Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 238 of 290
Found at i:77613777 original size:50 final size:50
Alignment explanation
Indices: 77613653--77613901 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
77613643 GATAATAACA
* * ** * *
77613653 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
77613704 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
77613754 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
77613804 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
77613859 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
77613902 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:77613831 original size:100 final size:104
Alignment explanation
Indices: 77613652--77613901 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
77613642 TGATAATAAC
**
77613652 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
77613717 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
77613754 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
77613817 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
77613859 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
77613902 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:77614017 original size:13 final size:13
Alignment explanation
Indices: 77613996--77614027 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
77613986 GCTTGGATCA
*
77613996 TCATCAAATAAAT
1 TCATAAAATAAAT
77614009 TCATAAAATAAAT
1 TCATAAAATAAAT
77614022 TCATAA
1 TCATAA
77614028 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:77614274 original size:30 final size:30
Alignment explanation
Indices: 77614239--77614296 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
77614229 CCTCGACTCT
*
77614239 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
77614269 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
77614297 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:77615860 original size:18 final size:18
Alignment explanation
Indices: 77615837--77615871 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
77615827 CAAGGCGAGA
* *
77615837 AATTTTTTTTTGAAAATC
1 AATTTTCTTTTAAAAATC
77615855 AATTTTCTTTTAAAAAT
1 AATTTTCTTTTAAAAAT
77615872 TAAATAAATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (18 bp):
AATTTTCTTTTAAAAATC
Found at i:77616076 original size:160 final size:162
Alignment explanation
Indices: 77615867--77616159 Score: 379
Period size: 160 Copynumber: 1.8 Consensus size: 162
77615857 TTTTCTTTTA
* *
77615867 AAAATTAAATAAATCTGTTTCGGGATTATTCCTGCCGTTCAACAAATTTTTTTCC-TCTA-TTTT
1 AAAAGTAAATAAATCTGTTTCGGGATTATTCCTGCCGTTCAACAAATTTTATTCCAT-TATTTTT
* * *
77615930 TGTTTTATTTCC-AAAT-GAATATTAAAACT-AATAAAATCTGTTTCAGGATT-TTTCCTG-CTG
65 TATTTTATTTCCTAAATGGAA-ATTAAAACTAAATAAAATCCGTTTCAGGATTGATTCCTGTC-G
77615990 TTTAACAGGTTTTATTCGATTTTGTTCCCAAAGTT
128 TTTAACAGGTTTTATTCGATTTTGTTCCCAAAGTT
77616025 AAAAGTAAATGAAATCCTGTTT-GGGATTTATT-CTCGCCGTTCAACAAATTTTATTCCATTATT
1 AAAAGTAAAT-AAAT-CTGTTTCGGGA-TTATTCCT-GCCGTTCAACAAATTTTATTCCATTATT
* ** *
77616088 TTTTATTTTATTTCCTAACTGGAAATTAAAGGTAAATAAAATCCGTTTCGGGATTGATTCCTGTC
62 TTTTATTTTATTTCCTAAATGGAAATTAAAACTAAATAAAATCCGTTTCAGGATTGATTCCTGTC
77616153 GTTTAAC
127 GTTTAAC
77616160 GAATTTATTT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
158 9 0.08
159 10 0.09
160 34 0.30
161 16 0.14
162 10 0.09
163 22 0.19
164 13 0.11
165 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (162 bp):
AAAAGTAAATAAATCTGTTTCGGGATTATTCCTGCCGTTCAACAAATTTTATTCCATTATTTTTT
ATTTTATTTCCTAAATGGAAATTAAAACTAAATAAAATCCGTTTCAGGATTGATTCCTGTCGTTT
AACAGGTTTTATTCGATTTTGTTCCCAAAGTT
Found at i:77616477 original size:83 final size:83
Alignment explanation
Indices: 77616281--77616479 Score: 319
Period size: 84 Copynumber: 2.4 Consensus size: 83
77616271 ATGAGAAATT
77616281 AAATTAAATAAAATCTGTTTCCGGATTTATTCCAACCGATTAACAAAATTTTATTTGATTTTATT
1 AAATTAAATAAAATCTGTTT-CGGATTTATTCCAACCGATTAACAAAATTTTATTTGATTTTATT
*
77616346 TTGTTTTCAAATTAGAATA
65 TTGTTTCCAAATTAGAATA
* *
77616365 AAATTAAATAAAATCTGTTTCGGGATTTATTCCCACCGTTTAACAAAATTTTATTTGATTTTATT
1 AAATTAAATAAAATCTGTTTC-GGATTTATTCCAACCGATTAACAAAATTTTATTTGATTTTATT
77616430 TT-TTTCCAAATTAGAATA
65 TTGTTTCCAAATTAGAATA
* *
77616448 GAATTAAATAAAATATGTTTCGAGATTTATTC
1 AAATTAAATAAAATCTGTTTCG-GATTTATTC
77616480 TCGTCATTTA
Statistics
Matches: 108, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
82 1 0.01
83 44 0.41
84 63 0.58
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.44
Consensus pattern (83 bp):
AAATTAAATAAAATCTGTTTCGGATTTATTCCAACCGATTAACAAAATTTTATTTGATTTTATTT
TGTTTCCAAATTAGAATA
Found at i:77616499 original size:83 final size:84
Alignment explanation
Indices: 77616281--77616519 Score: 304
Period size: 83 Copynumber: 2.9 Consensus size: 84
77616271 ATGAGAAATT
* *
77616281 AAATTAAATAAAATCTGTTTCCG-GATTTATTCCAACCGA-TTAACAAAATTTTATTTGATTTTA
1 AAATTAAATAAAATATGTTT-CGAGATTTATTCCCACC-ATTTAACAAAATTTTATTTGATTTTA
*
77616344 TTTTGTTTTCAAATTAGAATA
64 TTTTGTTTCCAAATTAGAATA
* * *
77616365 AAATTAAATAAAATCTGTTTCGGGATTTATTCCCACCGTTTAACAAAATTTTATTTGATTTTATT
1 AAATTAAATAAAATATGTTTCGAGATTTATTCCCACCATTTAACAAAATTTTATTTGATTTTATT
77616430 TT-TTTCCAAATTAGAATA
66 TTGTTTCCAAATTAGAATA
* * ** * * * * *
77616448 GAATTAAATAAAATATGTTTCGAGATTTATTCTCGTCATTTATCAAGATTTTATTCGATATTGTT
1 AAATTAAATAAAATATGTTTCGAGATTTATTCCCACCATTTAACAAAATTTTATTTGATTTTATT
77616513 TTGTTTC
66 TTGTTTC
77616520 TAAACCAAGA
Statistics
Matches: 137, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
83 72 0.53
84 65 0.47
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.46
Consensus pattern (84 bp):
AAATTAAATAAAATATGTTTCGAGATTTATTCCCACCATTTAACAAAATTTTATTTGATTTTATT
TTGTTTCCAAATTAGAATA
Found at i:77618597 original size:493 final size:493
Alignment explanation
Indices: 77617630--77618615 Score: 1785
Period size: 493 Copynumber: 2.0 Consensus size: 493
77617620 TATTAAATGA
77617630 TTTATATGTTTAATTATAAAGGTTAAATTTGTAATTCATAAAATAAACATGAATTAAGTAAAAAT
1 TTTATATGTTTAATTATAAAGGTTAAATTTGTAATTCATAAAATAAACATGAATTAAGTAAAAAT
* *
77617695 AAACCAAAATTTTCCTCCATTTTCATCTTCTACCACCGAAAATAAGAAAGAAAAAAGAAAAGCAT
66 AAACCAAAATTTTCCTCCACTTTCATCTTCTACCACCGAAAATAAGAAAGAAAAAAGAAAAACAT
* *
77617760 CCATGGGAGGTTTTTAGGGTTCGGCCACTTTATGATTTAATTGTAAGTCCGTTTTTGTCCCCTTT
131 CCATGGGAGGTTTTTAGGGTTCGACCACTTTATGATCTAATTGTAAGTCCGTTTTTGTCCCCTTT
*
77617825 TTAATGATTTCTATGTTTTTGTGATCATTGCAACTAGTACTAGCTAGCCCAGGGACTATTTTGCA
196 TTAATGATTTCTATATTTTTGTGATCATTGCAACTAGTACTAGCTAGCCCAGGGACTATTTTGCA
* *
77617890 AAACTTTTTAAAGATTTTTAATGATGCCATTGATGAATATGTATGAGTTTTGAAGTTTCTTGATA
261 AAACTTGTTAAAGATTTTGAATGATGCCATTGATGAATATGTATGAGTTTTGAAGTTTCTTGATA
* * *
77617955 GATTTTGATTGCTTGTTGATAGATATACAAGTTTGGTTTAGTGATTTTTAGTGAAAATGCAAAAT
326 GATTTTGATTGCTTGTTGATAGATATACAAGTTTGGTTAAGTGATTTTTAATGAAAATACAAAAT
* *
77618020 AGGGATTAAATTGAGAAATGTTAAAACTTTGTGGTTAAAATGTGAAATAAATGAAAAATATGGGT
391 AGGGATTAAATTGAGAAATGTTAAAACTTTGTGGTTAAAATGTGAAATAAATGAAAAAAATGGGC
* *
77618085 TACTAGAGGTATTTGGTAATTCGGCTAAGCATGGGTGT
456 TACTAGAGGTATATGGTAATTCGACTAAGCATGGGTGT
77618123 TTTATATGTTTAATTATAAAGGTTAAATTTGTAATTCATAAAATAAACATGAATTAAGTAAAAAT
1 TTTATATGTTTAATTATAAAGGTTAAATTTGTAATTCATAAAATAAACATGAATTAAGTAAAAAT
77618188 AAACCAAAATTTTCCTCCACTTTCATCTTCTACCACCGAAAATAAGAAAGAAAAAAGAAAAACAT
66 AAACCAAAATTTTCCTCCACTTTCATCTTCTACCACCGAAAATAAGAAAGAAAAAAGAAAAACAT
77618253 CCATGGGAGGTTTTTAGGGTTCGACCACTTTATGATCTAATTGTAAGTCCGTTTTTGTCCCCTTT
131 CCATGGGAGGTTTTTAGGGTTCGACCACTTTATGATCTAATTGTAAGTCCGTTTTTGTCCCCTTT
* *
77618318 TTAATGATTTCTATATTTTTGTGATCATTGCAACTAGTACTAGCTAGCCCAGTGACTGTTTTGCA
196 TTAATGATTTCTATATTTTTGTGATCATTGCAACTAGTACTAGCTAGCCCAGGGACTATTTTGCA
77618383 AAAC-TGTTAAAGATTTTGAATGATGCCATTGATGAATATGTATGAGTTTTGAAGTTTCTTGATA
261 AAACTTGTTAAAGATTTTGAATGATGCCATTGATGAATATGTATGAGTTTTGAAGTTTCTTGATA
* *
77618447 GATTTTTATTGCTTGTTGTTAGATATACAAGTTTGGTTAAGTGATTTTTAATGAAAATACAAAAT
326 GATTTTGATTGCTTGTTGATAGATATACAAGTTTGGTTAAGTGATTTTTAATGAAAATACAAAAT
*
77618512 AGGGATTAAATTGAGAAATGTTGAAACTTTGTGGTTAAAATGTGAAATAAATGAAAAAAATGGGC
391 AGGGATTAAATTGAGAAATGTTAAAACTTTGTGGTTAAAATGTGAAATAAATGAAAAAAATGGGC
77618577 TACTAGAGGTATAATGGTAATTCGACTAAGCATGGGTGT
456 TACTAGAGGTAT-ATGGTAATTCGACTAAGCATGGGTGT
77618616 CTAGCATGGG
Statistics
Matches: 473, Mismatches: 19, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
492 192 0.41
493 281 0.59
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (493 bp):
TTTATATGTTTAATTATAAAGGTTAAATTTGTAATTCATAAAATAAACATGAATTAAGTAAAAAT
AAACCAAAATTTTCCTCCACTTTCATCTTCTACCACCGAAAATAAGAAAGAAAAAAGAAAAACAT
CCATGGGAGGTTTTTAGGGTTCGACCACTTTATGATCTAATTGTAAGTCCGTTTTTGTCCCCTTT
TTAATGATTTCTATATTTTTGTGATCATTGCAACTAGTACTAGCTAGCCCAGGGACTATTTTGCA
AAACTTGTTAAAGATTTTGAATGATGCCATTGATGAATATGTATGAGTTTTGAAGTTTCTTGATA
GATTTTGATTGCTTGTTGATAGATATACAAGTTTGGTTAAGTGATTTTTAATGAAAATACAAAAT
AGGGATTAAATTGAGAAATGTTAAAACTTTGTGGTTAAAATGTGAAATAAATGAAAAAAATGGGC
TACTAGAGGTATATGGTAATTCGACTAAGCATGGGTGT
Found at i:77618623 original size:13 final size:13
Alignment explanation
Indices: 77618605--77618630 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77618595 AATTCGACTA
77618605 AGCATGGGTGTCT
1 AGCATGGGTGTCT
77618618 AGCATGGGTGTCT
1 AGCATGGGTGTCT
77618631 TGAAATTTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.38, T:0.31
Consensus pattern (13 bp):
AGCATGGGTGTCT
Found at i:77619412 original size:67 final size:68
Alignment explanation
Indices: 77619286--77619414 Score: 242
Period size: 67 Copynumber: 1.9 Consensus size: 68
77619276 TGTGTATGAG
*
77619286 ATTGGTACGAGATGGTACAGGTATGTGCATAAACCATATTAGCTCTGAATCGAAGAAATGGTGAG
1 ATTGGTACGAGATGGTACAGGTATGTGCATAAACCATATGAGCTCTGAATCGAAGAAATGGTGAG
77619351 TGT
66 TGT
77619354 ATTGGTACGAGATGGTACAGGTATGTGCA-AAACCATATGAGCTCTGAATCGAAGAAATGGT
1 ATTGGTACGAGATGGTACAGGTATGTGCATAAACCATATGAGCTCTGAATCGAAGAAATGGT
77619415 AAAGAAAGTA
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
67 31 0.52
68 29 0.48
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.26
Consensus pattern (68 bp):
ATTGGTACGAGATGGTACAGGTATGTGCATAAACCATATGAGCTCTGAATCGAAGAAATGGTGAG
TGT
Found at i:77623421 original size:30 final size:30
Alignment explanation
Indices: 77623387--77623484 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 30
77623377 GACCTGAATG
77623387 CATGTTTGACTGTTACTATTTACTGCATGC
1 CATGTTTGACTGTTACTATTTACTGCATGC
* * *
77623417 CATG-TT-ATTATTATCTGATAAGGTTGACCTGAATG-
1 CATGTTTGACTGTTA-CT-AT----TT-A-CTGCATGC
77623452 CATGTTTGACTGTTACTATTTACTGCATGC
1 CATGTTTGACTGTTACTATTTACTGCATGC
77623482 CAT
1 CAT
77623485 ATTATTATTA
Statistics
Matches: 51, Mismatches: 6, Indels: 22
0.65 0.08 0.28
Matches are distributed among these distances:
28 5 0.10
29 10 0.20
30 10 0.20
31 2 0.04
34 2 0.04
35 7 0.14
36 10 0.20
37 5 0.10
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.42
Consensus pattern (30 bp):
CATGTTTGACTGTTACTATTTACTGCATGC
Found at i:77623474 original size:65 final size:65
Alignment explanation
Indices: 77623370--77623500 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
77623360 CCCCTAGGGT
*
77623370 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATATTATTATTATCTGA
77623435 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATATTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATATTATTATTATCTGA
77623500 T
1 T
77623501 GCATGGGACT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (65 bp):
TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATATTATTATTATCTGA
Found at i:77626864 original size:13 final size:13
Alignment explanation
Indices: 77626846--77626870 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77626836 TTTTATATGG
77626846 TTTTATTTGATTT
1 TTTTATTTGATTT
77626859 TTTTATTTGATT
1 TTTTATTTGATT
77626871 ATAAATCATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (13 bp):
TTTTATTTGATTT
Found at i:77638650 original size:20 final size:20
Alignment explanation
Indices: 77638625--77638662 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
77638615 TATAATAAAT
77638625 TTTAG-ATTTAGTTAGTTATA
1 TTTAGAATTTA-TTAGTTATA
77638645 TTTAGAATTTATTAGTTA
1 TTTAGAATTTATTAGTTA
77638663 GTCCTAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (20 bp):
TTTAGAATTTATTAGTTATA
Found at i:77642783 original size:16 final size:16
Alignment explanation
Indices: 77642762--77642806 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
77642752 CGACAACTTG
*
77642762 GCTCAATGAAAAGCTA
1 GCTCAAGGAAAAGCTA
*
77642778 GCTCAAGGAAAATCTA
1 GCTCAAGGAAAAGCTA
77642794 GCTCAAGGAAAAG
1 GCTCAAGGAAAAG
77642807 GTAGATTGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (16 bp):
GCTCAAGGAAAAGCTA
Found at i:77644817 original size:26 final size:26
Alignment explanation
Indices: 77644788--77644895 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
77644778 TGGTACAAAT
77644788 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
77644814 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
77644840 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
77644866 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
77644892 TGAT
1 TGAT
77644896 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:77647091 original size:38 final size:39
Alignment explanation
Indices: 77647039--77647122 Score: 145
Period size: 38 Copynumber: 2.2 Consensus size: 39
77647029 AGGTTTGGGT
*
77647039 TTTTAA-ATGTAATAAGGCCGCTTAATTATTTTTGATGG
1 TTTTAATATGTAATAAGGCCGCTTAACTATTTTTGATGG
77647077 TTTTAATATG-AATAAGGCCGCTTAACTATTTTTGATGG
1 TTTTAATATGTAATAAGGCCGCTTAACTATTTTTGATGG
77647115 TTTTAATA
1 TTTTAATA
77647123 GGTATTACTA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
38 41 0.93
39 3 0.07
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (39 bp):
TTTTAATATGTAATAAGGCCGCTTAACTATTTTTGATGG
Found at i:77651956 original size:26 final size:26
Alignment explanation
Indices: 77651927--77652034 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
77651917 TGGTACAAAT
77651927 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
77651953 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
77651979 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
77652005 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
77652031 TGAT
1 TGAT
77652035 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:77654795 original size:26 final size:26
Alignment explanation
Indices: 77654730--77654803 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
77654720 TTGCGAAATC
*
77654730 TCTAAAGCTAGTGTTAGCAA---TAT
1 TCTAAAGCTAGTGTTAGCAACCCTAA
* *
77654753 TGTACTAAGCTAATGTTAGCAACCCTAA
1 TCTA--AAGCTAGTGTTAGCAACCCTAA
77654781 TCTAAAGCTAGTGTTAGCAACCC
1 TCTAAAGCTAGTGTTAGCAACCC
77654804 GAATAAGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
23 3 0.07
25 15 0.37
26 18 0.44
28 5 0.12
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (26 bp):
TCTAAAGCTAGTGTTAGCAACCCTAA
Found at i:77658183 original size:30 final size:30
Alignment explanation
Indices: 77658149--77658211 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
77658139 GCTTAACAAG
*
77658149 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAAAAAAATTAA
** *
77658179 CAAATGTCTTTAAAATAATAAAAAAATTAA
1 CAAATACCTCTAAAATAATAAAAAAATTAA
77658209 CAA
1 CAA
77658212 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.60, C:0.13, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAAAAAAATTAA
Found at i:77658262 original size:14 final size:14
Alignment explanation
Indices: 77658245--77658271 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
77658235 CAAACAATAA
77658245 CAACATAATAGTAG
1 CAACATAATAGTAG
77658259 CAACATAATAGTA
1 CAACATAATAGTA
77658272 AAATGGTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.15, G:0.11, T:0.22
Consensus pattern (14 bp):
CAACATAATAGTAG
Found at i:77660007 original size:57 final size:55
Alignment explanation
Indices: 77659924--77660053 Score: 167
Period size: 57 Copynumber: 2.3 Consensus size: 55
77659914 ATATAAAATA
* * *
77659924 ATATATATTATTATATA-CATCTTTATAAATTTTATTATATG-T-TATATTTTTAAT
1 ATATATATTATTATTTATTATGTTTAT--ATTTTATTATATGTTATATATTTTTAAT
*
77659978 ATATATATTATTTATTCTATTATGTTTATATTTTATTATATGTTATATATTTTTACT
1 ATATATATTA-TTATT-TATTATGTTTATATTTTATTATATGTTATATATTTTTAAT
77660035 ATATATATTATTATTTATT
1 ATATATATTATTATTTATT
77660054 TTACCATATT
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
54 10 0.15
55 21 0.31
56 8 0.12
57 28 0.42
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (55 bp):
ATATATATTATTATTTATTATGTTTATATTTTATTATATGTTATATATTTTTAAT
Found at i:77660014 original size:21 final size:19
Alignment explanation
Indices: 77659946--77660030 Score: 88
Period size: 19 Copynumber: 4.6 Consensus size: 19
77659936 ATATACATCT
*
77659946 TTATAAATTTTATTATATG
1 TTATATATTTTATTATATG
*
77659965 TTATAT-TTTTAATATATATA
1 TTATATATTTT-AT-TATATG
* *
77659985 TTATTTATTCTA-T-TATG
1 TTATATATTTTATTATATG
77660002 TT-TATATTTTATTATATG
1 TTATATATTTTATTATATG
77660020 TTATATATTTT
1 TTATATATTTT
77660031 TACTATATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
16 7 0.13
17 6 0.11
18 11 0.21
19 15 0.28
20 11 0.21
21 3 0.06
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.64
Consensus pattern (19 bp):
TTATATATTTTATTATATG
Found at i:77660084 original size:60 final size:57
Alignment explanation
Indices: 77659966--77660093 Score: 139
Period size: 60 Copynumber: 2.2 Consensus size: 57
77659956 TATTATATGT
** * * * * *
77659966 TATATTTTTAATATATATATTATTTATTCTATTATGTTTATATTTTATTATATGTTA
1 TATATTTTTAATATATATATTATTTATTCTACCATATTTATATGTAAATATATATTA
* *
77660023 TATATTTTTACTATATATATTATTATTTATTTTACCATATTTATATGTAAATATTTATTA
1 TATATTTTTA--ATATATA-TATTATTTATTCTACCATATTTATATGTAAATATATATTA
77660083 TATCATTTTTA
1 TAT-ATTTTTA
77660094 TTATTTTATA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
57 10 0.17
59 7 0.12
60 34 0.59
61 7 0.12
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (57 bp):
TATATTTTTAATATATATATTATTTATTCTACCATATTTATATGTAAATATATATTA
Found at i:77660097 original size:17 final size:16
Alignment explanation
Indices: 77660077--77660140 Score: 58
Period size: 17 Copynumber: 3.9 Consensus size: 16
77660067 ATGTAAATAT
77660077 TTATTATATCATTTTTA
1 TTATTATAT-ATTTTTA
* *
77660094 TTATTTTATA-CTTTA
1 TTATTATATATTTTTA
*
77660109 TCTATTATCTATTTTATA
1 T-TATTATATATTTT-TA
*
77660127 TCATTATATATTTT
1 TTATTATATATTTT
77660141 GTTTATAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
15 5 0.14
16 8 0.22
17 21 0.57
18 3 0.08
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTATATATTTTTA
Found at i:77661514 original size:31 final size:31
Alignment explanation
Indices: 77661476--77661539 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
77661466 CCTTTTCTTA
77661476 TTTCATATTTCATATCACTGGGCCGAAGCCT
1 TTTCATATTTCATATCACTGGGCCGAAGCCT
*
77661507 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATCACTGGGCCGAAGCCT
77661538 TT
1 TT
77661540 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATCACTGGGCCGAAGCCT
Found at i:77661782 original size:23 final size:24
Alignment explanation
Indices: 77661747--77661803 Score: 98
Period size: 23 Copynumber: 2.4 Consensus size: 24
77661737 CTGGAGGTCT
77661747 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
77661771 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
77661795 AGCCCTTTT
1 AGCCCTTTT
77661804 TCACTTCCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 18 0.56
24 14 0.44
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:77661878 original size:20 final size:20
Alignment explanation
Indices: 77661853--77661919 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
77661843 TTATGATTAC
77661853 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
77661873 ATCATGTTCATATCATACAT
1 ATCATGTGCATATCATACAT
*
77661893 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
77661913 ACCATGT
1 ATCATGT
77661920 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:77662002 original size:25 final size:25
Alignment explanation
Indices: 77661956--77662003 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
77661946 ATACATAAAC
* * * *
77661956 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
77661981 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
77662004 CATGTTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:77670056 original size:34 final size:34
Alignment explanation
Indices: 77670018--77670096 Score: 85
Period size: 34 Copynumber: 2.3 Consensus size: 34
77670008 TGAAAACACC
77670018 TATTAATAATAT-TACAT-AAACATATACCT-ATAT
1 TATTAATAATATATA-ATAAAACATATA-CTAATAT
77670051 GTATTAA-AGATATATAATAAAACATATACTAATAT
1 -TATTAATA-ATATATAATAAAACATATACTAATAT
*
77670086 TAATAATAATA
1 TATTAATAATA
77670097 AGAAATATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
33 1 0.03
34 22 0.56
35 16 0.41
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.37
Consensus pattern (34 bp):
TATTAATAATATATAATAAAACATATACTAATAT
Found at i:77670328 original size:15 final size:15
Alignment explanation
Indices: 77670305--77670365 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
77670295 GATTTTTAAA
* *
77670305 AATAATAATACTAAT
1 AATAGTAATAGTAAT
77670320 AATAGTAATAGTAA-
1 AATAGTAATAGTAAT
*
77670334 AATACTAATA--AAT
1 AATAGTAATAGTAAT
77670347 AATAG-ATATAGTAAT
1 AATAGTA-ATAGTAAT
77670362 AATA
1 AATA
77670366 AGAACGTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
12 3 0.08
13 7 0.18
14 9 0.24
15 19 0.50
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (15 bp):
AATAGTAATAGTAAT
Found at i:77670540 original size:29 final size:30
Alignment explanation
Indices: 77670495--77670565 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 30
77670485 ATACTATGTA
*
77670495 CAAAAATATATACATA-AT---ATGGTATT
1 CAAAAATATATACATATATAACATAGTATT
77670521 -AAAAATATATACATATATAACATAGTATT
1 CAAAAATATATACATATATAACATAGTATT
* *
77670550 CAAGAATGTATACATA
1 CAAAAATATATACATA
77670566 AGATGATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 15 0.41
26 2 0.05
29 7 0.19
30 13 0.35
ACGTcount: A:0.52, C:0.08, G:0.07, T:0.32
Consensus pattern (30 bp):
CAAAAATATATACATATATAACATAGTATT
Found at i:77671037 original size:3 final size:3
Alignment explanation
Indices: 77671031--77671120 Score: 51
Period size: 3 Copynumber: 30.0 Consensus size: 3
77671021 AATAGTAGCT
* * *
77671031 ATA ATA ATA AT- ATA TTA ATA ATGA ATA ATA A-A AGGA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA A-TA ATA ATA ATA
* * * * * *
77671076 ATA GTA ATA ATA AGA ATG ATA ATC ATG AGA ATA AT- ATAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
77671121 TTTAAAATGA
Statistics
Matches: 65, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
2 6 0.09
3 52 0.80
4 7 0.11
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:77674047 original size:44 final size:44
Alignment explanation
Indices: 77673941--77674040 Score: 166
Period size: 44 Copynumber: 2.3 Consensus size: 44
77673931 GATCTAAGAT
77673941 GATTTGGCATCTCTGTATTGTCAGAGAGCGAATAGAAGATAGCA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCGAATAGAAGATAGCA
* *
77673985 GATTTGGCATCTCTGTATTGTCAGAGAGC-AGATCGAAGATAGTA
1 GATTTGGCATCTCTGTATTGTCAGAGAGCGA-ATAGAAGATAGCA
77674029 GATTTGGCATCT
1 GATTTGGCATCT
77674041 TCGTATTTTG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
43 1 0.02
44 52 0.98
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGTCAGAGAGCGAATAGAAGATAGCA
Found at i:77674137 original size:44 final size:43
Alignment explanation
Indices: 77673936--77674151 Score: 152
Period size: 44 Copynumber: 4.9 Consensus size: 43
77673926 AAGCAGATCT
* * * *
77673936 AAGATGATTTGGCATCTCTGTATTGTCAGAGAGCGAATA-GAAG
1 AAGATGATTTGGCATCTCTGTATTGACGGAGAGC-AAAACCAAG
* * * * *
77673979 ATAGCA-GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAG
1 A-AG-ATGATTTGGCATCTCTGTATTGACGGAGAGCAAAACCAAG
* *
77674023 ATAG-TAGATTTGGCATCT-TCGTATTTTGACGAAGAGCAAATCCAAG
1 A-AGAT-GATTTGGCATCTCT-GTA--TTGACGGAGAGCAAAACCAAG
* * * * *
77674069 ATGACAGATTTGGTATCTCCGTATTCGACGGGGAGCAAAACCAAG
1 AAGA-TGATTTGGCATCTCTGTATT-GACGGAGAGCAAAACCAAG
*
77674114 AAGATGATTTGGCATCTCTGTATTTGACGGGGAGCAAA
1 AAGATGATTTGGCATCTCTGTA-TTGACGGAGAGCAAA
77674152 TCGAAGACAT
Statistics
Matches: 141, Mismatches: 19, Indels: 25
0.76 0.10 0.14
Matches are distributed among these distances:
43 3 0.02
44 84 0.60
45 23 0.16
46 31 0.22
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.27
Consensus pattern (43 bp):
AAGATGATTTGGCATCTCTGTATTGACGGAGAGCAAAACCAAG
Found at i:77674283 original size:80 final size:79
Alignment explanation
Indices: 77674114--77674317 Score: 266
Period size: 80 Copynumber: 2.6 Consensus size: 79
77674104 CAAAACCAAG
* *
77674114 AAGATGATTT-GGCATCTCTGTATTTGACGGGGAGCAAATCGAAGACATAGCAGATCTGACCTTT
1 AAGATGATTTGGGCATCTCTGTATTCGACGGGGAGCAAATCGAAGACATAGCAGATCTGACCTTC
* **
77674178 GTTGAGGCAGATCC
66 ATCAAGGCAGATCC
* * * *
77674192 AAGATGATTTGGGCATCTTTGTAATGGACGGAGAGCAAATCGAAGACATTAGCAGATCTGACCTT
1 AAGATGATTTGGGCATCTCTGTATTCGACGGGGAGCAAATCGAAGACA-TAGCAGATCTGACCTT
* *
77674257 CATCAAGGCTGATTC
65 CATCAAGGCAGATCC
* * *
77674272 AAGATGATTTGGGCGTCTCTGTATTCAACGGGGAGCAGATCGAAGA
1 AAGATGATTTGGGCATCTCTGTATTCGACGGGGAGCAAATCGAAGA
77674318 ACTCAAGACT
Statistics
Matches: 107, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
78 10 0.09
79 33 0.31
80 64 0.60
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.26
Consensus pattern (79 bp):
AAGATGATTTGGGCATCTCTGTATTCGACGGGGAGCAAATCGAAGACATAGCAGATCTGACCTTC
ATCAAGGCAGATCC
Found at i:77675869 original size:21 final size:19
Alignment explanation
Indices: 77675803--77675885 Score: 93
Period size: 18 Copynumber: 4.6 Consensus size: 19
77675793 ATATACATCT
*
77675803 TTATAAATTTTATTATATG
1 TTATATATTTTATTATATG
* *
77675822 TTATAT-TTTTAATATATA
1 TTATATATTTTATTATATG
* *
77675840 TTATTTATTCTA-T-TATG
1 TTATATATTTTATTATATG
77675857 TT-TATATTTTATTATATG
1 TTATATATTTTATTATATG
77675875 TTATATATTTT
1 TTATATATTTT
77675886 TACTATATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
16 7 0.13
17 6 0.12
18 22 0.42
19 17 0.33
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (19 bp):
TTATATATTTTATTATATG
Found at i:77675921 original size:53 final size:53
Alignment explanation
Indices: 77675809--77675921 Score: 135
Period size: 53 Copynumber: 2.1 Consensus size: 53
77675799 ATCTTTATAA
* *
77675809 ATTTTATTATATGTTATATTTTTAATATATATTATTTATTCTATTATGTTTAT
1 ATTTTATTATATGTTATATTTTTAATATATATTATTTATTATATTATGTTTAC
*
77675862 ATTTTATTATATGTTATATATTTTTACTATATA-TA-TTATTAT-TTAT-TTTACC
1 ATTTTATTATATG-T-TATATTTTTAATATATATTATTTATTATATTATGTTTA-C
77675914 ATATTTAT
1 AT-TTTAT
77675922 ATGTAAAATA
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
51 4 0.08
52 6 0.11
53 24 0.45
54 3 0.06
55 16 0.30
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.63
Consensus pattern (53 bp):
ATTTTATTATATGTTATATTTTTAATATATATTATTTATTATATTATGTTTAC
Found at i:77675921 original size:60 final size:53
Alignment explanation
Indices: 77675809--77675923 Score: 131
Period size: 60 Copynumber: 2.0 Consensus size: 53
77675799 ATCTTTATAA
** *
77675809 ATTTTATTATATGTTATATTTTTAATATATATTATTTATTCTATTATGTTTAT
1 ATTTTATTATATGTTATATTTTTAATATATATTATTTATTCTACCATATTTAT
*
77675862 ATTTTATTATATGTTATATATTTTTACTATATATATTATTATTTATTTTACCATATTTAT
1 ATTTTATTATATG-T-TATA-TTTT--TA-ATATA-TATTATTTATTCTACCATATTTAT
77675922 AT
1 AT
77675924 GTAAAATATT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
53 13 0.25
54 1 0.02
55 4 0.08
56 4 0.08
58 2 0.04
59 5 0.10
60 22 0.43
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (53 bp):
ATTTTATTATATGTTATATTTTTAATATATATTATTTATTCTACCATATTTAT
Found at i:77676016 original size:41 final size:41
Alignment explanation
Indices: 77675936--77676027 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
77675926 AAAATATTTA
** *
77675936 TTATATCATTTTTATTATTTTATACTTTATCTATTATATGT
1 TTATATCATTTTTATTATTTTATAAATTATCTATCATATGT
*
77675977 TTATATCATTATTTATTTTGTTTATAAATT-T-TATCATATG-
1 TTATATCATT-TTTATTAT-TTTATAAATTATCTATCATATGT
77676017 TTATAT-ATTTT
1 TTATATCATTTT
77676028 ACTATACATT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
38 2 0.04
39 3 0.07
40 6 0.13
41 18 0.40
42 8 0.18
43 8 0.18
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.63
Consensus pattern (41 bp):
TTATATCATTTTTATTATTTTATAAATTATCTATCATATGT
Found at i:77677531 original size:26 final size:25
Alignment explanation
Indices: 77677502--77677557 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
77677492 TGTAACTCCT
* *
77677502 TTTTTTATACTAAAATATTATTTTTG
1 TTTTTTA-AATAAAATATTATTTTTA
*
77677528 TTTTTTAAATAAAATATTGTTTTTA
1 TTTTTTAAATAAAATATTATTTTTA
77677553 TTTTT
1 TTTTT
77677558 ATTAAAAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 20 0.74
26 7 0.26
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (25 bp):
TTTTTTAAATAAAATATTATTTTTA
Found at i:77678172 original size:60 final size:60
Alignment explanation
Indices: 77678067--77678181 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 60
77678057 TTGTTTTTTA
* * *
77678067 TAATTATTTTAAAATTAATTTTTTAGTAACTTAAGATTATATTATATATTTTTGTATTTG
1 TAATTATTTTAAAATTAATTTATTAGTAACTTAAGATTATATTATAAATTGTTGTATTTG
* *
77678127 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTA-AGTTATAAATTGTTGT
1 TAATTATTTTAAAATTAATTTATTAGTAACTTAAGATTATA-TTATAAATTGTTGT
77678182 GTTTAGTTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
59 1 0.02
60 48 0.98
ACGTcount: A:0.37, C:0.01, G:0.09, T:0.54
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAACTTAAGATTATATTATAAATTGTTGTATTTG
Found at i:77681008 original size:78 final size:79
Alignment explanation
Indices: 77680892--77681038 Score: 215
Period size: 78 Copynumber: 1.9 Consensus size: 79
77680882 AATAACTTCA
* * **
77680892 TATTTATGTAATGAATTTTTTGACATTTTATTTATCAATTTTATTTG-TTTTTTTTTACAATTTA
1 TATTAATGTAACGAATTTTTTGACATTTTATTTATCAATTTTATGGGTTTTTTTTTTACAATTTA
77680956 AATAGTCAACTTTG
66 AATAGTCAACTTTG
* * * *
77680970 TATTAATGTAACGACTTTTTTGCCATTTTATTTTTCAATTTTATGGGTTTTTTTTTTGCAATTTA
1 TATTAATGTAACGAATTTTTTGACATTTTATTTATCAATTTTATGGGTTTTTTTTTTACAATTTA
77681035 AATA
66 AATA
77681039 AATAAACTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
78 40 0.67
79 20 0.33
ACGTcount: A:0.27, C:0.07, G:0.09, T:0.57
Consensus pattern (79 bp):
TATTAATGTAACGAATTTTTTGACATTTTATTTATCAATTTTATGGGTTTTTTTTTTACAATTTA
AATAGTCAACTTTG
Found at i:77684236 original size:27 final size:27
Alignment explanation
Indices: 77684206--77684275 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
77684196 ATTGCGTTTG
* * *
77684206 TCAGATAGGCTCAACTAGTCGCGCCTA
1 TCAGATAGACACAACCAGTCGCGCCTA
*
77684233 TCAGATAGACACAACCATTCGCGCCTA
1 TCAGATAGACACAACCAGTCGCGCCTA
* *
77684260 CCAGATAGACGCAACC
1 TCAGATAGACACAACC
77684276 TATATACCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (27 bp):
TCAGATAGACACAACCAGTCGCGCCTA
Found at i:77684482 original size:16 final size:16
Alignment explanation
Indices: 77684458--77684493 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
77684448 ATTTCAGTAT
*
77684458 ATAATTTGATAGACTA
1 ATAAGTTGATAGACTA
77684474 ATAAGTTGATAGACTA
1 ATAAGTTGATAGACTA
77684490 ATAA
1 ATAA
77684494 AATCAGCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (16 bp):
ATAAGTTGATAGACTA
Found at i:77684651 original size:15 final size:15
Alignment explanation
Indices: 77684611--77684644 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
77684601 ATTTGTCATC
77684611 AAAA-AAATA-TTAA
1 AAAATAAATATTTAA
77684624 AAAATAAATATTTAA
1 AAAATAAATATTTAA
77684639 AAAATA
1 AAAATA
77684645 GTTATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 5 0.26
15 10 0.53
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATAAATATTTAA
Found at i:77685259 original size:18 final size:19
Alignment explanation
Indices: 77685222--77685260 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
77685212 AATACAAAAT
*
77685222 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTATAA
77685241 AATTCAAAAT-ATTTATAA
1 AATTCAAAATAATTTATAA
77685259 AA
1 AA
77685261 ATTTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTCAAAATAATTTATAA
Found at i:77693666 original size:27 final size:27
Alignment explanation
Indices: 77693636--77693687 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
77693626 TAAAATTTTT
*
77693636 TAATATATTTGATATTGTTAGAAATGA
1 TAATAAATTTGATATTGTTAGAAATGA
77693663 TAATAAATTTGATATTGTTAGAAAT
1 TAATAAATTTGATATTGTTAGAAAT
77693688 AGACTATCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (27 bp):
TAATAAATTTGATATTGTTAGAAATGA
Found at i:77694388 original size:18 final size:18
Alignment explanation
Indices: 77694365--77694407 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
77694355 CTGATGATAT
77694365 TGACGA-CAAAGACGTGAA
1 TGACGATCAAA-ACGTGAA
*
77694383 TGACGATGAAAACGTGAA
1 TGACGATCAAAACGTGAA
*
77694401 TGGCGAT
1 TGACGAT
77694408 GGAAACATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.40, C:0.14, G:0.30, T:0.16
Consensus pattern (18 bp):
TGACGATCAAAACGTGAA
Found at i:77694408 original size:18 final size:18
Alignment explanation
Indices: 77694376--77694413 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
77694366 GACGACAAAG
77694376 ACGTGAATGACGATGAAA
1 ACGTGAATGACGATGAAA
* *
77694394 ACGTGAATGGCGATGGAA
1 ACGTGAATGACGATGAAA
77694412 AC
1 AC
77694414 ATTAACGCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.32, T:0.16
Consensus pattern (18 bp):
ACGTGAATGACGATGAAA
Found at i:77697125 original size:17 final size:18
Alignment explanation
Indices: 77697095--77697140 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
77697085 ATTTAAATTG
77697095 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
77697113 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
77697129 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
77697141 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:77698925 original size:15 final size:16
Alignment explanation
Indices: 77698899--77698928 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
77698889 TATTAGTTTC
77698899 ATATTATTTTATGTAA
1 ATATTATTTTATGTAA
77698915 ATATT-TTTTATGTA
1 ATATTATTTTATGTA
77698929 TACTTTCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (16 bp):
ATATTATTTTATGTAA
Found at i:77699375 original size:18 final size:18
Alignment explanation
Indices: 77699325--77699375 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
77699315 ATTATGTACA
* *
77699325 TTATATCTTATTATGTGTT
1 TTATATATTATT-TATGTT
*
77699344 TTAT-TATTCTTTTATGTT
1 TTATATATT-ATTTATGTT
77699362 TTATATATTATTTA
1 TTATATATTATTTA
77699376 AGCTATCATG
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.67
Consensus pattern (18 bp):
TTATATATTATTTATGTT
Found at i:77710527 original size:49 final size:51
Alignment explanation
Indices: 77710455--77710606 Score: 184
Period size: 53 Copynumber: 3.0 Consensus size: 51
77710445 AGGGAAGGAA
* *
77710455 GCCAAAGTGAAAACTCGCAAAGGGCACTTTGAGACTACA-AAAAA-AAAGG
1 GCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGACTAAATAAAAAGAAAGG
* *
77710504 GCCAAAGTGAAATCCCGCAAAGGGCACTTTGAGACCAAATAAAAATGGAAAGG
1 GCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGACTAAATAAAAA--GAAAGG
** * *
77710557 GCCAAAGCAAAAACCCGCAAAGGGCGCTTTGAGACTCAATAATAAA-AAAG
1 GCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGACTAAATAA-AAAGAAAG
77710607 AAAGAAAAAG
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
49 35 0.40
50 5 0.06
51 4 0.05
53 41 0.47
54 3 0.03
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.12
Consensus pattern (51 bp):
GCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGACTAAATAAAAAGAAAGG
Found at i:77711609 original size:15 final size:16
Alignment explanation
Indices: 77711583--77711612 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
77711573 TATTAGTTTC
77711583 ATATTATTTTATGTAA
1 ATATTATTTTATGTAA
77711599 ATATT-TTTTATGTA
1 ATATTATTTTATGTA
77711613 TACTTTCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (16 bp):
ATATTATTTTATGTAA
Found at i:77715552 original size:68 final size:64
Alignment explanation
Indices: 77715442--77715592 Score: 162
Period size: 68 Copynumber: 2.3 Consensus size: 64
77715432 ATATAGATGG
* * * *
77715442 TATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTACGAGACA
1 TATGTAGCTAGGTCACATGGATGATACTGAGTGCACACCATGTAG-ACAAGAGAGCTACG-G-CA
77715506 TTA
63 -TA
* * *
77715509 TGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAGACAAGAGAGCTACGGGAT
1 T-ATGTAGCTAGGTCACATGGATGATACTGA-GTGCACACCATGTAGACAAGAGAGCTACGGCAT
77715573 A
64 A
*
77715574 TATGTAGCTAGGTCGCATG
1 TATGTAGCTAGGTCACATG
77715593 CGTGGTTCCA
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
64 17 0.23
65 3 0.04
66 1 0.01
67 3 0.04
68 48 0.66
69 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGATGATACTGAGTGCACACCATGTAGACAAGAGAGCTACGGCATA
Found at i:77730012 original size:20 final size:22
Alignment explanation
Indices: 77729968--77730013 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
77729958 TTTTAGTATC
* *
77729968 ATTTTTATTTGTTTTAATATTT
1 ATTTTTATGTGTTTTAATATAT
77729990 ATTTTTATGT-TTTTAA-ATAT
1 ATTTTTATGTGTTTTAATATAT
77730010 ATTT
1 ATTT
77730014 GATTTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 6 0.27
22 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (22 bp):
ATTTTTATGTGTTTTAATATAT
Found at i:77730030 original size:26 final size:24
Alignment explanation
Indices: 77729984--77730032 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
77729974 ATTTGTTTTA
*
77729984 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
77730008 ATATTTGATTTATTATATTTTTAAA
1 ATATTT-ATTT-TTATATTTTTAAA
77730033 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:77730043 original size:25 final size:26
Alignment explanation
Indices: 77729987--77730044 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
77729977 TGTTTTAATA
*
77729987 TTTATTT-TTATGTTTTTAAATATAT
1 TTTATTTATTATATTTTTAAATATAT
* *
77730012 TTGATTTATTATATTTTTAAA-ATTT
1 TTTATTTATTATATTTTTAAATATAT
77730037 TTTATTTA
1 TTTATTTA
77730045 ATGAAATAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 16 0.57
26 12 0.43
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.67
Consensus pattern (26 bp):
TTTATTTATTATATTTTTAAATATAT
Found at i:77732964 original size:31 final size:31
Alignment explanation
Indices: 77732926--77732985 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
77732916 CCACGTGGGA
77732926 AACCGAGGAAGCTATGAGAAAACAGTACCTT
1 AACCGAGGAAGCTATGAGAAAACAGTACCTT
77732957 AACCGAGGAAGCTATGAGAAAACAGTACC
1 AACCGAGGAAGCTATGAGAAAACAGTACC
77732986 CAACCTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (31 bp):
AACCGAGGAAGCTATGAGAAAACAGTACCTT
Found at i:77736540 original size:64 final size:64
Alignment explanation
Indices: 77736440--77736599 Score: 230
Period size: 64 Copynumber: 2.5 Consensus size: 64
77736430 TGAGTTTATG
* * *
77736440 TAATTTATATAAAATAAATTTTATATTACAAGGTTTGTTCCAATTAGATTAAGGTTGTAATGTAT
1 TAATTTATATAACA-AAA-TTTATATTACAAAGTTTGTTCCAATTAGATTAAGATTGTAATGTAT
77736505 T
64 T
* *
77736506 TAATTTATATAACAAAATTTATTTTACAAAGTTTGTTCCAATTAGATTATGATTGTAATGTATT
1 TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCCAATTAGATTAAGATTGTAATGTATT
* * *
77736570 TAATTTATATAACATATTTTATGTTACAAA
1 TAATTTATATAACAAAATTTATATTACAAA
77736600 ACTAAGTTTG
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
64 70 0.81
65 3 0.03
66 13 0.15
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (64 bp):
TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCCAATTAGATTAAGATTGTAATGTATT
Found at i:77738975 original size:111 final size:110
Alignment explanation
Indices: 77738806--77739023 Score: 348
Period size: 111 Copynumber: 2.0 Consensus size: 110
77738796 AAACAAAAAA
*
77738806 TTTATATTAAAATACTAAAAATAATATGCCAATAAAAAAAACATAACATAAAAGATACATAATAA
1 TTTATATTAAAATACTAAAAATAACATGCCAATAAAAAAAACATAACATAAAAGATACATAATAA
* *
77738871 ATACAAATATTTTTATTATTATTTTAAAATGATAGA-AAGTAAGTT
66 ATAAAAATATTTTTATTATTACTTTAAAATGATA-ATAAGTAAGTT
* * * *
77738916 TTTATATTAAAAATACTAAGAATAACATGTCAATAACAAAAACATAACATAAACGATACATAATA
1 TTTATATT-AAAATACTAAAAATAACATGCCAATAAAAAAAACATAACATAAAAGATACATAATA
77738981 AATAAAAATATTTTTATTATTACTTTAAAATGATAATAAGTAA
65 AATAAAAATATTTTTATTATTACTTTAAAATGATAATAAGTAA
77739024 ATATTTTTGA
Statistics
Matches: 99, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
110 9 0.09
111 90 0.91
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (110 bp):
TTTATATTAAAATACTAAAAATAACATGCCAATAAAAAAAACATAACATAAAAGATACATAATAA
ATAAAAATATTTTTATTATTACTTTAAAATGATAATAAGTAAGTT
Found at i:77739736 original size:20 final size:20
Alignment explanation
Indices: 77739711--77739751 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
77739701 CCACCCTCTC
*
77739711 CTTCTCTTTCT-TCTTCTTCT
1 CTTCTCCTTCTCT-TTCTTCT
77739731 CTTCTCCTTCTCTTTCTTCT
1 CTTCTCCTTCTCTTTCTTCT
77739751 C
1 C
77739752 CTTTACTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (20 bp):
CTTCTCCTTCTCTTTCTTCT
Found at i:77739751 original size:15 final size:15
Alignment explanation
Indices: 77739707--77739754 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
77739697 CTACCCACCC
77739707 TCTCCTTCTCTTTC-
1 TCTCCTTCTCTTTCT
*
77739721 T-T-CTTCT-TCTCT
1 TCTCCTTCTCTTTCT
77739733 TCTCCTTCTCTTTCT
1 TCTCCTTCTCTTTCT
77739748 TCTCCTT
1 TCTCCTT
77739755 TACTCACGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
11 3 0.11
12 6 0.21
13 2 0.07
14 6 0.21
15 11 0.39
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (15 bp):
TCTCCTTCTCTTTCT
Found at i:77742948 original size:46 final size:46
Alignment explanation
Indices: 77742881--77743011 Score: 165
Period size: 46 Copynumber: 2.8 Consensus size: 46
77742871 TAATATTTCA
* * *
77742881 TATTCTTTAGTCCGCAACATATGTAAGAGTTAGGAACCTAAATTTG
1 TATTCTTCAGTCCGCAACATATGTAAGAGCTAGGAACCTAAATTCG
** *
77742927 TATTCTTCAGTCCATAACATATGTAGGAGCTAGGAACCTAAATTCG
1 TATTCTTCAGTCCGCAACATATGTAAGAGCTAGGAACCTAAATTCG
* * *
77742973 TATTC-TCGAGTCCGCAACATATGCAGGAGCTAGCAACCT
1 TATTCTTC-AGTCCGCAACATATGTAAGAGCTAGGAACCT
77743012 GGACAAAAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 2 0.03
46 72 0.97
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (46 bp):
TATTCTTCAGTCCGCAACATATGTAAGAGCTAGGAACCTAAATTCG
Found at i:77747688 original size:48 final size:47
Alignment explanation
Indices: 77747551--77747718 Score: 129
Period size: 48 Copynumber: 3.6 Consensus size: 47
77747541 CGCATAGTAT
*
77747551 GATGCCAATGCCATATCCCAGATATGTTCTTACATGGGAT-C--ATA
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCCATATA
* *
77747595 GAT-CGAAGTTG--ATAGT-CCAGCTATGGTCTTACAT--GATGCCTCATATA
1 GATGCCAA--TGCCATA-TCCCAGATATGGTCTTACATGGGAT--C-CATATA
* *
77747642 GTTGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATC-CATATA
* ** *
77747690 GATGCCAAAGCCATGGCCCAGACATGGTC
1 GATGCCAATGCCATATCCCAGATATGGTC
77747719 ATCGGGATTT
Statistics
Matches: 96, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
41 3 0.03
43 22 0.23
44 4 0.04
45 3 0.03
46 2 0.02
47 6 0.06
48 53 0.55
50 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (47 bp):
GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCCATATA
Found at i:77754856 original size:43 final size:46
Alignment explanation
Indices: 77754802--77754919 Score: 172
Period size: 45 Copynumber: 2.7 Consensus size: 46
77754792 TGGGCTTCGG
*
77754802 GCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TCG-GGCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATTATTCGAGCCTTTGA
* * *
77754845 GCTTAGTAGGCTATGATGCCGGTGAAAT-ATTATTCGAGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATTATTCGAGCCTTTGA
77754890 GCCTAGCAGGCTATAATGCCGGTGAAATGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA
77754920 AATGTTATGT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 1 0.02
43 27 0.42
44 3 0.05
45 32 0.50
46 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (46 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATGATTATTCGAGCCTTTGA
Found at i:77755246 original size:38 final size:38
Alignment explanation
Indices: 77755204--77755343 Score: 169
Period size: 38 Copynumber: 3.7 Consensus size: 38
77755194 GGCTTAAAGA
*
77755204 CCGCAGGCTAT-ATGCTGGAATTATATATGGGTTAAATC
1 CCGCAGGCT-TCATGCTGGAATTATATCTGGGTTAAATC
* * *
77755242 CCGCAGGCTTCGTGCTGGTAA-TATATCCGGGTTAATTC
1 CCGCAGGCTTCATGCTGG-AATTATATCTGGGTTAAATC
*
77755280 CCGCAGGCTTCATGCTGGTATTATATCTGGGTTAAATC
1 CCGCAGGCTTCATGCTGGAATTATATCTGGGTTAAATC
* *
77755318 CCGCAGGCCT-AGTGCTGGTATTATAT
1 CCGCAGGCTTCA-TGCTGGAATTATAT
77755344 TCGGGCCTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
37 3 0.03
38 84 0.94
39 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (38 bp):
CCGCAGGCTTCATGCTGGAATTATATCTGGGTTAAATC
Found at i:77755315 original size:76 final size:76
Alignment explanation
Indices: 77755204--77755348 Score: 220
Period size: 76 Copynumber: 1.9 Consensus size: 76
77755194 GGCTTAAAGA
* *
77755204 CCGCAGGCTATATGCTGGAATTATATATGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATC
1 CCGCAGGCTATATGCTGGAATTATATATGGGTTAAATCCCGCAGGCCTAGTGCTGGTAATATATC
77755269 CGGGTTAATTC
66 CGGGTTAATTC
* * *
77755280 CCGCAGGCT-TCATGCTGGTATTATATCTGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTATAT
1 CCGCAGGCTAT-ATGCTGGAATTATATATGGGTTAAATCCCGCAGGCCTAGTGCTGGTAATATAT
*
77755344 TCGGG
65 CCGGG
77755349 CCTTTGAGCC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
75 1 0.02
76 61 0.98
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (76 bp):
CCGCAGGCTATATGCTGGAATTATATATGGGTTAAATCCCGCAGGCCTAGTGCTGGTAATATATC
CGGGTTAATTC
Found at i:77755392 original size:45 final size:45
Alignment explanation
Indices: 77755341--77755513 Score: 201
Period size: 45 Copynumber: 3.9 Consensus size: 45
77755331 GCTGGTATTA
* *
77755341 TATTCGGGCCTTTGAGCCTAGCAGGTTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* *
77755386 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* * *
77755431 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGATGAAATGA-
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGA-CAC
* * * *
77755476 TAATCGGGCC-TCGATCCTAGCAGGCGA-AATGCCGGTGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
77755514 TTTGAGAAAA
Statistics
Matches: 112, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
43 10 0.09
44 17 0.15
45 83 0.74
46 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
Found at i:77758106 original size:46 final size:46
Alignment explanation
Indices: 77758056--77758149 Score: 145
Period size: 46 Copynumber: 2.0 Consensus size: 46
77758046 AGTTAGAAGA
*
77758056 CTAAAT-TAGTATTCTCCAATCCACAACATATGCAGGAGCTGGTAAC
1 CTAAATCTA-TATTCTCCAATCCACAACATATGCAGGAGCTGGGAAC
* *
77758102 CTAAATCTATATTCTCCAATCTACCACATATGCAGGAGCTGGGAAC
1 CTAAATCTATATTCTCCAATCCACAACATATGCAGGAGCTGGGAAC
77758148 CT
1 CT
77758150 GAGCAAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 42 0.95
47 2 0.05
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (46 bp):
CTAAATCTATATTCTCCAATCCACAACATATGCAGGAGCTGGGAAC
Found at i:77761180 original size:17 final size:17
Alignment explanation
Indices: 77761137--77761189 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
77761127 ACTCAATTCG
* *
77761137 AAAGATGGAAAAATGAAG
1 AAAGAT-GAAAAATAAAA
*
77761155 AAATA-GAAAAATAAAA
1 AAAGATGAAAAATAAAA
77761171 AAAGATGAAAAATATAAA
1 AAAGATGAAAAATA-AAA
77761189 A
1 A
77761190 TTTCATTGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 13 0.45
17 8 0.28
18 8 0.28
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (17 bp):
AAAGATGAAAAATAAAA
Found at i:77775408 original size:42 final size:43
Alignment explanation
Indices: 77775339--77775469 Score: 135
Period size: 44 Copynumber: 3.0 Consensus size: 43
77775329 TTTTACATGT
* *
77775339 AATCAAATATCGATGCCACTGTCCCAGATA-GAGTCTTACAC-GA
1 AATCAAATA-CGATGCCAATGTCCCAGACATG-GTCTTACACAGA
* *
77775382 AATCAAATACGATGCCAATGTTCCAGACATGGTCTTACACATA
1 AATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACAGA
* * *
77775425 AATCATAAGT-CGATGCCAACGTCCTAGACGTGGTCTTACAC-GA
1 AATCA-AA-TACGATGCCAATGTCCCAGACATGGTCTTACACAGA
77775468 AA
1 AA
77775470 ACACATATCG
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
42 26 0.35
43 19 0.25
44 29 0.39
45 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (43 bp):
AATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACAGA
Found at i:77775459 original size:44 final size:42
Alignment explanation
Indices: 77775303--77775469 Score: 128
Period size: 43 Copynumber: 3.9 Consensus size: 42
77775293 CAGAAAGCTC
* ** * * *
77775303 ATACAATGCCAAC-TTCCTAGATGTGGTTTTACATGTAATCAA
1 ATACGATGCCAACGTTCC-AGACATGGTCTTACACGAAATCAA
* *
77775345 ATATCGATGCC-ACTGTCCCAGATA-GAGTCTTACACGAAATCAA
1 ATA-CGATGCCAAC-GTTCCAGACATG-GTCTTACACGAAATCAA
* *
77775388 ATACGATGCCAATGTTCCAGACATGGTCTTACACATAAATCATA
1 ATACGATGCCAACGTTCCAGACATGGTCTTACAC-GAAATCA-A
*
77775432 AGT-CGATGCCAACG-TCCTAGACGTGGTCTTACACGAAA
1 A-TACGATGCCAACGTTCC-AGACATGGTCTTACACGAAA
77775470 ACACATATCG
Statistics
Matches: 102, Mismatches: 13, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
42 30 0.29
43 41 0.40
44 30 0.29
45 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (42 bp):
ATACGATGCCAACGTTCCAGACATGGTCTTACACGAAATCAA
Found at i:77780294 original size:45 final size:44
Alignment explanation
Indices: 77780230--77780449 Score: 159
Period size: 45 Copynumber: 5.0 Consensus size: 44
77780220 TAGGATTCTA
*
77780230 ATATGTGTTTCTGA-GTAAGACCACGTCTGGGACGTTGGCATCGAT
1 ATATGTGTTT-TCATGTAAGACCACGTCTGGGACGTTGGCATCG-T
* *
77780275 ATATGTGTTTTCATGTAAGACTACGTTTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCG-T
* * * * * * * * *
77780320 TTATGTGGTTACGTGTAAGACCATGTCTGGGACATCGACATTGT
1 ATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGT
* *
77780364 AT-T-TG-ATTCGA-GTAAGACC-CTATCTGGGACAG-TGGCATCG-
1 ATATGTGTTTTC-ATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGT
* * ** *
77780404 ATATGAGATAGCATGTAAGACCACGTCTGGGACGTTGGCATTGT
1 ATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGT
77780448 AT
1 AT
77780450 GATATATGTG
Statistics
Matches: 134, Mismatches: 30, Indels: 23
0.72 0.16 0.12
Matches are distributed among these distances:
40 2 0.01
41 24 0.18
42 5 0.04
43 25 0.19
44 7 0.05
45 71 0.53
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (44 bp):
ATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCATCGT
Found at i:77789458 original size:15 final size:15
Alignment explanation
Indices: 77789440--77789470 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
77789430 AAAACATATC
77789440 AATTCAACTTATTCA
1 AATTCAACTTATTCA
77789455 AATTCAACTTATTCA
1 AATTCAACTTATTCA
77789470 A
1 A
77789471 TCATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (15 bp):
AATTCAACTTATTCA
Found at i:77792971 original size:35 final size:37
Alignment explanation
Indices: 77792886--77792974 Score: 101
Period size: 35 Copynumber: 2.4 Consensus size: 37
77792876 ACCACTTCGA
** *
77792886 CCACCCTACACACCACAATTGGGCTACGGTAGGCCCAT
1 CCACCCTACACACCACAAAAGGACTACGGTA-GCCCAT
* * *
77792924 CCACCTTGCACACCA-AAAAGGACTATGGTA-CCCAT
1 CCACCCTACACACCACAAAAGGACTACGGTAGCCCAT
77792959 CCACCCTACACACCAC
1 CCACCCTACACACCAC
77792975 GATAGTGAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
35 18 0.43
37 11 0.26
38 13 0.31
ACGTcount: A:0.30, C:0.42, G:0.13, T:0.15
Consensus pattern (37 bp):
CCACCCTACACACCACAAAAGGACTACGGTAGCCCAT
Found at i:77797270 original size:19 final size:19
Alignment explanation
Indices: 77797217--77797284 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 19
77797207 AGAATCAAAC
* *
77797217 AAAAGAAAAAAATAAAATA
1 AAAACAAAAATATAAAATA
** * *
77797236 AAATGTAACAAT-TAAATTA
1 AAA-ACAAAAATATAAAATA
77797255 AAAACAAAAATATAAAATA
1 AAAACAAAAATATAAAATA
*
77797274 AAAATAAAAAT
1 AAAACAAAAAT
77797285 GGCTAAATTA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
18 5 0.14
19 28 0.76
20 4 0.11
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (19 bp):
AAAACAAAAATATAAAATA
Found at i:77797271 original size:7 final size:6
Alignment explanation
Indices: 77797224--77797284 Score: 52
Period size: 6 Copynumber: 10.0 Consensus size: 6
77797214 AACAAAAGAA
* * * * *
77797224 AAAAAT -AAAAT AAAATGT AACAAT TAAATT AAAAAC AAAAAT ATAAAAT
1 AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT
77797273 AAAAAT AAAAAT
1 AAAAAT AAAAAT
77797285 GGCTAAATTA
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
5 5 0.12
6 27 0.64
7 10 0.24
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:77800387 original size:19 final size:19
Alignment explanation
Indices: 77800363--77800402 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
77800353 ATAGAATTGT
77800363 TGCATGAACTTTGCCATGA
1 TGCATGAACTTTGCCATGA
77800382 TGCATGAACTTTGCCATGA
1 TGCATGAACTTTGCCATGA
77800401 TG
1 TG
77800403 TTTTGATTAT
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:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (19 bp):
TGCATGAACTTTGCCATGA
Found at i:77800527 original size:16 final size:16
Alignment explanation
Indices: 77800502--77800536 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
77800492 ATTGAACTGC
77800502 TATTGTTTGAATGG-T
1 TATTGTTTGAATGGAT
77800517 TATTAGTTTGAATGGAT
1 TATT-GTTTGAATGGAT
77800534 TAT
1 TAT
77800537 ATGCCTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 10 0.56
17 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (16 bp):
TATTGTTTGAATGGAT
Found at i:77804212 original size:34 final size:34
Alignment explanation
Indices: 77804169--77804236 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
77804159 TCGATCAAAT
*
77804169 GCAATTTGGGCCTAAGCCCATTTTAGTTTCAGTA
1 GCAATTTGGGCCTAAGCCCATTTCAGTTTCAGTA
* *
77804203 GCAATTTGGGCCTTAGCCCATTTCAGTTTTAGTA
1 GCAATTTGGGCCTAAGCCCATTTCAGTTTCAGTA
77804237 TCAGATATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (34 bp):
GCAATTTGGGCCTAAGCCCATTTCAGTTTCAGTA
Found at i:77804853 original size:31 final size:31
Alignment explanation
Indices: 77804818--77804896 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
77804808 GACCCAGAAT
* *
77804818 CCCACACGCCCGTGTGGACAACCCTTGTGGA
1 CCCACACGCCCGTGTGGACAACCCATATGGA
* * *
77804849 CCCACACACCCGTGTAGACTACCCATATGGA
1 CCCACACGCCCGTGTGGACAACCCATATGGA
*
77804880 CCCACACGCCTGTGTGG
1 CCCACACGCCCGTGTGG
77804897 CCCACATAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.22, C:0.39, G:0.23, T:0.16
Consensus pattern (31 bp):
CCCACACGCCCGTGTGGACAACCCATATGGA
Found at i:77813102 original size:30 final size:30
Alignment explanation
Indices: 77813016--77813217 Score: 187
Period size: 30 Copynumber: 6.8 Consensus size: 30
77813006 TGACTTTAGG
* * *
77813016 TTGCTCACATAAGCTGACATTATGATAGAA
1 TTGCTCACACAAGCTGACATTATAATAGAT
* * * * *
77813046 ATGCTTACACAAGCTAAAATTGTAATAGAT
1 TTGCTCACACAAGCTGACATTATAATAGAT
*
77813076 TTGCTCACACAAGCTGACTTTATAATAG-T
1 TTGCTCACACAAGCTGACATTATAATAGAT
*
77813105 GTTGCTCACACAAGTTGACA-T-TAATAGAT
1 -TTGCTCACACAAGCTGACATTATAATAGAT
* * *
77813134 TTGCTCACACAAGTTGACTTTATAATA-AGG
1 TTGCTCACACAAGCTGACATTATAATAGA-T
* * *
77813164 TTGCTCACACAAGTTGACATTATGATAGAA
1 TTGCTCACACAAGCTGACATTATAATAGAT
** *
77813194 TTGCTCACTTAAGCTAACATTATA
1 TTGCTCACACAAGCTGACATTATA
77813218 TTAAGATCAC
Statistics
Matches: 140, Mismatches: 26, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
28 24 0.17
29 5 0.04
30 110 0.79
31 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (30 bp):
TTGCTCACACAAGCTGACATTATAATAGAT
Found at i:77813116 original size:60 final size:57
Alignment explanation
Indices: 77813016--77813176 Score: 187
Period size: 58 Copynumber: 2.7 Consensus size: 57
77813006 TGACTTTAGG
* * * ** *
77813016 TTGCTCACATAAGCTGACATTATGATAGAAATGCTTACACAAGCTAAAATTGTAATAGAT
1 TTGCTCACACAAGCTGACTTTATAATAG-GTTGCTCACACAAGCTAAAA-T-TAATAGAT
* * *
77813076 TTGCTCACACAAGCTGACTTTATAATAGTGTTGCTCACACAAGTTGACATTAATAGAT
1 TTGCTCACACAAGCTGACTTTATAATAG-GTTGCTCACACAAGCTAAAATTAATAGAT
*
77813134 TTGCTCACACAAGTTGACTTTATAATAAGGTTGCTCACACAAG
1 TTGCTCACACAAGCTGACTTTATAAT-AGGTTGCTCACACAAG
77813177 TTGACATTAT
Statistics
Matches: 89, Mismatches: 11, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
58 47 0.53
59 3 0.03
60 39 0.44
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (57 bp):
TTGCTCACACAAGCTGACTTTATAATAGGTTGCTCACACAAGCTAAAATTAATAGAT
Found at i:77813144 original size:58 final size:58
Alignment explanation
Indices: 77813068--77813201 Score: 216
Period size: 58 Copynumber: 2.3 Consensus size: 58
77813058 GCTAAAATTG
77813068 TAATAGATTTGCTCACACAAGCTGACTTTATAAT-AGTGTTGCTCACACAAGTTGACAT
1 TAATAGATTTGCTCACACAAGCTGACTTTATAATAAG-GTTGCTCACACAAGTTGACAT
*
77813126 TAATAGATTTGCTCACACAAGTTGACTTTATAATAAGGTTGCTCACACAAGTTGACAT
1 TAATAGATTTGCTCACACAAGCTGACTTTATAATAAGGTTGCTCACACAAGTTGACAT
*
77813184 TATGATAGAATTGCTCAC
1 TA--ATAGATTTGCTCAC
77813202 TTAAGCTAAC
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
58 56 0.79
59 2 0.03
60 13 0.18
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Consensus pattern (58 bp):
TAATAGATTTGCTCACACAAGCTGACTTTATAATAAGGTTGCTCACACAAGTTGACAT
Found at i:77831397 original size:14 final size:14
Alignment explanation
Indices: 77831380--77831409 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
77831370 TAGCCAACTA
*
77831380 CAAGACCATTTAAC
1 CAAGACCATTCAAC
77831394 CAAGACCATTCAAC
1 CAAGACCATTCAAC
77831408 CA
1 CA
77831410 TACCACATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.33, G:0.07, T:0.17
Consensus pattern (14 bp):
CAAGACCATTCAAC
Found at i:77832621 original size:17 final size:19
Alignment explanation
Indices: 77832585--77832625 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
77832575 GCCATATAAT
77832585 TATCATGAACCAAATCATA
1 TATCATGAACCAAATCATA
*
77832604 TATCAT-AA-CAAATTATA
1 TATCATGAACCAAATCATA
77832621 T-TCAT
1 TATCAT
77832626 TTAGTATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 9 0.43
18 2 0.10
19 6 0.29
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.34
Consensus pattern (19 bp):
TATCATGAACCAAATCATA
Found at i:77836455 original size:28 final size:29
Alignment explanation
Indices: 77836390--77836491 Score: 100
Period size: 28 Copynumber: 3.6 Consensus size: 29
77836380 GTGAAAAAGA
* *
77836390 CACTTAGTGTGCGAAACTTCCAGAAATGG
1 CACTTAGTGTGCGAAACATCCAGAGATGG
*
77836419 CACTTAGTGTGCGAGACATCCAG-GATGG
1 CACTTAGTGTGCGAAACATCCAGAGATGG
** * * *
77836447 CACTTAGTGAACGATACATCC-GTGAAGG
1 CACTTAGTGTGCGAAACATCCAGAGATGG
* *
77836475 CACTAAGTGTGCAAAAC
1 CACTTAGTGTGCGAAAC
77836492 TTCGAGAAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
27 1 0.02
28 38 0.63
29 21 0.35
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (29 bp):
CACTTAGTGTGCGAAACATCCAGAGATGG
Found at i:77841899 original size:29 final size:28
Alignment explanation
Indices: 77841849--77841949 Score: 105
Period size: 28 Copynumber: 3.6 Consensus size: 28
77841839 GTGAAAACGA
* *
77841849 CACTTAGTGTGAGAAACTTCCAGAAATGG
1 CACTTAGTGTGTGAAACATCCAG-AATGG
* * *
77841878 CACTTAGTATGTGAGACATCCAGGATGG
1 CACTTAGTGTGTGAAACATCCAGAATGG
*
77841906 CACTTAGTGTGTGATACATCCATGAA-GG
1 CACTTAGTGTGTGAAACATCCA-GAATGG
* *
77841934 CACTAAGTGTGCGAAA
1 CACTTAGTGTGTGAAA
77841950 ATTCGAGAAC
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
28 39 0.65
29 21 0.35
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (28 bp):
CACTTAGTGTGTGAAACATCCAGAATGG
Found at i:77844734 original size:20 final size:22
Alignment explanation
Indices: 77844694--77844737 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 22
77844684 ATTTTATAAA
77844694 TTATTTAATAATTAAAAATAATT
1 TTATTTAATAATT-AAAATAATT
77844717 TTATTT-ATAATT-AAATAATT
1 TTATTTAATAATTAAAATAATT
77844737 T
1 T
77844738 GAAAAAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.43
22 6 0.29
23 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATTTAATAATTAAAATAATT
Found at i:77845909 original size:21 final size:22
Alignment explanation
Indices: 77845868--77845909 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
77845858 ACTTTACACT
*
77845868 TTTTTTTTTCATATTTCTTTTG
1 TTTTTTTTTCATATTTATTTTG
*
77845890 TTTTTTTTTCCT-TTTATTTT
1 TTTTTTTTTCATATTTATTTT
77845910 CATATTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.07, C:0.10, G:0.02, T:0.81
Consensus pattern (22 bp):
TTTTTTTTTCATATTTATTTTG
Found at i:77846049 original size:21 final size:22
Alignment explanation
Indices: 77846010--77846056 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
77846000 TTAACTTTAA
77846010 AAAATTTGTAATGTATATTTTT
1 AAAATTTGTAATGTATATTTTT
77846032 AAAATTT-TAAT-TATTATTTTT
1 AAAATTTGTAATGTA-TATTTTT
77846053 AAAA
1 AAAA
77846057 ATATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 2 0.08
21 15 0.62
22 7 0.29
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
AAAATTTGTAATGTATATTTTT
Found at i:77846146 original size:37 final size:37
Alignment explanation
Indices: 77846027--77846164 Score: 135
Period size: 37 Copynumber: 3.9 Consensus size: 37
77846017 GTAATGTATA
* * *
77846027 TTTTTAAAATTTTAATTAT-TATTTTTAAAAAT-ATT
1 TTTTTAAAATTTTAAATATGTATTTTTTAAATTAATT
* * * *
77846062 TTTTT--AATTTTAGATATATATTTGTGAAATTAA-T
1 TTTTTAAAATTTTAAATATGTATTTTTTAAATTAATT
* *
77846096 TTTTTATATATTTTAAAAATGTATTTTTTAAATTAATT
1 TTTTTA-AAATTTTAAATATGTATTTTTTAAATTAATT
*
77846134 TTTTTAAAATTTTAAATATG-AATTTTTAAAT
1 TTTTTAAAATTTTAAATATGTATTTTTTAAAT
77846165 ATTAACCATA
Statistics
Matches: 83, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
33 10 0.12
34 16 0.19
35 6 0.07
36 10 0.12
37 34 0.41
38 7 0.08
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (37 bp):
TTTTTAAAATTTTAAATATGTATTTTTTAAATTAATT
Found at i:77846259 original size:20 final size:20
Alignment explanation
Indices: 77846221--77846267 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
77846211 TTGTAAATAC
77846221 AATTTCTTTAATTTCTTTTTA
1 AATTT-TTTAATTTCTTTTTA
*
77846242 CATTTTTTAACTTT-TTTTTA
1 AATTTTTTAA-TTTCTTTTTA
77846262 AATTTT
1 AATTTT
77846268 GAAAAGTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (20 bp):
AATTTTTTAATTTCTTTTTA
Found at i:77846449 original size:14 final size:15
Alignment explanation
Indices: 77846430--77846462 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
77846420 TATTATTTCC
77846430 TTATTTTATTTTAT-
1 TTATTTTATTTTATA
77846444 TTA-TTTATTTTATA
1 TTATTTTATTTTATA
77846458 TTATT
1 TTATT
77846463 AATTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.59
14 6 0.35
15 1 0.06
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTTATTTTATA
Found at i:77846450 original size:13 final size:14
Alignment explanation
Indices: 77846434--77846469 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
77846424 ATTTCCTTAT
77846434 TTTATTTTAT-TTA
1 TTTATTTTATATTA
77846447 TTTATTTTATATTA
1 TTTATTTTATATTA
*
77846461 TTAATTTTA
1 TTTATTTTA
77846470 AAAAATTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTATTTTATATTA
Found at i:77846467 original size:18 final size:18
Alignment explanation
Indices: 77846415--77846467 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
77846405 CTTTTTTAGG
**
77846415 TTTTATATTATTTCCTTA
1 TTTTATATTATTTATTTA
*
77846433 TTTTATTTTATTTATTTA
1 TTTTATATTATTTATTTA
*
77846451 TTTTATATTATTAATTT
1 TTTTATATTATTTATTT
77846468 TAAAAAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTATATTATTTATTTA
Found at i:77846608 original size:37 final size:35
Alignment explanation
Indices: 77846504--77846614 Score: 113
Period size: 37 Copynumber: 3.2 Consensus size: 35
77846494 ATATTTTACA
77846504 ATTTTTTA-AAATTTTAATTAT-TATTTTTAGAATT
1 ATTTTTTATAAATTTTAATTATATATTTTTA-AATT
* * *
77846538 ATTTTTT-T-AACTTTAGTTATATATTTGTGAAATT
1 ATTTTTTATAAATTTTAATTATATATTT-TTAAATT
*
77846572 ATTTTTTTATAAATTTTAAATATATATTTTTCAAATT
1 A-TTTTTTATAAATTTTAATTATATATTTTT-AAATT
*
77846609 AGTTTT
1 ATTTTT
77846615 GAAATTATTA
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
33 10 0.16
34 17 0.27
35 8 0.13
36 6 0.10
37 21 0.34
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (35 bp):
ATTTTTTATAAATTTTAATTATATATTTTTAAATT
Found at i:77846898 original size:36 final size:34
Alignment explanation
Indices: 77846816--77846952 Score: 154
Period size: 33 Copynumber: 4.0 Consensus size: 34
77846806 CTATAATATA
* *
77846816 TATTTTTTTAAAATTTAAATATTA-TTTTTAGAT
1 TATTTTTTTAAATTTTAAATATTATTTTTTAAAT
** * *
77846849 TATTTTTAAAAATTTTAGATATATATTTTTGAAAT
1 TATTTTTTTAAATTTTAAATAT-TATTTTTTAAAT
*
77846884 TATTTTTTATAAATTTTAAATGTATATTTTTTAAAT
1 TATTTTTT-TAAATTTTAAATAT-TATTTTTTAAAT
77846920 TAATTTTTTT--ATTTTAAATATTATTTTTTAAAT
1 T-ATTTTTTTAAATTTTAAATATTATTTTTTAAAT
77846953 ATTAACCATA
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
33 30 0.34
34 12 0.14
35 14 0.16
36 25 0.28
37 7 0.08
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (34 bp):
TATTTTTTTAAATTTTAAATATTATTTTTTAAAT
Found at i:77846900 original size:22 final size:22
Alignment explanation
Indices: 77846875--77846920 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
77846865 AGATATATAT
77846875 TTTTGAAAT-TAT-TTTTTATAAA
1 TTTT-AAATGTATATTTTT-TAAA
77846897 TTTTAAATGTATATTTTTTAAA
1 TTTTAAATGTATATTTTTTAAA
77846919 TT
1 TT
77846921 AATTTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.18
22 13 0.59
23 5 0.23
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
TTTTAAATGTATATTTTTTAAA
Found at i:77846930 original size:14 final size:15
Alignment explanation
Indices: 77846897--77846928 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
77846887 TTTTTATAAA
77846897 TTTTAAATGTATATT
1 TTTTAAATGTATATT
77846912 TTTTAAAT-TA-ATT
1 TTTTAAATGTATATT
77846925 TTTT
1 TTTT
77846929 TATTTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTTAAATGTATATT
Found at i:77850327 original size:30 final size:29
Alignment explanation
Indices: 77850293--77850395 Score: 107
Period size: 30 Copynumber: 3.4 Consensus size: 29
77850283 GGTTGCTCTA
* * *
77850293 GGTGAAATGGACTCGAACCGCCTATATCCG
1 GGTGATATGAACTCGAACC-CCTATGTCCG
* *
77850323 GGTGATATGAACTTGAACCACTCATGTCCG
1 GGTGATATGAACTCGAACCCCT-ATGTCCG
* *
77850353 GGTTATATGAACTCAAACCACCTATGTCCG
1 GGTGATATGAACTCGAACC-CCTATGTCCG
*
77850383 GGTTATATGAACT
1 GGTGATATGAACT
77850396 GCTCTGGGAC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
29 2 0.03
30 58 0.94
31 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.26
Consensus pattern (29 bp):
GGTGATATGAACTCGAACCCCTATGTCCG
Found at i:77853344 original size:21 final size:21
Alignment explanation
Indices: 77853316--77853359 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
77853306 TTAAAAAAAG
77853316 AATTT-AAAAATAATATT-TAA
1 AATTTAAAAAAT-ATATTATAA
77853336 AATTGTAAAAAATATATTATAA
1 AATT-TAAAAAATATATTATAA
77853358 AA
1 AA
77853360 CATTTTAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.19
21 6 0.29
22 11 0.52
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AATTTAAAAAATATATTATAA
Found at i:77853404 original size:12 final size:13
Alignment explanation
Indices: 77853387--77853420 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
77853377 ACAAAATTTT
*
77853387 TAAAATTAAT-AA
1 TAAAATAAATAAA
77853399 TAAAATAAATAAA
1 TAAAATAAATAAA
77853412 TAAAATAAA
1 TAAAATAAA
77853421 ATTATGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAAATAAATAAA
Found at i:77853451 original size:26 final size:26
Alignment explanation
Indices: 77853418--77853475 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
77853408 TAAATAAAAT
*
77853418 AAAATTATGATTTCTTATAT-TATTAA
1 AAAATTATGATTT-TTAAATGTATTAA
*
77853444 AAAATTATGATTTTTAAATGTATTTA
1 AAAATTATGATTTTTAAATGTATTAA
77853470 AAAATT
1 AAAATT
77853476 GTATTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 5 0.17
26 24 0.83
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (26 bp):
AAAATTATGATTTTTAAATGTATTAA
Found at i:77853626 original size:21 final size:21
Alignment explanation
Indices: 77853602--77853644 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
77853592 CAATAAAAAG
77853602 AAAAAAAATATTTAATATTTA
1 AAAAAAAATATTTAATATTTA
* *
77853623 AAAAATAATATTTAATTTTTA
1 AAAAAAAATATTTAATATTTA
77853644 A
1 A
77853645 TATTTATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAAAAAATATTTAATATTTA
Found at i:77853656 original size:19 final size:18
Alignment explanation
Indices: 77853634--77853669 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
77853624 AAAATAATAT
*
77853634 TTAATTTTTAATATTTATA
1 TTAATATTTAA-ATTTATA
77853653 TTAATATTTAAATTTAT
1 TTAATATTTAAATTTAT
77853670 TAATAGAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTAATATTTAAATTTATA
Found at i:77853667 original size:6 final size:7
Alignment explanation
Indices: 77853608--77853668 Score: 65
Period size: 7 Copynumber: 9.1 Consensus size: 7
77853598 AAAGAAAAAA
77853608 AATATTT
1 AATATTT
77853615 AATATTT
1 AATATTT
* **
77853622 AAAAAAT
1 AATATTT
77853629 AATATTT
1 AATATTT
*
77853636 AATTTTT
1 AATATTT
77853643 AATATTT
1 AATATTT
77853650 -ATA-TT
1 AATATTT
77853655 AATATTT
1 AATATTT
77853662 AA-ATTT
1 AATATTT
77853668 A
1 A
77853669 TTAATAGAGT
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
5 2 0.05
6 11 0.25
7 31 0.70
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AATATTT
Found at i:77853777 original size:13 final size:14
Alignment explanation
Indices: 77853759--77853788 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
77853749 ATCTAATGTT
77853759 AAAAAAAA-TTTAA
1 AAAAAAAATTTTAA
77853772 AAAAAAAATTTTAA
1 AAAAAAAATTTTAA
77853786 AAA
1 AAA
77853789 TTGTATGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAAAAATTTTAA
Found at i:77853778 original size:14 final size:14
Alignment explanation
Indices: 77853759--77853788 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
77853749 ATCTAATGTT
77853759 AAAAAAAATTTAAA
1 AAAAAAAATTTAAA
*
77853773 AAAAAAATTTTAAA
1 AAAAAAAATTTAAA
77853787 AA
1 AA
77853789 TTGTATGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAAAAATTTAAA
Found at i:77853898 original size:37 final size:35
Alignment explanation
Indices: 77853851--77853926 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 35
77853841 TAATAATTTC
* * *
77853851 AAAACTAATTTGAAAAATATATATTTAAAATTTATAA
1 AAAAATAATTTCAAAAATATATATCTAAAA-TTA-AA
*
77853888 AAAAATAATTTCACAAATATATATCTAAAATTAAA
1 AAAAATAATTTCAAAAATATATATCTAAAATTAAA
77853923 AAAA
1 AAAA
77853927 TAACAATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 6 0.17
36 3 0.09
37 26 0.74
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (35 bp):
AAAAATAATTTCAAAAATATATATCTAAAATTAAA
Found at i:77854038 original size:18 final size:18
Alignment explanation
Indices: 77853993--77854040 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
77853983 TTTTAAAATT
* *
77853993 AATAATATAAATTAAATA
1 AATAATATAAAATAAAGA
* * *
77854011 AACAAAATAAAATAAGGA
1 AATAATATAAAATAAAGA
77854029 AATAATATAAAA
1 AATAATATAAAA
77854041 CTTAAAGAAG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (18 bp):
AATAATATAAAATAAAGA
Found at i:77854213 original size:20 final size:19
Alignment explanation
Indices: 77854184--77854231 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 19
77854174 CATATTTTTC
77854184 AAAAATTAAAAA-AAAGTTA
1 AAAAATTAAAAAGAAA-TTA
77854203 AAAAATGTAAAAAGAAATTA
1 AAAAAT-TAAAAAGAAATTA
77854223 AAGAAATTA
1 AA-AAATTA
77854232 TATTTACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 6 0.23
20 13 0.50
21 7 0.27
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (19 bp):
AAAAATTAAAAAGAAATTA
Found at i:77854345 original size:36 final size:36
Alignment explanation
Indices: 77854288--77854358 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
77854278 ATGGTTAATA
* *
77854288 TTTAAAATTTTAAAAAATTAATTTGA-AAATATATT
1 TTTAAAATTATAAAAAATTAATTTCACAAATATATT
77854323 TTTAAAATATATAAAAAATTAATTTCACAAATATAT
1 TTTAAAAT-TATAAAAAATTAATTTCACAAATATAT
77854359 ATCTAAAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 8 0.25
36 16 0.50
37 8 0.25
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (36 bp):
TTTAAAATTATAAAAAATTAATTTCACAAATATATT
Found at i:77854405 original size:21 final size:22
Alignment explanation
Indices: 77854379--77854425 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
77854369 AAAATAATAT
77854379 TTTTAAAAATAATA-ATTA-AAA
1 TTTTAAAAAT-ATACATTACAAA
77854400 TTTTAAAAATATACATTACAAA
1 TTTTAAAAATATACATTACAAA
77854422 TTTT
1 TTTT
77854426 TTAAAGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 3 0.12
21 14 0.58
22 7 0.29
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTTAAAAATATACATTACAAA
Found at i:77854458 original size:16 final size:15
Alignment explanation
Indices: 77854437--77854497 Score: 50
Period size: 17 Copynumber: 3.7 Consensus size: 15
77854427 TAAAGTTAAT
*
77854437 AATAAAAAATAAACAA
1 AATAAAAAAGAAA-AA
77854453 AATAAAATAAGAAAAA
1 AATAAAA-AAGAAAAA
*
77854469 AATCAAAAAGGTAAAAA
1 AAT-AAAAAAG-AAAAA
*
77854486 AAAATAAAAAGA
1 AATA-AAAAAGA
77854498 CAATTTATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 16 0.43
17 21 0.57
ACGTcount: A:0.79, C:0.03, G:0.07, T:0.11
Consensus pattern (15 bp):
AATAAAAAAGAAAAA
Found at i:77854494 original size:17 final size:16
Alignment explanation
Indices: 77854437--77854547 Score: 52
Period size: 16 Copynumber: 6.9 Consensus size: 16
77854427 TAAAGTTAAT
*
77854437 AATAAAA-AATAAACAA
1 AATAAAATAAGAAA-AA
77854453 AATAAAATAAGAAAAA
1 AATAAAATAAGAAAAA
* **
77854469 AATCAAA-AAGGTAAA
1 AATAAAATAAGAAAAA
*
77854484 AA-AAAATAA-AAAGAC
1 AATAAAATAAGAAA-AA
** *
77854499 AATTTATTAAGAAATAA
1 AATAAAATAAGAAA-AA
77854516 AATAAAA-AAGTAAAAA
1 AATAAAATAAG-AAAAA
* *
77854532 AAAAGAAATATGAAAA
1 AATA-AAATAAGAAAA
77854548 TAAAAGGAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 15
0.68 0.18 0.15
Matches are distributed among these distances:
14 4 0.06
15 13 0.19
16 27 0.39
17 23 0.33
18 2 0.03
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (16 bp):
AATAAAATAAGAAAAA
Found at i:77854550 original size:30 final size:29
Alignment explanation
Indices: 77854514--77854583 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 29
77854504 ATTAAGAAAT
77854514 AAAATAAAAAAGTAAAAA-AAAAGAAATATG
1 AAAATAAAAAA--AAAAACAAAAGAAATATG
77854544 AAAATAAAAGGAAAAAAACAAAAGAAATATG
1 AAAATAAAA--AAAAAAACAAAAGAAATATG
77854575 AAAA-AAAAA
1 AAAATAAAAA
77854584 GGTGGAAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
28 1 0.03
30 18 0.49
31 16 0.43
32 2 0.05
ACGTcount: A:0.79, C:0.01, G:0.10, T:0.10
Consensus pattern (29 bp):
AAAATAAAAAAAAAAACAAAAGAAATATG
Done.