Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 273 of 295
Found at i:93103210 original size:81 final size:80
Alignment explanation
Indices: 93103122--93103302 Score: 220
Period size: 81 Copynumber: 2.2 Consensus size: 80
93103112 TTTGTAAATC
* *** * *
93103122 AGGGGTATTTTGTTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGCAATTTCACAAACCAG-GGTATTTT
*
93103187 GGTAATTTTACAAACT
65 AGTAATTTTACAAACT
* * *
93103203 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAAACTAGGGTATTTTA
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGCAATTTCACAAACCAGGGTATTTTA
*
93103268 GTAATTTTACTAA-T
66 GTAATTTTACAAACT
* *
93103282 CGAGAGTATTTTGGTAATTTT
1 AG-GGGTATTTTGGTAATTTT
93103303 GTAAACTGAG
Statistics
Matches: 86, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 37 0.43
81 47 0.55
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.41
Consensus pattern (80 bp):
AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGCAATTTCACAAACCAGGGTATTTTA
GTAATTTTACAAACT
Found at i:93103298 original size:107 final size:108
Alignment explanation
Indices: 93103136--93103343 Score: 251
Period size: 107 Copynumber: 1.9 Consensus size: 108
93103126 GTATTTTGTT
* * *
93103136 AATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAA
1 AATTTTACAAACTGAGGGTATTTCAGTAATTTCACAAACCAGTAGTATTTTGGTAATTTTACAAA
* *
93103201 CT-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGC
66 CTGA-GAGTATTTTAGTAATTTTACAAACCAAGGGTATTTTAGC
* * * * **
93103244 AATTTTACAAACT-AGGGTATTTTAGTAATTTTACTAATCGAG-AGTATTTTGGTAATTTTGTAA
1 AATTTTACAAACTGAGGGTATTTCAGTAATTTCAC-AAACCAGTAGTATTTTGGTAATTTTACAA
** *
93103307 ACTGAGAGTATTTTAGTAATTTTGTAAATCAAGGGTA
65 ACTGAGAGTATTTTAGTAATTTTACAAACCAAGGGTA
93103344 AAATAGTAAT
Statistics
Matches: 84, Mismatches: 14, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
107 66 0.79
108 18 0.21
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (108 bp):
AATTTTACAAACTGAGGGTATTTCAGTAATTTCACAAACCAGTAGTATTTTGGTAATTTTACAAA
CTGAGAGTATTTTAGTAATTTTACAAACCAAGGGTATTTTAGC
Found at i:93103300 original size:80 final size:81
Alignment explanation
Indices: 93103126--93103329 Score: 241
Period size: 80 Copynumber: 2.5 Consensus size: 81
93103116 TAAATCAGGG
* * ** * *
93103126 GTATTTTGTTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTA
1 GTATTTTGGTAATTTTACAAACTGAGGGTATTTTAGTAATTTTACAAACCAGTGGTATTTTAGTA
* *
93103191 ATTTTACAAACTAGGG
66 ATTTTACAAACGAGGA
** * *
93103207 GTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAAACTAG-GGTATTTTAGTA
1 GTATTTTGGTAATTTTACAAACTGAGGGTATTTTAGTAATTTTACAAACCAGTGGTATTTTAGTA
*
93103271 ATTTTACTAATCGA-GA
66 ATTTTAC-AAACGAGGA
** *
93103287 GTATTTTGGTAATTTTGTAAACTGAGAGTATTTTAGTAATTTT
1 GTATTTTGGTAATTTTACAAACTGAGGGTATTTTAGTAATTTT
93103330 GTAAATCAAG
Statistics
Matches: 103, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
80 56 0.54
81 47 0.46
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (81 bp):
GTATTTTGGTAATTTTACAAACTGAGGGTATTTTAGTAATTTTACAAACCAGTGGTATTTTAGTA
ATTTTACAAACGAGGA
Found at i:93103334 original size:27 final size:26
Alignment explanation
Indices: 93103124--93103329 Score: 198
Period size: 27 Copynumber: 7.7 Consensus size: 26
93103114 TGTAAATCAG
*
93103124 GGGTATTTT-GTTAATTTTACAAATTGA
1 GGGTATTTTAG-TAATTTTACAAACT-A
** * *
93103151 GGGTATTTCGGTAATTTCACAAACCA
1 GGGTATTTTAGTAATTTTACAAACTA
*
93103177 GTGGTATTTTGGTAATTTTACAAACTA
1 G-GGTATTTTAGTAATTTTACAAACTA
* *
93103204 GGGGTATTTTGGTAATTTTACAAACCAA
1 -GGGTATTTTAGTAATTTTACAAA-CTA
*
93103232 GGGTATTTTAGCAATTTTACAAACTA
1 GGGTATTTTAGTAATTTTACAAACTA
* *
93103258 GGGTATTTTAGTAATTTTACTAATCGA
1 GGGTATTTTAGTAATTTTAC-AAACTA
* * **
93103285 GAGTATTTTGGTAATTTTGTAAACTGA
1 GGGTATTTTAGTAATTTTACAAACT-A
*
93103312 GAGTATTTTAGTAATTTT
1 GGGTATTTTAGTAATTTT
93103330 GTAAATCAAG
Statistics
Matches: 152, Mismatches: 21, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
26 26 0.17
27 122 0.80
28 4 0.03
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (26 bp):
GGGTATTTTAGTAATTTTACAAACTA
Found at i:93103350 original size:27 final size:27
Alignment explanation
Indices: 93103320--93103451 Score: 165
Period size: 27 Copynumber: 4.9 Consensus size: 27
93103310 GAGAGTATTT
* * *
93103320 TAGTAATTTTGTAAATCAAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
* *
93103347 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
* *
93103374 CAGCAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
** *
93103401 CGGTAATTCTATAAATCGAGGATAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
*
93103428 TAGTAATTTTATAAATCGAGGGTA
1 TAGTAATTCTATAAATCGAGGGTA
93103452 CTTTGGCAAT
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.43, C:0.08, G:0.19, T:0.30
Consensus pattern (27 bp):
TAGTAATTCTATAAATCGAGGGTAAAA
Found at i:93111504 original size:21 final size:21
Alignment explanation
Indices: 93111479--93111525 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
93111469 GTCCTACCAA
*
93111479 GATATACCTAGGTTGAGCACC
1 GATATACCCAGGTTGAGCACC
93111500 GATATACCCAGGTTGAGCACC
1 GATATACCCAGGTTGAGCACC
93111521 GATAT
1 GATAT
93111526 TGTAGTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (21 bp):
GATATACCCAGGTTGAGCACC
Found at i:93115747 original size:46 final size:45
Alignment explanation
Indices: 93115691--93116035 Score: 134
Period size: 45 Copynumber: 7.6 Consensus size: 45
93115681 AGATCGAAGC
*
93115691 CACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCGGGATAAAATTA
1 CACAAACCTTATCTCTCTGAAGTTGCAGTAGAGC-GGATAAAATTA
** * * ** **
93115737 CACAAACCTTATCT-TCCTGAAGTTGCAGCGGATCAGATTGAA-GC
1 CACAAACCTTATCTCT-CTGAAGTTGCAGTAGAGCGGATAAAATTA
* *
93115781 CA-AAATCCTTACCTCTCTGAAGTTACAGTAGAGCAGGATAAAATTA
1 CACAAA-CCTTATCTCTCTGAAGTTGCAGTAGAGC-GGATAAAATTA
* ** * * * * *
93115827 CCCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGA-TA
1 CACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCGGA-T-AAAATTA
* ** * * * * *
93115873 -GCAAATATTATCTCCCTAAAATTGCAGTCGAGCAGACTAAAGA-TA
1 CACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCGGA-TAAA-ATTA
* * * * * *** *
93115918 -GCAGATCTTATCTCCCTGAAGTTGCAGTGGAATAGATCAAA--A
1 CACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCGGATAAAATTA
* * *
93115960 C-CATGATCCTTATCTCTCTGAAGTTGTAGTAGAGCAGGATAAAAATA
1 CACA--AACCTTATCTCTCTGAAGTTGCAGTAGAGC-GGATAAAATTA
* * * *
93116007 CGCAAACCTTATCTCCCTAAAGATGCAGT
1 CACAAACCTTATCTCTCTGAAGTTGCAGT
93116036 GGAATAGATT
Statistics
Matches: 225, Mismatches: 58, Indels: 32
0.71 0.18 0.10
Matches are distributed among these distances:
42 3 0.01
43 4 0.02
44 50 0.22
45 85 0.38
46 74 0.33
47 7 0.03
48 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (45 bp):
CACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCGGATAAAATTA
Found at i:93115781 original size:90 final size:90
Alignment explanation
Indices: 93115658--93116050 Score: 393
Period size: 90 Copynumber: 4.4 Consensus size: 90
93115648 GCAATTCTTG
* *
93115658 TCTCCCTAAAGTTGCAGTGGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAAGTTGCAGTAGA
1 TCTCCCTAAAGTTGCAGTGGATCAGATTGAAGCCACAATCCTTATCTCTCTGAAGTTGCAGTAGA
* *
93115723 GCGGGATAAAATTACACAAACCTTA
66 GCAGGATAAAATTACGCAAACCTTA
* * * * * *
93115748 TCTTCCTGAAGTTGCAGCGGATCAGATTGAAGCCAAAATCCTTACCTCTCTGAAGTTACAGTAGA
1 TCTCCCTAAAGTTGCAGTGGATCAGATTGAAGCCACAATCCTTATCTCTCTGAAGTTGCAGTAGA
* **
93115813 GCAGGATAAAATTACCCAAGTCTTA
66 GCAGGATAAAATTACGCAAACCTTA
* * ** * * * * *
93115838 TCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAT-ATTATCTCCCTAAAATTGCAGTC
1 TCTCCCTAAAGTTGCAGTGGATCAGATTGAAGCCA-C-AATCCTTATCTCTCTGAAGTTGCAGTA
* *
93115902 GAGCA-GACTAAAGA-TA-GCAGATCTTA
64 GAGCAGGA-TAAA-ATTACGCAAACCTTA
* ** * ** *
93115928 TCTCCCTGAAGTTGCAGTGGAAT-AGATCAAAACCATGATCCTTATCTCTCTGAAGTTGTAGTAG
1 TCTCCCTAAAGTTGCAGTGG-ATCAGATTGAAGCCACAATCCTTATCTCTCTGAAGTTGCAGTAG
*
93115992 AGCAGGATAAAAATACGCAAACCTTA
65 AGCAGGATAAAATTACGCAAACCTTA
*
93116018 TCTCCCTAAAGATGCAGTGGAAT-AGATTGAAGC
1 TCTCCCTAAAGTTGCAGTGG-ATCAGATTGAAGC
93116051 TATAAATAAA
Statistics
Matches: 241, Mismatches: 53, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
88 3 0.01
89 28 0.12
90 178 0.74
91 28 0.12
92 4 0.02
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (90 bp):
TCTCCCTAAAGTTGCAGTGGATCAGATTGAAGCCACAATCCTTATCTCTCTGAAGTTGCAGTAGA
GCAGGATAAAATTACGCAAACCTTA
Found at i:93115890 original size:45 final size:45
Alignment explanation
Indices: 93115610--93115948 Score: 176
Period size: 45 Copynumber: 7.5 Consensus size: 45
93115600 TACGCAAGTC
* * * * *
93115610 TTATCTCCCTGAAGGTGCAGTGGAGTAGACTAAAGATAGCAATTC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATA
* * *
93115655 TTGTCTCCCTAAAGTTGCAGTGGAGCAGA-T--CGA-AGCCACAATCC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAG-CA-AAT-A
* * * * * **
93115699 TTATCTCTCTGAAGTTGCAGTAGAGCGGGA-TAAA-ATTACACAAACC
1 TTATCTCCCTAAAGTTGCAGTGGAGC-AGACTAAAGA-TA-GCAAATA
* * * * * * ** *
93115745 TTATCTTCCTGAAGTTGCAGCGGATCAGATTGAAGCCA--AAATCC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAAT-A
* * * * * * * *
93115789 TTACCTCTCTGAAGTTACAGTAGAGCAGGA-TAAA-ATTACCCAAGTC
1 TTATCTCCCTAAAGTTGCAGTGGAGCA-GACTAAAGA-TA-GCAAATA
*
93115835 TTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATA
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATA
* * * *
93115880 TTATCTCCCTAAAATTGCAGTCGAGCAGACTAAAGATAGCAGATC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATA
*
93115925 TTATCTCCCTGAAGTTGCAGTGGA
1 TTATCTCCCTAAAGTTGCAGTGGA
93115949 ATAGATCAAA
Statistics
Matches: 223, Mismatches: 52, Indels: 38
0.71 0.17 0.12
Matches are distributed among these distances:
41 2 0.01
42 4 0.02
43 5 0.02
44 49 0.22
45 99 0.44
46 55 0.25
47 6 0.03
48 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (45 bp):
TTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATA
Found at i:93130237 original size:25 final size:24
Alignment explanation
Indices: 93130209--93130275 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
93130199 AAAAAATACC
93130209 AAATTTAAGTACTAAATTAAGAAAA
1 AAATTTAAGTACTAAATT-AGAAAA
*
93130234 AAATTT-AGATACTAAATTAGGAAA
1 AAATTTAAG-TACTAAATTAGAAAA
* *
93130258 AAATTCAAGTATTAAATT
1 AAATTTAAGTACTAAATT
93130276 GTATCAAATC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 20 0.54
25 17 0.46
ACGTcount: A:0.55, C:0.04, G:0.09, T:0.31
Consensus pattern (24 bp):
AAATTTAAGTACTAAATTAGAAAA
Found at i:93136515 original size:17 final size:17
Alignment explanation
Indices: 93136493--93136527 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
93136483 ATTTATTTAA
93136493 AAACGCCGCTAAAGGTC
1 AAACGCCGCTAAAGGTC
93136510 AAACGCCGCTAAAGGTC
1 AAACGCCGCTAAAGGTC
93136527 A
1 A
93136528 TTAAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.29, G:0.23, T:0.11
Consensus pattern (17 bp):
AAACGCCGCTAAAGGTC
Found at i:93136668 original size:13 final size:13
Alignment explanation
Indices: 93136637--93136669 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
93136627 TATAAATATA
93136637 AAAATTTTCTATT
1 AAAATTTTCTATT
93136650 -AAATTTTCTATT
1 AAAATTTTCTATT
93136662 AAAATTTT
1 AAAATTTT
93136670 AACTTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (13 bp):
AAAATTTTCTATT
Found at i:93140742 original size:14 final size:14
Alignment explanation
Indices: 93140719--93140844 Score: 67
Period size: 14 Copynumber: 8.5 Consensus size: 14
93140709 TACACTAATT
93140719 ACCCTAAACCCCTA
1 ACCCTAAACCCCTA
* *
93140733 ACCCTTAACCCTTA
1 ACCCTAAACCCCTA
**
93140747 ACCC-ATGTCCCCTTA
1 ACCCTA-AACCCC-TA
93140762 ACCCTAAAACCCCTA
1 ACCCT-AAACCCCTA
**
93140777 CACACCTAAA-TTCTAA
1 -AC-CCTAAACCCCT-A
*
93140793 ACCCTAAACCCTATA
1 ACCCTAAACCC-CTA
*
93140808 ACCCGTAAATCCCTA
1 ACCC-TAAACCCCTA
* *
93140823 ACTCTTAACCCCTAA
1 ACCCTAAACCCCT-A
93140838 ACCCTAA
1 ACCCTAA
93140845 GCCATAAAAC
Statistics
Matches: 81, Mismatches: 20, Indels: 21
0.66 0.16 0.17
Matches are distributed among these distances:
14 32 0.40
15 28 0.35
16 17 0.21
17 4 0.05
ACGTcount: A:0.35, C:0.42, G:0.02, T:0.21
Consensus pattern (14 bp):
ACCCTAAACCCCTA
Found at i:93140799 original size:7 final size:7
Alignment explanation
Indices: 93140756--93140867 Score: 64
Period size: 7 Copynumber: 15.1 Consensus size: 7
93140746 AACCCATGTC
*
93140756 CCCTTAA
1 CCCTAAA
93140763 CCCTAAAA
1 CCCT-AAA
*
93140771 CCCCTACA
1 -CCCTAAA
93140779 CACCTAAA
1 C-CCTAAA
**
93140787 TTCTAAA
1 CCCTAAA
93140794 CCCTAAA
1 CCCTAAA
93140801 CCCTATAA
1 CCCTA-AA
93140809 CCCGTAAA
1 CCC-TAAA
93140817 TCCCT-AA
1 -CCCTAAA
* *
93140824 CTCTTAAC
1 C-CCTAAA
93140832 CCCTAAA
1 CCCTAAA
*
93140839 CCCTAAG
1 CCCTAAA
*
93140846 CCATAAA
1 CCCTAAA
* *
93140853 ACATAAA
1 CCCTAAA
93140860 CCCTAAA
1 CCCTAAA
93140867 C
1 C
93140868 TTCTACCCCT
Statistics
Matches: 80, Mismatches: 17, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
6 1 0.01
7 51 0.64
8 19 0.24
9 9 0.11
ACGTcount: A:0.40, C:0.38, G:0.02, T:0.20
Consensus pattern (7 bp):
CCCTAAA
Found at i:93141211 original size:22 final size:21
Alignment explanation
Indices: 93141185--93141234 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
93141175 CCATGGCCAT
93141185 TAAACCTTAAATCATAAAACCC
1 TAAACCTTAAATC-TAAAACCC
* * * *
93141207 TAAACCATAGATCTTAAACCT
1 TAAACCTTAAATCTAAAACCC
93141228 TAAACCT
1 TAAACCT
93141235 CAAAATAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.46, C:0.26, G:0.02, T:0.26
Consensus pattern (21 bp):
TAAACCTTAAATCTAAAACCC
Found at i:93141399 original size:38 final size:39
Alignment explanation
Indices: 93141356--93141438 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 39
93141346 GATTTAAGGT
*
93141356 TTTAGGGGTTATAGTTTAGGGTTTAGGATTTTTCA-GGG
1 TTTAGGGGTTATAGATTAGGGTTTAGGATTTTTCAGGGG
* * *
93141394 TTTAGGGGTTATAGATTAGTGTTTATGATTTTTTAGGGG
1 TTTAGGGGTTATAGATTAGGGTTTAGGATTTTTCAGGGG
93141433 TTTAGG
1 TTTAGG
93141439 ATTTTAGGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 31 0.77
39 9 0.22
ACGTcount: A:0.19, C:0.01, G:0.33, T:0.47
Consensus pattern (39 bp):
TTTAGGGGTTATAGATTAGGGTTTAGGATTTTTCAGGGG
Found at i:93141620 original size:16 final size:16
Alignment explanation
Indices: 93141599--93141630 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
93141589 AACGCCGCTA
93141599 TTGCTCTATTTTTAGC
1 TTGCTCTATTTTTAGC
*
93141615 TTGCTCTGTTTTTAGC
1 TTGCTCTATTTTTAGC
93141631 GGCGTTTTTG
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:0.09, C:0.19, G:0.16, T:0.56
Consensus pattern (16 bp):
TTGCTCTATTTTTAGC
Found at i:93141706 original size:40 final size:40
Alignment explanation
Indices: 93141623--93141698 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
93141613 GCTTGCTCTG
* * *
93141623 TTTTTAGCGGCGTTTTTGCTAAAACGCCGCTAATGTACAA
1 TTTTTAGCGGCGTTTTTGATAAAACGCCGCTAAAGCACAA
*
93141663 TTTTT-GCGGCGTTTTTTGATAAAACGCCTCTAAAGC
1 TTTTTAGCGGCG-TTTTTGATAAAACGCCGCTAAAGC
93141699 CCTATTTTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 6 0.19
40 25 0.81
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTGATAAAACGCCGCTAAAGCACAA
Found at i:93147361 original size:43 final size:43
Alignment explanation
Indices: 93147305--93147430 Score: 148
Period size: 43 Copynumber: 2.9 Consensus size: 43
93147295 ATTGCATGTT
*
93147305 ATCACATATTGATGCTAATGTCCCAGACATGGTCTTACACGAA
1 ATCACATAATGATGCTAATGTCCCAGACATGGTCTTACACGAA
* * *
93147348 ATCATATAATGATG-TCCATGTCCCAGACATGGTCTTACACGTA
1 ATCACATAATGATGCT-AATGTCCCAGACATGGTCTTACACGAA
* * * *
93147391 ATCACA-ATATGATTCCAATTTCTCAGACATGGTCTTACAC
1 ATCACATA-ATGATGCTAATGTCCCAGACATGGTCTTACAC
93147431 ATAATTACGT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 2 0.03
43 68 0.97
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (43 bp):
ATCACATAATGATGCTAATGTCCCAGACATGGTCTTACACGAA
Found at i:93151764 original size:30 final size:31
Alignment explanation
Indices: 93151720--93151778 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
93151710 CCCAAACCCC
**
93151720 AAACCCAATTCCTAA-ATAGCCCAAACACTA
1 AAACCCAACACCTAACATAGCCCAAACACTA
*
93151750 AAACCCAACACCTAACCCTAGCCCAAACA
1 AAACCCAACACCTAA-CATAGCCCAAACA
93151779 ACACAAAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.54
32 11 0.46
ACGTcount: A:0.46, C:0.39, G:0.03, T:0.12
Consensus pattern (31 bp):
AAACCCAACACCTAACATAGCCCAAACACTA
Found at i:93152214 original size:26 final size:26
Alignment explanation
Indices: 93152175--93152230 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
93152165 CATAAACTTA
* *
93152175 TATATATTATAAATACAAAAAAAATT
1 TATATATTAAAAATACAAAAAAAAAT
93152201 TATATATTAAAAATACAAAAAAAAAT
1 TATATATTAAAAATACAAAAAAAAAT
93152227 TATA
1 TATA
93152231 CCTTTTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (26 bp):
TATATATTAAAAATACAAAAAAAAAT
Found at i:93152796 original size:19 final size:19
Alignment explanation
Indices: 93152758--93152801 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
93152748 TAATTTTTAC
* *
93152758 ATTATTTTTACCATTTTTT
1 ATTATTTTTAACATTATTT
*
93152777 ATTATTTTTAATATTATTT
1 ATTATTTTTAACATTATTT
93152796 ATTATT
1 ATTATT
93152802 ATATTTACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTATTTTTAACATTATTT
Found at i:93152851 original size:20 final size:21
Alignment explanation
Indices: 93152818--93152866 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
93152808 ACCATTATCG
* * *
93152818 TTATTATTATTATTAGTAGTA
1 TTATTTTTACTATTAGTAGAA
*
93152839 -TATTTTTACTATTATTAGAA
1 TTATTTTTACTATTAGTAGAA
93152859 TTATTTTT
1 TTATTTTT
93152867 TTTAGTTTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (21 bp):
TTATTTTTACTATTAGTAGAA
Found at i:93152867 original size:23 final size:23
Alignment explanation
Indices: 93152825--93152868 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
93152815 TCGTTATTAT
*
93152825 TATTATTAGTAGTATATTTTTAC
1 TATTATTAGAAGTATATTTTTAC
* *
93152848 TATTATTAGAATTATTTTTTT
1 TATTATTAGAAGTATATTTTT
93152869 TAGTTTCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (23 bp):
TATTATTAGAAGTATATTTTTAC
Found at i:93153013 original size:24 final size:24
Alignment explanation
Indices: 93152957--93153016 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
93152947 AATAAACAAA
* *
93152957 TGTATACATATTTAAATACTATAT
1 TGTATACATATTTAAATACCACAT
* * * *
93152981 TATACACATATTTTAATACCACGT
1 TGTATACATATTTAAATACCACAT
93153005 TGTATACATATT
1 TGTATACATATT
93153017 ATTATTATAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.43
Consensus pattern (24 bp):
TGTATACATATTTAAATACCACAT
Found at i:93153371 original size:25 final size:24
Alignment explanation
Indices: 93153336--93153393 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
93153326 CTCTAATATG
* *
93153336 TATATACTATGTAAATATTTTTAA
1 TATATATTATGTAAACATTTTTAA
* *
93153360 TATTATATTATGTATACATTTTTTA
1 TA-TATATTATGTAAACATTTTTAA
93153385 TATATATTA
1 TATATATTA
93153394 CATATATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 9 0.31
25 20 0.69
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (24 bp):
TATATATTATGTAAACATTTTTAA
Found at i:93153399 original size:24 final size:25
Alignment explanation
Indices: 93153352--93153399 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
93153342 CTATGTAAAT
**
93153352 ATTTTTAATATTATATTATGTATAC
1 ATTTTTAATATTATATTACATATAC
*
93153377 ATTTTTTATA-TATATTACATATA
1 ATTTTTAATATTATATTACATATA
93153400 TATATCATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (25 bp):
ATTTTTAATATTATATTACATATAC
Found at i:93153427 original size:38 final size:35
Alignment explanation
Indices: 93153380--93153466 Score: 84
Period size: 36 Copynumber: 2.3 Consensus size: 35
93153370 TGTATACATT
* * *
93153380 TTTTATATATATTACATATATATATCATTTAATATTGTA
1 TTTT-TATATATT--ATATATACATC-TTTAATACTATA
* *
93153419 TTTTTATATGTTATGTATACATCTTTAATACTATA
1 TTTTTATATATTATATATACATCTTTAATACTATA
93153454 TTATTTATATATT
1 TT-TTTATATATT
93153467 TTTTTTATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
35 12 0.29
36 18 0.44
38 7 0.17
39 4 0.10
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (35 bp):
TTTTTATATATTATATATACATCTTTAATACTATA
Found at i:93156187 original size:26 final size:26
Alignment explanation
Indices: 93156152--93156259 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
93156142 TGAAATGCCC
* *
93156152 ATCATAGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
93156178 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
93156204 ATCATGGAATATTTACCCAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
93156230 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93156256 ATCA
1 ATCA
93156260 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:93156706 original size:27 final size:24
Alignment explanation
Indices: 93156685--93156740 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
93156675 ATATACTATG
93156685 TATACATTTTTTAAATACTATATTA
1 TATACA-TTTTTAAATACTATATTA
* **
93156710 TATATATTTTTAAATACCGTATTA
1 TATACATTTTTAAATACTATATTA
*
93156734 TGTACAT
1 TATACAT
93156741 GTTATTATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.50
Consensus pattern (24 bp):
TATACATTTTTAAATACTATATTA
Found at i:93159558 original size:76 final size:75
Alignment explanation
Indices: 93159467--93159654 Score: 263
Period size: 76 Copynumber: 2.5 Consensus size: 75
93159457 TCTGTTCGTC
* * *
93159467 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAGGTTGAGGT-ATTTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTT-AATTTC
* * *
93159531 T-GTCTTTCGAAA
65 TATTC-AT-AAAA
*
93159543 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTAATTTCT
93159608 ATTCATAAAA
66 ATTCATAAAA
*
93159618 AAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
93159655 GGCTCACATG
Statistics
Matches: 102, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
75 39 0.38
76 56 0.55
77 7 0.07
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.29
Consensus pattern (75 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTAATTTCT
ATTCATAAAA
Found at i:93159792 original size:152 final size:152
Alignment explanation
Indices: 93159600--93159906 Score: 560
Period size: 152 Copynumber: 2.0 Consensus size: 152
93159590 GAGGTAATTT
*
93159600 TAATTTCTATTCATAAAAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGCTCACATG
1 TAATTTCTATTCATAAAAAAAATCAACTCATATTGAGAGAGGTGAGCTGAGCCTCGGCTCACATG
* * *
93159665 CTGAGGTGTTTTCAATCTCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGATAGA
66 CTGAGGTATTTTCAATCTCTATTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGA
93159730 TGAGTTGAGCCTCAGGACACGC
131 TGAGTTGAGCCTCAGGACACGC
*
93159752 TAATTTCTATTCATCAAAAAAATCAACTCATATTGAGAGAGGTGAGCTGAGCCTCGGCTCACATG
1 TAATTTCTATTCATAAAAAAAATCAACTCATATTGAGAGAGGTGAGCTGAGCCTCGGCTCACATG
*
93159817 CTGAGGTATTTTCAATCTCTATTTTTCAATTTCTGTTCGTCAAAATCAACTCGTATTGCGAGAGA
66 CTGAGGTATTTTCAATCTCTATTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGA
93159882 TGAGTTGAGCCTCAGGACACGC
131 TGAGTTGAGCCTCAGGACACGC
93159904 TAA
1 TAA
93159907 GGTATTTTCA
Statistics
Matches: 149, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
152 149 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (152 bp):
TAATTTCTATTCATAAAAAAAATCAACTCATATTGAGAGAGGTGAGCTGAGCCTCGGCTCACATG
CTGAGGTATTTTCAATCTCTATTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGA
TGAGTTGAGCCTCAGGACACGC
Found at i:93159973 original size:85 final size:86
Alignment explanation
Indices: 93159769--93160147 Score: 357
Period size: 85 Copynumber: 4.4 Consensus size: 86
93159759 TATTCATCAA
* * *
93159769 AAAAATCAACTCATATTGAGAGAGGTGAGCTGAGCCTC-GGCTCACATGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAAT
* * * *
93159833 CTCTATTTTTCAATTTCTGTTCGTC
63 TTCCATTTTTCAATTTATGTT-ATC
* * *
93159858 -AAAATCAACTCGTATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTAAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
93159922 CATTTTTCAATTTATGTT-TC
66 CATTTTTCAATTTATGTTATC
* *
93159942 AAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAA-TTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
** **
93160006 C--TTTT---TTTA--AAAAA
66 CATTTTTCAATTTATGTTATC
* * * * *
93160020 AAAAATCAAGCTCATATTGCGAGAGGTAAGTTGAACCTCAAGACATGCTGAGGTATTTTCAGTTT
1 AAAAATCAA-CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
** * *
93160085 CTGTTTTTCAAATTCTGTTTTTATC
65 CCATTTTTC-AATT-T-ATGTTATC
* * *
93160110 AAAAGTCAGCTCATATTGCGATAGGTGAGTTGAGCCTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
93160148 GGGTCACATA
Statistics
Matches: 239, Mismatches: 36, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
78 9 0.04
79 49 0.21
80 3 0.01
82 8 0.03
84 6 0.03
85 55 0.23
86 39 0.16
87 1 0.00
88 33 0.14
89 28 0.12
90 8 0.03
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (86 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
CATTTTTCAATTTATGTTATC
Found at i:93160092 original size:79 final size:78
Alignment explanation
Indices: 93159942--93160092 Score: 212
Period size: 79 Copynumber: 1.9 Consensus size: 78
93159932 TTTATGTTTC
* * * **
93159942 AAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTCC
1 AAAAATCAACTCATATTGCGAGAGGTAAGTTGAACCTCAAGACACGCTGAGGTATTTTCAATTCC
*
93160007 TTTTTTTAAAAAA
66 TGTTTTTAAAAAA
* * *
93160020 AAAAATCAAGCTCATATTGCGAGAGGTAAGTTGAACCTCAAGACATGCTGAGGTATTTTCAGTTT
1 AAAAATCAA-CTCATATTGCGAGAGGTAAGTTGAACCTCAAGACACGCTGAGGTATTTTCAATTC
93160085 CTGTTTTT
65 CTGTTTTT
93160093 CAAATTCTGT
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
78 9 0.14
79 54 0.86
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.32
Consensus pattern (78 bp):
AAAAATCAACTCATATTGCGAGAGGTAAGTTGAACCTCAAGACACGCTGAGGTATTTTCAATTCC
TGTTTTTAAAAAA
Found at i:93160654 original size:20 final size:20
Alignment explanation
Indices: 93160629--93160669 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
93160619 AAACCCATAC
93160629 ATAAAACCCAAATCTACCCA
1 ATAAAACCCAAATCTACCCA
93160649 ATAAAACCCAAATCTACCCA
1 ATAAAACCCAAATCTACCCA
93160669 A
1 A
93160670 AACCCATTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.34, G:0.00, T:0.15
Consensus pattern (20 bp):
ATAAAACCCAAATCTACCCA
Found at i:93161128 original size:12 final size:12
Alignment explanation
Indices: 93161111--93161139 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
93161101 GCCTAAGGTG
93161111 ATTTTAGTTTTT
1 ATTTTAGTTTTT
93161123 ATTTTAGTTTTT
1 ATTTTAGTTTTT
93161135 ATTTT
1 ATTTT
93161140 GGAATCCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (12 bp):
ATTTTAGTTTTT
Found at i:93161194 original size:25 final size:25
Alignment explanation
Indices: 93161166--93161219 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
93161156 CATAAACTTA
*
93161166 TATATATTATAAATACAAAAAAAAT
1 TATATATTAAAAATACAAAAAAAAT
93161191 TATATATTAAAAATACAAAAAAAAT
1 TATATATTAAAAATACAAAAAAAAT
93161216 TATA
1 TATA
93161220 CCTTTTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (25 bp):
TATATATTAAAAATACAAAAAAAAT
Found at i:93161786 original size:18 final size:18
Alignment explanation
Indices: 93161771--93161819 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
93161761 TTAATTTAGT
93161771 TTTTATATTATTTTTACCA
1 TTTT-TATTATTTTTACCA
**
93161790 TTTTTATTATTTTTAATA
1 TTTTTATTATTTTTACCA
93161808 TTATTTATTATT
1 TT-TTTATTATT
93161820 ATATTTACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTATTATTTTTACCA
Found at i:93161799 original size:3 final size:3
Alignment explanation
Indices: 93161793--93161884 Score: 53
Period size: 3 Copynumber: 30.7 Consensus size: 3
93161783 TTTACCATTT
* * ** **
93161793 TTA TTA TTT TTA ATA TTA TTTA TTA TTA -TA TTTA CCA TTA TCG TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* * * **
93161839 TTA TTA TTA TTA TTA GTA -TA TTT TTA CTA TTA TTA GAA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
93161885 TTTAGTTTCA
Statistics
Matches: 64, Mismatches: 21, Indels: 8
0.69 0.23 0.09
Matches are distributed among these distances:
2 4 0.06
3 55 0.86
4 5 0.08
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:93161801 original size:9 final size:9
Alignment explanation
Indices: 93161771--93161819 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
93161761 TTAATTTAGT
93161771 TTTTATATTA
1 TTTT-TATTA
**
93161781 TTTTTACCA
1 TTTTTATTA
93161790 TTTTTATTA
1 TTTTTATTA
*
93161799 TTTTTAATA
1 TTTTTATTA
93161808 TTATTTATTA
1 TT-TTTATTA
93161818 TT
1 TT
93161820 ATATTTACCA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
9 20 0.62
10 12 0.38
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTTATTA
Found at i:93162028 original size:24 final size:24
Alignment explanation
Indices: 93161972--93162031 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
93161962 AATAAATATA
* *
93161972 TGTATACATATTTAAATACTATAT
1 TGTATACATATTTAAATACCACAT
* * * *
93161996 TATACACATATTTTAATACCACGT
1 TGTATACATATTTAAATACCACAT
93162020 TGTATACATATT
1 TGTATACATATT
93162032 ATTATTATAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.43
Consensus pattern (24 bp):
TGTATACATATTTAAATACCACAT
Found at i:93162072 original size:21 final size:21
Alignment explanation
Indices: 93162033--93162072 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
93162023 ATACATATTA
*
93162033 TTATTATATCTATTTTTAACC
1 TTATTATATCTATTATTAACC
* *
93162054 TTATTATATTTGTTATTAA
1 TTATTATATCTATTATTAA
93162073 TATTAGTATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (21 bp):
TTATTATATCTATTATTAACC
Found at i:93162407 original size:25 final size:24
Alignment explanation
Indices: 93162353--93162431 Score: 70
Period size: 25 Copynumber: 3.1 Consensus size: 24
93162343 CTCTAATATG
*
93162353 TATATACTATGTA-AATATTTTAA
1 TATATATTATGTATAATATTTTAA
* *
93162376 TATTATATTATGTATACATTTTTTTA
1 TA-TATATTATGTATA-ATATTTTAA
*
93162402 TATATATTACGTATATATATCATTTAA
1 TATATATTATGTATA-ATAT--TTTAA
93162429 TAT
1 TAT
93162432 TGTATTTTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
23 2 0.05
24 10 0.23
25 16 0.36
26 9 0.20
27 7 0.16
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.53
Consensus pattern (24 bp):
TATATATTATGTATAATATTTTAA
Found at i:93162673 original size:32 final size:33
Alignment explanation
Indices: 93162602--93162674 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
93162592 ATTATTCCTA
* * *
93162602 GTATATATACTATGTATACATTTTTTTAAATACT
1 GTAT-TATACTATGTATACATATATTTAAATACC
* *
93162636 ATATTATA-TATGTATATATATATTTAAATACC
1 GTATTATACTATGTATACATATATTTAAATACC
93162668 GTATTAT
1 GTATTAT
93162675 GTACATGTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
32 26 0.79
33 4 0.12
34 3 0.09
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.49
Consensus pattern (33 bp):
GTATTATACTATGTATACATATATTTAAATACC
Found at i:93167900 original size:29 final size:29
Alignment explanation
Indices: 93167833--93167901 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
93167823 CCTTAAACAC
93167833 TGAACCC-AAACTCATAACTCCGAACCCT
1 TGAACCCTAAACTCATAACTCCGAACCCT
** *
93167861 TGAACTTTAAACTCA-AAC-CCTTGAACCTT
1 TGAACCCTAAACTCATAACTCC--GAACCCT
93167890 TGAACCCTAAAC
1 TGAACCCTAAAC
93167902 CTGAATCTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
27 2 0.06
28 8 0.24
29 23 0.70
ACGTcount: A:0.36, C:0.33, G:0.07, T:0.23
Consensus pattern (29 bp):
TGAACCCTAAACTCATAACTCCGAACCCT
Found at i:93175251 original size:20 final size:21
Alignment explanation
Indices: 93175214--93175252 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
93175204 TAATGAAGCT
* *
93175214 AAAAAAATAACTCTTAATTTA
1 AAAAAAATAACACGTAATTTA
93175235 AAAAAAATAA-ACGTAATT
1 AAAAAAATAACACGTAATT
93175253 ATCTAAAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.28
Consensus pattern (21 bp):
AAAAAAATAACACGTAATTTA
Found at i:93179379 original size:39 final size:40
Alignment explanation
Indices: 93179334--93179417 Score: 125
Period size: 39 Copynumber: 2.1 Consensus size: 40
93179324 AAAAATTATA
* *
93179334 TTTAATACAATAAAATATTTATTATATTTAT-TTGTGTTT
1 TTTAATACAATAAAACATTTATTATATTTATATAGTGTTT
*
93179373 TTTAATATAATAAAACATTTATTATATTTATAGTAGTGTTT
1 TTTAATACAATAAAACATTTATTATATTTATA-TAGTGTTT
93179414 TTTA
1 TTTA
93179418 TTATAAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 29 0.73
41 11 0.28
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (40 bp):
TTTAATACAATAAAACATTTATTATATTTATATAGTGTTT
Found at i:93181396 original size:23 final size:23
Alignment explanation
Indices: 93181369--93181412 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
93181359 TTTTTGGTTA
93181369 TTACTAATGTT-CCACTTATTATT
1 TTACTAATGTTACCA-TTATTATT
*
93181392 TTACTATTGTTACCATTATTA
1 TTACTAATGTTACCATTATTA
93181413 AATAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.52
Consensus pattern (23 bp):
TTACTAATGTTACCATTATTATT
Found at i:93192302 original size:44 final size:44
Alignment explanation
Indices: 93192252--93192685 Score: 288
Period size: 44 Copynumber: 9.7 Consensus size: 44
93192242 CTTGTTCTAA
* *
93192252 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGC
* * * *
93192296 TCCACTGAAAATTCAGGGAGATAAGACTTGTAACTTCGATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGC
* * * *
93192340 TCCACTGAAACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTTAATTTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAAC-T-T--C---AATCTGC
* * ** * *
93192391 TCCACTGCAACTTCAGGGAAATAAGATTCGTAGTTTCAACCCGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGC
** * * * *
93192435 TCCACTATAACTTCAGGGAAATAAGATTTGTAGCTTCAACCCAG-
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAA-TCTGC
* * * * * *
93192479 TCCACTGTAACTTTAGGGAGATAAG--GT-TCACTTTAATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGC
* * * *
93192520 TCCACTGTAACTTCAGGGAGATAGGATTTGTGTATTGTAGCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGA-TT-TGTA----A-CTTCAATCTGC
* * * * *
93192571 TCTATTGTAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTCAATCTGC
** * *
93192616 TCTGCTGCAACTTTAGGGAGATAAGATTTGT---TTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGC
* *
93192657 TCTACTGCAACTTCAAGGAGATAAGATTT
1 TCCACTGCAACTTCAGGGAGATAAGATTT
93192686 ACTACGGTGA
Statistics
Matches: 315, Mismatches: 55, Indels: 43
0.76 0.13 0.10
Matches are distributed among these distances:
40 1 0.00
41 64 0.20
42 1 0.00
44 134 0.43
45 39 0.12
46 2 0.01
47 1 0.00
48 1 0.00
49 3 0.01
50 6 0.02
51 63 0.20
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGC
Found at i:93192502 original size:139 final size:139
Alignment explanation
Indices: 93192252--93192503 Score: 330
Period size: 139 Copynumber: 1.8 Consensus size: 139
93192242 CTTGTTCTAA
* * * * *
93192252 TCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCGATCTGCTCCACTGAAAATTCAGGGAGA
1 TCCACTGCAACTTCAGGGAAATAAGACTTGTAACTTCAACCCGCTCCACTGAAAATTCAGGGAAA
* * *
93192317 TAAGACTTGTAACTTCGATCTGCTCCACTGAAACTTTAGGGAGATAAGATTTGTAACTTGTAGCT
66 TAAGACTTGTAACTTCAACCAGCTCCACTGAAACTTTAGGGAGATAAGATTTGTAACTTGTAGCT
93192382 TTAATTTGT
131 TTAATTTGT
** *
93192391 TCCACTGCAACTTCAGGGAAATAAGA-TTCGTAGTTTCAACCCGCTCCACT-ATAACTTCAGGGA
1 TCCACTGCAACTTCAGGGAAATAAGACTT-GTAACTTCAACCCGCTCCACTGA-AAATTCAGGGA
* * *
93192454 AATAAGATTTGTAGCTTCAACCCAG-TCCACTGTAACTTTAGGGAGATAAG
64 AATAAGACTTGTAACTTCAA-CCAGCTCCACTGAAACTTTAGGGAGATAAG
93192504 GTTCACTTTA
Statistics
Matches: 96, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
138 3 0.03
139 91 0.95
140 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (139 bp):
TCCACTGCAACTTCAGGGAAATAAGACTTGTAACTTCAACCCGCTCCACTGAAAATTCAGGGAAA
TAAGACTTGTAACTTCAACCAGCTCCACTGAAACTTTAGGGAGATAAGATTTGTAACTTGTAGCT
TTAATTTGT
Found at i:93192666 original size:41 final size:43
Alignment explanation
Indices: 93192561--93192685 Score: 155
Period size: 41 Copynumber: 2.9 Consensus size: 43
93192551 GTATTGTAGC
* * * *
93192561 TTTAATCTGTTCTATTGTAACTTCAGGGAAATAAGATTTGCTA
1 TTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGCTA
* *
93192604 TCTTCAATCTGCTCTGCTGCAACTTTAGGGAGATAAGATTTG-T-
1 T-TT-AATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGCTA
*
93192647 TTTAATCTGCTCTACTGCAACTTCAAGGAGATAAGATTT
1 TTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTT
93192686 ACTACGGTGA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 33 0.46
42 2 0.03
43 2 0.03
44 3 0.04
45 31 0.44
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (43 bp):
TTTAATCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGCTA
Found at i:93200141 original size:16 final size:16
Alignment explanation
Indices: 93200122--93200153 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
93200112 TTCATATAAC
93200122 TTTATGTAAATATTTT
1 TTTATGTAAATATTTT
*
93200138 TTTATGTATATATTTT
1 TTTATGTAAATATTTT
93200154 CTTTTCAAGT
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:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (16 bp):
TTTATGTAAATATTTT
Found at i:93204265 original size:19 final size:19
Alignment explanation
Indices: 93204241--93204278 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
93204231 ATTAAAAGAG
93204241 GTATCTCAATCCTTCCCAT
1 GTATCTCAATCCTTCCCAT
93204260 GTATCTCAATCCTTCCCAT
1 GTATCTCAATCCTTCCCAT
93204279 CACCCTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.37, G:0.05, T:0.37
Consensus pattern (19 bp):
GTATCTCAATCCTTCCCAT
Found at i:93206985 original size:19 final size:20
Alignment explanation
Indices: 93206960--93207012 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
93206950 TAGGGTTTTT
*
93206960 TATGAAATTTAATG-CG-TA
1 TATGAAATGTAATGCCGATA
93206978 TGATGAAATGTAATGCCGATA
1 T-ATGAAATGTAATGCCGATA
93206999 TATGAAATG-AATGC
1 TATGAAATGTAATGC
93207013 AAACAAGGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
18 1 0.03
19 17 0.55
20 10 0.32
21 3 0.10
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.32
Consensus pattern (20 bp):
TATGAAATGTAATGCCGATA
Found at i:93210775 original size:17 final size:17
Alignment explanation
Indices: 93210734--93210775 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
93210724 TGAAAATATC
93210734 AAAAATAATAAAAGAAAT
1 AAAAA-AATAAAAGAAAT
*
93210752 AATAAAATAACAAG-AAT
1 AAAAAAATAA-AAGAAAT
93210769 AAAAAAA
1 AAAAAAA
93210776 AATGACAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (17 bp):
AAAAAAATAAAAGAAAT
Found at i:93210783 original size:19 final size:19
Alignment explanation
Indices: 93210755--93210793 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
93210745 AAGAAATAAT
93210755 AAAATAACAA-GAATAAAAA
1 AAAATAACAATG-ATAAAAA
*
93210774 AAAATGACAATGATAAAAA
1 AAAATAACAATGATAAAAA
93210793 A
1 A
93210794 TGCGCAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.74, C:0.05, G:0.08, T:0.13
Consensus pattern (19 bp):
AAAATAACAATGATAAAAA
Found at i:93210853 original size:4 final size:4
Alignment explanation
Indices: 93210846--93210875 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
93210836 AAAAAGAAGT
*
93210846 AATA AATA AATA AATG AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
93210876 CAGCTTGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:93212597 original size:15 final size:15
Alignment explanation
Indices: 93212577--93212608 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
93212567 TCTTTAGCGG
93212577 CGCTTTTCCCACTAA
1 CGCTTTTCCCACTAA
*
93212592 CGCTTTTCTCACTAA
1 CGCTTTTCCCACTAA
93212607 CG
1 CG
93212609 TCGCTAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.38, G:0.09, T:0.34
Consensus pattern (15 bp):
CGCTTTTCCCACTAA
Found at i:93212734 original size:43 final size:43
Alignment explanation
Indices: 93212594--93212734 Score: 167
Period size: 43 Copynumber: 3.3 Consensus size: 43
93212584 CCCACTAACG
* * * *
93212594 CTTTTCTCACTAACGTCGCTAAAGAACATGGCTTTTGGCGGCA
1 CTTTTCCCACAAACGTCGCTAAAGAACATGGCCTTTAGCGGCA
* ** *
93212637 CTTTTCCCAC-AACATCGCTAAAGAACATGGCCTTTAGCAACG
1 CTTTTCCCACAAACGTCGCTAAAGAACATGGCCTTTAGCGGCA
* * * *
93212679 TTTTTCCCACAAACGTCTCTATAGAACATGACCTTTAGCGGCA
1 CTTTTCCCACAAACGTCGCTAAAGAACATGGCCTTTAGCGGCA
93212722 CTTTTCCCACAAA
1 CTTTTCCCACAAA
93212735 TGCCATTAAA
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 35 0.43
43 46 0.57
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (43 bp):
CTTTTCCCACAAACGTCGCTAAAGAACATGGCCTTTAGCGGCA
Found at i:93212929 original size:28 final size:26
Alignment explanation
Indices: 93212896--93212968 Score: 67
Period size: 28 Copynumber: 2.7 Consensus size: 26
93212886 AAATTTTAAC
93212896 TTTAAAACTAAAATTAAAAATTAATGAA
1 TTTAAAACTAAAATTAAAAA-TAA-GAA
** *
93212924 TTTAAATTTAAAATTTAAAATAAGAA
1 TTTAAAACTAAAATTAAAAATAAGAA
* *
93212950 ATTAATAAC-ACAATTAAAA
1 TTTAA-AACTAAAATTAAAA
93212969 TCTAAAACTA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
26 15 0.42
27 4 0.11
28 17 0.47
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (26 bp):
TTTAAAACTAAAATTAAAAATAAGAA
Found at i:93212943 original size:35 final size:34
Alignment explanation
Indices: 93212890--93212955 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
93212880 TTATGAAAAT
*
93212890 TTTAACTTTAAAACTAAAATTAA-AAATTAATGAA
1 TTTAAATTTAAAACTAAAA-TAAGAAATTAATGAA
*
93212924 TTTAAATTTAAAATTTAAAATAAGAAATTAAT
1 TTTAAATTTAAAA-CTAAAATAAGAAATTAAT
93212956 AACACAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (34 bp):
TTTAAATTTAAAACTAAAATAAGAAATTAATGAA
Found at i:93220001 original size:43 final size:43
Alignment explanation
Indices: 93219902--93220048 Score: 115
Period size: 43 Copynumber: 3.4 Consensus size: 43
93219892 ATTGAGATGT
* * *
93219902 GATTACATGTAAGACCCTGTGTGGGACAGTGGCATTGTATTGC
1 GATTACATGTAAGACCATGTGTGGGACAGTGACATTGTAATGC
* *
93219945 GATTACGTTTAAGACCATGTGTGGGACA-TCGACATTGTTAAT-C
1 GATTACATGTAAGACCATGTGTGGGACAGT-GACATTG-TAATGC
* * * * *
93219988 GACTT-CATGTAAGACCTTATGTGGGATAGTGGCATCGATATAT--
1 GA-TTACATGTAAGACCATGTGTGGGACAGTGACATTG-TA-ATGC
*
93220031 GATAACATGTAAGACCAT
1 GATTACATGTAAGACCAT
93220049 ATCTAGGATA
Statistics
Matches: 83, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
42 2 0.02
43 73 0.88
44 8 0.10
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTGTGGGACAGTGACATTGTAATGC
Found at i:93224924 original size:31 final size:30
Alignment explanation
Indices: 93224850--93224924 Score: 73
Period size: 31 Copynumber: 2.4 Consensus size: 30
93224840 TAATTTGTCC
*
93224850 TTTTTTTTATTTTATAAAATATTTTAATAA
1 TTTTTTTTATTTTATAAAATATTGTAATAA
* *
93224880 TTTTATTTCATTTTA-AAACCACTATTGTAAT-G
1 TTTT-TTTTATTTTATAAA--A-TATTGTAATAA
93224912 TTTTTTTTATTTT
1 TTTTTTTTATTTT
93224925 TTTATATACG
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
30 7 0.19
31 17 0.46
32 5 0.14
33 8 0.22
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (30 bp):
TTTTTTTTATTTTATAAAATATTGTAATAA
Found at i:93228952 original size:230 final size:230
Alignment explanation
Indices: 93228549--93229009 Score: 886
Period size: 230 Copynumber: 2.0 Consensus size: 230
93228539 AGCGATATTG
* *
93228549 GTTGAGACGTTCAGGTCTTTGAGCTCATGTCGGAAGACAGGCGAGGGACGGTTTATTGGATGTGC
1 GTTGAGACCTTCAAGTCTTTGAGCTCATGTCGGAAGACAGGCGAGGGACGGTTTATTGGATGTGC
93228614 TCAATTATTGATGGTATGGTTTCATGGACACTTTTAGAAGGTAGACAAGGTTTCTTATTGGGTCT
66 TCAATTATTGATGGTATGGTTTCATGGACACTTTTAGAAGGTAGACAAGGTTTCTTATTGGGTCT
*
93228679 TTTTCGAAGGTTATTCCCCGCTAAGAGAGGAGGCAGCTATACAAAGGAGAGAGGATATCTCGGAG
131 TTTTCGAAGGTTATTCCCCACTAAGAGAGGAGGCAGCTATACAAAGGAGAGAGGATATCTCGGAG
93228744 GAGAAGTGGATGGAAATCCTCCAAAACCTCAAGGA
196 GAGAAGTGGATGGAAATCCTCCAAAACCTCAAGGA
93228779 GTTGAGACCTTCAAGTCTTTGAGCTCATGTCGGAAGACAGGCGAGGGACGGTTTATTGGATGTGC
1 GTTGAGACCTTCAAGTCTTTGAGCTCATGTCGGAAGACAGGCGAGGGACGGTTTATTGGATGTGC
*
93228844 TCAATTATTGATGGTATGGTTTCATGGACACTTTTGGAAGGTAGACAAGGTTTCTTATTGGGTCT
66 TCAATTATTGATGGTATGGTTTCATGGACACTTTTAGAAGGTAGACAAGGTTTCTTATTGGGTCT
93228909 TTTTCGAAGGTTATTCCCCACTAAGAGAGGAGGCAGCTATACAAAGGAGAGAGGATATCTCGGAG
131 TTTTCGAAGGTTATTCCCCACTAAGAGAGGAGGCAGCTATACAAAGGAGAGAGGATATCTCGGAG
93228974 GAGAAGTGGATGGAAATCCTCCAAAACCTCAAGGA
196 GAGAAGTGGATGGAAATCCTCCAAAACCTCAAGGA
93229009 G
1 G
93229010 GGGGATATAG
Statistics
Matches: 227, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
230 227 1.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (230 bp):
GTTGAGACCTTCAAGTCTTTGAGCTCATGTCGGAAGACAGGCGAGGGACGGTTTATTGGATGTGC
TCAATTATTGATGGTATGGTTTCATGGACACTTTTAGAAGGTAGACAAGGTTTCTTATTGGGTCT
TTTTCGAAGGTTATTCCCCACTAAGAGAGGAGGCAGCTATACAAAGGAGAGAGGATATCTCGGAG
GAGAAGTGGATGGAAATCCTCCAAAACCTCAAGGA
Found at i:93235740 original size:43 final size:44
Alignment explanation
Indices: 93235600--93235744 Score: 131
Period size: 43 Copynumber: 3.4 Consensus size: 44
93235590 ATCGAGATGT
** * * *
93235600 GATTACATGTAAGACCCTGTGCAGTATAGTGGCATTG-TAT-TGC
1 GATTACATGTAAGACCCTGTGTGGGACAGTGGCATCGATATAT-C
* * *
93235643 GATTACATGTAAGACCATGTGTGGGACA-TCGACATCGTTA-ATC
1 GATTACATGTAAGACCCTGTGTGGGACAGT-GGCATCGATATATC
*
93235686 GACTT-CGTGTAAGACCCTGTGTGGGACAGTGGCATCGATATAT-
1 GA-TTACATGTAAGACCCTGTGTGGGACAGTGGCATCGATATATC
*
93235729 GATAACATGTAAGACC
1 GATTACATGTAAGACC
93235745 ATATCTAGGA
Statistics
Matches: 82, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 72 0.88
44 8 0.10
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (44 bp):
GATTACATGTAAGACCCTGTGTGGGACAGTGGCATCGATATATC
Found at i:93240593 original size:35 final size:35
Alignment explanation
Indices: 93240547--93240643 Score: 128
Period size: 35 Copynumber: 2.8 Consensus size: 35
93240537 TTTGGGGGAG
* * *
93240547 GGGGAGGGGGGAATTGATTTGGGGAAAAACGATTT
1 GGGGAAGGGGGAACTGATTTGGGAAAAAACGATTT
*
93240582 GGGGAAGGGGGAACTGATTTGGGAAAAAATGATTT
1 GGGGAAGGGGGAACTGATTTGGGAAAAAACGATTT
93240617 GGGG-A--GGGAACTGATTTGGGTAAAAAA
1 GGGGAAGGGGGAACTGATTTGGG-AAAAAA
93240644 GAAAGGGTTG
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
32 15 0.26
33 6 0.11
34 1 0.02
35 35 0.61
ACGTcount: A:0.33, C:0.03, G:0.42, T:0.22
Consensus pattern (35 bp):
GGGGAAGGGGGAACTGATTTGGGAAAAAACGATTT
Found at i:93245103 original size:5 final size:5
Alignment explanation
Indices: 93245093--93245117 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
93245083 TGGCTCATTT
93245093 CTGTC CTGTC CTGTC CTGTC CTGTC
1 CTGTC CTGTC CTGTC CTGTC CTGTC
93245118 AACCCCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.20, T:0.40
Consensus pattern (5 bp):
CTGTC
Found at i:93248080 original size:41 final size:41
Alignment explanation
Indices: 93247919--93248081 Score: 211
Period size: 41 Copynumber: 4.0 Consensus size: 41
93247909 GTAAAACACA
* * * *
93247919 GAGCAATAGCGGCGTTTTTTGTTAAAACGCCGCTAAAA-ACA
1 GAGCAATAGCGGCG-CTTTTGGTAAAACGCCGCTAAAAGTCG
*
93247960 GAGCAATAGCGGCGCTTTTGGTAAAACGCTGCTAAAAGTCG
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
* *
93248001 GAGCATTAGCTGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
* * **
93248042 GAGCATTAGCGGCGCTTTTGATAAAACGCTACTAAAAGTC
1 GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTC
93248082 ATATAACCCC
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
40 20 0.18
41 89 0.82
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (41 bp):
GAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCG
Found at i:93248377 original size:15 final size:15
Alignment explanation
Indices: 93248338--93248388 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
93248328 ATATTTAATA
*
93248338 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* * *
93248352 TATATGATTTAGGGT
1 TTTATGGTTTAAGGT
93248367 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
93248382 TTAATGG
1 TTTATGG
93248389 CCATGGGTAT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:93249089 original size:52 final size:52
Alignment explanation
Indices: 93249017--93249121 Score: 185
Period size: 52 Copynumber: 2.0 Consensus size: 52
93249007 TTAAAAATAA
*
93249017 AAAAATTAAAATTAAGCAATAGTGGCGTTTTTAGACAAAACGCCACAAAAAT
1 AAAAATTAAAATTAAGCAATAGTGGCATTTTTAGACAAAACGCCACAAAAAT
93249069 AAAAA-TAAAAGTTAAGCAATAGTGGCATTTTTAGACAAAACGCCACAAAAAT
1 AAAAATTAAAA-TTAAGCAATAGTGGCATTTTTAGACAAAACGCCACAAAAAT
93249121 A
1 A
93249122 TGTTAAAAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 5 0.10
52 46 0.90
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.22
Consensus pattern (52 bp):
AAAAATTAAAATTAAGCAATAGTGGCATTTTTAGACAAAACGCCACAAAAAT
Found at i:93254745 original size:41 final size:42
Alignment explanation
Indices: 93254674--93254794 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 42
93254664 TTATATTTTT
* * *
93254674 TAGCGGCATTTGTCAAAAAAGCGTCACTAAAAGTC-TGTTATA
1 TAGCGGCGTTT-TCAAAAAAGCATCACTAAAAGTCATGGTATA
* * * * *
93254716 TAGCGGCGTTTTTAAAAAAGCATCGCTAAAGGTCATGGTCTT
1 TAGCGGCGTTTTCAAAAAAGCATCACTAAAAGTCATGGTATA
93254758 TAGCGGCGTTTTCAAGAAAAG--TGCAGCTAAAAGTCAT
1 TAGCGGCGTTTTCAA-AAAAGCAT-CA-CTAAAAGTCAT
93254795 AACCTTTTAG
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
41 20 0.31
42 29 0.45
43 15 0.23
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (42 bp):
TAGCGGCGTTTTCAAAAAAGCATCACTAAAAGTCATGGTATA
Found at i:93254762 original size:42 final size:41
Alignment explanation
Indices: 93254672--93254778 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 41
93254662 GTTTATATTT
* * *
93254672 TTTAGCGGCATTTGTCAAAAAAGCGTCACTAAAAGTCTGTTA
1 TTTAGCGGCGTTT-TCAAAAAAGCATCACTAAAAGTCTGGTA
* * * * *
93254714 TATAGCGGCGTTTTTAAAAAAGCATCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTTCAAAAAAGCATCACTAAAAGTC-TGGTA
93254756 TTTAGCGGCGTTTTCAAGAAAAG
1 TTTAGCGGCGTTTTCAA-AAAAG
93254779 TGCAGCTAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
41 19 0.36
42 29 0.55
43 5 0.09
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGTTTTCAAAAAAGCATCACTAAAAGTCTGGTA
Found at i:93254794 original size:43 final size:41
Alignment explanation
Indices: 93254672--93254812 Score: 108
Period size: 42 Copynumber: 3.3 Consensus size: 41
93254662 GTTTATATTT
* * *
93254672 TTTAGCGGCATTTGTCAAAAAAGCGTCA-CTAAAAGTC-TGTTA
1 TTTAGCGGCGTTT-TCAAAAAAG-G-CAGCTAAAAGTCATGATC
* * * *
93254714 TATAGCGGCGTTTTTAAAAAA-GCATCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTTCAAAAAAGGCA--GCTAAAAGTCATGATC
* *
93254756 TTTAGCGGCGTTTTCAAGAAAAGTGCAGCTAAAAGTCATAACC
1 TTTAGCGGCGTTTTCAA-AAAAG-GCAGCTAAAAGTCATGATC
93254799 TTTTAGCGGCGTTT
1 -TTTAGCGGCGTTT
93254813 GTGGGGAAAG
Statistics
Matches: 79, Mismatches: 12, Indels: 14
0.75 0.11 0.13
Matches are distributed among these distances:
38 2 0.03
39 1 0.01
41 15 0.19
42 29 0.37
43 16 0.20
44 13 0.16
45 3 0.04
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGTTTTCAAAAAAGGCAGCTAAAAGTCATGATC
Found at i:93262358 original size:18 final size:19
Alignment explanation
Indices: 93262335--93262384 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
93262325 GGTTTCTTGG
93262335 TTTTTTTTTGGGGTTA-GT
1 TTTTTTTTTGGGGTTAGGT
***
93262353 TTTTTTGGGGGGGTTAGGT
1 TTTTTTTTTGGGGTTAGGT
93262372 TTTTTTTTTGGGG
1 TTTTTTTTTGGGG
93262385 GCTTAATGGG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.04, C:0.00, G:0.36, T:0.60
Consensus pattern (19 bp):
TTTTTTTTTGGGGTTAGGT
Found at i:93265498 original size:15 final size:15
Alignment explanation
Indices: 93265463--93265501 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
93265453 CACGACAAAT
*
93265463 TCCCTCTCTTTATCT
1 TCCCTCTCTTTATCC
* *
93265478 TTCCTCTCTTTCTCC
1 TCCCTCTCTTTATCC
93265493 TCCCTCTCT
1 TCCCTCTCT
93265502 CTCCTCTCCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.03, C:0.46, G:0.00, T:0.51
Consensus pattern (15 bp):
TCCCTCTCTTTATCC
Found at i:93269594 original size:41 final size:41
Alignment explanation
Indices: 93269549--93269629 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
93269539 ACTTAATTGA
93269549 GAAAATAATT-TCTTTATTCTAATAAACTACTAAAAGATAAG
1 GAAAATAATTCTC-TTATTCTAATAAACTACTAAAAGATAAG
*
93269590 GAAAATAATTCTCTTATTCTAATAGACTACTAAAAGATAA
1 GAAAATAATTCTCTTATTCTAATAAACTACTAAAAGATAA
93269630 AATAAAATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 36 0.95
42 2 0.05
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.33
Consensus pattern (41 bp):
GAAAATAATTCTCTTATTCTAATAAACTACTAAAAGATAAG
Found at i:93273757 original size:15 final size:15
Alignment explanation
Indices: 93273735--93273773 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
93273725 CACGACAAAT
93273735 TCCCTCTCCTTATCC
1 TCCCTCTCCTTATCC
* * *
93273750 TTCCTCTCTTTCTCC
1 TCCCTCTCCTTATCC
93273765 TCCCTCTCC
1 TCCCTCTCC
93273774 CTCCTCTCCT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.03, C:0.54, G:0.00, T:0.44
Consensus pattern (15 bp):
TCCCTCTCCTTATCC
Found at i:93277045 original size:12 final size:11
Alignment explanation
Indices: 93277028--93277061 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
93277018 CCCCCCCCCC
93277028 AAAAAAAAAAG
1 AAAAAAAAAAG
93277039 AAAAAAAAAAG
1 AAAAAAAAAAG
*
93277050 AAAAAAAGAAG
1 AAAAAAAAAAG
93277061 A
1 A
93277062 GGTCCATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:93281551 original size:29 final size:29
Alignment explanation
Indices: 93281509--93281568 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
93281499 TCATTAATCA
* *
93281509 ATGGCCGTCACCATCACTTTTCATAGTTG
1 ATGGCCGTCACCATCACCTTTCATAATTG
* *
93281538 ATGGTCGTCACCATCCCCTTTCATAATTG
1 ATGGCCGTCACCATCACCTTTCATAATTG
93281567 AT
1 AT
93281569 AGACAAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (29 bp):
ATGGCCGTCACCATCACCTTTCATAATTG
Found at i:93281582 original size:29 final size:29
Alignment explanation
Indices: 93281550--93281735 Score: 183
Period size: 29 Copynumber: 6.4 Consensus size: 29
93281540 GGTCGTCACC
* * *
93281550 ATCCCCTTTCATAATTGATAGACAAAACT
1 ATCCCTTTTCATAATCGATAGCCAAAACT
*
93281579 ATCCATTTTCATAATCGATAGCCAAAACT
1 ATCCCTTTTCATAATCGATAGCCAAAACT
* * * * ** *
93281608 ATCCCTTTTCATATTCAATGGTCATCACG
1 ATCCCTTTTCATAATCGATAGCCAAAACT
* * *
93281637 ATCCCGTGTCATAATCGATAGCCAAAGCT
1 ATCCCTTTTCATAATCGATAGCCAAAACT
* * * *
93281666 ATCCCTTTTCATATTCGATAGTCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCAAAACT
* * *
93281695 ATCCTTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCAAAACT
93281724 ATCCCTTTTCAT
1 ATCCCTTTTCAT
93281736 GTTCGATGAT
Statistics
Matches: 126, Mismatches: 31, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 126 1.00
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.34
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCCAAAACT
Found at i:93281618 original size:58 final size:58
Alignment explanation
Indices: 93281550--93281742 Score: 226
Period size: 58 Copynumber: 3.3 Consensus size: 58
93281540 GGTCGTCACC
* * *
93281550 ATCCCCTTTCATAATT-GATAGACAAAACTATCCATTTTCATAATCGATAGCCAAAACT
1 ATCCCTTTTCAT-ATTCGATAGTCAAAACTATCCATTTTCATAATCGATAGCCAAAGCT
* * ** * ** *
93281608 ATCCCTTTTCATATTCAATGGTCATCACGATCCCGTGTCATAATCGATAGCCAAAGCT
1 ATCCCTTTTCATATTCGATAGTCAAAACTATCCATTTTCATAATCGATAGCCAAAGCT
* * * *
93281666 ATCCCTTTTCATATTCGATAGTCGAAGCTATCCTTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATATTCGATAGTCAAAACTATCCATTTTCATAATCGATAGCCAAAGCT
*
93281724 ATCCCTTTTCATGTTCGAT
1 ATCCCTTTTCATATTCGAT
93281743 GATTGCCGAT
Statistics
Matches: 111, Mismatches: 23, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
57 3 0.03
58 108 0.97
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.34
Consensus pattern (58 bp):
ATCCCTTTTCATATTCGATAGTCAAAACTATCCATTTTCATAATCGATAGCCAAAGCT
Found at i:93281641 original size:87 final size:87
Alignment explanation
Indices: 93281525--93281707 Score: 224
Period size: 87 Copynumber: 2.1 Consensus size: 87
93281515 GTCACCATCA
* * * *
93281525 CTTTTCATAGTTGATGGTCGTCACCATCCCCTTTCATAATTGATAGACAAAACTATCCATTTTCA
1 CTTTTCATAGTTAATGGTCATCACCATCCCCTGTCATAATCGATAGACAAAACTATCCATTTTCA
93281590 TAATCGATAGCCAAAACTATCC
66 TAATCGATAGCCAAAACTATCC
* * * * *
93281612 CTTTTCATA-TTCAATGGTCATCACGATCCCGTGTCATAATCGATAGCCAAAGCTATCCCTTTTC
1 CTTTTCATAGTT-AATGGTCATCACCATCCCCTGTCATAATCGATAGACAAAACTATCCATTTTC
* * * *
93281676 ATATTCGATAGTCGAAGCTATCC
65 ATAATCGATAGCCAAAACTATCC
*
93281699 TTTTTCATA
1 CTTTTCATA
93281708 ATCGATAGCC
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
86 2 0.02
87 79 0.98
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.35
Consensus pattern (87 bp):
CTTTTCATAGTTAATGGTCATCACCATCCCCTGTCATAATCGATAGACAAAACTATCCATTTTCA
TAATCGATAGCCAAAACTATCC
Found at i:93284040 original size:28 final size:28
Alignment explanation
Indices: 93283975--93284125 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
93283965 ATATTAAGTC
* *
93283975 CGCACACTCAGTGCTATATAATC-ATCT
1 CGCACACTTAGTGCTATATAATCAAACT
93284002 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
93284030 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
*
93284058 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
93284086 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
93284115 CGCACACTTAG
1 CGCACACTTAG
93284126 CGCCAATCTC
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
27 22 0.20
28 74 0.66
29 16 0.14
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:93287242 original size:13 final size:13
Alignment explanation
Indices: 93287224--93287250 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
93287214 GCTCGGCAGG
93287224 GACACGCCCGTGT
1 GACACGCCCGTGT
93287237 GACACGCCCGTGT
1 GACACGCCCGTGT
93287250 G
1 G
93287251 CGATTACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:93290873 original size:122 final size:120
Alignment explanation
Indices: 93290654--93290877 Score: 313
Period size: 122 Copynumber: 1.9 Consensus size: 120
93290644 CACAATAACA
* * **
93290654 ATGAGAATGAGAATAGAAATATAATGGGTATGAGGTTTTCCTAATCTCAATTTAACACGGAATGT
1 ATGAGAATAAGAATAGAAATATAATGGGTATGAGGTGTTCCTAATCTCAATTTAACACAAAATGT
* *
93290719 ATGATAACTAACCTAGGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGC
66 ATGATAACTAACCTAAGAATCCAAATTAAATGATAGACATTGGCATGGTAATAGC
* * * * **
93290774 ATGAGAATAAGCATAGTAATGTCATGGGTATGAGGTGTTCCTAATAACTTGATTTAACACAAAAT
1 ATGAGAATAAGAATAGAAATATAATGGGTATGAGGTGTTCCTAAT--CTCAATTTAACACAAAAT
*
93290839 GTATGATAACTAACCTAAGAATCCAAATTGAATGATAGA
64 GTATGATAACTAACCTAAGAATCCAAATTAAATGATAGA
93290878 AAAATGAAAA
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
120 39 0.44
122 50 0.56
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.29
Consensus pattern (120 bp):
ATGAGAATAAGAATAGAAATATAATGGGTATGAGGTGTTCCTAATCTCAATTTAACACAAAATGT
ATGATAACTAACCTAAGAATCCAAATTAAATGATAGACATTGGCATGGTAATAGC
Found at i:93291394 original size:55 final size:55
Alignment explanation
Indices: 93291293--93291420 Score: 139
Period size: 55 Copynumber: 2.3 Consensus size: 55
93291283 CATGTCAATC
* * * * *
93291293 TAACAGGTTCGACCACGGTTGTTAGACACGGGCGTGTTACACGCCCGTGCTGTTT
1 TAACAGGTTCGACCACGGTTCTTACACACGGGCATGTCACACGCCCGCGCTGTTT
* * * * *
93291348 TAACAGGTTCGCCCACGGTTCTTCCACACGGGCATGTCGCATGCCCGCGTTGTTT
1 TAACAGGTTCGACCACGGTTCTTACACACGGGCATGTCACACGCCCGCGCTGTTT
** *
93291403 TGGCAGGCTCGACCACGG
1 TAACAGGTTCGACCACGG
93291421 CCATGTCGCA
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.16, C:0.30, G:0.29, T:0.25
Consensus pattern (55 bp):
TAACAGGTTCGACCACGGTTCTTACACACGGGCATGTCACACGCCCGCGCTGTTT
Found at i:93295404 original size:21 final size:21
Alignment explanation
Indices: 93295354--93295406 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
93295344 CAACCTCCTC
* *
93295354 CTGAGTTAGGGTAGTCTCTTA
1 CTGAGTTGGGGTAGTCTATTA
* *
93295375 CTGATTTGGGGTAGTCTATTG
1 CTGAGTTGGGGTAGTCTATTA
93295396 CTGAGTTGGGG
1 CTGAGTTGGGG
93295407 CAACCACTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.15, C:0.11, G:0.36, T:0.38
Consensus pattern (21 bp):
CTGAGTTGGGGTAGTCTATTA
Found at i:93296902 original size:39 final size:40
Alignment explanation
Indices: 93296785--93296969 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
93296775 GCTCCTCGTT
*
93296785 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
93296825 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
93296865 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * ** *
93296904 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCGCTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
93296945 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
93296970 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 77 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:93309576 original size:42 final size:42
Alignment explanation
Indices: 93309529--93309672 Score: 164
Period size: 42 Copynumber: 3.4 Consensus size: 42
93309519 TGAGCTTCAG
* * *
93309529 TTAACTCATATGAGTTTCAGTTTAACCCTAATGGGTTTCTGT
1 TTAACTCTTATGAGCTTCAGTTTAACCCTTATGGGTTTCTGT
* * *
93309571 TTAACTCTTCTGAGCTTCTGTTTAACCCTTATAGGTTTCCT-T
1 TTAACTCTTATGAGCTTCAGTTTAACCCTTATGGGTTT-CTGT
* * *
93309613 TCAACTCTTATGAACTTCCGTTTAACCCTTATGGGTTTCTGT
1 TTAACTCTTATGAGCTTCAGTTTAACCCTTATGGGTTTCTGT
* * *
93309655 TTAGCACTTATGTGCTTC
1 TTAACTCTTATGAGCTTC
93309673 TGTGCAGCCT
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
41 2 0.02
42 80 0.95
43 2 0.02
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (42 bp):
TTAACTCTTATGAGCTTCAGTTTAACCCTTATGGGTTTCTGT
Found at i:93309656 original size:21 final size:21
Alignment explanation
Indices: 93309537--93309675 Score: 102
Period size: 21 Copynumber: 6.6 Consensus size: 21
93309527 AGTTAACTCA
*
93309537 TATGAGTTTCAGTTTAACCCT
1 TATGAGTTTCTGTTTAACCCT
* * *
93309558 AATGGGTTTCTGTTTAACTCT
1 TATGAGTTTCTGTTTAACCCT
* *
93309579 TCTGAGCTTCTGTTTAACCCT
1 TATGAGTTTCTGTTTAACCCT
* *
93309600 TAT-AGGTTTCCT-TTCAACTCT
1 TATGA-GTTT-CTGTTTAACCCT
** *
93309621 TATGAACTTCCGTTTAACCCT
1 TATGAGTTTCTGTTTAACCCT
* * *
93309642 TATGGGTTTCTGTTTAGCACT
1 TATGAGTTTCTGTTTAACCCT
* *
93309663 TATGTGCTTCTGT
1 TATGAGTTTCTGT
93309676 GCAGCCTTCG
Statistics
Matches: 88, Mismatches: 26, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
20 2 0.02
21 83 0.94
22 3 0.03
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (21 bp):
TATGAGTTTCTGTTTAACCCT
Found at i:93315934 original size:3 final size:3
Alignment explanation
Indices: 93315926--93315976 Score: 75
Period size: 3 Copynumber: 16.3 Consensus size: 3
93315916 AAATTTTCTT
*
93315926 TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TTA TTA TATA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-TA TTA TTA
93315973 TTA T
1 TTA T
93315977 ATGCATATAC
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 38 0.86
4 6 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:93324203 original size:44 final size:45
Alignment explanation
Indices: 93324138--93324228 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
93324128 ACCTCTATTC
* * *
93324138 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
93324182 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
93324227 CA
1 CA
93324229 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:93324230 original size:16 final size:16
Alignment explanation
Indices: 93324209--93324277 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
93324199 GATTAGCTAT
93324209 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
93324225 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
93324242 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
93324258 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
93324274 TACA
1 TACA
93324278 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:93324251 original size:33 final size:32
Alignment explanation
Indices: 93324209--93324277 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
93324199 GATTAGCTAT
93324209 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
93324242 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
93324274 TACA
1 TACA
93324278 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:93342163 original size:16 final size:17
Alignment explanation
Indices: 93342139--93342171 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
93342129 CTAAAATTTT
*
93342139 AAAATATTTAAT-TATA
1 AAAAAATTTAATATATA
93342155 AAAAAATTTAATATATA
1 AAAAAATTTAATATATA
93342172 TGTGAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAAAATTTAATATATA
Found at i:93358391 original size:88 final size:87
Alignment explanation
Indices: 93358242--93358782 Score: 683
Period size: 88 Copynumber: 6.2 Consensus size: 87
93358232 TTGGAAATTT
* * * * * * *
93358242 AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAGCCTTAACCCCCTAAGCAG
1 AGATCTTATCACCCTAAGCAGTAGGGGAACAGATCGAAGATGATGGGCCTTAACCCCCTAAGCAG
*
93358307 TAGGGTAACAGGCTGAATTTAC
66 TAGGGTAACAGGCTGAAATTAC
* *
93358329 AAGATCTTATCACCCTAAGCAGTAGGGGAACAAATCGAAGATGATGGGTCTTAACCCCCTAAGCA
1 -AGATCTTATCACCCTAAGCAGTAGGGGAACAGATCGAAGATGATGGGCCTTAACCCCCTAAGCA
*
93358394 GTA-GGTAACAGGCTGAAGATTAT
65 GTAGGGTAACAGGCTGAA-ATTAC
* * * * * * *
93358417 AGATCTTGTCTCCCTAAGCATTAGTGGAGCAAATCGAAGACGATGGGCCTTAACCCCCTAAGCAG
1 AGATCTTATCACCCTAAGCAGTAGGGGAACAGATCGAAGATGATGGGCCTTAACCCCCTAAGCAG
* *
93358482 TAGGGTAACAGGCTAAAAATTAT
66 TAGGGTAACAGGCT-GAAATTAC
* * * *
93358505 AGATCTTATCACCCTAAGTAGTAGAGGAACAGATCGAAGATGATGGCCCTTAACCCCCTAAGTAG
1 AGATCTTATCACCCTAAGCAGTAGGGGAACAGATCGAAGATGATGGGCCTTAACCCCCTAAGCAG
*
93358570 TAGGGTAATAGGCTG-AATTCAC
66 TAGGGTAACAGGCTGAAATT-AC
* *
93358592 AGATCTTATCACCCTAAGCAGTAGGGGAATAGATCGAAGATGATGGGCCTTAACCTCCTAAGCAG
1 AGATCTTATCACCCTAAGCAGTAGGGGAACAGATCGAAGATGATGGGCCTTAACCCCCTAAGCAG
* *
93358657 TAAGGTAATAGGCTGAAAATTAC
66 TAGGGTAACAGGCTG-AAATTAC
* *
93358680 AGATCTTATCACCCTAAGCAGGAGGGGAACAGATCGAAGATGACT-GGCCTTAACTCCCTAAGCA
1 AGATCTTATCACCCTAAGCAGTAGGGGAACAGATCGAAGATGA-TGGGCCTTAACCCCCTAAGCA
*
93358744 GTAGAGTAACAGGCTGAAAATTAC
65 GTAGGGTAACAGGCTG-AAATTAC
* * *
93358768 AAATCTCATCTCCCT
1 AGATCTTATCACCCT
93358783 GAAATGGCGT
Statistics
Matches: 397, Mismatches: 49, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
86 4 0.01
87 148 0.37
88 238 0.60
89 7 0.02
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.22
Consensus pattern (87 bp):
AGATCTTATCACCCTAAGCAGTAGGGGAACAGATCGAAGATGATGGGCCTTAACCCCCTAAGCAG
TAGGGTAACAGGCTGAAATTAC
Found at i:93358432 original size:43 final size:44
Alignment explanation
Indices: 93358297--93358766 Score: 228
Period size: 44 Copynumber: 10.7 Consensus size: 44
93358287 AGCCTTAACC
* *
93358297 CCCTAAGCAGTAGGGTAACAGGCTGAA-TTTACAAGATCTTATCA
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGATTA-TAGATCTTATCA
* ** * * * * *
93358341 CCCTAAGCAGTAGGGGAACA-AATCGAAGATGATGGGTCTTAACC
1 CCCTAAGCAGTAGGGTAACAGGCT-GAAGATTATAGATCTTATCA
* *
93358385 CCCTAAGCAGTA-GGTAACAGGCTGAAGATTATAGATCTTGTCT
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGATTATAGATCTTATCA
* * ** ** * ** * *
93358428 CCCTAAGCATTAGTGG-AGCA-AATCGAAGACGATGGGCCTTAACC
1 CCCTAAGCAGTAG-GGTAACAGGCT-GAAGATTATAGATCTTATCA
* *
93358472 CCCTAAGCAGTAGGGTAACAGGCTAAAAATTATAGATCTTATCA
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGATTATAGATCTTATCA
* * * * ** * *
93358516 CCCTAAGTAGTAGAGG-AACA-GATCGAAGATGATGGCCCTTAACC
1 CCCTAAGCAGTAG-GGTAACAGGCT-GAAGATTATAGATCTTATCA
* * *
93358560 CCCTAAGTAGTAGGGTAATAGGCTG-A-ATTCACAGATCTTATCA
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGATT-ATAGATCTTATCA
* * * * * ** *
93358603 CCCTAAGCAGTAGGGGAATA-GATCGAAGATGATGGGCCTTAAC-
1 CCCTAAGCAGTAGGGTAACAGGCT-GAAGATTATAGATCTTATCA
* * * *
93358646 CTCCTAAGCAGTAAGGTAATAGGCTGAAAATTACAGATCTTATCA
1 C-CCTAAGCAGTAGGGTAACAGGCTGAAGATTATAGATCTTATCA
* * * * ** * *
93358691 CCCTAAGCAGGAGGGGAACA-GATCGAAGATGACT-GGCCTTAACT
1 CCCTAAGCAGTAGGGTAACAGGCT-GAAGATTA-TAGATCTTATCA
* *
93358735 CCCTAAGCAGTAGAGTAACAGGCTGAAAATTA
1 CCCTAAGCAGTAGGGTAACAGGCTGAAGATTA
93358767 CAAATCTCAT
Statistics
Matches: 304, Mismatches: 100, Indels: 44
0.68 0.22 0.10
Matches are distributed among these distances:
42 4 0.01
43 69 0.23
44 215 0.71
45 16 0.05
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAAGATTATAGATCTTATCA
Found at i:93358494 original size:175 final size:173
Alignment explanation
Indices: 93358235--93358762 Score: 729
Period size: 175 Copynumber: 3.0 Consensus size: 173
93358225 AGTAGGGTTG
* *
93358235 GAAATT-TAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAGCCTTAACCCC
1 GAAATTATAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGGGCCTTAACCCC
* *
93358299 CTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTATCACCCTAAGCAGTAGGGGAACAAAT
66 CTAAGCAGTAGGGTAACAGGCTGAAATTAC-AGATCTTATCACCCTAAGCAGTAGGGGAACAGAT
*
93358364 CGAAGATGATGGGTCTTAACCCCCTAAGCAGTAGGTAACAGGCT
130 CGAAGATGATGGGCCTTAACCCCCTAAGCAGTAGGTAACAGGCT
* *
93358408 GAAGATTATAGATCTTGTCTCCCTAAGCATTAGTGGAGCAAATCGAAGACGATGGGCCTTAACCC
1 GAA-ATTATAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGGGCCTTAACCC
* * * *
93358473 CCTAAGCAGTAGGGTAACAGGCTAAAAATTATAGATCTTATCACCCTAAGTAGTAGAGGAACAGA
65 CCTAAGCAGTAGGGTAACAGGCT-GAAATTACAGATCTTATCACCCTAAGCAGTAGGGGAACAGA
* * *
93358538 TCGAAGATGATGGCCCTTAACCCCCTAAGTAGTAGGGTAATAGGCT
129 TCGAAGATGATGGGCCTTAACCCCCTAAGCAGTA-GGTAACAGGCT
* * * * ** * *
93358584 G-AATTCACAGATCTTATCACCCTAAGCAGTAGGGGAATAGATCGAAGATGATGGGCCTTAACCT
1 GAAATT-ATAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGGGCCTTAACCC
* * *
93358648 CCTAAGCAGTAAGGTAATAGGCTGAAAATTACAGATCTTATCACCCTAAGCAGGAGGGGAACAGA
65 CCTAAGCAGTAGGGTAACAGGCTG-AAATTACAGATCTTATCACCCTAAGCAGTAGGGGAACAGA
*
93358713 TCGAAGATGACT-GGCCTTAACTCCCTAAGCAGTAGAGTAACAGGCT
129 TCGAAGATGA-TGGGCCTTAACCCCCTAAGCAGTAG-GTAACAGGCT
93358759 GAAA
1 GAAA
93358763 ATTACAAATC
Statistics
Matches: 311, Mismatches: 35, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
173 3 0.01
174 7 0.02
175 282 0.91
176 19 0.06
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.22
Consensus pattern (173 bp):
GAAATTATAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGGGCCTTAACCCC
CTAAGCAGTAGGGTAACAGGCTGAAATTACAGATCTTATCACCCTAAGCAGTAGGGGAACAGATC
GAAGATGATGGGCCTTAACCCCCTAAGCAGTAGGTAACAGGCT
Found at i:93361728 original size:127 final size:128
Alignment explanation
Indices: 93361439--93361729 Score: 336
Period size: 128 Copynumber: 2.3 Consensus size: 128
93361429 TGATGCTTGG
* *
93361439 AAATTCGGGGAATCGTGCCCTATCGTGC-TGAGTTTCGATTTCCCATTTGTTCAAAATAATCAAA
1 AAATTCGGGGAATCGTGCCCTATCGTGCTTG-GTTTTGATTTCCCATTTATTCAAAATAATCAAA
* * * * * * ** *
93361503 TATTCCTTTAGAATTTCACTTGTGTTTTTCTAAATTTTGAAACAAAGCAATGTTTGATATTTGG
65 TATTCCTCTAGAATTACACTTGTATTCTTCTAAATTCTAAAACAAAGCAATGTTCAATATTTGC
* * * * * * *
93361567 AAATTCGGGGAATCGTGCTCTATTGTGCTGGGTTTTGATTTCTCGTTTATTGAAAATAATCGAAT
1 AAATTCGGGGAATCGTGCCCTATCGTGCTTGGTTTTGATTTCCCATTTATTCAAAATAATCAAAT
*
93361632 ATTCCTCTAGAATTACA-TTCGTATTCTT-TAAATTCTAAAACAAAGCAATGTTCAATGTTTGC
66 ATTCCTCTAGAATTACACTT-GTATTCTTCTAAATTCTAAAACAAAGCAATGTTCAATATTTGC
* * * *
93361694 AAGTTCGAGGAATCGTGCCCTACCATGCTTGGTTTT
1 AAATTCGGGGAATCGTGCCCTATCGTGCTTGGTTTT
93361730 AGTTTTTCGT
Statistics
Matches: 135, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
127 59 0.44
128 75 0.56
129 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (128 bp):
AAATTCGGGGAATCGTGCCCTATCGTGCTTGGTTTTGATTTCCCATTTATTCAAAATAATCAAAT
ATTCCTCTAGAATTACACTTGTATTCTTCTAAATTCTAAAACAAAGCAATGTTCAATATTTGC
Found at i:93363453 original size:62 final size:62
Alignment explanation
Indices: 93363353--93363477 Score: 214
Period size: 62 Copynumber: 2.0 Consensus size: 62
93363343 TTTAATTCAT
* *
93363353 TTGAGTTTGAGATAATGAATATCATGAGTGGCTAAATCCCTTAGGGGAGATTAATGAATGGA
1 TTGAGTTTGAGATAATGAATATCATGAGCGGCTAAATCCCTTAGGGGAGATTAACGAATGGA
* *
93363415 TTGAGTTTGAGATAATGAATATCATGAGCGGCTGAATCCCTTAGGGGAGATTAACGAGTGGA
1 TTGAGTTTGAGATAATGAATATCATGAGCGGCTAAATCCCTTAGGGGAGATTAACGAATGGA
93363477 T
1 T
93363478 GGAGATGTGA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.30
Consensus pattern (62 bp):
TTGAGTTTGAGATAATGAATATCATGAGCGGCTAAATCCCTTAGGGGAGATTAACGAATGGA
Found at i:93365637 original size:42 final size:43
Alignment explanation
Indices: 93365571--93365692 Score: 169
Period size: 43 Copynumber: 2.8 Consensus size: 43
93365561 CATTAACTTA
93365571 TGATTTACGTGTAAGACCACGTCTGGGATGTTGGCATCG-TATT
1 TGATTT-CGTGTAAGACCACGTCTGGGATGTTGGCATCGATATT
93365614 TGATTTCGTGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATT
1 TGATTTCGTGTAAGACCAC-GTCTGGGAT-GTTGGCATCGATATT
* * *
93365657 TGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGATTTCGTGTAAGACCACGTCTGGGATGTTGGCAT
93365693 TGTACAAGAT
Statistics
Matches: 71, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
41 1 0.01
42 29 0.41
43 40 0.56
44 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGATATT
Found at i:93383841 original size:37 final size:37
Alignment explanation
Indices: 93383792--93383865 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 37
93383782 TAATATCTTT
*
93383792 GGCGCAGACTTATGG-CTAATGAACCTCTACGACCGC
1 GGCGCAGACTTATGGCCTAATGAACCTCTACAACCGC
*
93383828 GGCGCAGGACTTATGGCCTAGTGAACCTCTACAACCGC
1 GGCGCA-GACTTATGGCCTAATGAACCTCTACAACCGC
93383866 TGAAGTATCC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 6 0.18
37 9 0.26
38 19 0.56
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (37 bp):
GGCGCAGACTTATGGCCTAATGAACCTCTACAACCGC
Found at i:93404286 original size:11 final size:11
Alignment explanation
Indices: 93404272--93404297 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
93404262 TTTAAATTAC
93404272 TTTTCTTTTTA
1 TTTTCTTTTTA
93404283 TTTTCTTTTTA
1 TTTTCTTTTTA
93404294 TTTT
1 TTTT
93404298 GGCATTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTCTTTTTA
Found at i:93416041 original size:49 final size:49
Alignment explanation
Indices: 93415987--93416084 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
93415977 ATAATAGAGA
93415987 GTAAGGAATTACTCCAAGGAAGCCGATTGATCCATCTCAGAAGCCGGAT
1 GTAAGGAATTACTCCAAGGAAGCCGATTGATCCATCTCAGAAGCCGGAT
93416036 GTAAGGAATTACTCCAAGGAAGCCGATTGATCCATCTCAGAAGCCGGAT
1 GTAAGGAATTACTCCAAGGAAGCCGATTGATCCATCTCAGAAGCCGGAT
93416085 TCATCATCAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (49 bp):
GTAAGGAATTACTCCAAGGAAGCCGATTGATCCATCTCAGAAGCCGGAT
Found at i:93419819 original size:47 final size:47
Alignment explanation
Indices: 93419645--93419817 Score: 238
Period size: 47 Copynumber: 3.7 Consensus size: 47
93419635 AAAAAACAAA
* * *
93419645 TTTTGACTAGTTATAGTTTTAAATAGAGAAAACGAGAGAGGGAAAAC
1 TTTTGACTAGTTATAGTTTCAAACAGAGAAAACGAGAGAGGAAAAAC
* * * *
93419692 TTTTGTCTGGTTATAGTTTCAAACAAAGAAAACAAGAGAGGAAAAAC
1 TTTTGACTAGTTATAGTTTCAAACAGAGAAAACGAGAGAGGAAAAAC
* * *
93419739 TTTTGACTAGTTATAGTTTCAAATAGAGAAAATGAGACAGGAAAAAC
1 TTTTGACTAGTTATAGTTTCAAACAGAGAAAACGAGAGAGGAAAAAC
* *
93419786 TTTTGGCTAATTATAGTTTCAAACAGAGAAAA
1 TTTTGACTAGTTATAGTTTCAAACAGAGAAAA
93419818 TGGAAGAAGA
Statistics
Matches: 109, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 109 1.00
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.28
Consensus pattern (47 bp):
TTTTGACTAGTTATAGTTTCAAACAGAGAAAACGAGAGAGGAAAAAC
Found at i:93419831 original size:94 final size:94
Alignment explanation
Indices: 93419645--93419817 Score: 274
Period size: 94 Copynumber: 1.8 Consensus size: 94
93419635 AAAAAACAAA
* * * * **
93419645 TTTTGACTAGTTATAGTTTTAAATAGAGAAAACGAGAGAGGGAAAACTTTTGTCTGGTTATAGTT
1 TTTTGACTAGTTATAGTTTCAAATAGAGAAAACGAGACAGGAAAAACTTTTGGCTAATTATAGTT
93419710 TCAAACAAAGAAAACAAGAGAGGAAAAAC
66 TCAAACAAAGAAAACAAGAGAGGAAAAAC
*
93419739 TTTTGACTAGTTATAGTTTCAAATAGAGAAAATGAGACAGGAAAAACTTTTGGCTAATTATAGTT
1 TTTTGACTAGTTATAGTTTCAAATAGAGAAAACGAGACAGGAAAAACTTTTGGCTAATTATAGTT
*
93419804 TCAAACAGAGAAAA
66 TCAAACAAAGAAAA
93419818 TGGAAGAAGA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
94 71 1.00
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.28
Consensus pattern (94 bp):
TTTTGACTAGTTATAGTTTCAAATAGAGAAAACGAGACAGGAAAAACTTTTGGCTAATTATAGTT
TCAAACAAAGAAAACAAGAGAGGAAAAAC
Found at i:93434292 original size:15 final size:16
Alignment explanation
Indices: 93434261--93434293 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
93434251 GCACTCCACT
93434261 TTTACTCTTTTTACAA
1 TTTACTCTTTTTACAA
*
93434277 TTTAGTCTTTTT-CAA
1 TTTACTCTTTTTACAA
93434292 TT
1 TT
93434294 AATTAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.21, C:0.15, G:0.03, T:0.61
Consensus pattern (16 bp):
TTTACTCTTTTTACAA
Found at i:93459654 original size:47 final size:47
Alignment explanation
Indices: 93459596--93459691 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
93459586 ATGTCCCGGA
*
93459596 CATGGTCTTATACTAGAACACATATCATCACATTTTCATTTAATCAT
1 CATGGTCTTATACTAGAACACATATCATCACATTTTCATTGAATCAT
*
93459643 CATGGTCTTATACTAGCACACATATCATCACATTTTCATTGAATCAT
1 CATGGTCTTATACTAGAACACATATCATCACATTTTCATTGAATCAT
93459690 CA
1 CA
93459692 CAAGTCAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.36
Consensus pattern (47 bp):
CATGGTCTTATACTAGAACACATATCATCACATTTTCATTGAATCAT
Found at i:93462604 original size:20 final size:19
Alignment explanation
Indices: 93462575--93462627 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
93462565 TTAAATTATG
*
93462575 AAAT-AAAAAAAATTAATTA
1 AAATAAAAAAAAATGAA-TA
*
93462594 AAATAAAAAAAGATGAATA
1 AAATAAAAAAAAATGAATA
*
93462613 AAAGAAAAACAAAAT
1 AAATAAAAA-AAAAT
93462628 ATTTTTGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (19 bp):
AAATAAAAAAAAATGAATA
Found at i:93462614 original size:19 final size:19
Alignment explanation
Indices: 93462575--93462621 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
93462565 TTAAATTATG
*
93462575 AAATAAAAAAAATTAATTA
1 AAATAAAAAAAATGAATTA
93462594 AAATAAAAAAAGATGAA-TA
1 AAATAAAAAAA-ATGAATTA
*
93462613 AAAGAAAAA
1 AAATAAAAA
93462622 CAAAATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (19 bp):
AAATAAAAAAAATGAATTA
Found at i:93467124 original size:19 final size:18
Alignment explanation
Indices: 93467089--93467128 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
93467079 ATGCTTAAGG
93467089 TTAATTAATAAACATTAA
1 TTAATTAATAAACATTAA
93467107 TTAAGTTAATTAAA-ATTAA
1 TTAA-TTAA-TAAACATTAA
93467126 TTA
1 TTA
93467129 TAAACTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 12 0.60
20 4 0.20
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
TTAATTAATAAACATTAA
Found at i:93468092 original size:28 final size:28
Alignment explanation
Indices: 93468052--93468112 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
93468042 ATATGGTCAC
* * *
93468052 CATAACTTAAGGCTTGTGTGAGCCATTT
1 CATAACCTAAGGCTTGTATAAGCCATTT
93468080 CATAACCTAAGGCTTGTATAAGCCATTT
1 CATAACCTAAGGCTTGTATAAGCCATTT
93468108 CATAA
1 CATAA
93468113 ACAAAAACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (28 bp):
CATAACCTAAGGCTTGTATAAGCCATTT
Found at i:93469429 original size:27 final size:27
Alignment explanation
Indices: 93469399--93469452 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
93469389 GTACAAATTA
*
93469399 TACAAACTATCCTTAGAAAACATTTAT
1 TACAAACTATCATTAGAAAACATTTAT
*
93469426 TACAAACTATCATTAGCAAACATTTAT
1 TACAAACTATCATTAGAAAACATTTAT
93469453 ACACTCATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (27 bp):
TACAAACTATCATTAGAAAACATTTAT
Found at i:93470136 original size:33 final size:34
Alignment explanation
Indices: 93470088--93470159 Score: 101
Period size: 33 Copynumber: 2.1 Consensus size: 34
93470078 AACAGTGCAT
* * * *
93470088 ACAGTAACGGTCTGGGCCTGAGCCCTATTCATTA
1 ACAGTAACAGTCTGGGCCTAAGCCCTATGCAGTA
93470122 ACAGTAA-AGTCTGGGCCTAAGCCCTATGCAGTA
1 ACAGTAACAGTCTGGGCCTAAGCCCTATGCAGTA
93470155 ACAGT
1 ACAGT
93470160 GTGGGCCTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 27 0.79
34 7 0.21
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.24
Consensus pattern (34 bp):
ACAGTAACAGTCTGGGCCTAAGCCCTATGCAGTA
Found at i:93470380 original size:27 final size:27
Alignment explanation
Indices: 93470319--93470380 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
93470309 TAGTAACGCA
* *
93470319 GCAAAGCTGCTAATAGCGGTAAACGTG
1 GCAAAGCCGCTAATAGCAGTAAACGTG
** *
93470346 GCGTAGCCGCTAATATCAG-AATACGTG
1 GCAAAGCCGCTAATAGCAGTAA-ACGTG
93470373 GCAAAGCC
1 GCAAAGCC
93470381 ACCAGAATAG
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.18
Consensus pattern (27 bp):
GCAAAGCCGCTAATAGCAGTAAACGTG
Found at i:93493010 original size:4 final size:4
Alignment explanation
Indices: 93493001--93493026 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
93492991 TGGTTTATAT
93493001 AAAG AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AA
93493027 GTTGGTGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:93493633 original size:15 final size:15
Alignment explanation
Indices: 93493613--93493650 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
93493603 TGAAGATTGA
93493613 AATTTTAAATTTTTG
1 AATTTTAAATTTTTG
93493628 AATTTTAAATTTTTG
1 AATTTTAAATTTTTG
93493643 AATTTTAA
1 AATTTTAA
93493651 TTATTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (15 bp):
AATTTTAAATTTTTG
Found at i:93493661 original size:15 final size:15
Alignment explanation
Indices: 93493612--93493661 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
93493602 GTGAAGATTG
93493612 AAATTTTAAATTTTT
1 AAATTTTAAATTTTT
*
93493627 GAATTTTAAATTTTT
1 AAATTTTAAATTTTT
*
93493642 GAATTTT-AATTATTT
1 AAATTTTAAATT-TTT
93493657 AAATT
1 AAATT
93493662 CTAATTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 4 0.12
15 28 0.88
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (15 bp):
AAATTTTAAATTTTT
Found at i:93493861 original size:26 final size:26
Alignment explanation
Indices: 93493825--93493877 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
93493815 CCATTTAACA
93493825 TAAAAATAATATAAGTCCCAAGTATT
1 TAAAAATAATATAAGTCCCAAGTATT
93493851 TAAAAATAATATAAGTCCCAAGTATT
1 TAAAAATAATATAAGTCCCAAGTATT
93493877 T
1 T
93493878 GACCACTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (26 bp):
TAAAAATAATATAAGTCCCAAGTATT
Found at i:93494104 original size:23 final size:23
Alignment explanation
Indices: 93494065--93494122 Score: 89
Period size: 23 Copynumber: 2.4 Consensus size: 23
93494055 AAAATAAAAT
93494065 TACATGGACATGTTCAAATTCACTC
1 TACATGG--ATGTTCAAATTCACTC
93494090 TACATGGATGTTCAAATTCACTC
1 TACATGGATGTTCAAATTCACTC
*
93494113 TAAATGGATG
1 TACATGGATG
93494123 ACAAACACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 25 0.78
25 7 0.22
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (23 bp):
TACATGGATGTTCAAATTCACTC
Done.