACAATGGCCTGAATCCTTCGACTCGACA
1 CATGGGTTACCACTCTGGCTACAGGTTCAAACGTTTCACAATGGCCTGAATCCTTCGACTCGACA
* * *
16038344 GATGATCGATGCAGCCGCTGGTGGAACTATCAATAATAAGACACTTGAGGATGCTTATGAATTTA
66 GATGATCGATGCAACCGCTGGTGGAACTATCAATAATAAGACACCTGAGGATACTTATGAATTTA
16038409 TAAAAGAGATGTCACTGAATAATTATCAGTGGCAAGTCATGAGGACAAAGCCAACAAAAACAGCC
131 TAAAAGAGATGTCACTGAATAATTATCAGTGGCAAGTCATGAGGACAAAGCCAACAAAAACAGCC
16038474 GACGTTTTTAACGTCGATTCGGTCACCATGCTCTCTAATCAAGTAGAACTTTTGAATAGAAAAAT
196 GACGTTTTTAACGTCGATTCGGTCACCATGCTCTCTAATCAAGTAGAACTTTTGAATAGAAAAAT
16038539 TAACAGCTTTTTTGGTTCTTCGCAGGTTCACCCAGTAATATAGTGCGAAGCA
261 TAACAGCTTTTTTGGTTCTTCGCAGGTTCACCCAGTAATATAGTGCGAAGCA
16038591 NCATGGGTTACCACTCTGGCTACAGGTTCAAACGTTTCACAATGGCCTGAATCCTTCGACTCGAC
1 -CATGGGTTACCACTCTGGCTACAGGTTCAAACGTTTCACAATGGCCTGAATCCTTCGACTCGAC
16038656 AGATGATCGATGCAACCGCTGGTGGAACTATCAATAATAAGACACCTGAGGATACTTATGAATTT
65 AGATGATCGATGCAACCGCTGGTGGAACTATCAATAATAAGACACCTGAGGATACTTATGAATTT
16038721 ATAAAAGAGATGTCACTGAATAATTATCAGTGGCAAGTCATGAGGACAAAGCCAACAAAAACAGC
130 ATAAAAGAGATGTCACTGAATAATTATCAGTGGCAAGTCATGAGGACAAAGCCAACAAAAACAGC
16038786 CGACGTTTTTAACGTCGATTCGGTCACCATGCTCTCTAATCAAGTAGAACTTTTGAATAGAAAAA
195 CGACGTTTTTAACGTCGATTCGGTCACCATGCTCTCTAATCAAGTAGAACTTTTGAATAGAAAAA
16038851 TTAACAGCTTTTTTGGTTCTTCGCAGGTTCACCCAGTAATATAGTGCGAAGCA
260 TTAACAGCTTTTTTGGTTCTTCGCAGGTTCACCCAGTAATATAGTGCGAAGCA
*
16038904 AATGG
1 CATGG
16038909 AGGTGGATCT
Statistics
Matches: 313, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
312 4 0.01
313 309 0.99
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (312 bp):
CATGGGTTACCACTCTGGCTACAGGTTCAAACGTTTCACAATGGCCTGAATCCTTCGACTCGACA
GATGATCGATGCAACCGCTGGTGGAACTATCAATAATAAGACACCTGAGGATACTTATGAATTTA
TAAAAGAGATGTCACTGAATAATTATCAGTGGCAAGTCATGAGGACAAAGCCAACAAAAACAGCC
GACGTTTTTAACGTCGATTCGGTCACCATGCTCTCTAATCAAGTAGAACTTTTGAATAGAAAAAT
TAACAGCTTTTTTGGTTCTTCGCAGGTTCACCCAGTAATATAGTGCGAAGCA
Found at i:16050491 original size:26 final size:26
Alignment explanation
Indices: 16050448--16050519 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
16050438 TCTCATCCCA
* *
16050448 ATTTTACTCC-AGTAAAATTTTGACG
1 ATTTTACCCCGAGTAAAATTTTAACG
*
16050473 ATTTTAACCCCGA-TAAAATTTTAATG
1 ATTTT-ACCCCGAGTAAAATTTTAACG
16050499 ATTTTACCCCGAGTAAAATTT
1 ATTTTACCCCGAGTAAAATTT
16050520 CGAGAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 12 0.29
26 28 0.68
27 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.39
Consensus pattern (26 bp):
ATTTTACCCCGAGTAAAATTTTAACG
Found at i:16050682 original size:12 final size:12
Alignment explanation
Indices: 16050662--16050697 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
16050652 AGGATTGCAA
16050662 ATTTCTATTTTC
1 ATTTCTATTTTC
*
16050674 ATTTTTATTTTC
1 ATTTCTATTTTC
16050686 ATTTCTACTTTT
1 ATTTCTA-TTTT
16050698 AGAAACCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTCTATTTTC
Found at i:16050801 original size:9 final size:10
Alignment explanation
Indices: 16050782--16050810 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
16050772 TCATTTCTAT
16050782 TTTCTATTCA
1 TTTCTATTCA
16050792 TTTC-ATTCA
1 TTTCTATTCA
16050801 TTTCTATTCA
1 TTTCTATTCA
16050811 AACAAGCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTCTATTCA
Found at i:16052230 original size:17 final size:17
Alignment explanation
Indices: 16052203--16052247 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 17
16052193 TATCTTTAAC
16052203 TTTAGTCTTTATTATATT
1 TTTA-TCTTTATTATATT
16052221 TTTATCTTTATTATATT
1 TTTATCTTTATTATATT
16052238 TTTATACTTT
1 TTTAT-CTTT
16052248 TTGTAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTATCTTTATTATATT
Found at i:16053192 original size:21 final size:22
Alignment explanation
Indices: 16053142--16053196 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
16053132 TGCAGGGCTC
**
16053142 ACACGCCCGTGTGGTCCAACGG
1 ACACGCCCGTGTGACCCAACGG
* *
16053164 ACATGCCCGTGTGACCCTA-GG
1 ACACGCCCGTGTGACCCAACGG
16053185 ACACGCCCGTGT
1 ACACGCCCGTGT
16053197 TAGAGGCCGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 13 0.46
22 15 0.54
ACGTcount: A:0.18, C:0.36, G:0.29, T:0.16
Consensus pattern (22 bp):
ACACGCCCGTGTGACCCAACGG
Found at i:16060790 original size:6 final size:6
Alignment explanation
Indices: 16060763--16060801 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
16060753 GGATGTGATC
16060763 ATATTT -TATTT ATAATTTT ATATTT ATATTT ATATTT AT
1 ATATTT ATATTT AT-A-TTT ATATTT ATATTT ATATTT AT
16060802 TTTCAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 5 0.17
6 18 0.60
7 2 0.07
8 5 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATATTT
Found at i:16068033 original size:27 final size:27
Alignment explanation
Indices: 16068003--16068089 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
16067993 CGACTTGTAA
* *
16068003 AATTACTATTTTACCCTTGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
*
16068030 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
* * *
16068057 AATTACCGTTTTACCCTCGATTTCCAA
1 AATTACCATTTTACCCTCGATTTACAG
16068084 AATTAC
1 AATTAC
16068090 TAAAATACCC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAG
Found at i:16068232 original size:27 final size:27
Alignment explanation
Indices: 16068082--16068222 Score: 192
Period size: 27 Copynumber: 5.2 Consensus size: 27
16068072 CTCGATTTCC
* * * **
16068082 AAAATTACTAAAATACCCTTAGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
16068109 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
16068136 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
16068163 AAAATTACCAAAATACCCCTGGCTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
16068190 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
16068217 GAAATT
1 AAAATT
16068223 TTTAAAATAC
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:16068247 original size:81 final size:81
Alignment explanation
Indices: 16068068--16068248 Score: 218
Period size: 81 Copynumber: 2.2 Consensus size: 81
16068058 ATTACCGTTT
** * * * *
16068068 TACCCTCGATTTCCAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTGGTT
1 TACCCTCGATTTATAAAATTACCAAAATACCCCTAGCTTACAAAATTACCAAAATACCCCTGATT
16068133 TGTAAAATTACTAAAA
66 TGTAAAATTACTAAAA
* * * * **
16068149 TACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGCTTGTAAAATTACCAAAATACCCCTGATT
1 TACCCTCGATTTATAAAATTACCAAAATACCCCTAGCTTACAAAATTACCAAAATACCCCTGATT
* **
16068214 TGTGAAATTTTTAAAA
66 TGTAAAATTACTAAAA
*
16068230 TACTCTCGATTTATAAAAT
1 TACCCTCGATTTATAAAAT
16068249 ATCGAAATAG
Statistics
Matches: 82, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.33
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCCTAGCTTACAAAATTACCAAAATACCCCTGATT
TGTAAAATTACTAAAA
Found at i:16068282 original size:27 final size:27
Alignment explanation
Indices: 16068251--16068332 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
16068241 TATAAAATAT
*
16068251 CGAAATAGCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
16068278 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * * * *
16068305 TGAGATACTCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
16068332 C
1 C
16068333 ATTTTGCTCC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:16083101 original size:16 final size:16
Alignment explanation
Indices: 16083080--16083111 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16083070 ATTGATTGAA
16083080 ACTAAAATTAACTAAT
1 ACTAAAATTAACTAAT
16083096 ACTAAAATTAACTAAT
1 ACTAAAATTAACTAAT
16083112 TTAATTAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (16 bp):
ACTAAAATTAACTAAT
Found at i:16084360 original size:17 final size:18
Alignment explanation
Indices: 16084326--16084360 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16084316 CGATTAAGTC
*
16084326 AGATTTTTTAGCTGAAAA
1 AGATTTTTGAGCTGAAAA
16084344 AGATTTTTGAGCT-AAAA
1 AGATTTTTGAGCTGAAAA
16084361 CTCCTTTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (18 bp):
AGATTTTTGAGCTGAAAA
Found at i:16085161 original size:47 final size:44
Alignment explanation
Indices: 16085086--16085355 Score: 195
Period size: 47 Copynumber: 5.8 Consensus size: 44
16085076 GGTGATTTGT
16085086 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATCCAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACAT-CAGA-GA
* * * *
16085134 GGGCTAGTGTAAGACATGTCTGGGACATGCTTCAGCCAT-ATGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-GACATCA-GA-GA
* * *
16085180 GTGCCAGAGTAAGACATGTCTGGGACATGCATCGACCTCGACAGAGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACAT---CAGAGA
* * * * * *
16085227 TAGCCAGTGTAAGACGTGTCTGGGACAAGCATCGGC-TAAGAGTT
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACATCAGAG-A
* * * *
16085271 GTGCTACTGTAAGACATGTCTGGGACATGCATCAGCACGTAT-ATATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-G-AC--ATCAGA-GA
*
16085319 GAGCCAGTATAAGACCATGTCTGGGACATGGCATCGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGA
16085356 AAATTTATTC
Statistics
Matches: 175, Mismatches: 32, Indels: 30
0.74 0.14 0.13
Matches are distributed among these distances:
43 4 0.02
44 27 0.15
45 5 0.03
46 39 0.22
47 50 0.29
48 27 0.15
49 18 0.10
50 5 0.03
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (44 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACATCAGAGA
Found at i:16087218 original size:58 final size:56
Alignment explanation
Indices: 16087069--16087218 Score: 160
Period size: 57 Copynumber: 2.6 Consensus size: 56
16087059 ATTGTTTAAC
16087069 AGGATTACCAGTCCAGGCTAAATCCTTTATATAACGTATGCTCAGGGGAGCTTAATT
1 AGGATTACCAGTCCAGGCTAAATCCTTTATATAACGTATGCTCAGGGGA-CTTAATT
* * * * *
16087126 AGGATTACCAGTCCAAGCTAAA-CCCTAATCATAACGTATGCTCGAGAGGTA-TTACTT
1 AGGATTACCAGTCCAGGCTAAATCCTTTAT-ATAACGTATGCTC-AG-GGGACTTAATT
* * * *
16087183 CGGGATTACCCGTCCGGGTTAAATCCTTTATATAAC
1 -AGGATTACCAGTCCAGGCTAAATCCTTTATATAAC
16087219 AAGGTCATTG
Statistics
Matches: 76, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
56 5 0.07
57 39 0.51
58 24 0.32
59 8 0.11
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (56 bp):
AGGATTACCAGTCCAGGCTAAATCCTTTATATAACGTATGCTCAGGGGACTTAATT
Found at i:16094837 original size:17 final size:17
Alignment explanation
Indices: 16094817--16094849 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16094807 TGGAATTGGG
16094817 TTGAGAAAATAATTTAA
1 TTGAGAAAATAATTTAA
*
16094834 TTGAGAAATTAATTTA
1 TTGAGAAAATAATTTA
16094850 TTTAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (17 bp):
TTGAGAAAATAATTTAA
Found at i:16097167 original size:30 final size:30
Alignment explanation
Indices: 16097076--16097167 Score: 130
Period size: 30 Copynumber: 3.1 Consensus size: 30
16097066 GATGACGCGA
* *
16097076 GCCCATCAACAGTGGCCACACAGTCATCAG
1 GCCCATCAACAGTGCCCACACAGTCATCGG
** * *
16097106 GCCCATCAACAGCACTCACACAGTCACCGG
1 GCCCATCAACAGTGCCCACACAGTCATCGG
16097136 GCCCATCAACAGTGCCCACACAGTCATCGG
1 GCCCATCAACAGTGCCCACACAGTCATCGG
16097166 GC
1 GC
16097168 TCAATACTTC
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.28, C:0.40, G:0.20, T:0.12
Consensus pattern (30 bp):
GCCCATCAACAGTGCCCACACAGTCATCGG
Found at i:16097848 original size:39 final size:39
Alignment explanation
Indices: 16097772--16097856 Score: 102
Period size: 39 Copynumber: 2.2 Consensus size: 39
16097762 CTTTTTATAA
* *
16097772 TTTTAATAAAATAAATGTTCTTTTAAATTAGCCAATATT
1 TTTTAATAAAATAAATGTTATTTTAAATTAGACAATATT
* * *
16097811 TTTTATTAAAATAAATGTTATTTTGAA-TACGATAATA-T
1 TTTTAATAAAATAAATGTTATTTTAAATTA-GACAATATT
16097849 TTTTAATA
1 TTTTAATA
16097857 TTTTTTATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
38 10 0.26
39 29 0.74
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (39 bp):
TTTTAATAAAATAAATGTTATTTTAAATTAGACAATATT
Found at i:16097857 original size:9 final size:9
Alignment explanation
Indices: 16097843--16097874 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
16097833 TTGAATACGA
16097843 TAATATTTT
1 TAATATTTT
16097852 TAATATTTT
1 TAATATTTT
*
16097861 TTATATTTT
1 TAATATTTT
16097870 TAATA
1 TAATA
16097875 AAATATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TAATATTTT
Found at i:16101135 original size:126 final size:126
Alignment explanation
Indices: 16100908--16101174 Score: 376
Period size: 126 Copynumber: 2.1 Consensus size: 126
16100898 CCAAATAGTA
* ** *
16100908 ACTACTGTAGCAAAAGAGCGTCCACGAGGGAGCTTTTTTCCGTAATTTTCCTGACAATGTATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGAGAGAGCTTTTTTCCGTAATTTAACTGACAATGCATCCT
* * *
16100973 GCTTGAAGCGTTATGGATAATATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTC-AGAT
66 GCTTGAAGCGTTATGGACAATATTTGTTCAGAAACGTCTTCTCAAAATTATTTTCTCTA-AT
* *
16101034 ACTACTGTAGCAAAAGAGCTTCCAC-ATGAGAGCTTTTTTCCGTAATTTAACTGACAGTGCATCC
1 ACTACTGTAGCAAAAGAGCGTCCACGA-GAGAGCTTTTTTCCGTAATTTAACTGACAATGCATCC
* * * *
16101098 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGGAACGTCTTCTCAAAATTATTTTCTCTAAT
65 TGCTTGAAGCGTTATGGACAATATTTGTTCAGAAACGTCTTCTCAAAATTATTTTCTCTAAT
*
16101160 ACTACTGCAGCAAAA
1 ACTACTGTAGCAAAA
16101175 AAAATAAAAA
Statistics
Matches: 125, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
125 1 0.01
126 123 0.98
127 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (126 bp):
ACTACTGTAGCAAAAGAGCGTCCACGAGAGAGCTTTTTTCCGTAATTTAACTGACAATGCATCCT
GCTTGAAGCGTTATGGACAATATTTGTTCAGAAACGTCTTCTCAAAATTATTTTCTCTAAT
Found at i:16106341 original size:35 final size:35
Alignment explanation
Indices: 16106302--16106368 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
16106292 ATTTAGATAC
*
16106302 TCTAAGACCCAATATTTCAACCTTTATTAACAGTA
1 TCTAAGACCCAATATTTCAACCTATATTAACAGTA
* * *
16106337 TCTAAGACCGAATATTTTAGCCTATATTAACA
1 TCTAAGACCCAATATTTCAACCTATATTAACA
16106369 ACACCAAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.34
Consensus pattern (35 bp):
TCTAAGACCCAATATTTCAACCTATATTAACAGTA
Found at i:16109354 original size:25 final size:25
Alignment explanation
Indices: 16109326--16109381 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
16109316 AATAATAATG
16109326 TATAAATATAATTTTATTGTAAAGA
1 TATAAATATAATTTTATTGTAAAGA
16109351 TATAAATATAATTTTATTGTAAAGA
1 TATAAATATAATTTTATTGTAAAGA
*
16109376 AATAAA
1 TATAAA
16109382 GCATTACGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (25 bp):
TATAAATATAATTTTATTGTAAAGA
Found at i:16111013 original size:21 final size:20
Alignment explanation
Indices: 16110967--16111017 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
16110957 GAATTGAGTT
* * *
16110967 AAACAACAAAGAATCAATTC
1 AAACAATAATGAATCAATTA
16110987 AAACAATAATGAATCAATTTA
1 AAACAATAATGAATCAA-TTA
16111008 AAACAATAAT
1 AAACAATAAT
16111018 CATGAATCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.61, C:0.14, G:0.04, T:0.22
Consensus pattern (20 bp):
AAACAATAATGAATCAATTA
Found at i:16111055 original size:21 final size:20
Alignment explanation
Indices: 16111031--16111100 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 20
16111021 GAATCGATAC
16111031 AAAAAAGAAAATAATAAGTTT
1 AAAAAAGAAAATAATAA-TTT
* *
16111052 AAAACAACAACAATGAATCAATTC
1 AAAA-AAGAA-AAT-AAT-AATTT
*
16111076 AAAAAAGAAAAGAATTAATTT
1 AAAAAAGAAAATAA-TAATTT
16111097 AAAA
1 AAAA
16111101 CAACAAACAA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
21 14 0.36
22 7 0.18
23 7 0.18
24 9 0.23
25 2 0.05
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAAAAGAAAATAATAATTT
Found at i:16111118 original size:42 final size:43
Alignment explanation
Indices: 16110967--16111150 Score: 178
Period size: 45 Copynumber: 4.3 Consensus size: 43
16110957 GAATTGAGTT
* * *
16110967 AAACAACAAA-GAATCAATTCAAACAA-TAATGAATCAATTTA
1 AAACAACAAATGAATCAATTCAAAAAAGAAAAGAATCAATTTA
* * * *
16111008 AAACAATAATCATGAATCGATACAAAAAAGAAAATAAT-AAGTTTA
1 AAACAACAA--ATGAATCAATTCAAAAAAGAAAAGAATCAA-TTTA
*
16111053 AAACAACAACAATGAATCAATTCAAAAAAGAAAAGAATTAATTTA
1 AAACAAC-A-AATGAATCAATTCAAAAAAGAAAAGAATCAATTTA
* * * * *
16111098 AAACAACAAA-CAATCTATTCAAAGAAGAAAAAAATCAATTCA
1 AAACAACAAATGAATCAATTCAAAAAAGAAAAGAATCAATTTA
16111140 AAACAACAAAT
1 AAACAACAAAT
16111151 TCAGTAACAA
Statistics
Matches: 117, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
41 8 0.07
42 36 0.31
43 3 0.03
44 16 0.14
45 50 0.43
46 3 0.03
47 1 0.01
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.20
Consensus pattern (43 bp):
AAACAACAAATGAATCAATTCAAAAAAGAAAAGAATCAATTTA
Found at i:16111138 original size:21 final size:20
Alignment explanation
Indices: 16111067--16111142 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 20
16111057 AACAACAATG
*
16111067 AATCAATTCAAAAAAGAAAAG
1 AATCAATTC-AAAAAGAAAAA
* * *
16111088 AATTAATTTAAAACA-ACAAAC
1 AATCAATTCAAAA-AGA-AAAA
*
16111109 AATCTATTCAAAGAAGAAAAA
1 AATCAATTCAAA-AAGAAAAA
16111130 AATCAATTCAAAA
1 AATCAATTCAAAA
16111143 CAACAAATTC
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
20 6 0.14
21 35 0.81
22 2 0.05
ACGTcount: A:0.63, C:0.12, G:0.05, T:0.20
Consensus pattern (20 bp):
AATCAATTCAAAAAGAAAAA
Found at i:16111148 original size:45 final size:43
Alignment explanation
Indices: 16111030--16111148 Score: 116
Period size: 42 Copynumber: 2.7 Consensus size: 43
16111020 TGAATCGATA
* **
16111030 CAAAAAAGAAAATAATAAGTTTAAAACAACAACAATGAATCAATT
1 CAAAAAAGAAAAAAATAA--TTAAAACAACAACAAACAATCAATT
* * *
16111075 CAAAAAAGAAAAGAATTAATT-TAA-AACAACAAACAATCTATT
1 CAAAAAAGAAAA-AAATAATTAAAACAACAACAAACAATCAATT
*
16111117 CAAAGAAGAAAAAAATCAATTCAAAACAACAA
1 CAAAAAAGAAAAAAAT-AATT-AAAACAACAA
16111149 ATTCAGTAAC
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
41 3 0.05
42 30 0.50
43 2 0.03
44 4 0.07
45 17 0.28
46 4 0.07
ACGTcount: A:0.64, C:0.13, G:0.06, T:0.18
Consensus pattern (43 bp):
CAAAAAAGAAAAAAATAATTAAAACAACAACAAACAATCAATT
Found at i:16114857 original size:15 final size:16
Alignment explanation
Indices: 16114839--16114871 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
16114829 TATATTTTTT
16114839 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
16114854 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
16114871 T
1 T
16114872 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:16114944 original size:21 final size:22
Alignment explanation
Indices: 16114918--16114976 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
16114908 GTTTTCAGAA
*
16114918 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
16114939 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
16114961 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
16114977 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:16114991 original size:26 final size:24
Alignment explanation
Indices: 16114947--16114994 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
16114937 ATTTGTTTTA
*
16114947 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
16114971 ATATTTGATTTATTATATTTTTAA
1 ATATTTG-TTT-TTATATTTTTAA
16114995 TTTTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:16116579 original size:18 final size:18
Alignment explanation
Indices: 16116538--16116580 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
16116528 TTTGATAATA
*
16116538 ATATGTAGTTAATTTAGT
1 ATATGTTGTTAATTTAGT
* * *
16116556 AAATGTTGTTTATTTATT
1 ATATGTTGTTAATTTAGT
16116574 ATATGTT
1 ATATGTT
16116581 TGAATTAACA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (18 bp):
ATATGTTGTTAATTTAGT
Found at i:16117103 original size:23 final size:23
Alignment explanation
Indices: 16117068--16117122 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
16117058 TAGGATGGAA
* *
16117068 TTCTTATCCATCCGCGAACCCTT
1 TTCTCATCAATCCGCGAACCCTT
16117091 TTCTCATCAATCCGCGAACCCTT
1 TTCTCATCAATCCGCGAACCCTT
16117114 TTCTCATCA
1 TTCTCATCA
16117123 GACACAGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.20, C:0.38, G:0.07, T:0.35
Consensus pattern (23 bp):
TTCTCATCAATCCGCGAACCCTT
Found at i:16120809 original size:10 final size:11
Alignment explanation
Indices: 16120787--16120811 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16120777 AGACGATGGC
16120787 AAATACAAAAA
1 AAATACAAAAA
16120798 AAATACAAAAA
1 AAATACAAAAA
16120809 AAA
1 AAA
16120812 GAACAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (11 bp):
AAATACAAAAA
Found at i:16125845 original size:19 final size:19
Alignment explanation
Indices: 16125821--16125859 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
16125811 TAAAAAGCCA
16125821 ATTAAAAAAATCGACATAT
1 ATTAAAAAAATCGACATAT
*
16125840 ATTAAAAAAATTGACATAT
1 ATTAAAAAAATCGACATAT
16125859 A
1 A
16125860 CTACTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (19 bp):
ATTAAAAAAATCGACATAT
Found at i:16134258 original size:26 final size:26
Alignment explanation
Indices: 16134216--16134269 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
16134206 TATCCACTCC
*
16134216 ATCTGATGTTGCAAAATCACCAGCAT
1 ATCTGATGTTACAAAATCACCAGCAT
*
16134242 ATCTGATGTTACGAAATCACCAGCAT
1 ATCTGATGTTACAAAATCACCAGCAT
16134268 AT
1 AT
16134270 TCATCGGCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (26 bp):
ATCTGATGTTACAAAATCACCAGCAT
Found at i:16134532 original size:33 final size:33
Alignment explanation
Indices: 16134441--16134571 Score: 115
Period size: 33 Copynumber: 4.0 Consensus size: 33
16134431 CACCCTCCGC
* * * *
16134441 ATCAACTTGTACCCCTCCTACATCACCTTCCCC
1 ATCAACTTCTACCCCTTCAACATCACCTTCCCT
* * * *
16134474 AACAAATTCTACACTTTCCAA-ATCACCTTCACC-
1 ATCAACTTCTACCCCTT-CAACATCACCTTC-CCT
*
16134507 ATC-ACATTCTACCCCTTCATCATCACCTTCCCT
1 ATCAAC-TTCTACCCCTTCAACATCACCTTCCCT
* *
16134540 ATTAACTTCTACCCCTTTAACATCACCTTCCC
1 ATCAACTTCTACCCCTTCAACATCACCTTCCC
16134572 CAGTAGTAAA
Statistics
Matches: 77, Mismatches: 15, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
32 5 0.06
33 66 0.86
34 6 0.08
ACGTcount: A:0.26, C:0.43, G:0.01, T:0.31
Consensus pattern (33 bp):
ATCAACTTCTACCCCTTCAACATCACCTTCCCT
Found at i:16135378 original size:16 final size:16
Alignment explanation
Indices: 16135353--16135389 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
16135343 GAATGCTAAC
16135353 GATTTAGGGATTTCAA
1 GATTTAGGGATTTCAA
* *
16135369 GATTTGGGGATTTTAA
1 GATTTAGGGATTTCAA
16135385 GATTT
1 GATTT
16135390 CAAGGATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.27, C:0.03, G:0.27, T:0.43
Consensus pattern (16 bp):
GATTTAGGGATTTCAA
Found at i:16135441 original size:16 final size:16
Alignment explanation
Indices: 16135422--16135476 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 16
16135412 AATATTATGG
*
16135422 ATTTGGGGATTTCACA
1 ATTTGGGGATTTAACA
*
16135438 ATTTAGAGGATTTAACA
1 ATTT-GGGGATTTAACA
*
16135455 AGTTGGGGATTTTAA-A
1 ATTTGGGGA-TTTAACA
16135471 ATTTGG
1 ATTTGG
16135477 AAAAAAAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
16 14 0.44
17 18 0.56
ACGTcount: A:0.31, C:0.05, G:0.25, T:0.38
Consensus pattern (16 bp):
ATTTGGGGATTTAACA
Found at i:16139796 original size:26 final size:26
Alignment explanation
Indices: 16139761--16139823 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
16139751 GAATTGTATG
*
16139761 TTTTAGAA-TTTATAAAAATATTTTAT
1 TTTTAAAATTTTATAAAAATATTTT-T
*
16139787 TTTTAAAATTTTTTAAAAATA-TTTT
1 TTTTAAAATTTTATAAAAATATTTTT
*
16139812 TTTTACAATTTT
1 TTTTAAAATTTT
16139824 TTTACATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.36
26 10 0.30
27 11 0.33
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (26 bp):
TTTTAAAATTTTATAAAAATATTTTT
Found at i:16139826 original size:27 final size:27
Alignment explanation
Indices: 16139773--16139825 Score: 83
Period size: 25 Copynumber: 2.0 Consensus size: 27
16139763 TTAGAATTTA
16139773 TAAAAATATTTTATTTTTAAAATTTTT
1 TAAAAATATTTTATTTTTAAAATTTTT
*
16139800 TAAAAATA-TTT-TTTTTACAATTTTT
1 TAAAAATATTTTATTTTTAAAATTTTT
16139825 T
1 T
16139826 TACATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 14 0.56
26 3 0.12
27 8 0.32
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (27 bp):
TAAAAATATTTTATTTTTAAAATTTTT
Found at i:16139945 original size:21 final size:21
Alignment explanation
Indices: 16139919--16139995 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 21
16139909 CTTTTCAAAA
16139919 TTTATATTTTTTTTTCTAGAT
1 TTTATATTTTTTTTTCTAGAT
* *
16139940 TTTATATATATTTTTCT-GAAT
1 TTTATATTTTTTTTTCTAG-AT
* * * *
16139961 TTTTTATATATTTATT-TACATT
1 TTTATAT-TTTTTTTTCTAGA-T
16139983 TTTATATTTTTTT
1 TTTATATTTTTTT
16139996 AATATGTATA
Statistics
Matches: 41, Mismatches: 11, Indels: 8
0.68 0.18 0.13
Matches are distributed among these distances:
20 1 0.02
21 29 0.71
22 11 0.27
ACGTcount: A:0.23, C:0.04, G:0.03, T:0.70
Consensus pattern (21 bp):
TTTATATTTTTTTTTCTAGAT
Found at i:16140009 original size:29 final size:31
Alignment explanation
Indices: 16139942--16140012 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 31
16139932 TTCTAGATTT
* * *
16139942 TATATATATTTTTCTGAATTTTTTATATATT
1 TATATACATTTTTATGAATTTTTTATATATG
* *
16139973 TATTTACATTTTTAT-ATTTTTTTA-ATATG
1 TATATACATTTTTATGAATTTTTTATATATG
16140002 TATATACATTT
1 TATATACATTT
16140013 AATAAAAGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 14 0.41
30 8 0.24
31 12 0.35
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (31 bp):
TATATACATTTTTATGAATTTTTTATATATG
Found at i:16146860 original size:64 final size:64
Alignment explanation
Indices: 16146739--16146865 Score: 164
Period size: 64 Copynumber: 2.0 Consensus size: 64
16146729 AGAGCATCCC
* * * * * * * *
16146739 GATCGGTATTGATCCTGCATGTGTTGCAGATATATCGCAGCTCTTTGTGGGCATCCTGTTATAT
1 GATCAGTATTGATCCTGCATGTATTGCAGACATACCACAGCTCTTTATGAGCATCCTGATATAT
* *
16146803 GATCAGTATTGATCCTGCATGTATTGCGGACATACCACAGCTCTTTATGAGCGTCCTGATATA
1 GATCAGTATTGATCCTGCATGTATTGCAGACATACCACAGCTCTTTATGAGCATCCTGATATA
16146866 GGCTCTTTGA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (64 bp):
GATCAGTATTGATCCTGCATGTATTGCAGACATACCACAGCTCTTTATGAGCATCCTGATATAT
Found at i:16146879 original size:25 final size:25
Alignment explanation
Indices: 16146842--16146900 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
16146832 ACATACCACA
16146842 GCTCTTT-ATGAGCGTCCTGATATAG
1 GCTCTTTGATGAGCGTCCTGATAT-G
*
16146867 GCTCTTTGA-GAGCTTCCTGATATG
1 GCTCTTTGATGAGCGTCCTGATATG
16146891 GCTCTCTTGA
1 GCTCT-TTGA
16146901 ACTTCCGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 6 0.19
25 24 0.77
26 1 0.03
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (25 bp):
GCTCTTTGATGAGCGTCCTGATATG
Found at i:16162569 original size:3 final size:3
Alignment explanation
Indices: 16162561--16162632 Score: 64
Period size: 3 Copynumber: 25.3 Consensus size: 3
16162551 TGGGCAGTAA
* * *
16162561 AAG AAG AAG -AG AAT AAA AAG AAT AAG -AG AAG AA- ATAG -AG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A-AG AAG AAG
*
16162603 AAG AAG AAG AAG AAA AAG AA- AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
16162633 GGAGAAAAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
2 9 0.16
3 47 0.84
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.04
Consensus pattern (3 bp):
AAG
Found at i:16162579 original size:17 final size:17
Alignment explanation
Indices: 16162559--16162652 Score: 92
Period size: 17 Copynumber: 5.9 Consensus size: 17
16162549 CCTGGGCAGT
*
16162559 AAAAGAAGAAGAGAATA
1 AAAAGAAGAAGAGAAGA
*
16162576 AAAAGAATAAGAGAAGA
1 AAAAGAAGAAGAGAAGA
*
16162593 AATAG-AG-A-AGAAGA
1 AAAAGAAGAAGAGAAGA
*
16162607 AGAAGAAGAA-A-AAG-
1 AAAAGAAGAAGAGAAGA
*
16162621 AAAAGAAGAAGAGGAGA
1 AAAAGAAGAAGAGAAGA
*
16162638 AAAAGAATAAGAGAA
1 AAAAGAAGAAGAGAA
16162653 AATGGAAGGG
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
14 18 0.29
15 7 0.11
16 5 0.08
17 32 0.52
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (17 bp):
AAAAGAAGAAGAGAAGA
Found at i:16164418 original size:17 final size:19
Alignment explanation
Indices: 16164392--16164429 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
16164382 TTCGATTATG
*
16164392 TTAAATTTAAATTATT-TT
1 TTAAATTTAAAATATTCTT
16164410 TTAAA-TTAAAATATTCTT
1 TTAAATTTAAAATATTCTT
16164428 TT
1 TT
16164430 TCATTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAAATTTAAAATATTCTT
Found at i:16180944 original size:46 final size:46
Alignment explanation
Indices: 16180892--16181066 Score: 316
Period size: 46 Copynumber: 3.8 Consensus size: 46
16180882 GAGTGTGCTC
16180892 CCTGATA-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
16180938 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*
16180984 CCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*
16181030 CCTGATATGAAACGTGTAAGACCATGGTTGAAAGATA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATA
16181067 ACGGGGAAAT
Statistics
Matches: 127, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
46 126 0.99
47 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
Found at i:16191825 original size:40 final size:40
Alignment explanation
Indices: 16191789--16192018 Score: 347
Period size: 40 Copynumber: 5.8 Consensus size: 40
16191779 GGATATAGCT
*
16191789 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
**
16191829 GTTCGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
*
16191869 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
16191909 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
16191949 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
16191989 ACTAGCACAAATGCCTTCGGGACATAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
16192019 CGTTATCATC
Statistics
Matches: 179, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 177 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:16191915 original size:80 final size:78
Alignment explanation
Indices: 16191763--16192018 Score: 345
Period size: 80 Copynumber: 3.2 Consensus size: 78
16191753 AAACCAAGTA
* * * *
16191763 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGAAT-TAG
**
16191827 TAGTTCGCACAAATG
64 TAACTCGCACAAATG
16191842 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTAG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCC-GAATTAG
16191907 TAACTCGCACAAATG
64 TAACTCGCACAAATG
*
16191922 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCC-GAATTA
* *
16191986 GTCACTAGCACAAATG
63 GTAACTCGCACAAATG
*
16192002 CCTTCGGGACATAGCCC
1 CCTTCGGGACTTAGCCC
16192019 CGTTATCATC
Statistics
Matches: 161, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
79 14 0.09
80 144 0.89
81 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGAATTAGTA
ACTCGCACAAATG
Found at i:16199916 original size:40 final size:39
Alignment explanation
Indices: 16199839--16200094 Score: 313
Period size: 40 Copynumber: 6.4 Consensus size: 39
16199829 AAACCAAGTA
* * *
16199839 CCTTCGGGATTTA-ACCGG-ATATAGCTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGAAT-TAG-TACTCGCACAAATG
* *
16199878 CCTTCGGGACTTAGCCCAG-ATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAT-TAGTA-CTCGCACAAATG
16199918 CCTTCGGGACTTAGCCCGG-ATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAAT-TAGT-ACTCGCACAAATG
*
16199958 CCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATT
1 CCTTCGGGACTTAGCCCGGAATTAGT-ACTCGCACAAATG
*
16199998 CCTTCGGGACTTAGCCCGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGAATTAGT-ACTCGCACAAATG
* *
16200038 CCTTTGGGACTTAGCCCGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGAATTAGT-ACTCGCACAAATG
*
16200078 CCTTCGGGACATAGCCC
1 CCTTCGGGACTTAGCCC
16200095 CGTTATCATC
Statistics
Matches: 199, Mismatches: 14, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
39 14 0.07
40 182 0.91
41 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGAATTAGTACTCGCACAAATG
Found at i:16201365 original size:44 final size:44
Alignment explanation
Indices: 16201302--16201390 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
16201292 CTCCAAGCTC
16201302 TTTCCCTTCCTTTTCTTTCTTCTATTCGGCCAAGTTGAACAACA
1 TTTCCCTTCCTTTTCTTTCTTCTATTCGGCCAAGTTGAACAACA
*
16201346 TTTCCCTTCTTTTTCTTTCTTCTATTCGGCCAAGTTGAACAACA
1 TTTCCCTTCCTTTTCTTTCTTCTATTCGGCCAAGTTGAACAACA
16201390 T
1 T
16201391 GAGAACTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.18, C:0.28, G:0.09, T:0.45
Consensus pattern (44 bp):
TTTCCCTTCCTTTTCTTTCTTCTATTCGGCCAAGTTGAACAACA
Found at i:16209294 original size:12 final size:13
Alignment explanation
Indices: 16209258--16209295 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
16209248 AAATATTTGA
16209258 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
16209271 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
16209285 CTTG-TCTTAAT
1 CTTGTTCTTAAT
16209296 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:16210601 original size:18 final size:17
Alignment explanation
Indices: 16210580--16210647 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 17
16210570 TGTTCCTCAT
16210580 CTGCATCTTCTTCCACGA
1 CTGCATCTTCTTCCAC-A
*
16210598 CTGCATCTTACTTCTTAC-
1 CTGCATCTT-CTTC-CACA
*
16210616 CTGCATCTTCTTCCTCA
1 CTGCATCTTCTTCCACA
*
16210633 GCCGCATCTTCTTCC
1 -CTGCATCTTCTTCC
16210648 TCACATACGC
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
16 1 0.02
17 4 0.10
18 31 0.74
19 4 0.10
20 2 0.05
ACGTcount: A:0.13, C:0.40, G:0.09, T:0.38
Consensus pattern (17 bp):
CTGCATCTTCTTCCACA
Found at i:16214301 original size:45 final size:46
Alignment explanation
Indices: 16214240--16214330 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
16214230 AGAAATAATT
16214240 CTCACTATCAAC-TTTTTCCTGTTACAAAGTTCACTATCACTATCA
1 CTCACTATCAACTTTTTTCCTGTTACAAAGTTCACTATCACTATCA
16214285 CTCACTATCAACTTTTTTCCTGTTACAAAGTTCACTATCACTATCA
1 CTCACTATCAACTTTTTTCCTGTTACAAAGTTCACTATCACTATCA
16214331 TTATCACCCA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 12 0.27
46 33 0.73
ACGTcount: A:0.29, C:0.29, G:0.04, T:0.38
Consensus pattern (46 bp):
CTCACTATCAACTTTTTTCCTGTTACAAAGTTCACTATCACTATCA
Found at i:16215704 original size:22 final size:22
Alignment explanation
Indices: 16215676--16215761 Score: 111
Period size: 22 Copynumber: 3.9 Consensus size: 22
16215666 ATTTTGTATC
16215676 ATAATATATCAGAGCATATCAT
1 ATAATATATCAGAGCATATCAT
* **
16215698 ATAATATATCGGAGCATATTGT
1 ATAATATATCAGAGCATATCAT
*
16215720 ATAACATATC-GAAGCATATCAT
1 ATAATATATCAG-AGCATATCAT
*
16215742 ATAAAATATCAGAGCATATC
1 ATAATATATCAGAGCATATC
16215762 CTACCCCATT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
21 1 0.02
22 53 0.96
23 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (22 bp):
ATAATATATCAGAGCATATCAT
Found at i:16218037 original size:19 final size:23
Alignment explanation
Indices: 16217989--16218043 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
16217979 ATTAAGGCTC
*
16217989 CACACGCCCATGTGGGTATAGGG
1 CACACGCCCATGTGGCTATAGGG
16218012 CACACGCCCATGT-GCT-T-GGG
1 CACACGCCCATGTGGCTATAGGG
16218032 -ACACGCCCATGT
1 CACACGCCCATGT
16218044 CCTGCACCCG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 12 0.39
20 3 0.10
21 1 0.03
22 2 0.06
23 13 0.42
ACGTcount: A:0.20, C:0.33, G:0.29, T:0.18
Consensus pattern (23 bp):
CACACGCCCATGTGGCTATAGGG
Found at i:16222915 original size:28 final size:28
Alignment explanation
Indices: 16222883--16222952 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
16222873 TATGGTACTC
*
16222883 AGTGTACGAAATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
* *
16222911 AGTGTGTGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
16222939 AGTGTGCAAAATAT
1 AGTGTGCGAAATAT
16222953 CGAATGATTC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:16224827 original size:22 final size:23
Alignment explanation
Indices: 16224801--16224845 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
16224791 ACCTGATCAG
16224801 AATACGACACAT-AAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
16224823 AATACGACACATAAAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
16224846 TCAATAAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (23 bp):
AATACGACACATAAAGTGCCTGA
Found at i:16225106 original size:28 final size:26
Alignment explanation
Indices: 16225039--16225150 Score: 119
Period size: 23 Copynumber: 4.3 Consensus size: 26
16225029 ATGTCCAACT
16225039 AAAACACACCAG---TATAATCCTCC
1 AAAACACACCAGATATATAATCCTCC
16225062 AAAACACACCAG---TATAATCCTCC
1 AAAACACACCAGATATATAATCCTCC
*
16225085 AAAACACACTAGTATCATATAATCCTCC
1 AAAACACACCAG-AT-ATATAATCCTCC
*
16225113 CAAACACACCAGAATGATATAATCCATCC
1 AAAACACACCAG-AT-ATATAATCC-TCC
16225142 AAAACACAC
1 AAAACACAC
16225151 TAGAATAGCA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
23 34 0.44
28 32 0.42
29 11 0.14
ACGTcount: A:0.46, C:0.32, G:0.04, T:0.18
Consensus pattern (26 bp):
AAAACACACCAGATATATAATCCTCC
Found at i:16225118 original size:51 final size:55
Alignment explanation
Indices: 16225051--16225153 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 55
16225041 AACACACCAG
16225051 TATAATCCTCCAAAACACACC-A-G-TATAATCC-TCCAAAACACACTAGTATCA
1 TATAATCCTCCAAAACACACCAATGATATAATCCATCCAAAACACACTAGTATCA
*
16225102 TATAATCCTCCCAAACACACCAGAATGATATAATCCATCCAAAACACACTAG
1 TATAATCCTCCAAAACACACC--AATGATATAATCCATCCAAAACACACTAG
16225154 AATAGCACAA
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
51 20 0.44
54 1 0.02
55 1 0.02
56 8 0.18
57 15 0.33
ACGTcount: A:0.44, C:0.31, G:0.05, T:0.20
Consensus pattern (55 bp):
TATAATCCTCCAAAACACACCAATGATATAATCCATCCAAAACACACTAGTATCA
Found at i:16225156 original size:29 final size:28
Alignment explanation
Indices: 16225051--16225156 Score: 123
Period size: 28 Copynumber: 3.9 Consensus size: 28
16225041 AACACACCAG
*
16225051 TATAATCCTCCAAAACACACCAG-----
1 TATAATCCTCCAAAACACACTAGAATCA
*
16225074 TATAATCCTCCAAAACACACTAGTATCA
1 TATAATCCTCCAAAACACACTAGAATCA
* * *
16225102 TATAATCCTCCCAAACACACCAGAATGA
1 TATAATCCTCCAAAACACACTAGAATCA
16225130 TATAATCCATCCAAAACACACTAGAAT
1 TATAATCC-TCCAAAACACACTAGAAT
16225157 AGCACAAAGT
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
23 22 0.31
28 32 0.46
29 16 0.23
ACGTcount: A:0.44, C:0.30, G:0.05, T:0.21
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACTAGAATCA
Found at i:16229120 original size:47 final size:46
Alignment explanation
Indices: 16228920--16229237 Score: 272
Period size: 47 Copynumber: 6.7 Consensus size: 46
16228910 GATAAGTTGT
* *
16228920 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTA-TCACTGTCGAGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCA-TCTCGAGGC
* * * * * *
16228969 CGATGCCATGTCCTAGACATGGTCTTATACTAGCTCTCGTATATACG-TGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTC--ATCT-CGAGGC
* * * * *
16229019 TGATGCATGTCCCAAACATGTCTTACACTAGCA--CAACTCTTA-GC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTC-GAGGC
* *
16229063 CGATGCATGTCCCAGACATATCTTACACTGGCTA-TCATCGTCGAGGT
1 CGATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATC-TCGAGGC
* * *
16229110 AGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCGAGGC
* *
16229156 CGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCAT-CTCGAGGC
16229204 CGATGCATGTCCCAGACATGTCTTACACTGGCAC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCAC
16229238 ACAAGAAATC
Statistics
Matches: 223, Mismatches: 32, Indels: 31
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.00
44 32 0.14
45 1 0.00
46 29 0.13
47 66 0.30
48 38 0.17
49 45 0.20
50 8 0.04
51 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCGAGGC
Found at i:16229206 original size:141 final size:140
Alignment explanation
Indices: 16228920--16229235 Score: 363
Period size: 141 Copynumber: 2.2 Consensus size: 140
16228910 GATAAGTTGT
* * *
16228920 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCACTGTCGAGGCCGATGCCATGTCCTAG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCACTGTCGAGGCAGATGCCATGTCCCAG
* * * *
16228985 ACATGGTCTTATACTAGCTCTCGTATATACGTGCTGATGCATGTCCCAAACATGTCTTACACTAG
64 ACATGGTCTTACACTAGCACTCATATATAC-TGCCGATGCATGTCCCAAACATGTCTTACACTAG
* *
16229050 CACAACTCTTAGC
128 CACAAATCGTAGC
* *
16229063 CGATGCATGTCCCAGACATATCTTACACTGGCTATCA-TCGTCGAGGTAGATG-CATGTCCCAGA
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATCACT-GTCGAGGCAGATGCCATGTCCCAGA
* * * * *
16229126 CAT-GTCTTACACTGGCACTCATCTCTA-TGCCGATGCCATGTCCCAGACATGGTCTTACACTGG
65 CATGGTCTTACACTAGCACTCATATATACTGCCGATG-CATGTCCCAAACAT-GTCTTACACTAG
*
16229189 CACTCATAAT-GTGGC
128 CA--CA-AATCGTAGC
16229204 CGATGCATGTCCCAGACATGTCTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
16229236 ACACAAGAAA
Statistics
Matches: 149, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
137 7 0.05
138 13 0.09
139 31 0.21
140 14 0.09
141 64 0.43
142 15 0.10
143 5 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (140 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTATCACTGTCGAGGCAGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCACTCATATATACTGCCGATGCATGTCCCAAACATGTCTTACACTAGCAC
AAATCGTAGC
Found at i:16229237 original size:94 final size:93
Alignment explanation
Indices: 16228920--16229236 Score: 322
Period size: 94 Copynumber: 3.4 Consensus size: 93
16228910 GATAAGTTGT
* * * *
16228920 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCACTGTCGAGGCCGATGCCATGTCCTAG
1 CGATG-CATGTCCCAAACAT-GTCTTACACTGGC-ATCA-TCTCTATGCCGATGCCATGTCCCAG
* * * *
16228985 ACATGGTCTTATACTAGCTCTCGTATATACGT-GC
62 ACATGGTCTTACACTGGCACTC--ATA-ATGTGGC
* * *
16229019 TGATGCATGTCCCAAACATGTCTTACACTAGCA-CAACTCT-TAGCCGATG-CATGTCCCAGACA
1 CGATGCATGTCCCAAACATGTCTTACACTGGCATCATCTCTAT-GCCGATGCCATGTCCCAGACA
* ** * *
16229081 T-ATCTTACACTGGCTA-TCATCGTCGAGGT
65 TGGTCTTACACTGGC-ACTCATAAT-GTGGC
* *
16229110 AGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTATGCCGATGCCATGTCCCAGACA
1 CGATGCATGTCCCAAACATGTCTTACACTGGCA-TCATCTCTATGCCGATGCCATGTCCCAGACA
16229175 TGGTCTTACACTGGCACTCATAATGTGGC
65 TGGTCTTACACTGGCACTCATAATGTGGC
*
16229204 CGATGCATGTCCCAGACATGTCTTACACTGGCA
1 CGATGCATGTCCCAAACATGTCTTACACTGGCA
16229237 CACAAGAAAT
Statistics
Matches: 182, Mismatches: 26, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
90 3 0.02
91 31 0.17
92 12 0.07
93 26 0.14
94 60 0.33
95 19 0.10
96 1 0.01
97 12 0.07
98 14 0.08
99 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (93 bp):
CGATGCATGTCCCAAACATGTCTTACACTGGCATCATCTCTATGCCGATGCCATGTCCCAGACAT
GGTCTTACACTGGCACTCATAATGTGGC
Found at i:16241336 original size:37 final size:37
Alignment explanation
Indices: 16241291--16241371 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
16241281 GTGAGCTGTG
* *
16241291 TGGA-GTTGCGATATTCAATCAGCT-AACTCAAATAAT
1 TGGAGGTTGCGATATTAAATCAG-TGAACCCAAATAAT
* *
16241327 TGGAGGTTGCGATCTTAAATCAGTGAGCCCAAATAAT
1 TGGAGGTTGCGATATTAAATCAGTGAACCCAAATAAT
*
16241364 TAGAGGTT
1 TGGAGGTT
16241372 ACGAGCTCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
36 5 0.13
37 33 0.87
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (37 bp):
TGGAGGTTGCGATATTAAATCAGTGAACCCAAATAAT
Found at i:16241680 original size:69 final size:70
Alignment explanation
Indices: 16241414--16241712 Score: 282
Period size: 69 Copynumber: 4.3 Consensus size: 70
16241404 GCTAGGAACG
* * * * *
16241414 TAGGTCTGCGAGCTATTTCAGAGGCTACGATCTTAAATCAATGAGCATTTACAATATCAACT-AG
1 TAGGTCCGCGAGCTATTTTAGAGGCTACAATCTTAAATCAACGAGCCTTTACAATATCAACTGAG
*
16241478 GAGCG
66 GAGCA
** * *** * * *
16241483 TAGGTTAGCGAGCTATTTTCGAGGCTGTTACCTTATATCAACAAGCCTTTACAATATCAACTG-G
1 TAGGTCCGCGAGCTATTTTAGAGGCTACAATCTTAAATCAACGAGCCTTTACAATATCAACTGAG
* **
16241547 AAGTG
66 GAGCA
* * * * *
16241552 TAGGTCCACGAGCTATTTTGGAGGTTGCAATCTTAAATCAACGAGCCTTTACAATATCAGCTGA-
1 TAGGTCCGCGAGCTATTTTAGAGGCTACAATCTTAAATCAACGAGCCTTTACAATATCAACTGAG
16241616 GAGCA
66 GAGCA
* * * * * *
16241621 TAGGTCCGCGAGCTATTTTTGAAGCTATAATCTTAAATCAGCGAGCCTTTACAATATC-AGTCAG
1 TAGGTCCGCGAGCTATTTTAGAGGCTACAATCTTAAATCAACGAGCCTTTACAATATCAACTGAG
16241685 GAGCA
66 GAGCA
* * *
16241690 TAGGTCTGTGAGCTGTTTTAGAG
1 TAGGTCCGCGAGCTATTTTAGAG
16241713 TTGCGACACC
Statistics
Matches: 184, Mismatches: 43, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
68 2 0.01
69 182 0.99
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (70 bp):
TAGGTCCGCGAGCTATTTTAGAGGCTACAATCTTAAATCAACGAGCCTTTACAATATCAACTGAG
GAGCA
Found at i:16241703 original size:138 final size:138
Alignment explanation
Indices: 16241414--16241716 Score: 324
Period size: 138 Copynumber: 2.2 Consensus size: 138
16241404 GCTAGGAACG
* * * * *
16241414 TAGGTCTGCGAGCTATTTCAGAGGCTACGATCTTAAATCAATGAGCATTTACAATATCAACTAGG
1 TAGGTCTGCGAGCTATTTTAGAGGTTGCAATCTTAAATCAACGAGCATTTACAATATCAACTAGG
* * * * * *
16241479 AGCGTAGGTTAGCGAGCTATTTTCGAGGCTGTTACCTTATATCAACAAGCCTTTACAATATCAAC
66 AGCATAGGTCAGCGAGCTATTTTCGAAGCTATAACCTTAAATCAACAAGCCTTTACAATATCAAC
* **
16241544 TGGAAGTG
131 AGGAAGCA
** * * *
16241552 TAGGTCCACGAGCTATTTTGGAGGTTGCAATCTTAAATCAACGAGCCTTTACAATATCAGCT-GA
1 TAGGTCTGCGAGCTATTTTAGAGGTTGCAATCTTAAATCAACGAGCATTTACAATATCAACTAG-
* * * * *
16241616 GAGCATAGGTCCGCGAGCTATTTTTGAAGCTATAATCTTAAATCAGCGAGCCTTTACAATATCAG
65 GAGCATAGGTCAGCGAGCTATTTTCGAAGCTATAACCTTAAATCAACAAGCCTTTACAATATCA-
*
16241681 TCAGG-AGCA
129 ACAGGAAGCA
* *
16241690 TAGGTCTGTGAGCTGTTTTAGA-GTTGC
1 TAGGTCTGCGAGCTATTTTAGAGGTTGC
16241717 GACACCAATT
Statistics
Matches: 133, Mismatches: 30, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
137 6 0.05
138 124 0.93
139 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (138 bp):
TAGGTCTGCGAGCTATTTTAGAGGTTGCAATCTTAAATCAACGAGCATTTACAATATCAACTAGG
AGCATAGGTCAGCGAGCTATTTTCGAAGCTATAACCTTAAATCAACAAGCCTTTACAATATCAAC
AGGAAGCA
Found at i:16244325 original size:22 final size:22
Alignment explanation
Indices: 16244300--16244341 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
16244290 TGGTAAGCCA
*
16244300 TGTGAATGATGAGGCCAGGCTG
1 TGTGAACGATGAGGCCAGGCTG
16244322 TGTGAACGATGAGGCCAGGC
1 TGTGAACGATGAGGCCAGGC
16244342 CGTGCGCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.17, G:0.40, T:0.19
Consensus pattern (22 bp):
TGTGAACGATGAGGCCAGGCTG
Found at i:16252542 original size:3 final size:3
Alignment explanation
Indices: 16252534--16252638 Score: 133
Period size: 3 Copynumber: 35.7 Consensus size: 3
16252524 TTAACAGTAA
* * * * *
16252534 AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG -AG GAG GAG GAG GAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* *
16252581 GAG AAT AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16252629 AAG -AG AAG AA
1 AAG AAG AAG AA
16252639 ATAGAGATGC
Statistics
Matches: 95, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
2 4 0.04
3 91 0.96
ACGTcount: A:0.63, C:0.00, G:0.36, T:0.01
Consensus pattern (3 bp):
AAG
Found at i:16254020 original size:21 final size:21
Alignment explanation
Indices: 16253994--16254046 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 21
16253984 TAGAATATTT
16253994 TTTATTTTTATAAATTATAAA
1 TTTATTTTTATAAATTATAAA
*
16254015 TTTATTTTTTTATAAATTTTAAA
1 TTTA--TTTTTATAAATTATAAA
16254038 --TATTTTTAT
1 TTTATTTTTAT
16254047 GATATTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 7 0.24
21 6 0.21
23 16 0.55
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTATTTTTATAAATTATAAA
Found at i:16264360 original size:9 final size:9
Alignment explanation
Indices: 16264346--16264391 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
16264336 TATAGTTTGA
16264346 TATTCGAAT
1 TATTCGAAT
16264355 TATTCGAAT
1 TATTCGAAT
16264364 TATTCGAAT
1 TATTCGAAT
*
16264373 TATTCGAGT
1 TATTCGAAT
16264382 TATTCGAAT
1 TATTCGAAT
16264391 T
1 T
16264392 CGAAAACTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:16265975 original size:14 final size:14
Alignment explanation
Indices: 16265956--16265986 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
16265946 TTGCATACTG
16265956 ACTTAGTTTCACAA
1 ACTTAGTTTCACAA
16265970 ACTTAGTTTCACAA
1 ACTTAGTTTCACAA
16265984 ACT
1 ACT
16265987 CTCTTTCGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (14 bp):
ACTTAGTTTCACAA
Found at i:16267025 original size:20 final size:20
Alignment explanation
Indices: 16266988--16267025 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16266978 GAGCCAATGC
*
16266988 ACACGCCCGTGTGCTTTAGG
1 ACACGCCCGTGTACTTTAGG
*
16267008 ACACGCCCGTGTATTTTA
1 ACACGCCCGTGTACTTTA
16267026 CCCTGTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.29, G:0.24, T:0.29
Consensus pattern (20 bp):
ACACGCCCGTGTACTTTAGG
Found at i:16268645 original size:17 final size:17
Alignment explanation
Indices: 16268623--16268659 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
16268613 AATTCATGAG
16268623 TTATTATACAATAATTA
1 TTATTATACAATAATTA
16268640 TTATTATACAATAATTA
1 TTATTATACAATAATTA
16268657 TTA
1 TTA
16268660 CTATTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (17 bp):
TTATTATACAATAATTA
Done.