Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 241 of 356
Found at i:79284647 original size:19 final size:19
Alignment explanation
Indices: 79284623--79284662 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
79284613 AGCTCCCATG
79284623 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
79284642 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
79284661 TA
1 TA
79284663 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:79285820 original size:30 final size:30
Alignment explanation
Indices: 79285758--79285820 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
79285748 TTTAACTTGA
*
79285758 TTTTTTTTGCTCACCTTTTTTTCTTTTCTT
1 TTTTTTTTGCTCACCTTTTTTTCCTTTCTT
*
79285788 TTTTTTTTGCTCGA-TTTTTTTTCACTTT-TT
1 TTTTTTTTGCTC-ACCTTTTTTTC-CTTTCTT
79285818 TTT
1 TTT
79285821 GAATTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.75
Consensus pattern (30 bp):
TTTTTTTTGCTCACCTTTTTTTCCTTTCTT
Found at i:79287368 original size:10 final size:10
Alignment explanation
Indices: 79287353--79287390 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
79287343 TTGGGTTAAG
79287353 ATTGAGCTGA
1 ATTGAGCTGA
79287363 ATTGAGCTCGA
1 ATTGAGCT-GA
79287374 A-TGAGCTGA
1 ATTGAGCTGA
*
79287383 CTTGAGCT
1 ATTGAGCT
79287391 TGAGTGAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 20 0.80
11 3 0.12
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:79287378 original size:20 final size:20
Alignment explanation
Indices: 79287355--79287401 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
79287345 GGGTTAAGAT
79287355 TGAGCTGAATTGAGCTCGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
79287375 TGAGCTGACTTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAA
79287395 TGAGCTG
1 TGAGCTG
79287402 GAAACGAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.34, T:0.28
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:79288934 original size:6 final size:6
Alignment explanation
Indices: 79288923--79288948 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
79288913 CTAAGTAAAT
79288923 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
79288949 CTTTACAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:79290346 original size:23 final size:22
Alignment explanation
Indices: 79290294--79290346 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
79290284 TCCACGTCTT
*
79290294 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
79290316 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
79290339 TTTCTTTT
1 TTTCTTTT
79290347 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:79293171 original size:8 final size:8
Alignment explanation
Indices: 79293158--79293200 Score: 59
Period size: 8 Copynumber: 5.0 Consensus size: 8
79293148 TTATACAAGT
79293158 TAAAAAAA
1 TAAAAAAA
79293166 TAAAAAAAA
1 T-AAAAAAA
79293175 TCAAAAAAAA
1 T--AAAAAAA
79293185 TAAAAAAA
1 TAAAAAAA
79293193 TAAAAAAA
1 TAAAAAAA
79293201 GTGATTTATG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 16 0.48
9 8 0.24
10 9 0.27
ACGTcount: A:0.86, C:0.02, G:0.00, T:0.12
Consensus pattern (8 bp):
TAAAAAAA
Found at i:79293171 original size:9 final size:9
Alignment explanation
Indices: 79293159--79293200 Score: 68
Period size: 9 Copynumber: 4.7 Consensus size: 9
79293149 TATACAAGTT
79293159 AAAAAAATA
1 AAAAAAATA
79293168 AAAAAAATCA
1 AAAAAAAT-A
79293178 AAAAAAAT-
1 AAAAAAATA
79293186 AAAAAAATA
1 AAAAAAATA
79293195 AAAAAA
1 AAAAAA
79293201 GTGATTTATG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.26
9 14 0.45
10 9 0.29
ACGTcount: A:0.88, C:0.02, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAAATA
Found at i:79297386 original size:15 final size:15
Alignment explanation
Indices: 79297366--79297413 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
79297356 TCAAAGATGG
79297366 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
79297381 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
79297395 GTTTATGGATATAAA
1 GTTTATGGATATGAA
79297410 GTTT
1 GTTT
79297414 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:79297400 original size:14 final size:14
Alignment explanation
Indices: 79297360--79297403 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
79297350 AAGGATTCAA
79297360 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
79297374 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
79297389 AGATGGGTTTATGG
1 AGATGGGTTTATGG
79297403 A
1 A
79297404 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:79297429 original size:29 final size:29
Alignment explanation
Indices: 79297360--79297419 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
79297350 AAGGATTCAA
*
79297360 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
79297389 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
79297418 AG
1 AG
79297420 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:79298428 original size:14 final size:14
Alignment explanation
Indices: 79298386--79298430 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
79298376 TTAAAGAAGC
79298386 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
79298400 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
79298413 AACTCATTTAATTA
1 AACTCATTAAATTA
79298427 AACT
1 AACT
79298431 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:79300930 original size:18 final size:18
Alignment explanation
Indices: 79300909--79300951 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
79300899 TTTTCATTCC
* *
79300909 CTTTTTCAATCTCATTTT
1 CTTTTTCAATCTCAATCT
*
79300927 CTTTTTCACTCTCAATCT
1 CTTTTTCAATCTCAATCT
79300945 CTTTTTC
1 CTTTTTC
79300952 TTTTTCTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
CTTTTTCAATCTCAATCT
Found at i:79302028 original size:22 final size:22
Alignment explanation
Indices: 79301996--79302043 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
79301986 TATGTTCAAA
*
79301996 TTTTCAGATTTTGTTTGTTATTT
1 TTTTCAGATTTTGTTTG-AATTT
*
79302019 TTTTCA-ATTTTTTTTGAATTT
1 TTTTCAGATTTTGTTTGAATTT
79302040 TTTT
1 TTTT
79302044 TAAAACTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
22 9 0.39
23 6 0.26
ACGTcount: A:0.15, C:0.04, G:0.08, T:0.73
Consensus pattern (22 bp):
TTTTCAGATTTTGTTTGAATTT
Found at i:79303607 original size:20 final size:19
Alignment explanation
Indices: 79303584--79303648 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
79303574 AAGCTCAAAC
79303584 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
79303604 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
79303624 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
79303644 GAGCT
1 GAGCT
79303649 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:79304921 original size:17 final size:18
Alignment explanation
Indices: 79304899--79304932 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
79304889 ACAACACTCC
*
79304899 TTTCTT-CTTCACTCTCG
1 TTTCTTCCTTCAATCTCG
79304916 TTTCTTCCTTCAATCTC
1 TTTCTTCCTTCAATCTC
79304933 ACTCTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.35, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTCTTCCTTCAATCTCG
Found at i:79305967 original size:10 final size:9
Alignment explanation
Indices: 79305954--79305989 Score: 54
Period size: 10 Copynumber: 3.8 Consensus size: 9
79305944 CTTTTCACTT
79305954 TTTTTTGTTC
1 TTTTTT-TTC
79305964 TTTTTTTTAC
1 TTTTTTTT-C
79305974 TTTTTTTTC
1 TTTTTTTTC
79305983 TTTTTTT
1 TTTTTTT
79305990 GCTCACTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 10 0.40
10 15 0.60
ACGTcount: A:0.03, C:0.08, G:0.03, T:0.86
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:79305975 original size:22 final size:21
Alignment explanation
Indices: 79305945--79306009 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
79305935 CTCACAAGAC
*
79305945 TTTTCACTTTTTTTTGTTCTTT
1 TTTTCACTTTTTTTTCTT-TTT
*
79305967 TTTTTACTTTTTTTTCTTTTT
1 TTTTCACTTTTTTTTCTTTTT
* *
79305988 TTGCTCACTTCTTTTT-TTTTT
1 TT-TTCACTTTTTTTTCTTTTT
79306009 T
1 T
79306010 GAATTTCGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 11 0.30
22 26 0.70
ACGTcount: A:0.05, C:0.14, G:0.03, T:0.78
Consensus pattern (21 bp):
TTTTCACTTTTTTTTCTTTTT
Found at i:79307666 original size:20 final size:19
Alignment explanation
Indices: 79307643--79307707 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
79307633 AAGCTCAAAC
79307643 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
79307663 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
79307683 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
79307703 GAGCT
1 GAGCT
79307708 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:79307990 original size:15 final size:15
Alignment explanation
Indices: 79307970--79308017 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
79307960 TCAAAGATGG
79307970 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
79307985 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
79307999 GTTTATGGATATAAA
1 GTTTATGGATATGAA
79308014 GTTT
1 GTTT
79308018 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:79308004 original size:14 final size:14
Alignment explanation
Indices: 79307964--79308007 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
79307954 AAGGATTCAA
79307964 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
79307978 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
79307993 AGATGGGTTTATGG
1 AGATGGGTTTATGG
79308007 A
1 A
79308008 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:79308033 original size:29 final size:29
Alignment explanation
Indices: 79307964--79308023 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
79307954 AAGGATTCAA
*
79307964 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
79307993 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
79308022 AG
1 AG
79308024 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:79309032 original size:14 final size:14
Alignment explanation
Indices: 79308990--79309034 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
79308980 TTAAAGAAGC
79308990 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
79309004 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
79309017 AACTCATTTAATTA
1 AACTCATTAAATTA
79309031 AACT
1 AACT
79309035 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:79310614 original size:19 final size:19
Alignment explanation
Indices: 79310590--79310629 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
79310580 AGCTCCCATG
79310590 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
79310609 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
79310628 TA
1 TA
79310630 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:79311858 original size:14 final size:14
Alignment explanation
Indices: 79311836--79311883 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
79311826 ACCTAAACCG
* *
79311836 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
79311850 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
79311864 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
79311878 ACCATT
1 ACCATT
79311884 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:79313717 original size:17 final size:18
Alignment explanation
Indices: 79313697--79313735 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
79313687 TGCACACACA
*
79313697 AATTACTTCAG-CACATT
1 AATTAATTCAGACACATT
*
79313714 AATTAATTTAGACACATT
1 AATTAATTCAGACACATT
79313732 AATT
1 AATT
79313736 TCAATTGCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTAATTCAGACACATT
Found at i:79314512 original size:11 final size:11
Alignment explanation
Indices: 79314489--79314517 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
79314479 GTTGTAAAGT
79314489 TTTATTT-TTA
1 TTTATTTATTA
79314499 TTTATTTATTA
1 TTTATTTATTA
79314510 TTTATTTA
1 TTTATTTA
79314518 CTTAGTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:79316141 original size:20 final size:19
Alignment explanation
Indices: 79316118--79316182 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
79316108 AAGCTCAAAC
79316118 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
79316138 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
79316158 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
79316178 GAGCT
1 GAGCT
79316183 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:79317455 original size:17 final size:18
Alignment explanation
Indices: 79317433--79317466 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
79317423 ACAACACTCC
*
79317433 TTTCTT-CTTCACTCTCG
1 TTTCTTCCTTCAATCTCG
79317450 TTTCTTCCTTCAATCTC
1 TTTCTTCCTTCAATCTC
79317467 ACTCTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.35, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTCTTCCTTCAATCTCG
Found at i:79318547 original size:15 final size:15
Alignment explanation
Indices: 79318511--79318552 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
79318501 TTTTTAACTT
*
79318511 GATTTTTTTTTGGTC
1 GATTTTTTTTTGCTC
79318526 -ACCTTTTTTTTTGCTC
1 GA--TTTTTTTTTGCTC
79318542 GATTTTTTTTT
1 GATTTTTTTTT
79318553 CACTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
14 1 0.04
15 9 0.39
16 12 0.52
17 1 0.04
ACGTcount: A:0.07, C:0.12, G:0.12, T:0.69
Consensus pattern (15 bp):
GATTTTTTTTTGCTC
Found at i:79318559 original size:12 final size:12
Alignment explanation
Indices: 79318543--79318580 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
79318533 TTTTTGCTCG
79318543 ATTTTTTTTTCA
1 ATTTTTTTTTCA
* *
79318555 CTTTTTTTTTGA
1 ATTTTTTTTTCA
79318567 ATTTTTTTTTCA
1 ATTTTTTTTTCA
79318579 AT
1 AT
79318581 CAATTTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (12 bp):
ATTTTTTTTTCA
Found at i:79320240 original size:20 final size:19
Alignment explanation
Indices: 79320217--79320281 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
79320207 AAGCTCAAAC
79320217 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
79320237 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
79320257 AAGCTTATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
79320277 GAGCT
1 GAGCT
79320282 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:79322629 original size:18 final size:18
Alignment explanation
Indices: 79322608--79322646 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
79322598 GATTGAGAGT
* *
79322608 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
79322626 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
79322644 GAA
1 GAA
79322647 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:79325454 original size:16 final size:16
Alignment explanation
Indices: 79325433--79325464 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
79325423 TAATGTGTTT
79325433 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
79325449 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
79325465 ATGCAGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.25, T:0.50
Consensus pattern (16 bp):
TGCTGCTGTTGTTTAA
Found at i:79329425 original size:12 final size:12
Alignment explanation
Indices: 79329407--79329440 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
79329397 TCCCTCGTTT
79329407 CTTTTCACTCAC
1 CTTTTCACTCAC
* *
79329419 TTTTTCACACAC
1 CTTTTCACTCAC
79329431 CTTTTCACTC
1 CTTTTCACTC
79329441 TTTTCTTTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.18, C:0.38, G:0.00, T:0.44
Consensus pattern (12 bp):
CTTTTCACTCAC
Found at i:79330392 original size:14 final size:14
Alignment explanation
Indices: 79330375--79330414 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
79330365 CGAATGGAAT
*
79330375 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
*
79330389 GGTAGGAACAAAAT
1 GGTAGGAACAAAAG
*
79330403 GGTATGAACAAA
1 GGTAGGAACAAA
79330415 TTGATCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.07, G:0.33, T:0.12
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:79333529 original size:20 final size:20
Alignment explanation
Indices: 79333506--79333552 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
79333496 GGGTTAAGAT
* *
79333506 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTAAGCTCGAG
* *
79333526 TGAGTTGACTTAAGCTCGAG
1 TGAGCTGAATTAAGCTCGAG
79333546 TGAGCTG
1 TGAGCTG
79333553 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTAAGCTCGAG
Found at i:79335274 original size:48 final size:48
Alignment explanation
Indices: 79335222--79335327 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
79335212 TTGTCTTTTC
*
79335222 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
79335270 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
79335318 TTTCTTTTTC
1 TTTCTTTTTC
79335328 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:79338062 original size:20 final size:20
Alignment explanation
Indices: 79338039--79338085 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
79338029 GGGTTAAGAT
* *
79338039 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTAAGCTCGAG
* *
79338059 TGAGTTGACTTAAGCTCGAG
1 TGAGCTGAATTAAGCTCGAG
79338079 TGAGCTG
1 TGAGCTG
79338086 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTAAGCTCGAG
Found at i:79344499 original size:21 final size:20
Alignment explanation
Indices: 79344455--79344499 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
79344445 CATAAATCAC
*
79344455 TTTTTTTCAATTTTTTTTTA
1 TTTTTTTCAATTTTATTTTA
79344475 TTTTTTTCGAATTTTGATTTT-
1 TTTTTTTC-AATTTT-ATTTTA
79344496 TTTT
1 TTTT
79344500 ATTTTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
21 10 0.45
22 4 0.18
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTTTTTCAATTTTATTTTA
Found at i:79344923 original size:14 final size:14
Alignment explanation
Indices: 79344876--79344923 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
79344866 GTACGAATGG
*
79344876 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
79344890 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
79344904 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
79344918 ATTGGT
1 AATGGT
79344924 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:79347351 original size:13 final size:13
Alignment explanation
Indices: 79347333--79347357 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79347323 GTATTGATCA
79347333 TGTGTTCACACCT
1 TGTGTTCACACCT
79347346 TGTGTTCACACC
1 TGTGTTCACACC
79347358 ATGATGACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:79350614 original size:11 final size:11
Alignment explanation
Indices: 79350598--79350648 Score: 68
Period size: 11 Copynumber: 4.6 Consensus size: 11
79350588 TATATAAGTC
79350598 AAAAAAAATCG
1 AAAAAAAATCG
*
79350609 AAAAAAATTC-
1 AAAAAAAATCG
79350619 AAAAAAAATTCG
1 AAAAAAAA-TCG
*
79350631 AAAAAAAATCT
1 AAAAAAAATCG
79350642 AAAAAAA
1 AAAAAAA
79350649 GTGTTTAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 7 0.20
11 20 0.57
12 8 0.23
ACGTcount: A:0.75, C:0.08, G:0.04, T:0.14
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:79350626 original size:22 final size:22
Alignment explanation
Indices: 79350598--79350648 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
79350588 TATATAAGTC
*
79350598 AAAAAAAATCGAAAAAAATTCA
1 AAAAAAAATCGAAAAAAAATCA
* *
79350620 AAAAAAATTCGAAAAAAAATCT
1 AAAAAAAATCGAAAAAAAATCA
79350642 AAAAAAA
1 AAAAAAA
79350649 GTGTTTAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.75, C:0.08, G:0.04, T:0.14
Consensus pattern (22 bp):
AAAAAAAATCGAAAAAAAATCA
Found at i:79351699 original size:12 final size:12
Alignment explanation
Indices: 79351691--79351715 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
79351681 TTTGAAAAGC
79351691 AAAAAGAAAATG
1 AAAAAGAAAATG
79351703 AAAAAGAAAATG
1 AAAAAGAAAATG
79351715 A
1 A
79351716 GATTGAAAAA
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:79351742 original size:26 final size:24
Alignment explanation
Indices: 79351696--79351754 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 24
79351686 AAAGCAAAAA
* *
79351696 GAAAATGAAAAAGAAAATGAGATT
1 GAAAAAGAAAAAGAAAATGAGAGT
*
79351720 GAAAAAGAGAAAAGAAATTTGAGAGT
1 GAAAAAGA-AAAAGAAA-ATGAGAGT
*
79351746 AAAAAAGAA
1 GAAAAAGAA
79351755 GATGAAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 7 0.24
25 9 0.31
26 13 0.45
ACGTcount: A:0.64, C:0.00, G:0.22, T:0.14
Consensus pattern (24 bp):
GAAAAAGAAAAAGAAAATGAGAGT
Found at i:79353919 original size:30 final size:31
Alignment explanation
Indices: 79353885--79353968 Score: 84
Period size: 30 Copynumber: 2.8 Consensus size: 31
79353875 GCTCACTCCT
79353885 AGCTC-ACTTTCAACTCACGAGCTAAACCTC
1 AGCTCAACTTTCAACTCACGAGCTAAACCTC
* * * * * *
79353915 AGCTCAAC-TTCAGCTTAGGAGTTTAGCCTC
1 AGCTCAACTTTCAACTCACGAGCTAAACCTC
*
79353945 AGCTCAACTTT-ACCTCACGAGCTA
1 AGCTCAACTTTCAACTCACGAGCTA
79353969 CAGCTTAGCT
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
30 37 0.90
31 4 0.10
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.26
Consensus pattern (31 bp):
AGCTCAACTTTCAACTCACGAGCTAAACCTC
Found at i:79358065 original size:81 final size:79
Alignment explanation
Indices: 79357947--79358097 Score: 241
Period size: 81 Copynumber: 1.9 Consensus size: 79
79357937 AATTTTTTTA
* *
79357947 ATATACTTTTTTATAACTACTAAAATGATAATTACAATATAATACTTGAATTTCACGAAGTAAAT
1 ATATACTTTTTTATAACTACTAAAATGATAAATACAATATAATACTTGAATTTCACAAAGT-AAT
79358012 TTTTTTTGTATATAT
65 TTTTTTTGTATATAT
*
79358027 ATATA-TTTGTTTATAAACTACTAAAATGGTAAATACAATATAATACTTGAATTTCACAAAGTAA
1 ATATACTTT-TTTAT-AACTACTAAAATGATAAATACAATATAATACTTGAATTTCACAAAGTAA
79358091 TTTTTTT
64 TTTTTTT
79358098 CTTTTTTTAC
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
79 3 0.05
80 19 0.29
81 44 0.67
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.44
Consensus pattern (79 bp):
ATATACTTTTTTATAACTACTAAAATGATAAATACAATATAATACTTGAATTTCACAAAGTAATT
TTTTTTGTATATAT
Found at i:79358753 original size:14 final size:14
Alignment explanation
Indices: 79358706--79358753 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
79358696 GTACGAATGG
*
79358706 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
79358720 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
79358734 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
79358748 ATTGGT
1 AATGGT
79358754 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:79359401 original size:20 final size:20
Alignment explanation
Indices: 79359376--79359430 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
79359366 TGTGGTTCAA
*
79359376 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
* *
79359396 CTCATTTGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
79359416 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
79359431 TTTAACTCGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.31
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:79365553 original size:11 final size:11
Alignment explanation
Indices: 79365537--79365578 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
79365527 TAGATTCAAA
79365537 AAAAAAAATCG
1 AAAAAAAATCG
79365548 AAAAAAAATCG
1 AAAAAAAATCG
*
79365559 AAAAAAGAATTG
1 AAAAAA-AATCG
79365571 AAAAAAAA
1 AAAAAAAA
79365579 ATTTGAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.76, C:0.05, G:0.10, T:0.10
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:79365553 original size:13 final size:13
Alignment explanation
Indices: 79365535--79365592 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
79365525 TGTAGATTCA
79365535 AAAAAAAAAATCG
1 AAAAAAAAAATCG
79365548 --AAAAAAAATCG
1 AAAAAAAAAATCG
* *
79365559 -AAAAAAGAATTG
1 AAAAAAAAAATCG
* *
79365571 AAAAAAAAATTTG
1 AAAAAAAAAATCG
79365584 AAAAAAAAA
1 AAAAAAAAA
79365593 TTGCATACGG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
11 11 0.28
12 9 0.23
13 19 0.49
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (13 bp):
AAAAAAAAAATCG
Found at i:79365594 original size:13 final size:12
Alignment explanation
Indices: 79365536--79365593 Score: 73
Period size: 12 Copynumber: 4.8 Consensus size: 12
79365526 GTAGATTCAA
79365536 AAAAAAAAATCG
1 AAAAAAAAATCG
79365548 -AAAAAAAATCG
1 AAAAAAAAATCG
* *
79365559 AAAAAAGAATTG
1 AAAAAAAAATCG
*
79365571 AAAAAAAAATTTG
1 AAAAAAAAA-TCG
79365584 AAAAAAAAAT
1 AAAAAAAAAT
79365594 TGCATACGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
11 11 0.27
12 18 0.44
13 12 0.29
ACGTcount: A:0.74, C:0.03, G:0.09, T:0.14
Consensus pattern (12 bp):
AAAAAAAAATCG
Found at i:79380926 original size:11 final size:10
Alignment explanation
Indices: 79380901--79380961 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
79380891 ACCAATAAAA
79380901 TAAA-TGAGC
1 TAAATTGAGC
*
79380910 TGAATTGTAGC
1 TAAATTG-AGC
79380921 TAAATTGAGC
1 TAAATTGAGC
**
79380931 TCGATTGAGC
1 TAAATTGAGC
79380941 TGAAA-TGAGC
1 T-AAATTGAGC
*
79380951 TCAATTGAGC
1 TAAATTGAGC
79380961 T
1 T
79380962 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:79380962 original size:20 final size:20
Alignment explanation
Indices: 79380902--79380962 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
79380892 CCAATAAAAT
*
79380902 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
79380922 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
79380943 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
79380963 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:79382532 original size:21 final size:20
Alignment explanation
Indices: 79382504--79382544 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
79382494 CCCTGCCAGA
*
79382504 TGCCCCACGCCCATGGCCAT
1 TGCCCCACGACCATGGCCAT
*
79382524 TGCCACCACGACCTTGGCCAT
1 TGCC-CCACGACCATGGCCAT
79382545 GACCTCTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.46, G:0.20, T:0.17
Consensus pattern (20 bp):
TGCCCCACGACCATGGCCAT
Found at i:79394017 original size:12 final size:12
Alignment explanation
Indices: 79393989--79394017 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
79393979 TATACCTATA
79393989 TGGTAGAATTTT
1 TGGTAGAATTTT
79394001 T-GTAGAATTTT
1 TGGTAGAATTTT
79394012 TGGTAG
1 TGGTAG
79394018 GGCCAATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (12 bp):
TGGTAGAATTTT
Found at i:79402348 original size:46 final size:46
Alignment explanation
Indices: 79402295--79402559 Score: 256
Period size: 47 Copynumber: 5.7 Consensus size: 46
79402285 TGTCTGGGCT
* *
79402295 AGTGTAAGACATTTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGAGAGCC
* * *
79402341 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CATTGAGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGAGAGCC
*
79402389 AGTGTAAGACATGTC-GGGACATGCATCGGCCACGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATG-AGAGCC
* * *
79402434 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGCC
* * **
79402480 AATGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGAT-ATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAGATGA-GAGCC
*
79402527 AGTGTAAGACCGTGT-TAGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCT-GGGACAT-GCATCGGC
79402560 ACCTTACCCA
Statistics
Matches: 184, Mismatches: 22, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
45 30 0.16
46 54 0.29
47 70 0.38
48 29 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGCC
Found at i:79402501 original size:93 final size:94
Alignment explanation
Indices: 79402292--79402556 Score: 266
Period size: 93 Copynumber: 2.8 Consensus size: 94
79402282 ATGTGTCTGG
* * * *
79402292 GCTAGTGTAAGACATTTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAATGTAAGACATGTCTGGGACATGCATCGGCCACATGACGAGAGCCAGTGTAAGACCATGTC
*
79402357 TGGGACATGGCATCAGCATTGAGATGAGA
66 TGGGACATGGCATCAGCATCGAGATGAGA
*
79402386 GCTAGTGTAAGACATGTC-GGGACATGCATCGGCCACGA-GACGTA-AGCCAGTGTAAGA-CATG
1 GCTAATGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGACG-AGAGCCAGTGTAAGACCATG
* *
79402447 TCTGGGACAT-GCATCGGC-TACGAGATGATA
64 TCTGGGACATGGCATCAGCAT-CGAGATGAGA
*
79402477 G-TCAATGTAAGACCATGTCTGGGACATGGCATC-G--ACTTGA-GATATGAGCCAGTGTAAGAC
1 GCT-AATGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATGACG--A-GAGCCAGTGTAAGAC
*
79402537 CGTGT-TAGGGACATGGCATC
60 CATGTCT-GGGACATGGCATC
79402557 GGCACCTTAC
Statistics
Matches: 148, Mismatches: 9, Indels: 27
0.80 0.05 0.15
Matches are distributed among these distances:
90 3 0.02
91 30 0.20
92 20 0.14
93 55 0.37
94 35 0.24
95 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (94 bp):
GCTAATGTAAGACATGTCTGGGACATGCATCGGCCACATGACGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCAGCATCGAGATGAGA
Found at i:79403592 original size:13 final size:13
Alignment explanation
Indices: 79403574--79403610 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
79403564 AATTAATTCT
79403574 ACACGGGTGTGGG
1 ACACGGGTGTGGG
79403587 ACACGGGTGTGGG
1 ACACGGGTGTGGG
79403600 ACACGGGTGTG
1 ACACGGGTGTG
79403611 TCCCAGGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.16, C:0.16, G:0.51, T:0.16
Consensus pattern (13 bp):
ACACGGGTGTGGG
Found at i:79411187 original size:46 final size:46
Alignment explanation
Indices: 79411137--79411309 Score: 169
Period size: 46 Copynumber: 3.7 Consensus size: 46
79411127 TGGTTGAGCA
*
79411137 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
79411183 TCCGAACTCGTTGAGTTGAGTCCGAG----CTTGTGAAATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* *
79411228 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
79411276 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
79411310 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 12, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
42 7 0.07
43 4 0.04
45 2 0.02
46 54 0.52
47 25 0.24
48 1 0.01
50 3 0.03
51 7 0.07
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:79423456 original size:44 final size:42
Alignment explanation
Indices: 79423364--79423468 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 42
79423354 AATGGCACTA
* * * *
79423364 TCCCAGACAGGGTCTTACACAAAATCATATACGATGCTAATG
1 TCCCAGACATGGTCTTACACAAAATCAAATACGATGCCAACG
*
79423406 TCCCAGACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAACG
1 TCCCAGACATGGTCTTACAC--AAA-ATCAAATACGATGCCAACG
* *
79423450 TCCCAGACGTGGTCATACA
1 TCCCAGACATGGTCTTACA
79423469 TGAAATCACA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 19 0.36
44 29 0.55
45 5 0.09
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACAAAATCAAATACGATGCCAACG
Found at i:79425296 original size:13 final size:13
Alignment explanation
Indices: 79425278--79425303 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
79425268 CCCAAGTTAT
79425278 TTTTTTATTTTTA
1 TTTTTTATTTTTA
79425291 TTTTTTATTTTTA
1 TTTTTTATTTTTA
79425304 CATATGATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:79426159 original size:127 final size:127
Alignment explanation
Indices: 79425933--79426255 Score: 479
Period size: 127 Copynumber: 2.5 Consensus size: 127
79425923 GAAAATTCCA
* * *
79425933 TAAAACGAAGGCAATGTTTGATGTTTGGAAATTCAGGG-ATCGTGCCCTATCGTGCTGGGTTTCG
1 TAAAAC-AAGGCAATGTTTAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCA
* * * *
79425997 ACTTCCTGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTTCACTCGTGTTTT-TCACATTC
65 ATTTTCGGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTTCACTCGTGTTTTAT-AAATTC
*
79426060 TAAAACAAGGCAATGTTTAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGTTGGGTTTCAA
1 TAAAACAAGGCAATGTTTAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCAA
**
79426125 TTTTCGGTTTGTTCAAAATAATTGAATATTCCTTTAGAATTTCACTCGTGTTTTATAAATTC
66 TTTTCGGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTTCACTCGTGTTTTATAAATTC
* * * * *
79426187 TAAAGCAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTACCGTGCTGGGTTTCAG
1 TAAAACAAGGCAATGTTTAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCAA
79426252 TTTT
66 TTTT
79426256 TTGTTGGAGT
Statistics
Matches: 178, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
126 29 0.16
127 148 0.83
128 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.37
Consensus pattern (127 bp):
TAAAACAAGGCAATGTTTAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCAA
TTTTCGGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTTCACTCGTGTTTTATAAATTC
Found at i:79450548 original size:25 final size:25
Alignment explanation
Indices: 79450520--79450614 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
79450510 CTCTTTTAAT
* *
79450520 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
* *
79450545 AACTAGGGCAAATCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
79450570 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
79450595 AACTGGGGCAAAGGCCTTTT
1 AACTGGGGCAAAGCCCTTTT
79450615 AGCACTTCCT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:79450894 original size:27 final size:26
Alignment explanation
Indices: 79450864--79451076 Score: 149
Period size: 27 Copynumber: 7.9 Consensus size: 26
79450854 TACCCTACAG
**
79450864 GGGTATTTTAGTAATTTTTTAAATCGA
1 GGGTATTTTAGTAATTTTACAAA-CGA
*** * * *
79450891 GGGTAAAATAATAATTCTGTA-AAATGG
1 GGGTATTTTAGTAATT-T-TACAAACGA
* * * *
79450918 GGGTACTTTGGTAATTTCACAAGTCGA
1 GGGTATTTTAGTAATTTTACAA-ACGA
* *
79450945 GGGTATTTTAGTAATTTCACAAACCA
1 GGGTATTTTAGTAATTTTACAAACGA
* *
79450971 GGGGTATTTTGGTAATTTTACAAACTA
1 -GGGTATTTTAGTAATTTTACAAACGA
* *
79450998 GGGGTATTTTGGTAATTTTACAAACCA
1 -GGGTATTTTAGTAATTTTACAAACGA
* * * *
79451025 GTGGTATTTTGGTAAATTTATAAACCAA
1 G-GGTATTTTAGTAATTTTACAAA-CGA
79451053 GGGTATTTTAGTAATTTTACAAAC
1 GGGTATTTTAGTAATTTTACAAAC
79451077 CAAGGGTAAT
Statistics
Matches: 149, Mismatches: 30, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.01
26 7 0.05
27 133 0.89
28 7 0.05
29 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (26 bp):
GGGTATTTTAGTAATTTTACAAACGA
Found at i:79451077 original size:27 final size:27
Alignment explanation
Indices: 79450918--79451093 Score: 210
Period size: 27 Copynumber: 6.5 Consensus size: 27
79450908 TGTAAAATGG
* * ** *
79450918 GGGTACTTTGGTAATTTCACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
79450945 GGGTATTTTAGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
79450972 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
79450999 GGGTATTTTGGTAATTTTACAAACC-A
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
79451025 GTGGTATTTTGGTAAATTTATAAACCAA
1 G-GGTATTTTGGTAATTTTACAAACCAA
*
79451053 GGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
79451080 GGGTAATTTGGTAA
1 GGGTATTTTGGTAA
79451094 ACTAAAGTAT
Statistics
Matches: 129, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 126 0.98
28 2 0.02
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:79465934 original size:123 final size:123
Alignment explanation
Indices: 79465715--79465960 Score: 492
Period size: 123 Copynumber: 2.0 Consensus size: 123
79465705 GTATTTGATA
79465715 TTTGGTTGTTTTGATCTTAGTTATGAGTCTGGTAATGCCTCTTAACCTAATCCAGCGACGGGTAC
1 TTTGGTTGTTTTGATCTTAGTTATGAGTCTGGTAATGCCTCTTAACCTAATCCAGCGACGGGTAC
79465780 GGGTTAGGGGTGTTACATTTTATTGGTAGTTTAGTCAGTTCTAGGACTACCATAGCAT
66 GGGTTAGGGGTGTTACATTTTATTGGTAGTTTAGTCAGTTCTAGGACTACCATAGCAT
79465838 TTTGGTTGTTTTGATCTTAGTTATGAGTCTGGTAATGCCTCTTAACCTAATCCAGCGACGGGTAC
1 TTTGGTTGTTTTGATCTTAGTTATGAGTCTGGTAATGCCTCTTAACCTAATCCAGCGACGGGTAC
79465903 GGGTTAGGGGTGTTACATTTTATTGGTAGTTTAGTCAGTTCTAGGACTACCATAGCAT
66 GGGTTAGGGGTGTTACATTTTATTGGTAGTTTAGTCAGTTCTAGGACTACCATAGCAT
79465961 ATGTGAGTCT
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 123 1.00
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.38
Consensus pattern (123 bp):
TTTGGTTGTTTTGATCTTAGTTATGAGTCTGGTAATGCCTCTTAACCTAATCCAGCGACGGGTAC
GGGTTAGGGGTGTTACATTTTATTGGTAGTTTAGTCAGTTCTAGGACTACCATAGCAT
Found at i:79470511 original size:6 final size:6
Alignment explanation
Indices: 79470502--79470590 Score: 69
Period size: 6 Copynumber: 15.3 Consensus size: 6
79470492 CTCAATCTCA
* * * * * * *
79470502 TTTTCT TTTTCT TTCTCT ATTTCT TTTTCA CTTTCT TTTTCA CTTTCG
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
*
79470550 TTTTCT TTTTC- -TTTCT TTTCTCT TTTT-T TTTT-T ATTTCT TT
1 TTTTCT TTTTCT TTTTCT TTT-TCT TTTTCT TTTTCT TTTTCT TT
79470591 ACAACTTGAA
Statistics
Matches: 64, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
4 4 0.06
5 9 0.14
6 45 0.70
7 6 0.09
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.75
Consensus pattern (6 bp):
TTTTCT
Found at i:79470518 original size:24 final size:24
Alignment explanation
Indices: 79470491--79470565 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
79470481 TTAGGCTCAA
*
79470491 TCTCAATCTCATTTTCTTTTTCTT
1 TCTCAATTTCATTTTCTTTTTCTT
* * **
79470515 TCTCTATTTCTTTTTCACTTTCTT
1 TCTCAATTTCATTTTCTTTTTCTT
* * *
79470539 TTTCACTTTCGTTTTCTTTTTCTT
1 TCTCAATTTCATTTTCTTTTTCTT
79470563 TCT
1 TCT
79470566 TTTCTCTTTT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.08, C:0.24, G:0.01, T:0.67
Consensus pattern (24 bp):
TCTCAATTTCATTTTCTTTTTCTT
Found at i:79470575 original size:16 final size:16
Alignment explanation
Indices: 79470533--79470575 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
79470523 TCTTTTTCAC
79470533 TTTCTTTTTCACTTTCGT
1 TTTCTTTTT--CTTTCGT
79470551 TTTCTTTTTCTTTC-T
1 TTTCTTTTTCTTTCGT
79470566 TTTCTCTTTT
1 TTTCT-TTTT
79470576 TTTTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.25
16 9 0.38
18 9 0.38
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTCTTTTTCTTTCGT
Found at i:79473051 original size:46 final size:46
Alignment explanation
Indices: 79473001--79473176 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 46
79472991 TGGTTGAGCA
*
79473001 TCCGAACTCGTTGAGTTGAGT-TCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCT-GAGTTCACTTATGGATGCAAACG
* * * * *
79473047 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAA--A--CG
* * *
79473094 TCCGAACTCATTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
* *
79473140 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
79473177 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 58 0.56
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
Found at i:79473157 original size:93 final size:93
Alignment explanation
Indices: 79472998--79473169 Score: 258
Period size: 93 Copynumber: 1.8 Consensus size: 93
79472988 GGATGGTTGA
* * *
79472998 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTTCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
79473063 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
79473091 GCATCCGAACTCATTGAGTTGAG-TCTGAGTTCACTCATGGATGCGAACG-CCTGAGCTCGTTGA
1 GCATCCGAACTCATTGAGTTGAGTTC-GAGTTCACTCATGGATGCAAACGTCC-GAACTCGTTGA
*
79473154 GTTGAGTCTGAGTTCG
64 GTTGAGTCCGAGTTCG
79473170 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTTCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:79475520 original size:29 final size:30
Alignment explanation
Indices: 79475481--79475539 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
79475471 TTCATGCTAG
* * *
79475481 ACAACTCCTTTAATGTTGTTCTATGCACCA
1 ACAACTCCTTTAATGCTATTCCATGCACCA
79475511 ACAACT-CTTTAATGCTATTCCATGCACCA
1 ACAACTCCTTTAATGCTATTCCATGCACCA
79475540 GCAGCTCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (30 bp):
ACAACTCCTTTAATGCTATTCCATGCACCA
Found at i:79482180 original size:30 final size:30
Alignment explanation
Indices: 79482146--79482203 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
79482136 TTGTGTGTCT
** * *
79482146 CAGCCATGTGTGACACACGGTCTCGTTACA
1 CAGCCATGTGCAACACACAGTCACGTTACA
79482176 CAGCCATGTGCAACACACAGTCACGTTA
1 CAGCCATGTGCAACACACAGTCACGTTA
79482204 TATAGCCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.21
Consensus pattern (30 bp):
CAGCCATGTGCAACACACAGTCACGTTACA
Found at i:79485468 original size:29 final size:29
Alignment explanation
Indices: 79485436--79485518 Score: 121
Period size: 29 Copynumber: 2.9 Consensus size: 29
79485426 AATTTCACAT
* *
79485436 ACCTGTATCTGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCTATTAGGCCCAAATC
*
79485465 ACCTGTATATGTCCTATTAGGCCCAAATC
1 ACCTGTATATGGCCTATTAGGCCCAAATC
* *
79485494 ACATTTATATGGCCTATTAGGCCCA
1 ACCTGTATATGGCCTATTAGGCCCA
79485519 GTCACATTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
ACCTGTATATGGCCTATTAGGCCCAAATC
Found at i:79486873 original size:16 final size:16
Alignment explanation
Indices: 79486854--79486885 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
79486844 GGAATTCTAA
79486854 ATTTCAGGATTTTTGG
1 ATTTCAGGATTTTTGG
*
79486870 ATTTCGGGATTTTTGG
1 ATTTCAGGATTTTTGG
79486886 GGCATTACAA
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:0.16, C:0.06, G:0.28, T:0.50
Consensus pattern (16 bp):
ATTTCAGGATTTTTGG
Found at i:79487168 original size:48 final size:48
Alignment explanation
Indices: 79487113--79487905 Score: 281
Period size: 48 Copynumber: 17.1 Consensus size: 48
79487103 GTTTACGCTA
* *
79487113 TTTTAAGGGCTACTGTTTGATGTATTAATGCAGCAGAAAAATATGTTG
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
* * *
79487161 TTTTAAGGAC-AGCTGTTTGGTGTATTAATGTAGTAGAAAAAT-TATTG
1 TTTTAAGGACTA-CTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
* * * * * **
79487208 -TTT-AGG-CGTCAAT-TAATGTTGT-TTAAGTG-A-C-TATATTTATGTTG
1 TTTTAAGGAC-T-ACTGT-TTGGTGTATTAA-TGCAGCAGAAAAATATGTTG
* * * *
79487252 TTTTAAGGACTGCTGTTTAGTGTATTAATACAGTAGAAAAATATGTTG
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
** * * *
79487300 TTTTAAGGACTGTTGTTTGGTGTATTAATGCAGCAAAAAAAT-TCTAG
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
* * * * * * * **
79487347 -TTT-A-GTCGTCAAT-TAATGTTGT-TTAGGTG-A-CTG-TATTTATGTTG
1 TTTTAAGGAC-T-ACTGT-TTGGTGTATTA-ATGCAGCAGAAAAATATGTTG
** * *
79487391 TTTTAAGGACTGTTGTTTGGTGTATTACTGCAGTAGAAAAATATGTTG
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
*
79487439 TTTTAAGGACTACTGTTTGATGTATTAATGCAGCAGAAAAAT-TGTTG
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
* * * * ** * * * * **
79487486 -TTTAGATGTCAAAT-AATGTTGT-CTAAGTG-A-CTG-TATTTAT-TCTG
1 TTTTA-AGGACTACTGTTTGGTGTATTAA-TGCAGCAGAAAAATATGT-TG
* *
79487530 TTTTAAGGACTACTATTTGGTGTACTAATGCAGCAGAAAAATATGTTG
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
** *
79487578 TTTTAAGGACTGTTGTTTGGTGTATTAATGCAGTAGAAAAAT-TGTTG
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
* **** * * * * * ** * *
79487625 -TTT-AGG-CATCAAT-TAACATTGTCTGAGTG-A-CTG-TATTTATGCTA
1 TTTTAAGGAC-T-ACTGT-TTGGTGTATTAATGCAGCAGAAAAATATGTTG
** *
79487669 TTTTAAGGACTGTTGTTTGGTGTATTAATGTAGCAGAAAAATATGTTG
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
** *
79487717 TTTTAAGGACTGTTGTTTGGTGTATTAATGCAACAGAAAAAT-TGTTG
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
* * * * * * ** *
79487764 -TTTAGACGTCAATTAATG-TT-GTGTA--AGTG-A-C-TATATGTATGCTG
1 TTTTA-A-G--GACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
* * * * *
79487808 TCTTAAGGACTATTGTTTAGTGTATTAATGCAGCAGAAAAATATGCTA
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
* * ** *
79487856 TTTTAGGGATTGTTGTTTGGTGTATTAATGCAGCAGAAAAAT-TATTG
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
79487903 TTT
1 TTT
79487906 AGACATCAAT
Statistics
Matches: 532, Mismatches: 150, Indels: 127
0.66 0.19 0.16
Matches are distributed among these distances:
41 5 0.01
42 2 0.00
43 19 0.04
44 32 0.06
45 75 0.14
46 80 0.15
47 45 0.08
48 267 0.50
49 3 0.01
50 4 0.01
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (48 bp):
TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTG
Found at i:79487363 original size:139 final size:139
Alignment explanation
Indices: 79487113--79487947 Score: 1114
Period size: 139 Copynumber: 6.0 Consensus size: 139
79487103 GTTTACGCTA
* * * *
79487113 TTTTAAGGGCTACTGTTTGATGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACAGCTGTT
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGTTGTT
* * * * *
79487178 TGGTGTATTAATGTAGTAGAAAAATTATTGTTTAGGCGTCAATTAATGTTGTTTAAGTGACTATA
66 TGGTGTATTAATGCAGCAGAAAAATTGTTGTTTAGACGTCAATTAATGTTGTCTAAGTGACTATA
79487243 TTTATGTTG
131 TTTATGTTG
* * * *
79487252 TTTTAAGGACTGCTGTTTAGTGTATTAATACAGTAGAAAAATATGTTGTTTTAAGGACTGTTGTT
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGTTGTT
* * * * * * *
79487317 TGGTGTATTAATGCAGCAAAAAAATTCTAGTTTAGTCGTCAATTAATGTTGTTTAGGTGACTGTA
66 TGGTGTATTAATGCAGCAGAAAAATTGTTGTTTAGACGTCAATTAATGTTGTCTAAGTGACTATA
79487382 TTTATGTTG
131 TTTATGTTG
** * * **
79487391 TTTTAAGGACTGTTGTTTGGTGTATTACTGCAGTAGAAAAATATGTTGTTTTAAGGACTACTGTT
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGTTGTT
* * * *
79487456 TGATGTATTAATGCAGCAGAAAAATTGTTGTTTAGATGTCAAATAATGTTGTCTAAGTGACTGTA
66 TGGTGTATTAATGCAGCAGAAAAATTGTTGTTTAGACGTCAATTAATGTTGTCTAAGTGACTATA
79487521 TTTAT-TCTG
131 TTTATGT-TG
* *
79487530 TTTTAAGGACTACTATTTGGTGTACTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGTTGTT
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGTTGTT
* * * ** * *
79487595 TGGTGTATTAATGCAGTAGAAAAATTGTTGTTTAGGCATCAATTAACATTGTCTGAGTGACTGTA
66 TGGTGTATTAATGCAGCAGAAAAATTGTTGTTTAGACGTCAATTAATGTTGTCTAAGTGACTATA
* *
79487660 TTTATGCTA
131 TTTATGTTG
** *
79487669 TTTTAAGGACTGTTGTTTGGTGTATTAATGTAGCAGAAAAATATGTTGTTTTAAGGACTGTTGTT
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGTTGTT
* *
79487734 TGGTGTATTAATGCAACAGAAAAATTGTTGTTTAGACGTCAATTAATGTTGTGTAAGTGACTATA
66 TGGTGTATTAATGCAGCAGAAAAATTGTTGTTTAGACGTCAATTAATGTTGTCTAAGTGACTATA
* *
79487799 TGTATGCTG
131 TTTATGTTG
* * * * * * *
79487808 TCTTAAGGACTATTGTTTAGTGTATTAATGCAGCAGAAAAATATGCTATTTTAGGGATTGTTGTT
1 TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGTTGTT
* * *
79487873 TGGTGTATTAATGCAGCAGAAAAATTATTGTTTAGACATCAATTAATGTTGTCTAAGTGATTATA
66 TGGTGTATTAATGCAGCAGAAAAATTGTTGTTTAGACGTCAATTAATGTTGTCTAAGTGACTAT-
79487938 AATTTATGTT
130 -ATTTATGTT
79487948 AATAACGGTT
Statistics
Matches: 611, Mismatches: 81, Indels: 6
0.88 0.12 0.01
Matches are distributed among these distances:
138 1 0.00
139 603 0.99
141 7 0.01
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (139 bp):
TTTTAAGGACTACTGTTTGGTGTATTAATGCAGCAGAAAAATATGTTGTTTTAAGGACTGTTGTT
TGGTGTATTAATGCAGCAGAAAAATTGTTGTTTAGACGTCAATTAATGTTGTCTAAGTGACTATA
TTTATGTTG
Found at i:79488960 original size:101 final size:101
Alignment explanation
Indices: 79488818--79489030 Score: 345
Period size: 101 Copynumber: 2.1 Consensus size: 101
79488808 TATTCAAACA
* *
79488818 TAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGGCATTCTAA
1 TAAGACCATGGTTGGACCATGGCACTATTTATATGTAAGACCATAGCTGGGCTATGGCATTCTAA
* * *
79488883 TGGTAAGACCATAACTGGGTTATGGCACTATGTATG
66 TGATAAGACCATAACTGGGTTATGGCACTATGGACG
* * * *
79488919 TAAGACCATGGTTGGACCATGGTACTATTTATATGTAAGACCATAGTTGGGCTATGGCATTTTGA
1 TAAGACCATGGTTGGACCATGGCACTATTTATATGTAAGACCATAGCTGGGCTATGGCATTCTAA
79488984 TGATAAGACCATAACTGGGTTATGGCACTATGGACG
66 TGATAAGACCATAACTGGGTTATGGCACTATGGACG
79489020 TAAGACCATGG
1 TAAGACCATGG
79489031 CAGTGTTTAT
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 103 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCACTATTTATATGTAAGACCATAGCTGGGCTATGGCATTCTAA
TGATAAGACCATAACTGGGTTATGGCACTATGGACG
Found at i:79489024 original size:33 final size:33
Alignment explanation
Indices: 79488850--79489028 Score: 137
Period size: 33 Copynumber: 5.4 Consensus size: 33
79488840 CAGTGTTTAT
* * *
79488850 ATGTAAGACCATAGCTGGGCTATGGCATTCT-A
1 ATGTAAGACCATAGCTGGGCTATGGCACTATGG
* * *
79488882 ATGGTAAGACCATAACTGGGTTATGGCACTATGT
1 AT-GTAAGACCATAGCTGGGCTATGGCACTATGG
* * * * * **
79488916 ATGTAAGACCATGGTTGGACCATGGTACTATTTAT
1 ATGTAAGACCATAGCTGGGCTATGGCACTA--TGG
* * *
79488951 ATGTAAGACCATAGTTGGGCTATGGCA-TTTTG
1 ATGTAAGACCATAGCTGGGCTATGGCACTATGG
* *
79488983 ATGATAAGACCATAACTGGGTTATGGCACTATGG
1 ATG-TAAGACCATAGCTGGGCTATGGCACTATGG
*
79489017 ACGTAAGACCAT
1 ATGTAAGACCAT
79489029 GGCAGTGTTT
Statistics
Matches: 115, Mismatches: 26, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
32 6 0.05
33 76 0.66
34 8 0.07
35 25 0.22
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (33 bp):
ATGTAAGACCATAGCTGGGCTATGGCACTATGG
Found at i:79489082 original size:86 final size:88
Alignment explanation
Indices: 79488946--79489119 Score: 262
Period size: 86 Copynumber: 2.0 Consensus size: 88
79488936 CATGGTACTA
*
79488946 TTTATATGTAAGACCATAGTTGGGCTATGGCATTTTGATGATAAGACCATAACTGGGTTATGGCA
1 TTTATATGTAAGACCA-AG-TGGGCTATGGCAATTTGATGATAAGACCATAACTGGGTTATGGCA
* *
79489011 CTATGGACGTAAGACCATGGCAGTG
64 CTACGAACGTAAGACCATGGCAGTG
* *
79489036 TTTATATGTAAGACC-A-TGGGCTATGGCAATTTGGTGATAAGACCATAATTGGGTTATGGCACT
1 TTTATATGTAAGACCAAGTGGGCTATGGCAATTTGATGATAAGACCATAACTGGGTTATGGCACT
*
79489099 ACGAATGTAAGACCATGGCAG
66 ACGAACGTAAGACCATGGCAG
79489120 GGTCATGGCA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
86 62 0.79
88 1 0.01
90 15 0.19
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (88 bp):
TTTATATGTAAGACCAAGTGGGCTATGGCAATTTGATGATAAGACCATAACTGGGTTATGGCACT
ACGAACGTAAGACCATGGCAGTG
Found at i:79501956 original size:9 final size:9
Alignment explanation
Indices: 79501942--79501967 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
79501932 TCCATTAAAT
79501942 TTTTTTTTG
1 TTTTTTTTG
79501951 TTTTTTTTG
1 TTTTTTTTG
79501960 TTTTTTTT
1 TTTTTTTT
79501968 AAAACCATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:79514675 original size:93 final size:93
Alignment explanation
Indices: 79514568--79514738 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
79514558 GCCCATAAGT
* *
79514568 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
79514633 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
79514661 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
79514726 CGAGTTCGGATGC
66 CGAGTTCGGATGC
79514739 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:79514735 original size:46 final size:46
Alignment explanation
Indices: 79514560--79514735 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
79514550 TGTAACCCGC
* * *
79514560 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
79514606 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
79514656 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
79514699 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
79514736 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 63 0.58
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:79515195 original size:30 final size:30
Alignment explanation
Indices: 79515161--79515220 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
79515151 ATTTAATACG
79515161 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
79515191 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
79515221 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:79523078 original size:20 final size:20
Alignment explanation
Indices: 79523052--79523104 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
79523042 GGATATTACA
79523052 CCCGTGTGGCCTGGAACACG
1 CCCGTGTGGCCTGGAACACG
* *
79523072 TCCGTGTGGCCTGGAACATG
1 CCCGTGTGGCCTGGAACACG
79523092 CCCGTGTGGCCTG
1 CCCGTGTGGCCTG
79523105 CCCATGTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.11, C:0.32, G:0.36, T:0.21
Consensus pattern (20 bp):
CCCGTGTGGCCTGGAACACG
Found at i:79524047 original size:52 final size:52
Alignment explanation
Indices: 79523893--79524050 Score: 167
Period size: 52 Copynumber: 3.0 Consensus size: 52
79523883 ACACGGATCA
* * *
79523893 CATACCGATGTCATATCCCAGATATGGTCTTATACAGAATCACATTATCACAT
1 CATACCGATGCCATAACCCAGCTATGGTCTTATACAGAATCACA-TATCACAT
* * *
79523946 CACACCGATGCCATAACCTAGCTATGGTCTTATACGGGAA-CACGA-ATCACAT
1 CATACCGATGCCATAACCCAGCTATGGTCTTATAC-AGAATCAC-ATATCACAT
** * * * *
79523998 TGTACCGATGCCATAGCCCGGCTATGGTCTTATACTGAATCATATATCACAT
1 CATACCGATGCCATAACCCAGCTATGGTCTTATACAGAATCACATATCACAT
79524050 C
1 C
79524051 TTTTTCGTCA
Statistics
Matches: 86, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
51 4 0.05
52 45 0.52
53 33 0.38
54 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (52 bp):
CATACCGATGCCATAACCCAGCTATGGTCTTATACAGAATCACATATCACAT
Found at i:79526022 original size:39 final size:40
Alignment explanation
Indices: 79525927--79526187 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
79525917 TTGAATGATG
*
79525927 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
79525965 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
79526006 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
79526045 TCCAGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
79526084 TCCGGGCT-AG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
79526122 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
79526161 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
79526188 AACGAGGAGC
Statistics
Matches: 199, Mismatches: 13, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
38 35 0.18
39 93 0.47
40 59 0.30
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:79544238 original size:13 final size:13
Alignment explanation
Indices: 79544220--79544244 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79544210 AGGTCATCAT
79544220 GGTGTGAACACAA
1 GGTGTGAACACAA
79544233 GGTGTGAACACA
1 GGTGTGAACACA
79544245 TGATCAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:79544758 original size:10 final size:10
Alignment explanation
Indices: 79544745--79544782 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
79544735 TTGTAGCTAA
79544745 ATTGAGCTCG
1 ATTGAGCTCG
79544755 ATTGAGCT-G
1 ATTGAGCTCG
79544764 ACTTGAGCTCG
1 A-TTGAGCTCG
*
79544775 AGTGAGCT
1 ATTGAGCT
79544783 GGAAACGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (10 bp):
ATTGAGCTCG
Found at i:79544762 original size:20 final size:20
Alignment explanation
Indices: 79544722--79544782 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
79544712 ACCAATAAAA
79544722 TAAA-TGAGCT-GAATTGTAGC
1 TAAATTGAGCTCG-ATTG-AGC
79544742 TAAATTGAGCTCGATTGAGC
1 TAAATTGAGCTCGATTGAGC
* * *
79544762 TGACTTGAGCTCGAGTGAGC
1 TAAATTGAGCTCGATTGAGC
79544782 T
1 T
79544783 GGAAACGAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 25 0.69
21 10 0.28
22 1 0.03
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (20 bp):
TAAATTGAGCTCGATTGAGC
Found at i:79544783 original size:20 final size:20
Alignment explanation
Indices: 79544746--79544783 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
79544736 TGTAGCTAAA
*
79544746 TTGAGCTCGATTGAGCTGAC
1 TTGAGCTCGAGTGAGCTGAC
79544766 TTGAGCTCGAGTGAGCTG
1 TTGAGCTCGAGTGAGCTG
79544784 GAAACGAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.34, T:0.29
Consensus pattern (20 bp):
TTGAGCTCGAGTGAGCTGAC
Found at i:79545098 original size:33 final size:33
Alignment explanation
Indices: 79545060--79545122 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
79545050 GATTACTCAC
79545060 TTCACTCG-TTTCTTTT-ACAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
79545093 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
79545123 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.27, G:0.06, T:0.54
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:79545135 original size:13 final size:13
Alignment explanation
Indices: 79545119--79545174 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
79545109 TCAAGCTCTC
79545119 TTTCAATTTCTTT
1 TTTCAATTTCTTT
**
79545132 TTTCTCTTT-TCTT
1 TTTCAATTTCT-TT
79545145 TTTCAATTTTCTTT
1 TTTCAA-TTTCTTT
*
79545159 TCTTCATTTTCTTT
1 T-TTCAATTTCTTT
79545173 TT
1 TT
79545175 CTCTCACTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
12 1 0.03
13 14 0.41
14 14 0.41
15 5 0.15
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTCAATTTCTTT
Found at i:79545168 original size:27 final size:26
Alignment explanation
Indices: 79545119--79545175 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
79545109 TCAAGCTCTC
*
79545119 TTTCAATTTCTTTTTTCTCTTTTCTT
1 TTTCAATTTCTTTTTTCTATTTTCTT
79545145 TTTCAATTTTCTTTTCTTC-ATTTTCTT
1 TTTCAA-TTTCTTTT-TTCTATTTTCTT
79545172 TTTC
1 TTTC
79545176 TCTCACTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 6 0.21
27 19 0.68
28 3 0.11
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (26 bp):
TTTCAATTTCTTTTTTCTATTTTCTT
Found at i:79545244 original size:6 final size:6
Alignment explanation
Indices: 79545125--79545231 Score: 63
Period size: 6 Copynumber: 17.2 Consensus size: 6
79545115 TCTCTTTCAA
* * *
79545125 TTTCTTT TTTCTCT TTTCTT TTTCAAT TTTCTTT TCTTCAT TTTCTT TTTCTC
1 TTTC-TT TTTCT-T TTTCTT TTTC-TT TTTC-TT T-TTCTT TTTCTT TTTCTT
** ** * ** *
79545178 TCACTT TTTCGA TTTCTT TTTCTT TTGCAA TTTCTT TTTCTT TTT-GT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
79545225 TTTCTT T
1 TTTCTT T
79545232 CAATTTCTTT
Statistics
Matches: 73, Mismatches: 23, Indels: 9
0.70 0.22 0.09
Matches are distributed among these distances:
5 4 0.05
6 47 0.64
7 19 0.26
8 3 0.04
ACGTcount: A:0.07, C:0.19, G:0.03, T:0.72
Consensus pattern (6 bp):
TTTCTT
Found at i:79546272 original size:21 final size:20
Alignment explanation
Indices: 79546243--79546300 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
79546233 CTCGCAAGAC
79546243 TTTTCACTTTTTTTTCTTCTT
1 TTTTCACTTTTTTTTCTT-TT
*
79546264 TTTTTACTTTTTTTTCTTTT
1 TTTTCACTTTTTTTTCTTTT
*
79546284 TTGCTCACTTCTTTTTT
1 TT-TTCACTT-TTTTTT
79546301 TTTCGAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.12
21 22 0.69
22 6 0.19
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTCACTTTTTTTTCTTTT
Found at i:79548017 original size:20 final size:19
Alignment explanation
Indices: 79547994--79548060 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
79547984 ATTGAGCTTG
79547994 TTGAGCTAAAGTAAGCTAAA
1 TTGAGCTAAAGT-AGCTAAA
79548014 TTGAGCTCAAACG-AGCTAAA
1 TTGAGCT-AAA-GTAGCTAAA
* * *
79548034 TTAAGCTCATGTGAGCTAAA
1 TTGAGCTAAAGT-AGCTAAA
*
79548054 TCGAGCT
1 TTGAGCT
79548061 GGGTAAAACT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 32 0.84
21 3 0.08
22 1 0.03
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.25
Consensus pattern (19 bp):
TTGAGCTAAAGTAGCTAAA
Found at i:79548028 original size:90 final size:90
Alignment explanation
Indices: 79547927--79548090 Score: 328
Period size: 90 Copynumber: 1.8 Consensus size: 90
79547917 ACTAAAGCCA
79547927 AGCTCAAACGAGCTAAATTAAGCTCATGTGAGCTAAATCGAGCTGGGTAAAACTAAGATTGAGCT
1 AGCTCAAACGAGCTAAATTAAGCTCATGTGAGCTAAATCGAGCTGGGTAAAACTAAGATTGAGCT
79547992 TGTTGAGCTAAAGTAAGCTAAATTG
66 TGTTGAGCTAAAGTAAGCTAAATTG
79548017 AGCTCAAACGAGCTAAATTAAGCTCATGTGAGCTAAATCGAGCTGGGTAAAACTAAGATTGAGCT
1 AGCTCAAACGAGCTAAATTAAGCTCATGTGAGCTAAATCGAGCTGGGTAAAACTAAGATTGAGCT
79548082 TGTTGAGCT
66 TGTTGAGCT
79548091 GAGATTGAGC
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 74 1.00
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (90 bp):
AGCTCAAACGAGCTAAATTAAGCTCATGTGAGCTAAATCGAGCTGGGTAAAACTAAGATTGAGCT
TGTTGAGCTAAAGTAAGCTAAATTG
Found at i:79548049 original size:30 final size:29
Alignment explanation
Indices: 79547996--79548060 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
79547986 TGAGCTTGTT
* *
79547996 GAGCTAAAGTAAGCTAAAT-TGAGCTCAAAC
1 GAGCTAAATTAAGCT-CATGTGAGCT-AAAC
79548026 GAGCTAAATTAAGCTCATGTGAGCTAAATC
1 GAGCTAAATTAAGCTCATGTGAGCTAAA-C
79548056 GAGCT
1 GAGCT
79548061 GGGTAAAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 5 0.16
30 26 0.84
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (29 bp):
GAGCTAAATTAAGCTCATGTGAGCTAAAC
Found at i:79548359 original size:22 final size:20
Alignment explanation
Indices: 79548334--79548373 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
79548324 TTATGAACTA
79548334 TTTTAATTCATTAGTGTGAATG
1 TTTTAATT-ATT-GTGTGAATG
*
79548356 TTTTTATTATTGTGTGAA
1 TTTTAATTATTGTGTGAA
79548374 CACCTAGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 3 0.18
22 7 0.41
ACGTcount: A:0.25, C:0.03, G:0.17, T:0.55
Consensus pattern (20 bp):
TTTTAATTATTGTGTGAATG
Found at i:79550110 original size:144 final size:144
Alignment explanation
Indices: 79549850--79550137 Score: 567
Period size: 144 Copynumber: 2.0 Consensus size: 144
79549840 GCATGAATGA
*
79549850 GTTAATACAATGAATGGAAGAATGCATGAATATTCATTTACATGCATCGGTTGCTGTCCATTGAT
1 GTTAATACAATGAATGGAAGAATGCATGAATATTCACTTACATGCATCGGTTGCTGTCCATTGAT
79549915 CTCCTAAGTACCTATTCGGCCAAAAGGTATCTCTTGGAGTGTCCATTCACACCTTGGCCGAACCT
66 CTCCTAAGTACCTATTCGGCCAAAAGGTATCTCTTGGAGTGTCCATTCACACCTTGGCCGAACCT
79549980 AGACATGTCCATTG
131 AGACATGTCCATTG
79549994 GTTAATACAATGAATGGAAGAATGCATGAATATTCACTTACATGCATCGGTTGCTGTCCATTGAT
1 GTTAATACAATGAATGGAAGAATGCATGAATATTCACTTACATGCATCGGTTGCTGTCCATTGAT
79550059 CTCCTAAGTACCTATTCGGCCAAAAGGTATCTCTTGGAGTGTCCATTCACACCTTGGCCGAACCT
66 CTCCTAAGTACCTATTCGGCCAAAAGGTATCTCTTGGAGTGTCCATTCACACCTTGGCCGAACCT
79550124 AGACATGTCCATTG
131 AGACATGTCCATTG
79550138 CTCTCCCATA
Statistics
Matches: 143, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 143 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (144 bp):
GTTAATACAATGAATGGAAGAATGCATGAATATTCACTTACATGCATCGGTTGCTGTCCATTGAT
CTCCTAAGTACCTATTCGGCCAAAAGGTATCTCTTGGAGTGTCCATTCACACCTTGGCCGAACCT
AGACATGTCCATTG
Found at i:79551108 original size:17 final size:17
Alignment explanation
Indices: 79551070--79551108 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
79551060 AGAAGTGAGC
79551070 AAAAAAAGAAAAAAAAG
1 AAAAAAAGAAAAAAAAG
* *
79551087 TAAAAAAGAAAACAAA-
1 AAAAAAAGAAAAAAAAG
79551103 AAAAAA
1 AAAAAA
79551109 GTGAAAAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.87, C:0.03, G:0.08, T:0.03
Consensus pattern (17 bp):
AAAAAAAGAAAAAAAAG
Found at i:79552165 original size:17 final size:18
Alignment explanation
Indices: 79552133--79552166 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
79552123 AAAAGAGAGT
*
79552133 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
79552151 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
79552167 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:79554113 original size:144 final size:144
Alignment explanation
Indices: 79553853--79554140 Score: 576
Period size: 144 Copynumber: 2.0 Consensus size: 144
79553843 GCATGAATGA
79553853 GTTAATACAATGAATGGAAGAATGCATGAATATTCACTTACATGCATCGGTTGCTGTCCATTGAT
1 GTTAATACAATGAATGGAAGAATGCATGAATATTCACTTACATGCATCGGTTGCTGTCCATTGAT
79553918 CTCCTAAGTACCTATTCGGCCAAAAGGTATCTCTTGGAGTGTCCATTCACACCTTGGCCGAACCT
66 CTCCTAAGTACCTATTCGGCCAAAAGGTATCTCTTGGAGTGTCCATTCACACCTTGGCCGAACCT
79553983 AGACATGTCCATTG
131 AGACATGTCCATTG
79553997 GTTAATACAATGAATGGAAGAATGCATGAATATTCACTTACATGCATCGGTTGCTGTCCATTGAT
1 GTTAATACAATGAATGGAAGAATGCATGAATATTCACTTACATGCATCGGTTGCTGTCCATTGAT
79554062 CTCCTAAGTACCTATTCGGCCAAAAGGTATCTCTTGGAGTGTCCATTCACACCTTGGCCGAACCT
66 CTCCTAAGTACCTATTCGGCCAAAAGGTATCTCTTGGAGTGTCCATTCACACCTTGGCCGAACCT
79554127 AGACATGTCCATTG
131 AGACATGTCCATTG
79554141 CTCTCCCATA
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
144 144 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (144 bp):
GTTAATACAATGAATGGAAGAATGCATGAATATTCACTTACATGCATCGGTTGCTGTCCATTGAT
CTCCTAAGTACCTATTCGGCCAAAAGGTATCTCTTGGAGTGTCCATTCACACCTTGGCCGAACCT
AGACATGTCCATTG
Found at i:79555174 original size:4 final size:4
Alignment explanation
Indices: 79555156--79555194 Score: 51
Period size: 4 Copynumber: 9.0 Consensus size: 4
79555146 TATAAAAATT
79555156 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA T-AAA TAAA
79555195 ACTTTACAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
4 20 0.62
5 12 0.38
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:79556594 original size:23 final size:22
Alignment explanation
Indices: 79556543--79556594 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
79556533 CCTCGTCTTT
*
79556543 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
79556565 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
79556588 TTCTTTT
1 TTCTTTT
79556595 TCAATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:79558983 original size:22 final size:23
Alignment explanation
Indices: 79558958--79559017 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
79558948 TGGACTGAAT
79558958 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
79558980 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
79559002 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
79559018 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:79558985 original size:4 final size:4
Alignment explanation
Indices: 79558967--79559000 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
79558957 TATAAAAATT
79558967 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
79559001 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:79561916 original size:13 final size:13
Alignment explanation
Indices: 79561898--79561922 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79561888 AATAGTTGTG
79561898 TGTTATTTAATTA
1 TGTTATTTAATTA
79561911 TGTTATTTAATT
1 TGTTATTTAATT
79561923 TTGTAGGTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:79563757 original size:12 final size:12
Alignment explanation
Indices: 79563702--79563764 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
79563692 GTTCCTTTTG
*
79563702 TTTCAATTTCTT
1 TTTCATTTTCTT
*
79563714 TTTCATCTTCTT
1 TTTCATTTTCTT
* * **
79563726 TTTCACTCTCAA
1 TTTCATTTTCTT
*
79563738 TCTCATTTTCTT
1 TTTCATTTTCTT
*
79563750 TTTCATTTCCTT
1 TTTCATTTTCTT
79563762 TTT
1 TTT
79563765 TTTCCAAACT
Statistics
Matches: 37, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTCATTTTCTT
Found at i:79563867 original size:5 final size:5
Alignment explanation
Indices: 79563854--79563897 Score: 54
Period size: 5 Copynumber: 8.4 Consensus size: 5
79563844 CTTTTTTTTA
79563854 TTTCAT TTTCT TTT-T TTTCT TTTGCTT TTTCT TTTCT TTTCT TT
1 TTTC-T TTTCT TTTCT TTTCT TTT-C-T TTTCT TTTCT TTTCT TT
79563898 GTTTTCTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
4 4 0.11
5 21 0.60
6 6 0.17
7 4 0.11
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:79563871 original size:21 final size:20
Alignment explanation
Indices: 79563843--79563898 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
79563833 CTCTTGCCGC
*
79563843 TCTTTTTTTTATTT-CATTT
1 TCTTTTTTTTTTTTGCATTT
*
79563862 TCTTTTTTTTCTTTTGCTTTT
1 TCTTTTTTTT-TTTTGCATTT
*
79563883 TCTTTTCTTTTCTTTG
1 TCTTTT-TTTTTTTTG
79563899 TTTTCTCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 10 0.32
20 3 0.10
21 14 0.45
22 4 0.13
ACGTcount: A:0.04, C:0.14, G:0.04, T:0.79
Consensus pattern (20 bp):
TCTTTTTTTTTTTTGCATTT
Found at i:79563908 original size:21 final size:21
Alignment explanation
Indices: 79563843--79563897 Score: 69
Period size: 19 Copynumber: 2.7 Consensus size: 21
79563833 CTCTTGCCGC
* *
79563843 TCTTTTTTTT-ATTT-CATTT
1 TCTTTTTTTTCTTTTGCTTTT
79563862 TCTTTTTTTTCTTTTGCTTTT
1 TCTTTTTTTTCTTTTGCTTTT
79563883 TCTTTTCTTTTCTTT
1 TCTTTT-TTTTCTTT
79563898 GTTTTCTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 10 0.32
20 3 0.10
21 10 0.32
22 8 0.26
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.80
Consensus pattern (21 bp):
TCTTTTTTTTCTTTTGCTTTT
Found at i:79565703 original size:30 final size:30
Alignment explanation
Indices: 79565669--79565765 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
79565659 AGCTCACTCC
79565669 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
79565699 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
79565729 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
79565759 TAGCTCA
1 TAGCTCA
79565766 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:79568417 original size:10 final size:10
Alignment explanation
Indices: 79568402--79568428 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
79568392 TAAGTTGAAG
79568402 TTGAGCTGAT
1 TTGAGCTGAT
79568412 TTGAGCTGAT
1 TTGAGCTGAT
79568422 TTGAGCT
1 TTGAGCT
79568429 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:79570269 original size:20 final size:20
Alignment explanation
Indices: 79570246--79570299 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
79570236 AGTTTTTCCC
*
79570246 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
79570266 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
79570286 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
79570300 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:79570281 original size:30 final size:30
Alignment explanation
Indices: 79570246--79570319 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
79570236 AGTTTTTCCC
79570246 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
79570276 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
79570306 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
79570320 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:79570309 original size:20 final size:20
Alignment explanation
Indices: 79570246--79570310 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
79570236 AGTTTTTCCC
* * * *
79570246 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
79570266 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
79570285 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
79570306 AGCTC
1 AGCTC
79570311 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Done.