Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 59 of 170
Found at i:17169239 original size:4 final size:4
Alignment explanation
Indices: 17169230--17169263 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
17169220 TTATTGTGAT
* *
17169230 AATA AATA AATA AATA ATTA ATTA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
17169264 AACAATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:17171141 original size:13 final size:12
Alignment explanation
Indices: 17171123--17171164 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
17171113 CTGCATTTTA
17171123 TTTTTATATCAAT
1 TTTTTATAT-AAT
17171136 TTTTTATA-AAT
1 TTTTTATATAAT
*
17171147 TTTTTAAATAAAT
1 TTTTTATAT-AAT
17171160 TTTTT
1 TTTTT
17171165 CACTTTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 10 0.38
13 16 0.62
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTTTATATAAT
Found at i:17171147 original size:11 final size:11
Alignment explanation
Indices: 17171122--17171164 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
17171112 CCTGCATTTT
*
17171122 ATTTTTATATCA
1 ATTTTT-TATAA
17171134 ATTTTTTATAA
1 ATTTTTTATAA
17171145 ATTTTTTAAATAA
1 ATTTTTT--ATAA
17171158 ATTTTTT
1 ATTTTTT
17171165 CACTTTATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 11 0.39
12 6 0.21
13 11 0.39
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (11 bp):
ATTTTTTATAA
Found at i:17178499 original size:19 final size:21
Alignment explanation
Indices: 17178460--17178499 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
17178450 TCGATGCCTC
17178460 AGAGAGAAGGATGAAAGCAAGA
1 AGAGAGAAGGATG-AAGCAAGA
17178482 AGAGAGAA-GATG-AGCAAG
1 AGAGAGAAGGATGAAGCAAG
17178500 CACTTGTGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.53, C:0.05, G:0.38, T:0.05
Consensus pattern (21 bp):
AGAGAGAAGGATGAAGCAAGA
Found at i:17179742 original size:6 final size:6
Alignment explanation
Indices: 17179731--17179757 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
17179721 TATTATAGAA
17179731 TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTT
17179758 TTGTATGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:17181903 original size:22 final size:21
Alignment explanation
Indices: 17181861--17181905 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
17181851 AAGTTTGAGT
*
17181861 GAGAAATTAAGAGGGAATTGA
1 GAGAAATTAAGAGAGAATTGA
* *
17181882 GAGAAATTTGAGAGAGATTTGA
1 GAGAAA-TTAAGAGAGAATTGA
17181904 GA
1 GA
17181906 TTGTGAGAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.22
Consensus pattern (21 bp):
GAGAAATTAAGAGAGAATTGA
Found at i:17181914 original size:19 final size:19
Alignment explanation
Indices: 17181890--17181927 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
17181880 GAGAGAAATT
*
17181890 TGAGAGAGATTTGAGATTG
1 TGAGAGAGAGTTGAGATTG
17181909 TGAGAGAGAGTTGAGATTG
1 TGAGAGAGAGTTGAGATTG
17181928 AATTGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.39, T:0.29
Consensus pattern (19 bp):
TGAGAGAGAGTTGAGATTG
Found at i:17182157 original size:41 final size:41
Alignment explanation
Indices: 17182100--17182209 Score: 136
Period size: 41 Copynumber: 2.7 Consensus size: 41
17182090 CTTATGTGGC
* * **
17182100 AAAAGTGCTTCCAGCTAGAAG-TGTTTTCCTGCAAA-TATGCT
1 AAAAATGCTTCTAGCTAGAAGCACTTTT-CTGCAAATTA-GCT
17182141 AAAAATGCTTCTAGCTAGAAGCACTTTTCTGCAAATTAGCT
1 AAAAATGCTTCTAGCTAGAAGCACTTTTCTGCAAATTAGCT
*
17182182 GAAAATGCTTCTAGCTAGAAGCA-TTTTC
1 AAAAATGCTTCTAGCTAGAAGCACTTTTC
17182210 GTAAAATCGG
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
40 5 0.08
41 51 0.82
42 6 0.10
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (41 bp):
AAAAATGCTTCTAGCTAGAAGCACTTTTCTGCAAATTAGCT
Found at i:17183396 original size:9 final size:9
Alignment explanation
Indices: 17183376--17183442 Score: 73
Period size: 9 Copynumber: 7.4 Consensus size: 9
17183366 TTTGGTTAAA
*
17183376 AATTCACCG
1 AATTAACCG
*
17183385 AATTAACTG
1 AATTAACCG
*
17183394 AATTAACCA
1 AATTAACCG
*
17183403 AATTATCCG
1 AATTAACCG
17183412 AATTAACCG
1 AATTAACCG
17183421 AATT-ACCTG
1 AATTAACC-G
*
17183430 AATTAACCA
1 AATTAACCG
17183439 AATT
1 AATT
17183443 GAATCACTAC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 3 0.06
9 42 0.88
10 3 0.06
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:17185046 original size:8 final size:8
Alignment explanation
Indices: 17185033--17185078 Score: 92
Period size: 8 Copynumber: 5.8 Consensus size: 8
17185023 ATTTTGAAGA
17185033 AAAAATTG
1 AAAAATTG
17185041 AAAAATTG
1 AAAAATTG
17185049 AAAAATTG
1 AAAAATTG
17185057 AAAAATTG
1 AAAAATTG
17185065 AAAAATTG
1 AAAAATTG
17185073 AAAAAT
1 AAAAAT
17185079 AAAAATTATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 38 1.00
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.24
Consensus pattern (8 bp):
AAAAATTG
Found at i:17185091 original size:14 final size:14
Alignment explanation
Indices: 17185033--17185085 Score: 70
Period size: 16 Copynumber: 3.5 Consensus size: 14
17185023 ATTTTGAAGA
17185033 AAAAATTGAAAAATT
1 AAAAATTGAAAAA-T
17185048 GAAAAATTGAAAAATT
1 -AAAAATTGAAAAA-T
17185064 GAAAAATTGAAAAAT
1 -AAAAATTGAAAAAT
17185079 AAAAATT
1 AAAAATT
17185086 ATAAAAATTC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.19
15 1 0.03
16 29 0.78
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (14 bp):
AAAAATTGAAAAAT
Found at i:17196186 original size:15 final size:16
Alignment explanation
Indices: 17196166--17196195 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17196156 TCTAACAAAG
17196166 TAAAAT-AAATAAAAA
1 TAAAATAAAATAAAAA
17196181 TAAAATAAAATAAAA
1 TAAAATAAAATAAAA
17196196 GTTCCAATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
TAAAATAAAATAAAAA
Found at i:17196830 original size:106 final size:106
Alignment explanation
Indices: 17196645--17196856 Score: 397
Period size: 106 Copynumber: 2.0 Consensus size: 106
17196635 TACCCTCAGC
* *
17196645 TACCTTAGATGATTAAACATGCACTGATTAAGTATCGTATCAATTAATTACAATTTCAATCCGTT
1 TACCTTAGATGATTAAACAGGCACTGATTAAGTATCCTATCAATTAATTACAATTTCAATCCGTT
17196710 TAAATAATTAATTCATTAGTTACCTTACAATTGTAATGCAA
66 TAAATAATTAATTCATTAGTTACCTTACAATTGTAATGCAA
*
17196751 TACCTTAGATGATTAAACAGGCACTGATTAAGTATCCTGTCAATTAATTACAATTTCAATCCGTT
1 TACCTTAGATGATTAAACAGGCACTGATTAAGTATCCTATCAATTAATTACAATTTCAATCCGTT
17196816 TAAATAATTAATTCATTAGTTACCTTACAATTGTAATGCAA
66 TAAATAATTAATTCATTAGTTACCTTACAATTGTAATGCAA
17196857 GAATAATTTA
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 103 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (106 bp):
TACCTTAGATGATTAAACAGGCACTGATTAAGTATCCTATCAATTAATTACAATTTCAATCCGTT
TAAATAATTAATTCATTAGTTACCTTACAATTGTAATGCAA
Found at i:17202885 original size:52 final size:51
Alignment explanation
Indices: 17202801--17202939 Score: 189
Period size: 52 Copynumber: 2.7 Consensus size: 51
17202791 TCAGATACGG
* *
17202801 AAATAGAATTTAATTA--TTATTTAAAAGAGTTTTAGATAAATAG-TAATT
1 AAATAGAATTTAATTATTTTATTTAAAAGAGTTTTAAATAAAAAGATAATT
17202849 AGAATAGAATTTAATTATTGTTATTTAAAAGAGTTTTAAATAAAAAGATAATT
1 A-AATAGAATTTAATTATT-TTATTTAAAAGAGTTTTAAATAAAAAGATAATT
17202902 AAATAGAATTTAA--ATTATTATTTAAAAGAGGTTTTAAA
1 AAATAGAATTTAATTATT-TTATTTAAAAGA-GTTTTAAA
17202940 ATTCAAGATA
Statistics
Matches: 82, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
48 1 0.01
49 15 0.18
50 15 0.18
51 8 0.10
52 37 0.45
53 6 0.07
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (51 bp):
AAATAGAATTTAATTATTTTATTTAAAAGAGTTTTAAATAAAAAGATAATT
Found at i:17208127 original size:664 final size:661
Alignment explanation
Indices: 17206859--17208194 Score: 1802
Period size: 664 Copynumber: 2.0 Consensus size: 661
17206849 TAATTTCATC
* *
17206859 GTATTTATTAATAATTCTTTCAAAAATCGTAGGCAATTAAGAAGGCAAATTTTGAAACACTTGAC
1 GTATTTATTAATAATTCTTTCAAAAATCGTAGGCAATTAAGAAGGCAAATTATGAAACACTTAAC
* * * *
17206924 ACGTGTAGTGTTAAATTATACTATGTAAGTTAAGTTATATACATGTGAGAAATGAGTTCTGATGG
66 AC--GTA-TGTTAAATTACACTATGTAAGTAAAGTTATATACATGTGAGAAATGAGTTCTAAGGG
** *
17206989 GGTTCTTCTTTCTTCTTCCCCTTCCTTAAGTGGTATTTACTAAAATCTTCCTTAAGTCTAAATGT
128 GGTTCTTCTTTCTTCTTCCCCTTCCTTAAGTGGTATTTACTAAAATCTTCCTTAACCCGAAATGT
* * * **
17207054 ATCCTACATCAATGATCTAGAGGCCATGGTTCTTTTATGATTAGTAGTTACTTTACACCAGGCTA
193 ATCCTACATCAATGAGCTAGAGGCAATGGTTCTTTTATGATCAGTAGTTACTTTACACCAGAATA
*** * * * * *
17207119 AGTATTTTGGCTTTGCATGTTAAATACTGAATAAGCAAATCTATATTTGGTAATTTGACAGTGAG
258 AGTATTTCAACTCTGCATATTAAATACTGAATAAGCAAATCTATATTTCGTAATTGGACAGTAAG
* * * ** * * *
17207184 ATTGTAAGTATAGGGTTTTTGAGGATTGTCAATGTTTGAAATGATAAGTAATTTGTATGTACAAA
323 ACTGTAACTATAAGGTTTTACAGGATTGTCAAGGATTGAAATGATAAGTAATCTGTATGTACAAA
* *
17207249 TTATTAATGGTGAAATTATGTTTCTAAGCAGTTGTTGCTACTGATTCATGATGATATCTGGATCT
388 GTATTAATGGTGAAATTATGTTTCTAAGCAGTGGTTGCTACTGATTCATGATGATATCTGGATCT
* * * * ** *
17207314 GGAGTTTTGAATTGTAGTAGGTGAGAATCAGGTGAATTCCTATGCTGACTCATGCAAGTATATTG
453 AGAGCTTTAAACTACAGTAGGCGAGAATCAGGTGAATTCCTATGCTGACTCATGCAAGTATATTG
* * * *
17207379 TTTATACTGAAGCACATCTGTAGGAAAATTGATTAAACTATGAATCAGAAACCATGAAAAGTATA
518 TTTATACCGAAGCACATCTATAAGAAAATTGATCAAACTATGAATCAGAAACCATGAAAAGTATA
* *
17207444 GTATGAAAATGATATGTATGTGACTACATGAATGATTTCTAAAGAAAATTTATGAGCGTATGAAT
583 GTATGAAAATAATATGTATGTGACTACATGAATGATTTCTAAAGAAAATCTATGAGCGTATGAAT
17207509 GTTTGTTGAGGATA
648 GTTTGTTGAGGATA
** * *
17207523 GTATTTATTAATAATTCTTTTGAAAA-CTGTAGGCCATTAAGAAGGCAAGTTATGAAACACTTAA
1 GTATTTATTAATAATTCTTTCAAAAATC-GTAGGCAATTAAGAAGGCAAATTATGAAACACTTAA
** *
17207587 CAC-T-TGTTAAATTACACTATGTAAGTAAAGTTATATATGTGTGAGAGATGAGTTCTAAGGGGG
65 CACGTATGTTAAATTACACTATGTAAGTAAAGTTATATACATGTGAGAAATGAGTTCTAAGGGGG
* * * *
17207650 TTCTTCTTTCTTTTTCCTCTTCCTTAAGTGGTATTTACTGAAATCTTCCTTAACCCGGAATGTAT
130 TTCTTCTTTCTTCTTCCCCTTCCTTAAGTGGTATTTACTAAAATCTTCCTTAACCCGAAATGTAT
* * * * *
17207715 TCTACATTAGTGAGCTAGAGGCAATGGTTCTTTTATGATCAGTAGTTACTTTGCATCAGAATAAG
195 CCTACATCAATGAGCTAGAGGCAATGGTTCTTTTATGATCAGTAGTTACTTTACACCAGAATAAG
* *
17207780 TATTTCAACTCTGCATATTAAGTACTGAATGAA-CAAATTTATATTTCGTAATTGGACA-TCAAG
260 TATTTCAACTCTGCATATTAAATACTGAAT-AAGCAAATCTATATTTCGTAATTGGACAGT-AAG
*
17207843 ACTGTAACTATAAGGTTTCTACATGGATTTTTCAAGGATTGAAATGATAAGTAATCTGTATGTAC
323 ACTGTAACTATAAGGTTT-TACA-GGA-TTGTCAAGGATTGAAATGATAAGTAATCTGTATGTAC
** * * * ** * *
17207908 AAGAGTATTAATGGTGAAATTATGTTTCTAAGTTGTGGTTGTTATTGGTTTGTTATGGATATTTG
385 AA-AGTATTAATGGTGAAATTATGTTTCTAAGCAGTGGTTGCTACTGATTCATGAT-GATATCTG
*
17207973 GATCTAGAGCTTTAAACTACAGTAGGCGAGAATCAGGTGAGTTCCTATGCTGACTCATGCAAGTA
448 GATCTAGAGCTTTAAACTACAGTAGGCGAGAATCAGGTGAATTCCTATGCTGACTCATGCAAGTA
*
17208038 TATTGTTTATACCGAAGCACATTTATAAGAAAATTGATCAAACTATGAATTCA-AAACCATGAAA
513 TATTGTTTATACCGAAGCACATCTATAAGAAAATTGATCAAACTATGAA-TCAGAAACCATGAAA
* * *
17208102 TGTATAGTATGAAAATAATATGTATGTGACTACATGAATGATTTCTAAGGAAAATCTATGAGTGT
577 AGTATAGTATGAAAATAATATGTATGTGACTACATGAATGATTTCTAAAGAAAATCTATGAGCGT
* *
17208167 ATGAATGTTTTTTGATGATA
642 ATGAATGTTTGTTGAGGATA
17208187 GTATTTAT
1 GTATTTAT
17208195 GTTTAGTATG
Statistics
Matches: 583, Mismatches: 80, Indels: 18
0.86 0.12 0.03
Matches are distributed among these distances:
658 1 0.00
659 228 0.39
660 4 0.01
661 4 0.01
662 35 0.06
663 44 0.08
664 264 0.45
665 3 0.01
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (661 bp):
GTATTTATTAATAATTCTTTCAAAAATCGTAGGCAATTAAGAAGGCAAATTATGAAACACTTAAC
ACGTATGTTAAATTACACTATGTAAGTAAAGTTATATACATGTGAGAAATGAGTTCTAAGGGGGT
TCTTCTTTCTTCTTCCCCTTCCTTAAGTGGTATTTACTAAAATCTTCCTTAACCCGAAATGTATC
CTACATCAATGAGCTAGAGGCAATGGTTCTTTTATGATCAGTAGTTACTTTACACCAGAATAAGT
ATTTCAACTCTGCATATTAAATACTGAATAAGCAAATCTATATTTCGTAATTGGACAGTAAGACT
GTAACTATAAGGTTTTACAGGATTGTCAAGGATTGAAATGATAAGTAATCTGTATGTACAAAGTA
TTAATGGTGAAATTATGTTTCTAAGCAGTGGTTGCTACTGATTCATGATGATATCTGGATCTAGA
GCTTTAAACTACAGTAGGCGAGAATCAGGTGAATTCCTATGCTGACTCATGCAAGTATATTGTTT
ATACCGAAGCACATCTATAAGAAAATTGATCAAACTATGAATCAGAAACCATGAAAAGTATAGTA
TGAAAATAATATGTATGTGACTACATGAATGATTTCTAAAGAAAATCTATGAGCGTATGAATGTT
TGTTGAGGATA
Found at i:17208640 original size:27 final size:27
Alignment explanation
Indices: 17208608--17208660 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
17208598 GACAACTAAG
*
17208608 AAATAGCCTTTGTGGTGAACTCTAAAA
1 AAATAGCCTTTGTGGCGAACTCTAAAA
*
17208635 AAATAGCTTTTGTGGCGAACTCTAAA
1 AAATAGCCTTTGTGGCGAACTCTAAA
17208661 GAATAACTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (27 bp):
AAATAGCCTTTGTGGCGAACTCTAAAA
Found at i:17208644 original size:26 final size:25
Alignment explanation
Indices: 17208603--17208677 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 25
17208593 AAAACGACAA
*
17208603 CTAAGAAATAGCCTTTGTGGTGAACT
1 CTAAAAAATAG-CTTTGTGGTGAACT
*
17208629 CTAAAAAAATAGCTTTTGTGGCGAACT
1 CT-AAAAAATAGC-TTTGTGGTGAACT
* *
17208656 CTAAAGAATAACTATTGTGGTG
1 CTAAAAAATAGCT-TTGTGGTG
17208678 TATTCTAATC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
25 1 0.02
26 18 0.44
27 22 0.54
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (25 bp):
CTAAAAAATAGCTTTGTGGTGAACT
Found at i:17213235 original size:13 final size:13
Alignment explanation
Indices: 17213217--17213262 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
17213207 AAAATTCATT
17213217 TATTTTTATATAA
1 TATTTTTATATAA
*
17213230 TATTTTTATAAATA
1 TATTTTTATATA-A
*
17213244 TATTTTTACATAA
1 TATTTTTATATAA
17213257 T-TTTTT
1 TATTTTT
17213263 CACCTAATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
12 5 0.17
13 13 0.45
14 11 0.38
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTTTTATATAA
Found at i:17221856 original size:14 final size:14
Alignment explanation
Indices: 17221819--17221872 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
17221809 GTTCAGATTC
*
17221819 AATATAAAAAATCATC
1 AATA-AAAAAATCA-A
*
17221835 AATAAAAAAAACAA
1 AATAAAAAAATCAA
*
17221849 AATCAAAAAAATGAA
1 AAT-AAAAAAATCAA
17221864 AATAAAAAA
1 AATAAAAAA
17221873 GAAAAAAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 9 0.27
15 20 0.61
16 4 0.12
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.15
Consensus pattern (14 bp):
AATAAAAAAATCAA
Found at i:17221856 original size:15 final size:14
Alignment explanation
Indices: 17221835--17221916 Score: 62
Period size: 14 Copynumber: 5.8 Consensus size: 14
17221825 AAAAATCATC
17221835 AATAAAAAAAACAA
1 AATAAAAAAAACAA
**
17221849 AATCAAAAAAATGAA
1 AAT-AAAAAAAACAA
17221864 AATAAAAAAGAA-AA
1 AATAAAAAA-AACAA
* *
17221878 AAGAAAAAAAATAA
1 AATAAAAAAAACAA
17221892 AGA-AAAAAAGAA-AA
1 A-ATAAAAAA-AACAA
*
17221906 AAGAAAAAAAA
1 AATAAAAAAAA
17221917 TTAAAATCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 13
0.77 0.05 0.17
Matches are distributed among these distances:
13 5 0.09
14 37 0.64
15 16 0.28
ACGTcount: A:0.84, C:0.02, G:0.07, T:0.06
Consensus pattern (14 bp):
AATAAAAAAAACAA
Found at i:17221867 original size:29 final size:28
Alignment explanation
Indices: 17221835--17221942 Score: 130
Period size: 29 Copynumber: 3.8 Consensus size: 28
17221825 AAAAATCATC
**
17221835 AATAAAAAA-AACAAAATCAAAAAAATGAA
1 AATAAAAAAGAA-AAAAGAAAAAAAAT-AA
17221864 AATAAAAAAGAAAAAAGAAAAAAAATAA
1 AATAAAAAAGAAAAAAGAAAAAAAATAA
17221892 AGA-AAAAAAGAAAAAAGAAAAAAAATTAA
1 A-ATAAAAAAGAAAAAAGAAAAAAAA-TAA
* *
17221921 AATCAAAATGAAAAAAGAAAAA
1 AATAAAAAAGAAAAAAGAAAAA
17221943 GAAAAGAAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
28 26 0.37
29 43 0.61
30 2 0.03
ACGTcount: A:0.81, C:0.03, G:0.07, T:0.08
Consensus pattern (28 bp):
AATAAAAAAGAAAAAAGAAAAAAAATAA
Found at i:17221878 original size:28 final size:28
Alignment explanation
Indices: 17221863--17221942 Score: 117
Period size: 28 Copynumber: 2.8 Consensus size: 28
17221853 AAAAAAATGA
17221863 AAATAAAAAAGAAAAAAGAAAAAAAATA
1 AAATAAAAAAGAAAAAAGAAAAAAAATA
17221891 AAGA-AAAAAAGAAAAAAGAAAAAAAATTA
1 AA-ATAAAAAAGAAAAAAGAAAAAAAA-TA
* *
17221920 AAATCAAAATGAAAAAAGAAAAA
1 AAATAAAAAAGAAAAAAGAAAAA
17221943 GAAAAGAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
28 25 0.53
29 22 0.47
ACGTcount: A:0.82, C:0.01, G:0.09, T:0.07
Consensus pattern (28 bp):
AAATAAAAAAGAAAAAAGAAAAAAAATA
Found at i:17221906 original size:35 final size:35
Alignment explanation
Indices: 17221838--17221952 Score: 110
Period size: 35 Copynumber: 3.2 Consensus size: 35
17221828 AATCATCAAT
* * *
17221838 AAAAAAAACAAAATCAAAAAAATGAAAATAAAAAAGA
1 AAAAAAAAAAAAATCAAAAGAA--AAAAGAAAAAAGA
17221875 AAAAAGAAAAAAAAT--AAAGAAAAAAAGAAAAAAGA
1 AAAAA-AAAAAAAATCAAAAG-AAAAAAGAAAAAAGA
**
17221910 AAAAAAATTAAAATCAAAATGAAAAAAG-AAAAAGA
1 AAAAAAAAAAAAATCAAAA-GAAAAAAGAAAAAAGA
*
17221945 AAAGAAAA
1 AAAAAAAA
17221953 GGAGAGGCCA
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
34 7 0.11
35 30 0.45
36 13 0.20
37 8 0.12
38 8 0.12
ACGTcount: A:0.82, C:0.03, G:0.09, T:0.07
Consensus pattern (35 bp):
AAAAAAAAAAAAATCAAAAGAAAAAAGAAAAAAGA
Found at i:17221915 original size:8 final size:7
Alignment explanation
Indices: 17221862--17221947 Score: 79
Period size: 7 Copynumber: 12.3 Consensus size: 7
17221852 CAAAAAAATG
*
17221862 AAAATAA
1 AAAAGAA
17221869 AAAAGAA
1 AAAAGAA
17221876 AAAAGAA
1 AAAAGAA
17221883 AAAA-AA
1 AAAAGAA
*
17221889 TAAAGAAA
1 AAAAG-AA
17221897 AAAAGAA
1 AAAAGAA
17221904 AAAAGAA
1 AAAAGAA
17221911 AAAA-AA
1 AAAAGAA
**
17221917 TTAAAATCA
1 --AAAAGAA
*
17221926 AAATGAA
1 AAAAGAA
17221933 AAAAG-A
1 AAAAGAA
17221939 AAAAGAA
1 AAAAGAA
17221946 AA
1 AA
17221948 GAAAAGGAGA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
6 13 0.20
7 41 0.63
8 10 0.15
9 1 0.02
ACGTcount: A:0.83, C:0.01, G:0.09, T:0.07
Consensus pattern (7 bp):
AAAAGAA
Found at i:17221935 original size:1 final size:1
Alignment explanation
Indices: 17221838--17221916 Score: 50
Period size: 1 Copynumber: 79.0 Consensus size: 1
17221828 AATCATCAAT
* ** ** * * * * * *
17221838 AAAAAAAACAAAATCAAAAAAATGAAAATAAAAAAGAAAAAAGAAAAAAAATAAAGAAAAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
17221903 AAAAAGAAAAAAAA
1 AAAAAAAAAAAAAA
17221917 TTAAAATCAA
Statistics
Matches: 56, Mismatches: 22, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.85, C:0.03, G:0.08, T:0.05
Consensus pattern (1 bp):
A
Found at i:17224475 original size:46 final size:44
Alignment explanation
Indices: 17224379--17224575 Score: 132
Period size: 44 Copynumber: 4.4 Consensus size: 44
17224369 TCGCATCAGG
* * * * ** * *
17224379 TCTTATCTCCTTGAGGTTGCAGCGGAGCAG-ACCAAGAAAGCAA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGAATGAAGATAGTAA
* * *
17224422 GTCTTATCCCCCTGAAGTTGTAGTGGGGCAGACATGAAGATGGTGAA
1 -TCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-ATGAAGATAGT-AA
* * *
17224469 TCTTATCTACCTG-AGTTTGTAGTGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAAG-TTGTAGTGGAGCAGAATGAAGATAGTAA
* * * * *
17224513 TCCTATCTCCCTGAAGTTG-CGATGGAGCAGATTCAA-ATAATAGA
1 TCTTATCTCCCTGAAGTTGTAG-TGGAGCAGAATGAAGATAGTA-A
*
17224557 TCTTATCTCTCTGAAGTTG
1 TCTTATCTCCCTGAAGTTG
17224576 CAGCAGAGTG
Statistics
Matches: 121, Mismatches: 25, Indels: 14
0.76 0.16 0.09
Matches are distributed among these distances:
43 5 0.04
44 71 0.59
45 12 0.10
46 31 0.26
47 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGTAGTGGAGCAGAATGAAGATAGTAA
Found at i:17224548 original size:219 final size:218
Alignment explanation
Indices: 17224238--17225473 Score: 1782
Period size: 218 Copynumber: 5.7 Consensus size: 218
17224228 AGAGCAGATC
* * *
17224238 GAAGGTGGTGAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
1 GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
* * * * *
17224303 CCTAAAGTTACAGTAGAGCGGATTCAAATAATAGATCTTATCTCTCTAAAGTTGTAGTAGAGTGG
66 CCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGG
*
17224368 ATCGCATCAGGTCTTATCTCCTTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCC
131 ATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCC
*
17224433 CTGAAGTTGTAGTGGGGCAGACAT
196 CTGAAGTTGCAGTGGGGCAGAC-T
* * *
17224457 GAAGATGGTGAATCTTATCTACCTGAGTTTGTAGTGGAGCAGATTGAAGCTAGTAATCCTATCTC
1 GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
* *
17224522 CCTGAAGTTGC-GATGGAGCAGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGCAGAGTG
66 CCTGAAGTTGCAG-TGGAGCGGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTG
* * *
17224586 GATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGAAGTAGACCAAGAAAACAAGTCTTATCCC
130 GATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCC
* *
17224651 CCTGAAGTTACAG-AGGGCAGACT
195 CCTGAAGTTGCAGTGGGGCAGACT
*
17224674 GAAGATGGTGAATCTTATCTTCCTGAGTTTGC-GATGGAG-ATTATTGAAGCCAGTAATCCTATC
1 GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAG-TGGAGCA-GATTGAAGCCAGTAATCCTATC
* * * * ** * *
17224737 TCCCTCAAGTGGCAGTGGAGAGAATTCAAATAATAGATCGCATCTGTATCTGAAGTAGCAGTAGA
64 TCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCTTATC--TCTCTGAAGTTGCAGTAGA
* * * * *
17224802 GCGGATCGCATCAGGTCTTATCT-CCAGAGGTTACAGCAGAGCAGACCAAGAAAGAAAGTCTTAT
127 GTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTAT
17224866 CCCCCTGAAGTTGCAGTGGGGCAGACT
192 CCCCCTGAAGTTGCAGTGGGGCAGACT
*
17224893 GAAGATGGTGAATCTTATCTTCCTGAGTTTACAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
1 GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
* * * *
17224958 CCTGAAGTGGCAGTGGAGCGAATTCAAATAATAGATCTTATCTCTCTGAAGTTACAGTAGAGCGG
66 CCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGG
* *
17225023 ATCGCATCAGGTCTAATCTCCCTGAGGTTGCAGCAGAGCAGACCAAGAAAGCAAGTCTTATCCCC
131 ATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCC
* *
17225088 CTGAAGTTGTAGTGAGGCAGACT
196 CTGAAGTTGCAGTGGGGCAGACT
* * *
17225111 GAAGATGGTGAATCTTATCTCCCTGAGTTTGCAGTGCAGCACATTGAAGCCAGTAATCCTATCTC
1 GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
* * * * *
17225176 CTTGAAGTTGTAGTGGAGCGGATTCAAATAATAGATCTTATGTCTCTGAAATTGCAGCAGAGTGG
66 CCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGG
* * *
17225241 ATCACATCAAGTCTTATCTCCCTTAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCC
131 ATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCC
*
17225306 CTGAAGTTGCAGTGGGGCAAACT
196 CTGAAGTTGCAGTGGGGCAGACT
* *
17225329 GAAGATGGTGAATATTATCTTCCTGAGTTTGCAGTGGAGCAGATTGAGGCCAGTAATCCTATCTC
1 GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
* ** * * * *
17225394 CTTGAAGTTATAGTGGAGTGGATT-AAACAATAGATCTTATCTCTCTGAGGTTGCAGTAGAGTAG
66 CCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGG
* *
17225458 ATTGCATCAGATCTTA
131 ATCGCATCAGGTCTTA
17225474 CTTCCCAGAC
Statistics
Matches: 911, Mismatches: 96, Indels: 22
0.89 0.09 0.02
Matches are distributed among these distances:
216 2 0.00
217 175 0.19
218 401 0.44
219 331 0.36
220 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (218 bp):
GAAGATGGTGAATCTTATCTTCCTGAGTTTGCAGTGGAGCAGATTGAAGCCAGTAATCCTATCTC
CCTGAAGTTGCAGTGGAGCGGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGG
ATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCC
CTGAAGTTGCAGTGGGGCAGACT
Found at i:17224910 original size:45 final size:44
Alignment explanation
Indices: 17224860--17225450 Score: 198
Period size: 44 Copynumber: 13.5 Consensus size: 44
17224850 AGAAAGAAAG
* * **
17224860 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGTGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGT-AA
* * * *
17224905 TCTTATCTTCCTG-AGTTTACAGTGGAGCAGATTGAAGCCAGTAA
1 TCTTATCTCCCTGAAG-TTGCAGTGGAGCAGACTGAAGACAGTAA
* * * * * *
17224949 TCCTATCTCCCTGAAGTGGCAGTGGAGC-GAATTCAA-ATAATAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ACTGAAGACAGTA-A
* * * * * * *
17224993 TCTTATCTCTCTGAAGTTACAGTAGAGCGGA-TCGCA-TCAG--G
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGACAGTAA
* * ** * * *
17225034 TCTAATCTCCCTGAGGTTGCAGCAGAGCAGAC-CAAGAAAGCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGTAA
* * **
17225077 GTCTTATCCCCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGTGAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGA-GCAGACTGAAGACAGT-AA
* * * *
17225123 TCTTATCTCCCTG-AGTTTGCAGTGCAGCACATTGAAGCCAGTAA
1 TCTTATCTCCCTGAAG-TTGCAGTGGAGCAGACTGAAGACAGTAA
* * * * * * * *
17225167 TCCTATCTCCTTGAAGTTGTAGTGGAGCGGATTCAA-ATAATAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGTA-A
* * * * **
17225211 TCTTATGTCTCTGAAATTGC-----AGCAGAGTGGATCACA-TCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGACAGT-AA
* * * * * *
17225251 GTCTTATCTCCCTTAGGTTGCAGCGGAGCAGAC-CAAGAAAGCAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGTAA
* * * **
17225295 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAAACTGAAGATGGTGAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGT-AA
* * * * *
17225341 TATTATCTTCCTG-AGTTTGCAGTGGAGCAGATTGAGGCCAGTAA
1 TCTTATCTCCCTGAAG-TTGCAGTGGAGCAGACTGAAGACAGTAA
* * ** ** * *
17225385 TCCTATCTCCTTGAAGTTATAGTGGAGTGGA-TTAA-ACAATAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGTA-A
* *
17225428 TCTTATCTCTCTGAGGTTGCAGT
1 TCTTATCTCCCTGAAGTTGCAGT
17225451 AGAGTAGATT
Statistics
Matches: 388, Mismatches: 125, Indels: 68
0.67 0.22 0.12
Matches are distributed among these distances:
39 6 0.02
40 4 0.01
41 45 0.12
42 4 0.01
43 30 0.08
44 182 0.47
45 106 0.27
46 11 0.03
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGTAA
Found at i:17226932 original size:24 final size:22
Alignment explanation
Indices: 17226889--17226948 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 22
17226879 AATATTATTT
17226889 AAATTTATCATGCATCATAGTTTA
1 AAATTTATCAT--ATCATAGTTTA
*
17226913 AAATTTATCATATACTATAGTTTT
1 AAATTTATCATAT-C-ATAGTTTA
*
17226937 AAACTTATCATA
1 AAATTTATCATA
17226949 GATTATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 2 0.06
23 1 0.03
24 29 0.91
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (22 bp):
AAATTTATCATATCATAGTTTA
Found at i:17228358 original size:40 final size:40
Alignment explanation
Indices: 17228328--17228511 Score: 250
Period size: 40 Copynumber: 4.6 Consensus size: 40
17228318 GCTACTCGTT
*
17228328 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
17228368 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
*
17228408 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * * *
17228448 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCTCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
17228487 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
17228512 ACATCATTCG
Statistics
Matches: 132, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 32 0.24
40 98 0.74
41 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:17228503 original size:79 final size:81
Alignment explanation
Indices: 17228328--17228512 Score: 286
Period size: 80 Copynumber: 2.3 Consensus size: 81
17228318 GCTACTCGTT
*
17228328 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
17228392 GATTTAGTAACTCGCA
66 GAATTAGTAACTCGCA
* * *
17228408 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
17228471 GAATTAGTATCTCTCA
66 GAATTAGTAACTCGCA
17228487 CAAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
17228513 CATCATTCGA
Statistics
Matches: 96, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
79 46 0.48
80 48 0.50
81 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GAATTAGTAACTCGCA
Found at i:17229706 original size:56 final size:56
Alignment explanation
Indices: 17229639--17229814 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
17229629 TATTAGTTTA
17229639 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
17229695 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
17229751 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
17229807 TTGCCCAT
1 TTGCCCAT
17229815 CATCCCTTGT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:17234141 original size:20 final size:20
Alignment explanation
Indices: 17234116--17234153 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17234106 ATTACAAACC
17234116 ACTTGTATTGATACAAGTGG
1 ACTTGTATTGATACAAGTGG
* *
17234136 ACTTGTGTTGATAGAAGT
1 ACTTGTATTGATACAAGT
17234154 ATTGAAAATT
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:0.29, C:0.08, G:0.26, T:0.37
Consensus pattern (20 bp):
ACTTGTATTGATACAAGTGG
Found at i:17234385 original size:118 final size:118
Alignment explanation
Indices: 17234177--17234410 Score: 468
Period size: 118 Copynumber: 2.0 Consensus size: 118
17234167 ACCATTGGAG
17234177 CTTAATGTATCGGCAGAAGTTCACTTGTATCGATAGTTGTATTAGGAAAAGATACCAAGGAGACT
1 CTTAATGTATCGGCAGAAGTTCACTTGTATCGATAGTTGTATTAGGAAAAGATACCAAGGAGACT
17234242 AAAAATTGCTTACTAACTTAGTTGTATCGGTAGAAGTCCCCCTAAGTATCGGT
66 AAAAATTGCTTACTAACTTAGTTGTATCGGTAGAAGTCCCCCTAAGTATCGGT
17234295 CTTAATGTATCGGCAGAAGTTCACTTGTATCGATAGTTGTATTAGGAAAAGATACCAAGGAGACT
1 CTTAATGTATCGGCAGAAGTTCACTTGTATCGATAGTTGTATTAGGAAAAGATACCAAGGAGACT
17234360 AAAAATTGCTTACTAACTTAGTTGTATCGGTAGAAGTCCCCCTAAGTATCG
66 AAAAATTGCTTACTAACTTAGTTGTATCGGTAGAAGTCCCCCTAAGTATCG
17234411 ATAGAAGTCT
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.30
Consensus pattern (118 bp):
CTTAATGTATCGGCAGAAGTTCACTTGTATCGATAGTTGTATTAGGAAAAGATACCAAGGAGACT
AAAAATTGCTTACTAACTTAGTTGTATCGGTAGAAGTCCCCCTAAGTATCGGT
Found at i:17237538 original size:50 final size:50
Alignment explanation
Indices: 17237465--17237562 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 50
17237455 TGAAAGAATC
* * * *
17237465 ATATCGTGTAAGATCATAGCTGGTGGGCTATGGCGTCATATGGAAAGACA
1 ATATCGTGTAAGACCATAACTGGTGGACTATGGCATCATATGGAAAGACA
*
17237515 ATATCGTGTAAGACCATAACTGGTGGATTATGGCATCATATGGAAAGA
1 ATATCGTGTAAGACCATAACTGGTGGACTATGGCATCATATGGAAAGA
17237563 TCTAAAGTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.27
Consensus pattern (50 bp):
ATATCGTGTAAGACCATAACTGGTGGACTATGGCATCATATGGAAAGACA
Found at i:17237762 original size:60 final size:60
Alignment explanation
Indices: 17237698--17237916 Score: 262
Period size: 60 Copynumber: 3.6 Consensus size: 60
17237688 GGCAAATCTT
* * *
17237698 TGGAAATGAAAGCCTTTATGGCGAGTACTAAATGAAAAGGATGTC-TTTGTGGAAAAAATC
1 TGGAAAGGAAAGCCTTTATGGCAAGTACTGAATGAAAAGGATG-CATTTGTGGAAAAAATC
* * * * *
17237758 TGGAAAGGGAAGCCTTTGTGACAAGTACTGAATGAAAATGATGCATTTGTGGAAAATATC
1 TGGAAAGGAAAGCCTTTATGGCAAGTACTGAATGAAAAGGATGCATTTGTGGAAAAAATC
* * * * *
17237818 TAGAAAGGAAAGCCTTTGTGGCAAGTACTGAATGAAAAGGATGCCTTTTGTAGAAAAACTC
1 TGGAAAGGAAAGCCTTTATGGCAAGTACTGAATGAAAAGGATG-CATTTGTGGAAAAAATC
* *
17237879 TTGAAAGGAAAGCCTTTATGG-AGAGTAGTGAATGAAAA
1 TGGAAAGGAAAGCCTTTATGGCA-AGTACTGAATGAAAA
17237917 TGACGCCCTT
Statistics
Matches: 137, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
59 1 0.01
60 90 0.66
61 46 0.34
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (60 bp):
TGGAAAGGAAAGCCTTTATGGCAAGTACTGAATGAAAAGGATGCATTTGTGGAAAAAATC
Found at i:17237868 original size:32 final size:31
Alignment explanation
Indices: 17237709--17237865 Score: 103
Period size: 31 Copynumber: 5.2 Consensus size: 31
17237699 GGAAATGAAA
* * *
17237709 GCCTTTATGGCGAGTACTAAATGAAAAGGAT
1 GCCTTTGTGGCAAGTACTGAATGAAAAGGAT
* * ** * *
17237740 GTCTTTGTGGAAAAAATCTG---GAAAGGGAA
1 GCCTTTGTGGCAAGTA-CTGAATGAAAAGGAT
* *
17237769 GCCTTTGTGACAAGTACTGAATGAAAATGAT
1 GCCTTTGTGGCAAGTACTGAATGAAAAGGAT
* * * *
17237800 GCATTTGTGGAAAATATCT--A-G-AAAGGAAA
1 GCCTTTGTGGCAAGTA-CTGAATGAAAAGG-AT
17237829 GCCTTTGTGGCAAGTACTGAATGAAAAGGAT
1 GCCTTTGTGGCAAGTACTGAATGAAAAGGAT
17237860 GCCTTT
1 GCCTTT
17237866 TGTAGAAAAA
Statistics
Matches: 89, Mismatches: 27, Indels: 20
0.65 0.20 0.15
Matches are distributed among these distances:
28 9 0.10
29 33 0.37
30 2 0.02
31 36 0.40
32 9 0.10
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (31 bp):
GCCTTTGTGGCAAGTACTGAATGAAAAGGAT
Found at i:17237929 original size:121 final size:121
Alignment explanation
Indices: 17237700--17237985 Score: 321
Period size: 121 Copynumber: 2.4 Consensus size: 121
17237690 CAAATCTTTG
* * * * *
17237700 GAAATGAAAGCCTTTATGGCGAGTACTAAATGAAAAGGATGTC-TTTGTGGAAAAAATCTGGAAA
1 GAAAGGAAAGCCTTTGTGGCGAGTACTGAATGAAAAGGATGCCTTTTGTAGAAAAAATCTGGAAA
* * * *
17237764 GGGAAGCCTTTGTGACAAGTACTGAATGAAAATGATGCATTTGTGGA-AAATA-TCTA
66 GGAAAGCCTTTATGACAAGTACTGAATGAAAATGACGCACTTGT-GACAAA-ACTCTA
* * *
17237820 GAAAGGAAAGCCTTTGTGGCAAGTACTGAATGAAAAGGATGCCTTTTGTAGAAAAACTCTTGAAA
1 GAAAGGAAAGCCTTTGTGGCGAGTACTGAATGAAAAGGATGCCTTTTGTAGAAAAAATCTGGAAA
* * * * *
17237885 GGAAAGCCTTTATGGA-GAGTAGTGAATGAAAATGACGCCCTTGTGACAAAACTTTG
66 GGAAAGCCTTTAT-GACAAGTACTGAATGAAAATGACGCACTTGTGACAAAACTCTA
* * * *
17237941 GAAAGGAAAGTCTTTGGGGTGAGTACTGAAT-AAAAAGATGCCTTT
1 GAAAGGAAAGCCTTTGTGGCGAGTACTGAATGAAAAGGATGCCTTT
17237986 ATGGTAGATT
Statistics
Matches: 140, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
120 54 0.39
121 84 0.60
122 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (121 bp):
GAAAGGAAAGCCTTTGTGGCGAGTACTGAATGAAAAGGATGCCTTTTGTAGAAAAAATCTGGAAA
GGAAAGCCTTTATGACAAGTACTGAATGAAAATGACGCACTTGTGACAAAACTCTA
Found at i:17237965 original size:60 final size:61
Alignment explanation
Indices: 17237700--17237977 Score: 230
Period size: 60 Copynumber: 4.6 Consensus size: 61
17237690 CAAATCTTTG
* * * * * * * * *
17237700 GAAATGAAAGCCTTTATGGCGAGTACTAAATGAAAAGGATGTCT-TTGTGGAAAAAATCTG
1 GAAAGGAAAGCCTTTGTGGAGAGTACTGAATGAAAAGGACGCCTCTTGTAGAAAAACTCTT
* * * * * * *
17237760 GAAAGGGAAGCCTTTGT-GACAAGTACTGAATGAAAATGATGCAT-TTGTGGAAAATA-TCTA
1 GAAAGGAAAGCCTTTGTGGA-GAGTACTGAATGAAAAGGACGCCTCTTGTAGAAAA-ACTCTT
* *
17237820 GAAAGGAAAGCCTTTGTGGCA-AGTACTGAATGAAAAGGATGCCTTTTGTAGAAAAACTCTT
1 GAAAGGAAAGCCTTTGTGG-AGAGTACTGAATGAAAAGGACGCCTCTTGTAGAAAAACTCTT
* * *
17237881 GAAAGGAAAGCCTTTATGGAGAGTAGTGAATGAAAATGACGCC-CTTGT-GACAAAACT-TT
1 GAAAGGAAAGCCTTTGTGGAGAGTACTGAATGAAAAGGACGCCTCTTGTAGA-AAAACTCTT
* * * *
17237940 GGAAAGGAAAGTCTTTGGGGTGAGTACTGAATAAAAAG
1 -GAAAGGAAAGCCTTTGTGGAGAGTACTGAATGAAAAG
17237978 ATGCCTTTAT
Statistics
Matches: 182, Mismatches: 27, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
59 5 0.03
60 125 0.69
61 51 0.28
62 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.25
Consensus pattern (61 bp):
GAAAGGAAAGCCTTTGTGGAGAGTACTGAATGAAAAGGACGCCTCTTGTAGAAAAACTCTT
Found at i:17255994 original size:47 final size:48
Alignment explanation
Indices: 17255940--17256032 Score: 125
Period size: 48 Copynumber: 2.0 Consensus size: 48
17255930 GTTTATCTAA
** *
17255940 TATTATGTGGTTGTT-ATCGACAATTATGTGGTGGTTTGCCCACAATG
1 TATTATGTGGCCGTTAATCGACAATTATGTGGTGGCTTGCCCACAATG
* * *
17255987 TATTATGTGGCCGTTAATCGACATTTGTGTGGTGGCTTGTCCACAA
1 TATTATGTGGCCGTTAATCGACAATTATGTGGTGGCTTGCCCACAA
17256033 ATGGTGTGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 13 0.33
48 26 0.67
ACGTcount: A:0.20, C:0.15, G:0.26, T:0.39
Consensus pattern (48 bp):
TATTATGTGGCCGTTAATCGACAATTATGTGGTGGCTTGCCCACAATG
Found at i:17261984 original size:14 final size:15
Alignment explanation
Indices: 17261962--17261990 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17261952 CCATATTTTC
17261962 ATTT-TTTTTCATTT
1 ATTTCTTTTTCATTT
17261976 ATTTCTTTTTCATTT
1 ATTTCTTTTTCATTT
17261991 TCTCTCCTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTCTTTTTCATTT
Found at i:17268842 original size:27 final size:27
Alignment explanation
Indices: 17268804--17268858 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
17268794 TGCTTTATGA
*
17268804 TTGTGTTTATTCTCGGAATTGTTAAAG
1 TTGTGTTTATTCTCAGAATTGTTAAAG
17268831 TTGTGTTTATTCTCAGAATTGTTAAAG
1 TTGTGTTTATTCTCAGAATTGTTAAAG
17268858 T
1 T
17268859 GCTTAGTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (27 bp):
TTGTGTTTATTCTCAGAATTGTTAAAG
Found at i:17272451 original size:14 final size:15
Alignment explanation
Indices: 17272432--17272465 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17272422 TTATCCTATT
17272432 AAAAAC-AATTTTCA
1 AAAAACTAATTTTCA
*
17272446 AAAAACTAATTTTTA
1 AAAAACTAATTTTCA
17272461 AAAAA
1 AAAAA
17272466 TAGTTTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAACTAATTTTCA
Found at i:17273001 original size:30 final size:30
Alignment explanation
Indices: 17272946--17273010 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
17272936 TTAAATTTTA
17272946 TTATTAAAATAAAATTATAATATTAAATAAT
1 TTATTAAAATAAAATTATAATATT-AATAAT
* * * *
17272977 TTATTGAAAT-AATTTATTATATTAATAGT
1 TTATTAAAATAAAATTATAATATTAATAAT
17273006 TTATT
1 TTATT
17273011 TTTGATAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 10 0.33
30 11 0.37
31 9 0.30
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (30 bp):
TTATTAAAATAAAATTATAATATTAATAAT
Found at i:17273002 original size:13 final size:13
Alignment explanation
Indices: 17272966--17272994 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17272956 AAAATTATAA
17272966 TATT-AAATAATT
1 TATTGAAATAATT
17272978 TATTGAAATAATT
1 TATTGAAATAATT
17272991 TATT
1 TATT
17272995 ATATTAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (13 bp):
TATTGAAATAATT
Found at i:17275630 original size:3 final size:3
Alignment explanation
Indices: 17275624--17275651 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
17275614 TCTTAGCAAG
17275624 ACC ACC ACC ACC ACC ACC ACC ACC ACC A
1 ACC ACC ACC ACC ACC ACC ACC ACC ACC A
17275652 ACAAGAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.64, G:0.00, T:0.00
Consensus pattern (3 bp):
ACC
Found at i:17281303 original size:20 final size:21
Alignment explanation
Indices: 17281270--17281311 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
17281260 TCAGATTCAA
*
17281270 ATCATACTTGGCATATAACAT
1 ATCATACTTAGCATATAACAT
17281291 ATCA-ACTTAGCATATAACAT
1 ATCATACTTAGCATATAACAT
17281311 A
1 A
17281312 CAAATCATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (21 bp):
ATCATACTTAGCATATAACAT
Found at i:17287736 original size:50 final size:50
Alignment explanation
Indices: 17287655--17287770 Score: 133
Period size: 50 Copynumber: 2.3 Consensus size: 50
17287645 TATCCTAGAT
* ** * * **
17287655 ATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACACCATGTCCCAGAC
* *
17287705 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACACCATGTCCCAGAC
1 ATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACACCATGTCCCAGAC
* *
17287755 ATTGTCTTACATGGGA
1 ATGGTCTTACAGGGGA
17287771 TCTTTTTACC
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACACCATGTCCCAGAC
Found at i:17291039 original size:22 final size:22
Alignment explanation
Indices: 17290943--17291044 Score: 80
Period size: 22 Copynumber: 4.6 Consensus size: 22
17290933 ACCATAGTAG
*
17290943 AGAGCACCATAGTGCTAAACAA
1 AGAGCACCAAAGTGCTAAACAA
** *
17290965 AGAGCACTGAAGTTCTAAA-AA
1 AGAGCACCAAAGTGCTAAACAA
** * * *
17290986 GAGAGCACTGAAGTGTTGATCAA
1 -AGAGCACCAAAGTGCTAAACAA
* * *
17291009 TGAGTACCAAAGTACTAAACAA
1 AGAGCACCAAAGTGCTAAACAA
17291031 AGAGCACCAAAGTG
1 AGAGCACCAAAGTG
17291045 TTGAATAGAA
Statistics
Matches: 59, Mismatches: 19, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
21 2 0.03
22 55 0.93
23 2 0.03
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.17
Consensus pattern (22 bp):
AGAGCACCAAAGTGCTAAACAA
Found at i:17294486 original size:11 final size:11
Alignment explanation
Indices: 17294449--17294495 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
17294439 TTGTTTTATG
17294449 TTTTAACA-TA
1 TTTTAACATTA
*
17294459 TTTTAACAATA
1 TTTTAACATTA
**
17294470 ACTTAACATTA
1 TTTTAACATTA
17294481 TTTTAACATATA
1 TTTTAACAT-TA
17294493 TTT
1 TTT
17294496 CTCTTAATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 8 0.27
11 17 0.57
12 5 0.17
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (11 bp):
TTTTAACATTA
Found at i:17299377 original size:5 final size:5
Alignment explanation
Indices: 17299367--17299414 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
17299357 TGTACTTGTT
* *
17299367 TTTTC TTTTC TTTTC TTTT- TATTA TTTTC TTTTTC TTTT- TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTT
17299415 ATAATAGTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 7 0.19
5 25 0.68
6 5 0.14
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:17308001 original size:12 final size:12
Alignment explanation
Indices: 17307984--17308010 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17307974 CCATATTCTC
17307984 ATTCATCCAACT
1 ATTCATCCAACT
17307996 ATTCATCCAACT
1 ATTCATCCAACT
17308008 ATT
1 ATT
17308011 TGGCTGACCC
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:0.33, C:0.30, G:0.00, T:0.37
Consensus pattern (12 bp):
ATTCATCCAACT
Found at i:17314945 original size:17 final size:17
Alignment explanation
Indices: 17314919--17314957 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
17314909 AACCTATACT
*
17314919 AAAAATGAAAAGA-AAA
1 AAAAAGGAAAAGAGAAA
17314935 AGAAAAGGAAAAGAGAAA
1 A-AAAAGGAAAAGAGAAA
17314953 AAAAA
1 AAAAA
17314958 ACCTAACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 15 0.75
18 4 0.20
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAAGGAAAAGAGAAA
Found at i:17317747 original size:12 final size:12
Alignment explanation
Indices: 17317715--17317749 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
17317705 CATCTAACTT
17317715 TACTCCTATTCC
1 TACTCCTATTCC
* *
17317727 TAATTCTATTCC
1 TACTCCTATTCC
17317739 TACTCCTATTC
1 TACTCCTATTC
17317750 TTATGTCAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.20, C:0.34, G:0.00, T:0.46
Consensus pattern (12 bp):
TACTCCTATTCC
Found at i:17319310 original size:17 final size:18
Alignment explanation
Indices: 17319284--17319322 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
17319274 AACTTAAACT
17319284 AAAAATGAAAAGAAAAAG
1 AAAAATGAAAAGAAAAAG
*
17319302 AAAAA-GAAAAGAGAAAG
1 AAAAATGAAAAGAAAAAG
17319319 AAAA
1 AAAA
17319323 CATAACATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (18 bp):
AAAAATGAAAAGAAAAAG
Found at i:17324890 original size:12 final size:13
Alignment explanation
Indices: 17324871--17324906 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
17324861 AAGCATGGAA
17324871 GATTAGTTGTTGT
1 GATTAGTTGTTGT
17324884 G-TTAGTTGTTGT
1 GATTAGTTGTTGT
*
17324896 GATGAGTTGTT
1 GATTAGTTGTT
17324907 TGGTGCCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.14, C:0.00, G:0.33, T:0.53
Consensus pattern (13 bp):
GATTAGTTGTTGT
Found at i:17339349 original size:17 final size:17
Alignment explanation
Indices: 17339327--17339368 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
17339317 AAACCTATGT
* *
17339327 GGCCCAAACCCAACTGA
1 GGCCCAAACCAAACAGA
17339344 GGCCCAAACCAAACAGA
1 GGCCCAAACCAAACAGA
*
17339361 AGCCCAAA
1 GGCCCAAA
17339369 GTAGATTCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.43, C:0.38, G:0.17, T:0.02
Consensus pattern (17 bp):
GGCCCAAACCAAACAGA
Found at i:17340472 original size:14 final size:13
Alignment explanation
Indices: 17340453--17340483 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
17340443 ATTTTCTTTA
17340453 TTTTTATTAATTAT
1 TTTTTATTAATT-T
17340467 TTTTTATTAATTT
1 TTTTTATTAATTT
17340480 TTTT
1 TTTT
17340484 GTTATATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTATTAATTT
Found at i:17359026 original size:44 final size:44
Alignment explanation
Indices: 17358978--17359426 Score: 170
Period size: 44 Copynumber: 10.2 Consensus size: 44
17358968 TATCTTGGAA
* *
17358978 AGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAAGG
1 AGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTTAGGG
* * ** * * * *
17359022 AGATAAGATCTACAAT-TTTCAACCTACTCCGCTACTGCTCAGGG
1 AGATAAGATTTGCCGTCTTT-AATCTGCTCCACTACTGCTTAGGG
* ** ** * * * *
17359066 AGACAAGGCTTGGTGGCTTAAATTTGCTTCCTACTA-T-CTT-GGAA
1 AGATAAGATTTGCCGTCTTTAATCTGC-TCC-ACTACTGCTTAGG-G
**
17359110 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTTAGGG
* * * ** * *
17359154 ATATAAGATCTACAAT-TTTCAACCTACTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTT-AATCTGCTCCACTACTGCTTAGGG
* * * *
17359198 AGACAAGACTTG--GTAGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCGT--CTTTAATCTGC-T-CCACTACTGCTTAGG-G
**
17359242 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTTAGGG
* * ** * * * * * *
17359286 AGATAAGATCTACAAT-TTTCAACCTACTCCGCTGCTGCTCAAGG
1 AGATAAGATTTGCCGTCTTT-AATCTGCTCCACTACTGCTTAGGG
* ** ** * * *
17359330 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCGTCTTTAATCTGC-T-CCACTACTGCTTAGG-G
* * * *
17359374 AGATAAGATTTACCGTCTTTGAGCTGCTCCACTACTACTTAGGG
1 AGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTTAGGG
17359418 AGATAAGAT
1 AGATAAGAT
17359427 CTACAATTTT
Statistics
Matches: 277, Mismatches: 100, Indels: 56
0.64 0.23 0.13
Matches are distributed among these distances:
42 17 0.06
43 20 0.07
44 205 0.74
45 20 0.07
46 15 0.05
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
AGATAAGATTTGCCGTCTTTAATCTGCTCCACTACTGCTTAGGG
Found at i:17359067 original size:132 final size:132
Alignment explanation
Indices: 17358928--17359491 Score: 939
Period size: 132 Copynumber: 4.3 Consensus size: 132
17358918 CGCTGCAACT
17358928 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* *
17358993 TCTTTGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATTTTCAACCTACTCCGCTACT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCGCTACT
17359058 GC
131 GC
* *
17359060 TCAGGGAGACAAGGCTTGGTGGCTTAAATTTGCTTCCTACTATCTTGGAAAGATAAGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* *
17359125 TCTTCGATCTGCTCCACTACTGCTTAGGGATATAAGATCTACAATTTTCAACCTACTCCACTACT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCGCTACT
17359190 GC
131 GC
* * *
17359192 TTAGGGAGACAAGACTTGGTAGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
*
17359257 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCGCTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCGCTACT
17359322 GC
131 GC
* *
17359324 TCAAGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
* * * *
17359389 TCTTTGAGCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCGCTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCGCTACT
*
17359454 AC
131 GC
* * **
17359456 TCAAGGAGACAAGGCTTGGTGTCTTTGATCTGCTTC
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTC
17359492 GCTGTCAGTG
Statistics
Matches: 406, Mismatches: 26, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 406 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (132 bp):
TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTACTCCGCTACT
GC
Found at i:17362975 original size:16 final size:16
Alignment explanation
Indices: 17362954--17362986 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
17362944 CAAAGGCTTT
17362954 CTGGCATTCTTCATTC
1 CTGGCATTCTTCATTC
17362970 CTGGCATTCTTCATTC
1 CTGGCATTCTTCATTC
17362986 C
1 C
17362987 AGACATCAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.33, G:0.12, T:0.42
Consensus pattern (16 bp):
CTGGCATTCTTCATTC
Found at i:17372057 original size:30 final size:30
Alignment explanation
Indices: 17372023--17372125 Score: 206
Period size: 30 Copynumber: 3.4 Consensus size: 30
17372013 CCGCTAAGAA
17372023 ACGCGCGGATCCTGGGTCCGGGTCGGGTCG
1 ACGCGCGGATCCTGGGTCCGGGTCGGGTCG
17372053 ACGCGCGGATCCTGGGTCCGGGTCGGGTCG
1 ACGCGCGGATCCTGGGTCCGGGTCGGGTCG
17372083 ACGCGCGGATCCTGGGTCCGGGTCGGGTCG
1 ACGCGCGGATCCTGGGTCCGGGTCGGGTCG
17372113 ACGCGCGGATCCT
1 ACGCGCGGATCCT
17372126 TCCTTCAAAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 73 1.00
ACGTcount: A:0.08, C:0.31, G:0.45, T:0.17
Consensus pattern (30 bp):
ACGCGCGGATCCTGGGTCCGGGTCGGGTCG
Found at i:17381251 original size:17 final size:16
Alignment explanation
Indices: 17381210--17381252 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
17381200 CCATTTTGAC
*
17381210 ATTCAATTTTTATTTT
1 ATTCAATTTTCATTTT
*
17381226 ATACAAATTTTGCATTTT
1 ATTC-AATTTT-CATTTT
17381244 ATTCAATTT
1 ATTCAATTT
17381253 AGCCCCTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 3 0.14
17 11 0.50
18 8 0.36
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.58
Consensus pattern (16 bp):
ATTCAATTTTCATTTT
Found at i:17390615 original size:17 final size:17
Alignment explanation
Indices: 17390593--17390632 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
17390583 ATCGTATATT
*
17390593 ATTATTTTAGGTTTATC
1 ATTATTTTAAGTTTATC
*
17390610 ATTATTTTAAGTTTTTC
1 ATTATTTTAAGTTTATC
17390627 ATTATT
1 ATTATT
17390633 ATTTTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.62
Consensus pattern (17 bp):
ATTATTTTAAGTTTATC
Found at i:17390615 original size:20 final size:20
Alignment explanation
Indices: 17390590--17390638 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 20
17390580 TTTATCGTAT
*
17390590 ATTATTATTTTAGGTTTATC
1 ATTATTATTTTAAGTTTATC
*
17390610 ---ATTATTTTAAGTTTTTC
1 ATTATTATTTTAAGTTTATC
17390627 ATTATTATTTTA
1 ATTATTATTTTA
17390639 TATTTACCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
17 15 0.62
20 9 0.38
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (20 bp):
ATTATTATTTTAAGTTTATC
Found at i:17390695 original size:27 final size:26
Alignment explanation
Indices: 17390652--17390710 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
17390642 TTACCCTTAA
* * *
17390652 TATTATTTTAAATTTATTATCTATTAT
1 TATT-TTTTAAAATTATCATCAATTAT
*
17390679 TATTTTTTAAAAATTATCATGAATTAT
1 TATTTTTT-AAAATTATCATCAATTAT
17390706 TATTT
1 TATTT
17390711 GAATTTATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (26 bp):
TATTTTTTAAAATTATCATCAATTAT
Found at i:17398777 original size:54 final size:55
Alignment explanation
Indices: 17398698--17398801 Score: 156
Period size: 54 Copynumber: 1.9 Consensus size: 55
17398688 CATAGGGACA
* * *
17398698 TTTTCTCATTTCAAATACATGAGCATGGATGATTTTCAAATGCATAAAGATATTT
1 TTTTCTCATTTCAAATACATCAGCATGGACGATTTTCAAATACATAAAGATATTT
* *
17398753 TTTTTTCA-TTCAAATACATCAGCATGGACGATTTTCAAATACATGAAGA
1 TTTTCTCATTTCAAATACATCAGCATGGACGATTTTCAAATACATAAAGA
17398802 CAATTTCTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
54 37 0.84
55 7 0.16
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (55 bp):
TTTTCTCATTTCAAATACATCAGCATGGACGATTTTCAAATACATAAAGATATTT
Found at i:17400096 original size:13 final size:13
Alignment explanation
Indices: 17400078--17400104 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17400068 ATGTATATCA
17400078 ATTATAAACTTTT
1 ATTATAAACTTTT
17400091 ATTATAAACTTTT
1 ATTATAAACTTTT
17400104 A
1 A
17400105 ACCTAACTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTATAAACTTTT
Found at i:17400507 original size:41 final size:41
Alignment explanation
Indices: 17400407--17400518 Score: 170
Period size: 41 Copynumber: 2.7 Consensus size: 41
17400397 ACCGACAATT
* * * *
17400407 AGCCTGCTAGACGTAAAGCCCGAAACATTTCACCAGCATCA
1 AGCCTGCTAGACATAAAGTCTGAAATATTTCACCAGCATCA
*
17400448 AGCCTGCTAGACATAAAGTCTGAAATATTTCACCGGCATCA
1 AGCCTGCTAGACATAAAGTCTGAAATATTTCACCAGCATCA
*
17400489 AGCCTGCTAGACATAAAGTCTGAATTATTT
1 AGCCTGCTAGACATAAAGTCTGAAATATTT
17400519 GACTGGCAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (41 bp):
AGCCTGCTAGACATAAAGTCTGAAATATTTCACCAGCATCA
Found at i:17403419 original size:23 final size:23
Alignment explanation
Indices: 17403393--17403439 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
17403383 TTACTAGTAC
*
17403393 TTCATCTACAAATCTACTGGTGG
1 TTCATCCACAAATCTACTGGTGG
* *
17403416 TTCATCCGCATATCTACTGGTGG
1 TTCATCCACAAATCTACTGGTGG
17403439 T
1 T
17403440 AATTCCACAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.36
Consensus pattern (23 bp):
TTCATCCACAAATCTACTGGTGG
Found at i:17408851 original size:24 final size:24
Alignment explanation
Indices: 17408824--17408870 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
17408814 TCTCATGTTT
*
17408824 ATATA-ATATATATTAATAGTTCGC
1 ATATACATATAT-TTAACAGTTCGC
*
17408848 ATATACATGTATTTAACAGTTCG
1 ATATACATATATTTAACAGTTCG
17408871 TAGAGTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (24 bp):
ATATACATATATTTAACAGTTCGC
Found at i:17417456 original size:57 final size:60
Alignment explanation
Indices: 17417368--17417506 Score: 196
Period size: 57 Copynumber: 2.3 Consensus size: 60
17417358 CATATTACTT
* * *
17417368 GTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATC-A-A-GATCACTC
1 GTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCAATAGGATCACCC
17417425 GTCCGGGCTAGAT-CTTTTTCACACATATTCTTCGGGAGGGCTATATCATGATAGGATCACCC
1 GTCCGGGCTAGATCCTTTTTC-CACATATTCTTCGGGAGGGCTATATCA--ATAGGATCACCC
17417487 GTCCGGGCTAGATCCTTTTT
1 GTCCGGGCTAGATCCTTTTT
17417507 ACCGTCAATT
Statistics
Matches: 72, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
56 6 0.08
57 38 0.53
60 1 0.01
61 1 0.01
62 20 0.28
63 6 0.08
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (60 bp):
GTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCAATAGGATCACCC
Found at i:17423494 original size:12 final size:12
Alignment explanation
Indices: 17423477--17423501 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17423467 CATTTTATTA
17423477 ATTTTAAAAATT
1 ATTTTAAAAATT
17423489 ATTTTAAAAATT
1 ATTTTAAAAATT
17423501 A
1 A
17423502 AAAATTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTTAAAAATT
Found at i:17431813 original size:11 final size:11
Alignment explanation
Indices: 17431797--17431869 Score: 119
Period size: 11 Copynumber: 6.6 Consensus size: 11
17431787 TTCAAAAATT
17431797 CTCTTAAGTTC
1 CTCTTAAGTTC
17431808 CTCTTAAGTTC
1 CTCTTAAGTTC
*
17431819 CTTTTAAGTTC
1 CTCTTAAGTTC
17431830 CTCTTAAGTTC
1 CTCTTAAGTTC
*
17431841 CTTTTAAGTTC
1 CTCTTAAGTTC
*
17431852 CTCTTAAGTTT
1 CTCTTAAGTTC
17431863 CTCTTAA
1 CTCTTAA
17431870 CTCCCTTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 57 1.00
ACGTcount: A:0.19, C:0.23, G:0.08, T:0.49
Consensus pattern (11 bp):
CTCTTAAGTTC
Found at i:17431820 original size:33 final size:33
Alignment explanation
Indices: 17431783--17431853 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
17431773 TCCTTTCAAT
17431783 TTCCTTCAAAAATT-CTCTTAAGTTCCTCTTAAG
1 TTCCTT-AAAAATTCCTCTTAAGTTCCTCTTAAG
** * *
17431816 TTCCTTTTAAGTTCCTCTTAAGTTCCTTTTAAG
1 TTCCTTAAAAATTCCTCTTAAGTTCCTCTTAAG
17431849 TTCCT
1 TTCCT
17431854 CTTAAGTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 4 0.12
33 29 0.88
ACGTcount: A:0.21, C:0.24, G:0.07, T:0.48
Consensus pattern (33 bp):
TTCCTTAAAAATTCCTCTTAAGTTCCTCTTAAG
Found at i:17431859 original size:33 final size:33
Alignment explanation
Indices: 17431797--17431878 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
17431787 TTCAAAAATT
* *
17431797 CTCTTAAGTTCCTCTTAAGTTCCTTTTAAGTTC
1 CTCTTAAGTTCCTTTTAAGTTCCTCTTAAGTTC
*
17431830 CTCTTAAGTTCCTTTTAAGTTCCTCTTAAGTTT
1 CTCTTAAGTTCCTTTTAAGTTCCTCTTAAGTTC
* *
17431863 CTCTTAACTCCCTTTT
1 CTCTTAAGTTCCTTTT
17431879 TTTAAATAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.17, C:0.26, G:0.07, T:0.50
Consensus pattern (33 bp):
CTCTTAAGTTCCTTTTAAGTTCCTCTTAAGTTC
Found at i:17431914 original size:12 final size:12
Alignment explanation
Indices: 17431875--17431918 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
17431865 CTTAACTCCC
*
17431875 TTTTTTTAAATA
1 TTTTTTAAAATA
* *
17431887 ATTTTAAAAATA
1 TTTTTTAAAATA
17431899 TTTTTTAAAAT-
1 TTTTTTAAAATA
17431910 TTTTTTAAA
1 TTTTTTAAA
17431919 CCGTAAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTTTTAAAATA
Found at i:17433032 original size:7 final size:7
Alignment explanation
Indices: 17433020--17433044 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17433010 AGTCGATTGA
17433020 TATTTAG
1 TATTTAG
17433027 TATTTAG
1 TATTTAG
17433034 TATTTAG
1 TATTTAG
17433041 TATT
1 TATT
17433045 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:17433722 original size:18 final size:18
Alignment explanation
Indices: 17433695--17433730 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17433685 CAGGTGCGTT
*
17433695 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
17433713 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
17433731 CCCTTTTCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.39
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:17434191 original size:25 final size:25
Alignment explanation
Indices: 17434163--17434210 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
17434153 TATTTTGATA
17434163 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
17434188 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
17434211 ATTTTTGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:17434373 original size:28 final size:23
Alignment explanation
Indices: 17434253--17434958 Score: 634
Period size: 23 Copynumber: 31.2 Consensus size: 23
17434243 ATTAATACCC
*
17434253 TTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
17434276 TTTAA-TTAAAAACCTTAAACCCT-A
1 -TTAACTTAAAAACCCT-AA-CCTAA
***
17434300 --AACTTAAAAACCCTAACCCCC
1 TTAACTTAAAAACCCTAACCTAA
17434321 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
17434344 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
17434367 TTAAATTAAAAACTCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
17434390 TTTAA-TTAAAAACCCTAAATCCT-A
1 -TTAACTTAAAAACCCT-AA-CCTAA
*
17434414 --AACTTAAAAATCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
17434435 TTTAA-TTAAAAACCCTAAACCT--
1 -TTAACTTAAAAACCCT-AACCTAA
*
17434457 TAAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
17434480 TTAAATTAAAAACCCTAAACCT--
1 TTAACTTAAAAACCCT-AACCTAA
* *
17434502 TAAACTTAAAAACCCTAATCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
17434525 TTTAA-TTAAAAACTCTAACCTAA
1 -TTAACTTAAAAACCCTAACCTAA
17434548 TTTAA-TTAAAAACCCTAACCTAA
1 -TTAACTTAAAAACCCTAACCTAA
*
17434571 TTAAATTAAAAACCCTAAACCCT-A
1 TTAACTTAAAAACCCT-AA-CCTAA
* ***
17434595 --AACTTAAAAACGCTAACCCCC
1 TTAACTTAAAAACCCTAACCTAA
17434616 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
17434639 TTAACGTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* * *
17434662 TTTAA-TTAAAAACTCTAAACT-C
1 -TTAACTTAAAAACCCTAACCTAA
*
17434684 TAAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
17434707 TTAAATTAAAAACCATAAACCCT-A
1 TTAACTTAAAAACCCT-AA-CCTAA
*
17434731 --AACTTAAAAACTCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
**
17434752 TTTAA-TTAAAAACTTTAAACCCT-A
1 -TTAACTTAAAAACCCT-AA-CCTAA
***
17434776 --AACTTAAAAACCCTAACCCCC
1 TTAACTTAAAAACCCTAACCTAA
17434797 TTAACTTAAAAA-CC--ACCTAA
1 TTAACTTAAAAACCCTAACCTAA
17434817 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
* *
17434840 TTAAATTAAAAACCTTAAACCCT-A
1 TTAACTTAAAAACCCT-AA-CCTAA
**
17434864 --AACTTAAAAACCCTAACCCCA
1 TTAACTTAAAAACCCTAACCTAA
17434885 TTAACTTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
17434908 TTAAATTAAAAACCCTAACCTAA
1 TTAACTTAAAAACCCTAACCTAA
*
17434931 TTTAA-TTAAAAACCCTAAACTAAA
1 -TTAACTTAAAAACCCTAACCT-AA
17434955 TTAA
1 TTAA
17434959 TAATTTTACT
Statistics
Matches: 567, Mismatches: 62, Indels: 107
0.77 0.08 0.15
Matches are distributed among these distances:
20 29 0.05
21 38 0.07
22 109 0.19
23 320 0.56
24 53 0.09
25 18 0.03
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (23 bp):
TTAACTTAAAAACCCTAACCTAA
Found at i:17434418 original size:91 final size:91
Alignment explanation
Indices: 17434253--17434950 Score: 884
Period size: 91 Copynumber: 7.7 Consensus size: 91
17434243 ATTAATACCC
* * * *
17434253 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAA---ACTTAAAAACCCTA
1 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCTA
* *
17434315 ACCCCCTTAACTTAAAAACCCTAACCTAA
64 A-ACCCTAAACTTAAAAACCCTAACCTAA
*
17434344 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACTCTAACCTAATTTAATTAAAAACCCTAAA
1 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAA
* *
17434409 TCCTAAACTTAAAAATCCTAACCTAA
66 CCCTAAACTTAAAAACCCTAACCTAA
*
17434435 TTTAA-TTAAAAACCCTAAACC---TTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT
1 -TTAACTTAAAAACCCT-AACCTAATTAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCT
* *
17434496 AAACCTTAAACTTAAAAACCCTAATCTAA
63 AAACCCTAAACTTAAAAACCCTAACCTAA
* * *
17434525 TTTAA-TTAAAAACTCTAACCTAATTTAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
1 -TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
* ***
17434589 ACCCTAAACTTAAAAACGCTAACCCCC
65 ACCCTAAACTTAAAAACCCTAACCTAA
** *
17434616 TTAACTTAAAAACCCTAACCTAATTAACGTAAAAACCCTAACCTAATTTAATTAAAAACTCTAAA
1 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAA
*
17434681 CTCTAAACTTAAAAACCCTAACCTAA
66 CCCTAAACTTAAAAACCCTAACCTAA
* * * * **
17434707 TTAAATTAAAAACCATAAACCCT-A--AACTTAAAAACTCTAACCTAATTTAATTAAAAACTTTA
1 TTAACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTA
***
17434769 AACCCTAAACTTAAAAACCCTAACCCCC
64 AACCCTAAACTTAAAAACCCTAACCTAA
* * *
17434797 TTAACTTAAAAA-CC--ACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCTTAAA
1 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAA
**
17434859 CCCTAAACTTAAAAACCCTAACCCCA
66 CCCTAAACTTAAAAACCCTAACCTAA
17434885 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAA
1 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAA
17434950 C
66 C
17434951 TAAATTAATA
Statistics
Matches: 537, Mismatches: 52, Indels: 36
0.86 0.08 0.06
Matches are distributed among these distances:
85 3 0.01
86 2 0.00
88 74 0.14
89 17 0.03
90 148 0.28
91 261 0.49
92 29 0.05
93 3 0.01
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (91 bp):
TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAA
CCCTAAACTTAAAAACCCTAACCTAA
Found at i:17434436 original size:45 final size:44
Alignment explanation
Indices: 17434303--17434958 Score: 699
Period size: 45 Copynumber: 14.6 Consensus size: 44
17434293 AACCCTAAAC
* *
17434303 TTAAAAACCCTAACCCCCTTAACTTAAAAACCCTAACCTAA-TTAA
1 TTAAAAACCCTAA--ACCTAAACTTAAAAACCCTAACCTAATTTAA
* *
17434348 CTTAAAAACCCT-AACCTAATTAAATTAAAAACTCTAACCTAATTTAA
1 -TTAAAAACCCTAAACCT-A--AACTTAAAAACCCTAACCTAATTTAA
*
17434395 TTAAAAACCCTAAATCCTAAACTTAAAAATCCTAACCTAATTTAA
1 TTAAAAACCCTAAA-CCTAAACTTAAAAACCCTAACCTAATTTAA
*
17434440 TTAAAAACCCTAAACCTTAAACTTAAAAACCCTAACCTAATTAAA
1 TTAAAAACCCTAAACC-TAAACTTAAAAACCCTAACCTAATTTAA
*
17434485 TTAAAAACCCTAAACCTTAAACTTAAAAACCCTAATCTAATTTAA
1 TTAAAAACCCTAAACC-TAAACTTAAAAACCCTAACCTAATTTAA
* * *
17434530 TTAAAAACTCT-AACCTAATTTAATTAAAAACCCTAACCTAATTAAA
1 TTAAAAACCCTAAACCTAA---ACTTAAAAACCCTAACCTAATTTAA
* ***
17434576 TTAAAAACCCTAAACCCTAAACTTAAAAACGCTAACC-CCCTTAA
1 TTAAAAACCCTAAA-CCTAAACTTAAAAACCCTAACCTAATTTAA
*
17434620 CTTAAAAACCCT-AACCTAATTAACGTAAAAACCCTAACCTAATTTAA
1 -TTAAAAACCCTAAACCT-A--AACTTAAAAACCCTAACCTAATTTAA
* *
17434667 TTAAAAACTCTAAACTCTAAACTTAAAAACCCTAACCTAATTAAA
1 TTAAAAACCCTAAAC-CTAAACTTAAAAACCCTAACCTAATTTAA
* *
17434712 TTAAAAACCATAAACCCTAAACTTAAAAACTCTAACCTAATTTAA
1 TTAAAAACCCTAAA-CCTAAACTTAAAAACCCTAACCTAATTTAA
** ***
17434757 TTAAAAACTTTAAACCCTAAACTTAAAAACCCTAACC-CCCTTAA
1 TTAAAAACCCTAAA-CCTAAACTTAAAAACCCTAACCTAATTTAA
* *
17434801 CTTAAAAACCACCT-AA--TTAACTTAAAAACCCTAACCTAATTAAA
1 -TTAAAAA-C-CCTAAACCTAAACTTAAAAACCCTAACCTAATTTAA
* **
17434845 TTAAAAACCTTAAACCCTAAACTTAAAAACCCTAACCCCA-TTAA
1 TTAAAAACCCTAAA-CCTAAACTTAAAAACCCTAACCTAATTTAA
*
17434889 CTTAAAAACCCT-AACCTAATTAAATTAAAAACCCTAACCTAATTTAA
1 -TTAAAAACCCTAAACCT-A--AACTTAAAAACCCTAACCTAATTTAA
17434936 TTAAAAACCCTAAA-CTAAA-TTAA
1 TTAAAAACCCTAAACCTAAACTTAA
17434959 TAATTTTACT
Statistics
Matches: 520, Mismatches: 56, Indels: 72
0.80 0.09 0.11
Matches are distributed among these distances:
41 2 0.00
42 7 0.01
43 40 0.08
44 25 0.05
45 278 0.53
46 134 0.26
47 24 0.05
48 10 0.02
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (44 bp):
TTAAAAACCCTAAACCTAAACTTAAAAACCCTAACCTAATTTAA
Found at i:17434442 original size:68 final size:65
Alignment explanation
Indices: 17434256--17434958 Score: 528
Period size: 68 Copynumber: 10.4 Consensus size: 65
17434246 AATACCCTTA
* * *
17434256 AATTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCT-A--AACTTAAAAACCCTAACC
1 AATTAAAAACCCTAACCTAA---ACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACC
***
17434318 CCCTT
61 TAATT
*
17434323 AACTTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACTCTAACCT
1 AA-TTAAAAACCCTAACCT-A--AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCT
17434388 AATTT
62 AA-TT
* *
17434393 AATTAAAAACCCTAAATCCTAAACTTAAAAATCCTAACCTAATTTAATTAAAAACCCTAAACCTT
1 AATTAAAAACCCT-AA-CCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AACC-T
17434458 AA--
62 AATT
* * *
17434460 ACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACC---TTAAACTTAAAAACCCTAATC
1 AATTAAAAACCCTAACCT-A--AACTTAAAAACCCT-AACCTAATTAAA-TTAAAAACCCTAACC
17434522 TAATTT
61 TAA-TT
* *
17434528 AATTAAAAACTCTAACCTAATTTAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCC
1 AATTAAAAACCCTAACCTAA---ACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CC
17434593 TAA--
61 TAATT
* * * **
17434596 ACTTAAAAACGCTAACCCCCTTAACTTAAAAACCCTAACCTAATTAACGTAAAAACCCTAACCTA
1 AATTAAAAACCCTAA---CCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTA
17434661 ATTT
63 A-TT
* *
17434665 AATTAAAAACTCTAAACTCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCATAAACCCT
1 AATTAAAAACCCT-AAC-CTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCT
17434730 AA--
62 AATT
* * * ** *
17434732 ACTTAAAAACTCTAACCTAATTTAATTAAAAACTTTAAACCCT-A--AACTTAAAAACCCTAACC
1 AATTAAAAACCCTAACCTAA---ACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACC
***
17434794 CCCTT
61 TAATT
* *
17434799 AACTTAAAAACCACCTAA--TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCTTAAACCC
1 AA-TTAAAAA-C-CCTAACCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CC
17434862 TAA--
61 TAATT
* *
17434865 ACTTAAAAACCCTAACCCCATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTA
1 AATTAAAAACCCTAA--CC-TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTA
17434930 ATTT
63 A-TT
*
17434934 AATTAAAAACCCTAAACTAAA-TTAA
1 AATTAAAAACCCTAACCTAAACTTAA
17434959 TAATTTTACT
Statistics
Matches: 520, Mismatches: 55, Indels: 124
0.74 0.08 0.18
Matches are distributed among these distances:
63 8 0.02
64 4 0.01
65 34 0.07
66 44 0.08
67 66 0.13
68 243 0.47
69 78 0.15
70 31 0.06
71 12 0.02
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (65 bp):
AATTAAAAACCCTAACCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATT
Found at i:17435075 original size:116 final size:116
Alignment explanation
Indices: 17434953--17435196 Score: 400
Period size: 116 Copynumber: 2.1 Consensus size: 116
17434943 CCCTAAACTA
* ** *
17434953 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATG-TTTTGACTGATACTAACAAT
*
17435018 TAATAATTTTATAAAATTTGATAA-TTATACTAATCATTAATACAATTTATC
65 TAATAATTTTATAAAATTTGATAATTTATACTAACCATTAATACAATTTATC
*
17435069 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGATATTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGATACTAACAATT
* *
17435134 AATAATTTTATATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
66 AATAATTTTATAAAATTTGATAATTTATACTAACCATTAATACAATTTATC
17435185 AATTAATAATTT
1 AATTAATAATTT
17435197 CACAAACTTA
Statistics
Matches: 119, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
115 39 0.33
116 80 0.67
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.44
Consensus pattern (116 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGATACTAACAATT
AATAATTTTATAAAATTTGATAATTTATACTAACCATTAATACAATTTATC
Found at i:17438457 original size:124 final size:124
Alignment explanation
Indices: 17438203--17438578 Score: 529
Period size: 124 Copynumber: 3.0 Consensus size: 124
17438193 CCCAAACATG
* * *
17438203 CTACTGTAGCAAAAGCGCATCCACAAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGTGCGTCCACGAGGGCGCGATTTT-ACAAATTCTTCTCAAATAGCATCCTG
* * *
17438268 CTAGAAGCGATTTTATACTATTTGCTCAAAAACATC-AAAAAATTTATTTCTTCCATGAC
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
* * * *
17438327 CGACTGTAGCAAAAGTACGTCCACGAGGGTGCGATTTTACAAATTCTTCTCAAATAGCATCCTAC
1 CTACTGTAGCAAAAGTGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGC
* * *
17438392 TAGAAGTGCTTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCGATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
* * * *
17438451 CTACTGTAGCCAAAGTGCGTCCACGAGGGCGCGATTTCACAAATTTTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGTGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGC
* *** *
17438516 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAACTCGAAATTATTTCTTCCAAGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA-AAAAAATTATTTCTTCCATGAC
17438576 CTA
1 CTA
17438579 AAAACCCTAA
Statistics
Matches: 221, Mismatches: 29, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
123 57 0.26
124 144 0.65
125 20 0.09
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.30
Consensus pattern (124 bp):
CTACTGTAGCAAAAGTGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
Found at i:17440364 original size:27 final size:26
Alignment explanation
Indices: 17440334--17440384 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
17440324 ATTAATTATG
17440334 TTAAATAATATTAAAACCTAAGTAATA
1 TTAAATAATATT-AAACCTAAGTAATA
*
17440361 TTAAATAATATTAAACTTAAGTAA
1 TTAAATAATATTAAACCTAAGTAA
17440385 CAAAAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.35
Consensus pattern (26 bp):
TTAAATAATATTAAACCTAAGTAATA
Found at i:17445128 original size:13 final size:14
Alignment explanation
Indices: 17445109--17445141 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
17445099 GGTCAAAAAC
*
17445109 ATTTTTTTCTTTTT
1 ATTTTTTTATTTTT
17445123 -TTTTTTTATTTTT
1 ATTTTTTTATTTTT
17445136 ATTTTT
1 ATTTTT
17445142 AAAATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (14 bp):
ATTTTTTTATTTTT
Found at i:17461965 original size:24 final size:24
Alignment explanation
Indices: 17461936--17462004 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
17461926 TTTCTAGAAG
17461936 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGTATTTATTAGTATAATAT
* ** *
17461960 ATTTAGCATAAATTAGCATAATAT
1 ATTTAGTATTTATTAGTATAATAT
17461984 ATTT-GTCATTTATTAGTATAA
1 ATTTAGT-ATTTATTAGTATAA
17462005 AAATCTTTGT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
23 1 0.03
24 35 0.97
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (24 bp):
ATTTAGTATTTATTAGTATAATAT
Found at i:17465761 original size:40 final size:40
Alignment explanation
Indices: 17465707--17465828 Score: 149
Period size: 40 Copynumber: 3.0 Consensus size: 40
17465697 AAATGAAGAA
* * * *
17465707 GTGCCTCTGTTTGTACTTCGATACCCTTGTTTGCACATTA-
1 GTGCCTCTGTTTGTAATTCGGTACCCCTGATTGCAC-TTAC
* *
17465747 GTGCAC-CTGTTTGTATTTCGGTACCCCTAATTGCACTTAC
1 GTGC-CTCTGTTTGTAATTCGGTACCCCTGATTGCACTTAC
*
17465787 GTGCCTCTGTTTGTAATTCGGTACCCCTGATTGCATTTAC
1 GTGCCTCTGTTTGTAATTCGGTACCCCTGATTGCACTTAC
17465827 GT
1 GT
17465829 ACCCTTGTCT
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
39 4 0.06
40 66 0.93
41 1 0.01
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.40
Consensus pattern (40 bp):
GTGCCTCTGTTTGTAATTCGGTACCCCTGATTGCACTTAC
Found at i:17465832 original size:20 final size:20
Alignment explanation
Indices: 17465767--17465832 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
17465757 TTGTATTTCG
* *
17465767 GTACCCCTAATTGCACTTAC
1 GTACCCCTGATTGCAATTAC
* * * *
17465787 GTGCCTCTGTTTGTAATT-C
1 GTACCCCTGATTGCAATTAC
*
17465806 GGTACCCCTGATTGCATTTAC
1 -GTACCCCTGATTGCAATTAC
17465827 GTACCC
1 GTACCC
17465833 TTGTCTATAC
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
19 1 0.03
20 31 0.94
21 1 0.03
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (20 bp):
GTACCCCTGATTGCAATTAC
Found at i:17465850 original size:40 final size:40
Alignment explanation
Indices: 17465763--17465851 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 40
17465753 CTGTTTGTAT
* * *
17465763 TTCGGTACCCCTAATTGCACTTACGTGCCTCTGTTTGTAA
1 TTCGGTACCCCTAATTGCACTTACGTCCCTCTGTCTATAA
* * *
17465803 TTCGGTACCCCTGATTGCATTTACGTACCCT-TGTCTATAC
1 TTCGGTACCCCTAATTGCACTTACGT-CCCTCTGTCTATAA
*
17465843 TTTGGTACC
1 TTCGGTACC
17465852 GCACATATGT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 38 0.93
41 3 0.07
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.38
Consensus pattern (40 bp):
TTCGGTACCCCTAATTGCACTTACGTCCCTCTGTCTATAA
Found at i:17474325 original size:447 final size:447
Alignment explanation
Indices: 17473491--17474388 Score: 1607
Period size: 447 Copynumber: 2.0 Consensus size: 447
17473481 GCTGCTTTCA
*
17473491 AACTATCTCGGATCACTTTTACTTTTTCTTCAGTCTCACGTATCAAATTAACCACGTGTATCTTT
1 AACTATCTCGGATCACTTTTACTTTTTCTTCAGTCTCACGAATCAAATTAACCACGTGTATCTTT
17473556 TTCTCACTGATCTCAGTCTAGTGTAACAGATTTTGGCATTTACGACCATACAGAGCTTCATACGG
66 TTCTCACTGATCTCAGTCTAGTGTAACAGATTTTGGCATTTACGACCATACAGAGCTTCATACGG
*
17473621 TGCCATCTTTACGCTCAACTGATAACTGTTATTTTATGTGAATTCAACCAATGGAAAATATTTCT
131 TGCCATCTTTACGCTCAACTGATAACTGTTATTTTACGTGAATTCAACCAATGGAAAATATTTCT
* *
17473686 CCGAGCTACGTTTGAACTCTAATACAAAACAAAAAAGCATATCCTCGAGTATCTAAATTACTCGC
196 CCCAGCTACGTTCGAACTCTAATACAAAACAAAAAAGCATATCCTCGAGTATCTAAATTACTCGC
* * *
17473751 TCAGACTGATCGTCAGTCTGAGGACGAAATGCAGTTCTAAAATGCAACCGCATACCAAGAGCTTC
261 TCAGACTAATCATCAGTCTGAGGACGAAATGCAGTTCCAAAATGCAACCGCATACCAAGAGCTTC
*
17473816 CTGTAACTTTTTCCAAAATCTTGACACAAATCACGGATCTCTATTCAAAATGATGGAAACTGGTA
326 CTGTAACTTTTTCCAAAATCTTGACACAAATCACGAATCTCTATTCAAAATGATGGAAACTGGTA
*
17473881 CTCCGTGCAATCTGACAATCTAATAAATGTATAATTCATCTAATCTCTCAAGGGAGT
391 CTCCGTGCAATCTGACAATCTAAGAAATGTATAATTCATCTAATCTCTCAAGGGAGT
**
17473938 AACTATCTCGTCTCACTTTTACTTTTTCTTCAGTCTCACGAATCAAATTAACCACGTGTATCTTT
1 AACTATCTCGGATCACTTTTACTTTTTCTTCAGTCTCACGAATCAAATTAACCACGTGTATCTTT
* *
17474003 TTCTCACTGATCTTAGTCTAGTGTAACAGATTTTGGCATTTACGACCATACAGAGCTTCATATGG
66 TTCTCACTGATCTCAGTCTAGTGTAACAGATTTTGGCATTTACGACCATACAGAGCTTCATACGG
*
17474068 TGCCATCTTTACGCTCGACTGATAACTGTTATTTTACGTGAATTCAACCAATGGAAAATATTTCT
131 TGCCATCTTTACGCTCAACTGATAACTGTTATTTTACGTGAATTCAACCAATGGAAAATATTTCT
* * *
17474133 CCCAGCTGCGTTCGAACTCTAATACATAACAACAAAGCATATCCTCGAGTATCTAAATTACTCGC
196 CCCAGCTACGTTCGAACTCTAATACAAAACAAAAAAGCATATCCTCGAGTATCTAAATTACTCGC
* * *
17474198 TCAGACTAATCATCGGTCTGAGGATGAAATTCAGTTCCAAAATGCAACCGCATACCAAGAGCTTC
261 TCAGACTAATCATCAGTCTGAGGACGAAATGCAGTTCCAAAATGCAACCGCATACCAAGAGCTTC
*
17474263 CTGTAACTTTTTCCAAAATCTTGACACAAATCGCGAATCTCTATTCAAAATGATGGAAACTGGTA
326 CTGTAACTTTTTCCAAAATCTTGACACAAATCACGAATCTCTATTCAAAATGATGGAAACTGGTA
17474328 CTCCGTGCAATCTGACAATCTAAGAAATGTATAATTCATCTAATCTCTCAAGGGAGT
391 CTCCGTGCAATCTGACAATCTAAGAAATGTATAATTCATCTAATCTCTCAAGGGAGT
17474385 AACT
1 AACT
17474389 TGTCCGTACC
Statistics
Matches: 430, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
447 430 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (447 bp):
AACTATCTCGGATCACTTTTACTTTTTCTTCAGTCTCACGAATCAAATTAACCACGTGTATCTTT
TTCTCACTGATCTCAGTCTAGTGTAACAGATTTTGGCATTTACGACCATACAGAGCTTCATACGG
TGCCATCTTTACGCTCAACTGATAACTGTTATTTTACGTGAATTCAACCAATGGAAAATATTTCT
CCCAGCTACGTTCGAACTCTAATACAAAACAAAAAAGCATATCCTCGAGTATCTAAATTACTCGC
TCAGACTAATCATCAGTCTGAGGACGAAATGCAGTTCCAAAATGCAACCGCATACCAAGAGCTTC
CTGTAACTTTTTCCAAAATCTTGACACAAATCACGAATCTCTATTCAAAATGATGGAAACTGGTA
CTCCGTGCAATCTGACAATCTAAGAAATGTATAATTCATCTAATCTCTCAAGGGAGT
Found at i:17480489 original size:21 final size:21
Alignment explanation
Indices: 17480453--17480508 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
17480443 GCACACTCAA
* *
17480453 ATGCATCCAAAACAAAGCCAG
1 ATGCATCCACAACAAAACCAG
* *
17480474 ATGCATCCACACCAAAATCAG
1 ATGCATCCACAACAAAACCAG
*
17480495 ATGCAGCCACAACA
1 ATGCATCCACAACA
17480509 CTTTTCAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.45, C:0.32, G:0.12, T:0.11
Consensus pattern (21 bp):
ATGCATCCACAACAAAACCAG
Found at i:17488162 original size:30 final size:30
Alignment explanation
Indices: 17488126--17488200 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
17488116 ATGGTTGTCA
*
17488126 CCATCCCTTTTCATAATTTGATAACCAAAG
1 CCATCCCTTTTCATAATTCGATAACCAAAG
* * *
17488156 CTATCCCTTTTCATAGTTCGATAACCGAAG
1 CCATCCCTTTTCATAATTCGATAACCAAAG
17488186 CCATCCCTTTTCATA
1 CCATCCCTTTTCATA
17488201 TTTAGATGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.35
Consensus pattern (30 bp):
CCATCCCTTTTCATAATTCGATAACCAAAG
Found at i:17488171 original size:90 final size:90
Alignment explanation
Indices: 17488026--17488229 Score: 254
Period size: 90 Copynumber: 2.3 Consensus size: 90
17488016 GTAATAATAC
* ** *
17488026 GATGGTTGAC-CCATCCCTTTT-AGTAATTCGATAACTGAAGTTATACCTTTTCATAGTTC-AAA
1 GATGGTTGTCACCATCCCTTTTCA-TAATTCGATAACCAAAGCTATACCTTTTCATAGTTCGAAA
*
17488088 AGCCAAAGCTATCCCTTTTCATAATTT-
65 A-CCAAAGCCATCCCTTTTCAT-ATTTA
* * *
17488115 GATGGTTGTCACCATCCCTTTTCATAATTTGATAACCAAAGCTATCCCTTTTCATAGTTCGATAA
1 GATGGTTGTCACCATCCCTTTTCATAATTCGATAACCAAAGCTATACCTTTTCATAGTTCGAAAA
*
17488180 CCGAAGCCATCCCTTTTCATATTTA
66 CCAAAGCCATCCCTTTTCATATTTA
* *
17488205 GATGGTCGTCAGCATCCCTTTTCAT
1 GATGGTTGTCACCATCCCTTTTCAT
17488230 TGTTGATGGT
Statistics
Matches: 100, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
89 13 0.13
90 83 0.83
91 4 0.04
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (90 bp):
GATGGTTGTCACCATCCCTTTTCATAATTCGATAACCAAAGCTATACCTTTTCATAGTTCGAAAA
CCAAAGCCATCCCTTTTCATATTTA
Found at i:17488249 original size:29 final size:30
Alignment explanation
Indices: 17488186--17488259 Score: 98
Period size: 29 Copynumber: 2.5 Consensus size: 30
17488176 ATAACCGAAG
*
17488186 CCATCCCTTTTCATATTTAGATGGTCGTCA
1 CCATCCCTTTTCATATTTAGATGGTCATCA
*
17488216 GCATCCCTTTTCAT-TGTT-GATGGTCATCA
1 CCATCCCTTTTCATAT-TTAGATGGTCATCA
*
17488245 CCATCCCTTCTCATA
1 CCATCCCTTTTCATA
17488260 ATTGTTAGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 23 0.61
30 15 0.39
ACGTcount: A:0.19, C:0.30, G:0.12, T:0.39
Consensus pattern (30 bp):
CCATCCCTTTTCATATTTAGATGGTCATCA
Found at i:17490590 original size:27 final size:27
Alignment explanation
Indices: 17490551--17490834 Score: 298
Period size: 27 Copynumber: 10.5 Consensus size: 27
17490541 GATTCATGGG
* * *
17490551 AAAATGACAGAAATGCCCTTGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
17490578 AAAATGACTGAAATACCCTTGAATGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
17490605 AAAATGACCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * * * *
17490632 AAAATGATCGAAATGCCCCCAAATGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
17490659 AAAATGACCAAAATACCCTTGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
17490686 AAAATGACCAAAATACCCCCAAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
17490713 AACATGACCAAAATACCCCCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
17490740 AAAATTATCGAAATACCCTCGAAAGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * **
17490767 AAAATGACCAAAATATCCTTAAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
** * *
17490794 AAAATGACTAAAATACCCCCGAAGGAT
1 AAAATGACCGAAATACCCTCGAAGGGT
17490821 AAAATGACCGAAAT
1 AAAATGACCGAAAT
17490835 GATCAAAATG
Statistics
Matches: 213, Mismatches: 44, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 213 1.00
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (27 bp):
AAAATGACCGAAATACCCTCGAAGGGT
Found at i:17490835 original size:36 final size:36
Alignment explanation
Indices: 17490795--17490868 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 36
17490785 TTAAAGGGTA
*
17490795 AAATGA-CTAAAATACCCCCGAAGGATAAAATGACCG
1 AAATGATC-AAAATACCCCCAAAGGATAAAATGACCG
* * * *
17490831 AAATGATCAAAATGCCCTCAAAGGGTAAAATGATCG
1 AAATGATCAAAATACCCCCAAAGGATAAAATGACCG
17490867 AA
1 AA
17490869 TACCCTCGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
36 31 0.97
37 1 0.03
ACGTcount: A:0.47, C:0.19, G:0.18, T:0.16
Consensus pattern (36 bp):
AAATGATCAAAATACCCCCAAAGGATAAAATGACCG
Found at i:17490854 original size:63 final size:62
Alignment explanation
Indices: 17490768--17490890 Score: 156
Period size: 63 Copynumber: 2.0 Consensus size: 62
17490758 TCGAAAGGTA
* *
17490768 AAATGACCAAAATATCCTTAAAGGGTAAAATGACTAAAATACCCCCGAAGGATAAAATGACCG
1 AAATGACCAAAATACCCTCAAAGGGTAAAATGA-TAAAATACCCCCGAAGGATAAAATGACCG
* * ** * * *
17490831 AAATGATCAAAATGCCCTCAAAGGGTAAAATGATCGAATACCCTCGTAGGGTAAAATGAC
1 AAATGACCAAAATACCCTCAAAGGGTAAAATGATAAAATACCCCCGAAGGATAAAATGAC
17490891 AGTTATAACC
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
62 22 0.43
63 29 0.57
ACGTcount: A:0.45, C:0.19, G:0.18, T:0.19
Consensus pattern (62 bp):
AAATGACCAAAATACCCTCAAAGGGTAAAATGATAAAATACCCCCGAAGGATAAAATGACCG
Found at i:17511492 original size:27 final size:26
Alignment explanation
Indices: 17511443--17511719 Score: 252
Period size: 27 Copynumber: 10.3 Consensus size: 26
17511433 ATTCATGGGC
* *
17511443 AAATGACCGAAATGCCCTTGAAGGGTA
1 AAATGACCGAAAT-ACCTCGAAGGGTA
*
17511470 AAATGACCGGAATACACTCGAAGGGTA
1 AAATGACCGAAATAC-CTCGAAGGGTA
* *
17511497 AAATGATCGAAATACCCCTGAAGGGTA
1 AAATGACCGAAATACCTC-GAAGGGTA
* **
17511524 AAATGATCGAAATACCCTTTAAGGGTA
1 AAATGACCGAAATA-CCTCGAAGGGTA
* *
17511551 AAATGAACGAAATACCCTCGAAGAGTA
1 AAATGACCGAAATA-CCTCGAAGGGTA
**
17511578 AAATGATTGAAATATCCTCGAAGGGT-
1 AAATGACCGAAATA-CCTCGAAGGGTA
*
17511604 AAATGACCGAAATA-CTCCTAAAGGGTAA
1 AAATGACCGAAATACCT-C-GAAGGGT-A
* *
17511632 AAATGACCAAAATGCCTTCGAAGGGTA
1 AAATGACCGAAATACC-TCGAAGGGTA
* *
17511659 AAATGAACGAAATACCACTGAAGGGTA
1 AAATGACCGAAATACCTC-GAAGGGTA
* * *
17511686 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCTCGA-AGGGTA
17511713 AAATGAC
1 AAATGAC
17511720 TATTATACCC
Statistics
Matches: 208, Mismatches: 31, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
24 2 0.01
25 1 0.00
26 23 0.11
27 159 0.76
28 20 0.10
29 2 0.01
30 1 0.00
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (26 bp):
AAATGACCGAAATACCTCGAAGGGTA
Found at i:17511508 original size:54 final size:52
Alignment explanation
Indices: 17511443--17511718 Score: 302
Period size: 54 Copynumber: 5.1 Consensus size: 52
17511433 ATTCATGGGC
* * * *
17511443 AAATGACCGAAATGCCCTTGAAGGGTAAAATGACCGGAATACACTCGAAGGGTA
1 AAATGAACGAAATACCC-TGAAGGGTAAAATGATCGAAATAC-CTCGAAGGGTA
* **
17511497 AAATGATCGAAATACCCCTGAAGGGTAAAATGATCGAAATACCCTTTAAGGGTA
1 AAATGAACGAAATA-CCCTGAAGGGTAAAATGATCGAAATA-CCTCGAAGGGTA
* *
17511551 AAATGAACGAAATACCCTCGAAGAGTAAAATGATTGAAATATCCTCGAAGGGT-
1 AAATGAACGAAATACCCT-GAAGGGTAAAATGATCGAAATA-CCTCGAAGGGTA
* * * * *
17511604 AAATGACCGAAATACTCCTAAAGGGTAAAAATGACCAAAATGCCTTCGAAGGGTA
1 AAATGAACGAAATAC-CCTGAAGGGT-AAAATGATCGAAATACC-TCGAAGGGTA
* *
17511659 AAATGAACGAAATACCACTGAAGGGTAAAATGATCGAAATACCCCCATAGGGTA
1 AAATGAACGAAATACC-CTGAAGGGTAAAATGATCGAAATACCTCGA-AGGGTA
17511713 AAATGA
1 AAATGA
17511719 CTATTATACC
Statistics
Matches: 187, Mismatches: 26, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
53 27 0.14
54 134 0.72
55 26 0.14
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (52 bp):
AAATGAACGAAATACCCTGAAGGGTAAAATGATCGAAATACCTCGAAGGGTA
Found at i:17511579 original size:81 final size:81
Alignment explanation
Indices: 17511443--17511719 Score: 335
Period size: 81 Copynumber: 3.4 Consensus size: 81
17511433 ATTCATGGGC
* * * *
17511443 AAATGACCGAAATGCCCTTGAAGGGTAAAATGACCGGAATACACTCGAAGGGTAAAATGATCGAA
1 AAATGACCGAAATACCCTTAAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAA
17511508 ATACCCCTGAAGGGTA
66 ATACCCCTGAAGGGTA
* * * * *
17511524 AAATGATCGAAATACCCTTTAAGGGTAAAATGAACGAAATACCCTCGAAGAGTAAAATGATTGAA
1 AAATGACCGAAATACCCTTAAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAA
*
17511589 ATA-TCCTCGAAGGGT-
66 ATACCCCT-GAAGGGTA
* * * *
17511604 AAATGACCGAAATACTCC-TAAAGGGTAAAAATGACCAAAATGCCTTCGAAGGGTAAAATGAACG
1 AAATGACCGAAATAC-CCTTAAAGGGT-AAAATGACCGAAATACCCTCGAAGGGTAAAATGATCG
*
17511668 AAATACCACTGAAGGGTA
64 AAATACCCCTGAAGGGTA
* ** *
17511686 AAATGATCGAAATACCCCCATAGGGTAAAATGAC
1 AAATGACCGAAATACCCTTAAAGGGTAAAATGAC
17511720 TATTATACCC
Statistics
Matches: 167, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
80 24 0.14
81 121 0.72
82 22 0.13
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (81 bp):
AAATGACCGAAATACCCTTAAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAA
ATACCCCTGAAGGGTA
Found at i:17512144 original size:28 final size:28
Alignment explanation
Indices: 17512112--17512178 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
17512102 CTCACATTAC
*
17512112 ACTGTTACTGCTTAGGGCTAAGGCTCAG
1 ACTGTTACTGCTTAGGGCTAAGGCTCAA
*
17512140 ACTGTTACTACTTAGGGCTAAGGCTCAA
1 ACTGTTACTGCTTAGGGCTAAGGCTCAA
17512168 ACTGTTACTGC
1 ACTGTTACTGC
17512179 ATGTCGTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (28 bp):
ACTGTTACTGCTTAGGGCTAAGGCTCAA
Found at i:17514157 original size:168 final size:170
Alignment explanation
Indices: 17513826--17514165 Score: 467
Period size: 168 Copynumber: 2.0 Consensus size: 170
17513816 GGGGGGAAGT
* * *
17513826 TGTAACAGCCTGTTTTTCAGTGTTGTCGAAAATAATGGTTTCAGGGCCACAAACTTGACGAGTAA
1 TGTAACAGCCCGTTTTTCAGTGGTGTCGAAAATAATAGTTTCAGGGCCACAAACTTGACGAGTAA
*
17513891 GTTCATAAATATTATTATTTAATATTTACAAGTCAAACATGGTTTTAAAAAGGTTTTTGATTTAG
66 GTTCATAAATATTATTATTTAATATTTACAAGTCAAACA--GTATTAAAAAGGTTTTTGATTTAG
* * *
17513956 TGATTTATGTTATATGAATGATTTATTAAGTTCAAGTGGTAA
129 TAATTTATGTTATATGAACGATTTATAAAGTTCAAGTGGTAA
* *
17513998 TGTAACAGCCCGTTTTTCAGTGGTGTCGGAAATAGTAGTTTCAGGGCCACCAAA-TCTGACGAGT
1 TGTAACAGCCCGTTTTTCAGTGGTGTCGAAAATAATAGTTTCAGGGCCA-CAAACT-TGACGAGT
** **
17514062 AAGTTTGTAAATATTATTATTTAATATTTATGAGTC-AA-A-TATTAAAAAGGTTTTTGATTT-G
64 AAGTTCATAAATATTATTATTTAATATTTACAAGTCAAACAGTATTAAAAAGGTTTTTGATTTAG
17514123 ATAATTTATGTTATAT-AAGCGATTTATAAAGTTCAAGTGGTAA
129 -TAATTTATGTTATATGAA-CGATTTATAAAGTTCAAGTGGTAA
17514166 CACCCTAAGA
Statistics
Matches: 151, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
167 3 0.02
168 56 0.37
171 1 0.01
172 47 0.31
173 44 0.29
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (170 bp):
TGTAACAGCCCGTTTTTCAGTGGTGTCGAAAATAATAGTTTCAGGGCCACAAACTTGACGAGTAA
GTTCATAAATATTATTATTTAATATTTACAAGTCAAACAGTATTAAAAAGGTTTTTGATTTAGTA
ATTTATGTTATATGAACGATTTATAAAGTTCAAGTGGTAA
Found at i:17514466 original size:10 final size:10
Alignment explanation
Indices: 17514451--17514478 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
17514441 CCGTTTAAGT
17514451 TTTAATTTCC
1 TTTAATTTCC
17514461 TTTAATTTCC
1 TTTAATTTCC
17514471 TTTAATTT
1 TTTAATTT
17514479 GATATATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTAATTTCC
Found at i:17515517 original size:40 final size:40
Alignment explanation
Indices: 17515461--17515711 Score: 286
Period size: 40 Copynumber: 6.3 Consensus size: 40
17515451 ATACTCTCTA
* *
17515461 TTTGGCGTGTTCTGGTTGGATCAACTCTCATGAGCTTCTG
1 TTTGGCGTGTTTTGGTTGGATCAACTCTTATGAGCTTCTG
*
17515501 TTTGGCGTGTTTTGGTTGGATCAGCTCTTATGAGCTTCTG
1 TTTGGCGTGTTTTGGTTGGATCAACTCTTATGAGCTTCTG
* * *
17515541 TTTAGCGTGTTTTGGTTGAATCAGCTCTTATGAGCTTCTG
1 TTTGGCGTGTTTTGGTTGGATCAACTCTTATGAGCTTCTG
* * * * * * *
17515581 TTTAGTGTGTTTCGATCGGATCAACTCTTATGAGCTTTTA
1 TTTGGCGTGTTTTGGTTGGATCAACTCTTATGAGCTTCTG
* * *
17515621 TTTGGCATTTTTTGGTTGGATCAACTCTTATGAGCTTTTG
1 TTTGGCGTGTTTTGGTTGGATCAACTCTTATGAGCTTCTG
* ** * * *
17515661 TTTGGTGTGTTTCAGCTGGATCAACTCTTACGAGCCTCTG
1 TTTGGCGTGTTTTGGTTGGATCAACTCTTATGAGCTTCTG
* *
17515701 TCTGGTGTGTT
1 TTTGGCGTGTT
17515712 CGATTTATCT
Statistics
Matches: 180, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 180 1.00
ACGTcount: A:0.14, C:0.16, G:0.25, T:0.44
Consensus pattern (40 bp):
TTTGGCGTGTTTTGGTTGGATCAACTCTTATGAGCTTCTG
Found at i:17519306 original size:19 final size:20
Alignment explanation
Indices: 17519258--17519307 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
17519248 GAAAGTATAC
17519258 TAATGTTC-ATGAAATTGAT
1 TAATGTTCAATGAAATTGAT
*
17519277 T-AT-TTCAAATGAAGTTG-T
1 TAATGTTC-AATGAAATTGAT
17519295 TAATGTTCAATGA
1 TAATGTTCAATGA
17519308 CTTACCTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 3 0.12
18 4 0.15
19 16 0.62
20 3 0.12
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (20 bp):
TAATGTTCAATGAAATTGAT
Found at i:17528297 original size:51 final size:51
Alignment explanation
Indices: 17528221--17528441 Score: 200
Period size: 51 Copynumber: 4.4 Consensus size: 51
17528211 TATGAACACG
* * *
17528221 TGTGTAGTACTAAGTGCAGGCTACTACATGTATC-GATAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGAT-GACAATGGTCACA
* * * ** *
17528272 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATGACCTTGGTCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGACAATGGTCACA
* * * * * * *
17528323 TGTGTAGTACTATGTGCAGGCTAATATGTG-AACTAGA-AAGC-TTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATC-AGATGA-CAATGGTCACA
* *
17528373 TCTGTAGTACTATGTGTAGGCTACTACGTGTATCAGATGACAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGACAATGGTCACA
*
17528424 TCG-GTGGTACTATGTGCA
1 T-GTGTAGTACTATGTGCA
17528442 AACCACTAAA
Statistics
Matches: 138, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
50 41 0.30
51 94 0.68
52 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGACAATGGTCACA
Found at i:17528394 original size:50 final size:51
Alignment explanation
Indices: 17528274--17528395 Score: 156
Period size: 50 Copynumber: 2.4 Consensus size: 51
17528264 TGGTCACATG
* * * * * *
17528274 TGTAGTACTATGTGCAGGCTACTATGTGTACCGGATGACCTTGGTCACGTG
1 TGTAGTACTATGTGCAGGCTAATATGTGAACCAGATAACCTTGATCACGTC
* *
17528325 TGTAGTACTATGTGCAGGCTAATATGTGAACTAGA-AAGCTTGATCACGTC
1 TGTAGTACTATGTGCAGGCTAATATGTGAACCAGATAACCTTGATCACGTC
*
17528375 TGTAGTACTATGTGTAGGCTA
1 TGTAGTACTATGTGCAGGCTA
17528396 CTACGTGTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
50 31 0.50
51 31 0.50
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
TGTAGTACTATGTGCAGGCTAATATGTGAACCAGATAACCTTGATCACGTC
Found at i:17532273 original size:16 final size:15
Alignment explanation
Indices: 17532246--17532279 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
17532236 ATAACAAGTA
*
17532246 TATAATTATATTTAT
1 TATAATTATATTAAT
17532261 TATAATATATATTAAT
1 TATAAT-TATATTAAT
17532277 TAT
1 TAT
17532280 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:17541854 original size:16 final size:16
Alignment explanation
Indices: 17541833--17541864 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17541823 TGATTGAAAG
*
17541833 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
17541849 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
17541865 GCAACGAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:17549213 original size:74 final size:73
Alignment explanation
Indices: 17549012--17549260 Score: 254
Period size: 76 Copynumber: 3.4 Consensus size: 73
17549002 ATAAATATAC
* * * * * ** *
17549012 ATATTATTGATGTAAAATATAGTATAATACAATATAAACAATTTTTTCA-TTTCTCGTAGATTGT
1 ATATTATTGATATAAAATACAATAGAATACAATACAAACAATTTTTAAATTTTTTCGTAGATTGT
17549076 AAATAAGT
66 AAATAAGT
* ** * *
17549084 ATATTATT--TAAAAAGCATATGATAGAATACAATACAAAC-ATTTATTAATTTTTTTTTGTAGA
1 ATATTATTGATATAAA--ATACAATAGAATACAATACAAACAATTT-TTAA-ATTTTTTCGTAGA
17549146 TTGTAAATAAGTAT
62 TTGTAAATAAG--T
* * *
17549160 ATATTATTGATATAAAATACAAAAGAATGCAATACAAACAATTTTTAAATTTTTTTCTTAGATTG
1 ATATTATTGATATAAAATACAATAGAATACAATACAAACAATTTTTAAA-TTTTTTCGTAGATTG
17549225 TAAATAAGT
65 TAAATAAGT
*
17549234 ATATTATTGATGTAAAATACAATAGAA
1 ATATTATTGATATAAAATACAATAGAA
17549261 AGACTTTTTT
Statistics
Matches: 145, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
70 4 0.03
71 4 0.03
72 29 0.20
74 46 0.32
76 53 0.37
77 4 0.03
78 5 0.03
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (73 bp):
ATATTATTGATATAAAATACAATAGAATACAATACAAACAATTTTTAAATTTTTTCGTAGATTGT
AAATAAGT
Found at i:17550298 original size:25 final size:25
Alignment explanation
Indices: 17550253--17550425 Score: 172
Period size: 25 Copynumber: 7.0 Consensus size: 25
17550243 GTCATTAGGG
* * *
17550253 TTACCGAT-TTCAGCTCTTATGAGC
1 TTACCGTTATTCAGCTCGTAGGAGC
* * *
17550277 TTACCGATACTCAGCTCGTATGAGC
1 TTACCGTTATTCAGCTCGTAGGAGC
* * *
17550302 TTACCGTTATTCAGCTTGGAGGAGT
1 TTACCGTTATTCAGCTCGTAGGAGC
*
17550327 TTACCGTTATTCAGCTCGAAGGAGC
1 TTACCGTTATTCAGCTCGTAGGAGC
* *
17550352 TTACTGTTATTCAGCTCGAAGGAGC
1 TTACCGTTATTCAGCTCGTAGGAGC
* *
17550377 TTACCGTTATTTAGCTCAG-AAGAGC
1 TTACCGTTATTCAGCTC-GTAGGAGC
* *
17550402 TTACCGTT-TACAGCTCGTATGAGC
1 TTACCGTTATTCAGCTCGTAGGAGC
17550426 ATACATGTAC
Statistics
Matches: 128, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
23 1 0.01
24 19 0.15
25 107 0.84
26 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (25 bp):
TTACCGTTATTCAGCTCGTAGGAGC
Found at i:17552435 original size:25 final size:26
Alignment explanation
Indices: 17552407--17552457 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
17552397 TTTCTCATCC
*
17552407 CAATTTTA-TCCCGATAAAATTTTGA
1 CAATTTTACCCCCGATAAAATTTTGA
*
17552432 CAATTTTACCCCCGGTAAAATTTTGA
1 CAATTTTACCCCCGATAAAATTTTGA
17552458 GAAAATTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (26 bp):
CAATTTTACCCCCGATAAAATTTTGA
Found at i:17557606 original size:23 final size:23
Alignment explanation
Indices: 17557580--17557701 Score: 190
Period size: 23 Copynumber: 5.3 Consensus size: 23
17557570 ATAAGTGCCA
17557580 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
17557603 CACTGATACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
17557626 CACTAAAATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
17557649 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
17557672 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
17557695 CACTGAT
1 CACTGAT
17557702 CAATAACACT
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 87 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:17557953 original size:18 final size:17
Alignment explanation
Indices: 17557927--17557965 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
17557917 ATTTTCCTTC
17557927 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
17557944 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
17557962 CACA
1 CACA
17557966 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:17560298 original size:21 final size:22
Alignment explanation
Indices: 17560264--17560304 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
17560254 AGTGAAATAG
17560264 ATTTTAGTAAAATTA-AACACA
1 ATTTTAGTAAAATTATAACACA
17560285 ATTTT-GTAACAATTATAACA
1 ATTTTAGTAA-AATTATAACA
17560305 TAAATAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.37
Consensus pattern (22 bp):
ATTTTAGTAAAATTATAACACA
Found at i:17561121 original size:34 final size:34
Alignment explanation
Indices: 17561076--17561145 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
17561066 GAGGGGGAAA
* *
17561076 GATAGCTAAGAGATTTGAGAGATGAGAGAATGAT
1 GATAGCAAAGAGATTTGAGAGAGGAGAGAATGAT
17561110 GATAGCAAAGAGATTTGAGAGAGGAGAGAATGAT
1 GATAGCAAAGAGATTTGAGAGAGGAGAGAATGAT
17561144 GA
1 GA
17561146 ATGAGTGAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.43, C:0.03, G:0.34, T:0.20
Consensus pattern (34 bp):
GATAGCAAAGAGATTTGAGAGAGGAGAGAATGAT
Found at i:17564991 original size:5 final size:5
Alignment explanation
Indices: 17564983--17565008 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
17564973 GAGATGGAAT
17564983 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
17565009 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Done.