Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 157 of 211
Found at i:49317003 original size:98 final size:98
Alignment explanation
Indices: 49316834--49317028 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
49316824 ATGCAATAAA
*
49316834 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
49316899 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
* * *
49316932 ACTTTAAAAGAACATCCATTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
49316997 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTT
49317029 CATGATTTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:49324256 original size:21 final size:20
Alignment explanation
Indices: 49324232--49324276 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
49324222 CACTCAGTAA
*
49324232 GAGAAGAACAACTCTCATTTT
1 GAGAAGAA-AACTCTCATTTC
*
49324253 GAG-AGAAAATTCTCATTTC
1 GAGAAGAAAACTCTCATTTC
49324272 GAGAA
1 GAGAA
49324277 ACAATACACG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 13 0.62
20 5 0.24
21 3 0.14
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.27
Consensus pattern (20 bp):
GAGAAGAAAACTCTCATTTC
Found at i:49327147 original size:30 final size:30
Alignment explanation
Indices: 49327113--49327170 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
49327103 TTGGAGTGGC
49327113 AAAAAATTGAATATCAAATATTTAGTTTAT
1 AAAAAATTGAATATCAAATATTTAGTTTAT
*
49327143 AAAAAATTGAATATCAAATCTTTAGTTT
1 AAAAAATTGAATATCAAATATTTAGTTT
49327171 TAACCACAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (30 bp):
AAAAAATTGAATATCAAATATTTAGTTTAT
Found at i:49331067 original size:14 final size:14
Alignment explanation
Indices: 49331048--49331080 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
49331038 AGGTCATTTA
49331048 GCCCAACCAAACTG
1 GCCCAACCAAACTG
49331062 GCCCAACCAAACTG
1 GCCCAACCAAACTG
49331076 GCCCA
1 GCCCA
49331081 GTGATTTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.45, G:0.15, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:49336142 original size:14 final size:14
Alignment explanation
Indices: 49336123--49336154 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
49336113 AGGTCATTTA
49336123 GCCCAACCAAACTG
1 GCCCAACCAAACTG
49336137 GCCCAACCAAACTG
1 GCCCAACCAAACTG
49336151 GCCC
1 GCCC
49336155 GGTGATTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:49336870 original size:23 final size:23
Alignment explanation
Indices: 49336815--49336880 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 23
49336805 TGTTTTCTCT
*
49336815 TTTTTTATTTGAGGTTGTAA--TA
1 TTTTTTATTT-AGTTTGTAATTTA
49336837 -TTTTTATTTTAGTTTGTAATTTA
1 TTTTTTA-TTTAGTTTGTAATTTA
49336860 TTTTTTATTTA-TTTGTGAATT
1 TTTTTTATTTAGTTTGT-AATT
49336881 GGTCCCGGGC
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 14 0.37
22 8 0.21
23 10 0.26
24 6 0.16
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (23 bp):
TTTTTTATTTAGTTTGTAATTTA
Found at i:49342358 original size:54 final size:55
Alignment explanation
Indices: 49342297--49342461 Score: 140
Period size: 54 Copynumber: 3.0 Consensus size: 55
49342287 GTCATGTTTT
*
49342297 AGACCGTGTAACTAATC-ATTTTAAGACACACGGTCTTGTCGCAAGCCATGTCCC
1 AGACCGTGTAACTAATCAATTTTAAGACACACGGTCATGTCGCAAGCCATGTCCC
* ** * * ** * * *
49342351 AGCCCGTGTGTGC-ATTCAATGTTGGGTCACACGGCCATGTCGCAAGCCGTG-CCTC
1 AGACCGTGT-AACTAATCAATTTTAAGACACACGGTCATGTCGCAAGCCATGTCC-C
* * * * *
49342406 AAACCGTGTAACTAA-CTATTTTAAGACACACGGTCGTGTCGCAAGTCATGTGCC
1 AGACCGTGTAACTAATCAATTTTAAGACACACGGTCATGTCGCAAGCCATGTCCC
49342460 AG
1 AG
49342462 GCTGTGTGAA
Statistics
Matches: 79, Mismatches: 27, Indels: 10
0.68 0.23 0.09
Matches are distributed among these distances:
54 42 0.53
55 37 0.47
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (55 bp):
AGACCGTGTAACTAATCAATTTTAAGACACACGGTCATGTCGCAAGCCATGTCCC
Found at i:49342392 original size:55 final size:55
Alignment explanation
Indices: 49342236--49342398 Score: 141
Period size: 55 Copynumber: 3.0 Consensus size: 55
49342226 CACAAAGTCG
* * * * *
49342236 TGTCCCAGCCCGTGTGTGCATTCAATGTTGGGTCACACGACCGTGTCGTAGGTCA
1 TGTCCCAGCCCGTGTGTGCATTCAATGTTGGGTCACACGGCCATGTCGCAAGCCA
*** * ** * * ** * * *
49342291 TGTTTTAGACCGTGT-AACTAATC-ATTTTAAGACACACGGTCTTGTCGCAAGCCA
1 TGTCCCAGCCCGTGTGTGC-ATTCAATGTTGGGTCACACGGCCATGTCGCAAGCCA
49342345 TGTCCCAGCCCGTGTGTGCATTCAATGTTGGGTCACACGGCCATGTCGCAAGCC
1 TGTCCCAGCCCGTGTGTGCATTCAATGTTGGGTCACACGGCCATGTCGCAAGCC
49342399 GTGCCTCAAA
Statistics
Matches: 75, Mismatches: 30, Indels: 6
0.68 0.27 0.05
Matches are distributed among these distances:
54 36 0.48
55 39 0.52
ACGTcount: A:0.20, C:0.27, G:0.25, T:0.28
Consensus pattern (55 bp):
TGTCCCAGCCCGTGTGTGCATTCAATGTTGGGTCACACGGCCATGTCGCAAGCCA
Found at i:49342469 original size:109 final size:109
Alignment explanation
Indices: 49342236--49342461 Score: 319
Period size: 109 Copynumber: 2.1 Consensus size: 109
49342226 CACAAAGTCG
* * * * ** * *
49342236 TGTCCCAGCCCGTGTGTGCATTCAATGTTGGGTCACACGACCGTGTCGTAGGTCATGTTTTAGAC
1 TGTCCCAGCCCGTGTGTGCATTCAATGTTGGGTCACACGACCATGTCGCAAGCCATGCCTCAAAC
*
49342301 CGTGTAACTAATCATTTTAAGACACACGGTCTTGTCGCAAGCCA
66 CGTGTAACTAATCATTTTAAGACACACGGTCGTGTCGCAAGCCA
* *
49342345 TGTCCCAGCCCGTGTGTGCATTCAATGTTGGGTCACACGGCCATGTCGCAAGCCGTGCCTCAAAC
1 TGTCCCAGCCCGTGTGTGCATTCAATGTTGGGTCACACGACCATGTCGCAAGCCATGCCTCAAAC
*
49342410 CGTGTAACTAA-CTATTTTAAGACACACGGTCGTGTCGCAAGTCA
66 CGTGTAACTAATC-ATTTTAAGACACACGGTCGTGTCGCAAGCCA
*
49342454 TGTGCCAG
1 TGTCCCAG
49342462 GCTGTGTGAA
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
108 1 0.01
109 102 0.99
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (109 bp):
TGTCCCAGCCCGTGTGTGCATTCAATGTTGGGTCACACGACCATGTCGCAAGCCATGCCTCAAAC
CGTGTAACTAATCATTTTAAGACACACGGTCGTGTCGCAAGCCA
Found at i:49343684 original size:34 final size:35
Alignment explanation
Indices: 49343610--49343684 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 35
49343600 GGATAAACCG
*
49343610 ACTAGTCGAATAAATCAACAAAGATTGTGCCCAAC
1 ACTAGTCGAATAAACCAACAAAGATTGTGCCCAAC
* * **
49343645 GCTAGTCGAAT-AACCGACAATAG-TTGTGCCCTGC
1 ACTAGTCGAATAAACCAACAA-AGATTGTGCCCAAC
49343679 ACTAGT
1 ACTAGT
49343685 TGGATGTGCC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
34 21 0.64
35 12 0.36
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.23
Consensus pattern (35 bp):
ACTAGTCGAATAAACCAACAAAGATTGTGCCCAAC
Found at i:49350611 original size:3 final size:3
Alignment explanation
Indices: 49350603--49350655 Score: 54
Period size: 3 Copynumber: 17.3 Consensus size: 3
49350593 TAATATTAAT
* * *
49350603 TTA TTA TTA TTA TTA TTA TTA TTA TTTG TTA TTT TTA TTGA -CA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT-A TTA TTA
49350649 TTA TTA T
1 TTA TTA T
49350656 ATTTGGTTAC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
2 1 0.02
3 37 0.90
4 3 0.07
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:49354538 original size:44 final size:45
Alignment explanation
Indices: 49354490--49354585 Score: 115
Period size: 45 Copynumber: 2.2 Consensus size: 45
49354480 CAATTTTAGA
* *
49354490 GAGATAAAATCTAT-TACTTT-AATCTGCTTCACTACAACCTCAGG
1 GAGATAAAAT-TATCGACTTTCAATCTGCTCCACTACAACCTCAGG
** * *
49354534 GAGATAGGATTATCGACTTTCAATCTGCTCCACTGCAACCTTAGG
1 GAGATAAAATTATCGACTTTCAATCTGCTCCACTACAACCTCAGG
49354579 GAGATAA
1 GAGATAA
49354586 GATTTGCTTC
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
43 3 0.07
44 13 0.30
45 27 0.63
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (45 bp):
GAGATAAAATTATCGACTTTCAATCTGCTCCACTACAACCTCAGG
Found at i:49354573 original size:45 final size:44
Alignment explanation
Indices: 49354505--49354589 Score: 125
Period size: 45 Copynumber: 1.9 Consensus size: 44
49354495 AAAATCTATT
* *
49354505 ACTTTAATCTGCTTCACTACAACCTCAGGGAGATAGGATTATCG
1 ACTTTAATCTGCTCCACTACAACCTCAGGGAGATAAGATTATCG
* *
49354549 ACTTTCAATCTGCTCCACTGCAACCTTAGGGAGATAAGATT
1 ACTTT-AATCTGCTCCACTACAACCTCAGGGAGATAAGATT
49354590 TGCTTCTTCG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 5 0.14
45 31 0.86
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
ACTTTAATCTGCTCCACTACAACCTCAGGGAGATAAGATTATCG
Found at i:49354748 original size:44 final size:44
Alignment explanation
Indices: 49354699--49354806 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 44
49354689 ACTCTACTGA
* *
49354699 AACTTC-GGAGAGATAAGATATAT-TACTTTAATCCGCTCCACTAC
1 AACTTCAGG-GAGATAAGAT-TATCGACTTCAATCCGCTCCACTAC
* * *
49354743 AACTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTAC
1 AACTTCAGGGAGATAAGATTATCGACTTCAATCCGCTCCACTAC
* *
49354787 AACCTCAAGGAGATAAGATT
1 AACTTCAGGGAGATAAGATT
49354807 TGCCATTTTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 3 0.06
44 49 0.91
45 2 0.04
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGATTATCGACTTCAATCCGCTCCACTAC
Found at i:49354847 original size:218 final size:217
Alignment explanation
Indices: 49354462--49354997 Score: 684
Period size: 218 Copynumber: 2.5 Consensus size: 217
49354452 GCAAGACTTG
** * * * * *
49354462 ATGCGATCTGCTCTACTGCAATTTTAGAGAGATAAAATCTATTACTTTAATCTGCTTCACTACAA
1 ATGCGATCCACTCTACTGAAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTCCACTACAA
* * * * *
49354527 CCTCAGGGAGATAGGATTATCGACTTTCAATCTGCTCCACTGCAACCTTAGGGAGATAAGATTTG
66 CTTCAGGGAGATAGGATTATCGGC-TTCAATCTGCTCCACTACAACCTCAAGGAGATAAGATTTG
** ** *
49354592 CTTCTTCGATCTGCCCCACTGTGACTTCAGGGGGATAAGACCTGCTTACTTAGCCTGAC-CCACT
130 CTTCTTCGATCTGCCCCACTGCAACTTCAAAGGGATAAGACCTGCTTACTCAGCCTG-CTCCACT
** * *
49354656 ATGACTTC-AGGGGAATAAGA-CTCA
194 ACAACCTCAAGGAG-ATAAGACCT-A
* * *
49354680 ATGCGATCCACTCTACTGAAACTTCGGAGAGATAAGATATATTACTTTAATCCGCTCCACTACAA
1 ATGCGATCCACTCTACTGAAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTCCACTACAA
49354745 CTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTACAACCTCAAGGAGATAAGATTTGC
66 CTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTACAACCTCAAGGAGATAAGATTTG-
* * **
49354810 CATT-TTCGATCTGTCCCACTGCAACTTCAAAGGGATAAGACCTGCTTACTCAGTCTGCTCTGCT
130 C-TTCTTCGATCTGCCCCACTGCAACTTCAAAGGGATAAGACCTGCTTACTCAGCCTGCTCCACT
* *
49354874 GCAACCTCAAGGAGATAAGACCTG
194 ACAACCTCAAGGAGATAAGACCTA
*
49354898 ATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTCCACTACAA
1 ATGCGATCCACTCTACTGAAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTCCACTACAA
* * *
49354963 CTTCAAGGAAATAGGATTATCAGCTTCAATCTGCT
66 CTTCAGGGAGATAGGATTATCGGCTTCAATCTGCT
49354998 TCCTTACACT
Statistics
Matches: 276, Mismatches: 37, Indels: 10
0.85 0.11 0.03
Matches are distributed among these distances:
217 38 0.14
218 230 0.83
219 8 0.03
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (217 bp):
ATGCGATCCACTCTACTGAAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTCCACTACAA
CTTCAGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTACAACCTCAAGGAGATAAGATTTGC
TTCTTCGATCTGCCCCACTGCAACTTCAAAGGGATAAGACCTGCTTACTCAGCCTGCTCCACTAC
AACCTCAAGGAGATAAGACCTA
Found at i:49355098 original size:169 final size:170
Alignment explanation
Indices: 49354884--49355239 Score: 511
Period size: 169 Copynumber: 2.1 Consensus size: 170
49354874 GCAACCTCAA
* * * *
49354884 GGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAAT
1 GGAGACAAGATCTGCTGCGATCCACTCTACTGCAACTTCAGAGAGATAAGAACTATTACTTTAAT
* *
49354949 CTGCTCCACTACAACTTCAAGGAAATAGGATTATCAGCTTCAATCTGCTTC-CT-TACACTT-GA
66 CTGCTCCACTACAACTTCAAGGAAACAGGATTATCAGCTTCAATCTGCTCCACTGTA-ACTTGGA
* *
49355011 AGATAGGATTTGCCGTCTTCGATATGCTCCGCTACTGCTTAG
130 A-ATAAGATTTGCCGTCTTCGATATGCCCCGCTACTGCTTAG
*
49355053 GGAGACAATATCTGCTGCGATCCACTCTACTGCAACTTCAGAGAGATAAGAACTATTACTTTAAT
1 GGAGACAAGATCTGCTGCGATCCACTCTACTGCAACTTCAGAGAGATAAGAACTATTACTTTAAT
* * * *
49355118 CTGCTCCACTACAACTTCAGGGATACAGGATTATCGGCTTCAATCTTCTCCACTGTAACTTCGGG
66 CTGCTCCACTACAACTTCAAGGAAACAGGATTATCAGCTTCAATCTGCTCCACTGTAACTT---G
* *
49355183 GAAATAAGATTTGTCGTCTTCGATCTGCCCCGCTACTGCTTAG
128 GAAATAAGATTTGCCGTCTTCGATATGCCCCGCTACTGCTTAG
49355226 GGAGACAAGATCTG
1 GGAGACAAGATCTG
49355240 TAATTTCCAA
Statistics
Matches: 165, Mismatches: 16, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
169 105 0.64
170 6 0.04
171 2 0.01
173 49 0.30
174 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (170 bp):
GGAGACAAGATCTGCTGCGATCCACTCTACTGCAACTTCAGAGAGATAAGAACTATTACTTTAAT
CTGCTCCACTACAACTTCAAGGAAACAGGATTATCAGCTTCAATCTGCTCCACTGTAACTTGGAA
ATAAGATTTGCCGTCTTCGATATGCCCCGCTACTGCTTAG
Found at i:49355336 original size:128 final size:128
Alignment explanation
Indices: 49355186--49355685 Score: 849
Period size: 128 Copynumber: 3.9 Consensus size: 128
49355176 CTTCGGGGAA
* * * **
49355186 ATAAGATTTGTCGTCTTCGATCTGCCCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAAC
1 ATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTACAATTTCCAAC
*
49355251 CTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTTCTTCCTTACACTTGAAG
66 CTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAG
* *
49355314 ATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAAGGAGACAAGATCTACAATTTCCTAC
1 ATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTACAATTTCCAAC
49355379 CTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAG
66 CTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAG
*
49355442 ATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCAACAATTTCCAAC
1 ATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTACAATTTCCAAC
49355507 CTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAG
66 CTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAG
** *
49355570 ATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCTAAC
1 ATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTACAATTTCCAAC
* * *
49355635 CTATTCCACTGCTGGTCAGGGACACAGG-CTCAGTGGCCTAAATCTGCTTCC
66 CTATTCCACTGCTGGTCAGGGACATAGGACT-TGTGGCTTAAATCTGCTTCC
49355686 CACTATCTTG
Statistics
Matches: 353, Mismatches: 18, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
127 2 0.01
128 351 0.99
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (128 bp):
ATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTACAATTTCCAAC
CTATTCCACTGCTGGTCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAG
Found at i:49357004 original size:7 final size:7
Alignment explanation
Indices: 49356992--49357041 Score: 68
Period size: 7 Copynumber: 7.1 Consensus size: 7
49356982 TTAGCCTCTC
49356992 CATTTTT
1 CATTTTT
49356999 CATTTTT
1 CATTTTT
49357006 CA-TTTT
1 CATTTTT
49357012 CA-TTTT
1 CATTTTT
49357018 CATTTTTT
1 CA-TTTTT
49357026 CATTTTT
1 CATTTTT
49357033 CATATTTT
1 CAT-TTTT
49357041 C
1 C
49357042 TGACTCAGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.30
7 17 0.43
8 11 0.28
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:49357921 original size:17 final size:17
Alignment explanation
Indices: 49357899--49357934 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
49357889 TAGTCTCTCC
*
49357899 TTTTCTTTTCCCTTTTT
1 TTTTCTTCTCCCTTTTT
*
49357916 TTTTCTTCTCTCTTTTT
1 TTTTCTTCTCCCTTTTT
49357933 TT
1 TT
49357935 ATTTTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTCTTCTCCCTTTTT
Found at i:49357941 original size:6 final size:6
Alignment explanation
Indices: 49357930--49358017 Score: 65
Period size: 6 Copynumber: 14.7 Consensus size: 6
49357920 CTTCTCTCTT
* * * *
49357930 TTTTTA TTTTTA TTTTGA CTTTGA TTTTGA TTTTGA TTTT-- TCTT-A
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
* * *
49357975 TTTGTGA CTTTGA TTTTGA TTTTTTCA CTTTGA TTTTGA TTTT
1 TTT-TGA TTTTGA TTTTGA --TTTTGA TTTTGA TTTTGA TTTT
49358018 TTTCTTTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
4 3 0.05
5 2 0.03
6 53 0.80
7 3 0.05
8 5 0.08
ACGTcount: A:0.15, C:0.06, G:0.11, T:0.68
Consensus pattern (6 bp):
TTTTGA
Found at i:49358006 original size:20 final size:20
Alignment explanation
Indices: 49357981--49358019 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
49357971 CTTATTTGTG
49357981 ACTTTGATTTTGATTTTTTC
1 ACTTTGATTTTGATTTTTTC
49358001 ACTTTGATTTTGATTTTTT
1 ACTTTGATTTTGATTTTTT
49358020 TCTTTTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.08, G:0.10, T:0.67
Consensus pattern (20 bp):
ACTTTGATTTTGATTTTTTC
Found at i:49358019 original size:28 final size:26
Alignment explanation
Indices: 49357942--49358017 Score: 98
Period size: 28 Copynumber: 2.8 Consensus size: 26
49357932 TTTATTTTTA
*
49357942 TTTTGACTTTGATTTTGATTTTGATT
1 TTTTCACTTTGATTTTGATTTTGATT
* * *
49357968 TTTCTTATTTGTGACTTTGATTTTGATT
1 TTT-TCACTT-TGATTTTGATTTTGATT
49357996 TTTTCACTTTGATTTTGATTTT
1 TTTTCACTTTGATTTTGATTTT
49358018 TTTCTTTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
26 15 0.36
27 8 0.19
28 19 0.45
ACGTcount: A:0.14, C:0.07, G:0.13, T:0.66
Consensus pattern (26 bp):
TTTTCACTTTGATTTTGATTTTGATT
Found at i:49367005 original size:6 final size:6
Alignment explanation
Indices: 49366996--49367024 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
49366986 ATCCCTCCAT
49366996 CTCCTG CTCCTG CTCCTG CTCCTG CTCCT
1 CTCCTG CTCCTG CTCCTG CTCCTG CTCCT
49367025 TTCTCTCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.14, T:0.34
Consensus pattern (6 bp):
CTCCTG
Found at i:49368626 original size:24 final size:23
Alignment explanation
Indices: 49368582--49368626 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
49368572 ATTGTAATGC
*
49368582 ATTTAGTATTGTTAATCTGATGT
1 ATTTAGTATTGTTAATATGATGT
* *
49368605 ATTTAGTGTTTGTTAGTATGAT
1 ATTTAGT-ATTGTTAATATGAT
49368627 TAATTAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.24, C:0.02, G:0.20, T:0.53
Consensus pattern (23 bp):
ATTTAGTATTGTTAATATGATGT
Found at i:49374598 original size:49 final size:48
Alignment explanation
Indices: 49374526--49374622 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 48
49374516 TGAGGGAATT
* **
49374526 CTGTTGAATCCTTTATCGTTGCGAGATTAGGCTGACTTAGGTGTTTTTA
1 CTGTTGAATCCTTTATCATTGCGAG-TTAGGCTGACTTAGACGTTTTTA
49374575 CTGTTGAATCCTTTATCATTGCGAGTTAGGCTGACTTAGACGTTTTTA
1 CTGTTGAATCCTTTATCATTGCGAGTTAGGCTGACTTAGACGTTTTTA
49374623 AGCAAGGAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
48 21 0.47
49 24 0.53
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.42
Consensus pattern (48 bp):
CTGTTGAATCCTTTATCATTGCGAGTTAGGCTGACTTAGACGTTTTTA
Found at i:49375973 original size:48 final size:49
Alignment explanation
Indices: 49375878--49375974 Score: 133
Period size: 49 Copynumber: 2.0 Consensus size: 49
49375868 TGAGGGAATT
* * * * **
49375878 CTGTTGAATCCTTTATCGTTGCGAGATTAGGCTGACTTAGGTGTTTTTA
1 CTGTTGAATCCTTTATCATTGCAAGATTAGGATGACTTAAGCATTTTTA
49375927 CTGTTGAATCCTTTATCATTGCAAG-TTAGGATGACTTAAGCATTTTTA
1 CTGTTGAATCCTTTATCATTGCAAGATTAGGATGACTTAAGCATTTTTA
49375975 AGCAAGGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 19 0.45
49 23 0.55
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (49 bp):
CTGTTGAATCCTTTATCATTGCAAGATTAGGATGACTTAAGCATTTTTA
Found at i:49379120 original size:48 final size:48
Alignment explanation
Indices: 49379038--49379131 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
49379028 TTTCTTGGCT
* * *
49379038 TAAAAATGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
49379086 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
49379132 AGAATTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:49381633 original size:48 final size:48
Alignment explanation
Indices: 49381551--49381644 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
49381541 TTTCTTGGCT
* *
49381551 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
49381599 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
49381645 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:49384815 original size:23 final size:23
Alignment explanation
Indices: 49384785--49384832 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
49384775 CAGCCCATGG
49384785 CACCTACTCATAAAAGATGCCTA
1 CACCTACTCATAAAAGATGCCTA
49384808 CACCTACTCATAAAAGATGCCTA
1 CACCTACTCATAAAAGATGCCTA
49384831 CA
1 CA
49384833 AAGTTATGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.31, G:0.08, T:0.21
Consensus pattern (23 bp):
CACCTACTCATAAAAGATGCCTA
Found at i:49385436 original size:50 final size:50
Alignment explanation
Indices: 49385377--49385476 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
49385367 TGAGACAAAA
49385377 AAGGAATTCTTACTGCAGAAATTTATTTTATTTTCCTTTAAAAGGAATTC
1 AAGGAATTCTTACTGCAGAAATTTATTTTATTTTCCTTTAAAAGGAATTC
49385427 AAGGAATTCTTACTGCAGAAATTTATTTTATTTTCCTTTAAAAGGAATTC
1 AAGGAATTCTTACTGCAGAAATTTATTTTATTTTCCTTTAAAAGGAATTC
49385477 TTACTGCAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (50 bp):
AAGGAATTCTTACTGCAGAAATTTATTTTATTTTCCTTTAAAAGGAATTC
Found at i:49385498 original size:50 final size:48
Alignment explanation
Indices: 49385377--49385517 Score: 153
Period size: 50 Copynumber: 2.8 Consensus size: 48
49385367 TGAGACAAAA
*
49385377 AAGGAATTCTTACTGCAGAAATTTATTTTATTTTCCTTTAAAAGGAATTC
1 AAGGAAATCTTACT--AGAAATTTATTTTATTTTCCTTTAAAAGGAATTC
*
49385427 AAGGAATTCTTACTGCAGAAATTTATTTTATTTTCCTTTAAAAGGAATTC
1 AAGGAAATCTTACT--AGAAATTTATTTTATTTTCCTTTAAAAGGAATTC
*
49385477 TTACTGCAGAAAT-TTA-T-GAAATTTATTTTATTTTCCTTTAA
1 --A-AG--GAAATCTTACTAGAAATTTATTTTATTTTCCTTTAA
49385518 GGATGCTAAT
Statistics
Matches: 84, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
50 74 0.88
52 1 0.01
53 2 0.02
54 3 0.04
55 4 0.05
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (48 bp):
AAGGAAATCTTACTAGAAATTTATTTTATTTTCCTTTAAAAGGAATTC
Found at i:49388039 original size:16 final size:17
Alignment explanation
Indices: 49388013--49388047 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
49388003 TTGCTTTTTG
49388013 TTTTTAGTTTTTTATTT
1 TTTTTAGTTTTTTATTT
49388030 TTTTTA-TTTTTTATTT
1 TTTTTAGTTTTTTATTT
49388046 TT
1 TT
49388048 ATTTTGCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (17 bp):
TTTTTAGTTTTTTATTT
Found at i:49391623 original size:24 final size:24
Alignment explanation
Indices: 49391585--49391643 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
49391575 TGAATGTTTA
49391585 CATT-TTTTTT-ATT-AATTTGAT
1 CATTATTTTTTAATTAAATTTGAT
** *
49391606 TTTTATTTTTTAAGTTAAATTTGGT
1 CATTATTTTTTAA-TTAAATTTGAT
49391631 CATTATTTTTTAA
1 CATTATTTTTTAA
49391644 AAAAATTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 2 0.07
22 6 0.21
23 1 0.03
24 2 0.07
25 18 0.62
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.64
Consensus pattern (24 bp):
CATTATTTTTTAATTAAATTTGAT
Found at i:49393761 original size:16 final size:16
Alignment explanation
Indices: 49393722--49393753 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49393712 TGTTCCAATG
*
49393722 CATATTTAGTACTATA
1 CATAATTAGTACTATA
49393738 CATAATTAGTACTATA
1 CATAATTAGTACTATA
49393754 TCACATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (16 bp):
CATAATTAGTACTATA
Found at i:49394903 original size:30 final size:32
Alignment explanation
Indices: 49394864--49394943 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 32
49394854 AATGTCGACT
* *
49394864 AACAAAGATGATGAGGAGGTG-AGA-CCAACG
1 AACAAAGATGACGAGGAGATGCAGAGCCAACG
* * *
49394894 AACAGAGATGAGGAGGAGATGCAGAGGCCGACG
1 AACAAAGATGACGAGGAGATGCAGA-GCCAACG
49394927 AACAAAGATGACGAGGA
1 AACAAAGATGACGAGGA
49394944 ATGGAGAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 18 0.44
31 3 0.07
33 20 0.49
ACGTcount: A:0.42, C:0.14, G:0.36, T:0.07
Consensus pattern (32 bp):
AACAAAGATGACGAGGAGATGCAGAGCCAACG
Found at i:49394936 original size:33 final size:30
Alignment explanation
Indices: 49394859--49394943 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
49394849 GGGTGAATGT
* * *
49394859 CGACTAACAAAGATGATGAGGAGGTGAGAC
1 CGACGAACAAAGATGACGAGGAGATGAGAC
* * *
49394889 CAACGAACAGAGATGAGGAGGAGATGCAGAGGC
1 CGACGAACAAAGATGACGAGGAGATG-AGA--C
49394922 CGACGAACAAAGATGACGAGGA
1 CGACGAACAAAGATGACGAGGA
49394944 ATGGAGAACA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
30 21 0.48
31 3 0.07
33 20 0.45
ACGTcount: A:0.41, C:0.15, G:0.35, T:0.08
Consensus pattern (30 bp):
CGACGAACAAAGATGACGAGGAGATGAGAC
Found at i:49399475 original size:24 final size:25
Alignment explanation
Indices: 49399448--49399494 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
49399438 TAACAGGTAA
49399448 CTCCAAAGAGCTAT-TATCAGGAAG
1 CTCCAAAGAGCTATATATCAGGAAG
** *
49399472 CTCCGGATAGCTATATATCAGGA
1 CTCCAAAGAGCTATATATCAGGA
49399495 TGTTCAAGCG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (25 bp):
CTCCAAAGAGCTATATATCAGGAAG
Found at i:49401001 original size:41 final size:41
Alignment explanation
Indices: 49400955--49401059 Score: 156
Period size: 41 Copynumber: 2.6 Consensus size: 41
49400945 CAGTGATATC
* * **
49400955 CAGGCTTTGTGCCTAGGAGGCTTTATGCCGGTGAATTTTAT
1 CAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTAGAT
* *
49400996 CAGGCTTTATGCCTAGCAGGCTTTATGCTGGTGTATTAGAT
1 CAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTAGAT
49401037 CAGGCTTTATGCCTAGCAGGCTT
1 CAGGCTTTATGCCTAGCAGGCTT
49401060 CGTGCCGGAG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.18, C:0.19, G:0.28, T:0.35
Consensus pattern (41 bp):
CAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTAGAT
Found at i:49409839 original size:25 final size:25
Alignment explanation
Indices: 49409781--49409855 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 25
49409771 ATGCTCATAC
* *
49409781 GAGCACATA-AACAGGAAGCTCTCTTT
1 GAGC-CATATAACAGGAAGCTC-ATGT
49409807 CGAGCCATATAAC-GTGAAGCTCATGT
1 -GAGCCATATAACAG-GAAGCTCATGT
*
49409833 GAGCCATGTAACAGGAAGCTCAT
1 GAGCCATATAACAGGAAGCTCAT
49409856 TCGAGTTGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
25 20 0.48
26 8 0.19
27 14 0.33
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATGT
Found at i:49411060 original size:31 final size:31
Alignment explanation
Indices: 49410998--49411056 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
49410988 TTATTTAATT
*
49410998 AATTTATCATCTTTTATTATTTCATATTTCC
1 AATTTATCATCTTTTATTATTTAATATTTCC
*
49411029 AATTTAGTCAT-TTTTTTTATTTAA-ATTT
1 AATTTA-TCATCTTTTATTATTTAATATTT
49411057 TCCATTGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 4 0.16
31 17 0.68
32 4 0.16
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (31 bp):
AATTTATCATCTTTTATTATTTAATATTTCC
Found at i:49427775 original size:35 final size:35
Alignment explanation
Indices: 49427736--49427814 Score: 140
Period size: 35 Copynumber: 2.3 Consensus size: 35
49427726 TTTTAAAATG
49427736 GCTATAATAGTATATTCATTTGTGCTAGTTGATAA
1 GCTATAATAGTATATTCATTTGTGCTAGTTGATAA
49427771 GCTATAATAGTATATTCATTTGTGCTAGTTGATAA
1 GCTATAATAGTATATTCATTTGTGCTAGTTGATAA
**
49427806 TATATAATA
1 GCTATAATA
49427815 ATGTATGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.43
Consensus pattern (35 bp):
GCTATAATAGTATATTCATTTGTGCTAGTTGATAA
Found at i:49429958 original size:15 final size:15
Alignment explanation
Indices: 49429935--49429971 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
49429925 GTAACTCTTA
*
49429935 TATTTCTCAGTCGCT
1 TATTGCTCAGTCGCT
49429950 TATTGCTCAGTCGCT
1 TATTGCTCAGTCGCT
49429965 TATTGCT
1 TATTGCT
49429972 TCCATCACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.14, C:0.24, G:0.16, T:0.46
Consensus pattern (15 bp):
TATTGCTCAGTCGCT
Found at i:49431114 original size:3 final size:3
Alignment explanation
Indices: 49431108--49431137 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
49431098 GTTGTTGTTG
49431108 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
49431138 AACTGTTATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:49443885 original size:9 final size:9
Alignment explanation
Indices: 49443868--49443904 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
49443858 TGAGTTTTCG
*
49443868 AATTTGAAT
1 AATTCGAAT
49443877 AATTCGAAT
1 AATTCGAAT
*
49443886 AATTCAAAT
1 AATTCGAAT
49443895 AATTCGAAT
1 AATTCGAAT
49443904 A
1 A
49443905 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (9 bp):
AATTCGAAT
Found at i:49453129 original size:18 final size:18
Alignment explanation
Indices: 49453106--49453141 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
49453096 CCTTGGTCTC
49453106 CAAGTAAAAAGATAAGGA
1 CAAGTAAAAAGATAAGGA
*
49453124 CAAGTATAAAGATAAGGA
1 CAAGTAAAAAGATAAGGA
49453142 TAGAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.22, T:0.14
Consensus pattern (18 bp):
CAAGTAAAAAGATAAGGA
Found at i:49458109 original size:69 final size:69
Alignment explanation
Indices: 49457991--49458360 Score: 256
Period size: 69 Copynumber: 5.4 Consensus size: 69
49457981 TCTTATAATG
* * * * * * *
49457991 TCAACTGGGAGCATAGG-TCTGCGAGCTGCTTTAGAAGTTGTGGTTTTAAACCGTCAAACCTTTA
1 TCAACTGGAAGCGTAGGTTC-GCTAGCTGCTTTAGAGGTTATGATCTTAAACCGTCAAACCTTTA
*
49458055 GGACA
65 TGACA
* *
49458060 TCAACTGGAAGCGTATGTTCGCTAGCTGCTTTAGAGGTT-TCGATCTTAAACCGTTAAACCTTTA
1 TCAACTGGAAGCGTAGGTTCGCTAGCTGCTTTAGAGGTTAT-GATCTTAAACCGTCAAACCTTTA
49458124 TGACA
65 TGACA
* * * * * *
49458129 TCAACTAGGAA-TGTAGGTTTGCTAGTTACTTTGGAGGTTATGATCTTAAACCGTCAAACCTCTA
1 TCAACT-GGAAGCGTAGGTTCGCTAGCTGCTTTAGAGGTTATGATCTTAAACCGTCAAACCTTTA
49458193 TGACA
65 TGACA
* * * * ** * * * * *
49458198 TCAACTGGGAGCGTAGG-TCTGCTAGTTG-TATTGGA-GCTGCGAGCTT-AACTCTTCGAGCTTT
1 TCAACTGGAAGCGTAGGTTC-GCTAGCTGCT-TTAGAGGTTATGATCTTAAAC-CGTCAAACCTT
49458259 TAT-A-A
63 TATGACA
* * * * * * * *
49458264 TGCCAGCTGGGAGCGTGGGTCCGCTAGCTACTTTGGAGGTTACGACCTTAAACCGTCAAACCTTT
1 T--CAACTGGAAGCGTAGGTTCGCTAGCTGCTTTAGAGGTTATGATCTTAAACCGTCAAACCTTT
49458329 ATGACA
64 ATGACA
* * *
49458335 TCAGCTGG-AGCGTAGGTCCGTTAGCT
1 TCAACTGGAAGCGTAGGTTCGCTAGCT
49458361 ATGCTGGAGC
Statistics
Matches: 241, Mismatches: 44, Indels: 33
0.76 0.14 0.10
Matches are distributed among these distances:
66 2 0.01
67 4 0.02
68 63 0.26
69 159 0.66
70 11 0.05
71 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (69 bp):
TCAACTGGAAGCGTAGGTTCGCTAGCTGCTTTAGAGGTTATGATCTTAAACCGTCAAACCTTTAT
GACA
Found at i:49458290 original size:68 final size:68
Alignment explanation
Indices: 49458202--49458494 Score: 202
Period size: 68 Copynumber: 4.3 Consensus size: 68
49458192 ATGACATCAA
* * * * *
49458202 CTGGGAGCGTAGGTCTGCTAGTTGTATTGGAGCTGCGAGCTTAACTCTTCGAGCTTTTATAATGC
1 CTGGGAGCGTAGGTCCGCTAGTTGTGTTGGAGCTACGAGCTTAACTCTTCAAGCTCTTATAATGC
49458267 CAG
66 CAG
* ** * * * *
49458270 CTGGGAGCGTGGGTCCGCTAGCTACT-TTGGAGGTTACGACCTTAAAC-CGTCAAAC-CTT-T-A
1 CTGGGAGCGTAGGTCCGCTAG-TTGTGTTGGA-GCTACGAGCTT-AACTCTTCAAGCTCTTATAA
49458330 TGACATCAG
63 TG-C--CAG
* * * * * * *
49458339 CT-GGAGCGTAGGTCCGTTAGCTATGCTGGAGCTGCGAGCTTAACTCTGCAAGCTCTTATAATGT
1 CTGGGAGCGTAGGTCCGCTAGTTGTGTTGGAGCTACGAGCTTAACTCTTCAAGCTCTTATAATGC
*
49458403 TAG
66 CAG
** ** ** * * *
49458406 CTAAGAGCGTAGGTTTGCTAGTTGTGTCAGAGTTACGAGCTTAACTCTACGAGCTCTTATAATGC
1 CTGGGAGCGTAGGTCCGCTAGTTGTGTTGGAGCTACGAGCTTAACTCTTCAAGCTCTTATAATGC
49458471 CAG
66 CAG
* * *
49458474 TTGGGAGCTTAAGTCCGCTAG
1 CTGGGAGCGTAGGTCCGCTAG
49458495 CTGCTTTGGA
Statistics
Matches: 166, Mismatches: 47, Indels: 24
0.70 0.20 0.10
Matches are distributed among these distances:
66 6 0.04
67 20 0.12
68 113 0.68
69 21 0.13
70 6 0.04
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (68 bp):
CTGGGAGCGTAGGTCCGCTAGTTGTGTTGGAGCTACGAGCTTAACTCTTCAAGCTCTTATAATGC
CAG
Found at i:49458426 original size:136 final size:137
Alignment explanation
Indices: 49458141--49458426 Score: 376
Period size: 136 Copynumber: 2.1 Consensus size: 137
49458131 AACTAGGAAT
* * *
49458141 GTAGGTTTGCTAGTTACTTTGGAGGTTATGATCTTAAACCGTCAAACCTCTATGACATCAACTGG
1 GTAGGTTTGCTAGCTACTTTGGAGGTTACGACCTTAAACCGTCAAACCTCTATGACATCAACTGG
* * * * * * *
49458206 GAGCGTAGGTCTGCTAGTTGTATTGGAGCTGCGAGCTTAACTCTTCGAGCTTTTATAATGCCAGC
66 GAGCGTAGGTCCGCTAGCTATACTGGAGCTGCGAGCTTAACTCTGCAAGCTCTTATAATGCCAGC
**
49458271 TGGGAGC
131 TAAGAGC
* ** * *
49458278 GTGGGTCCGCTAGCTACTTTGGAGGTTACGACCTTAAACCGTCAAACCTTTATGACATCAGCT-G
1 GTAGGTTTGCTAGCTACTTTGGAGGTTACGACCTTAAACCGTCAAACCTCTATGACATCAACTGG
* * **
49458342 GAGCGTAGGTCCGTTAGCTATGCTGGAGCTGCGAGCTTAACTCTGCAAGCTCTTATAATGTTAGC
66 GAGCGTAGGTCCGCTAGCTATACTGGAGCTGCGAGCTTAACTCTGCAAGCTCTTATAATGCCAGC
49458407 TAAGAGC
131 TAAGAGC
49458414 GTAGGTTTGCTAG
1 GTAGGTTTGCTAG
49458427 TTGTGTCAGA
Statistics
Matches: 125, Mismatches: 24, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
136 70 0.56
137 55 0.44
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (137 bp):
GTAGGTTTGCTAGCTACTTTGGAGGTTACGACCTTAAACCGTCAAACCTCTATGACATCAACTGG
GAGCGTAGGTCCGCTAGCTATACTGGAGCTGCGAGCTTAACTCTGCAAGCTCTTATAATGCCAGC
TAAGAGC
Found at i:49462954 original size:42 final size:41
Alignment explanation
Indices: 49462890--49463043 Score: 170
Period size: 42 Copynumber: 3.7 Consensus size: 41
49462880 CGTGTTTTAC
* * * *
49462890 TTTCTGTTTAGCTATTACGAGCTTCTATTTAACTCATATGAG
1 TTTCTGTTTAGCTCTTATGAGCTTCTGTTCAACTC-TATGAG
* *
49462932 TTTCTATTTAGGTCTTATGAGCTTCTGTTCAACTCTTATGAG
1 TTTCTGTTTAGCTCTTATGAGCTTCTGTTCAACTC-TATGAG
*
49462974 TTT-T-TTTCAGCTCTTATGAGTTTCTGTTCAACTCTAATCG-G
1 TTTCTGTTT-AGCTCTTATGAGCTTCTGTTCAACTCT-AT-GAG
*
49463015 TTTTTGTTTAGCTCTTATGAGCTTCTGTT
1 TTTCTGTTTAGCTCTTATGAGCTTCTGTT
49463044 TAGCTCTCAT
Statistics
Matches: 97, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
40 4 0.04
41 31 0.32
42 59 0.61
43 3 0.03
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.49
Consensus pattern (41 bp):
TTTCTGTTTAGCTCTTATGAGCTTCTGTTCAACTCTATGAG
Found at i:49462968 original size:21 final size:21
Alignment explanation
Indices: 49462891--49463059 Score: 137
Period size: 21 Copynumber: 8.1 Consensus size: 21
49462881 GTGTTTTACT
* *
49462891 TTCTGTTTAGCTATTACGAGC
1 TTCTGTTTAGCTCTTATGAGC
* * * *
49462912 TTCTATTTAACTCATATGAGT
1 TTCTGTTTAGCTCTTATGAGC
* *
49462933 TTCTATTTAGGTCTTATGAGC
1 TTCTGTTTAGCTCTTATGAGC
* *
49462954 TTCTGTTCAACTCTTATGAG-
1 TTCTGTTTAGCTCTTATGAGC
* *
49462974 TT-TTTTTCAGCTCTTATGAGT
1 TTCTGTTT-AGCTCTTATGAGC
* * * *
49462995 TTCTGTTCAACTCTAATCG-GT
1 TTCTGTTTAGCTCTTAT-GAGC
*
49463016 TTTTGTTTAGCTCTTATGAGC
1 TTCTGTTTAGCTCTTATGAGC
*
49463037 TTCTGTTTAGCTCTCATGAGC
1 TTCTGTTTAGCTCTTATGAGC
49463058 TT
1 TT
49463060 TTATTCAGTT
Statistics
Matches: 115, Mismatches: 28, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
19 3 0.03
20 14 0.12
21 94 0.82
22 4 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (21 bp):
TTCTGTTTAGCTCTTATGAGC
Found at i:49470403 original size:21 final size:21
Alignment explanation
Indices: 49470378--49470490 Score: 79
Period size: 21 Copynumber: 5.4 Consensus size: 21
49470368 TTTTTAGCTT
49470378 TTATGAGCTTCTATTTAACTC
1 TTATGAGCTTCTATTTAACTC
* *
49470399 GTATGAG-TT-TATGTTCAGCTC
1 TTATGAGCTTCTAT-TT-AACTC
* * *
49470420 TTATGAGCTTCTGTTAAACCC
1 TTATGAGCTTCTATTTAACTC
* * *
49470441 TTATGAGCTTCTGTTAAACCC
1 TTATGAGCTTCTATTTAACTC
* * *
49470462 TTATCG-GTTTCTGTTTAGCTC
1 TTAT-GAGCTTCTATTTAACTC
49470483 TTATGAGC
1 TTATGAGC
49470491 CTTTGTTCAG
Statistics
Matches: 74, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
19 3 0.04
20 5 0.07
21 60 0.81
22 4 0.05
23 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.43
Consensus pattern (21 bp):
TTATGAGCTTCTATTTAACTC
Found at i:49470465 original size:42 final size:42
Alignment explanation
Indices: 49470378--49470465 Score: 95
Period size: 42 Copynumber: 2.1 Consensus size: 42
49470368 TTTTTAGCTT
* * * * * *
49470378 TTATGAGCTTCTATTTAACTCGTATGAGTTTATGTTCAGCTC
1 TTATGAGCTTCTATTAAACCCGTATGAGCTTATGTTAAACCC
* * *
49470420 TTATGAGCTTCTGTTAAACCCTTATGAGCTTCTGTTAAACCC
1 TTATGAGCTTCTATTAAACCCGTATGAGCTTATGTTAAACCC
49470462 TTAT
1 TTAT
49470466 CGGTTTCTGT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.43
Consensus pattern (42 bp):
TTATGAGCTTCTATTAAACCCGTATGAGCTTATGTTAAACCC
Found at i:49472241 original size:37 final size:37
Alignment explanation
Indices: 49472189--49472270 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
49472179 TTAGTGTCGA
**
49472189 GGCGTGTTATTGGTTGGATTAGCTCTCATGAGCATTT
1 GGCGTGTTAACGGTTGGATTAGCTCTCATGAGCATTT
*
49472226 GGCGTGTTAACGGTTGGATTAGCTCTTATGAGCATTT
1 GGCGTGTTAACGGTTGGATTAGCTCTCATGAGCATTT
*
49472263 GGGGTGTT
1 GGCGTGTT
49472271 TTGGTTGGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.16, C:0.12, G:0.33, T:0.39
Consensus pattern (37 bp):
GGCGTGTTAACGGTTGGATTAGCTCTCATGAGCATTT
Found at i:49477596 original size:31 final size:32
Alignment explanation
Indices: 49477537--49477601 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
49477527 GGCAAATTAC
49477537 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
49477569 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
49477600 AA
1 AA
49477602 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:49485525 original size:21 final size:22
Alignment explanation
Indices: 49485501--49485552 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
49485491 ATACGCATAT
49485501 TTATTTTTT-T-TTATAATGTAA
1 TTATTTTTTCTATT-TAATGTAA
*
49485522 TTATTATTTTCTATTTTATGTAA
1 TTATT-TTTTCTATTTAATGTAA
49485545 TTATTTTT
1 TTATTTTT
49485553 ATAATCTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 5 0.19
22 7 0.26
23 13 0.48
24 2 0.07
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (22 bp):
TTATTTTTTCTATTTAATGTAA
Found at i:49488609 original size:4 final size:4
Alignment explanation
Indices: 49488600--49488624 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
49488590 TAAAGTTTTA
49488600 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
49488625 TACTTAGTTT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:49496421 original size:13 final size:13
Alignment explanation
Indices: 49496403--49496434 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
49496393 TATCACCATT
49496403 ACAATGATTTAAA
1 ACAATGATTTAAA
49496416 ACAATGATTTAAA
1 ACAATGATTTAAA
49496429 ACAATG
1 ACAATG
49496435 GCAATGCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.28
Consensus pattern (13 bp):
ACAATGATTTAAA
Found at i:49496452 original size:31 final size:31
Alignment explanation
Indices: 49496417--49496475 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
49496407 TGATTTAAAA
49496417 CAATGATTTAAAACAATGGCAATGCAAAGAC
1 CAATGATTTAAAACAATGGCAATGCAAAGAC
49496448 CAATGATTTAAAACAATGGCAATGCAAA
1 CAATGATTTAAAACAATGGCAATGCAAA
49496476 ATCAAAAGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.20
Consensus pattern (31 bp):
CAATGATTTAAAACAATGGCAATGCAAAGAC
Found at i:49501732 original size:20 final size:21
Alignment explanation
Indices: 49501707--49501754 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
49501697 TTGCAAAAAC
49501707 TATAAAAGCTATTTAAAAATT
1 TATAAAAGCTATTTAAAAATT
***
49501728 T-TAAATTTTATTTAAAAATT
1 TATAAAAGCTATTTAAAAATT
49501748 TATAAAA
1 TATAAAA
49501755 ATATAAACTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
TATAAAAGCTATTTAAAAATT
Found at i:49501827 original size:10 final size:10
Alignment explanation
Indices: 49501812--49501836 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
49501802 ATTAAAATTG
49501812 TAAAATATTT
1 TAAAATATTT
49501822 TAAAATATTT
1 TAAAATATTT
49501832 TAAAA
1 TAAAA
49501837 AACCTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TAAAATATTT
Found at i:49501845 original size:46 final size:47
Alignment explanation
Indices: 49501751--49501846 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 47
49501741 AAAAATTTAT
* * *
49501751 AAAAATATAAACTTGTAAAATTCTTAAAAATTGTAAATAATCGTTAA
1 AAAAATATAAAATTGTAAAATTCTTAAAAATTGTAAATAAACGCTAA
* *
49501798 AAAAAT-TAAAATTGTAAAATATTTTAAAATATTTTAAA-AAAC-CTAA
1 AAAAATATAAAATTGTAAAAT-TCTTAAAA-ATTGTAAATAAACGCTAA
49501844 AAA
1 AAA
49501847 TTATAATAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
46 19 0.45
47 16 0.38
48 7 0.17
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.33
Consensus pattern (47 bp):
AAAAATATAAAATTGTAAAATTCTTAAAAATTGTAAATAAACGCTAA
Found at i:49501891 original size:10 final size:10
Alignment explanation
Indices: 49501878--49501931 Score: 53
Period size: 9 Copynumber: 5.7 Consensus size: 10
49501868 ATTTTTTTAC
49501878 AAATTTTAAT
1 AAATTTTAAT
*
49501888 AAATTTT-AC
1 AAATTTTAAT
*
49501897 AACTTTT--T
1 AAATTTTAAT
49501905 AATATTTTAAT
1 AA-ATTTTAAT
49501916 AAATTTTAA-
1 AAATTTTAAT
49501925 AAATTTT
1 AAATTTT
49501932 GCAATTTCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
8 2 0.05
9 18 0.49
10 14 0.38
11 3 0.08
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (10 bp):
AAATTTTAAT
Found at i:49501896 original size:19 final size:19
Alignment explanation
Indices: 49501872--49501931 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
49501862 AAAAACATTT
49501872 TTTTACAAATTTTAATAAA
1 TTTTACAAATTTTAATAAA
*
49501891 TTTTACAACTTTT--TAATA
1 TTTTACAAATTTTAATAA-A
*
49501909 TTTTAATAAATTTTAA-AAA
1 TTTT-ACAAATTTTAATAAA
49501928 TTTT
1 TTTT
49501932 GCAATTTCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
17 3 0.09
18 5 0.15
19 24 0.71
20 2 0.06
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTACAAATTTTAATAAA
Found at i:49510042 original size:21 final size:23
Alignment explanation
Indices: 49510017--49510065 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
49510007 TATTCTCACC
49510017 TTTTAT-TTATT-TA-ATAATTCT
1 TTTTATGTTATTATACATAATT-T
49510038 TTTTATGTTATTATACATAATTT
1 TTTTATGTTATTATACATAATTT
49510061 TTTTA
1 TTTTA
49510066 CTCAAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.24
22 5 0.20
23 8 0.32
24 6 0.24
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTATGTTATTATACATAATTT
Found at i:49512467 original size:3 final size:3
Alignment explanation
Indices: 49512449--49512500 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
49512439 TGTTTAATTA
* * *
49512449 ATT ATT -TT AGT ATT ATT ATT ATT AAT ATT ATT ATT ACT ATT AATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
49512494 ATT ATT A
1 ATT ATT A
49512501 GTTTTGTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:49524602 original size:100 final size:98
Alignment explanation
Indices: 49524429--49524768 Score: 441
Period size: 100 Copynumber: 3.4 Consensus size: 98
49524419 AAACCATAGT
* *
49524429 TTGCAATTAAAAAGATTGAGGCCACAACGGTGAATCTTACTTTCCAGG-TAGTGTAGTGGAACAA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGCGAATCTTAC-TTCCAGGCGA-TGTAGTGGAACAA
* *
49524493 ATTGAAGCTACAACGATGAATCTTGCTCCCTCGAAA
64 ATTGAAGCTACAACGACGAATCTTGCTCCC-CGACA
* * * *
49524529 TTGCAATTAAAAAGATTGAGGCTACAACGGTGAATCTTACTTCCTAGGCGATGCAGTGGAACATA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGCGAATCTTACTTCC-AGGCGATGTAGTGGAACAAA
49524594 TTGAAGCTACAACGACGAATCTTGCTACCCCGACA
65 TTGAAGCTACAACGACGAATCTTGCT-CCCCGACA
** * * *
49524629 TTGCAATTAAAAAGATTGAGGTTACAACGGCGAATCTTACTTCCCAGGCGGTGTAGTGGAATAGA
1 TTGCAATTAAAAAGATTGAGGCCACAACGGCGAATCTTACTT-CCAGGCGATGTAGTGGAACAAA
* *
49524694 TTGAAACTACAACGGCGAATCTT-CTTCCCCCGACA
65 TTGAAGCTACAACGACGAATCTTGC-T-CCCCGACA
* *
49524729 TTGCAATCAAAAAGATTGAGGCCACAACGGCAAATCTTAC
1 TTGCAATTAAAAAGATTGAGGCCACAACGGCGAATCTTAC
49524769 ATTGAGGCCA
Statistics
Matches: 216, Mismatches: 19, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
99 5 0.02
100 205 0.95
101 6 0.03
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (98 bp):
TTGCAATTAAAAAGATTGAGGCCACAACGGCGAATCTTACTTCCAGGCGATGTAGTGGAACAAAT
TGAAGCTACAACGACGAATCTTGCTCCCCGACA
Found at i:49524695 original size:50 final size:50
Alignment explanation
Indices: 49524438--49524722 Score: 184
Period size: 50 Copynumber: 5.7 Consensus size: 50
49524428 TTTGCAATTA
* * * * * *
49524438 AAAAGATTGAGGCCACAACGGTGAATCTTACTTTCCAGG-TAGTGTAGTGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGTGG
** * ** ** * **
49524488 AACAA-ATTGAAGCTACAACGATGAATCTTGC-TCCCTCGAAATTGCAATTA
1 AA-AAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGTGG
* * *
49524538 AAAAGATTGAGGCTACAACGGTGAATCTTACTTCCTAGGCGATGCAGTGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATGCAGTGG
* * * * * * * * **
49524588 AACATATTGAAGCTACAACGACGAATCTTGCTACCCCGAC-ATTGCAATTA
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGTGG
* * * *
49524638 AAAAGATTGAGGTTACAACGGCGAATCTTACTTCCCAGGCGGTGTAGTGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATGCAGTGG
* *
49524688 AATAGATTGAAACTACAACGGCGAATCTT-CTTCCC
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCC
49524723 CCGACATTGC
Statistics
Matches: 174, Mismatches: 55, Indels: 13
0.72 0.23 0.05
Matches are distributed among these distances:
49 13 0.07
50 154 0.89
51 7 0.04
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.25
Consensus pattern (50 bp):
AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGGCGATGCAGTGG
Found at i:49524745 original size:50 final size:50
Alignment explanation
Indices: 49524493--49524768 Score: 198
Period size: 50 Copynumber: 5.5 Consensus size: 50
49524483 AGTGGAACAA
** * * *
49524493 ATTGAAGCTACAACGATGAATCTTGC-TCCCTCGAAATTGCAATTAAAAAG
1 ATTGAAGCTACAACGGCGAATCTTACTTCCC-CGACATTGCAATCAAAAAG
* * ** * * ** * *
49524543 ATTGAGGCTACAACGGTGAATCTTACTTCCTAGGCGA-TGCAGTGGAACAT
1 ATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC-ATTGCAATCAAAAAG
* * * *
49524593 ATTGAAGCTACAACGACGAATCTTGCTACCCCGACATTGCAATTAAAAAG
1 ATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATCAAAAAG
* * * * ** * * ** *
49524643 ATTGAGGTTACAACGGCGAATCTTACTTCCCAGGCGGTGTAGTGGAATAG
1 ATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATCAAAAAG
*
49524693 ATTGAAACTACAACGGCGAATCTT-CTTCCCCCGACATTGCAATCAAAAAG
1 ATTGAAGCTACAACGGCGAATCTTACTT-CCCCGACATTGCAATCAAAAAG
* * *
49524743 ATTGAGGCCACAACGGCAAATCTTAC
1 ATTGAAGCTACAACGGCGAATCTTAC
49524769 ATTGAGGCCA
Statistics
Matches: 166, Mismatches: 55, Indels: 9
0.72 0.24 0.04
Matches are distributed among these distances:
49 4 0.02
50 157 0.95
51 5 0.03
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (50 bp):
ATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATCAAAAAG
Found at i:49524772 original size:26 final size:26
Alignment explanation
Indices: 49524743--49524794 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
49524733 AATCAAAAAG
49524743 ATTGAGGCCACAACGGCAAATCTTAC
1 ATTGAGGCCACAACGGCAAATCTTAC
49524769 ATTGAGGCCACAACGGCAAATCTTAC
1 ATTGAGGCCACAACGGCAAATCTTAC
49524795 TTCCCTAGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (26 bp):
ATTGAGGCCACAACGGCAAATCTTAC
Found at i:49524881 original size:49 final size:50
Alignment explanation
Indices: 49524806--49524921 Score: 155
Period size: 49 Copynumber: 2.3 Consensus size: 50
49524796 TCCCTAGCGG
* * *
49524806 TGCAG-TGAAATAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTTG-AATAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACAT
* *
49524856 TGCGGTT-AATAGATTGAAGCTACAACAGCGAATCTTACTTTCCCGACAT
1 TGCAGTTGAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACAT
*
49524905 TGCAGTTGAACAGATTG
1 TGCAGTTGAATAGATTG
49524922 GAGATGGCAG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
49 44 0.77
50 12 0.21
51 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCAGTTGAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACAT
Found at i:49526597 original size:3 final size:3
Alignment explanation
Indices: 49526578--49526629 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
49526568 TGTTTAATTA
* * * *
49526578 ATT ATT -TT AAT AAT ATT ATT ATT AAT ATT ATT ATT ACT ATT AATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
49526623 ATT ATT A
1 ATT ATT A
49526630 GTTTTGTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:49526603 original size:12 final size:12
Alignment explanation
Indices: 49526574--49526626 Score: 63
Period size: 12 Copynumber: 4.3 Consensus size: 12
49526564 TTATTGTTTA
49526574 ATTAATTATT-TT
1 ATTAA-TATTATT
*
49526586 AATAATATTATT
1 ATTAATATTATT
49526598 ATTAATATTATT
1 ATTAATATTATT
*
49526610 ATTACTATTAATT
1 ATTAATATT-ATT
49526623 ATTA
1 ATTA
49526627 TTAGTTTTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
11 4 0.11
12 25 0.69
13 7 0.19
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (12 bp):
ATTAATATTATT
Found at i:49529596 original size:91 final size:91
Alignment explanation
Indices: 49529390--49529599 Score: 268
Period size: 91 Copynumber: 2.3 Consensus size: 91
49529380 CGGACACTCC
* *
49529390 AGTTTGCGGATAAACCACAAGTG-TTGCAAGTTAATACGCTGCCAATAGTTGTGAAGACACAACG
1 AGTTTGTGGATAAACCACAAGTGTTTGCAAGTTAATACACTGCCAATAGTTGTGAAGACACAACG
*
49529454 GGTTTGCAGATAAAAGCTGCTAGTAAA
66 GGTTTGCAGATAAAAGCTACTAGT-AA
* * *
49529481 AG-TTGTGGATAAACCACCAA-TGTTTGTAGGTTAATACATTGCCAATAGGTTGTGAATG-CACA
1 AGTTTGTGGATAAACCA-CAAGTGTTTGCAAGTTAATACACTGCCAATA-GTTGTGAA-GACACA
*
49529543 GCGGGTTTGCAGATAAAAGCTACTAGT-A
63 ACGGGTTTGCAGATAAAAGCTACTAGTAA
* *
49529571 AGTTTGTGGATGAACCACTAGTGTTTGCA
1 AGTTTGTGGATAAACCACAAGTGTTTGCA
49529600 GATAAACTGC
Statistics
Matches: 103, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
90 20 0.19
91 45 0.44
92 37 0.36
93 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (91 bp):
AGTTTGTGGATAAACCACAAGTGTTTGCAAGTTAATACACTGCCAATAGTTGTGAAGACACAACG
GGTTTGCAGATAAAAGCTACTAGTAA
Found at i:49534480 original size:3 final size:3
Alignment explanation
Indices: 49534474--49534510 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
49534464 AATATTATAA
49534474 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
49534511 TGCTTTAGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:49534654 original size:18 final size:18
Alignment explanation
Indices: 49534633--49534698 Score: 80
Period size: 18 Copynumber: 3.6 Consensus size: 18
49534623 TTCAAAATAA
*
49534633 TATAAATTTTTTAATTTT
1 TATAAATTTTTTGATTTT
*
49534651 TATAAATATTTTGATTTT
1 TATAAATTTTTTGATTTT
49534669 TGA-AAATTATTTTGATTTT
1 T-ATAAATT-TTTTGATTTT
*
49534688 TTTAAATTTTT
1 TATAAATTTTT
49534699 GTTGAGAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 24 0.59
19 17 0.41
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
TATAAATTTTTTGATTTT
Found at i:49534669 original size:19 final size:18
Alignment explanation
Indices: 49534633--49534699 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 18
49534623 TTCAAAATAA
* *
49534633 TATAAATTTTTTAATTTT
1 TATAAATTTTTGATTTTT
49534651 TATAAATATTTTGATTTTT
1 TATAAAT-TTTTGATTTTT
*
49534670 GA-AAATTATTTTGATTTTT
1 TATAAA-T-TTTTGATTTTT
49534689 T-TAAATTTTTG
1 TATAAATTTTTG
49534700 TTGAGAGAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
17 5 0.12
18 11 0.26
19 26 0.62
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (18 bp):
TATAAATTTTTGATTTTT
Found at i:49537180 original size:4 final size:4
Alignment explanation
Indices: 49537171--49537205 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
49537161 TAAGTTTCAC
*
49537171 TATG TATG TATG TATG TATG TATA TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
49537206 ATTTGGTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:49565361 original size:16 final size:16
Alignment explanation
Indices: 49565340--49565379 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
49565330 CATACTCCCT
49565340 CCCAATTTAAACCCAG
1 CCCAATTTAAACCCAG
* *
49565356 CCCAATTTAAATCCGG
1 CCCAATTTAAACCCAG
49565372 CCCAATTT
1 CCCAATTT
49565380 TTTCTTGGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.33, C:0.35, G:0.07, T:0.25
Consensus pattern (16 bp):
CCCAATTTAAACCCAG
Found at i:49565561 original size:2 final size:2
Alignment explanation
Indices: 49565554--49565579 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49565544 CACTTTCACT
49565554 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
49565580 GTCCCAACAC
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:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:49567925 original size:3 final size:3
Alignment explanation
Indices: 49567919--49567953 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
49567909 GAAAGTATGA
49567919 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
49567954 ATGAAAGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:49568019 original size:3 final size:3
Alignment explanation
Indices: 49568011--49568050 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
49568001 GAAAGTATGA
49568011 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
49568051 GCAAATGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:49568025 original size:101 final size:101
Alignment explanation
Indices: 49567919--49568133 Score: 403
Period size: 101 Copynumber: 2.1 Consensus size: 101
49567909 GAAAGTATGA
*
49567919 AATAATAATAATAATAATAATAATAATAATAATAAATGAAAGTAGCAAAAAAGAAAAATAAAAAT
1 AATAATAATAATAATAATAATAATAATAATAACAAATGAAAGTAGCAAAAAAGAAAAATAAAAAT
49567984 AACCGATTATAAACATTGAAAGTATGAAATAATAAT
66 AACCGATTATAAACATTGAAAGTATGAAATAATAAT
* *
49568020 AATAATAATAATAATAATAATAATAATAATAGCAAATGAAAGTAGCAAAAAATAAAAATAAAAAT
1 AATAATAATAATAATAATAATAATAATAATAACAAATGAAAGTAGCAAAAAAGAAAAATAAAAAT
49568085 AACCGATTATAAACATTGAAAGTATGAAATAATAAT
66 AACCGATTATAAACATTGAAAGTATGAAATAATAAT
49568121 AATAATAATAATA
1 AATAATAATAATA
49568134 GCAAATGAAA
Statistics
Matches: 111, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 111 1.00
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.25
Consensus pattern (101 bp):
AATAATAATAATAATAATAATAATAATAATAACAAATGAAAGTAGCAAAAAAGAAAAATAAAAAT
AACCGATTATAAACATTGAAAGTATGAAATAATAAT
Found at i:49568116 original size:83 final size:83
Alignment explanation
Indices: 49568029--49568216 Score: 367
Period size: 83 Copynumber: 2.3 Consensus size: 83
49568019 TAATAATAAT
*
49568029 AATAATAATAATAATAATAATAGCAAATGAAAGTAGCAAAAAATAAAAATAAAAATAACCGATTA
1 AATAATAATAATAATAATAATAGCAAATGAAAGTAGCAAAAAAGAAAAATAAAAATAACCGATTA
49568094 TAAACATTGAAAGTATGA
66 TAAACATTGAAAGTATGA
49568112 AATAATAATAATAATAATAATAGCAAATGAAAGTAGCAAAAAAGAAAAATAAAAATAACCGATTA
1 AATAATAATAATAATAATAATAGCAAATGAAAGTAGCAAAAAAGAAAAATAAAAATAACCGATTA
49568177 TAAACATTGAAAGTATGA
66 TAAACATTGAAAGTATGA
49568195 AATAATAATAATAATAATAATA
1 AATAATAATAATAATAATAATA
49568217 ATAATAATAA
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 104 1.00
ACGTcount: A:0.62, C:0.05, G:0.09, T:0.23
Consensus pattern (83 bp):
AATAATAATAATAATAATAATAGCAAATGAAAGTAGCAAAAAAGAAAAATAAAAATAACCGATTA
TAAACATTGAAAGTATGA
Found at i:49568203 original size:3 final size:3
Alignment explanation
Indices: 49568195--49568234 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
49568185 GAAAGTATGA
49568195 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
49568235 GGAATAAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:49569929 original size:44 final size:43
Alignment explanation
Indices: 49569875--49570287 Score: 168
Period size: 44 Copynumber: 9.6 Consensus size: 43
49569865 TTTTAATTTG
* **
49569875 CTCCGCTGCAACTTCAGGGAGATAGGATT-TATAACTTCAATCTA
1 CTCCACTGCAACTTCAGGGAGATACAATTGT-TAA-TTCAATCTA
* * *
49569919 CTCCATTGCAACTTCAGGGAGATACAATTGGTTTATTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATACAATT-GTTAATTCAATCTA
* * * * *
49569963 CTCCACTGTAACTTCAGGGAGATA-AGACCTG---ATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATACA-A-TTGTTAATTCAATCTA
* * * ** ** * * * *
49570004 CTCTACTGCAACTTTAGAGAGATAGGATCCATCATTTTAATCCA
1 CTCCACTGCAACTTCAGGGAGATACAAT-TGTTAATTCAATCTA
* *** *
49570048 CTCTACTGCAACTTCAGGGAGATA-AGATTAGTTTCCTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATACA-ATT-GTTAATTCAATCTA
* * * *
49570092 CTCCACTGCAACTTCAAGGAGATA-AGATTGGTTTATTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATACA-ATT-GTTAATTCAATCTA
* * *
49570136 CTCCACTGCAACTTCAGGGAGATA-AGACTTG---ATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATACA-A-TTGTTAATTCAATCTA
* * * * * *
49570177 CT-CTCTGCAACTTTAGGGAGATA-AGATCTGTGATTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATACA-AT-TGTTAATTCAATCTA
* ** * ** *
49570220 CTCCACAGCAACTTCAGGGAGATAGGATTATTTGTTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATACAATT-GTTAATTCAATCTA
*
49570264 GTCCACTGCAACTTCAGGGAGATA
1 CTCCACTGCAACTTCAGGGAGATA
49570288 AGATTCGCCA
Statistics
Matches: 287, Mismatches: 63, Indels: 38
0.74 0.16 0.10
Matches are distributed among these distances:
39 1 0.00
40 24 0.08
41 38 0.13
43 10 0.03
44 208 0.72
45 5 0.02
46 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATACAATTGTTAATTCAATCTA
Found at i:49570059 original size:129 final size:129
Alignment explanation
Indices: 49569880--49570118 Score: 327
Period size: 129 Copynumber: 1.9 Consensus size: 129
49569870 ATTTGCTCCG
* ** * *
49569880 CTGCAACTTCAGGGAGATAGGATTTATAACTTCAATCTACTCCATTGCAACTTCAGGGAGATACA
1 CTGCAACTTCAGAGAGATAGGATCCATAACTTCAATCCACTCCACTGCAACTTCAGGGAGATA-A
* * * *
49569945 -ATTGGTTTATTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGACCTGATGCGATCTGCTCTA
65 GATTAGTTTACTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACCTGATGCGATCTGCTCTA
* * * * *
49570009 CTGCAACTTTAGAGAGATAGGATCCATCATTTTAATCCACTCTACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGAGAGATAGGATCCATAACTTCAATCCACTCCACTGCAACTTCAGGGAGATAAG
*
49570074 ATTAGTTTCCTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGA
66 ATTAGTTTACTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGA
49570119 TTGGTTTATT
Statistics
Matches: 94, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
128 1 0.01
129 93 0.99
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (129 bp):
CTGCAACTTCAGAGAGATAGGATCCATAACTTCAATCCACTCCACTGCAACTTCAGGGAGATAAG
ATTAGTTTACTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACCTGATGCGATCTGCTCTA
Found at i:49570144 original size:88 final size:85
Alignment explanation
Indices: 49569865--49570292 Score: 347
Period size: 88 Copynumber: 5.0 Consensus size: 85
49569855 AGATCCATCA
* * * * * *
49569865 TTTTAATTTGCTCCGCTGCAACTTCAGGGAGATAGGATTTA-TAACTTCAATCTACTCCATTGCA
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTAGT-A-TTCAATCTGCTCCACTGCA
49569929 ACTTCAGGGAGATACA-ATTGGT
64 ACTTCAGGGAGATA-AGATTGGT
* * * * *
49569951 TTATTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGACCT-G-ATGCGATCTGCTCTACTGCA
1 TT-TT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTAGTATTCAATCTGCTCCACTGCA
* * * ***
49570014 ACTTTAGAGAGATAGGATCCAT
64 ACTTCAGGGAGATAAGATTGGT
** * *
49570036 CATTTTAATCCACTCTACTGCAACTTCAGGGAGATAAGA-TTAGTTTCCTCAATCTGCTCCACTG
1 --TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTAGTAT--TCAATCTGCTCCACTG
*
49570100 CAACTTCAAGGAGATAAGATTGGT
62 CAACTTCAGGGAGATAAGATTGGT
* * * *
49570124 TTATTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-G-ATGCGATCTGCT-CTCTGCA
1 TT-TT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTAGTATTCAATCTGCTCCACTGCA
* *
49570186 ACTTTAGGGAGATAAGATCTGTGA
64 ACTTCAGGGAGATAAGAT-TG-GT
* * *
49570210 TTTTAATCTGCTCCACAGCAACTTCAGGGAGATAGGA-TTATTTGT-TTTAATCTAG-TCCACTG
1 TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTA---GTATTCAATCT-GCTCCACTG
49570272 CAACTTCAGGGAGATAAGATT
62 CAACTTCAGGGAGATAAGATT
49570293 CGCCATCTTC
Statistics
Matches: 268, Mismatches: 52, Indels: 43
0.74 0.14 0.12
Matches are distributed among these distances:
83 2 0.01
84 53 0.20
85 71 0.26
86 11 0.04
87 15 0.06
88 114 0.43
89 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (85 bp):
TTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTAGTATTCAATCTGCTCCACTGCAAC
TTCAGGGAGATAAGATTGGT
Found at i:49570224 original size:128 final size:128
Alignment explanation
Indices: 49570048--49570290 Score: 316
Period size: 128 Copynumber: 1.9 Consensus size: 128
49570038 TTTTAATCCA
*
49570048 CTCTACTGCAACTTCAGGGAGATAAGATTAGTTTCCTCAATCTGCTCCACTGCAACTTCAAGGAG
1 CTCTACTGCAACTTCAGGGAGATAAGATTAGTTT-CTCAATCTGCTCCACAGCAACTTCAAGGAG
* *
49570113 ATAAGATTGGTTT-ATTCAGTCT-GCTCCACTGCAACTTCAGGGAGATAAGACTTGATGCGATCT
65 ATAAGATT-ATTTGATTCAATCTAG-TCCACTGCAACTTCAGGGAGATAAGACTTGATGCGATCT
49570176 G
128 G
* * *
49570177 CTCT-CTGCAACTTTAGGGAGATAAGATCT-GTGATT-TTAATCTGCTCCACAGCAACTTCAGGG
1 CTCTACTGCAACTTCAGGGAGATAAGAT-TAGT--TTCTCAATCTGCTCCACAGCAACTTCAAGG
* * *
49570239 AGATAGGATTATTTGTTTTAATCTAGTCCACTGCAACTTCAGGGAGATAAGA
63 AGATAAGATTATTTGATTCAATCTAGTCCACTGCAACTTCAGGGAGATAAGA
49570291 TTCGCCATCT
Statistics
Matches: 100, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
127 3 0.03
128 89 0.89
129 6 0.06
130 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (128 bp):
CTCTACTGCAACTTCAGGGAGATAAGATTAGTTTCTCAATCTGCTCCACAGCAACTTCAAGGAGA
TAAGATTATTTGATTCAATCTAGTCCACTGCAACTTCAGGGAGATAAGACTTGATGCGATCTG
Found at i:49570309 original size:173 final size:172
Alignment explanation
Indices: 49569848--49570292 Score: 617
Period size: 173 Copynumber: 2.6 Consensus size: 172
49569838 CCGTAACTTC
* * **
49569848 AGAGATAAGATCCATCATTTTAATTTGCTCCGCTGCAACTTCAGGGAGATAGGATTTATAACTTC
1 AGAGATAAGATCCATCATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGA-TTATTTCTTC
* * * *
49569913 AATCTACTCCATTGCAACTTCAGGGAGATACA-ATTGGTTTATTCAATCTGCTCCACTGTAACTT
65 AATCTAGTCCACTGCAACTTCAGGGAGATA-AGATTGGTTTATTCAGTCTGCTCCACTGCAACTT
49569977 CAGGGAGATAAGACCTGATGCGATCTGCTCTACTGCAACTTTAG
129 CAGGGAGATAAGACCTGATGCGATCTGCTCTACTGCAACTTTAG
* ** * * *
49570021 AGAGATAGGATCCATCATTTTAATCCACTCTACTGCAACTTCAGGGAGATAAGATTAGTTTCCTC
1 AGAGATAAGATCCATCATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTA-TTTCTTC
*
49570086 AATCT-GCTCCACTGCAACTTCAAGGAGATAAGATTGGTTTATTCAGTCTGCTCCACTGCAACTT
65 AATCTAG-TCCACTGCAACTTCAGGGAGATAAGATTGGTTTATTCAGTCTGCTCCACTGCAACTT
*
49570150 CAGGGAGATAAGACTTGATGCGATCTGCTCT-CTGCAACTTTAG
129 CAGGGAGATAAGACCTGATGCGATCTGCTCTACTGCAACTTTAG
* ** * * * *
49570193 GGAGATAAGATCTGTGATTTTAATCTGCTCCACAGCAACTTCAGGGAGATAGGATTATTTGTTTT
1 AGAGATAAGATCCATCATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTT-CTTC
49570258 AATCTAGTCCACTGCAACTTCAGGGAGATAAGATT
65 AATCTAGTCCACTGCAACTTCAGGGAGATAAGATT
49570293 CGCCATCTTC
Statistics
Matches: 237, Mismatches: 30, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
171 3 0.01
172 96 0.41
173 138 0.58
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (172 bp):
AGAGATAAGATCCATCATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTTCTTCA
ATCTAGTCCACTGCAACTTCAGGGAGATAAGATTGGTTTATTCAGTCTGCTCCACTGCAACTTCA
GGGAGATAAGACCTGATGCGATCTGCTCTACTGCAACTTTAG
Found at i:49570476 original size:21 final size:21
Alignment explanation
Indices: 49570435--49570476 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
49570425 GATTTGCTAC
*
49570435 CTTCAGCTTTAATCTGCTCCA
1 CTTCAGCTTTAATCTACTCCA
*
49570456 CTTCAGCTTTAATCTATTCCA
1 CTTCAGCTTTAATCTACTCCA
49570477 TTGCAACGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.31, G:0.07, T:0.40
Consensus pattern (21 bp):
CTTCAGCTTTAATCTACTCCA
Found at i:49570547 original size:108 final size:106
Alignment explanation
Indices: 49570408--49570775 Score: 337
Period size: 108 Copynumber: 3.5 Consensus size: 106
49570398 TGTTCCATTG
* *
49570408 TAACGCCTAAGAGATAAGATTTGCTACCTTCAGCTTTAATCTGCTCCACTTCAGCTTTAATCTAT
1 TAACGCCTAAGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTTCAGCTTTAATCTAT
49570473 TCCATTGCAACGCTACGGAAATAAGATTTGCTGCCTTCAGTCT
66 TCCATTGCAA-GCTACGGAAATAAGATTTGCTGCCTTCAGT-T
** * * * * *
49570516 TAACGCC-AGAGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCTGCTGCAACGTCAA--GA
1 TAACGCCTA-AGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTTCAGCTTTAATCTA
** * * * * * * *
49570578 ----A-AACAAGATTCGTTAACTTTAGCTTTAATCTG--TTCCA-TT
65 TTCCATTGCAAGCTACG-GAA-ATAAGATTT--GCTGCCTT-CAGTT
* * *
49570617 GTCACGCCTAAGAGATAAGATTTGCTGCCTTCATCTTTAATCTGCTCCACTTCAGCTTTAATCTA
1 -TAACGCCTAAGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTTCAGCTTTAATCTA
*
49570682 TTCCATTGCAATGCTAGGGAAATAAGATTTGCTGCCTTCAGTTT
65 TTCCATTGCAA-GCTACGGAAATAAGATTTGCTGCCTTCAG-TT
*
49570726 TAACGCC-AGAGAGATAAGATTCGCTGCCTTCAGCTTTAATCTACTCCACT
1 TAACGCCTA-AGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACT
49570776 GCAACGCTAG
Statistics
Matches: 197, Mismatches: 42, Indels: 42
0.70 0.15 0.15
Matches are distributed among these distances:
100 4 0.02
101 6 0.03
102 59 0.30
103 3 0.02
104 4 0.02
106 4 0.02
107 4 0.02
108 103 0.52
109 7 0.04
110 3 0.02
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (106 bp):
TAACGCCTAAGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTTCAGCTTTAATCTAT
TCCATTGCAAGCTACGGAAATAAGATTTGCTGCCTTCAGTT
Found at i:49570556 original size:210 final size:210
Alignment explanation
Indices: 49570309--49570846 Score: 814
Period size: 210 Copynumber: 2.6 Consensus size: 210
49570299 CTTCAGTCTG
* * * ** *
49570309 CGCCAGGGAGATAAGATTCACTGCCTTCAGTTTTAATCTGCTCCGCTATAACGTCAGGGAAATAA
1 CGCCAGAGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGTCAGGGAAACAA
49570374 GATTCGTTAACTTTAGCTTTAATCTGTTCCATTGTAACGCCTAAGAGATAAGATTTGCTACCTTC
66 GATTCGTTAACTTTAGCTTTAATCTGTTCCATTGTAACGCCTAAGAGATAAGATTTGCTACCTTC
49570439 AGCTTTAATCTGCTCCACTTCAGCTTTAATCTATTCCATTGCAACGCTACGGAAATAAGATTTGC
131 AGCTTTAATCTGCTCCACTTCAGCTTTAATCTATTCCATTGCAACGCTACGGAAATAAGATTTGC
49570504 TGCCTTCAGTCTTAA
196 TGCCTTCAGTCTTAA
* * *
49570519 CGCCAGAGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCTGCTGCAACGTCAAGAAAACAA
1 CGCCAGAGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGTCAGGGAAACAA
* *
49570584 GATTCGTTAACTTTAGCTTTAATCTGTTCCATTGTCACGCCTAAGAGATAAGATTTGCTGCCTTC
66 GATTCGTTAACTTTAGCTTTAATCTGTTCCATTGTAACGCCTAAGAGATAAGATTTGCTACCTTC
* * *
49570649 ATCTTTAATCTGCTCCACTTCAGCTTTAATCTATTCCATTGCAATGCTAGGGAAATAAGATTTGC
131 AGCTTTAATCTGCTCCACTTCAGCTTTAATCTATTCCATTGCAACGCTACGGAAATAAGATTTGC
*
49570714 TGCCTTCAGTTTTAA
196 TGCCTTCAGTCTTAA
* *
49570729 CGCCAGAGAGATAAGATTCGCTGCCTTCAGCTTTAATCTACTCCACTGCAACG-CTAGGGAAACA
1 CGCCAGAGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGTC-AGGGAAACA
* * ***
49570793 AGATTTGGTT--CTTTTAGCTTTAATCTATTTTGTTGTAACGCC-AAGGAGATAAGA
65 AGA-TTCGTTAAC-TTTAGCTTTAATCTGTTCCATTGTAACGCCTAA-GAGATAAGA
49570847 CTGGTGTCTT
Statistics
Matches: 298, Mismatches: 26, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
209 4 0.01
210 289 0.97
211 5 0.02
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.33
Consensus pattern (210 bp):
CGCCAGAGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGTCAGGGAAACAA
GATTCGTTAACTTTAGCTTTAATCTGTTCCATTGTAACGCCTAAGAGATAAGATTTGCTACCTTC
AGCTTTAATCTGCTCCACTTCAGCTTTAATCTATTCCATTGCAACGCTACGGAAATAAGATTTGC
TGCCTTCAGTCTTAA
Found at i:49570644 original size:102 final size:102
Alignment explanation
Indices: 49570316--49570664 Score: 280
Period size: 102 Copynumber: 3.4 Consensus size: 102
49570306 CTGCGCCAGG
* * * * * *
49570316 GAGATAAGATTCACTGCCTTCAGTTTTAATCTGCTCCGCTATAACGTCAGGGAAATAAGATTCGT
1 GAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTACAACGTCAAGAAAACAAGATTCGT
49570381 TAACTTTAGCTTTAATCTGTTCCATTGTAACGCCTAA
66 TAACTTTAGCTTTAATCTGTTCCATTGTAACGCCTAA
* * * * * * * * **
49570418 GAGATAAGATTTGCTACCTTCAGCTTTAATCTGCTCCACTTCAGCTTTAATCTATTCCATTGCAA
1 GAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTACAACGTCAA--GA----A-AACAA
* * * * * * *
49570483 CGCTACG-GAA-ATAAGATTT--GCTGCCTT-CAGTCT-TAACGCC-AGA
59 -GATTCGTTAACTTTAGCTTTAATCTG--TTCCA-T-TGTAACGCCTA-A
* *
49570526 GAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCTGCTGCAACGTCAAGAAAACAAGATTCGT
1 GAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTACAACGTCAAGAAAACAAGATTCGT
*
49570591 TAACTTTAGCTTTAATCTGTTCCATTGTCACGCCTAA
66 TAACTTTAGCTTTAATCTGTTCCATTGTAACGCCTAA
* *
49570628 GAGATAAGATTTGCTGCCTTCATCTTTAATCTGCTCC
1 GAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCC
49570665 ACTTCAGCTT
Statistics
Matches: 182, Mismatches: 45, Indels: 40
0.68 0.17 0.15
Matches are distributed among these distances:
100 4 0.02
101 6 0.03
102 90 0.49
103 3 0.02
104 3 0.02
106 4 0.02
107 3 0.02
108 60 0.33
109 5 0.03
110 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (102 bp):
GAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTACAACGTCAAGAAAACAAGATTCGT
TAACTTTAGCTTTAATCTGTTCCATTGTAACGCCTAA
Found at i:49570686 original size:21 final size:21
Alignment explanation
Indices: 49570645--49570686 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
49570635 GATTTGCTGC
* *
49570645 CTTCATCTTTAATCTGCTCCA
1 CTTCAGCTTTAATCTACTCCA
*
49570666 CTTCAGCTTTAATCTATTCCA
1 CTTCAGCTTTAATCTACTCCA
49570687 TTGCAATGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.31, G:0.05, T:0.43
Consensus pattern (21 bp):
CTTCAGCTTTAATCTACTCCA
Found at i:49572296 original size:44 final size:45
Alignment explanation
Indices: 49572173--49572302 Score: 147
Period size: 46 Copynumber: 2.9 Consensus size: 45
49572163 TTTATATTAT
* * *
49572173 TTTTTTATGACTCAAAGCACCCTTTGCGGGTTTTCACCTTGGTTTT
1 TTTTTTAGGACTCAAAGCACCCTTTGCGAGTTTTCACCTTGG-TTC
* * * * *
49572219 TTTTTTAGAACTTAAGGCGCCCCTTGC-AGGTTTTCACCTTGG-TC
1 TTTTTTAGGACTCAAAGCACCCTTTGCGA-GTTTTCACCTTGGTTC
*
49572263 TTTTTTAGGACTCAAAGCACCCTTTGCGAGTTTTCGCCTT
1 TTTTTTAGGACTCAAAGCACCCTTTGCGAGTTTTCACCTT
49572303 AGTCCCTTCT
Statistics
Matches: 68, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
44 33 0.49
45 1 0.01
46 34 0.50
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (45 bp):
TTTTTTAGGACTCAAAGCACCCTTTGCGAGTTTTCACCTTGGTTC
Found at i:49575110 original size:4 final size:4
Alignment explanation
Indices: 49575101--49575126 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
49575091 GTAATAGTGT
49575101 TTGG TTGG TTGG TTGG TTGG TTGG TT
1 TTGG TTGG TTGG TTGG TTGG TTGG TT
49575127 TCCAGATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.46, T:0.54
Consensus pattern (4 bp):
TTGG
Found at i:49575718 original size:16 final size:16
Alignment explanation
Indices: 49575697--49575731 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
49575687 TTCTATGATG
49575697 AAATGTCATGCAATCA
1 AAATGTCATGCAATCA
49575713 AAATGTCATGCAATCA
1 AAATGTCATGCAATCA
49575729 AAA
1 AAA
49575732 CAAAACACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.17, G:0.11, T:0.23
Consensus pattern (16 bp):
AAATGTCATGCAATCA
Found at i:49577077 original size:3 final size:3
Alignment explanation
Indices: 49577069--49577096 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
49577059 GAAAGTACGA
49577069 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
49577097 GCAAATGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49577182 original size:3 final size:3
Alignment explanation
Indices: 49577176--49577203 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
49577166 TAAAGTATGA
49577176 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
49577204 GGAATAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49581899 original size:132 final size:132
Alignment explanation
Indices: 49581541--49582071 Score: 842
Period size: 132 Copynumber: 4.1 Consensus size: 132
49581531 CGTTATTGTT
* * * *
49581541 GATCTGCTCCACTACTGCTTAGGGGGGCAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTA
1 GATCTGCTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCAACCTACCCCACTACTGCTTA
*
49581606 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGAGAAGATAAGATTCACCATCT
66 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
*
49581671 TT
131 TC
* * **
49581673 GATCTGCCCCACTACTGCTTAGGGTGAC---A---G-AATCTTCAACCTATTCCACTACTGCTTA
1 GATCTGCTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCAACCTACCCCACTACTGCTTA
49581731 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
66 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
49581796 TC
131 TC
* *
49581798 GATCTACTCCACTATTACTTAGGGTGACAGAATCTGCAATCTTCAACCTACCCCACTACTGCTTA
1 GATCTGCTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCAACCTACCCCACTACTGCTTA
49581863 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
66 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
49581928 TC
131 TC
* * *
49581930 GATCTGCTCCATTACTACTTAGGGTGACAGAATCTGCAATCTTTAACCTACCCCATTACTGCTTA
1 GATCTGCTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCAACCTACCCCACTACTGCTTA
* * *
49581995 GGGTAATAGGACTAATGGCTTAAATTTTCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
66 GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
49582060 TC
131 TC
*
49582062 GATCTACTCC
1 GATCTGCTCC
49582072 GCTGCCAAAT
Statistics
Matches: 371, Mismatches: 21, Indels: 14
0.91 0.05 0.03
Matches are distributed among these distances:
125 116 0.31
126 1 0.00
128 1 0.00
129 1 0.00
131 1 0.00
132 251 0.68
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (132 bp):
GATCTGCTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCAACCTACCCCACTACTGCTTA
GGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCT
TC
Found at i:49582106 original size:46 final size:46
Alignment explanation
Indices: 49582056--49582475 Score: 635
Period size: 46 Copynumber: 9.1 Consensus size: 46
49582046 AAGATTCACC
**
49582056 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
49582102 ATCTTCGATCTCTTCCGCTGCCAATTACAGGAAGACAAAATCTGCT
1 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * * *
49582148 ATCCTT-GATCTCCTTCGCTGCCAAATACATGAAGATAAGATCTACT
1 AT-CTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
49582194 ATCTTTGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
49582240 ATCCTCGATCCCCTCCGCTACCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
49582286 ATCTTCAATCCCCTCTGCTGCCAAATACAGGAAGACAAGATCTGTT
1 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
49582332 ATCCTCGATCCCCTCCGCTACCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
49582378 ATCTTCGATCCCCTCCGTTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
49582424 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATTTGCT
1 ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
49582470 ATCTTC
1 ATCTTC
49582476 ATTGATCTGT
Statistics
Matches: 338, Mismatches: 34, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
45 3 0.01
46 332 0.98
47 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (46 bp):
ATCTTCGATCCCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
Found at i:49583546 original size:21 final size:21
Alignment explanation
Indices: 49583520--49583566 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
49583510 GGTATAGCAA
49583520 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
49583541 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
49583562 GATCA
1 GATCA
49583567 ACATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:49583677 original size:9 final size:8
Alignment explanation
Indices: 49583658--49583696 Score: 60
Period size: 8 Copynumber: 4.6 Consensus size: 8
49583648 CCATTTTTAC
49583658 TTTTTCAT
1 TTTTTCAT
49583666 TTTTTCAT
1 TTTTTCAT
49583674 TTTTTCATT
1 TTTTTCA-T
49583683 TTTTTCAT
1 TTTTTCAT
49583691 CTTTTT
1 -TTTTT
49583697 TTTTACTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 16 0.55
9 13 0.45
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTCAT
Found at i:49583685 original size:17 final size:17
Alignment explanation
Indices: 49583657--49583696 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
49583647 TCCATTTTTA
49583657 CTTTTTCATTTTTTCAT
1 CTTTTTCATTTTTTCAT
49583674 -TTTTTCATTTTTTTCAT
1 CTTTTTCA-TTTTTTCAT
49583691 CTTTTT
1 CTTTTT
49583697 TTTTACTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 9 0.43
18 5 0.24
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (17 bp):
CTTTTTCATTTTTTCAT
Found at i:49584504 original size:6 final size:6
Alignment explanation
Indices: 49584493--49584528 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
49584483 TTGACCTCTC
49584493 CTTTTT CTTTTT CTTTTT CTTCTTT -TTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTT-TTT CTTTTT CTTTTT
49584529 TTCCTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 3 0.11
6 22 0.79
7 3 0.11
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
CTTTTT
Found at i:49584529 original size:9 final size:9
Alignment explanation
Indices: 49584500--49584530 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
49584490 CTCCTTTTTC
49584500 TTTTTCTTT
1 TTTTTCTTT
*
49584509 TTCTTCTTT
1 TTTTTCTTT
49584518 TTTTTCTTT
1 TTTTTCTTT
49584527 TTTT
1 TTTT
49584531 CCTATTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:49584538 original size:18 final size:18
Alignment explanation
Indices: 49584500--49584538 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
49584490 CTCCTTTTTC
*
49584500 TTTTTCTTTTTCTTCTTT
1 TTTTTCTTTTTCTTCTAT
49584518 TTTTTCTTTTT-TTCCTAT
1 TTTTTCTTTTTCTT-CTAT
49584536 TTT
1 TTT
49584539 GACTTTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTCTTTTTCTTCTAT
Found at i:49584575 original size:25 final size:24
Alignment explanation
Indices: 49584543--49584637 Score: 93
Period size: 23 Copynumber: 3.8 Consensus size: 24
49584533 TATTTTGACT
**
49584543 TTGATTTTTTGATTTTTGAT-TTT
1 TTGATTTTTTGATTTTTTTTATTT
* *
49584566 TTGATTTTTTTATTTTTTTGATTTTT
1 TTGATTTTTTGATTTTTTT--TATTT
*
49584592 TTGATTTTTTTGATTTTTTTGATTT
1 TTGA-TTTTTTGATTTTTTTTATTT
*
49584617 TTGATTTTTTATATTTTTTTT
1 TTGATTTTTT-GATTTTTTTT
49584638 TTGAGTCTGA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
23 16 0.27
24 6 0.10
25 16 0.27
26 7 0.12
27 14 0.24
ACGTcount: A:0.13, C:0.00, G:0.09, T:0.78
Consensus pattern (24 bp):
TTGATTTTTTGATTTTTTTTATTT
Found at i:49584633 original size:8 final size:9
Alignment explanation
Indices: 49584542--49584636 Score: 125
Period size: 9 Copynumber: 11.3 Consensus size: 9
49584532 CTATTTTGAC
49584542 TTTGA-TTT
1 TTTGATTTT
49584550 TTTGA--TT
1 TTTGATTTT
49584557 TTTGA-TTT
1 TTTGATTTT
49584565 TTTGATTTT
1 TTTGATTTT
49584574 TTT-ATTTT
1 TTTGATTTT
49584582 TTTGATTTT
1 TTTGATTTT
49584591 TTTGATTTT
1 TTTGATTTT
49584600 TTTGATTTT
1 TTTGATTTT
49584609 TTTGA--TT
1 TTTGATTTT
49584616 TTTGATTTT
1 TTTGATTTT
49584625 TTAT-ATTTT
1 TT-TGATTTT
49584634 TTT
1 TTT
49584637 TTTGAGTCTG
Statistics
Matches: 81, Mismatches: 0, Indels: 12
0.87 0.00 0.13
Matches are distributed among these distances:
7 14 0.17
8 21 0.26
9 45 0.56
10 1 0.01
ACGTcount: A:0.13, C:0.00, G:0.09, T:0.78
Consensus pattern (9 bp):
TTTGATTTT
Found at i:49585389 original size:17 final size:18
Alignment explanation
Indices: 49585357--49585393 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
49585347 TCTGCACAGT
49585357 ATGATTATGAATGAAAGA
1 ATGATTATGAATGAAAGA
*
49585375 ATGATT-TGGATGAAAGA
1 ATGATTATGAATGAAAGA
49585392 AT
1 AT
49585394 AAAAGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (18 bp):
ATGATTATGAATGAAAGA
Found at i:49591170 original size:19 final size:18
Alignment explanation
Indices: 49591128--49591171 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
49591118 TACCTTTTTA
49591128 TTATTTATTTATGTATTT
1 TTATTTATTTATGTATTT
49591146 TCTATTTATTTTAT-TCATTT
1 T-TATTTA-TTTATGT-ATTT
49591166 TTATTT
1 TTATTT
49591172 TAATTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 1 0.04
19 12 0.52
20 10 0.43
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (18 bp):
TTATTTATTTATGTATTT
Found at i:49591883 original size:21 final size:21
Alignment explanation
Indices: 49591842--49591883 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
49591832 GAGTTGAAAA
**
49591842 TTGGTTACTTGCGGATCAAGT
1 TTGGTTACTTGCGGAAAAAGT
*
49591863 TTGGTTATTTGCGGAAAAAGT
1 TTGGTTACTTGCGGAAAAAGT
49591884 AAAGTCACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.38
Consensus pattern (21 bp):
TTGGTTACTTGCGGAAAAAGT
Found at i:49597910 original size:10 final size:10
Alignment explanation
Indices: 49597890--49597920 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
49597880 CTTAACCACT
49597890 TTAACATAAAA
1 TTAA-ATAAAA
49597901 TTAAATAAAA
1 TTAAATAAAA
49597911 TTAAATAAAA
1 TTAAATAAAA
49597921 AATAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (10 bp):
TTAAATAAAA
Found at i:49599519 original size:17 final size:16
Alignment explanation
Indices: 49599482--49599511 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
49599472 TGATTTTGTA
49599482 TATTATGAAATATATT
1 TATTATGAAATATATT
49599498 TATTATG-AATATAT
1 TATTATGAAATATAT
49599512 GTGTATTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TATTATGAAATATATT
Found at i:49599954 original size:43 final size:43
Alignment explanation
Indices: 49599906--49599991 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
49599896 TATGTGATTG
49599906 ATATTGAAATGGA-AAATATGAGAAATGAA-TATGAGATGAGAAA
1 ATATTGAAAT-GACAAATATGAGAAAT-AATTATGAGATGAGAAA
* *
49599949 ATATTGAAATGACAAATATGATAAATAATTATGATATGAGAAA
1 ATATTGAAATGACAAATATGAGAAATAATTATGAGATGAGAAA
49599992 TGAGATATGA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 4 0.10
43 35 0.90
ACGTcount: A:0.53, C:0.01, G:0.19, T:0.27
Consensus pattern (43 bp):
ATATTGAAATGACAAATATGAGAAATAATTATGAGATGAGAAA
Found at i:49600574 original size:13 final size:13
Alignment explanation
Indices: 49600556--49600582 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49600546 TAAAGTTTGG
49600556 TAGCTTAGCATAA
1 TAGCTTAGCATAA
49600569 TAGCTTAGCATAA
1 TAGCTTAGCATAA
49600582 T
1 T
49600583 GATTGGTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TAGCTTAGCATAA
Found at i:49606932 original size:7 final size:7
Alignment explanation
Indices: 49606920--49606960 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
49606910 TTGATATTAG
49606920 GTGTAAC
1 GTGTAAC
49606927 GTGTAAC
1 GTGTAAC
49606934 GTGTAAC
1 GTGTAAC
49606941 GTGTAAC
1 GTGTAAC
49606948 GTGTAAC
1 GTGTAAC
49606955 GTGTAA
1 GTGTAA
49606961 GTGCTTTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (7 bp):
GTGTAAC
Found at i:49625524 original size:22 final size:22
Alignment explanation
Indices: 49625465--49625986 Score: 541
Period size: 22 Copynumber: 24.0 Consensus size: 22
49625455 AATAATTATA
49625465 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
49625486 TTTAAGTTAAGAG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
49625507 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
49625529 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
49625551 TTAAAGTCAAGGG-TTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
49625572 TTTAAGTTAAGGGTGTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
49625594 TTTAGGTTAAGGGTTTATGATT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
49625616 TTAAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
49625638 TTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
49625659 TTTAAGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
49625681 TTTAAGTTAAAGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
49625703 TTTAAGTTAA-AGATT--GGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
49625722 TTTAAGTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
49625744 TTTAA-TTCAAGGG-TTAGGGTT
1 TTTAAGTT-AAGGGTTTAGGGTT
* *
49625765 TTAAAGTTAAGAG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
**** *
49625786 TAGGGGTT-AGGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
49625807 TTTAAGTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
49625829 TTAAAGTTAAGAG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
49625850 TTTAAGTTTAGGTTTTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * * *
49625872 TTTAGGTTAAGGATTTATGATT
1 TTTAAGTTAAGGGTTTAGGGTT
49625894 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
49625916 TTTAA-TTCAAGGG-TTAGAGTT
1 TTTAAGTT-AAGGGTTTAGGGTT
49625937 TTTAAGTTAAGGGTTAGGGTTAGGGTT
1 TTTAAGTTAAGGG-T----TTAGGGTT
*
49625964 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
49625986 T
1 T
49625987 GTCAATTAAA
Statistics
Matches: 415, Mismatches: 67, Indels: 37
0.80 0.13 0.07
Matches are distributed among these distances:
19 14 0.03
20 6 0.01
21 145 0.35
22 229 0.55
26 1 0.00
27 20 0.05
ACGTcount: A:0.26, C:0.01, G:0.30, T:0.44
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:49625538 original size:43 final size:43
Alignment explanation
Indices: 49625465--49625978 Score: 540
Period size: 43 Copynumber: 11.9 Consensus size: 43
49625455 AATAATTATA
*
49625465 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGAGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* *
49625507 TTTAAGTTAAGGGTTTAGGGTTTTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTT
* * *
49625551 TTAAAGTCAAGGG-TTAGAGTTTTTAAGTTAAGGGTGTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT-TAGGGTT
* * * * *
49625594 TTTAGGTTAAGGGTTTATGATTTTAAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTT
* *
49625638 TTAAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAG-GGTTAGGGTT
* * *
49625681 TTTAAGTTAAAGGTTTAGGGTTTTTAAGTTAAAGATT--GGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
*
49625722 TTTAAGTTAAGGGTTTAGGATTTTTAA-TTCAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTT-AAGGGTTAGGGTT
* * **** *
49625765 TTAAAGTTAAGAG-TTAGGGTTTAGGGGTTAGGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* * * *
49625807 TTTAAGTTAAGGGTTTAGGATTTTAAAGTTAAGAGTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* * * * * * *
49625850 TTTAAGTTTAGGTTTTAGAGTTTTTAGGTTAAGGATTTATGATT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG-GTTAGGGTT
*
49625894 TTTAAGTTAAGGGTTTAGGGTTTTTAA-TTCAAGGGTTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTT-AAGGGTTAGGGTT
49625937 TTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTT
1 TTTAAGTTAAGGG-T----TTAGGGTTTTTAAGTTAAGGGTT
49625979 TAAGGTTTGT
Statistics
Matches: 385, Mismatches: 67, Indels: 34
0.79 0.14 0.07
Matches are distributed among these distances:
40 2 0.01
41 34 0.09
42 45 0.12
43 176 0.46
44 105 0.27
45 1 0.00
48 20 0.05
49 2 0.01
ACGTcount: A:0.26, C:0.01, G:0.30, T:0.44
Consensus pattern (43 bp):
TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
Found at i:49625573 original size:65 final size:64
Alignment explanation
Indices: 49625465--49625986 Score: 460
Period size: 65 Copynumber: 8.0 Consensus size: 64
49625455 AATAATTATA
* *
49625465 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGAGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTA-GGTTTTTAAGTTAAGGGTTAGAGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
49625529 TTTAGGTTAAGGGTTTATGGTTTTAAAGTCAAGGGTTAGAGTTTTTAAGTTAAGGGTGTAGGGTT
1 TTTAAGTTAAGGGTTTA-GGTTTTTAAGTTAAGGGTTAGAGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
49625594 TTTAGGTTAAGGGTTTATGATTTTAAAGTTAAGGGTTTATG-GTTTTAAAGTTAAGGG-TTAGGG
1 TTTAAGTTAAGGGTTTA-GGTTTTTAAGTTAAGGG-TTA-GAGTTTTTAAGTTAAGGGTTTAGGG
49625657 TT
63 TT
* * * * *
49625659 TTTAAGTTAAGAGTTTAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAAGTTAA-AGATT--GGT
1 TTTAAGTTAAGGGTTTA-GGTTTTTAAGTT-AAGGGTTAGAGTTTTTAAGTTAAGGGTTTAGGGT
49625721 T
64 T
* * *
49625722 TTTAAGTTAAGGGTTTAGGATTTTTAA-TTCAAGGGTTAGGGTTTTAAAGTTAAGAG-TTAGGGT
1 TTTAAGTTAAGGGTTTAGG-TTTTTAAGTT-AAGGGTTAGAGTTTTTAAGTTAAGGGTTTAGGGT
49625785 T
64 T
**** * * * *
49625786 TAGGGGTT-AGGGGTTAGGGTTTTTAAGTTAAGGGTTTAG-GATTTTAAAGTTAAGAG-TTAAGG
1 TTTAAGTTAAGGGTTTA-GGTTTTTAAGTTAAGGG-TTAGAG-TTTTTAAGTTAAGGGTTTAGGG
49625848 TT
63 TT
* * * *
49625850 TTTAAGTTTAGGTTTTAGAGTTTTTAGGTTAAGGATTTATGA-TTTTTAAGTTAAGGGTTTAGGG
1 TTTAAGTTAAGGGTTTAG-GTTTTTAAGTTAAGG-GTTA-GAGTTTTTAAGTTAAGGGTTTAGGG
49625914 TT
63 TT
49625916 TTTAA-TTCAAGGG-TTAGAGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTT
1 TTTAAGTT-AAGGGTTTAG-GTTTTTAAGTTAAGGGTTA--G--A--GTTTTTAAGTTAAGGGTT
*
49625979 TAAGGTT
58 TAGGGTT
49625986 T
1 T
49625987 GTCAATTAAA
Statistics
Matches: 385, Mismatches: 46, Indels: 48
0.80 0.10 0.10
Matches are distributed among these distances:
62 27 0.07
63 49 0.13
64 60 0.16
65 185 0.48
66 38 0.10
67 2 0.01
70 24 0.06
ACGTcount: A:0.26, C:0.01, G:0.30, T:0.44
Consensus pattern (64 bp):
TTTAAGTTAAGGGTTTAGGTTTTTAAGTTAAGGGTTAGAGTTTTTAAGTTAAGGGTTTAGGGTT
Done.