Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 88 of 199
Found at i:26916659 original size:51 final size:52
Alignment explanation
Indices: 26916562--26916676 Score: 126
Period size: 51 Copynumber: 2.2 Consensus size: 52
26916552 GGATTCAGTT
* * *
26916562 ATGTTTTTGGGAGAGGATGTGTAGCCTACGGGATTGGCACTTAGTGCCTAGAC
1 ATGTTTTT-GGAGAGCATGTGTAGCCTACGGGATTAGCACTTAGTGCCCAGAC
* * * *
26916615 ATGTTTTTGGA-AGCATGTTTAGCCTACTGGCTTAGCA-TTCAGTGCCCAGGC
1 ATGTTTTTGGAGAGCATGTGTAGCCTACGGGATTAGCACTT-AGTGCCCAGAC
*
26916666 ATGTTCTTGGA
1 ATGTTTTTGGA
26916677 TGGTATAGCT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
50 2 0.04
51 40 0.75
52 3 0.06
53 8 0.15
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (52 bp):
ATGTTTTTGGAGAGCATGTGTAGCCTACGGGATTAGCACTTAGTGCCCAGAC
Found at i:26921813 original size:18 final size:19
Alignment explanation
Indices: 26921768--26921816 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
26921758 GAATATTTAC
*
26921768 ATAAAAATTAAACTAAGTAA
1 ATAAAAA-TAAACTAAATAA
26921788 A-AATAAATAAA-TAAATAA
1 ATAA-AAATAAACTAAATAA
26921806 ATAAAAATAAA
1 ATAAAAATAAA
26921817 AATAAAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 8 0.31
20 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
ATAAAAATAAACTAAATAA
Found at i:26926231 original size:6 final size:6
Alignment explanation
Indices: 26926219--26926262 Score: 70
Period size: 6 Copynumber: 7.3 Consensus size: 6
26926209 TAGGTATCAA
* *
26926219 AAAATG GAAATG GAAATG AAAATG AAAATG AAAATG AAAATG AA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AA
26926263 TTACTTAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:26932068 original size:116 final size:116
Alignment explanation
Indices: 26931876--26932134 Score: 286
Period size: 116 Copynumber: 2.2 Consensus size: 116
26931866 TGGGAAAGAG
* * * * * *
26931876 AGGACAAAGCTAGAAATATGACCAAAAGGGTTTGGTCAATAGAGTAGTCAACGACTCCAAATGGA
1 AGGACAAAGCTAGAAACACGACCAAAAGAGTCTGATCAATAGAGTAGTCAAAGACTCCAAATGGA
* * *
26931941 TCAAGTGTGATGACTTAGCTTGGAAAAAAAAAGACAAAGCATGAGAAACAA
66 TCAAGTATGATGACTTAGCTAGGAAAAAAAAAGACAAAGCACGAGAAACAA
* * * *
26931992 AGGACAAAGCTAGAAGCACGGCCAAAAGAGTCTGATCAGTAGAGTAGTCAAAGACT-TAGAATGG
1 AGGACAAAGCTAGAAACACGACCAAAAGAGTCTGATCAATAGAGTAGTCAAAGACTCCA-AATGG
** * * * * * * *
26932056 ATTTAGTATGATGATTTGGCTAGGACAAAGAAAGCCAAAGCACGGGAAACAT
65 ATCAAGTATGATGACTTAGCTAGGAAAAAAAAAGACAAAGCACGAGAAACAA
* *
26932108 ATGACAAAGCTAGAAACAGGACCAAAA
1 AGGACAAAGCTAGAAACACGACCAAAA
26932135 AAGGCAAAAA
Statistics
Matches: 116, Mismatches: 26, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
115 1 0.01
116 115 0.99
ACGTcount: A:0.44, C:0.15, G:0.24, T:0.17
Consensus pattern (116 bp):
AGGACAAAGCTAGAAACACGACCAAAAGAGTCTGATCAATAGAGTAGTCAAAGACTCCAAATGGA
TCAAGTATGATGACTTAGCTAGGAAAAAAAAAGACAAAGCACGAGAAACAA
Found at i:26936995 original size:21 final size:21
Alignment explanation
Indices: 26936970--26937009 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
26936960 TGTACAAGCC
* *
26936970 GCCACATAATTGCTGATAATG
1 GCCACATAATCGCAGATAATG
26936991 GCCACATAATCGCAGATAA
1 GCCACATAATCGCAGATAA
26937010 ACTACCACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (21 bp):
GCCACATAATCGCAGATAATG
Found at i:26937244 original size:16 final size:16
Alignment explanation
Indices: 26937219--26937278 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
26937209 GAGTTTTCAC
*
26937219 AGTCTGTAGTTGTCTT
1 AGTCTATAGTTGTCTT
* * *
26937235 AGTATATAGTTTTTCAT
1 AGTCTATAG-TTGTCTT
* *
26937252 AGTCTACAGTTGTCTC
1 AGTCTATAGTTGTCTT
26937268 AGTCTATAGTT
1 AGTCTATAGTT
26937279 TCAAATCTAA
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
16 21 0.64
17 12 0.36
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (16 bp):
AGTCTATAGTTGTCTT
Found at i:26937250 original size:33 final size:33
Alignment explanation
Indices: 26937189--26937279 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 33
26937179 CATTTCAATT
* * * *
26937189 TACACTTGTCTCACTATCTAGAGTTTTCACAGTC
1 TACAGTTGTCTCAGTATATAG-TTTTTCACAGTC
** * *
26937223 TGTAGTTGTCTTAGTATATAGTTTTTCATAGTC
1 TACAGTTGTCTCAGTATATAGTTTTTCACAGTC
*
26937256 TACAGTTGTCTCAGTCTATAGTTT
1 TACAGTTGTCTCAGTATATAGTTT
26937280 CAAATCTAAA
Statistics
Matches: 45, Mismatches: 12, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
33 30 0.67
34 15 0.33
ACGTcount: A:0.22, C:0.18, G:0.15, T:0.45
Consensus pattern (33 bp):
TACAGTTGTCTCAGTATATAGTTTTTCACAGTC
Found at i:26948938 original size:37 final size:38
Alignment explanation
Indices: 26948864--26948939 Score: 102
Period size: 37 Copynumber: 2.0 Consensus size: 38
26948854 CCTATAAATG
*
26948864 TATAAATATATTACAATAAATCCTTAAAGGCATATATA
1 TATAAATATATTACAATAAATCCATAAAGGCATATATA
* *
26948902 TATAAATATA-TATAATAGAA-CCATAGAGGCATATATA
1 TATAAATATATTACAATA-AATCCATAAAGGCATATATA
26948939 T
1 T
26948940 TATATGTAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 22 0.65
38 12 0.35
ACGTcount: A:0.50, C:0.09, G:0.08, T:0.33
Consensus pattern (38 bp):
TATAAATATATTACAATAAATCCATAAAGGCATATATA
Found at i:26951739 original size:20 final size:20
Alignment explanation
Indices: 26951714--26951934 Score: 99
Period size: 20 Copynumber: 11.1 Consensus size: 20
26951704 GAAGTATAAA
*
26951714 CAGGGGCACGTATGTGTAAT
1 CAGGGGCACGTATGTGCAAT
* ** * * *
26951734 CAGGGGTACCAAAGTACAAG
1 CAGGGGCACGTATGTGCAAT
26951754 CAGGGGCACGTATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
* * * *
26951774 CAGGGGTAC-TAAGTTCAAG
1 CAGGGGCACGTATGTGCAAT
*
26951793 CAGGGGCACGTATGTGAAAT
1 CAGGGGCACGTATGTGCAAT
** * ** *
26951813 CAGACGTACCG-ACATGCAAA
1 CAGGGGCA-CGTATGTGCAAT
*
26951833 CAGGGGCATGTATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
* * ** * *
26951853 CAAGGGTACCAAAGTACAAAT
1 CAGGGGCACGTATGTGC-AAT
*
26951874 -AGGGGCACATATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
* * * * *
26951893 CAGGAGTACCG-AAGTACAAA
1 CAGGGGCA-CGTATGTGCAAT
*
26951913 CAGGTGCACGTATGTGCAAT
1 CAGGGGCACGTATGTGCAAT
26951933 CA
1 CA
26951935 AGTATAATTA
Statistics
Matches: 134, Mismatches: 60, Indels: 14
0.64 0.29 0.07
Matches are distributed among these distances:
19 21 0.16
20 107 0.80
21 6 0.04
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.18
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCAAT
Found at i:26951760 original size:40 final size:40
Alignment explanation
Indices: 26951705--26951934 Score: 275
Period size: 40 Copynumber: 5.8 Consensus size: 40
26951695 GAAATTACTG
* *
26951705 AAGTATAAACAGGGGCACGTATGTGTAATCAGGGGTACCA
1 AAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCA
* *
26951745 AAGTACAAGCAGGGGCACGTATGTGCAATCAGGGGTA-CT
1 AAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCA
* * * **
26951784 AAGTTCAAGCAGGGGCACGTATGTGAAATCAGACGTACCGA
1 AAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACC-A
* * * *
26951825 CA-TGCAAACAGGGGCATGTATGTGCAATCAAGGGTACCA
1 AAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCA
* * * *
26951864 AAGTACAAATAGGGGCACATATGTGCAATCAGGAGTACCG
1 AAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCA
*
26951904 AAGTACAAACAGGTGCACGTATGTGCAATCA
1 AAGTACAAACAGGGGCACGTATGTGCAATCA
26951935 AGTATAATTA
Statistics
Matches: 159, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
39 36 0.23
40 122 0.77
41 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (40 bp):
AAGTACAAACAGGGGCACGTATGTGCAATCAGGGGTACCA
Found at i:26968360 original size:40 final size:40
Alignment explanation
Indices: 26968288--26968523 Score: 319
Period size: 40 Copynumber: 5.9 Consensus size: 40
26968278 TGATTGAAAT
* * **
26968288 TACCGAAGTATAAATAGGGGCACGTATGTGCAATCAAAGG
1 TACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGG
* * ** *
26968328 TACTGAAATACAAGTAGGGGCACGTATATGCAATCAGGGG
1 TACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGG
* *
26968368 TACCGAAGTACAAGCAGGGGCACGTATGTGCAACCAGGGG
1 TACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGG
* * *
26968408 TACTGAAGTACAAACAAGGGCACGTATGTGCAATTAGGGG
1 TACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGG
*
26968448 TACCGAAGTACAAACAAGGGCACGTATGTGCAATCAGGGG
1 TACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGG
* *
26968488 TACCGAAGTACAAACAAGGGCACGTATGTACAATCA
1 TACCGAAGTACAAACAGGGGCACGTATGTGCAATCA
26968524 TGTATAATTA
Statistics
Matches: 176, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 176 1.00
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.17
Consensus pattern (40 bp):
TACCGAAGTACAAACAGGGGCACGTATGTGCAATCAGGGG
Found at i:26968520 original size:20 final size:20
Alignment explanation
Indices: 26968343--26968520 Score: 94
Period size: 20 Copynumber: 8.9 Consensus size: 20
26968333 AAATACAAGT
* * *
26968343 AGGGGCACGTATATGCAATC
1 AGGGGCACGTATGTACAAAC
* * *
26968363 AGGGGTACCG-AAGTACAAGC
1 AGGGGCA-CGTATGTACAAAC
* *
26968383 AGGGGCACGTATGTGCAACC
1 AGGGGCACGTATGTACAAAC
* *
26968403 AGGGGTAC-TGAAGTACAAAC
1 AGGGGCACGT-ATGTACAAAC
* * **
26968423 AAGGGCACGTATGTGCAATT
1 AGGGGCACGTATGTACAAAC
* *
26968443 AGGGGTACCG-AAGTACAAAC
1 AGGGGCA-CGTATGTACAAAC
* * *
26968463 AAGGGCACGTATGTGCAATC
1 AGGGGCACGTATGTACAAAC
* *
26968483 AGGGGTACCG-AAGTACAAAC
1 AGGGGCA-CGTATGTACAAAC
*
26968503 AAGGGCACGTATGTACAA
1 AGGGGCACGTATGTACAA
26968521 TCATGTATAA
Statistics
Matches: 112, Mismatches: 38, Indels: 16
0.67 0.23 0.10
Matches are distributed among these distances:
19 7 0.06
20 98 0.88
21 7 0.06
ACGTcount: A:0.34, C:0.19, G:0.31, T:0.16
Consensus pattern (20 bp):
AGGGGCACGTATGTACAAAC
Found at i:26980603 original size:15 final size:15
Alignment explanation
Indices: 26980583--26980612 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
26980573 AACCAACTAG
26980583 TGATTGAGAAAGATC
1 TGATTGAGAAAGATC
26980598 TGATTGAGAAAGATC
1 TGATTGAGAAAGATC
26980613 AAAATTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
TGATTGAGAAAGATC
Found at i:26981858 original size:19 final size:20
Alignment explanation
Indices: 26981816--26981858 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
26981806 AGACACCTAC
* *
26981816 ATAATCAAAATAAATACAAG
1 ATAATCAAAATAAAAACAAA
*
26981836 ATAAT-AAAATAAAAAGAAA
1 ATAATCAAAATAAAAACAAA
26981855 ATAA
1 ATAA
26981859 AAATTCAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.19
Consensus pattern (20 bp):
ATAATCAAAATAAAAACAAA
Found at i:26985300 original size:28 final size:29
Alignment explanation
Indices: 26985267--26985333 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
26985257 GTAGCAGTAC
*
26985267 AGTGTGGGCCTTAGCCCATTACAGTAA-T
1 AGTGTGGGCCTTAGCCCAATACAGTAACT
*
26985295 AGTGTGTGGGCGTTAGCCCAATACAGTAACT
1 A--GTGTGGGCCTTAGCCCAATACAGTAACT
26985326 -GTGTGGGC
1 AGTGTGGGC
26985334 GAGTAATAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 9 0.26
30 24 0.71
31 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.27
Consensus pattern (29 bp):
AGTGTGGGCCTTAGCCCAATACAGTAACT
Found at i:26985394 original size:26 final size:29
Alignment explanation
Indices: 26985335--26985414 Score: 105
Period size: 26 Copynumber: 2.9 Consensus size: 29
26985325 TGTGTGGGCG
26985335 AGTAATAGTAACGCAGCAAAGCTGCTGCC
1 AGTAATAGTAACGCAGCAAAGCTGCTGCC
*
26985364 AGTAATAGTAATGCAGC-AA-C-GCTGCC
1 AGTAATAGTAACGCAGCAAAGCTGCTGCC
*
26985390 AGTAATAGTAACATC-GCAAAGCTGC
1 AGTAATAGTAAC-GCAGCAAAGCTGC
26985415 CAGTAACAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
26 19 0.43
27 4 0.09
28 3 0.07
29 18 0.41
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (29 bp):
AGTAATAGTAACGCAGCAAAGCTGCTGCC
Found at i:26985618 original size:27 final size:26
Alignment explanation
Indices: 26985599--26985851 Score: 260
Period size: 27 Copynumber: 9.3 Consensus size: 26
26985589 GGGTATAACA
*
26985599 GTCATTTTACCCTTCGGGGGCTATTTC
1 GTCATTTTACCCTTCGAGGG-TATTTC
* **
26985626 TGTCATTTTA-ACTTTTAGGGGTATTTC
1 -GTCATTTTACCCTTCGA-GGGTATTTC
* *
26985653 GGTCATTTTACCGTTCGAGAGTATTTCC
1 -GTCATTTTACCCTTCGAGGGTATTT-C
* *
26985681 ATCATTTTATCCTTCG-GAGGTATTTC
1 GTCATTTTACCCTTCGAG-GGTATTTC
* *
26985707 GATCATTTCACCCTTCGAGGGTATTTTG
1 G-TCATTTTACCCTTCGAGGGTA-TTTC
26985735 GTCATTTTACCCTTCGAGGGTATTTC
1 GTCATTTTACCCTTCGAGGGTATTTC
*
26985761 GATCATTTTACCCTTTTG-GGGTATTTC
1 G-TCATTTTACCC-TTCGAGGGTATTTC
*
26985788 GATCATTTTACCCTTCGAGGGTATTTTG
1 G-TCATTTTACCCTTCGAGGGTA-TTTC
26985816 GTCATTTTACCCTTCGAGGGTATTTC
1 GTCATTTTACCCTTCGAGGGTATTTC
26985842 GATCATTTTA
1 G-TCATTTTA
26985852 GGCCCATTAT
Statistics
Matches: 189, Mismatches: 24, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
26 13 0.07
27 148 0.78
28 28 0.15
ACGTcount: A:0.17, C:0.20, G:0.19, T:0.44
Consensus pattern (26 bp):
GTCATTTTACCCTTCGAGGGTATTTC
Found at i:26985703 original size:54 final size:54
Alignment explanation
Indices: 26985600--26985851 Score: 296
Period size: 54 Copynumber: 4.6 Consensus size: 54
26985590 GGTATAACAG
* * ** *
26985600 TCATTTTACCCTTCGGGGGCTATTTCTG-TCATTTTA-ACTTTTAGGGGTATTTCGG
1 TCATTTTACCCTTCGAGGG-TATTTC-GATCATTTTACCCTTCGA-GGGTATTTCGA
* * * *
26985655 TCATTTTACCGTTCGAGAGTATTTCCATCATTTTATCCTTCG-GAGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAG-GGTATTTCGA
* * *
26985709 TCATTTCACCCTTCGAGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGA
* * *
26985763 TCATTTTACCCTTTTG-GGGTATTTCGATCATTTTACCCTTCGAGGGTATTTTGG
1 TCATTTTACCC-TTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGA
26985817 TCATTTTACCCTTCGAGGGTATTTCGATCATTTTA
1 TCATTTTACCCTTCGAGGGTATTTCGATCATTTTA
26985852 GGCCCATTAT
Statistics
Matches: 169, Mismatches: 22, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
53 4 0.02
54 142 0.84
55 23 0.14
ACGTcount: A:0.17, C:0.20, G:0.19, T:0.44
Consensus pattern (54 bp):
TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGA
Found at i:26985738 original size:81 final size:81
Alignment explanation
Indices: 26985644--26985851 Score: 337
Period size: 81 Copynumber: 2.6 Consensus size: 81
26985634 TAACTTTTAG
* * * * *
26985644 GGGTATTTCGGTCATTTTACCGTTCGAGAGTATTTCCATCATTTTATCC-TTCGGAGGTATTTCG
1 GGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTTCGG-GGTATTTCG
26985708 ATCATTTCACCCTTCGA
65 ATCATTTCACCCTTCGA
*
26985725 GGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTTTGGGGTATTTCGA
1 GGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTTCGGGGTATTTCGA
*
26985790 TCATTTTACCCTTCGA
66 TCATTTCACCCTTCGA
26985806 GGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTA
1 GGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTA
26985852 GGCCCATTAT
Statistics
Matches: 119, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
81 115 0.97
82 4 0.03
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.43
Consensus pattern (81 bp):
GGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTTCGGGGTATTTCGA
TCATTTCACCCTTCGA
Found at i:26992064 original size:15 final size:16
Alignment explanation
Indices: 26992039--26992070 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
26992029 TATCTCACAC
26992039 TCATCTTCTTTTTCTT
1 TCATCTTCTTTTTCTT
26992055 TCAT-TTCTTTTTCTT
1 TCATCTTCTTTTTCTT
26992070 T
1 T
26992071 TTCATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (16 bp):
TCATCTTCTTTTTCTT
Found at i:26993098 original size:11 final size:11
Alignment explanation
Indices: 26993082--26993125 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
26993072 GAATACAAAC
*
26993082 TTTTTTTTGAA
1 TTTTTTTCGAA
26993093 TTTTTTTCGAA
1 TTTTTTTCGAA
26993104 TTTTTTTCTCG-A
1 -TTTTTT-TCGAA
26993116 TTTTTTTCGA
1 TTTTTTTCGA
26993126 TGTTTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
10 3 0.10
11 16 0.55
12 7 0.24
13 3 0.10
ACGTcount: A:0.14, C:0.09, G:0.09, T:0.68
Consensus pattern (11 bp):
TTTTTTTCGAA
Found at i:26993126 original size:10 final size:10
Alignment explanation
Indices: 26993082--26993142 Score: 52
Period size: 11 Copynumber: 5.7 Consensus size: 10
26993072 GAATACAAAC
*
26993082 TTTTTTTTGAA
1 TTTTTTTCG-A
26993093 TTTTTTTCGAA
1 TTTTTTTCG-A
26993104 TTTTTTTCTCGA
1 -TTTTTT-TCGA
26993116 TTTTTTTCGA
1 TTTTTTTCGA
*
26993126 TGTTTTTT-TA
1 T-TTTTTTCGA
26993136 TTTTTTT
1 TTTTTTT
26993143 ACAATATCGT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
9 6 0.13
10 7 0.16
11 22 0.49
12 7 0.16
13 3 0.07
ACGTcount: A:0.11, C:0.07, G:0.08, T:0.74
Consensus pattern (10 bp):
TTTTTTTCGA
Found at i:26993131 original size:12 final size:11
Alignment explanation
Indices: 26993082--26993142 Score: 58
Period size: 12 Copynumber: 5.6 Consensus size: 11
26993072 GAATACAAAC
26993082 TTTTTTTT-GA
1 TTTTTTTTCGA
*
26993092 ATTTTTTTCGAA
1 TTTTTTTTCG-A
26993104 TTTTTTTCTCGA
1 TTTTTTT-TCGA
26993116 -TTTTTTTCGA
1 TTTTTTTTCGA
26993126 TGTTTTTTT--A
1 T-TTTTTTTCGA
26993136 TTTTTTT
1 TTTTTTT
26993143 ACAATATCGT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
9 6 0.14
10 13 0.30
11 7 0.16
12 15 0.34
13 3 0.07
ACGTcount: A:0.11, C:0.07, G:0.08, T:0.74
Consensus pattern (11 bp):
TTTTTTTTCGA
Found at i:26997988 original size:28 final size:28
Alignment explanation
Indices: 26997913--26998002 Score: 144
Period size: 28 Copynumber: 3.1 Consensus size: 28
26997903 AGTAGCAGTG
*
26997913 CAGTGTGGGCCTTAGCCCATTACAGTAA
1 CAGTGTGGGCCTTAGCCCAATACAGTAA
*
26997941 CAGTGTATGGGCCTTAGCCCAATACAATAA
1 CAGTG--TGGGCCTTAGCCCAATACAGTAA
26997971 CAGTGTGGGCCTTAGCCCAATACAGTAA
1 CAGTGTGGGCCTTAGCCCAATACAGTAA
26997999 CAGT
1 CAGT
26998003 ATAATGCAGT
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
28 31 0.54
30 26 0.46
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (28 bp):
CAGTGTGGGCCTTAGCCCAATACAGTAA
Found at i:26998142 original size:26 final size:26
Alignment explanation
Indices: 26998113--26998188 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
26998103 CACCAATATC
*
26998113 GCAGCAAAGCTGCCAGTAATAGTAAT
1 GCAGCAAAGCTGCCAGTAACAGTAAT
* * *
26998139 GCAGCAACGCTGCTAGTAACAGTAAC
1 GCAGCAAAGCTGCCAGTAACAGTAAT
* ** *
26998165 ACAATAAAGCTTCCAGTAACAGTA
1 GCAGCAAAGCTGCCAGTAACAGTA
26998189 TATGTGGCAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.18
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAACAGTAAT
Found at i:26998392 original size:27 final size:27
Alignment explanation
Indices: 26998362--26998613 Score: 171
Period size: 27 Copynumber: 9.3 Consensus size: 27
26998352 GGTACAATAG
26998362 TCATTTTACCCTTCAGGGGTATTTCGA
1 TCATTTTACCCTTCAGGGGTATTTCGA
** *
26998389 TCATTTTA-CCTTTTGAGGGTATTTCGG
1 TCATTTTACCCTTCAG-GGGTATTTCGA
* * **
26998416 TTATTTTACCTTTTGGGGGTATTTC-A
1 TCATTTTACCCTTCAGGGGTATTTCGA
* *
26998442 GCCATTTTACCCTT-TGAGGGTATTTC-A
1 -TCATTTTACCCTTCAG-GGGTATTTCGA
* *
26998469 GTCATTTTACCTTTCAAGGGTATTTC-A
1 -TCATTTTACCCTTCAGGGGTATTTCGA
* *
26998496 GTCATTTTACCC-TCCGAAGGTATTTCGA
1 -TCATTTTACCCTTCAG-GGGTATTTCGA
* *
26998524 TCATTTTACCCTTCTA-GGGTGTTTCGG
1 TCATTTTACCCTTC-AGGGGTATTTCGA
** *
26998551 TCATTTTACATTTTCAAGGGTATTTC-A
1 TCATTTTAC-CCTTCAGGGGTATTTCGA
*
26998578 GTCATTTTACACTTC-GAGGGTATTTCGA
1 -TCATTTTACCCTTCAG-GGGTATTTCGA
*
26998606 TAATTTTA
1 TCATTTTA
26998614 GGCCCATTAC
Statistics
Matches: 180, Mismatches: 31, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
26 8 0.04
27 143 0.79
28 29 0.16
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTTCAGGGGTATTTCGA
Found at i:26998435 original size:54 final size:54
Alignment explanation
Indices: 26998360--26998613 Score: 248
Period size: 54 Copynumber: 4.7 Consensus size: 54
26998350 GGGGTACAAT
* *
26998360 AGTCATTTTACCCTTC-AGGGGTATTTCGATCATTTTACCTTTTGAGGGTATTTC
1 AGTCATTTTACCTTTCGA-GGGTATTTCGATCATTTTACCCTTTGAGGGTATTTC
* * * * *
26998414 GGTTATTTTACCTTTTGGGGGTATTTC-AGCCATTTTACCCTTTGAGGGTATTTC
1 AGTCATTTTACCTTTCGAGGGTATTTCGA-TCATTTTACCCTTTGAGGGTATTTC
* ** *
26998468 AGTCATTTTACCTTTCAAGGGTATTTC-AGTCATTTTACCCTCCGAAGGTATTTC
1 AGTCATTTTACCTTTCGAGGGTATTTCGA-TCATTTTACCCTTTGAGGGTATTTC
* * * * ** *
26998522 -GATCATTTTACCCTTCTAGGGTGTTTCGGTCATTTTACATTTTCAAGGGTATTTC
1 AG-TCATTTTACCTTTCGAGGGTATTTCGATCATTTTACCCTTT-GAGGGTATTTC
*
26998577 AGTCATTTTACAC-TTCGAGGGTATTTCGATAATTTTA
1 AGTCATTTTAC-CTTTCGAGGGTATTTCGATCATTTTA
26998614 GGCCCATTAC
Statistics
Matches: 163, Mismatches: 30, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
53 2 0.01
54 121 0.74
55 38 0.23
56 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.44
Consensus pattern (54 bp):
AGTCATTTTACCTTTCGAGGGTATTTCGATCATTTTACCCTTTGAGGGTATTTC
Found at i:26998474 original size:81 final size:79
Alignment explanation
Indices: 26998363--26998605 Score: 263
Period size: 81 Copynumber: 3.0 Consensus size: 79
26998353 GTACAATAGT
* * * * *
26998363 CATTTTACCCTTCAGGGGTATTTCGATCATTTTACCTTTTGAGGGTATTTCGGTTATTTTACCTT
1 CATTTTACCCTTTA-GGGTATTTCG-TCATTTTACCTTTTAAGGGTATTTCAGTCATTTTACCCT
** **
26998428 TTGGGGGTATTTC-AGC
64 CCGAAGGTATTTCGA-C
*
26998444 CATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCTTTCAAGGGTATTTCAGTCATTTTACCCT
1 CATTTTACCCTTT-AGGGTATTTC-GTCATTTTACCTTTTAAGGGTATTTCAGTCATTTTACCCT
*
26998509 CCGAAGGTATTTCGAT
64 CCGAAGGTATTTCGAC
* * *
26998525 CATTTTACCCTTCTAGGGTGTTTCGGTCATTTTACATTTTCAAGGGTATTTCAGTCATTTTACAC
1 CATTTTACCCTT-TAGGGTATTTC-GTCATTTTACCTTTT-AAGGGTATTTCAGTCATTTTACCC
* *
26998590 TTCGAGGGTATTTCGA
63 TCCGAAGGTATTTCGA
26998606 TAATTTTAGG
Statistics
Matches: 139, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
81 98 0.71
82 41 0.29
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (79 bp):
CATTTTACCCTTTAGGGTATTTCGTCATTTTACCTTTTAAGGGTATTTCAGTCATTTTACCCTCC
GAAGGTATTTCGAC
Found at i:27001812 original size:27 final size:26
Alignment explanation
Indices: 27001796--27002173 Score: 402
Period size: 27 Copynumber: 14.1 Consensus size: 26
27001786 TATAATAGTT
27001796 ATTTTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCG-TC
*
27001823 ATTTTACCCTATGGGGGTATTTTGTTC
1 ATTTTACCCTATGGGGGTATTTCG-TC
*
27001850 ATTTTACCCTATAGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCG-TC
* * *
27001877 ATTCTACCCTATGGAGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTA-TTTCGTC
*
27001904 ATTCTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCG-TC
* *
27001931 ATTCTACCCTATAGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCG-TC
* *
27001958 ATTCTACCCTATAGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCG-TC
* * * *
27001985 ATTCTACCATATGGGGTTAGTTCGGTC
1 ATTTTACCCTATGGGGGTATTTC-GTC
* **
27002012 ATTTTATCCTATGGGGGTATTTTTATC
1 ATTTTACCCTATGGGGGTA-TTTCGTC
* *
27002039 ATTTTACCCTCTGGGGGTATTTCGGTT
1 ATTTTACCCTATGGGGGTATTTC-GTC
27002066 ATTCTT-CCCTAT-GGGGTA-TTCAGTC
1 ATT-TTACCCTATGGGGGTATTTC-GTC
*
27002091 ATTCTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCG-TC
27002118 ATTTTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTC-GTC
* *
27002145 ATTCTACCCTATGAGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCG-TC
27002172 AT
1 AT
27002174 AACAGTGTAA
Statistics
Matches: 304, Mismatches: 35, Indels: 24
0.84 0.10 0.07
Matches are distributed among these distances:
24 1 0.00
25 14 0.05
26 21 0.07
27 258 0.85
28 10 0.03
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (26 bp):
ATTTTACCCTATGGGGGTATTTCGTC
Found at i:27001854 original size:54 final size:54
Alignment explanation
Indices: 27001796--27002173 Score: 494
Period size: 54 Copynumber: 7.0 Consensus size: 54
27001786 TATAATAGTT
* * *
27001796 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTGTTC
1 ATTTTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCGATC
* * * *
27001850 ATTTTACCCTATAGGGGTATTTCGATCATTCTACCCTATGGAGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCGATC
* *
27001904 ATTCTACCCTATGGGGGTATTTCGATCATTCTACCCTATAGGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCGATC
* * * * * *
27001958 ATTCTACCCTATAGGGGTATTTCGATCATTCTACCATATGGGGTTAGTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCGATC
* ** * * * *
27002012 ATTTTATCCTATGGGGGTATTTTTATCATTTTACCCTCTGGGGGTATTTCGGTT
1 ATTTTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCGATC
27002066 ATTCTT-CCCTAT-GGGGTA-TTC-AGTCATTCTACCCTATGGGGGTATTTCGATC
1 ATT-TTACCCTATGGGGGTATTTCGA-TCATTCTACCCTATGGGGGTATTTCGATC
* *
27002118 ATTTTACCCTATGGGGGTATTTCGGTCATTCTACCCTATGAGGGTATTTCGATC
1 ATTTTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCGATC
27002172 AT
1 AT
27002174 AACAGTGTAA
Statistics
Matches: 283, Mismatches: 35, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
51 3 0.01
52 36 0.13
53 12 0.04
54 230 0.81
55 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (54 bp):
ATTTTACCCTATGGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCGATC
Found at i:27001906 original size:81 final size:80
Alignment explanation
Indices: 27001800--27002173 Score: 482
Period size: 81 Copynumber: 4.6 Consensus size: 80
27001790 ATAGTTATTT
* * * *
27001800 TACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTGTTCATTTTACCCTATAGG
1 TACCCTATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCG-TCATTCTACCCTATAGG
27001865 GGTATTTCGATCATTC
65 GGTATTTCGATCATTC
* *
27001881 TACCCTATGGAGGTATTTTGGTCATTCTACCCTATGGGGGTATTTCGATCATTCTACCCTATAGG
1 TACCCTATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCG-TCATTCTACCCTATAGG
27001946 GGTATTTCGATCATTC
65 GGTATTTCGATCATTC
* * * * * * * *
27001962 TACCCTATAGGGGTATTTCGATCATTCTACCATATGGGGTTAGTTCGGTCATTTTATCCTATGGG
1 TACCCTATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTC-GTCATTCTACCCTATAGG
** *
27002027 GGTATTTTTATCATTT
65 GGTATTTCGATCATTC
* * * *
27002043 TACCCTCTGGGGGTATTTCGGTTATTCTTCCCTAT-GGGGTA-TTCAGTCATTCTACCCTATGGG
1 TACCCTATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTC-GTCATTCTACCCTATAGG
*
27002106 GGTATTTCGATCATTT
65 GGTATTTCGATCATTC
*
27002122 TACCCTATGGGGGTATTTCGGTCATTCTACCCTATGAGGGTATTTCGATCAT
1 TACCCTATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCG-TCAT
27002174 AACAGTGTAA
Statistics
Matches: 253, Mismatches: 36, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
79 65 0.26
80 11 0.04
81 176 0.70
82 1 0.00
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (80 bp):
TACCCTATGGGGGTATTTCGGTCATTCTACCCTATGGGGGTATTTCGTCATTCTACCCTATAGGG
GTATTTCGATCATTC
Found at i:27004440 original size:27 final size:28
Alignment explanation
Indices: 27004410--27004470 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
27004400 CTATTCAGTG
*
27004410 ACAGTA-CAATGAGGGCCTTAGCCCAAC
1 ACAGTACCAATGAGGGCCATAGCCCAAC
* * *
27004437 ACAGTACCAGTGTGGGCCATAGCCCAAT
1 ACAGTACCAATGAGGGCCATAGCCCAAC
27004465 ACAGTA
1 ACAGTA
27004471 ACATTACAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (28 bp):
ACAGTACCAATGAGGGCCATAGCCCAAC
Found at i:27004609 original size:26 final size:26
Alignment explanation
Indices: 27004580--27004630 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
27004570 ACACATCAAT
*
27004580 ATCGCAGTAAAACTACCAGTAATAGA
1 ATCGCAGCAAAACTACCAGTAATAGA
* *
27004606 ATCGCAGCAAAGCTGCCAGTAATAG
1 ATCGCAGCAAAACTACCAGTAATAG
27004631 TATACGTGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.18
Consensus pattern (26 bp):
ATCGCAGCAAAACTACCAGTAATAGA
Found at i:27004651 original size:27 final size:26
Alignment explanation
Indices: 27004580--27004653 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
27004570 ACACATCAAT
* * *
27004580 ATCGCAGTAAAACTACCAGTAATAGA
1 ATCGCAGCAAAGCCACCAGTAATAGA
** *
27004606 ATCGCAGCAAAGCTGCCAGTAATAGT
1 ATCGCAGCAAAGCCACCAGTAATAGA
**
27004632 ATACGTGGCAAAGCCACCAGTA
1 AT-CGCAGCAAAGCCACCAGTA
27004654 GGTCCACATT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 24 0.62
27 15 0.38
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (26 bp):
ATCGCAGCAAAGCCACCAGTAATAGA
Found at i:27004933 original size:27 final size:27
Alignment explanation
Indices: 27004867--27005165 Score: 309
Period size: 27 Copynumber: 11.2 Consensus size: 27
27004857 TGGTATAACA
*
27004867 GTCATTTTACCCTAT-GGGGTACTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
27004893 GTCACTTTACCCTATAGGAGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
27004920 GTCATTTTATCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * * *
27004947 GTTAATCTACCTTAT-GGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * * * **
27004973 ATAATTCTACCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
27005000 GTCATTTTACCCTATCGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
27005027 ATCATTTTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
27005054 GTCATTTTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
27005081 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
27005108 GTCATTTTA-CCT-TAGGGGGTATTTCA
1 GTCATTTTACCCTATA-GGGGTATTTCG
**
27005134 AACATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
27005161 GTCAT
1 GTCAT
27005166 AACAGTGTAA
Statistics
Matches: 224, Mismatches: 44, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
25 1 0.00
26 54 0.24
27 167 0.75
28 2 0.01
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:27004987 original size:80 final size:80
Alignment explanation
Indices: 27004867--27005165 Score: 359
Period size: 80 Copynumber: 3.7 Consensus size: 80
27004857 TGGTATAACA
* * * * * * * *
27004867 GTCATTTTACCCTATGGGGTACTTCGGTCACTTTACCCTATAGGAGTATTTTGGTCATTTTATCC
1 GTCATTTTACCTTATGGGGTATTTCGATAATTTTACCCTATAGGGGTATTTCGGTCATTTTACCC
27004932 TATGGGGGTATTTTG
66 TATGGGGGTATTTTG
* * * * * **
27004947 GTTAATCTACCTTATGGGGTATTTCGATAATTCTACCCTATGGGGGTATTTTAGTCATTTTACCC
1 GTCATTTTACCTTATGGGGTATTTCGATAATTTTACCCTATAGGGGTATTTCGGTCATTTTACCC
*
27005012 TATCGGGGTATTTTG
66 TATGGGGGTATTTTG
* * * *
27005027 ATCATTTTATCC-TATGGGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTCGGTCATTTTAC
1 GTCATTTTA-CCTTAT-GGGGTATTTCGATAATTTTACCCTATAGGGGTATTTCGGTCATTTTAC
27005091 CCTATGGGGGTATTTTG
64 CCTATGGGGGTATTTTG
* *
27005108 GTCATTTTACCTTAGGGGGTATTTC-AAACATTTTACCCTATAGGGGTATTTCGGTCAT
1 GTCATTTTACCTTATGGGGTATTTCGATA-ATTTTACCCTATAGGGGTATTTCGGTCAT
27005166 AACAGTGTAA
Statistics
Matches: 183, Mismatches: 32, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
80 114 0.62
81 69 0.38
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (80 bp):
GTCATTTTACCTTATGGGGTATTTCGATAATTTTACCCTATAGGGGTATTTCGGTCATTTTACCC
TATGGGGGTATTTTG
Found at i:27005043 original size:54 final size:54
Alignment explanation
Indices: 27004868--27005165 Score: 343
Period size: 54 Copynumber: 5.6 Consensus size: 54
27004858 GGTATAACAG
* * * * * *
27004868 TCATTTTACCCTAT-GGGGTACTTCGGTCACTTTACCCTATAGGAGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCGA
* * * * *
27004921 TCATTTTATCCTATGGGGGTATTTTGGTTAATCTACCTTAT-GGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCGA
* * * * *
27004974 TAATTCTACCCTATGGGGGTATTTTAGTCATTTTACCCTATCGGGGTATTTTGA
1 TCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCGA
* * * *
27005028 TCATTTTATCCTATGGGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCGA
*
27005082 TCATTTTACCCTATGGGGGTATTTTGGTCATTTTA-CCT-TAGGGGGTATTTCAA
1 TCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATA-GGGGTATTTCGA
* * *
27005135 ACATTTTACCCTATAGGGGTATTTCGGTCAT
1 TCATTTTACCCTATGGGGGTATTTTGGTCAT
27005166 AACAGTGTAA
Statistics
Matches: 206, Mismatches: 36, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
52 2 0.01
53 95 0.46
54 109 0.53
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.42
Consensus pattern (54 bp):
TCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCGA
Found at i:27013240 original size:22 final size:22
Alignment explanation
Indices: 27013215--27013260 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
27013205 TTTCCATTTA
27013215 GTAAATGTAAAA-TGATACTTTG
1 GTAAATGTAAAATTG-TACTTTG
27013237 GTAAATGTAAAATTGTACTTTG
1 GTAAATGTAAAATTGTACTTTG
27013259 GT
1 GT
27013261 GCCCTCCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (22 bp):
GTAAATGTAAAATTGTACTTTG
Found at i:27019839 original size:37 final size:37
Alignment explanation
Indices: 27019798--27019872 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
27019788 TAAATAAGAG
*
27019798 TGAGAGAAAAAGAGATCCCTTAAGTTTAATAATAAAA
1 TGAGAGAAAAAGAGATCCCTTAAGTTTAACAATAAAA
27019835 TGAGAGAAAAAGAGATCCCTTAAGTTTAACAATAAAA
1 TGAGAGAAAAAGAGATCCCTTAAGTTTAACAATAAAA
27019872 T
1 T
27019873 TTTCTATATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.51, C:0.09, G:0.16, T:0.24
Consensus pattern (37 bp):
TGAGAGAAAAAGAGATCCCTTAAGTTTAACAATAAAA
Found at i:27020189 original size:2 final size:2
Alignment explanation
Indices: 27020182--27020207 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27020172 TGTTTATCAA
27020182 GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT
27020208 TTTATATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:27021380 original size:33 final size:33
Alignment explanation
Indices: 27021343--27021535 Score: 251
Period size: 33 Copynumber: 5.8 Consensus size: 33
27021333 ACCGAATAAA
*
27021343 GAAGCTACCCCGATAGATGTTCCAATCAATGAT
1 GAAGCTGCCCCGATAGATGTTCCAATCAATGAT
*
27021376 GAAGCTGCCCCGATAGATGGTCCAATCAATGAT
1 GAAGCTGCCCCGATAGATGTTCCAATCAATGAT
* * ** * * *
27021409 GAAGTTTCCCAAATAGATGTTGCAATCATTAAT
1 GAAGCTGCCCCGATAGATGTTCCAATCAATGAT
*
27021442 GAAGCTGCCCTGATAGATGTTCCAATCAATGAT
1 GAAGCTGCCCCGATAGATGTTCCAATCAATGAT
* * *
27021475 GAAGCTGTCCCGATAGGTGTTCCAATCATTGAT
1 GAAGCTGCCCCGATAGATGTTCCAATCAATGAT
* *
27021508 GAAGCTGCCCTGATAGATATTCCAATCA
1 GAAGCTGCCCCGATAGATGTTCCAATCA
27021536 CTTATGTTGA
Statistics
Matches: 135, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 135 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (33 bp):
GAAGCTGCCCCGATAGATGTTCCAATCAATGAT
Found at i:27021524 original size:99 final size:99
Alignment explanation
Indices: 27021343--27021535 Score: 278
Period size: 99 Copynumber: 1.9 Consensus size: 99
27021333 ACCGAATAAA
27021343 GAAGCTACCCCGATAGATGTTCCAATCAATGATGAAGCTGCCCCGATAGATGGTCCAATCAATGA
1 GAAGCTACCCCGATAGATGTTCCAATCAATGATGAAGCTGCCCCGATAGATGGTCCAATCAATGA
* * * *
27021408 TGAAGTTTCCCAAATAGATGTTGCAATCATTAAT
66 TGAAGCTGCCCAAATAGATATTCCAATCATTAAT
* * * * * *
27021442 GAAGCTGCCCTGATAGATGTTCCAATCAATGATGAAGCTGTCCCGATAGGTGTTCCAATCATTGA
1 GAAGCTACCCCGATAGATGTTCCAATCAATGATGAAGCTGCCCCGATAGATGGTCCAATCAATGA
**
27021507 TGAAGCTGCCCTGATAGATATTCCAATCA
66 TGAAGCTGCCCAAATAGATATTCCAATCA
27021536 CTTATGTTGA
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
99 82 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (99 bp):
GAAGCTACCCCGATAGATGTTCCAATCAATGATGAAGCTGCCCCGATAGATGGTCCAATCAATGA
TGAAGCTGCCCAAATAGATATTCCAATCATTAAT
Found at i:27025316 original size:17 final size:18
Alignment explanation
Indices: 27025294--27025327 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
27025284 GTTTGGAGGG
27025294 GTTTTC-GAGAAGTAAAA
1 GTTTTCGGAGAAGTAAAA
27025311 GTTTTCGGAGAAGTAAA
1 GTTTTCGGAGAAGTAAA
27025328 CCGGAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.06, G:0.26, T:0.29
Consensus pattern (18 bp):
GTTTTCGGAGAAGTAAAA
Found at i:27027084 original size:30 final size:30
Alignment explanation
Indices: 27027033--27027121 Score: 116
Period size: 25 Copynumber: 3.1 Consensus size: 30
27027023 ATTTCTTATG
*
27027033 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
27027064 CCAATATTTGATACCAATATCTTTGAC-TT
1 CCAATATTTGATACCCATATCTTTGACTTT
27027093 ----TATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
27027119 CCA
1 CCA
27027122 TAAAAATGGA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
25 22 0.43
26 2 0.04
29 2 0.04
30 18 0.35
31 7 0.14
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.42
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:27031152 original size:15 final size:15
Alignment explanation
Indices: 27031134--27031163 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27031124 CCAAGTACGA
27031134 ATCTAGCTCTGATAC
1 ATCTAGCTCTGATAC
27031149 ATCTAGCTCTGATAC
1 ATCTAGCTCTGATAC
27031164 CAATTGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (15 bp):
ATCTAGCTCTGATAC
Found at i:27031687 original size:25 final size:25
Alignment explanation
Indices: 27031659--27031709 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
27031649 GACTTTCCAA
27031659 TATTTGATACTAATATCTTTGACTT
1 TATTTGATACTAATATCTTTGACTT
*
27031684 TATTTGATACTCATATCTTTGACTT
1 TATTTGATACTAATATCTTTGACTT
27031709 T
1 T
27031710 CCATAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.14, G:0.08, T:0.53
Consensus pattern (25 bp):
TATTTGATACTAATATCTTTGACTT
Found at i:27035459 original size:21 final size:21
Alignment explanation
Indices: 27035433--27035481 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
27035423 ATGGTGTGTT
27035433 GGGAAGCAGAGGCTAAAGCAA
1 GGGAAGCAGAGGCTAAAGCAA
** *
27035454 GGGAAGCAGAGGCTGCAGCGA
1 GGGAAGCAGAGGCTAAAGCAA
27035475 GGGAAGC
1 GGGAAGC
27035482 CGAGCAGCGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.45, T:0.04
Consensus pattern (21 bp):
GGGAAGCAGAGGCTAAAGCAA
Found at i:27035885 original size:43 final size:43
Alignment explanation
Indices: 27035838--27036054 Score: 188
Period size: 43 Copynumber: 5.0 Consensus size: 43
27035828 AGGTGTTGGC
*
27035838 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGT
1 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * * * * *
27035881 CTTTAGCGGCGTTTGTGGGGC-AAGCGCCGCTAACGATTAGGTT
1 CTTTAGTGGCGTTT-TTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * *
27035924 CTTTAGTGGCGTTTTGTTGTCGAAGCGCCGCTATAGATCAGGGT
1 CTTTAGTGGCGTTTT-TGGTCAAAGCGCCGCTAAAGATCAGGGT
* * ** ** * *
27035968 CTATT-GCGACGTTTGAGGGGAAAGCGCCGCTAAAGATTAGGTT
1 CT-TTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * * *
27036011 CTTTCGTGGCGTTTGTGGTCAAAGTGCCGC-ATAGATCAGGGT
1 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGT
27036053 CT
1 CT
27036055 ATTGCGACGT
Statistics
Matches: 135, Mismatches: 34, Indels: 11
0.75 0.19 0.06
Matches are distributed among these distances:
42 14 0.10
43 88 0.65
44 31 0.23
45 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.30
Consensus pattern (43 bp):
CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGT
Found at i:27035967 original size:87 final size:87
Alignment explanation
Indices: 27035838--27036066 Score: 331
Period size: 87 Copynumber: 2.7 Consensus size: 87
27035828 AGGTGTTGGC
* * * *
27035838 CTTTAGTGGCGTTTT-TGGTCAAAGCGCCGCTAAAGATAAGGGTCT-TTAGCGGCGTTTGTGGGG
1 CTTTAGTGGCGTTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATT-GCGACGTTTGAGGGG
* *
27035901 CAAGCGCCGCTAACGATTAGGTT
65 AAAGCGCCGCTAAAGATTAGGTT
* *
27035924 CTTTAGTGGCGTTTTGTTGTCGAAGCGCCGCTATAGATCAGGGTCTATTGCGACGTTTGAGGGGA
1 CTTTAGTGGCGTTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGACGTTTGAGGGGA
27035989 AAGCGCCGCTAAAGATTAGGTT
66 AAGCGCCGCTAAAGATTAGGTT
* *
27036011 CTTTCGTGGCG-TTTGTGGTCAAAGTGCCGC-ATAGATCAGGGTCTATTGCGACGTTT
1 CTTTAGTGGCGTTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGACGTTT
27036067 TTAAAAAAAT
Statistics
Matches: 129, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
85 26 0.20
86 31 0.24
87 70 0.54
88 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.31
Consensus pattern (87 bp):
CTTTAGTGGCGTTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGACGTTTGAGGGGA
AAGCGCCGCTAAAGATTAGGTT
Found at i:27036099 original size:85 final size:87
Alignment explanation
Indices: 27035838--27036106 Score: 224
Period size: 87 Copynumber: 3.1 Consensus size: 87
27035828 AGGTGTTGGC
* * * * ***
27035838 CTTTAGTGGCGTTTT-TGGTCAAAGCGCCGCTAAAGATAAGGGTCT-TTAGCGGCGTTTGTGGGG
1 CTTTAGTGGCGTTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATT-GCGACGTTTGAGAAA
* * * ** *
27035901 CAAGCGCCGCTAACGATTAGGTT
65 AAAGCACCGCTAAAGACCAGGAT
* * ***
27035924 CTTTAGTGGCGTTTTGTTGTCGAAGCGCCGCTATAGATCAGGGTCTATTGCGACGTTTGAGGGGA
1 CTTTAGTGGCGTTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGACGTTTGAGAAAA
* ** *
27035989 AAGCGCCGCTAAAGATTAGGTT
66 AAGCACCGCTAAAGACCAGGAT
* * *
27036011 CTTTCGTGGCG-TTTGTGGTCAAAGTGCCGC-ATAGATCAGGGTCTATTGCGACGTTTTTA-AAA
1 CTTTAGTGGCGTTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGACG-TTTGAGAAA
* **
27036073 AAATCACCGCTAAAGACCCTGAT
65 AAAGCACCGCTAAAGACCAGGAT
*
27036096 CTTTAGCGGCG
1 CTTTAGTGGCG
27036107 CTTGTCCCAA
Statistics
Matches: 155, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
85 48 0.31
86 35 0.23
87 70 0.45
88 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (87 bp):
CTTTAGTGGCGTTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGACGTTTGAGAAAA
AAGCACCGCTAAAGACCAGGAT
Found at i:27036358 original size:22 final size:22
Alignment explanation
Indices: 27036330--27036372 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
27036320 CTGCGGCGCT
*
27036330 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
27036352 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
27036373 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:27037809 original size:88 final size:87
Alignment explanation
Indices: 27037502--27037910 Score: 335
Period size: 87 Copynumber: 4.7 Consensus size: 87
27037492 ATTAAATCAA
** * * *
27037502 AATAAAATATGTTAAACGGCGAGAATAAATC-CTGAAATAGATTTTATTTAATTTTAATTTCTCG
1 AATAAAATCCGTTGAACGGCGAGAATAAATCTC-GAAACAGATTTTATTTAATTTTAA-TACTCG
* * *
27037566 TTTTTGGCAACAAAATCAAAA-TGT
64 -TTTTGGAAATAAAATCAAAATTGG
** * ** * * * *
27037590 AAT-AAATCAATTAAACGGTAATAATAAATC-CTGAAACATAGTTTATTTTAACTTTAATACTCG
1 AATAAAATCCGTTGAACGGCGAGAATAAATCTC-GAAACAGATTTTA-TTTAATTTTAATACTCG
*
27037653 TTTTTGGAAATTAAATCAAAATTGG
64 -TTTTGGAAATAAAATCAAAATTGG
* * * * * * *
27037678 AATCAAATTCGTTGAATGACGTGAATAAATCTCAAAACAGATTTTATTTTAATTTTAATACTTGT
1 AATAAAATCCGTTGAACGGCGAGAATAAATCTCGAAACAGATTTTA-TTTAATTTTAATACTCGT
* *
27037743 TTTAGAAATAAAATCAAAATTGA
65 TTTGGAAATAAAATCAAAATTGG
* * ** * * *
27037766 AATAAAATCCGTTGAACGGCGGGAATAAATTTCGAAATGGATTTTATTT-ATGTTTCATTTCCCG
1 AATAAAATCCGTTGAACGGCGAGAATAAATCTCGAAACAGATTTTATTTAAT-TTT-AATACTCG
* * *
27037830 -TCTGGAAATAAAATAAAAACTGG
64 TTTTGGAAATAAAATCAAAATTGG
* * *
27037853 AATAAAATCCATTGAACGGCGAGAATAAATCCCGAAACAGATTTTATTTACTTTTAAT
1 AATAAAATCCGTTGAACGGCGAGAATAAATCTCGAAACAGATTTTATTTAATTTTAAT
27037911 TTGGAAGCAA
Statistics
Matches: 255, Mismatches: 59, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
86 4 0.02
87 126 0.49
88 81 0.32
89 43 0.17
90 1 0.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (87 bp):
AATAAAATCCGTTGAACGGCGAGAATAAATCTCGAAACAGATTTTATTTAATTTTAATACTCGTT
TTGGAAATAAAATCAAAATTGG
Found at i:27040121 original size:20 final size:20
Alignment explanation
Indices: 27040082--27040120 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
27040072 GTTGGCTTTC
27040082 TTGGCAAACTAAGATAAAAA
1 TTGGCAAACTAAGATAAAAA
27040102 TTGG-AAACTAAGATAAAAA
1 TTGGCAAACTAAGATAAAAA
27040121 AATTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.56, C:0.08, G:0.15, T:0.21
Consensus pattern (20 bp):
TTGGCAAACTAAGATAAAAA
Found at i:27041649 original size:87 final size:86
Alignment explanation
Indices: 27041491--27041654 Score: 213
Period size: 87 Copynumber: 1.9 Consensus size: 86
27041481 AATCAATATT
* * *
27041491 CATAACCTAAATTCTAAACTAAAATCTAATTAAATATATTAAAGCCCAAAATATAAATCTTAGGG
1 CATAACCTAAATTCTAAACTAAAATCTAATAAAATATATTAAA-CCCAAAATATAAACCCTAGGG
27041556 ATAAAAATAAATAAATTTGATC
65 ATAAAAATAAATAAATTTGATC
* * * * *
27041578 CATAACCTAAATTCTGAACTAAAATCTAATAAAATCTATTGAAA-CCTAAATCTAAACCCTATGG
1 CATAACCTAAATTCTAAACTAAAATCTAATAAAATATATT-AAACCCAAAATATAAACCCTAGGG
*
27041642 CTAAAAAATAAAT
65 AT-AAAAATAAAT
27041655 TCAATTCAAG
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
86 16 0.24
87 47 0.71
88 3 0.05
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (86 bp):
CATAACCTAAATTCTAAACTAAAATCTAATAAAATATATTAAACCCAAAATATAAACCCTAGGGA
TAAAAATAAATAAATTTGATC
Found at i:27043485 original size:25 final size:25
Alignment explanation
Indices: 27043457--27043548 Score: 132
Period size: 25 Copynumber: 3.7 Consensus size: 25
27043447 ACCAACTTAT
* *
27043457 AGCTCGTGA-GAGCATACCGATTCAA
1 AGCTCGT-ATGAGCATACTGATTCAC
27043482 AGCTCGTATGAGCATACTGATTCAC
1 AGCTCGTATGAGCATACTGATTCAC
*
27043507 AGCTTGTATGAGCATACTGATTCAC
1 AGCTCGTATGAGCATACTGATTCAC
*
27043532 AGCTCGTATAAGCATAC
1 AGCTCGTATGAGCATAC
27043549 ATGTACATGA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 1 0.02
25 60 0.98
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (25 bp):
AGCTCGTATGAGCATACTGATTCAC
Found at i:27046352 original size:23 final size:23
Alignment explanation
Indices: 27046318--27046368 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
27046308 AGATGCTAAA
*
27046318 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
27046341 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
27046364 AGTAA
1 TGTAA
27046369 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:27061157 original size:30 final size:28
Alignment explanation
Indices: 27061123--27061178 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
27061113 GTGATTAAAT
27061123 AAAATCGACA-CAAGCAGAATTTAAAAGAAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAAA
*
27061153 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
27061179 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 8 0.33
29 2 0.08
30 10 0.42
31 4 0.17
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (28 bp):
AAAATCGACAGCAAGAAATTAAAAGAAA
Found at i:27063550 original size:18 final size:19
Alignment explanation
Indices: 27063523--27063562 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
27063513 TCTAAGTGAT
27063523 TTTTCATC-TTAATCTTTG
1 TTTTCATCTTTAATCTTTG
* *
27063541 TTTTCTTCTTTAATTTTTG
1 TTTTCATCTTTAATCTTTG
27063560 TTT
1 TTT
27063563 ACCTTGTGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.12, C:0.12, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTTCATCTTTAATCTTTG
Found at i:27071632 original size:5 final size:5
Alignment explanation
Indices: 27071622--27071646 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
27071612 TTCTATATTG
27071622 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
27071647 GGCCCGTTTG
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:27072081 original size:14 final size:14
Alignment explanation
Indices: 27072058--27072088 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
27072048 TACACACAAA
*
27072058 GAAAATTTATAAAT
1 GAAAAGTTATAAAT
27072072 GAAAAGTTATAAAT
1 GAAAAGTTATAAAT
27072086 GAA
1 GAA
27072089 TATGAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (14 bp):
GAAAAGTTATAAAT
Found at i:27073991 original size:106 final size:106
Alignment explanation
Indices: 27073802--27074006 Score: 320
Period size: 106 Copynumber: 1.9 Consensus size: 106
27073792 AAAAGTGAGT
* * * * * *
27073802 ATCTATACATAGATTTAGGTTATTTCTTTTACATGGTATTTGGGCAAAACTTTGGATTTGTCAAA
1 ATCTATACATAGATTTAGGTTATTTCTTGTACATGGTATATAGGAAAAACTTTGCATTTATCAAA
*
27073867 TTTAAATTATTTCGAGTTGTATCATTTAGATTTTACACTAG
66 TTTAAATTATTTCAAGTTGTATCATTTAGATTTTACACTAG
* *
27073908 ATCTATACATAGATTTATGTTATTTCTTGTACATGGTATATATGAAAAACTTTGCATTTATCAAA
1 ATCTATACATAGATTTAGGTTATTTCTTGTACATGGTATATAGGAAAAACTTTGCATTTATCAAA
*
27073973 TTTAAATTATTTCAAGTTGTATCATTTGGATTTT
66 TTTAAATTATTTCAAGTTGTATCATTTAGATTTT
27074007 GCACCAGAGA
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
106 89 1.00
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (106 bp):
ATCTATACATAGATTTAGGTTATTTCTTGTACATGGTATATAGGAAAAACTTTGCATTTATCAAA
TTTAAATTATTTCAAGTTGTATCATTTAGATTTTACACTAG
Found at i:27084729 original size:22 final size:22
Alignment explanation
Indices: 27084704--27084775 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
27084694 AACCTAAACC
27084704 CTCATGGCTAACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
27084726 CTCATGGCTAACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
** *
27084748 CTCATGTTTCACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
27084770 CTCATG
1 CTCATG
27084776 TTTGAACAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (22 bp):
CTCATGGCTAACGTACTAAGCT
Found at i:27086928 original size:19 final size:20
Alignment explanation
Indices: 27086898--27086953 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
27086888 GTAATGAAAG
*
27086898 AAAAACAGAAAAAGA-AATC
1 AAAAAGAGAAAAAGAGAATC
*
27086917 AAAAA-AGAAAAAGAGAATG
1 AAAAAGAGAAAAAGAGAATC
27086936 AAAAAGAGCAAAAAGAGA
1 AAAAAGAG-AAAAAGAGA
27086954 TTGAGAGAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 9 0.27
19 13 0.39
20 2 0.06
21 9 0.27
ACGTcount: A:0.73, C:0.05, G:0.18, T:0.04
Consensus pattern (20 bp):
AAAAAGAGAAAAAGAGAATC
Found at i:27091867 original size:28 final size:28
Alignment explanation
Indices: 27091823--27091945 Score: 160
Period size: 28 Copynumber: 4.4 Consensus size: 28
27091813 TTATTCAGTG
27091823 ACAGT-ACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
27091850 ACAGTAACAGTGTGGGCCTTAGCCAAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* * * *
27091878 AAAGGATCAGTGTAGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* *
27091906 ACA-AAATCAGTGTGGGCTTTAGCCCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
27091934 ACAGTAACAGTG
1 ACAGTAACAGTG
27091946 CAGTGCAATA
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
27 6 0.07
28 73 0.90
29 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:27092125 original size:26 final size:25
Alignment explanation
Indices: 27092047--27092127 Score: 72
Period size: 26 Copynumber: 3.1 Consensus size: 25
27092037 AACACACCAA
*
27092047 TATCGCAACAAAGCTGCCAGTAATAG
1 TATCGC-ACAAAGCTGCCAGTAACAG
* * * * **
27092073 CATCGCAGCAGAGCTACTAGTGTCAG
1 TATCGCA-CAAAGCTGCCAGTAACAG
27092099 TATCGCTACAAAGCTGCCAGTAACAG
1 TATCGC-ACAAAGCTGCCAGTAACAG
27092125 TAT
1 TAT
27092128 ATGTGGCAAA
Statistics
Matches: 40, Mismatches: 13, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
25 1 0.03
26 38 0.95
27 1 0.03
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (25 bp):
TATCGCACAAAGCTGCCAGTAACAG
Found at i:27092378 original size:27 final size:27
Alignment explanation
Indices: 27092348--27092663 Score: 304
Period size: 27 Copynumber: 11.7 Consensus size: 27
27092338 TTTTATCTCC
**
27092348 TAGGGGTATAACAGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
*
27092375 TA-GGGTATTTCAATCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
*
27092401 TAGGGGTATTTTAGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
* *
27092428 TAGGGATATTTCGGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
27092455 TAGGGGTATTTCAGTCATTTTACCCTA
1 TAGGGGTATTTCAGTCATTTTACCCTA
*
27092482 TTGGGGTATTTC-GATCATTTTACCCTA
1 TAGGGGTATTTCAG-TCATTTTACCCTA
* * * * *
27092509 TGGGGGTAATTCGGTCATTTTACCTTG
1 TAGGGGTATTTCAGTCATTTTACCCTA
* * *
27092536 TGGGGGTAATTT-GGCCATTTTACCCTA
1 TAGGGGT-ATTTCAGTCATTTTACCCTA
* * *
27092563 TGGGGGTAATTC-GATCATTTTACCCTG
1 TAGGGGTATTTCAG-TCATTTTACCCTA
* * * *
27092590 TGGGGGTAATTC-GATCATTTTAACCTG
1 TAGGGGTATTTCAG-TCATTTTACCCTA
* * *
27092617 T-GGAGGTAATTCGGTCATTTTATCCTA
1 TAGG-GGTATTTCAGTCATTTTACCCTA
27092644 T-GGGGCTATTTCAGTCATTT
1 TAGGGG-TATTTCAGTCATTT
27092664 AACGACCTCT
Statistics
Matches: 253, Mismatches: 27, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
26 32 0.13
27 216 0.85
28 5 0.02
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (27 bp):
TAGGGGTATTTCAGTCATTTTACCCTA
Found at i:27092500 original size:81 final size:82
Alignment explanation
Indices: 27092361--27092663 Score: 343
Period size: 81 Copynumber: 3.8 Consensus size: 82
27092351 GGGTATAACA
* * *
27092361 GTCATTTTACCCTATA-GGGTATTTCAATCATTTTACCCTATAGGGGTATTT-TAGTCATTTTAC
1 GTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATTGGGGTATTTCGAGTCATTTTAC
* * *
27092424 CCTATAGGGATATTTCG
66 CCTATGGGGGTAATTCG
27092441 GTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATTGGGGTATTTCGA-TCATTTTAC
1 GTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATTGGGGTATTTCGAGTCATTTTAC
27092505 CCTATGGGGGTAATTCG
66 CCTATGGGGGTAATTCG
* * * * * * *
27092522 GTCATTTTACCTTGTGGGGGTAATTT-GGCCATTTTACCCTATGGGGGTAATTCGA-TCATTTTA
1 GTCATTTTACCCTATAGGGGT-ATTTCAGTCATTTTACCCTATTGGGGTATTTCGAGTCATTTTA
*
27092585 CCCTGTGGGGGTAATTCG
65 CCCTATGGGGGTAATTCG
* * * * * *
27092603 ATCATTTTAACCTGT-GGAGGTAATTCGGTCATTTTATCCTA-TGGGGCTATTTC-AGTCATTT
1 GTCATTTTACCCTATAGG-GGTATTTCAGTCATTTTACCCTATTGGGG-TATTTCGAGTCATTT
27092664 AACGACCTCT
Statistics
Matches: 194, Mismatches: 22, Indels: 13
0.85 0.10 0.06
Matches are distributed among these distances:
80 26 0.13
81 163 0.84
82 5 0.03
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.41
Consensus pattern (82 bp):
GTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATTGGGGTATTTCGAGTCATTTTAC
CCTATGGGGGTAATTCG
Found at i:27092900 original size:18 final size:17
Alignment explanation
Indices: 27092870--27092904 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
27092860 CATTCGTGTG
27092870 GGGCCCACAAGCCCATT
1 GGGCCCACAAGCCCATT
*
27092887 GGGCCTACACAGCCCATT
1 GGGCCCACA-AGCCCATT
27092905 TTGGTCCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.23, C:0.40, G:0.23, T:0.14
Consensus pattern (17 bp):
GGGCCCACAAGCCCATT
Found at i:27094152 original size:79 final size:79
Alignment explanation
Indices: 27094021--27094175 Score: 283
Period size: 79 Copynumber: 2.0 Consensus size: 79
27094011 TAGGCCTAAA
*
27094021 ATTCGGGGTGTTACAATGTGACATGCCTTGTTCTTAAAATAAATATTGCAAAATTATTTCAAGAA
1 ATTCGGGGTGTTACAATGTGACATGCCTTGTTCTCAAAATAAATATTGCAAAATTATTTCAAGAA
*
27094086 TGAGGAGGAAGACT
66 TAAGGAGGAAGACT
*
27094100 ATTCGGGTTGTTACAATGTGACATGCCTTGTTCTCAAAATAAATATTGCAAAATTATTTCAAGAA
1 ATTCGGGGTGTTACAATGTGACATGCCTTGTTCTCAAAATAAATATTGCAAAATTATTTCAAGAA
27094165 TAAGGAGGAAG
66 TAAGGAGGAAG
27094176 CCTAATGGTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 73 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.32
Consensus pattern (79 bp):
ATTCGGGGTGTTACAATGTGACATGCCTTGTTCTCAAAATAAATATTGCAAAATTATTTCAAGAA
TAAGGAGGAAGACT
Found at i:27105512 original size:23 final size:22
Alignment explanation
Indices: 27105469--27105512 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
27105459 TTTCAAGTCA
27105469 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
27105492 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
27105513 TTAATCATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:27112179 original size:28 final size:27
Alignment explanation
Indices: 27112138--27112209 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 27
27112128 GAGCCCTATT
*
27112138 CAATAGCAGTATAGTGTGAGCCTTAGCC
1 CAATA-CAGTATAGTATGAGCCTTAGCC
*
27112166 CAATACAGTAATAGTATGGGCCTTAGCC
1 CAATACAGT-ATAGTATGAGCCTTAGCC
*
27112194 CAATACAATATCAGTA
1 CAATACAGTAT-AGTA
27112210 CAGTGCAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 6 0.15
28 33 0.85
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (27 bp):
CAATACAGTATAGTATGAGCCTTAGCC
Found at i:27112203 original size:33 final size:32
Alignment explanation
Indices: 27112108--27112209 Score: 88
Period size: 28 Copynumber: 3.2 Consensus size: 32
27112098 GTATACAACA
* *
27112108 AGCAGTAATAGTCTGGGCCTGAGCCCTATTCAAT
1 AGCAGTAATAGTATGGGCCTTAGCCC-A-TCAAT
* *
27112142 AGCAGT-ATAGTGTGAGCCTTAG-CC--CAAT
1 AGCAGTAATAGTATGGGCCTTAGCCCATCAAT
27112170 A-CAGTAATAGTATGGGCCTTAGCCCAATACAAT
1 AGCAGTAATAGTATGGGCCTTAGCCC-AT-CAAT
*
27112203 ATCAGTA
1 AGCAGTA
27112210 CAGTGCAATA
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
27 4 0.07
28 19 0.34
29 2 0.04
32 2 0.04
33 18 0.32
34 11 0.20
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (32 bp):
AGCAGTAATAGTATGGGCCTTAGCCCATCAAT
Found at i:27112353 original size:29 final size:29
Alignment explanation
Indices: 27112320--27112388 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 29
27112310 ATATTGCAGT
* *
27112320 AAAGCTGCCAGTAATAATAGTATCGCAAC
1 AAAGCTGCCAGTAATAACAGTATCACAAC
* *
27112349 AAAGCT---ACTAATAACAGTATCACAGC
1 AAAGCTGCCAGTAATAACAGTATCACAAC
*
27112375 AAAACTGCCAGTAA
1 AAAGCTGCCAGTAA
27112389 CAGTATACTT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
26 21 0.68
29 10 0.32
ACGTcount: A:0.45, C:0.22, G:0.14, T:0.19
Consensus pattern (29 bp):
AAAGCTGCCAGTAATAACAGTATCACAAC
Found at i:27118557 original size:19 final size:19
Alignment explanation
Indices: 27118507--27118557 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
27118497 ATAAAATATG
*
27118507 ATTTAATCAAATTGGAATA
1 ATTTAATTAAATTGGAATA
*
27118526 AGTTAAATT-AATT-GAATCA
1 A-TTTAATTAAATTGGAAT-A
27118545 ATTTAATTAAATT
1 ATTTAATTAAATT
27118558 TTTTTAGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 10 0.38
19 11 0.42
20 5 0.19
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (19 bp):
ATTTAATTAAATTGGAATA
Found at i:27132591 original size:101 final size:102
Alignment explanation
Indices: 27132464--27132648 Score: 259
Period size: 101 Copynumber: 1.8 Consensus size: 102
27132454 AAAGTGATGG
* * * *
27132464 TCACGTGCGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTGCGTAGCACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGGCACATGTGTAGT
27132527 ACTATGTGC-TGGCTACTATGCGTACCAGATAGCTTCGA
65 ACTATGTGCAT-GCTACTATGCGTACCAGATAGCTTCGA
* ***
27132565 TCACGTGTGTAGCACTATGTGCAGGCTACTACGTGTATTGGATAGTGATGGGCACATGTGTAGTA
1 TCACGTGCGTAGCACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGGCACATGTGTAGTA
27132630 CTATGTGCATGCTACTATG
66 CTATGTGCATGCTACTATG
27132649 TGAATCGGTA
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
101 36 0.49
102 32 0.44
103 5 0.07
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (102 bp):
TCACGTGCGTAGCACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGGCACATGTGTAGTA
CTATGTGCATGCTACTATGCGTACCAGATAGCTTCGA
Found at i:27147353 original size:3 final size:3
Alignment explanation
Indices: 27147345--27147381 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
27147335 GAAATAAAAC
*
27147345 TAA TAA TAA TAA TTAA TAA TAA TAA TAA TGA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
27147382 ATGCTAATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:27147390 original size:22 final size:22
Alignment explanation
Indices: 27147336--27147383 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
27147326 ATAAAAGGGG
27147336 AAATAA-AACTAATAATAATAAT
1 AAATAATAA-TAATAATAATAAT
* *
27147358 TAATAATAATAATAATGATAAT
1 AAATAATAATAATAATAATAAT
27147380 AAAT
1 AAAT
27147384 GCTAATACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
AAATAATAATAATAATAATAAT
Found at i:27148214 original size:21 final size:21
Alignment explanation
Indices: 27148188--27148238 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
27148178 CCTTACAAAT
27148188 GCTGAAAAATGGCTTTATATA
1 GCTGAAAAATGGCTTTATATA
*
27148209 GCTGAAAAATGGCTTTATATT
1 GCTGAAAAATGGCTTTATATA
*
27148230 GCAGAAAAA
1 GCTGAAAAA
27148239 AATGAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (21 bp):
GCTGAAAAATGGCTTTATATA
Found at i:27161376 original size:17 final size:17
Alignment explanation
Indices: 27161356--27161390 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
27161346 TCACAAAGTG
27161356 AATAAAACCACAACATC
1 AATAAAACCACAACATC
27161373 AATAAAACCACAACATC
1 AATAAAACCACAACATC
27161390 A
1 A
27161391 CATATACATA
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:0.60, C:0.29, G:0.00, T:0.11
Consensus pattern (17 bp):
AATAAAACCACAACATC
Found at i:27162205 original size:27 final size:25
Alignment explanation
Indices: 27162139--27162209 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
27162129 CATTTACATA
27162139 TATGCTCACACGAGCTGTGAATAAG
1 TATGCTCACACGAGCTGTGAATAAG
* *
27162164 TATGCTTACATGAGCTGTGAA-AATGGG
1 TATGCTCACACGAGCTGTGAATAA---G
*
27162191 TCTGCTCACACGAGCTGTG
1 TATGCTCACACGAGCTGTG
27162210 GGTCGGAACG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
24 2 0.05
25 19 0.50
27 17 0.45
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (25 bp):
TATGCTCACACGAGCTGTGAATAAG
Found at i:27181855 original size:41 final size:41
Alignment explanation
Indices: 27181810--27181985 Score: 244
Period size: 41 Copynumber: 4.3 Consensus size: 41
27181800 GAGTGTAAAT
* * *
27181810 AGGGGCACATATGTGCAATTCAGGGGTACTAAAGTATAAAC
1 AGGGGCACATATGTGCAATTTAGGGGTACCAAAGTACAAAC
* * * *
27181851 AGGGGCACGTATGTGTAATTTAGGGGAATCAAAGTACAAAC
1 AGGGGCACATATGTGCAATTTAGGGGTACCAAAGTACAAAC
*
27181892 AGGGGCACGTATGTGCAATTTAGGGGTACCAAAGTACAAAC
1 AGGGGCACATATGTGCAATTTAGGGGTACCAAAGTACAAAC
* * * *
27181933 AGGGGCAAATATGTGAAATTTAAGGGTACCAAAGTACAAAT
1 AGGGGCACATATGTGCAATTTAGGGGTACCAAAGTACAAAC
27181974 AGGGGCACATAT
1 AGGGGCACATAT
27181986 CTGTAATTCA
Statistics
Matches: 119, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 119 1.00
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.21
Consensus pattern (41 bp):
AGGGGCACATATGTGCAATTTAGGGGTACCAAAGTACAAAC
Found at i:27187699 original size:21 final size:21
Alignment explanation
Indices: 27187673--27187713 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
27187663 TGAGGTCTGA
27187673 TATTTATTGTGAATAGTCCAG
1 TATTTATTGTGAATAGTCCAG
27187694 TATTTATTGTGAATAGTCCA
1 TATTTATTGTGAATAGTCCA
27187714 CAGCTCATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (21 bp):
TATTTATTGTGAATAGTCCAG
Found at i:27190905 original size:23 final size:23
Alignment explanation
Indices: 27190875--27190923 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
27190865 GATCCTTACG
27190875 AGTGGTTTTATTCAGCTTTCTAT
1 AGTGGTTTTATTCAGCTTTCTAT
27190898 AGTGGTTTTATTCAGCTTTCTAT
1 AGTGGTTTTATTCAGCTTTCTAT
27190921 AGT
1 AGT
27190924 CAATATAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.51
Consensus pattern (23 bp):
AGTGGTTTTATTCAGCTTTCTAT
Found at i:27199599 original size:33 final size:33
Alignment explanation
Indices: 27199562--27199626 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
27199552 CATACATAGA
27199562 TAAAGTACTAAAAAGGTTCAGTATTGAAGAATT
1 TAAAGTACTAAAAAGGTTCAGTATTGAAGAATT
*
27199595 TAAAGTACTGAAAAGGTTCAGTATTGAAGAAT
1 TAAAGTACTAAAAAGGTTCAGTATTGAAGAAT
27199627 CTATGAGATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.45, C:0.06, G:0.20, T:0.29
Consensus pattern (33 bp):
TAAAGTACTAAAAAGGTTCAGTATTGAAGAATT
Found at i:27199622 original size:16 final size:16
Alignment explanation
Indices: 27199572--27199622 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
27199562 TAAAGTACTA
27199572 AAAAGGTTCAGTATTG
1 AAAAGGTTCAGTATTG
* * *
27199588 AAGAA-TTTAAAGTACTG
1 AA-AAGGTT-CAGTATTG
27199605 AAAAGGTTCAGTATTG
1 AAAAGGTTCAGTATTG
27199621 AA
1 AA
27199623 GAATCTATGA
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.43, C:0.06, G:0.22, T:0.29
Consensus pattern (16 bp):
AAAAGGTTCAGTATTG
Found at i:27204851 original size:22 final size:22
Alignment explanation
Indices: 27204808--27204852 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
27204798 GTATGTATGG
* *
27204808 ATTATTATGTTAATGTTGTTTA
1 ATTATTATGTTAATATTATTTA
27204830 ATTA-TATGTTAATATGTATTTA
1 ATTATTATGTTAATAT-TATTTA
27204852 A
1 A
27204853 AATGGTAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (22 bp):
ATTATTATGTTAATATTATTTA
Found at i:27207152 original size:17 final size:17
Alignment explanation
Indices: 27207130--27207164 Score: 61
Period size: 17 Copynumber: 2.0 Consensus size: 17
27207120 ATAACCTCTC
27207130 TTTTTTGAATTTTTTTAT
1 TTTTTTG-ATTTTTTTAT
27207148 TTTTTTGATTTTTTTAT
1 TTTTTTGATTTTTTTAT
27207165 AATCTCGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (17 bp):
TTTTTTGATTTTTTTAT
Found at i:27207162 original size:9 final size:9
Alignment explanation
Indices: 27207130--27207162 Score: 50
Period size: 8 Copynumber: 3.7 Consensus size: 9
27207120 ATAACCTCTC
27207130 TTTTTTGAAT
1 TTTTTTG-AT
27207140 TTTTTT-AT
1 TTTTTTGAT
27207148 TTTTTTGAT
1 TTTTTTGAT
27207157 TTTTTT
1 TTTTTT
27207163 ATAATCTCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 8 0.36
10 6 0.27
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (9 bp):
TTTTTTGAT
Found at i:27217919 original size:50 final size:50
Alignment explanation
Indices: 27217808--27217947 Score: 154
Period size: 50 Copynumber: 2.8 Consensus size: 50
27217798 TTTCTTGTAC
* * ** *
27217808 TGCCAATGCCATATCCTAGATATGGTCTTACAGGGGAGTTTTCATATAGG
1 TGCCAATGCCATGTCCTAGACATGGTCTTACAGGGGACCTCTCATATAGG
* * * * *
27217858 TTCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCTAGACATGGTCTTACAGGGGACCTCTCATATAGG
* * * *
27217908 TGCCAACGCCATGTCCCAGACATGGTCTAACATGGGACCT
1 TGCCAATGCCATGTCCTAGACATGGTCTTACAGGGGACCT
27217948 GATACGAATC
Statistics
Matches: 73, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 73 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCTAGACATGGTCTTACAGGGGACCTCTCATATAGG
Found at i:27227325 original size:58 final size:57
Alignment explanation
Indices: 27227164--27227337 Score: 188
Period size: 58 Copynumber: 3.0 Consensus size: 57
27227154 AATAACATCA
* **
27227164 GCTATCGATTATGAAAAGAGATGGTGACGACCATCAACTATGGAAAGGGATGGTCAC
1 GCTATCGATTATGAAAAGAGATGGTGACGACCATCAACTATGAAAAGGGATGGTTTC
* * * * * * *
27227221 GACCATCAACTATGAAAAGGGATGGTAACGACCAT-AGAATAAGAAAAGGGATGGCTTTC
1 G-CTATCGATTATGAAAAGAGATGGTGACGACCATCA-ACTATGAAAAGGGATGG-TTTC
* * * *
27227280 GCTATCGTTTATGAAAATAGATGATGACGACCATCAACTATGAAAATGGATGGTTTC
1 GCTATCGATTATGAAAAGAGATGGTGACGACCATCAACTATGAAAAGGGATGGTTTC
27227337 G
1 G
27227338 ACCGTTGATT
Statistics
Matches: 92, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
57 7 0.08
58 81 0.88
59 4 0.04
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (57 bp):
GCTATCGATTATGAAAAGAGATGGTGACGACCATCAACTATGAAAAGGGATGGTTTC
Found at i:27227340 original size:29 final size:29
Alignment explanation
Indices: 27227173--27227333 Score: 146
Period size: 29 Copynumber: 5.6 Consensus size: 29
27227163 AGCTATCGAT
*
27227173 TATGAAAAGAGATGGTGACGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* *
27227202 TATGGAAAGGGATGGTCACGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* *
27227231 TATGAAAAGGGATGGTAACGACCAT-AGAA
1 TATGAAAAGGGATGGTGACGACCATCA-AC
* ** * ***
27227260 TAAGAAAAGGGATGGCTTTCG-CTATCGTT
1 TATGAAAAGGGATGG-TGACGACCATCAAC
** *
27227289 TATGAAAATAGATGATGACGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
*
27227318 TATGAAAATGGATGGT
1 TATGAAAAGGGATGGT
27227334 TTCGACCGTT
Statistics
Matches: 103, Mismatches: 25, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
28 4 0.04
29 96 0.93
30 3 0.03
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:27237373 original size:34 final size:34
Alignment explanation
Indices: 27237303--27237392 Score: 83
Period size: 34 Copynumber: 2.6 Consensus size: 34
27237293 AATGATCAGC
* * * * ** *
27237303 TGTCCGTTGAGGTGCCCGAACAGCCTTGTTGGTA
1 TGTCCTTTGATGTGCACAAACAGCCTTGAAGATA
27237337 TGT-CTCTTGATGTGCACAAACAGCCTTGAAGATA
1 TGTCCT-TTGATGTGCACAAACAGCCTTGAAGATA
* *
27237371 TGTCCTTTTATGTGCACGAACA
1 TGTCCTTTGATGTGCACAAACA
27237393 AGTTTTGATG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
33 1 0.02
34 42 0.93
35 2 0.04
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (34 bp):
TGTCCTTTGATGTGCACAAACAGCCTTGAAGATA
Found at i:27241234 original size:6 final size:6
Alignment explanation
Indices: 27241223--27241268 Score: 76
Period size: 6 Copynumber: 7.7 Consensus size: 6
27241213 GCTGAACTCG
27241223 TTTCTT TTTCTT TTTCTT TTTCATT TTTC-T TTTCTT TTTCTT TTTC
1 TTTCTT TTTCTT TTTCTT TTTC-TT TTTCTT TTTCTT TTTCTT TTTC
27241269 ACTCGACTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.13
6 27 0.71
7 6 0.16
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTCTT
Found at i:27241255 original size:24 final size:25
Alignment explanation
Indices: 27241223--27241269 Score: 87
Period size: 24 Copynumber: 1.9 Consensus size: 25
27241213 GCTGAACTCG
27241223 TTTCTTTTTCTTTTTCTTTTTCATT
1 TTTCTTTTTCTTTTTCTTTTTCATT
27241248 TTTC-TTTTCTTTTTCTTTTTCA
1 TTTCTTTTTCTTTTTCTTTTTCA
27241270 CTCGACTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (25 bp):
TTTCTTTTTCTTTTTCTTTTTCATT
Found at i:27241278 original size:24 final size:24
Alignment explanation
Indices: 27241228--27241280 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
27241218 ACTCGTTTCT
* ***
27241228 TTTTCTTTTTCTTTTTCATTTTTC
1 TTTTCTTTTTCTTTTTCACTCGAC
27241252 TTTTCTTTTTCTTTTTCACTCGAC
1 TTTTCTTTTTCTTTTTCACTCGAC
27241276 TTTTC
1 TTTTC
27241281 AACAGAAGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.06, C:0.21, G:0.02, T:0.72
Consensus pattern (24 bp):
TTTTCTTTTTCTTTTTCACTCGAC
Found at i:27244119 original size:34 final size:34
Alignment explanation
Indices: 27244076--27244149 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
27244066 TTGAGGTGGC
** *
27244076 CGAACAGCCTTGTTGGTATGTC-TATTGATGTGCA
1 CGAACAGCCTTGAAGATATGTCAT-TTGATGTGCA
*
27244110 CGAATAGCCTTGAAGATATGTCATTTGATGTGCA
1 CGAACAGCCTTGAAGATATGTCATTTGATGTGCA
27244144 CGAACA
1 CGAACA
27244150 ACTTTTGATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 33 0.97
35 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (34 bp):
CGAACAGCCTTGAAGATATGTCATTTGATGTGCA
Found at i:27245083 original size:21 final size:21
Alignment explanation
Indices: 27245057--27245111 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
27245047 ACTAGGTACC
*
27245057 TCGATTAAATCTTGACTGGCT
1 TCGATTGAATCTTGACTGGCT
27245078 TCGATTGAATCTTGACTGGCT
1 TCGATTGAATCTTGACTGGCT
27245099 TCGATTGAATCTT
1 TCGATTGAATCTT
27245112 TAGGCGAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (21 bp):
TCGATTGAATCTTGACTGGCT
Found at i:27250229 original size:6 final size:6
Alignment explanation
Indices: 27250183--27250228 Score: 67
Period size: 6 Copynumber: 7.7 Consensus size: 6
27250173 GCTGAACTCG
*
27250183 TTTCTT TTTCTT TTTCTT TTTCATT TTTC-T TTTCTT TTTCAT TTTC
1 TTTCTT TTTCTT TTTCTT TTTC-TT TTTCTT TTTCTT TTTCTT TTTC
27250229 ACTCGACTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
5 5 0.14
6 26 0.70
7 6 0.16
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTCTT
Found at i:27250238 original size:24 final size:24
Alignment explanation
Indices: 27250188--27250240 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
27250178 ACTCGTTTCT
* * ***
27250188 TTTTCTTTTTCTTTTTCATTTTTC
1 TTTTCTTTTTCATTTTCACTCGAC
27250212 TTTTCTTTTTCATTTTCACTCGAC
1 TTTTCTTTTTCATTTTCACTCGAC
27250236 TTTTC
1 TTTTC
27250241 AACAGAAGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.08, C:0.21, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTTCTTTTTCATTTTCACTCGAC
Found at i:27253081 original size:34 final size:33
Alignment explanation
Indices: 27253031--27253116 Score: 109
Period size: 34 Copynumber: 2.5 Consensus size: 33
27253021 ATTAGCTGTC
* * ** *
27253031 CATTGAGGTGCTCGAACAGCCTTGTTGGTATGT
1 CATTGATGTGCACGAACAGCCTTGAAGATATGT
27253064 CTATTGATGTGCACGAACAGCCTTGAAGATATGT
1 C-ATTGATGTGCACGAACAGCCTTGAAGATATGT
27253098 CATTTGATGTGCACGAACA
1 CA-TTGATGTGCACGAACA
27253117 ACTTTTGATG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
33 2 0.04
34 44 0.96
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (33 bp):
CATTGATGTGCACGAACAGCCTTGAAGATATGT
Found at i:27272669 original size:22 final size:21
Alignment explanation
Indices: 27272644--27272687 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
27272634 TGATAAAAAT
27272644 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
27272666 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
27272687 T
1 T
27272688 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:27297668 original size:20 final size:19
Alignment explanation
Indices: 27297628--27297685 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
27297618 ACCAATAGAA
27297628 TAAATGAGCT-GAATTGTAGC
1 TAAATGAGCTCG-ATTG-AGC
27297648 TAAATTGAGCTCGATTGAGC
1 TAAA-TGAGCTCGATTGAGC
*
27297668 TGAAATGAGCTCAATTGA
1 T-AAATGAGCTCGATTGA
27297686 ACTGGTCGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
20 20 0.59
21 13 0.38
22 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (19 bp):
TAAATGAGCTCGATTGAGC
Found at i:27306863 original size:18 final size:19
Alignment explanation
Indices: 27306822--27306863 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
27306812 ATCTTACACG
* *
27306822 AAAAATACTTCAACAAAGA
1 AAAAATACTTCAAAAAAAA
*
27306841 CAAAATAC-TCAAAAAAAA
1 AAAAATACTTCAAAAAAAA
27306859 AAAAA
1 AAAAA
27306864 ACATGTTACA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.71, C:0.14, G:0.02, T:0.12
Consensus pattern (19 bp):
AAAAATACTTCAAAAAAAA
Found at i:27308505 original size:40 final size:40
Alignment explanation
Indices: 27308450--27308539 Score: 162
Period size: 40 Copynumber: 2.2 Consensus size: 40
27308440 TATACGAATA
*
27308450 AATTTTAATTTTGATTTAATATGTAAAGGGTGGTGGCATG
1 AATTTTAATTTTGATTTAATATGTAAAGGGTGGTCGCATG
*
27308490 AATTTTAATTTTGATTTAATATGTGAAGGGTGGTCGCATG
1 AATTTTAATTTTGATTTAATATGTAAAGGGTGGTCGCATG
27308530 AATTTTAATT
1 AATTTTAATT
27308540 AATGTAATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.44
Consensus pattern (40 bp):
AATTTTAATTTTGATTTAATATGTAAAGGGTGGTCGCATG
Found at i:27309822 original size:28 final size:28
Alignment explanation
Indices: 27309782--27309839 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
27309772 AATTGGTCAC
27309782 ACAACCGTTATATGGCAACAGGAGACTA
1 ACAACCGTTATATGGCAACAGGAGACTA
27309810 ACAACCGTTATATGGCAACAGGAGACTA
1 ACAACCGTTATATGGCAACAGGAGACTA
27309838 AC
1 AC
27309840 CGTGCATTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (28 bp):
ACAACCGTTATATGGCAACAGGAGACTA
Found at i:27330531 original size:4 final size:4
Alignment explanation
Indices: 27330524--27330548 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
27330514 TATATATCAT
27330524 AAGA AAGA AAGA AAGA AAGA AAGA A
1 AAGA AAGA AAGA AAGA AAGA AAGA A
27330549 GATGGATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:27338146 original size:21 final size:23
Alignment explanation
Indices: 27338099--27338148 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
27338089 AATTTTAAAT
**
27338099 ATTAAAAATATAAAGACTAAATT
1 ATTAAAAATATAAAGACTAAAAA
*
27338122 ATTAAAAATA-AAA-ATTAAAAA
1 ATTAAAAATATAAAGACTAAAAA
27338143 ATTAAA
1 ATTAAA
27338149 TTTAAAATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.46
22 3 0.12
23 10 0.42
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (23 bp):
ATTAAAAATATAAAGACTAAAAA
Found at i:27339218 original size:42 final size:42
Alignment explanation
Indices: 27339172--27339255 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
27339162 AGTGTAGGGA
27339172 AATTTAGTGAGATATACAATTTATATTTAATTTGTGTAATTT
1 AATTTAGTGAGATATACAATTTATATTTAATTTGTGTAATTT
27339214 AATTTAGTGAGATATACAATTTATATTTAATTTGTGTAATTT
1 AATTTAGTGAGATATACAATTTATATTTAATTTGTGTAATTT
27339256 TTCCCTTGTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (42 bp):
AATTTAGTGAGATATACAATTTATATTTAATTTGTGTAATTT
Found at i:27340279 original size:19 final size:19
Alignment explanation
Indices: 27340250--27340301 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
27340240 TTGAATCGAT
27340250 TTTATAATTTTTAA-TATA
1 TTTATAATTTTTAATTATA
* *
27340268 TTTCTAATTTTTAATTATT
1 TTTATAATTTTTAATTATA
27340287 TTTATAATTTTTAAT
1 TTTATAATTTTTAAT
27340302 GAATTTTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 13 0.43
19 17 0.57
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTATAATTTTTAATTATA
Found at i:27340289 original size:10 final size:10
Alignment explanation
Indices: 27340249--27340309 Score: 58
Period size: 9 Copynumber: 6.4 Consensus size: 10
27340239 GTTGAATCGA
27340249 TTTT-ATAAT
1 TTTTAATAAT
27340258 TTTTAAT-AT
1 TTTTAATAAT
* *
27340267 ATTT-CTAAT
1 TTTTAATAAT
*
27340276 TTTTAATTAT
1 TTTTAATAAT
27340286 TTTT-ATAAT
1 TTTTAATAAT
27340295 TTTTAATGAAT
1 TTTTAAT-AAT
27340306 TTTT
1 TTTT
27340310 CAATTATTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
8 1 0.02
9 22 0.54
10 11 0.27
11 7 0.17
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:27340308 original size:19 final size:18
Alignment explanation
Indices: 27340248--27340308 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 18
27340238 AGTTGAATCG
27340248 ATTTTATAATTTTTAAT-
1 ATTTTATAATTTTTAATA
*
27340265 ATATTTCTAATTTTTAATTA
1 AT-TTTATAATTTTTAA-TA
*
27340285 TTTTTATAATTTTTAATGA
1 ATTTTATAATTTTTAAT-A
27340304 ATTTT
1 ATTTT
27340309 TCAATTATTG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 2 0.06
18 14 0.39
19 19 0.53
20 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (18 bp):
ATTTTATAATTTTTAATA
Found at i:27345242 original size:19 final size:19
Alignment explanation
Indices: 27345218--27345257 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
27345208 GTTGGGCTTA
27345218 GGCTTGGAACATCTTATTG
1 GGCTTGGAACATCTTATTG
27345237 GGCTTGGAACATCTTATTG
1 GGCTTGGAACATCTTATTG
27345256 GG
1 GG
27345258 TCGTATCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.15, G:0.30, T:0.35
Consensus pattern (19 bp):
GGCTTGGAACATCTTATTG
Found at i:27346610 original size:15 final size:15
Alignment explanation
Indices: 27346581--27346614 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
27346571 TACCAAAAGG
27346581 GTATTTACAAAAATC
1 GTATTTACAAAAATC
**
27346596 GTATTTACACCAATC
1 GTATTTACAAAAATC
27346611 GTAT
1 GTAT
27346615 ATTCGAATTG
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:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (15 bp):
GTATTTACAAAAATC
Found at i:27351507 original size:25 final size:24
Alignment explanation
Indices: 27351426--27351512 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 24
27351416 TTAGGAAAAC
* *
27351426 TTTATTTCTA-TTAATTTATCCATTT
1 TTTATTT-TATTTAATTTTTACA-TT
* *
27351451 TTTATTTTATTTCATTTTTATATT
1 TTTATTTTATTTAATTTTTACATT
*
27351475 TTTGTTTTAATTTAATTTTTACATT
1 TTTATTTT-ATTTAATTTTTACATT
*
27351500 TTAATTTTTATTT
1 TTTA-TTTTATTT
27351513 TGTTTGCTTC
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
24 11 0.22
25 35 0.70
26 4 0.08
ACGTcount: A:0.23, C:0.06, G:0.01, T:0.70
Consensus pattern (24 bp):
TTTATTTTATTTAATTTTTACATT
Found at i:27357940 original size:6 final size:6
Alignment explanation
Indices: 27357915--27357951 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
27357905 CCTATTATTA
27357915 TTTTA- TTTTAT TTATTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TT-TTAT TTTTAT TTTTAT TTTTAT T
27357952 ATTACTGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 5 0.17
6 19 0.63
7 6 0.20
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:27357947 original size:24 final size:23
Alignment explanation
Indices: 27357907--27357955 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
27357897 GCCCCTCCCC
27357907 TATTATTATTTTA-TTTTATTTAT
1 TATTATTATTTTATTTTTA-TTAT
*
27357930 TATTTTTATTTTTATTTTTATTAT
1 TATTATTA-TTTTATTTTTATTAT
27357954 TA
1 TA
27357956 CTGTTATTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 7 0.30
24 11 0.48
25 5 0.22
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (23 bp):
TATTATTATTTTATTTTTATTAT
Found at i:27357962 original size:24 final size:24
Alignment explanation
Indices: 27357915--27357963 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
27357905 CCTATTATTA
* *
27357915 TTTTATTTTATTTATTATTTTTAT
1 TTTTATTTTATTTATTACTGTTAT
27357939 TTTTATTTT-TATTATTACTGTTAT
1 TTTTATTTTAT-TTATTACTGTTAT
27357963 T
1 T
27357964 ACTAGTGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTATTTTATTTATTACTGTTAT
Found at i:27362112 original size:15 final size:16
Alignment explanation
Indices: 27362087--27362117 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
27362077 TCTGAGTGGT
27362087 TCACTTGTTTTGAGCA
1 TCACTTGTTTTGAGCA
27362103 TCAC-TGTTTTGAGCA
1 TCACTTGTTTTGAGCA
27362118 GTTCGACAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (16 bp):
TCACTTGTTTTGAGCA
Found at i:27369610 original size:15 final size:16
Alignment explanation
Indices: 27369576--27369611 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
27369566 AATTAAGGTC
27369576 ATTTTGAGTTCAAGTT
1 ATTTTGAGTTCAAGTT
*
27369592 ATTTTGAGTTGAA-TT
1 ATTTTGAGTTCAAGTT
27369607 ATTTT
1 ATTTT
27369612 AAATTTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.25, C:0.03, G:0.17, T:0.56
Consensus pattern (16 bp):
ATTTTGAGTTCAAGTT
Found at i:27369870 original size:15 final size:15
Alignment explanation
Indices: 27369847--27369877 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27369837 AAACAAAATA
27369847 ATTAGATTAGATTAT
1 ATTAGATTAGATTAT
*
27369862 ATTATATTAGATTAT
1 ATTAGATTAGATTAT
27369877 A
1 A
27369878 AATTTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (15 bp):
ATTAGATTAGATTAT
Done.