Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 110 of 221
Found at i:33743279 original size:11 final size:11
Alignment explanation
Indices: 33743265--33743293 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
33743255 TCCAACTCAA
33743265 TTTTTTTTGA-
1 TTTTTTTTGAC
33743275 TTTTTTTTGAC
1 TTTTTTTTGAC
33743286 TTTTTTTT
1 TTTTTTTT
33743294 TACATTACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.83
Consensus pattern (11 bp):
TTTTTTTTGAC
Found at i:33744729 original size:20 final size:20
Alignment explanation
Indices: 33744706--33744752 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
33744696 GGGTTAAGAT
*
33744706 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
33744726 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
33744746 TGAGCTG
1 TGAGCTG
33744753 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:33754730 original size:27 final size:27
Alignment explanation
Indices: 33754696--33754883 Score: 245
Period size: 27 Copynumber: 7.0 Consensus size: 27
33754686 ACATTCCTTT
* *
33754696 CATATTACGCCACAAACGATTTTCTTC
1 CATATTACGCCACAAAGGCTTTTCTTC
**
33754723 CATATTACGCCACAAACACTTTTCTTC
1 CATATTACGCCACAAAGGCTTTTCTTC
33754750 CATATTACGCCACAAAGGCTTTTCTTC
1 CATATTACGCCACAAAGGCTTTTCTTC
* * *
33754777 CATATTACACTACAAAGGCTTTTCTTT
1 CATATTACGCCACAAAGGCTTTTCTTC
* *
33754804 CATAGTATGCCACAAAGGCTTTTACTT-
1 CATATTACGCCACAAAGGCTTTT-CTTC
*
33754831 CATATTACACCACAAAGGCTTTTACTT-
1 CATATTACGCCACAAAGGCTTTT-CTTC
*
33754858 CATATTACACCACAAAGGCTTTTCTT
1 CATATTACGCCACAAAGGCTTTTCTT
33754884 TCTTGATGTG
Statistics
Matches: 146, Mismatches: 14, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
26 3 0.02
27 140 0.96
28 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.35
Consensus pattern (27 bp):
CATATTACGCCACAAAGGCTTTTCTTC
Found at i:33765896 original size:19 final size:19
Alignment explanation
Indices: 33765872--33765964 Score: 88
Period size: 19 Copynumber: 5.1 Consensus size: 19
33765862 AATAAATTAC
*
33765872 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
33765891 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
* * *
33765910 T--GC-TAGAATAAATT-A-C
1 TCATCTTAG--TTAATTAAGT
33765926 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
*
33765945 TCATCTTAGTTAATTTAGT
1 TCATCTTAGTTAATTAAGT
33765964 T
1 T
33765965 GCTGGAATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
16 4 0.07
17 7 0.12
18 7 0.12
19 41 0.69
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:33765919 original size:54 final size:54
Alignment explanation
Indices: 33765853--33765974 Score: 217
Period size: 54 Copynumber: 2.3 Consensus size: 54
33765843 ATAAGTATTT
*
33765853 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
* *
33765907 AGTTGCTAGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTT
1 AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
33765961 AGTTGCTGGAATAA
1 AGTTGCTGGAATAA
33765975 TTTATTGTTG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (54 bp):
AGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTCATCTTAGTTAATTA
Found at i:33770221 original size:22 final size:22
Alignment explanation
Indices: 33770192--33770249 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
33770182 TAGTAGTTTC
33770192 TTCAAAAAAAATTTCAAAAAAAA
1 TTCAAAAAAAATTT-AAAAAAAA
33770215 -TCAAAAAAAA-TTAAAAAAAA
1 TTCAAAAAAAATTTAAAAAAAA
33770235 TTCAAAAAAAATTTA
1 TTCAAAAAAAATTTA
33770250 GTTTCCATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.24
21 12 0.36
22 13 0.39
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (22 bp):
TTCAAAAAAAATTTAAAAAAAA
Found at i:33770222 original size:21 final size:21
Alignment explanation
Indices: 33770192--33770247 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 21
33770182 TAGTAGTTTC
33770192 TTCAAAAAAAATTTCAAAAAAAA
1 TTCAAAAAAAA-TT-AAAAAAAA
33770215 -TCAAAAAAAATTAAAAAAAA
1 TTCAAAAAAAATTAAAAAAAA
33770235 TTCAAAAAAAATT
1 TTCAAAAAAAATT
33770248 TAGTTTCCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 8 0.25
21 14 0.44
22 10 0.31
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (21 bp):
TTCAAAAAAAATTAAAAAAAA
Found at i:33770245 original size:11 final size:11
Alignment explanation
Indices: 33770192--33770247 Score: 89
Period size: 10 Copynumber: 5.2 Consensus size: 11
33770182 TAGTAGTTTC
33770192 TTCAAAAAAAA
1 TTCAAAAAAAA
33770203 TTTCAAAAAAAA
1 -TTCAAAAAAAA
33770215 -TCAAAAAAAA
1 TTCAAAAAAAA
33770225 TT-AAAAAAAA
1 TTCAAAAAAAA
33770235 TTCAAAAAAAA
1 TTCAAAAAAAA
33770246 TT
1 TT
33770248 TAGTTTCCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
10 20 0.48
11 11 0.26
12 11 0.26
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (11 bp):
TTCAAAAAAAA
Found at i:33770309 original size:14 final size:14
Alignment explanation
Indices: 33770288--33770327 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 14
33770278 ATCAAATTGA
33770288 AAAAAAAAATTTCGTG
1 AAAAAAAAA--TCGTG
33770304 AAAAAAAAATCGTG
1 AAAAAAAAATCGTG
33770318 AAAAAAAAAT
1 AAAAAAAAAT
33770328 TTTTGTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 15 0.62
16 9 0.38
ACGTcount: A:0.68, C:0.05, G:0.10, T:0.17
Consensus pattern (14 bp):
AAAAAAAAATCGTG
Found at i:33777253 original size:14 final size:14
Alignment explanation
Indices: 33777234--33777280 Score: 73
Period size: 13 Copynumber: 3.6 Consensus size: 14
33777224 ACGAGATTGT
33777234 AAAAAAAAA-TCG-
1 AAAAAAAAATTCGA
33777246 AAAAAAAAATTCGA
1 AAAAAAAAATTCGA
33777260 AAAAAAAAATTC-A
1 AAAAAAAAATTCGA
33777273 AAAAAAAA
1 AAAAAAAA
33777281 GTTTGTATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
12 9 0.27
13 12 0.36
14 12 0.36
ACGTcount: A:0.79, C:0.06, G:0.04, T:0.11
Consensus pattern (14 bp):
AAAAAAAAATTCGA
Found at i:33779397 original size:15 final size:14
Alignment explanation
Indices: 33779362--33779388 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33779352 TCTATTGAGC
33779362 GAGAAAAACAAAAA
1 GAGAAAAACAAAAA
33779376 GAGAAAAACAAAA
1 GAGAAAAACAAAA
33779389 GAGTGAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.07, G:0.15, T:0.00
Consensus pattern (14 bp):
GAGAAAAACAAAAA
Found at i:33781935 original size:20 final size:21
Alignment explanation
Indices: 33781900--33781938 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
33781890 CAGCTCGTTG
33781900 AGCTCAATTCAGCTCATTTCC
1 AGCTCAATTCAGCTCATTTCC
*
33781921 AGCTC-ATTGAGCTCATTT
1 AGCTCAATTCAGCTCATTT
33781939 GCTTGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (21 bp):
AGCTCAATTCAGCTCATTTCC
Found at i:33782345 original size:13 final size:13
Alignment explanation
Indices: 33782327--33782352 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33782317 TGTGTCCTAA
33782327 TATGAATTAAATT
1 TATGAATTAAATT
33782340 TATGAATTAAATT
1 TATGAATTAAATT
33782353 GCTTTCAGGT
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:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TATGAATTAAATT
Found at i:33790755 original size:25 final size:26
Alignment explanation
Indices: 33790726--33790812 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 26
33790716 TTTAGAGTTT
* * *
33790726 GCCACAAATG-TTCCTTTCATATTAC
1 GCCACAAACGATTCCTTCCACATTAC
*
33790751 GCCACAAACGATTTTCTTCCACATTAC
1 GCCACAAACGA-TTCCTTCCACATTAC
* *
33790778 GCCACAAAC-ACTTTTCTTCCATATTAC
1 GCCACAAACGA--TTCCTTCCACATTAC
*
33790805 GTCACAAA
1 GCCACAAA
33790813 GGCTTTTCTT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
25 9 0.17
26 1 0.02
27 43 0.81
ACGTcount: A:0.31, C:0.31, G:0.07, T:0.31
Consensus pattern (26 bp):
GCCACAAACGATTCCTTCCACATTAC
Found at i:33790780 original size:27 final size:27
Alignment explanation
Indices: 33790743--33790903 Score: 198
Period size: 27 Copynumber: 6.0 Consensus size: 27
33790733 ATGTTCCTTT
* *
33790743 CATATTACGCCACAAACGATTTTCTTC
1 CATATTACGCCACAAAGGCTTTTCTTC
* **
33790770 CACATTACGCCACAAACACTTTTCTTC
1 CATATTACGCCACAAAGGCTTTTCTTC
*
33790797 CATATTACGTCACAAAGGCTTTTCTTC
1 CATATTACGCCACAAAGGCTTTTCTTC
* * *
33790824 CATATTACACTACAAAGGCTTTTCTTT
1 CATATTACGCCACAAAGGCTTTTCTTC
* *
33790851 CATAGTATGCCACAAAGGCTTTTACTT-
1 CATATTACGCCACAAAGGCTTTT-CTTC
*
33790878 CATATTACACCACAAAGGCTTTTCTT
1 CATATTACGCCACAAAGGCTTTTCTT
33790904 TCTTGATGTG
Statistics
Matches: 115, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
26 3 0.03
27 109 0.95
28 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (27 bp):
CATATTACGCCACAAAGGCTTTTCTTC
Found at i:33790904 original size:54 final size:54
Alignment explanation
Indices: 33790739--33790905 Score: 219
Period size: 54 Copynumber: 3.1 Consensus size: 54
33790729 ACAAATGTTC
* * * * **
33790739 CTTTCATATTACGCCACAAACGATTTTCTTCCACATTACGCCACAAACACTTTT
1 CTTTCATATTACGCCACAAAGGCTTTTCTTCCATATTACACCACAAAGGCTTTT
* * *
33790793 CTTCCATATTACGTCACAAAGGCTTTTCTTCCATATTACACTACAAAGGCTTTT
1 CTTTCATATTACGCCACAAAGGCTTTTCTTCCATATTACACCACAAAGGCTTTT
* *
33790847 CTTTCATAGTATGCCACAAAGGCTTTTACTT-CATATTACACCACAAAGGCTTTT
1 CTTTCATATTACGCCACAAAGGCTTTT-CTTCCATATTACACCACAAAGGCTTTT
33790901 CTTTC
1 CTTTC
33790906 TTGATGTGTT
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
54 95 0.97
55 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (54 bp):
CTTTCATATTACGCCACAAAGGCTTTTCTTCCATATTACACCACAAAGGCTTTT
Found at i:33798805 original size:13 final size:12
Alignment explanation
Indices: 33798787--33798817 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
33798777 TAATTTCTTC
33798787 AAAAAAAATTCAA
1 AAAAAAAATT-AA
33798800 AAAAAAAATTAA
1 AAAAAAAATTAA
33798812 AAAAAA
1 AAAAAA
33798818 TTGGTTTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAAAAAATTAA
Found at i:33798879 original size:15 final size:15
Alignment explanation
Indices: 33798856--33798894 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
33798846 GATATCAAGT
*
33798856 TGAAAAAAAAATTTTG
1 TGAAAAAAAAA-TTCG
33798872 TGAAAAAAAAATTCG
1 TGAAAAAAAAATTCG
33798887 TGAAAAAA
1 TGAAAAAA
33798895 GAAGAAGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.62, C:0.03, G:0.13, T:0.23
Consensus pattern (15 bp):
TGAAAAAAAAATTCG
Found at i:33814343 original size:20 final size:19
Alignment explanation
Indices: 33814320--33814384 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
33814310 AAGCTCAAAC
33814320 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
33814340 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
33814360 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
33814380 GAGCT
1 GAGCT
33814385 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:33816204 original size:16 final size:14
Alignment explanation
Indices: 33816183--33816230 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
33816173 ACAGACTCTC
33816183 TTTCTTTTTCACTT
1 TTTCTTTTTCACTT
*
33816197 GATTTCTTTTTTCGCTT
1 --TTTC-TTTTTCACTT
*
33816214 TTTCTTTTTCAATT
1 TTTCTTTTTCACTT
33816228 TTT
1 TTT
33816231 TTTCATTCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 11 0.39
15 4 0.14
16 4 0.14
17 9 0.32
ACGTcount: A:0.08, C:0.17, G:0.04, T:0.71
Consensus pattern (14 bp):
TTTCTTTTTCACTT
Found at i:33816272 original size:31 final size:29
Alignment explanation
Indices: 33816213--33816277 Score: 69
Period size: 31 Copynumber: 2.1 Consensus size: 29
33816203 TTTTTTCGCT
33816213 TTTTCTTTTTCAATTTTTTTTCATTCTCAA
1 TTTTCTTTTTCAATTTTTTTTCA-TCTCAA
* *
33816243 TTTTCTTTTCTTCATTTTCTTTTTC-TCTCAC
1 TTTTC-TTT-TTCAATTT-TTTTTCATCTCAA
33816274 TTTT
1 TTTT
33816278 TCGATTTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
30 5 0.17
31 12 0.40
32 7 0.23
33 6 0.20
ACGTcount: A:0.11, C:0.20, G:0.00, T:0.69
Consensus pattern (29 bp):
TTTTCTTTTTCAATTTTTTTTCATCTCAA
Found at i:33816288 original size:12 final size:12
Alignment explanation
Indices: 33816288--33816363 Score: 68
Period size: 12 Copynumber: 6.6 Consensus size: 12
33816278 TCGATTTCTT
*
33816288 TTTCTTTTGCAA
1 TTTCTTTTTCAA
**
33816300 TTTCTTTTTCTT
1 TTTCTTTTTCAA
*
33816312 TTTCTTTTTCAT
1 TTTCTTTTTCAA
*
33816324 TTTCTTTTT--G
1 TTTCTTTTTCAA
*
33816334 TTT-TCTTTCAA
1 TTTCTTTTTCAA
33816345 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
33816357 TCTCTTT
1 TTTCTTT
33816364 CTCCTTTTCT
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
9 4 0.08
10 3 0.06
11 3 0.06
12 42 0.81
ACGTcount: A:0.09, C:0.17, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:33816354 original size:6 final size:6
Alignment explanation
Indices: 33816211--33816341 Score: 77
Period size: 6 Copynumber: 21.7 Consensus size: 6
33816201 TCTTTTTTCG
** * * * *
33816211 CTTTTT CTTTTT CAATTT -TTTTT CATTCT CAATTTT CTTTTCTT CATTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT
* ** ** * **
33816261 CTTTTT CTCTCA CTTTTT CGATTT CTTTTT CTTTTG CAATTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
* *
33816309 CTTTTT CTTTTT CATTTT CTTTTT -GTTTT CTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTT
33816342 CAATTTCTTT
Statistics
Matches: 90, Mismatches: 31, Indels: 8
0.70 0.24 0.06
Matches are distributed among these distances:
5 7 0.08
6 71 0.79
7 9 0.10
8 3 0.03
ACGTcount: A:0.08, C:0.18, G:0.02, T:0.71
Consensus pattern (6 bp):
CTTTTT
Found at i:33817418 original size:12 final size:12
Alignment explanation
Indices: 33817414--33817438 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33817404 TTTTTTTCAA
33817414 TTTTTTTGAATT
1 TTTTTTTGAATT
33817426 TTTTTTTGAATT
1 TTTTTTTGAATT
33817438 T
1 T
33817439 ATTCTCTTTT
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:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TTTTTTTGAATT
Found at i:33827197 original size:20 final size:19
Alignment explanation
Indices: 33827174--33827238 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
33827164 AAGCTCAAAC
33827174 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
33827194 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
33827214 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
33827234 GAGCT
1 GAGCT
33827239 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:33828526 original size:17 final size:18
Alignment explanation
Indices: 33828504--33828537 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33828494 ACAACACTCC
*
33828504 TTTCTT-CTTCACTCTCG
1 TTTCTTCCTTCAATCTCG
33828521 TTTCTTCCTTCAATCTC
1 TTTCTTCCTTCAATCTC
33828538 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:33829649 original size:13 final size:13
Alignment explanation
Indices: 33829623--33829693 Score: 51
Period size: 12 Copynumber: 5.5 Consensus size: 13
33829613 TTATGCTCGA
*
33829623 TTTTTTTC-ACTT
1 TTTTTTTCGAATT
*
33829635 TTTTTAT-GAATT
1 TTTTTTTCGAATT
*
33829647 TTTTTTTCAATCAAATT
1 TTTTTTTC---GAA-TT
33829664 TTTTTTTCGAATT
1 TTTTTTTCGAATT
33829677 TTTTTTT-G-ATT
1 TTTTTTTCGAATT
33829688 TTTTTT
1 TTTTTT
33829694 GTTACTCCTA
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
11 9 0.19
12 16 0.33
13 9 0.19
14 2 0.04
16 2 0.04
17 10 0.21
ACGTcount: A:0.17, C:0.07, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTTTTTCGAATT
Found at i:33831319 original size:20 final size:19
Alignment explanation
Indices: 33831296--33831360 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
33831286 AAGCTCAAAC
33831296 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
33831316 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
33831336 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
33831356 GAGCT
1 GAGCT
33831361 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:33846291 original size:20 final size:20
Alignment explanation
Indices: 33846268--33846314 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
33846258 GGGTTAAGAT
*
33846268 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
33846288 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
33846308 TGAGCTG
1 TGAGCTG
33846315 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:33848040 original size:48 final size:48
Alignment explanation
Indices: 33847985--33848090 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 48
33847975 TTGTCTTTTC
*
33847985 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* * *
33848033 TTTCTTTTCCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
33848081 TTTCTTTTTC
1 TTTCTTTTTC
33848091 CATGACACTC
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
48 38 0.76
49 8 0.16
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.58
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:33849180 original size:15 final size:16
Alignment explanation
Indices: 33849146--33849182 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
33849136 TTTAACTCGA
33849146 TTTTTTTTGTCACTTC
1 TTTTTTTTGTCACTTC
*
33849162 TTTTTTTTTTC-CTT-
1 TTTTTTTTGTCACTTC
33849176 TTTTTTT
1 TTTTTTT
33849183 AAAATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 3 0.15
16 10 0.50
ACGTcount: A:0.03, C:0.14, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTTTTTGTCACTTC
Found at i:33850289 original size:20 final size:20
Alignment explanation
Indices: 33850266--33850312 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
33850256 GGGTTAAAAT
*
33850266 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
33850286 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
33850306 TGAGCTG
1 TGAGCTG
33850313 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:33853176 original size:19 final size:19
Alignment explanation
Indices: 33853135--33853198 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
33853125 CTCACAAGAC
*
33853135 TTTTCACTTTTTT-TTGTTCT
1 TTTTTACTTTTTTCTT-TT-T
33853155 TTTTTACTTTTTTCTTTTT
1 TTTTTACTTTTTTCTTTTT
* ***
33853174 TTTTTGCTCACTTCTTTTT
1 TTTTTACTTTTTTCTTTTT
33853193 TTTTTA
1 TTTTTA
33853199 ATTTCGATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
19 21 0.57
20 14 0.38
21 2 0.05
ACGTcount: A:0.06, C:0.14, G:0.03, T:0.77
Consensus pattern (19 bp):
TTTTTACTTTTTTCTTTTT
Found at i:33854361 original size:20 final size:20
Alignment explanation
Indices: 33854338--33854384 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
33854328 GGGTTAAAAT
*
33854338 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
33854358 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
33854378 TGAGCTG
1 TGAGCTG
33854385 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:33857241 original size:17 final size:18
Alignment explanation
Indices: 33857215--33857248 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
33857205 TTTTCACTTT
33857215 TTTTTGTTCTTTTTTTTC
1 TTTTTGTTCTTTTTTTTC
33857233 TTTTT-TTCTTTTTTTT
1 TTTTTGTTCTTTTTTTT
33857249 TGCTCACTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (18 bp):
TTTTTGTTCTTTTTTTTC
Found at i:33857248 original size:9 final size:9
Alignment explanation
Indices: 33857214--33857248 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
33857204 CTTTTCACTT
33857214 TTTTTTGTTC
1 TTTTTT-TTC
33857224 TTTTTTTTC
1 TTTTTTTTC
33857233 -TTTTTTTC
1 TTTTTTTTC
33857241 TTTTTTTT
1 TTTTTTTT
33857249 TGCTCACTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 10 0.42
10 6 0.25
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:33858432 original size:20 final size:20
Alignment explanation
Indices: 33858409--33858455 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
33858399 GGGTTAAAAT
*
33858409 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
33858429 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
33858449 TGAGCTG
1 TGAGCTG
33858456 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:33861289 original size:8 final size:8
Alignment explanation
Indices: 33861277--33861308 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
33861267 TTTTCACTTT
33861277 TTTTTGTTC
1 TTTTT-TTC
33861286 TTTTTTTC
1 TTTTTTTC
33861294 TTTTTTTC
1 TTTTTTTC
33861302 TTTTTTT
1 TTTTTTT
33861309 TTGCTCACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.78
9 5 0.22
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (8 bp):
TTTTTTTC
Found at i:33861297 original size:19 final size:18
Alignment explanation
Indices: 33861275--33861310 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
33861265 ACTTTTCACT
*
33861275 TTTTTTTGTTCTTTTTTTC
1 TTTTTTTCTT-TTTTTTTC
33861294 TTTTTTTCTTTTTTTTT
1 TTTTTTTCTTTTTTTTT
33861311 GCTCACTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (18 bp):
TTTTTTTCTTTTTTTTTC
Found at i:33862481 original size:20 final size:20
Alignment explanation
Indices: 33862458--33862504 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
33862448 GGGTTAAAAT
*
33862458 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
33862478 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
33862498 TGAGCTG
1 TGAGCTG
33862505 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:33866536 original size:20 final size:20
Alignment explanation
Indices: 33866513--33866559 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
33866503 GGGTTAAAAT
*
33866513 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
33866533 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
33866553 TGAGCTG
1 TGAGCTG
33866560 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:33867720 original size:20 final size:20
Alignment explanation
Indices: 33867697--33867743 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
33867687 GGGTTAAAAT
*
33867697 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
33867717 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
33867737 TGAGCTG
1 TGAGCTG
33867744 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:33869273 original size:20 final size:20
Alignment explanation
Indices: 33869250--33869296 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
33869240 GGGTTAAGAT
*
33869250 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
33869270 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
33869290 TGAGCTG
1 TGAGCTG
33869297 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:33869597 original size:55 final size:55
Alignment explanation
Indices: 33869482--33869598 Score: 141
Period size: 54 Copynumber: 2.1 Consensus size: 55
33869472 TGCATGCTTT
* * * *
33869482 CATT-AATGCCGTCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
* *
33869536 CTTTAAATGCCGTTCCATACAT-G-GAACATTTCATTTAATTCATGTCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCTGCA
33869591 CATTAAAT
1 CATTAAAT
33869599 CAGCAAGCAG
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
54 23 0.43
55 22 0.42
56 8 0.15
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
Found at i:33870247 original size:20 final size:20
Alignment explanation
Indices: 33870222--33870276 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
33870212 ACGAGTTAAA
* *
33870222 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
33870242 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
33870262 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
33870277 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:33872366 original size:22 final size:22
Alignment explanation
Indices: 33872338--33872381 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
33872328 TTTTGAACCA
33872338 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
33872360 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
33872382 AAATACCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:33873296 original size:15 final size:16
Alignment explanation
Indices: 33873257--33873297 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
33873247 AACAACACTC
33873257 CTTTCTTTTTCACTTT
1 CTTTCTTTTTCACTTT
* *
33873273 C-ATCCTTTTCA-TTT
1 CTTTCTTTTTCACTTT
33873287 CTTTCTTTTTC
1 CTTTCTTTTTC
33873298 CAACTCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
14 4 0.20
15 15 0.75
16 1 0.05
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.66
Consensus pattern (16 bp):
CTTTCTTTTTCACTTT
Found at i:33874368 original size:22 final size:22
Alignment explanation
Indices: 33874340--33874390 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
33874330 TCAATCACTC
* *
33874340 TTTTTTTTTTCAATTTCGATTT
1 TTTTTTTTTTCAATTCCGAATT
*
33874362 TTTTTTTTTTTAATTCCGAATT
1 TTTTTTTTTTCAATTCCGAATT
33874384 TTTTTTT
1 TTTTTTT
33874391 CTTCTTCTTT
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:0.14, C:0.08, G:0.04, T:0.75
Consensus pattern (22 bp):
TTTTTTTTTTCAATTCCGAATT
Found at i:33874465 original size:11 final size:11
Alignment explanation
Indices: 33874449--33874500 Score: 61
Period size: 12 Copynumber: 4.6 Consensus size: 11
33874439 AATACAAACT
33874449 TTTTTTTTGAA
1 TTTTTTTTGAA
33874460 TTTTTTTTCGAA
1 TTTTTTTT-GAA
*
33874472 TTTTTTTTCAA
1 TTTTTTTTGAA
*
33874483 GTTTTTTTT-TA
1 -TTTTTTTTGAA
33874494 TTTTTTT
1 TTTTTTT
33874501 ACAATACCGT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
10 7 0.19
11 11 0.30
12 19 0.51
ACGTcount: A:0.13, C:0.04, G:0.06, T:0.77
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:33874779 original size:30 final size:30
Alignment explanation
Indices: 33874744--33874807 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
33874734 AGCTCGAATT
*
33874744 AGCTCACA-TGAGCTTAATTTATCTCGTTTG
1 AGCTCA-ATTGAGCTTAATTTAGCTCGTTTG
* *
33874774 AGCTCAATTTAGCTTACTTTAGCTCGTTTG
1 AGCTCAATTGAGCTTAATTTAGCTCGTTTG
33874804 AGCT
1 AGCT
33874808 TGGCTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 1 0.03
30 29 0.97
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (30 bp):
AGCTCAATTGAGCTTAATTTAGCTCGTTTG
Found at i:33879519 original size:15 final size:15
Alignment explanation
Indices: 33879499--33879553 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
33879489 ACTCTCCTCA
*
33879499 TTCTTTTCTTTCTTT
1 TTCTTTTCTCTCTTT
*
33879514 TTCTTTTCACTCTTT
1 TTCTTTTCTCTCTTT
*
33879529 TTGTTTT-TCTCTTT
1 TTCTTTTCTCTCTTT
33879543 TTCTTTT-TCTC
1 TTCTTTTCTCTC
33879554 GATCAATAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
14 16 0.46
15 19 0.54
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.75
Consensus pattern (15 bp):
TTCTTTTCTCTCTTT
Found at i:33881616 original size:17 final size:17
Alignment explanation
Indices: 33881582--33881616 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
33881572 CTTTTTTTCT
*
33881582 TTTTTTTTAATTCCGAA
1 TTTTTTTTAATACCGAA
*
33881599 TTTTTTTTAATACTGAA
1 TTTTTTTTAATACCGAA
33881616 T
1 T
33881617 ACACAAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.60
Consensus pattern (17 bp):
TTTTTTTTAATACCGAA
Found at i:33886114 original size:10 final size:10
Alignment explanation
Indices: 33886099--33886126 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
33886089 TTGGAGTAAC
33886099 AAAAAAATCA
1 AAAAAAATCA
33886109 AAAAAAATCA
1 AAAAAAATCA
33886119 AAAAAAAT
1 AAAAAAAT
33886127 TGATTGAAAA
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:0.82, C:0.07, G:0.00, T:0.11
Consensus pattern (10 bp):
AAAAAAATCA
Found at i:33886115 original size:11 final size:11
Alignment explanation
Indices: 33886099--33886163 Score: 51
Period size: 11 Copynumber: 5.5 Consensus size: 11
33886089 TTGGAGTAAC
33886099 AAAAAAATC-A
1 AAAAAAATCAA
33886109 AAAAAAATCAA
1 AAAAAAATCAA
*
33886120 AAAAAATTGATTGAA
1 AAAAAA---A-TCAA
*
33886135 AAAAAATTCAA
1 AAAAAAATCAA
*
33886146 AAAAAAAGTGAA
1 AAAAAAA-TCAA
33886158 AAAAAA
1 AAAAAA
33886164 TCGAGCAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
10 9 0.20
11 16 0.36
12 9 0.20
14 1 0.02
15 9 0.20
ACGTcount: A:0.75, C:0.05, G:0.06, T:0.14
Consensus pattern (11 bp):
AAAAAAATCAA
Found at i:33886162 original size:26 final size:25
Alignment explanation
Indices: 33886108--33886163 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 25
33886098 CAAAAAAATC
* *
33886108 AAAAAAAATCAAAAAAAATTGATTGA
1 AAAAAAAATCAAAAAAAAGTGA-TAA
*
33886134 AAAAAAATTCAAAAAAAAAGTGA-AA
1 AAAAAAAATC-AAAAAAAAGTGATAA
33886159 AAAAA
1 AAAAA
33886164 TCGAGCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 6 0.23
26 9 0.35
27 11 0.42
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.14
Consensus pattern (25 bp):
AAAAAAAATCAAAAAAAAGTGATAA
Found at i:33886178 original size:30 final size:30
Alignment explanation
Indices: 33886144--33886227 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 30
33886134 AAAAAAATTC
33886144 AAAAAAAAAGTGAAAAAAAA-TCGAGCAAAA
1 AAAAAAAAAGTGAAAAAAAAGT-GAGCAAAA
33886174 AAAAAGAAAA--GAAAAAAAAGGTGAGCAAAA
1 AAAAA-AAAAGTGAAAAAAAA-GTGAGCAAAA
** *
33886204 AAAAATCAAGTTAAAAAAAAGTGA
1 AAAAAAAAAGTGAAAAAAAAGTGA
33886228 AAAGTCTTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
29 11 0.24
30 22 0.48
31 13 0.28
ACGTcount: A:0.71, C:0.05, G:0.15, T:0.08
Consensus pattern (30 bp):
AAAAAAAAAGTGAAAAAAAAGTGAGCAAAA
Found at i:33888840 original size:18 final size:18
Alignment explanation
Indices: 33888817--33888859 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
33888807 AAAGAAATTG
33888817 AAAGAAAACG-AAGAAGAA
1 AAAGAAAACGCAA-AAGAA
**
33888835 AAAGAAATTGCAAAAGAA
1 AAAGAAAACGCAAAAGAA
33888853 AAAGAAA
1 AAAGAAA
33888860 TTCAAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.72, C:0.05, G:0.19, T:0.05
Consensus pattern (18 bp):
AAAGAAAACGCAAAAGAA
Found at i:33888857 original size:58 final size:60
Alignment explanation
Indices: 33888786--33888934 Score: 143
Period size: 58 Copynumber: 2.6 Consensus size: 60
33888776 CATTGAGCGA
* * *
33888786 GAAAAGGAGAAAGAGATTGAAAAAGAAATTGAAAGAAAACG--AA-GAAGAAAA-AGAAATT
1 GAAAAAGAAAAAGAGATT-AAAAAGAAATTGAAAGAAAAAGAAAATGAAGAAAAGA-AAATT
* * * * *
33888844 GCAAAAGAAAAAGAAATT-CAAA-AAAGTGAGAGAAAAAGAAAATGAAGAAAAGAAAATT
1 GAAAAAGAAAAAGAGATTAAAAAGAAATTGAAAGAAAAAGAAAATGAAGAAAAGAAAATT
*
33888902 GAAAAAGAAAAAGCGA--AAAAAGAAATTGAAAGA
1 GAAAAAGAAAAAGAGATTAAAAAGAAATTGAAAGA
33888935 GAGCTTGAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
55 13 0.18
56 3 0.04
57 5 0.07
58 49 0.69
59 1 0.01
ACGTcount: A:0.66, C:0.03, G:0.21, T:0.09
Consensus pattern (60 bp):
GAAAAAGAAAAAGAGATTAAAAAGAAATTGAAAGAAAAAGAAAATGAAGAAAAGAAAATT
Found at i:33888867 original size:18 final size:18
Alignment explanation
Indices: 33888830--33888866 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
33888820 GAAAACGAAG
33888830 AAGAAAAAGAAATTGCAA
1 AAGAAAAAGAAATTGCAA
33888848 AAGAAAAAGAAATT-CAA
1 AAGAAAAAGAAATTGCAA
33888865 AA
1 AA
33888867 AAGTGAGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.70, C:0.05, G:0.14, T:0.11
Consensus pattern (18 bp):
AAGAAAAAGAAATTGCAA
Found at i:33888894 original size:14 final size:13
Alignment explanation
Indices: 33888875--33888912 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
33888865 AAAAGTGAGA
33888875 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
33888887 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
33888902 GAAAAAGAAAA
1 GAAAAAGAAAA
33888913 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:33888926 original size:21 final size:21
Alignment explanation
Indices: 33888876--33888926 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
33888866 AAAGTGAGAG
*
33888876 AAAAAGAAAATGAAGAAAAGA
1 AAAAAGAAAAAGAAGAAAAGA
** *
33888897 AAATTGAAAAAGAA-AAAGCGA
1 AAAAAGAAAAAGAAGAAA-AGA
33888918 AAAAAGAAA
1 AAAAAGAAA
33888927 TTGAAAGAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.06
Consensus pattern (21 bp):
AAAAAGAAAAAGAAGAAAAGA
Found at i:33890799 original size:20 final size:20
Alignment explanation
Indices: 33890776--33890821 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
33890766 CTAGCTCGAA
*
33890776 TTAGCTCACATGAGCTTAAT
1 TTAGCTCACATGAGCTCAAT
***
33890796 TTAGCTCGTTTGAGCTCAAT
1 TTAGCTCACATGAGCTCAAT
33890816 TTAGCT
1 TTAGCT
33890822 TACTTTAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (20 bp):
TTAGCTCACATGAGCTCAAT
Found at i:33890801 original size:30 final size:30
Alignment explanation
Indices: 33890767--33890833 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
33890757 TAGTTTTTCC
33890767 TAGCTCGAATT-AGCTCACA-TGAGCTTAATT
1 TAGCTCG-ATTGAGCTCA-ATTGAGCTTAATT
* * *
33890797 TAGCTCGTTTGAGCTCAATTTAGCTTACTT
1 TAGCTCGATTGAGCTCAATTGAGCTTAATT
33890827 TAGCTCG
1 TAGCTCG
33890834 TTTGTGCTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 3 0.09
30 29 0.91
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (30 bp):
TAGCTCGATTGAGCTCAATTGAGCTTAATT
Found at i:33894694 original size:23 final size:23
Alignment explanation
Indices: 33894664--33894717 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
33894654 TGTAGATTCA
33894664 AAAAAAAACCGAAAAAAAAATCG
1 AAAAAAAACCGAAAAAAAAATCG
** *
33894687 AAAAAAAATTGAAAAAAAAATTG
1 AAAAAAAACCGAAAAAAAAATCG
33894710 AAAAAAAA
1 AAAAAAAA
33894718 ATTTGCATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.78, C:0.06, G:0.07, T:0.09
Consensus pattern (23 bp):
AAAAAAAACCGAAAAAAAAATCG
Found at i:33894720 original size:12 final size:12
Alignment explanation
Indices: 33894663--33894720 Score: 82
Period size: 12 Copynumber: 4.9 Consensus size: 12
33894653 TTGTAGATTC
**
33894663 AAAAAAAAACCG
1 AAAAAAAAATTG
*
33894675 AAAAAAAAATCG
1 AAAAAAAAATTG
33894687 -AAAAAAAATTG
1 AAAAAAAAATTG
33894698 AAAAAAAAATTG
1 AAAAAAAAATTG
33894710 AAAAAAAAATT
1 AAAAAAAAATT
33894721 TGCATACGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
11 10 0.23
12 33 0.77
ACGTcount: A:0.76, C:0.05, G:0.07, T:0.12
Consensus pattern (12 bp):
AAAAAAAAATTG
Found at i:33901512 original size:56 final size:56
Alignment explanation
Indices: 33901407--33901513 Score: 137
Period size: 56 Copynumber: 1.9 Consensus size: 56
33901397 TTTAATGCCG
* * * *
33901407 TCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCATCCCTTTAAATACCGT
1 TCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCATCACATTAAATACCGT
*
33901463 TCCATACATGG-GAACATTTCATTTAATTCATGTCTTTGC-TGCACATTAAAT
1 TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCAT-CACATTAAAT
33901514 CAGCAAGCAG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
55 21 0.48
56 23 0.52
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (56 bp):
TCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCATCACATTAAATACCGT
Found at i:33902160 original size:20 final size:20
Alignment explanation
Indices: 33902135--33902189 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
33902125 ACGAGTTAAA
* *
33902135 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
33902155 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
*
33902175 TTGAGCTCAAATGAG
1 TTGAGCTCGAATGAG
33902190 TTGAACCACA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:33914376 original size:14 final size:14
Alignment explanation
Indices: 33914359--33914386 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33914349 AAAAAGAAGG
33914359 AAAAAAAAATTGCA
1 AAAAAAAAATTGCA
33914373 AAAAAAAAATTGCA
1 AAAAAAAAATTGCA
33914387 TACGGTCTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.14
Consensus pattern (14 bp):
AAAAAAAAATTGCA
Found at i:33914433 original size:1 final size:1
Alignment explanation
Indices: 33914427--33914453 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
33914417 AAATATCCGT
33914427 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
33914454 GAGTCTGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:33915199 original size:15 final size:15
Alignment explanation
Indices: 33915167--33915200 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
33915157 GTTCAACGAA
*
33915167 GAGGCCAACGCAACC
1 GAGGCCAACGAAACC
*
33915182 GAGGCCAACGAAATC
1 GAGGCCAACGAAACC
33915197 GAGG
1 GAGG
33915201 GAGGTTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (15 bp):
GAGGCCAACGAAACC
Found at i:33926022 original size:13 final size:13
Alignment explanation
Indices: 33926004--33926028 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33925994 GTATTGATCA
33926004 TGTGTTCACACCT
1 TGTGTTCACACCT
33926017 TGTGTTCACACC
1 TGTGTTCACACC
33926029 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:33929196 original size:23 final size:22
Alignment explanation
Indices: 33929145--33929196 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
33929135 CCTCGTCTTT
*
33929145 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
33929167 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
33929190 TTCTTTT
1 TTCTTTT
33929197 TCAAATTTCT
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:33929211 original size:18 final size:18
Alignment explanation
Indices: 33929190--33929228 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
33929180 TTTCTTCAAC
* *
33929190 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
33929208 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
33929226 TTC
1 TTC
33929229 ACTCTCAATC
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:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:33933458 original size:12 final size:11
Alignment explanation
Indices: 33933439--33933495 Score: 98
Period size: 11 Copynumber: 5.2 Consensus size: 11
33933429 ATGGAAACCA
33933439 AATTTTTTTTG
1 AATTTTTTTTG
33933450 AA-TTTTTTTG
1 AATTTTTTTTG
33933460 AATTTTTTTTG
1 AATTTTTTTTG
33933471 AATTTTTTTTG
1 AATTTTTTTTG
33933482 AAATTTTTTTTG
1 -AATTTTTTTTG
33933494 AA
1 AA
33933496 GAAACTACTA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.23
11 23 0.52
12 11 0.25
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (11 bp):
AATTTTTTTTG
Found at i:33933465 original size:21 final size:23
Alignment explanation
Indices: 33933438--33933495 Score: 102
Period size: 21 Copynumber: 2.6 Consensus size: 23
33933428 AATGGAAACC
33933438 AAATTTTTTTTGAA-TTTTTTTG
1 AAATTTTTTTTGAATTTTTTTTG
33933460 -AATTTTTTTTGAATTTTTTTTG
1 AAATTTTTTTTGAATTTTTTTTG
33933482 AAATTTTTTTTGAA
1 AAATTTTTTTTGAA
33933496 GAAACTACTA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 13 0.38
22 8 0.24
23 13 0.38
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (23 bp):
AAATTTTTTTTGAATTTTTTTTG
Found at i:33934529 original size:21 final size:23
Alignment explanation
Indices: 33934484--33934530 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
33934474 TCACCTGCAA
* *
33934484 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
33934507 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
33934528 TAA
1 TAA
33934531 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:33944824 original size:4 final size:4
Alignment explanation
Indices: 33944815--33944845 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
33944805 AAACTAAGTA
33944815 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
33944846 AATAAAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:33946010 original size:4 final size:4
Alignment explanation
Indices: 33946001--33946033 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
33945991 AAGTTTTATT
33946001 TTTA TTTA TTTA TTTA TTTA TTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA
33946034 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:33948388 original size:18 final size:18
Alignment explanation
Indices: 33948367--33948405 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
33948357 GATTGAGAGT
*
33948367 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAACA
* *
33948385 GAAAAGAAATTTGAAATA
1 GAAAAGAAATGTGAAACA
33948403 GAA
1 GAA
33948406 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:0.59, C:0.03, G:0.23, T:0.15
Consensus pattern (18 bp):
GAAAAGAAATGTGAAACA
Found at i:33949814 original size:4 final size:4
Alignment explanation
Indices: 33949805--33949838 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
33949795 AAGTTTTATT
33949805 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
33949839 AATTTTTATA
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:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:33949846 original size:22 final size:22
Alignment explanation
Indices: 33949788--33949847 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
33949778 AAGTGGCCCA
*
33949788 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
33949812 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
33949833 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
33949848 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:33952112 original size:10 final size:10
Alignment explanation
Indices: 33952097--33952134 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
33952087 TTGGGTTAAG
33952097 ATTGAGCTGA
1 ATTGAGCTGA
33952107 ATTGAGCTCGA
1 ATTGAGCT-GA
33952118 A-TGAGCTGA
1 ATTGAGCTGA
*
33952127 CTTGAGCT
1 ATTGAGCT
33952135 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:33952122 original size:20 final size:20
Alignment explanation
Indices: 33952099--33952145 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
33952089 GGGTTAAGAT
33952099 TGAGCTGAATTGAGCTCGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
33952119 TGAGCTGACTTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAA
33952139 TGAGCTG
1 TGAGCTG
33952146 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:33953662 original size:7 final size:7
Alignment explanation
Indices: 33953650--33953677 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
33953640 CGAAGAGATT
33953650 TCAAGAA
1 TCAAGAA
33953657 TCAAGAA
1 TCAAGAA
33953664 TCAAGAA
1 TCAAGAA
33953671 TCAAGAA
1 TCAAGAA
33953678 AATCAAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (7 bp):
TCAAGAA
Found at i:33965904 original size:12 final size:12
Alignment explanation
Indices: 33965889--33965932 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
33965879 AAAATAAAAT
33965889 AAAAAAATTCAA
1 AAAAAAATTCAA
**
33965901 AAAAAAATTTTGA
1 AAAAAAA-TTCAA
*
33965914 AAAAATATTCAA
1 AAAAAAATTCAA
33965926 AAAAAAA
1 AAAAAAA
33965933 GTTTGTATTC
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:33965917 original size:25 final size:25
Alignment explanation
Indices: 33965889--33965937 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
33965879 AAAATAAAAT
*
33965889 AAAAAAATTCAAAAAAAAATTTTGA
1 AAAAAAATTCAAAAAAAAAGTTTGA
*
33965914 AAAAATATTCAAAAAAAAAGTTTG
1 AAAAAAATTCAAAAAAAAAGTTTG
33965938 TATTCAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.24
Consensus pattern (25 bp):
AAAAAAATTCAAAAAAAAAGTTTGA
Found at i:33966029 original size:25 final size:27
Alignment explanation
Indices: 33965979--33966039 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
33965969 TATTGAAGAA
*
33965979 AAAAAAGAAGAAAAAAAATTCGAAATT-
1 AAAAAA-AAGAAAAAAAATTCAAAATTG
33966006 AAAAAAAAGAAAAAAAA-TCAAAATTG
1 AAAAAAAAGAAAAAAAATTCAAAATTG
33966032 AAAAAAAA
1 AAAAAAAA
33966040 AAGAGTGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 7 0.22
26 19 0.59
27 6 0.19
ACGTcount: A:0.77, C:0.03, G:0.08, T:0.11
Consensus pattern (27 bp):
AAAAAAAAGAAAAAAAATTCAAAATTG
Found at i:33966879 original size:21 final size:20
Alignment explanation
Indices: 33966850--33966895 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
33966840 AATCTTGAAT
*
33966850 GAAATTGAGAGAAGAAAAAAA
1 GAAAATGAGAG-AGAAAAAAA
* *
33966871 GAAAATGAGAGTGAGAAAAA
1 GAAAATGAGAGAGAAAAAAA
33966891 GAAAA
1 GAAAA
33966896 AAGAATTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (20 bp):
GAAAATGAGAGAGAAAAAAA
Found at i:33966911 original size:6 final size:6
Alignment explanation
Indices: 33966902--33966937 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
33966892 AAAAAAGAAT
* *
33966902 TTGAGA TTGAGA TTGAGA TTGATA TTGATA TTGAGA
1 TTGAGA TTGAGA TTGAGA TTGAGA TTGAGA TTGAGA
33966938 AAAAAATTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.39
Consensus pattern (6 bp):
TTGAGA
Found at i:33970493 original size:40 final size:40
Alignment explanation
Indices: 33970433--33970741 Score: 537
Period size: 40 Copynumber: 7.7 Consensus size: 40
33970423 TGAGCATTGG
33970433 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
33970473 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
33970513 GATATATCCGGGCTATGACCCGAAGGTAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
33970553 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
33970593 GATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
33970633 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
33970673 GATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
33970713 GATATGTCCGGGCTAAGACCCGAAGGCAA
1 GATATATCCGGGCTAAGACCCGAAGGCAA
33970742 ATGTGTTTGC
Statistics
Matches: 262, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 262 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (40 bp):
GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:33985161 original size:19 final size:21
Alignment explanation
Indices: 33985139--33985183 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
33985129 TTTGAACCCC
33985139 AAACC-TCAA-ATCAAACCAT
1 AAACCTTCAATATCAAACCAT
* *
33985158 AAACCTTGAATCTCAAACCAT
1 AAACCTTCAATATCAAACCAT
33985179 AAACC
1 AAACC
33985184 CTAAAACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 3 0.14
21 14 0.64
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (21 bp):
AAACCTTCAATATCAAACCAT
Found at i:33996995 original size:34 final size:34
Alignment explanation
Indices: 33996952--33997021 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
33996942 GTCTAAATTC
33996952 TTCTCAAAATCGTTAATAATTTCATACATTTTGT
1 TTCTCAAAATCGTTAATAATTTCATACATTTTGT
**
33996986 TTCTCAAAATCGTTAATAATTTTTTACATTTTGT
1 TTCTCAAAATCGTTAATAATTTCATACATTTTGT
33997020 TT
1 TT
33997022 ACTTTCTCTT
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:0.30, C:0.13, G:0.06, T:0.51
Consensus pattern (34 bp):
TTCTCAAAATCGTTAATAATTTCATACATTTTGT
Found at i:33997973 original size:18 final size:17
Alignment explanation
Indices: 33997931--33997977 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
33997921 TGTCGTTCGT
33997931 TTTCAAAACATTATTCA
1 TTTCAAAACATTATTCA
* *
33997948 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTC-A
33997967 TTTC-AAACATT
1 TTTCAAAACATT
33997978 TTTTATTGCG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
17 8 0.33
18 12 0.50
19 4 0.17
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.43
Consensus pattern (17 bp):
TTTCAAAACATTATTCA
Found at i:34006883 original size:33 final size:33
Alignment explanation
Indices: 34006845--34006999 Score: 115
Period size: 33 Copynumber: 4.6 Consensus size: 33
34006835 ATGATACGTT
34006845 GGAATCAGCACTTAGCAACCACCAATGAATCGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
* * * *
34006878 GGAATCATCACTTAGAAACCCCTTTCACATTTAAGATACGG
1 GGAATCAGCACTTAGCAACCAC---CA-A--TGA-AT-CGG
* * *
34006919 TGGGATCAACACTTAGCAACCACCAATGAATCAG
1 -GGAATCAGCACTTAGCAACCACCAATGAATCGG
*
34006953 GGAATCAGCACTTAGCAACC-CC-TTG-A---G
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
34006980 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
34007000 CCCTTTATAT
Statistics
Matches: 100, Mismatches: 13, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
27 21 0.21
30 1 0.01
31 2 0.02
32 2 0.02
33 37 0.37
34 2 0.02
35 2 0.02
36 4 0.04
37 1 0.01
38 1 0.01
39 4 0.04
40 2 0.02
41 3 0.03
42 18 0.18
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAATCGG
Found at i:34006943 original size:75 final size:76
Alignment explanation
Indices: 34006796--34006976 Score: 256
Period size: 75 Copynumber: 2.4 Consensus size: 76
34006786 GTTATCCGTT
* * * *
34006796 ATCGGTGGATTCAACACTTAGTAACCCCTTTCACATTCAATGATACGTTGGAATCAGCACTTAGC
1 ATCGG-GGAATCAACACTTAGAAACCCCTTTCACATTCAATGATACGGTGGAATCAACACTTAGC
34006861 AACCACCAATGA
65 AACCACCAATGA
* * *
34006873 ATCGGGGAATCATCACTTAGAAACCCCTTTCACATTTAA-GATACGGTGGGATCAACACTTAGCA
1 ATCGGGGAATCAACACTTAGAAACCCCTTTCACATTCAATGATACGGTGGAATCAACACTTAGCA
34006937 ACCACCAATGA
66 ACCACCAATGA
* * *
34006948 ATCAGGGAATCAGCACTTAGCAACCCCTT
1 ATCGGGGAATCAACACTTAGAAACCCCTT
34006977 GAGGGAATCA
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
75 59 0.63
76 30 0.32
77 5 0.05
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (76 bp):
ATCGGGGAATCAACACTTAGAAACCCCTTTCACATTCAATGATACGGTGGAATCAACACTTAGCA
ACCACCAATGA
Found at i:34007105 original size:51 final size:51
Alignment explanation
Indices: 34007019--34007219 Score: 221
Period size: 51 Copynumber: 4.0 Consensus size: 51
34007009 TTTAAAGATA
* * *
34007019 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
* *
34007070 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTAT
* * * * *
34007121 CCGGTACGCATAATAGCCTGCACATAGTACTACACATGCGACCTATCA-T-T
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTAT
** * *
34007171 TTGGTACACGTAGTAGCCTACACATAGTACTACACACATGACCATCACT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
34007220 TTCACTTTTA
Statistics
Matches: 123, Mismatches: 21, Indels: 13
0.78 0.13 0.08
Matches are distributed among these distances:
49 4 0.03
50 38 0.31
51 78 0.63
52 2 0.02
53 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:34009190 original size:24 final size:24
Alignment explanation
Indices: 34009158--34009204 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
34009148 CTAAATTTAT
*
34009158 AACACTTTCCTTTC-CTTTCTCTTC
1 AACACTTTCC-ATCACTTTCTCTTC
*
34009182 AACATTTTCCATCACTTTCTCTT
1 AACACTTTCCATCACTTTCTCTT
34009205 ATTTCTCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.17, C:0.34, G:0.00, T:0.49
Consensus pattern (24 bp):
AACACTTTCCATCACTTTCTCTTC
Found at i:34014203 original size:25 final size:25
Alignment explanation
Indices: 34014175--34014223 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
34014165 TATAGTCTAT
* *
34014175 CTATAGTAGTCTCAGTATATACTAC
1 CTATAGCAGTCTCAGGATATACTAC
*
34014200 CTATAGCAGTTTCAGGATATACTA
1 CTATAGCAGTCTCAGGATATACTA
34014224 TCAATGATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (25 bp):
CTATAGCAGTCTCAGGATATACTAC
Found at i:34016724 original size:5 final size:5
Alignment explanation
Indices: 34016714--34016740 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
34016704 TTTTGAAAAG
34016714 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
34016741 ATAATCTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:34018036 original size:194 final size:194
Alignment explanation
Indices: 34017702--34018077 Score: 549
Period size: 194 Copynumber: 1.9 Consensus size: 194
34017692 TTTGAGACGC
* ** *
34017702 TATTGCAAATCATTTTGATCGAGCCTAGGGAGAAGAGGTCATCGGACTCATCAAGCAAACATGGA
1 TATTACAAATCACATTGATCGAGCCTAGGGAGAAGAGGTCATCGGACTCATCAAGCAAACATAGA
* * * *
34017767 GCTCAACACCATGCGTTCTATACAGCTTTTTGTAAGTTGAATTTTAGCTAAATAATTCTCGGACT
66 GCTCAACACCATGCGTTCCATAAAGCTTTTTGCAAGCTGAATTTTAGCTAAATAATTCTCGGACT
* *
34017832 GAACTTTTAATATGTTTAGCTTAATTAATTCAGTTTTTTTAATTGTT-TTTAGGTTTCGAGATGT
131 GAACTTTTAATATGTTTAGCTTAATTAATTAAGTTGTTTTAATT-TTCTTTAGGTTTCGAGATGT
* * * ** *
34017896 TATTACAAATCACATTGATCGAGCTTGGGGAGAGGAGGTGGTTGGACTCATCAAGCAAACATAGA
1 TATTACAAATCACATTGATCGAGCCTAGGGAGAAGAGGTCATCGGACTCATCAAGCAAACATAGA
* *
34017961 GCTCAACACCATG-GATTCCATAAAGCTTTTTGCAAGCTGAATTTTAGCTAAATAATTGTTGGAC
66 GCTCAACACCATGCG-TTCCATAAAGCTTTTTGCAAGCTGAATTTTAGCTAAATAATTCTCGGAC
*
34018025 TGAACTTTTAATATGTTTAGTTTAATTAATTAAGTTGTTTTAATTTTCTTTAG
130 TGAACTTTTAATATGTTTAGCTTAATTAATTAAGTTGTTTTAATTTTCTTTAG
34018078 TTGCTTAAAT
Statistics
Matches: 161, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
193 3 0.02
194 158 0.98
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (194 bp):
TATTACAAATCACATTGATCGAGCCTAGGGAGAAGAGGTCATCGGACTCATCAAGCAAACATAGA
GCTCAACACCATGCGTTCCATAAAGCTTTTTGCAAGCTGAATTTTAGCTAAATAATTCTCGGACT
GAACTTTTAATATGTTTAGCTTAATTAATTAAGTTGTTTTAATTTTCTTTAGGTTTCGAGATGT
Found at i:34018093 original size:49 final size:47
Alignment explanation
Indices: 34018040--34018135 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 47
34018030 TTTTAATATG
34018040 TTTAGTTTAATTAATTAAGTTGTTTT-AATTTTCTTTAGTTGCTTAAATA
1 TTTAGTTTAATTAATTAAGTTGTTTTGAA--TT-TTTAGTTGCTTAAATA
34018089 TTTAGTTTAATTAATTAAGTTGTTTTGAATTTTTAGTTGCTTAAATA
1 TTTAGTTTAATTAATTAAGTTGTTTTGAATTTTTAGTTGCTTAAATA
34018136 ATTCCGGCAT
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
47 16 0.35
48 2 0.04
49 26 0.57
50 2 0.04
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.56
Consensus pattern (47 bp):
TTTAGTTTAATTAATTAAGTTGTTTTGAATTTTTAGTTGCTTAAATA
Found at i:34022772 original size:27 final size:27
Alignment explanation
Indices: 34022738--34022943 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
34022728 TAAATTGTAC
34022738 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34022765 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34022791 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
34022819 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
34022847 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
34022875 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34022902 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34022929 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34022944 GGCTCAATAT
Statistics
Matches: 157, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 106 0.68
28 51 0.32
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34022934 original size:110 final size:109
Alignment explanation
Indices: 34022738--34022943 Score: 279
Period size: 110 Copynumber: 1.9 Consensus size: 109
34022728 TAAATTGTAC
* *
34022738 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
* *
34022803 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
66 TGCGAATTGACCATACAGCACTAAGTGTGCGAGTTTGACTATGT
** *
34022847 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAG
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAG
* ** * *
34022911 TGTGCGAGTTGATTATATAGCACTGAGTGTGCG
64 TGTGCGAATTGACCATACAGCACTAAGTGTGCG
34022944 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
109 17 0.20
110 66 0.80
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (109 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
TGCGAATTGACCATACAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:34030846 original size:27 final size:27
Alignment explanation
Indices: 34030812--34031017 Score: 243
Period size: 27 Copynumber: 7.6 Consensus size: 27
34030802 TAAATTGTAC
34030812 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34030839 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34030865 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
34030893 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
34030921 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
34030949 AGCACTAAGTGTGTGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34030976 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34031003 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34031018 GGCTCAATAT
Statistics
Matches: 155, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
27 105 0.68
28 50 0.32
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34031008 original size:110 final size:109
Alignment explanation
Indices: 34030812--34031017 Score: 270
Period size: 110 Copynumber: 1.9 Consensus size: 109
34030802 TAAATTGTAC
* *
34030812 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
* *
34030877 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
66 TGCGAATTGACCATACAGCACTAAGTGTGCGAGTTTGACTATGT
* ** *
34030921 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGTGATTTGATTACG-TAGCACTAAG
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAG
* ** * *
34030985 TGTGCGAGTTGATTATATAGCACTGAGTGTGCG
64 TGTGCGAATTGACCATACAGCACTAAGTGTGCG
34031018 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
109 17 0.21
110 65 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (109 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
TGCGAATTGACCATACAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:34032656 original size:13 final size:14
Alignment explanation
Indices: 34032635--34032676 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
34032625 GAGAGACTGT
34032635 AGAAAAAGAAAAA-
1 AGAAAAAGAAAAAG
34032648 AGAACAAGAGAAAAAG
1 AGAA-AA-AGAAAAAG
*
34032664 AGAAAAATAAAAA
1 AGAAAAAGAAAAA
34032677 TAAAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 4 0.16
14 8 0.32
15 9 0.36
16 4 0.16
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (14 bp):
AGAAAAAGAAAAAG
Found at i:34035932 original size:194 final size:194
Alignment explanation
Indices: 34035594--34035982 Score: 688
Period size: 194 Copynumber: 2.0 Consensus size: 194
34035584 TCGTGCTAAG
* *
34035594 AAGTTTCGAGACGCTATTGCAAATCACATTGATCGAGCTTGGGGAGAGGAAGTGGTTGGACTCAT
1 AAGTTTCGAAACGCTATTGCAAATCACATTGATCGAGCTTGGGGAGAGGAAGTGGTCGGACTCAT
* *
34035659 CAAGCAAACATGGAGTTCAACACCATGCGCTCCATACAGCTTTTTGCAAGCTGAATTTTAGCTAA
66 CAAGCAAACATGAAGCTCAACACCATGCGCTCCATACAGCTTTTTGCAAGCTGAATTTTAGCTAA
*
34035724 ATAATTGCTGGACTGAACTTTTAATATGTTTAGTTTAATTAATTCAGTTGTTTTAATTTTCTTT
131 AAAATTGCTGGACTGAACTTTTAATATGTTTAGTTTAATTAATTCAGTTGTTTTAATTTTCTTT
*
34035788 AAGTTTCGAAACGCTATTGCAAATCACATTGATCGAGCTTGGGGAGAGGAGGTGGTCGGACTCAT
1 AAGTTTCGAAACGCTATTGCAAATCACATTGATCGAGCTTGGGGAGAGGAAGTGGTCGGACTCAT
* * *
34035853 CAAGCAAACATGAAGCTCAACACCATGTGTTTCATACAGCTTTTTGCAAGCTGAATTTTAGCTAA
66 CAAGCAAACATGAAGCTCAACACCATGCGCTCCATACAGCTTTTTGCAAGCTGAATTTTAGCTAA
*
34035918 AAAATTGTTGGACTGAACTTTTAATATGTTTAGTTTAATTAATTCAGTTGTTTTAATTTTCTTT
131 AAAATTGCTGGACTGAACTTTTAATATGTTTAGTTTAATTAATTCAGTTGTTTTAATTTTCTTT
34035982 A
1 A
34035983 GTTGCTTAAA
Statistics
Matches: 185, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
194 185 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (194 bp):
AAGTTTCGAAACGCTATTGCAAATCACATTGATCGAGCTTGGGGAGAGGAAGTGGTCGGACTCAT
CAAGCAAACATGAAGCTCAACACCATGCGCTCCATACAGCTTTTTGCAAGCTGAATTTTAGCTAA
AAAATTGCTGGACTGAACTTTTAATATGTTTAGTTTAATTAATTCAGTTGTTTTAATTTTCTTT
Found at i:34036016 original size:49 final size:47
Alignment explanation
Indices: 34035946--34036041 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 47
34035936 TTTTAATATG
*
34035946 TTTAGTTTAATTAATTCAGTTGTTTT-AATTTTCTTTAGTTGCTTAAATA
1 TTTAGTTTAATTAATTAAGTTGTTTTGAA--TT-TTTAGTTGCTTAAATA
34035995 TTTAGTTTAATTAATTAAGTTGTTTTGAATTTTTAGTTGCTTAAATA
1 TTTAGTTTAATTAATTAAGTTGTTTTGAATTTTTAGTTGCTTAAATA
34036042 ATTTTTTCAT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
47 16 0.36
48 2 0.04
49 25 0.56
50 2 0.04
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.56
Consensus pattern (47 bp):
TTTAGTTTAATTAATTAAGTTGTTTTGAATTTTTAGTTGCTTAAATA
Found at i:34037916 original size:21 final size:20
Alignment explanation
Indices: 34037876--34037914 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34037866 GATACTTGAT
*
34037876 AAAAGGTAACGATATTTTTG
1 AAAAGGTAACAATATTTTTG
*
34037896 AAAAGGTATCAATATTTTT
1 AAAAGGTAACAATATTTTT
34037915 TGTGGTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.38
Consensus pattern (20 bp):
AAAAGGTAACAATATTTTTG
Found at i:34042292 original size:30 final size:29
Alignment explanation
Indices: 34042247--34042325 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 29
34042237 TAATAAAAGG
34042247 AAATA-TTTTTTTATTTTTATAATTTATT
1 AAATATTTTTTTTATTTTTATAATTTATT
* * * *
34042275 CAATATTTTTTTGTATTTTTTTCATTTTTT
1 AAATATTTTTTT-TATTTTTATAATTTATT
* *
34042305 AAACATTTTTTTTAGTTTTAT
1 AAATATTTTTTTTATTTTTAT
34042326 CCAAAAGATG
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
28 4 0.10
29 13 0.32
30 24 0.59
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (29 bp):
AAATATTTTTTTTATTTTTATAATTTATT
Found at i:34049662 original size:3 final size:3
Alignment explanation
Indices: 34049654--34049705 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
34049644 TAATCTGATA
34049654 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
34049702 AAT A
1 AAT A
34049706 TTCTAATGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:34054171 original size:9 final size:9
Alignment explanation
Indices: 34054157--34054193 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
34054147 TATAGTTTGA
34054157 TATTCGAAT
1 TATTCGAAT
34054166 TATTCGAAT
1 TATTCGAAT
* *
34054175 TATTTGAGT
1 TATTCGAAT
34054184 TATTCGAAT
1 TATTCGAAT
34054193 T
1 T
34054194 CGAAAAACTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:34054264 original size:9 final size:9
Alignment explanation
Indices: 34054247--34054277 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
34054237 TCGAATTGAT
34054247 TCGAATAAC
1 TCGAATAAC
*
34054256 TCGATTAAC
1 TCGAATAAC
34054265 TCGAATAAC
1 TCGAATAAC
34054274 TCGA
1 TCGA
34054278 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:34056598 original size:30 final size:30
Alignment explanation
Indices: 34056536--34056598 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
34056526 ACTTAATTTA
*
34056536 TTGTTAATTTTATTATTATTTTAAAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
34056566 TTGTTAATTTTGTTATTATTTTAAAGATAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
34056596 TTG
1 TTG
34056599 CTTATTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:34059493 original size:13 final size:13
Alignment explanation
Indices: 34059475--34059499 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34059465 GCTCAGAGAC
34059475 TAAATTGAATAAT
1 TAAATTGAATAAT
34059488 TAAATTGAATAA
1 TAAATTGAATAA
34059500 AAGTAAAACT
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
TAAATTGAATAAT
Found at i:34060032 original size:27 final size:25
Alignment explanation
Indices: 34060002--34060071 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
34059992 CGTTTCGACC
34060002 CACAGCTCGTGTGAGCATGCCCATTTT
1 CACAGCTCGTGTGAGCATGCCCA--TT
* * * **
34060029 CACAACTTGTGTGAGCATTCTGATT
1 CACAGCTCGTGTGAGCATGCCCATT
34060054 CACAGCTCGTGTGAGCAT
1 CACAGCTCGTGTGAGCAT
34060072 ATATATATAG
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
25 18 0.50
27 18 0.50
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (25 bp):
CACAGCTCGTGTGAGCATGCCCATT
Found at i:34073374 original size:44 final size:44
Alignment explanation
Indices: 34073324--34073410 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
34073314 GGATTATATG
34073324 CTTGTGTATTATAGGGAGAACCTTACTCCTATTAGATACATAGA
1 CTTGTGTATTATAGGGAGAACCTTACTCCTATTAGATACATAGA
*
34073368 CTTGTGTATTATAGGGAGAACCTTACTCCTATTGGATACATAG
1 CTTGTGTATTATAGGGAGAACCTTACTCCTATTAGATACATAG
34073411 GCTCATACTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (44 bp):
CTTGTGTATTATAGGGAGAACCTTACTCCTATTAGATACATAGA
Found at i:34081190 original size:32 final size:32
Alignment explanation
Indices: 34081147--34081359 Score: 160
Period size: 32 Copynumber: 6.7 Consensus size: 32
34081137 TAATGTGATT
*
34081147 GGCACAAAGCCATCAGTAGTAGTGATATGACC
1 GGCACAAAGCCATCAGTAGCAGTGATATGACC
* * * * * * *
34081179 GGCATACAGCCATCAGTAACGGTAACATGATC
1 GGCACAAAGCCATCAGTAGCAGTGATATGACC
*
34081211 GGCACAAAGCCATCAGTAGCAGTGATATGATC
1 GGCACAAAGCCATCAGTAGCAGTGATATGACC
* * * * *
34081243 AGCACACAA-CCATTAGTAACAGTGAAATGATC
1 GGCACA-AAGCCATCAGTAGCAGTGATATGACC
* * * * **
34081275 GGCACATAGCCATCGGTAACAGTAATATGATT
1 GGCACAAAGCCATCAGTAGCAGTGATATGACC
* *** *
34081307 GGCACAAAGCCACCAGTAATGGT-ACTATGATC
1 GGCACAAAGCCATCAGTAGCAGTGA-TATGACC
*
34081339 GGTACAAAGCCATCAGTAGCA
1 GGCACAAAGCCATCAGTAGCA
34081360 TCGCAGCAAA
Statistics
Matches: 142, Mismatches: 36, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
31 2 0.01
32 138 0.97
33 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (32 bp):
GGCACAAAGCCATCAGTAGCAGTGATATGACC
Found at i:34081225 original size:64 final size:64
Alignment explanation
Indices: 34081142--34081359 Score: 251
Period size: 64 Copynumber: 3.4 Consensus size: 64
34081132 TACAGTAATG
* * * *
34081142 TGATTGGCACAAAGCCATCAGTAGTAGTGATATGACCGGCATACAGCCATCAGTAACGGTAACA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGGTAACA
* * * *
34081206 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCAGCACACAACCATTAGTAACAGTGAA-A
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGGT-AACA
* * * * * * * *
34081270 TGATCGGCACATAGCCATCGGTAACAGTAATATGATTGGCACAAAGCCACCAGTAATGGT-ACTA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGGTAAC-A
*
34081334 TGATCGGTACAAAGCCATCAGTAGCA
1 TGATCGGCACAAAGCCATCAGTAGCA
34081360 TCGCAGCAAA
Statistics
Matches: 127, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
62 1 0.01
64 124 0.98
65 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (64 bp):
TGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCCATCAGTAACGGTAACA
Found at i:34081388 original size:26 final size:26
Alignment explanation
Indices: 34081359--34081412 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
34081349 CATCAGTAGC
*
34081359 ATCGCAGCAAAGTTGCCAGCAACAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
* *
34081385 ATCGCAGCAAAGCTGCCAGTAATAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
34081411 AT
1 AT
34081413 ATGTGGGCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGCAACAGT
Done.