Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 148 of 345
Found at i:50043597 original size:19 final size:19
Alignment explanation
Indices: 50043573--50043609 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
50043563 TTAATATAAA
50043573 CTTAT-AATACTTATAAAAG
1 CTTATAAATA-TTATAAAAG
50043592 CTTATAAATATTATAAAA
1 CTTATAAATATTATAAAA
50043610 ACAAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (19 bp):
CTTATAAATATTATAAAAG
Found at i:50043711 original size:9 final size:9
Alignment explanation
Indices: 50043502--50043896 Score: 54
Period size: 9 Copynumber: 42.3 Consensus size: 9
50043492 AAAAGTCATC
50043502 ATAAAAA-T
1 ATAAAAATT
*
50043510 ATTAAATATT
1 A-TAAAAATT
*
50043520 ATAAAAAAT
1 ATAAAAATT
50043529 A-AGGAAAATT
1 ATA--AAAATT
50043539 -TATAAAA-T
1 ATA-AAAATT
50043547 ATTAAAAA-T
1 A-TAAAAATT
*
50043556 ATTAAAATT
1 ATAAAAATT
*
50043565 AATATAAACTT
1 -ATA-AAAATT
* *
50043576 ATAATACTT
1 ATAAAAATT
*
50043585 ATAAAAGCTT
1 ATAAAA-ATT
*
50043595 ATAAATATT
1 ATAAAAATT
**
50043604 ATAAAAACAA
1 ATAAAAA-TT
50043614 ATAATAAATCT
1 ATAA-AAAT-T
**
50043625 A-ATTAATT
1 ATAAAAATT
*
50043633 ATAAAAAAT
1 ATAAAAATT
50043642 A-AAAAATT
1 ATAAAAATT
50043650 AATAAACATATT
1 -ATAAA-A-ATT
*
50043662 A-AAATATT
1 ATAAAAATT
*
50043670 -TAAAATTTT
1 ATAAAA-ATT
*
50043679 ATAAAAACCT
1 ATAAAAA-TT
50043689 AT-AAAATT
1 ATAAAAATT
*
50043697 CTTAAAAATT
1 -ATAAAAATT
*
50043707 ATAAATAATC
1 ATAAA-AATT
*
50043717 ATAAATATT
1 ATAAAAATT
*
50043726 ATTAAATATT
1 A-TAAAAATT
* *
50043736 GT-TAAA-T
1 ATAAAAATT
*
50043743 ATTAAAATT
1 ATAAAAATT
*
50043752 GATAGAAATT
1 -ATAAAAATT
* *
50043762 AT-AACATA
1 ATAAAAATT
50043770 ATAAATAA-T
1 ATAAA-AATT
*
50043779 A-AACAGATT
1 ATAA-AAATT
50043788 -TATAAAATT
1 ATA-AAAATT
50043797 AATAAAATATAT
1 -ATAAAA-AT-T
*
50043809 TTAAAATATT
1 ATAAAA-ATT
**
50043819 -TAATATTTT
1 ATAA-AAATT
*
50043828 ATAACAAGTT
1 ATAA-AAATT
50043838 ATAAAAATT
1 ATAAAAATT
50043847 CATAAAAAATT
1 -AT-AAAAATT
50043858 ATAAATAA-T
1 ATAAA-AATT
50043867 ATAATAAATT
1 ATAA-AAATT
* *
50043877 GTAAAAA-A
1 ATAAAAATT
*
50043885 ATATAAATT
1 ATAAAAATT
50043894 ATA
1 ATA
50043897 CCCTTAAAGT
Statistics
Matches: 279, Mismatches: 60, Indels: 95
0.64 0.14 0.22
Matches are distributed among these distances:
7 2 0.01
8 41 0.15
9 103 0.37
10 99 0.35
11 30 0.11
12 4 0.01
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (9 bp):
ATAAAAATT
Found at i:50043861 original size:10 final size:10
Alignment explanation
Indices: 50043826--50043891 Score: 55
Period size: 10 Copynumber: 6.7 Consensus size: 10
50043816 ATTTAATATT
* *
50043826 TTATAACAAG
1 TTATAAAAAA
50043836 TTAT-AAAAA
1 TTATAAAAAA
50043845 TTCATAAAAAA
1 TT-ATAAAAAA
*
50043856 TTATAAATAA
1 TTATAAAAAA
*
50043866 -TATAATAAA
1 TTATAAAAAA
*
50043875 TTGTAAAAAA
1 TTATAAAAAA
*
50043885 ATATAAA
1 TTATAAA
50043892 TTATACCCTT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
9 12 0.27
10 25 0.57
11 7 0.16
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:50043869 original size:29 final size:29
Alignment explanation
Indices: 50043837--50043892 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
50043827 TATAACAAGT
*
50043837 TATAA-AAATTCATAAAAAATTATAAATAA
1 TATAATAAATT-ATAAAAAAATATAAATAA
*
50043866 TATAATAAATTGTAAAAAAATATAAAT
1 TATAATAAATTATAAAAAAATATAAAT
50043893 TATACCCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (29 bp):
TATAATAAATTATAAAAAAATATAAATAA
Found at i:50046438 original size:33 final size:33
Alignment explanation
Indices: 50046338--50046438 Score: 96
Period size: 33 Copynumber: 3.0 Consensus size: 33
50046328 TTTTAAAAAA
** *
50046338 TAAATTAAAGTTTAGAATTTTTTTAAAAATTAAT
1 TAAATTAGGGTTTAGGATTTTTTTAAAAA-TAAT
* * *** *
50046372 TAAATTAGGTTTTAGGGGTTTAAGT-AAATTAAT
1 TAAATTAGGGTTTA-GGATTTTTTTAAAAATAAT
50046405 TAAATTAGGGTTTAGGATTTTTTTAAAAATAAT
1 TAAATTAGGGTTTAGGATTTTTTTAAAAATAAT
50046438 T
1 T
50046439 TTATGTTTAC
Statistics
Matches: 50, Mismatches: 15, Indels: 5
0.71 0.21 0.07
Matches are distributed among these distances:
32 6 0.12
33 25 0.50
34 14 0.28
35 5 0.10
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.46
Consensus pattern (33 bp):
TAAATTAGGGTTTAGGATTTTTTTAAAAATAAT
Found at i:50046755 original size:125 final size:125
Alignment explanation
Indices: 50046528--50046754 Score: 314
Period size: 125 Copynumber: 1.8 Consensus size: 125
50046518 TCTTTTCTTT
* * * * *
50046528 CTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGACAAAAATGCT
1 CTACAGTAGTTTCTAAAAAAATAATTTTGAGAACACGATTCTGAAAAAATAGTGAAAAAAACGCT
50046593 TCAAGCAGATGCACTATCAGCAAAAATACTGAAAAAAGCTCCCATGTGGACGCTCTTTTA
66 TCAAGCAGATGCACTATCAGCAAAAATACTGAAAAAAGCTCCCATGTGGACGCTCTTTTA
*
50046653 CTACAGTAGTTTCTAAAAAAATAATTTTGAGAACACGATTCTTAAAAAATAGT-ATAAAAAACGC
1 CTACAGTAGTTTCTAAAAAAATAATTTTGAGAACACGATTCTGAAAAAATAGTGA-AAAAAACGC
* * * * *
50046717 TTGAA-CTAAGATGCATTGTTAGCAAAATTACTGAAAAA
65 TTCAAGC--AGATGCACTATCAGCAAAAATACTGAAAAA
50046755 GGACGTTCTT
Statistics
Matches: 88, Mismatches: 11, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
124 2 0.02
125 60 0.68
126 26 0.30
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (125 bp):
CTACAGTAGTTTCTAAAAAAATAATTTTGAGAACACGATTCTGAAAAAATAGTGAAAAAAACGCT
TCAAGCAGATGCACTATCAGCAAAAATACTGAAAAAAGCTCCCATGTGGACGCTCTTTTA
Found at i:50053778 original size:18 final size:18
Alignment explanation
Indices: 50053743--50053778 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
50053733 AAAAATGAAT
*
50053743 ATATAAGGGTTAGGATAC
1 ATATAAGGGCTAGGATAC
*
50053761 ATATAAGGGCTAGTATAC
1 ATATAAGGGCTAGGATAC
50053779 GTACCTGGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAC
Found at i:50054379 original size:7 final size:7
Alignment explanation
Indices: 50054367--50054392 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
50054357 AGTTATATAT
50054367 AATACTA
1 AATACTA
50054374 AATACTA
1 AATACTA
50054381 AATACTA
1 AATACTA
50054388 AATAC
1 AATAC
50054393 AAAACGACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:50055325 original size:26 final size:24
Alignment explanation
Indices: 50055278--50055335 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
50055268 CTACAGACTG
* *
50055278 TTATAAAAATTATAAAAT-AAAAA
1 TTATTAAAATTACAAAATAAAAAA
50055301 TTAATTAAAATTACATAAATGAAAAAA
1 TT-ATTAAAATTACA-AAAT-AAAAAA
50055328 TTATTAAA
1 TTATTAAA
50055336 TAATATTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 2 0.07
24 10 0.34
25 4 0.14
26 6 0.21
27 7 0.24
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (24 bp):
TTATTAAAATTACAAAATAAAAAA
Found at i:50059372 original size:28 final size:28
Alignment explanation
Indices: 50059340--50059395 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
50059330 TATGTTTAAT
50059340 TCCATACCAATGTCTACATGTTGGAGAA
1 TCCATACCAATGTCTACATGTTGGAGAA
50059368 TCCATACCAATGTCTACATGTTGGAGAA
1 TCCATACCAATGTCTACATGTTGGAGAA
50059396 GAACTAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (28 bp):
TCCATACCAATGTCTACATGTTGGAGAA
Found at i:50068452 original size:6 final size:6
Alignment explanation
Indices: 50068430--50068470 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
50068420 TTCCAAACGA
*
50068430 TTTCAT TTCTCCAT TTTCAT TTTTAT TTTCAT TTTCAT TTT
1 TTTCAT TT-T-CAT TTTCAT TTTCAT TTTCAT TTTCAT TTT
50068471 GGAGAAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 24 0.77
7 2 0.06
8 5 0.16
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTCAT
Found at i:50068477 original size:69 final size:70
Alignment explanation
Indices: 50068375--50068520 Score: 208
Period size: 69 Copynumber: 2.1 Consensus size: 70
50068365 TTCCATGTCT
*
50068375 TTTTCA-TTTTTTTTCATTTTCCATTTTGGAGAAAACCACATTCATTTCCAAACGATT-TCATTT
1 TTTTCATTTTTTTTTCATTTTCCATTTTGGAGAAAACCACAATCATTTCCAAACGATTCTCATTT
50068438 CTCCA
66 CTCCA
* * * *
50068443 TTTTCATTTTTATTTTCATTTT-CATTTTGGAGAAAATCATAATCATTTCCAAATGTTTCTCATT
1 TTTTCATTTTT-TTTTCATTTTCCATTTTGGAGAAAACCACAATCATTTCCAAACGATTCTCATT
*
50068507 TCTCTA
65 TCTCCA
50068513 TTTTCATT
1 TTTTCATT
50068521 ATTTCTATCC
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
68 6 0.09
69 35 0.51
70 28 0.41
ACGTcount: A:0.25, C:0.18, G:0.05, T:0.51
Consensus pattern (70 bp):
TTTTCATTTTTTTTTCATTTTCCATTTTGGAGAAAACCACAATCATTTCCAAACGATTCTCATTT
CTCCA
Found at i:50071741 original size:17 final size:16
Alignment explanation
Indices: 50071719--50071765 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 16
50071709 TTTTAATAAG
50071719 ATTTAATATTAAATTAA
1 ATTTAATATTAAATT-A
*
50071736 ATTTAATATTTATATTA
1 ATTTAATA-TTAAATTA
50071753 ATTTAATATTAAA
1 ATTTAATATTAAA
50071766 GTGATTAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 4 0.15
17 17 0.63
18 6 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATATTAAATTA
Found at i:50075844 original size:93 final size:93
Alignment explanation
Indices: 50075732--50075903 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
50075722 CGCCCATAAG
*
50075732 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
50075796 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
50075825 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
50075890 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
50075904 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:50075898 original size:46 final size:46
Alignment explanation
Indices: 50075725--50075900 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
50075715 TGTAACCCGC
* *
50075725 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
50075771 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
50075821 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
50075864 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
50075901 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:50082897 original size:27 final size:26
Alignment explanation
Indices: 50082849--50082907 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
50082839 GCGAGGCTAC
*
50082849 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
50082876 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
50082902 CAGATA
1 CAGATA
50082908 CATATATGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:50082927 original size:31 final size:32
Alignment explanation
Indices: 50082870--50082931 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
50082860 ACGAAGTCAC
* *
50082870 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
*
50082902 CAGATACATATA-TGTGGCGAAGCCACCAGA
1 CAGATACAGATATTGTGGCGAAGCCACCAGA
50082932 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:50082969 original size:71 final size:67
Alignment explanation
Indices: 50082876--50083017 Score: 194
Period size: 67 Copynumber: 2.1 Consensus size: 67
50082866 TCACCAGATA
* * *
50082876 CAGATATTGTGGCTAGGCCACCAGAACAGATACATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
*
50082941 GGCTGC
62 AGCTGC
* *
50082947 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAAGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAAGCT
50083012 GC
66 GC
50083014 CAGA
1 CAGA
50083018 ACGCTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
67 40 0.62
71 25 0.38
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.18
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAAGCT
GC
Found at i:50082995 original size:27 final size:26
Alignment explanation
Indices: 50082947--50082998 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
50082937 GCGAGGCTGC
*
50082947 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
50082973 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
50082999 TTGCAGCGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:50091585 original size:68 final size:69
Alignment explanation
Indices: 50091490--50091623 Score: 207
Period size: 68 Copynumber: 2.0 Consensus size: 69
50091480 TTTAATAGTT
* * * *
50091490 TAATATTAAATTAAATTTAATACTTATCTTAAT-AGTATTTTGTTAATTTAATATTAAAGTGATT
1 TAATATTAAATTAAATATAATACTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGATT
50091554 ATCG
66 ATCG
* *
50091558 TAATATTAAATTTAATATAATATTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGATT
1 TAATATTAAATTAAATATAATACTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGATT
50091623 A
66 A
50091624 AGTTTAATCA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
68 30 0.51
69 29 0.49
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (69 bp):
TAATATTAAATTAAATATAATACTTATCTTAATAAATATTATATTAATTTAATATTAAAGTGATT
ATCG
Found at i:50091595 original size:21 final size:20
Alignment explanation
Indices: 50091571--50091611 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
50091561 TATTAAATTT
*
50091571 AATATAATATTTATCTTAATA
1 AATATAATATTAAT-TTAATA
*
50091592 AATATTATATTAATTTAATA
1 AATATAATATTAATTTAATA
50091612 TTAAAGTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
AATATAATATTAATTTAATA
Found at i:50092405 original size:11 final size:10
Alignment explanation
Indices: 50092379--50092430 Score: 52
Period size: 11 Copynumber: 5.1 Consensus size: 10
50092369 TAGATCTTCA
50092379 TTTTT-TTTT
1 TTTTTCTTTT
*
50092388 CTTTTCTCTTT
1 TTTTTCT-TTT
*
50092399 TTTTTCTTTC
1 TTTTTCTTTT
50092409 TTTTTCTTTT
1 TTTTTCTTTT
*
50092419 GTTTTTGTTTT
1 -TTTTTCTTTT
50092430 T
1 T
50092431 GTTGTTATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
9 4 0.11
10 13 0.37
11 18 0.51
ACGTcount: A:0.00, C:0.12, G:0.04, T:0.85
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:50092408 original size:15 final size:15
Alignment explanation
Indices: 50092379--50092423 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
50092369 TAGATCTTCA
50092379 TTTTTTTTTCTTTTC
1 TTTTTTTTTCTTTTC
50092394 TCTTTTTTTTC-TTTC
1 T-TTTTTTTTCTTTTC
*
50092409 TTTTTCTTTTGTTTT
1 TTTTT-TTTTCTTTT
50092424 TGTTTTTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.84
Consensus pattern (15 bp):
TTTTTTTTTCTTTTC
Found at i:50092408 original size:20 final size:18
Alignment explanation
Indices: 50092379--50092424 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
50092369 TAGATCTTCA
50092379 TTTTTTTTTCTTTTCTCTT
1 TTTTTTTTTCTTTT-TCTT
50092398 TTTTTTCTTTCTTTTTCTT
1 TTTTTT-TTTCTTTTTCTT
50092417 TTGTTTTT
1 TT-TTTTT
50092425 GTTTTTGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.85
Consensus pattern (18 bp):
TTTTTTTTTCTTTTTCTT
Found at i:50092418 original size:16 final size:16
Alignment explanation
Indices: 50092379--50092423 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
50092369 TAGATCTTCA
50092379 TTTTTTTTTCTTTTCT
1 TTTTTTTTTCTTTTCT
*
50092395 CTTTTTTTTC-TTTCT
1 TTTTTTTTTCTTTTCT
* *
50092410 TTTTCTTTTGTTTT
1 TTTTTTTTTCTTTT
50092424 TGTTTTTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.84
Consensus pattern (16 bp):
TTTTTTTTTCTTTTCT
Found at i:50092612 original size:29 final size:29
Alignment explanation
Indices: 50092580--50092667 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 29
50092570 TTTGTTAAAA
50092580 TGCTTGTATGGCATTTAAGTTTAATCATG
1 TGCTTGTATGGCATTTAAGTTTAATCATG
* * * ** * **
50092609 TGC-TGAATTG--TTTTAGTTTGTTAAAA
1 TGCTTGTATGGCATTTAAGTTTAATCATG
*
50092635 TGCTTGTATGGCATTAAAGTTTAATCATG
1 TGCTTGTATGGCATTTAAGTTTAATCATG
50092664 TGCT
1 TGCT
50092668 GAATTGTTTT
Statistics
Matches: 39, Mismatches: 17, Indels: 6
0.63 0.27 0.10
Matches are distributed among these distances:
26 13 0.33
27 5 0.13
28 5 0.13
29 16 0.41
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.45
Consensus pattern (29 bp):
TGCTTGTATGGCATTTAAGTTTAATCATG
Found at i:50092655 original size:55 final size:55
Alignment explanation
Indices: 50092569--50092678 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
50092559 CCTACTATGT
*
50092569 GTTTGTTAAAATGCTTGTATGGCATTTAAGTTTAATCATGTGCTGAATTGTTTTA
1 GTTTGTTAAAATGCTTGTATGGCATTAAAGTTTAATCATGTGCTGAATTGTTTTA
50092624 GTTTGTTAAAATGCTTGTATGGCATTAAAGTTTAATCATGTGCTGAATTGTTTTA
1 GTTTGTTAAAATGCTTGTATGGCATTAAAGTTTAATCATGTGCTGAATTGTTTTA
50092679 TTGTTTGATT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.26, C:0.07, G:0.20, T:0.46
Consensus pattern (55 bp):
GTTTGTTAAAATGCTTGTATGGCATTAAAGTTTAATCATGTGCTGAATTGTTTTA
Found at i:50095562 original size:40 final size:39
Alignment explanation
Indices: 50095511--50095755 Score: 314
Period size: 40 Copynumber: 6.1 Consensus size: 39
50095501 GGATGATAAT
*
50095511 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA
*
50095550 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-A
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA
50095590 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA
*
50095631 TCCGGGCTAAGTCCCGAAGGCATCTGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA
* *
50095671 TCCGGGCTAAGTCCCGAAGACATTTGTGCGAACTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATA
* * * * *
50095711 TCCAGGCTAAGTCCCGAAGACAATTGAGCGAGTGGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA
50095751 TCCGG
1 TCCGG
50095756 TTAAAGCCCG
Statistics
Matches: 189, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 2 0.01
40 184 0.97
41 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATA
Found at i:50103615 original size:40 final size:40
Alignment explanation
Indices: 50103561--50103805 Score: 300
Period size: 40 Copynumber: 6.1 Consensus size: 40
50103551 GGATGATAAT
*
50103561 TCCGGGCTATGTCCCGAAGGCATTTGTGCTAGTGACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATA
*
50103600 TTCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-A
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATA
* *
50103640 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATA
* *
50103681 TCCGGGCTAAGTCCCGAAGGCATCTGTG-TGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACTATA
* * * *
50103721 TCCGGGCTAATTCCCGAAGACATTTGTGCGAACT-ACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-TAGTGACTATA
* * * *
50103761 TCCGGGCTAAGTCCCGAAGGCAATTGAGCGAGTGGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATA
50103801 TCCGG
1 TCCGG
50103806 TTAAAGCCCG
Statistics
Matches: 181, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 2 0.01
40 176 0.97
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATA
Found at i:50105580 original size:27 final size:26
Alignment explanation
Indices: 50105547--50105616 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
50105537 AACACATTAG
* *
50105547 GAAAGAAAAACCTTTTTGATGTAATAT
1 GAAAG-AAAACCTTTGTGATGGAATAT
* *
50105574 GAAAGAAAGCCTTTGTGGTGGAATAT
1 GAAAGAAAACCTTTGTGATGGAATAT
50105600 GAAAGAAAACCTTTGTG
1 GAAAGAAAACCTTTGTG
50105617 GCAGAATTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
26 33 0.87
27 5 0.13
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.29
Consensus pattern (26 bp):
GAAAGAAAACCTTTGTGATGGAATAT
Found at i:50105598 original size:26 final size:26
Alignment explanation
Indices: 50105569--50105644 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
50105559 TTTTTGATGT
**
50105569 AATATGAAAGAAAGCCTTTGTGGTGG
1 AATATGAAAGAAAGCCTTTGTGGCAG
*
50105595 AATATGAAAGAAAACCTTTGTGGCAG
1 AATATGAAAGAAAGCCTTTGTGGCAG
* * *
50105621 AATTTGAAAAGAACGTCTTTGTGG
1 AATATG-AAAGAAAGCCTTTGTGG
50105645 AAAACTCCAT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 28 0.67
27 14 0.33
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (26 bp):
AATATGAAAGAAAGCCTTTGTGGCAG
Found at i:50106227 original size:52 final size:52
Alignment explanation
Indices: 50106165--50106263 Score: 189
Period size: 52 Copynumber: 1.9 Consensus size: 52
50106155 TTTGAGTAAG
50106165 AATCAATAGTGTGAAAAACTATATAAGTATCCACCATATGTATGTGTTCGCA
1 AATCAATAGTGTGAAAAACTATATAAGTATCCACCATATGTATGTGTTCGCA
*
50106217 AATCAATAGTGTGAAAAACTATGTAAGTATCCACCATATGTATGTGT
1 AATCAATAGTGTGAAAAACTATATAAGTATCCACCATATGTATGTGT
50106264 CCACCCAAGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.31
Consensus pattern (52 bp):
AATCAATAGTGTGAAAAACTATATAAGTATCCACCATATGTATGTGTTCGCA
Found at i:50108267 original size:11 final size:12
Alignment explanation
Indices: 50108252--50108278 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
50108242 CAAAAAAATT
50108252 AAAAAAAAAAAG
1 AAAAAAAAAAAG
50108264 AAAAAAAAAAAG
1 AAAAAAAAAAAG
50108276 AAA
1 AAA
50108279 TCCTTATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:50109902 original size:34 final size:35
Alignment explanation
Indices: 50109826--50109903 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 35
50109816 ACAGTTCCTG
*
50109826 AAAA-TATTATTTCAAAAAATTCTATCAAATAGCA
1 AAAAGTATTATTTCAAAAAATTCTATCAAACAGCA
*
50109860 AAACGTATT-TTTCAAAAAATT-TATCTAAACA-CTA
1 AAAAGTATTATTTCAAAAAATTCTATC-AAACAGC-A
50109894 AAAAGTATTA
1 AAAAGTATTA
50109904 ACTTATTCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
33 5 0.14
34 28 0.76
35 4 0.11
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (35 bp):
AAAAGTATTATTTCAAAAAATTCTATCAAACAGCA
Found at i:50110778 original size:95 final size:95
Alignment explanation
Indices: 50110615--50110805 Score: 373
Period size: 95 Copynumber: 2.0 Consensus size: 95
50110605 GAGAAAGAGA
50110615 AAGATGCATGATGGAGGCAGCACTCATTATCTCAAGCAAAAGTTTCAGATTCCGATAAAGGAAAT
1 AAGATGCATGATGGAGGCAGCACTCATTATCTCAAGCAAAAGTTTCAGATTCCGATAAAGGAAAT
*
50110680 TCAGGGGGGGGAAAAGCTTGAATACAATGC
66 TCAGGGGGGGAAAAAGCTTGAATACAATGC
50110710 AAGATGCATGATGGAGGCAGCACTCATTATCTCAAGCAAAAGTTTCAGATTCCGATAAAGGAAAT
1 AAGATGCATGATGGAGGCAGCACTCATTATCTCAAGCAAAAGTTTCAGATTCCGATAAAGGAAAT
50110775 TCAGGGGGGGAAAAAGCTTGAATACAATGC
66 TCAGGGGGGGAAAAAGCTTGAATACAATGC
50110805 A
1 A
50110806 TGGCACCACT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.21
Consensus pattern (95 bp):
AAGATGCATGATGGAGGCAGCACTCATTATCTCAAGCAAAAGTTTCAGATTCCGATAAAGGAAAT
TCAGGGGGGGAAAAAGCTTGAATACAATGC
Found at i:50112627 original size:107 final size:107
Alignment explanation
Indices: 50112441--50112655 Score: 394
Period size: 107 Copynumber: 2.0 Consensus size: 107
50112431 TTCGTACATG
* *
50112441 TACTTTAATTTGATTAATTTTAGTCTTTATGTTTTTTGAGTTTTGAAATTTAGTTCTAAAGCGAT
1 TACTTTAATTTGATTAATTTTAATCTTTATGCTTTTTGAGTTTTGAAATTTAGTTCTAAAGCGAT
*
50112506 GGTAATAGTTAAATCTGTTTGGTTAAATTATGTCATTAGTCT
66 GGTAACAGTTAAATCTGTTTGGTTAAATTATGTCATTAGTCT
*
50112548 TACTTTAATTTGATTAATTTTAATCTTTATGCTTTTTGAGTTTTGAAATTTAGTTCTAACGCGAT
1 TACTTTAATTTGATTAATTTTAATCTTTATGCTTTTTGAGTTTTGAAATTTAGTTCTAAAGCGAT
50112613 GGTAACAGTTAAATCTGTTTGGTTAAATTATGTCATTAGTCT
66 GGTAACAGTTAAATCTGTTTGGTTAAATTATGTCATTAGTCT
50112655 T
1 T
50112656 GTTTTATATG
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 104 1.00
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.50
Consensus pattern (107 bp):
TACTTTAATTTGATTAATTTTAATCTTTATGCTTTTTGAGTTTTGAAATTTAGTTCTAAAGCGAT
GGTAACAGTTAAATCTGTTTGGTTAAATTATGTCATTAGTCT
Found at i:50119065 original size:47 final size:47
Alignment explanation
Indices: 50119013--50119460 Score: 740
Period size: 47 Copynumber: 9.6 Consensus size: 47
50119003 GATAATTGTG
* *
50119013 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
50119060 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
50119107 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC-ATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
50119153 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
50119202 ATGTGAAAGTGTATATATGTGATAAGGCCTAA--GCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
50119247 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
50119294 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
50119341 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
50119388 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
50119435 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
50119461 TCCCGAAGGG
Statistics
Matches: 378, Mismatches: 18, Indels: 10
0.93 0.04 0.02
Matches are distributed among these distances:
45 44 0.12
46 20 0.05
47 269 0.71
48 25 0.07
49 20 0.05
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:50126284 original size:31 final size:30
Alignment explanation
Indices: 50126227--50126285 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
50126217 GTAAATACTC
* * * *
50126227 AAAATTTGAGGGATTAAAGTGTAAATATGA
1 AAAAGTTGAAGGACTAAAGTGAAAATATGA
50126257 AAAAGTTGAAGGACTAATAGTGAAAATAT
1 AAAAGTTGAAGGACTAA-AGTGAAAATAT
50126286 TTTAAGGGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.49, C:0.02, G:0.22, T:0.27
Consensus pattern (30 bp):
AAAAGTTGAAGGACTAAAGTGAAAATATGA
Found at i:50129730 original size:45 final size:44
Alignment explanation
Indices: 50129668--50129988 Score: 341
Period size: 45 Copynumber: 7.3 Consensus size: 44
50129658 CTGTTACCGC
* * *
50129668 TACTGCTACTGTTACCGATTCGGCACTTTATGTATCGAATATTGC
1 TACTGCTAC-GTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
50129713 TACTGCTATCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGCTA-CGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* *
50129758 TACTGTTACCGTTACTGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGCTA-CGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
50129803 TACTGC--CGTTACCGATTCGGCACTATGTGTGTCGAATATTGT
1 TACTGCTACGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * * *
50129845 TATTGTTACCGTTACCGATTCGACACTTTGTGTGTTGAATATTGT
1 TACTGCTA-CGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * * *
50129890 TA---CT--GTTACCAATTCGACACTTTGTGTGTTGAATACTGT
1 TACTGCTACGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * * * * * *
50129929 TACCGTTACTATTACAGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGCTAC-GTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
50129974 TACTGTTACTGTTAC
1 TACTGCTAC-GTTAC
50129989 TGCTATTGTT
Statistics
Matches: 241, Mismatches: 25, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
39 35 0.15
42 40 0.17
45 165 0.68
46 1 0.00
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (44 bp):
TACTGCTACGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:50129852 original size:87 final size:87
Alignment explanation
Indices: 50129668--50129978 Score: 385
Period size: 87 Copynumber: 3.6 Consensus size: 87
50129658 CTGTTACCGC
* * * * *
50129668 TACTGCTACTGTTACCGATTCGGCACTTTATGTATCGAATATTGCTACTGCTATCGTTACCGATT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGC---CGTTACCGATT
50129733 CGGCACTTTGTGTGTCGAATATTGT
63 CGGCACTTTGTGTGTCGAATATTGT
*
50129758 TACTGTTACCGTTACTGATTCGGCACTTTGTGTGTCGAATATTGTTACTGCCGTTACCGATTCGG
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGCCGTTACCGATTCGG
*
50129823 CACTATGTGTGTCGAATATTGT
66 CACTTTGTGTGTCGAATATTGT
* * * * *
50129845 TATTGTTACCGTTACCGATTCGACACTTTGTGTGTTGAATATTGTTACT---GTTACCAATTCGA
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGCCGTTACCGATTCGG
* *
50129907 CACTTTGTGTGTTGAATACTGT
66 CACTTTGTGTGTCGAATATTGT
* ** * * * *
50129929 TACCGTTACTATTACAGATTCAGCACTTTGTGTGTTGAATACTGTTACTG
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTG
50129979 TTACTGTTAC
Statistics
Matches: 196, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
84 71 0.36
87 80 0.41
90 45 0.23
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (87 bp):
TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGCCGTTACCGATTCGG
CACTTTGTGTGTCGAATATTGT
Found at i:50129892 original size:33 final size:35
Alignment explanation
Indices: 50129855--50129933 Score: 90
Period size: 39 Copynumber: 2.2 Consensus size: 35
50129845 TATTGTTACC
*
50129855 GTTACCGATTCGACACTTTGTGTGTTGAATATTGTTACT
1 GTTACCGATTCGACACTTTGTGTGTTGAATA---TCA-T
*
50129894 GTTACCAATTCGACACTTTGTGTGTTGAATA-C-T
1 GTTACCGATTCGACACTTTGTGTGTTGAATATCAT
50129927 GTTACCG
1 GTTACCG
50129934 TTACTATTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
33 7 0.19
39 30 0.81
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.41
Consensus pattern (35 bp):
GTTACCGATTCGACACTTTGTGTGTTGAATATCAT
Found at i:50129979 original size:6 final size:6
Alignment explanation
Indices: 50129968--50130011 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
50129958 GTGTGTTGAA
* *
50129968 TACTGT TACTGT TACTGT TACTGC TATTGT TACTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T
50130012 TAGGTATTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.50
Consensus pattern (6 bp):
TACTGT
Found at i:50135224 original size:14 final size:14
Alignment explanation
Indices: 50135201--50135237 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
50135191 CCTAATATAC
50135201 TAAGTACCCTTGAA
1 TAAGTACCCTTGAA
*
50135215 TAAGTTCCCTTGAA
1 TAAGTACCCTTGAA
*
50135229 TAAATACCC
1 TAAGTACCC
50135238 AATTTTAGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (14 bp):
TAAGTACCCTTGAA
Found at i:50137383 original size:28 final size:28
Alignment explanation
Indices: 50137351--50137415 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
50137341 ATTTACTAGA
*
50137351 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATGCAAAATGACC-TCT
50137379 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATGACCTCT
50137407 ATACCCCTA
1 ATACCCCTA
50137416 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTCT
Found at i:50137564 original size:28 final size:27
Alignment explanation
Indices: 50137533--50137610 Score: 93
Period size: 27 Copynumber: 2.8 Consensus size: 27
50137523 GGTGGCTATG
*
50137533 CCACAAATTATCTGTTCTGGTGGCCCTA
1 CCACAAA-TATCTGTTCTGGTGGCACTA
* * *
50137561 CCACATATATCTGTTCTAGTGGCACTG
1 CCACAAATATCTGTTCTGGTGGCACTA
50137588 CCACAACATATCTGTATCTGGTG
1 CCACAA-ATATCTGT-TCTGGTG
50137611 ACTCTGTCAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 22 0.52
28 14 0.33
29 6 0.14
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (27 bp):
CCACAAATATCTGTTCTGGTGGCACTA
Found at i:50149618 original size:20 final size:20
Alignment explanation
Indices: 50149593--50149648 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
50149583 TATCCCCTTG
*
50149593 TTTAAAGATCTTTTAAATCC-
1 TTTAAA-ATCTTTTAAAACCT
* *
50149613 TTTAAAACCTTTCAAAACCT
1 TTTAAAATCTTTTAAAACCT
*
50149633 TTTAAAATCTCTTAAA
1 TTTAAAATCTTTTAAA
50149649 CCCAAAAACT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.41
Consensus pattern (20 bp):
TTTAAAATCTTTTAAAACCT
Found at i:50150979 original size:21 final size:21
Alignment explanation
Indices: 50150946--50150985 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
50150936 CGTGAAAGCG
*
50150946 AAGAGGAAGGAGAGGATGATA
1 AAGAAGAAGGAGAGGATGATA
* *
50150967 AAGAAGAATGAGATGATGA
1 AAGAAGAAGGAGAGGATGA
50150986 AATGGATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.38, T:0.12
Consensus pattern (21 bp):
AAGAAGAAGGAGAGGATGATA
Found at i:50155111 original size:19 final size:19
Alignment explanation
Indices: 50155087--50155127 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
50155077 GCTTCATAGC
* *
50155087 TTAGTAAGCTTGTATGTGA
1 TTAGTAAGCTCGTATATGA
50155106 TTAGTAAGCTCGTATATGA
1 TTAGTAAGCTCGTATATGA
50155125 TTA
1 TTA
50155128 AATTAATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (19 bp):
TTAGTAAGCTCGTATATGA
Found at i:50159049 original size:22 final size:22
Alignment explanation
Indices: 50159024--50159078 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
50159014 AATGAAAGCT
**
50159024 ATGTCACAACACGGATGATTCA
1 ATGTCACAACACAAATGATTCA
* *
50159046 ATGTCACGACACAAATGATTCG
1 ATGTCACAACACAAATGATTCA
*
50159068 ATGTCATAACA
1 ATGTCACAACA
50159079 TAGGGAATAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (22 bp):
ATGTCACAACACAAATGATTCA
Found at i:50159943 original size:25 final size:25
Alignment explanation
Indices: 50159909--50159959 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
50159899 AACTACCAAG
*
50159909 TATGAAATGAGATGTGCGAAATGAA
1 TATGAAATGAGATGTACGAAATGAA
*
50159934 TATGAAATGAGATGTATGAAATGAA
1 TATGAAATGAGATGTACGAAATGAA
50159959 T
1 T
50159960 TTAGTAGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.02, G:0.25, T:0.27
Consensus pattern (25 bp):
TATGAAATGAGATGTACGAAATGAA
Found at i:50159951 original size:14 final size:14
Alignment explanation
Indices: 50159908--50159957 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
50159898 TAACTACCAA
50159908 GTATGAAATGAGAT
1 GTATGAAATGAGAT
**
50159922 GTGCGAAATGA-A-
1 GTATGAAATGAGAT
50159934 -TATGAAATGAGAT
1 GTATGAAATGAGAT
50159947 GTATGAAATGA
1 GTATGAAATGA
50159958 ATTTAGTAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
11 8 0.28
12 1 0.03
13 1 0.03
14 19 0.66
ACGTcount: A:0.44, C:0.02, G:0.28, T:0.26
Consensus pattern (14 bp):
GTATGAAATGAGAT
Found at i:50166466 original size:47 final size:47
Alignment explanation
Indices: 50166413--50166880 Score: 677
Period size: 47 Copynumber: 10.0 Consensus size: 47
50166403 TTAGGATTTT
* *
50166413 ATGTGATGAATGTGAACATGCATATATGTGATGAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
50166460 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
50166507 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
50166554 ATGTGATGAATGTGAACATGCATATATGTGATGAA-GTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGAT-AAGGCCGAATGGCCA
* * *
50166601 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* ** *
50166648 ATGTGGTGAATACGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
50166695 ATGTGATGAATGTGAACATGCGTATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
50166742 ATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
50166789 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
50166836 ATGTGGTGAATATGAAAATGCATATATGCGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
50166881 TGGTGTGAAA
Statistics
Matches: 375, Mismatches: 44, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
46 2 0.01
47 371 0.99
48 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:50166561 original size:141 final size:141
Alignment explanation
Indices: 50166412--50166863 Score: 760
Period size: 141 Copynumber: 3.2 Consensus size: 141
50166402 TTTAGGATTT
*
50166412 TATGTGATGAATGTGAACATGCATATATGTGATGAGGCCAAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
50166477 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
50166542 GCCGAATGGCC
131 GCCGAATGGCC
* *
50166553 TATGTGATGAATGTGAACATGCATATATGTGATGAAGTCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
* *
50166618 ATGCATATGTGTGATAAGGCCAAATGGCCAATGTGGTGAATACGAACATGCATATATGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
50166683 GCCGAATGGCC
131 GCCGAATGGCC
* *
50166694 TATGTGATGAATGTGAACATGCGTATATGTGATGAGGCCGAATGGCCAATGTGATAAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
* * * * *
50166759 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
50166824 GCCGAATGGCC
131 GCCGAATGGCC
* * * *
50166835 AATGTGGTGAATATGAAAATGCATATATG
1 TATGTGATGAATGTGAACATGCATATATG
50166864 CGGTAAAGCC
Statistics
Matches: 290, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
141 290 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (141 bp):
TATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
GCCGAATGGCC
Found at i:50166697 original size:22 final size:22
Alignment explanation
Indices: 50166672--50166750 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
50166662 AACATGCATA
50166672 TATGTGATAAGGCCGAATGGCC
1 TATGTGATAAGGCCGAATGGCC
* * **
50166694 TATGTGATGAATG-TGAACATGCGTA
1 TATGTGAT-AAGGCCG-A-ATG-GCC
*
50166719 TATGTGATGAGGCCGAATGGCC
1 TATGTGATAAGGCCGAATGGCC
*
50166741 AATGTGATAA
1 TATGTGATAA
50166751 ATGTGAGCAT
Statistics
Matches: 41, Mismatches: 11, Indels: 10
0.66 0.18 0.16
Matches are distributed among these distances:
22 18 0.44
23 7 0.17
24 6 0.15
25 10 0.24
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (22 bp):
TATGTGATAAGGCCGAATGGCC
Found at i:50166844 original size:25 final size:25
Alignment explanation
Indices: 50166769--50166844 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
50166759 ATGCATATAT
50166769 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
50166794 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
50166816 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
50166841 GTGA
1 GTGA
50166845 ATATGAAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:50167093 original size:37 final size:37
Alignment explanation
Indices: 50167043--50167157 Score: 185
Period size: 37 Copynumber: 3.1 Consensus size: 37
50167033 AGAAATATAT
*
50167043 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
50167080 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
50167117 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTACG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
50167154 TCCG
1 TCCG
50167158 AGCTAAAGGT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:50171982 original size:16 final size:17
Alignment explanation
Indices: 50171961--50172000 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
50171951 AAAATTTGTG
50171961 TTATTTTATTTT-TTCT
1 TTATTTTATTTTATTCT
*
50171977 TTATTTTATTTTATTTT
1 TTATTTTATTTTATTCT
50171994 TTATTTT
1 TTATTTT
50172001 TTTCACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (17 bp):
TTATTTTATTTTATTCT
Found at i:50171987 original size:21 final size:20
Alignment explanation
Indices: 50171961--50172003 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
50171951 AAAATTTGTG
*
50171961 TTATTTTATTTTTTCTTTATT
1 TTATTTTATTTTTTATTT-TT
50171982 TTATTTTATTTTTTATTTTT
1 TTATTTTATTTTTTATTTTT
50172002 TT
1 TT
50172004 CACAAAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.84
Consensus pattern (20 bp):
TTATTTTATTTTTTATTTTT
Found at i:50183254 original size:20 final size:20
Alignment explanation
Indices: 50183209--50183254 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
50183199 CATCCAAACA
50183209 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
50183229 -CAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
50183248 CCAGAAA
1 CCAGAAA
50183255 TCATTTTCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:50183257 original size:14 final size:14
Alignment explanation
Indices: 50183238--50183275 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
50183228 TCAGAAAAGT
50183238 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
50183252 AAATCATTTTCCGG
1 AAATCATTTTCCAG
50183266 AAATCATTTT
1 AAATCATTTT
50183276 ACTTGCAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:50185267 original size:43 final size:43
Alignment explanation
Indices: 50185220--50185302 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
50185210 AGCAAATCAT
* *
50185220 AATACGATGCCAATGTCCTAGACATGGTCTTACACGTAATTTC
1 AATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATTTC
*
50185263 AATACAATGCCAATGTCCCAGACATGGTCTTACATGTAAT
1 AATACAATGCCAATGTCCCAGACATGGTCTTACACGTAAT
50185303 CACATCTCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (43 bp):
AATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATTTC
Found at i:50192364 original size:12 final size:12
Alignment explanation
Indices: 50192347--50192373 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
50192337 ACCCGGCATT
50192347 AACTCAATACCA
1 AACTCAATACCA
50192359 AACTCAATACCA
1 AACTCAATACCA
50192371 AAC
1 AAC
50192374 ACATCTGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (12 bp):
AACTCAATACCA
Found at i:50213071 original size:26 final size:26
Alignment explanation
Indices: 50213041--50213091 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
50213031 AACACAGTAG
*
50213041 GAAAGAAA-ACCTTTGTAGCATAATAT
1 GAAAGAAAGA-CTTTGTAGCAGAATAT
*
50213067 GAAAGAAAGACTTTGTGGCAGAATA
1 GAAAGAAAGACTTTGTAGCAGAATA
50213092 CGGAAGGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.45, C:0.10, G:0.22, T:0.24
Consensus pattern (26 bp):
GAAAGAAAGACTTTGTAGCAGAATAT
Found at i:50218143 original size:43 final size:43
Alignment explanation
Indices: 50218082--50218164 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
50218072 CATGTATCGC
* *
50218082 ATCCATAATGAACTCGGACCAATTCAACGAGCTCGGATGCTCG
1 ATCCATAATGAACTCGGACCAACTCAAAGAGCTCGGATGCTCG
50218125 ATCCATAATGAACTCGGACCAACTCAAAGAGCTCGGATGC
1 ATCCATAATGAACTCGGACCAACTCAAAGAGCTCGGATGC
50218165 CTTATAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (43 bp):
ATCCATAATGAACTCGGACCAACTCAAAGAGCTCGGATGCTCG
Found at i:50223361 original size:37 final size:37
Alignment explanation
Indices: 50223311--50223389 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
50223301 TTATTACGAA
* *
50223311 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
50223348 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
50223385 GTCTT
1 GTCTT
50223390 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:50223586 original size:47 final size:47
Alignment explanation
Indices: 50223508--50224050 Score: 888
Period size: 47 Copynumber: 11.5 Consensus size: 47
50223498 CCCTTCGGGA
* * * * * * *
50223508 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50223555 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50223602 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50223649 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50223696 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50223743 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50223790 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50223837 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50223884 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50223933 CTTATCACATATATATACACATTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50223982 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50224029 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
50224051 TTGGCTGAAT
Statistics
Matches: 471, Mismatches: 23, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
47 378 0.80
49 93 0.20
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50229366 original size:46 final size:46
Alignment explanation
Indices: 50229295--50229386 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
50229285 ACCCATTGCC
50229295 ACACCTTAACCTTATGACTCATCCACGATCGCAATTAATTAATTAA
1 ACACCTTAACCTTATGACTCATCCACGATCGCAATTAATTAATTAA
* * *
50229341 ACACCTTAACTTTATGACTCGTCCACGGTCGCAATTAATTAATTAA
1 ACACCTTAACCTTATGACTCATCCACGATCGCAATTAATTAATTAA
50229387 GTTTTATGTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.32
Consensus pattern (46 bp):
ACACCTTAACCTTATGACTCATCCACGATCGCAATTAATTAATTAA
Found at i:50233590 original size:19 final size:19
Alignment explanation
Indices: 50233566--50233603 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
50233556 ATGCGATTAA
50233566 TTGAAGGGTGATATCATTT
1 TTGAAGGGTGATATCATTT
50233585 TTGAAGGGTGATATCATTT
1 TTGAAGGGTGATATCATTT
50233604 GTAGGTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.42
Consensus pattern (19 bp):
TTGAAGGGTGATATCATTT
Found at i:50233974 original size:29 final size:29
Alignment explanation
Indices: 50233931--50234024 Score: 109
Period size: 29 Copynumber: 3.3 Consensus size: 29
50233921 TGTGAGCAAG
*
50233931 AATAT-AAGGTGATTTGGGCCTAACGGGC
1 AATATAAAGGTGATTTGGGCCTAATGGGC
* * *
50233959 CATATAAAGGTGATTTGGACCTGATGGGC
1 AATATAAAGGTGATTTGGGCCTAATGGGC
* * *
50233988 AATATGAATGTGAATTGGGCCTAATGGGC
1 AATATAAAGGTGATTTGGGCCTAATGGGC
*
50234017 TATATAAA
1 AATATAAA
50234025 TAAGATTGGG
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 4 0.08
29 49 0.92
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.28
Consensus pattern (29 bp):
AATATAAAGGTGATTTGGGCCTAATGGGC
Found at i:50241733 original size:29 final size:29
Alignment explanation
Indices: 50241691--50241808 Score: 116
Period size: 29 Copynumber: 4.1 Consensus size: 29
50241681 GTGAGAATGA
* *
50241691 ATAT-AAGGTGATTTGGGCCTAACGTGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
*
50241719 ATATAAAGGTGATTTGGGCCAAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* * * *
50241748 ATATAAATGTGGTGTGGGCCTGATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* * *
50241777 ATATAAATGAGA-TTGGGCC-AAGTGGGCT
1 ATATAAAGGTGATTTGGGCCTAA-TGGGCC
50241805 ATAT
1 ATAT
50241809 GCATGTATGT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
27 1 0.01
28 19 0.25
29 55 0.73
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAATGGGCC
Found at i:50244813 original size:37 final size:38
Alignment explanation
Indices: 50244741--50244840 Score: 105
Period size: 37 Copynumber: 2.7 Consensus size: 38
50244731 CGGTTGGACT
** *
50244741 AGCTCTTCGGAGCAATTGGCGTG-TTATCGAGTGGATG
1 AGCTCTTATGAGCATTTGGCGTGTTTATCGAGTGGATG
* * * *
50244778 AGTTGTTATGAGCATTTGGCGTGTTTA-CGATTGGATT
1 AGCTCTTATGAGCATTTGGCGTGTTTATCGAGTGGATG
* *
50244815 AGCTCTTATGAACATTTGGCATGTTT
1 AGCTCTTATGAGCATTTGGCGTGTTT
50244841 TTGGTGGATT
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
37 48 0.94
38 3 0.06
ACGTcount: A:0.20, C:0.13, G:0.29, T:0.38
Consensus pattern (38 bp):
AGCTCTTATGAGCATTTGGCGTGTTTATCGAGTGGATG
Found at i:50245305 original size:25 final size:25
Alignment explanation
Indices: 50245271--50245319 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
50245261 ATTATATGTC
50245271 ATGTAATAGGATTATTTTGACCTTT
1 ATGTAATAGGATTATTTTGACCTTT
50245296 ATGTAATAGGATTATTTTGACCTT
1 ATGTAATAGGATTATTTTGACCTT
50245320 ACTTTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.16, T:0.47
Consensus pattern (25 bp):
ATGTAATAGGATTATTTTGACCTTT
Found at i:50250803 original size:44 final size:44
Alignment explanation
Indices: 50250739--50250822 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
50250729 ATGTGATTTG
*
50250739 AACTCATGAGTTGTGATCTGAGTTCATGATATATTTGACATCTA
1 AACTCATGAGTTGTGATCTGAGTTCATGATATATATGACATCTA
* *
50250783 AACTCATGAGTTGTGGTCTGAGTTCATTATATATATGACA
1 AACTCATGAGTTGTGATCTGAGTTCATGATATATATGACA
50250823 CATGTTTTGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (44 bp):
AACTCATGAGTTGTGATCTGAGTTCATGATATATATGACATCTA
Found at i:50254551 original size:10 final size:10
Alignment explanation
Indices: 50254536--50254576 Score: 68
Period size: 10 Copynumber: 4.3 Consensus size: 10
50254526 GAAATGTTTG
50254536 ATGATATAAT
1 ATGATATAAT
50254546 ATGATATAAT
1 ATGATATAAT
50254556 ATGATATAAT
1 ATGATATAAT
50254566 A-GATAT-AT
1 ATGATATAAT
50254574 ATG
1 ATG
50254577 TTTTATTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 3 0.10
9 6 0.20
10 21 0.70
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (10 bp):
ATGATATAAT
Found at i:50260978 original size:50 final size:50
Alignment explanation
Indices: 50260818--50260966 Score: 243
Period size: 50 Copynumber: 3.1 Consensus size: 50
50260808 ACAGGACAAA
* * *
50260818 AATGAGCCATGTAAGTCCATATCAG----ATATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGAGACAGG
50260864 AATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGAGACAGG
50260914 AATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGAGACAGG
50260964 AAT
1 AAT
50260967 AATTCATGTA
Statistics
Matches: 96, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
46 23 0.24
50 73 0.76
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (50 bp):
AATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGAGACAGG
Found at i:50264875 original size:50 final size:50
Alignment explanation
Indices: 50264759--50264950 Score: 255
Period size: 50 Copynumber: 3.9 Consensus size: 50
50264749 CACATAATAA
* * * *
50264759 GATGCCAAGGCCGTATCCCAGATATGGTCTTACATGGGA--TCACATA-C
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCACATATC
*
50264806 TGATGCCAATGCCATGTCCCAGACATGGTCCTACATGGGATCTCACATATC
1 -GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCACATATC
* * * *
50264857 AATGCCACTGTCAGGTCCCAGACATGGTCTTACATGGGATCTCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCACATATC
* *
50264907 GATGCCAATGCCATGTCCCAAACATGGTTTTACATGGGATCTCA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCA
50264951 TACATGGGAT
Statistics
Matches: 125, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
48 34 0.27
50 90 0.72
51 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (50 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCACATATC
Found at i:50265152 original size:20 final size:20
Alignment explanation
Indices: 50265115--50265153 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
50265105 GTCACATATA
* *
50265115 TCATGAACTCAGACCACAAC
1 TCATGAACTCAAAACACAAC
*
50265135 TCATGAGCTCAAAACACAA
1 TCATGAACTCAAAACACAA
50265154 ATTTCTTAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.31, G:0.10, T:0.15
Consensus pattern (20 bp):
TCATGAACTCAAAACACAAC
Found at i:50266103 original size:35 final size:35
Alignment explanation
Indices: 50266064--50266134 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
50266054 CCATTAAACA
50266064 TCAAAATACTAACATATCATGCATGGGTCAATTTT
1 TCAAAATACTAACATATCATGCATGGGTCAATTTT
50266099 TCAAAATACTAACATATCATGCATGGGTCAATTTT
1 TCAAAATACTAACATATCATGCATGGGTCAATTTT
50266134 T
1 T
50266135 TAAACATAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (35 bp):
TCAAAATACTAACATATCATGCATGGGTCAATTTT
Found at i:50268445 original size:15 final size:15
Alignment explanation
Indices: 50268425--50268453 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
50268415 GAAAACTAAG
50268425 ATAGAGGAATCCAAA
1 ATAGAGGAATCCAAA
50268440 ATAGAGGAATCCAA
1 ATAGAGGAATCCAA
50268454 GATACGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.14, G:0.21, T:0.14
Consensus pattern (15 bp):
ATAGAGGAATCCAAA
Found at i:50277284 original size:26 final size:27
Alignment explanation
Indices: 50277244--50277323 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 27
50277234 GATGGGTCAT
* * *
50277244 AAATACCCCTAATTTG-CAAATTATCA
1 AAATACCCCCAATTTGAAAAATTACCA
* *
50277270 AAATACCCCCGATTTGAAAAATTACCG
1 AAATACCCCCAATTTGAAAAATTACCA
* * * *
50277297 AAATACCCCTAGTTTGTAAAATGACCA
1 AAATACCCCCAATTTGAAAAATTACCA
50277324 TAATGCCCTT
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 14 0.33
27 28 0.67
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.26
Consensus pattern (27 bp):
AAATACCCCCAATTTGAAAAATTACCA
Found at i:50277369 original size:27 final size:28
Alignment explanation
Indices: 50277311--50277372 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 28
50277301 ACCCCTAGTT
* * *
50277311 TGTAAAATGACCATAATGCCCTTGTAAG
1 TGTAAAATGACCAGAATACCCTTATAAG
50277339 -GTAAAATGACCAGAATACCCTTAT-AG
1 TGTAAAATGACCAGAATACCCTTATAAG
50277365 TGTAAAAT
1 TGTAAAAT
50277373 TATTGAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (28 bp):
TGTAAAATGACCAGAATACCCTTATAAG
Found at i:50281042 original size:56 final size:56
Alignment explanation
Indices: 50280951--50281124 Score: 249
Period size: 56 Copynumber: 3.1 Consensus size: 56
50280941 CGCCATGAAC
* * * * *
50280951 ATTCATACAGACATTTCATATCATGACATGGGTCTTAACCACATGGTCTTACATAT
1 ATTCATTCAGTCATATCATATCTTGCCATGGGTCTTAACCACATGGTCTTACATAT
* * * *
50281007 GTTCATTCAGTCATATCATATCTTGCCATGTGTCTTAACCTCAAGGTCTTACATAT
1 ATTCATTCAGTCATATCATATCTTGCCATGGGTCTTAACCACATGGTCTTACATAT
* *
50281063 ATTCATTTAGTCATATCATATTTTGCCATGGGTCTTAACCACATGGTCTTACATAT
1 ATTCATTCAGTCATATCATATCTTGCCATGGGTCTTAACCACATGGTCTTACATAT
50281119 ATTCAT
1 ATTCAT
50281125 GTATCTTAAT
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 103 1.00
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (56 bp):
ATTCATTCAGTCATATCATATCTTGCCATGGGTCTTAACCACATGGTCTTACATAT
Found at i:50283002 original size:18 final size:20
Alignment explanation
Indices: 50282965--50283002 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
50282955 AAATAGAACT
*
50282965 AAAATACAATGTTCAAATTA
1 AAAATACAATGTTAAAATTA
50282985 AAAATA-AAT-TTAAAATTA
1 AAAATACAATGTTAAAATTA
50283003 TTCAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 3 0.18
20 6 0.35
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (20 bp):
AAAATACAATGTTAAAATTA
Found at i:50287140 original size:47 final size:47
Alignment explanation
Indices: 50287079--50287189 Score: 150
Period size: 47 Copynumber: 2.4 Consensus size: 47
50287069 GTGTGAATAA
* * ** *
50287079 TACCTTGATTTGGCTATAGGCCATGATATAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTACAGGCCATGATATAGGTACTCCGAGAGAAGT
* * *
50287126 TACCTTGATTTGGCTACAGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACAGGCCATGATATAGGTACTCCGAGAGAAGT
50287173 TACCTTGATTTGGCTAC
1 TACCTTGATTTGGCTAC
50287190 GGGCTACGGT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACAGGCCATGATATAGGTACTCCGAGAGAAGT
Found at i:50290495 original size:21 final size:21
Alignment explanation
Indices: 50290471--50290525 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
50290461 ATGGTCCAAG
50290471 GGACACACCCGTGTGACCCTA
1 GGACACACCCGTGTGACCCTA
*
50290492 GGACACACCTGTGTGACCCTA
1 GGACACACCCGTGTGACCCTA
50290513 GGACACACCCGTG
1 GGACACACCCGTG
50290526 CTAGAGGCTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.24, C:0.36, G:0.25, T:0.15
Consensus pattern (21 bp):
GGACACACCCGTGTGACCCTA
Found at i:50290594 original size:47 final size:47
Alignment explanation
Indices: 50290525--50290620 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
50290515 ACACACCCGT
50290525 GCTAGAGGCTGTGTTCAACCCCATGTAACTTCTGACTTGTGTACACG
1 GCTAGAGGCTGTGTTCAACCCCATGTAACTTCTGACTTGTGTACACG
50290572 GCTAGAGGCTGTGTTCAACCCCATGTAACTTCTGACTTGTGTACACG
1 GCTAGAGGCTGTGTTCAACCCCATGTAACTTCTGACTTGTGTACACG
50290619 GC
1 GC
50290621 CATGCCACAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (47 bp):
GCTAGAGGCTGTGTTCAACCCCATGTAACTTCTGACTTGTGTACACG
Found at i:50293486 original size:27 final size:27
Alignment explanation
Indices: 50293425--50293495 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
50293415 TACTTCACTG
* *
50293425 GGGTATTACAGTCATTTTACCCTATAA
1 GGGTATTTCAGACATTTTACCCTATAA
*
50293452 GGGTATTTCAGACATTTTACCCTATGA
1 GGGTATTTCAGACATTTTACCCTATAA
50293479 GGGTATTTC-GATCATTT
1 GGGTATTTCAGA-CATTT
50293496 GATAACTAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 2 0.05
27 38 0.95
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAGACATTTTACCCTATAA
Found at i:50293562 original size:27 final size:27
Alignment explanation
Indices: 50293502--50293562 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
50293492 ATTTGATAAC
* *
50293502 TAAGGGAAAAATCGTCATTTTAACATA
1 TAAGGGCAAAATCGTCAATTTAACATA
*
50293529 TAAGGGCAAAATCGTCAATTTATCATA
1 TAAGGGCAAAATCGTCAATTTAACATA
*
50293556 TGAGGGC
1 TAAGGGC
50293563 TCAGGTACGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (27 bp):
TAAGGGCAAAATCGTCAATTTAACATA
Found at i:50298357 original size:27 final size:27
Alignment explanation
Indices: 50298327--50298872 Score: 727
Period size: 27 Copynumber: 20.3 Consensus size: 27
50298317 CCCAAAATAA
*
50298327 GTAAAATGACCGTAATGCCCCTTTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* *
50298354 GTAAAATGACTGTAATGCCCTTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* *
50298381 GTAAAATGACCGTAATACCCCTATAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* * *
50298408 GTAAAATAACCATAATGCCCCTATAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
*
50298435 GTAAAATGACCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* *
50298462 GTAAAATGATCGTAATGCCCCTATAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
*
50298489 GTAAAATGACCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* *
50298516 GTAAAATGACCGTAATGCCCTTATAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
50298543 GTAAAATGACCGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* * * *
50298570 GTAAAATGACCATAATACCCTTATAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* *
50298597 GTAAAATGATCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* *
50298624 GTAAAATGATCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
50298651 GTAAAATGACCGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* *
50298678 GTAAAATGACCGTAATACCCCTGTATG
1 GTAAAATGACCGTAATGCCCCTGTAGG
**
50298705 GTAAAATGATTGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* * *
50298732 GTAAAATGGCCGTAATACCCCTGTATG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* *
50298759 GTAAAATGA-TGATTATGCCCCTGTAGG
1 GTAAAATGACCG-TAATGCCCCTGTAGG
* * * *
50298786 GTAAAATAACCGTAATACCCTTGTAAG
1 GTAAAATGACCGTAATGCCCCTGTAGG
50298813 GTAAAATGACCGTAATGCCCCTGT-GG
1 GTAAAATGACCGTAATGCCCCTGTAGG
* * *
50298839 GTAAAATGACCGTAATACCCCTATATG
1 GTAAAATGACCGTAATGCCCCTGTAGG
50298866 GTAAAAT
1 GTAAAAT
50298873 AACGATTATG
Statistics
Matches: 452, Mismatches: 64, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
26 24 0.05
27 427 0.94
28 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAAAATGACCGTAATGCCCCTGTAGG
Found at i:50302199 original size:33 final size:33
Alignment explanation
Indices: 50302136--50302199 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
50302126 TTACACTGTC
* * *
50302136 ACTGTTACTGTATAGGGTTAAGGCCCAGACTAT
1 ACTGATACTGAATAGGGTCAAGGCCCAGACTAT
*
50302169 ACTGATACTGAATAGGGCTCAA-GCCTAGACT
1 ACTGATACTGAATAGGG-TCAAGGCCCAGACT
50302200 GTTACTGCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 23 0.88
34 3 0.12
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (33 bp):
ACTGATACTGAATAGGGTCAAGGCCCAGACTAT
Found at i:50305693 original size:24 final size:24
Alignment explanation
Indices: 50305662--50305711 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
50305652 TGTATTCATA
*
50305662 TGGTTGTT-GTTAAATCT-ATGTTT
1 TGGTTGTTAGCTAAA-CTAATGTTT
50305685 TGGTATGTTAGCTAAACTAATGTTT
1 TGGT-TGTTAGCTAAACTAATGTTT
50305710 TG
1 TG
50305712 CATGTGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 4 0.17
24 6 0.26
25 13 0.57
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.50
Consensus pattern (24 bp):
TGGTTGTTAGCTAAACTAATGTTT
Found at i:50309064 original size:14 final size:14
Alignment explanation
Indices: 50309045--50309071 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50309035 GAATAGTTAG
50309045 GATACAAATGTCAA
1 GATACAAATGTCAA
50309059 GATACAAATGTCA
1 GATACAAATGTCA
50309072 TGACATTAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (14 bp):
GATACAAATGTCAA
Found at i:50309254 original size:42 final size:40
Alignment explanation
Indices: 50309095--50309256 Score: 146
Period size: 42 Copynumber: 3.9 Consensus size: 40
50309085 ATGAGTTCAT
* * **
50309095 GTGTAAGACCAAATCTGGAATATGGCATCATTATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGGTATGAGA--TC
* * * * *
50309137 GTGTAGGACCATGTCTGGGACATGGCATTGATATGAGAATC
1 GTGTAAGACCATATCTGGGATATGGCATCGGTATGAG-ATC
*
50309178 GTGTAAGACCATAGT-TGGGCTATTGGCATCGGTATGAGATCCC
1 GTGTAAGACCATA-TCTGGGATA-TGGCATCGGTATGAGAT--C
* *
50309221 ATGTAAGACCATATCTGGGATATGGCATTGGTATGA
1 GTGTAAGACCATATCTGGGATATGGCATCGGTATGA
50309257 TTCTATGTGT
Statistics
Matches: 97, Mismatches: 17, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
41 20 0.21
42 57 0.59
43 20 0.21
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (40 bp):
GTGTAAGACCATATCTGGGATATGGCATCGGTATGAGATC
Found at i:50310380 original size:16 final size:17
Alignment explanation
Indices: 50310351--50310384 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
50310341 CGGGTTAGGG
50310351 ACACAGACGTGTGTGACC
1 ACACAGACG-GTGTGACC
50310369 ACACAGAC-GTGTGACC
1 ACACAGACGGTGTGACC
50310385 CCTATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.15
Consensus pattern (17 bp):
ACACAGACGGTGTGACC
Found at i:50312980 original size:41 final size:42
Alignment explanation
Indices: 50312882--50313041 Score: 135
Period size: 41 Copynumber: 3.8 Consensus size: 42
50312872 ATATCGAACA
* * **
50312882 ATGCCAACGTCCCAGAC-GTGGTCTTACATGCTATCTCATATCG
1 ATGCCAACGTCCCAGACAG-GGTCTTACACG-AATCAAATATCG
**
50312925 ATGCCATTGTCCCAGACAGGGTCTTACACGAATCAAATA-CG
1 ATGCCAACGTCCCAGACAGGGTCTTACACGAATCAAATATCG
* * * * * *
50312966 ATGCCAATGTCCCAGACATGGTATTGCATGTATCACATATATCG
1 ATGCCAACGTCCCAGACAGGGTCTTACACGAATCA-A-ATATCG
* * *
50313010 ATGCCAGCATCCCAGACATGGTCTTACACGAA
1 ATGCCAACGTCCCAGACAGGGTCTTACACGAA
50313042 AACACATATC
Statistics
Matches: 94, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
41 31 0.33
42 7 0.07
43 28 0.30
44 28 0.30
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGAATCAAATATCG
Found at i:50313024 original size:85 final size:84
Alignment explanation
Indices: 50312882--50313041 Score: 214
Period size: 85 Copynumber: 1.9 Consensus size: 84
50312872 ATATCGAACA
* * * ***
50312882 ATGCCAACGTCCCAGACGTGGTCTTACATGCTATCTCATATCGATGCCATTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTATTACATGCTATCACATATCGATGCCAGCATCCCAGACAGGGT
50312947 CTTACACGAATCAAATACG
66 CTTACACGAATCAAATACG
* * *
50312966 ATGCCAATGTCCCAGACATGGTATTGCATG-TATCACATATATCGATGCCAGCATCCCAGACATG
1 ATGCCAACGTCCCAGACATGGTATTACATGCTATCAC--ATATCGATGCCAGCATCCCAGACAGG
50313030 GTCTTACACGAA
64 GTCTTACACGAA
50313042 AACACATATC
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
83 5 0.08
84 26 0.40
85 34 0.52
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTATTACATGCTATCACATATCGATGCCAGCATCCCAGACAGGGT
CTTACACGAATCAAATACG
Found at i:50313202 original size:14 final size:15
Alignment explanation
Indices: 50313183--50313215 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
50313173 GCTAAAACAA
50313183 ATATTTCATTTCA-C
1 ATATTTCATTTCAGC
50313197 ATATTTCATTTCAGC
1 ATATTTCATTTCAGC
50313212 ATAT
1 ATAT
50313216 AAAAATCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.30, C:0.18, G:0.03, T:0.48
Consensus pattern (15 bp):
ATATTTCATTTCAGC
Found at i:50318325 original size:17 final size:19
Alignment explanation
Indices: 50318298--50318336 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
50318288 AAACTGATTT
50318298 GGGCTGTGTGGG-CCACAC
1 GGGCTGTGTGGGTCCACAC
50318316 GGGC-GTGTGGGTCCACAC
1 GGGCTGTGTGGGTCCACAC
50318334 GGG
1 GGG
50318337 TAAACCACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.10, C:0.26, G:0.49, T:0.15
Consensus pattern (19 bp):
GGGCTGTGTGGGTCCACAC
Found at i:50331795 original size:24 final size:24
Alignment explanation
Indices: 50331768--50331850 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 24
50331758 TATCGTTGTA
50331768 GTCAAGCCACTAAATAATGTTTTG
1 GTCAAGCCACTAAATAATGTTTTG
* * * * *
50331792 GTCAAGCTACTATATATTGTTGTA
1 GTCAAGCCACTAAATAATGTTTTG
* * * **
50331816 GTCAAGTCATTGAATAACATTTTG
1 GTCAAGCCACTAAATAATGTTTTG
50331840 GTCAAGCCACT
1 GTCAAGCCACT
50331851 TTCTATTGTA
Statistics
Matches: 42, Mismatches: 17, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (24 bp):
GTCAAGCCACTAAATAATGTTTTG
Found at i:50331858 original size:48 final size:48
Alignment explanation
Indices: 50331746--50331859 Score: 138
Period size: 48 Copynumber: 2.4 Consensus size: 48
50331736 ACGTTGTGGA
* * **
50331746 CAAGCCACTGTATATCGTTGTAGTCAAGCCACTAAATAATGTTTTGGT
1 CAAGCCACTATATATTGTTGTAGTCAAGCCACTAAATAACATTTTGGT
* * * *
50331794 CAAGCTACTATATATTGTTGTAGTCAAGTCATTGAATAACATTTTGGT
1 CAAGCCACTATATATTGTTGTAGTCAAGCCACTAAATAACATTTTGGT
* *
50331842 CAAGCCACTTTCTATTGT
1 CAAGCCACTATATATTGT
50331860 AGTAAAACAG
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.37
Consensus pattern (48 bp):
CAAGCCACTATATATTGTTGTAGTCAAGCCACTAAATAACATTTTGGT
Found at i:50337890 original size:16 final size:16
Alignment explanation
Indices: 50337858--50337892 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
50337848 TAGGTTAGGG
**
50337858 TTTTTCTTTTCTTTTT
1 TTTTTCTTTTCACTTT
50337874 TTTTTCTTTTCACTTT
1 TTTTTCTTTTCACTTT
50337890 TTT
1 TTT
50337893 AGATTTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTCTTTTCACTTT
Found at i:50342052 original size:28 final size:28
Alignment explanation
Indices: 50342012--50342069 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
50342002 CCCAACCGAC
50342012 ACATCAATGGTAGCCCGGTTGCGAAACT
1 ACATCAATGGTAGCCCGGTTGCGAAACT
50342040 ACATCAATGGTAGCCCGGTTGCGAAACT
1 ACATCAATGGTAGCCCGGTTGCGAAACT
50342068 AC
1 AC
50342070 CTTCATTTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (28 bp):
ACATCAATGGTAGCCCGGTTGCGAAACT
Found at i:50342590 original size:28 final size:28
Alignment explanation
Indices: 50342572--50342648 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 28
50342562 TGGCCCATTT
*
50342572 GGCCCAATCTCATTTATATAGCCCATCA
1 GGCCCAATCACATTTATATAGCCCATCA
*
50342600 GGCCCAATTCACATTCATATAGCCCATCA
1 GGCCCAA-TCACATTTATATAGCCCATCA
*
50342629 GGCCCAAATCACCTTTATAT
1 GGCCC-AATCACATTTATAT
50342649 GGCTTGTTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 7 0.16
29 34 0.79
30 2 0.05
ACGTcount: A:0.30, C:0.32, G:0.10, T:0.27
Consensus pattern (28 bp):
GGCCCAATCACATTTATATAGCCCATCA
Found at i:50342624 original size:29 final size:28
Alignment explanation
Indices: 50342553--50342640 Score: 104
Period size: 29 Copynumber: 3.1 Consensus size: 28
50342543 ACCCCTACAT
* * **
50342553 ACATGCATATGGCCCATTTGGCCCAATC
1 ACATTCATATAGCCCATCAGGCCCAATC
* *
50342581 TCATTTATATAGCCCATCAGGCCCAATTC
1 ACATTCATATAGCCCATCAGGCCCAA-TC
50342610 ACATTCATATAGCCCATCAGGCCCAAATC
1 ACATTCATATAGCCCATCAGGCCC-AATC
50342639 AC
1 AC
50342641 CTTTATATGG
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
28 20 0.40
29 28 0.56
30 2 0.04
ACGTcount: A:0.30, C:0.33, G:0.12, T:0.25
Consensus pattern (28 bp):
ACATTCATATAGCCCATCAGGCCCAATC
Found at i:50342648 original size:29 final size:29
Alignment explanation
Indices: 50342584--50342676 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
50342574 CCCAATCTCA
* *
50342584 TTTATATAGCCCATCAGGCCCAATTCACA
1 TTTATATAGCCCATCAGGCCCAAATCACC
*
50342613 TTCATATAGCCCATCAGGCCCAAATCACC
1 TTTATATAGCCCATCAGGCCCAAATCACC
* *** *
50342642 TTTATATGGCTTGTTAGGCCCAAATCACC
1 TTTATATAGCCCATCAGGCCCAAATCACC
50342671 -TTATAT
1 TTTATAT
50342677 TCATGCTCAC
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
28 6 0.11
29 49 0.89
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.30
Consensus pattern (29 bp):
TTTATATAGCCCATCAGGCCCAAATCACC
Found at i:50344165 original size:9 final size:9
Alignment explanation
Indices: 50344151--50344182 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
50344141 AAATTCAAGA
50344151 TTTTGGGAT
1 TTTTGGGAT
50344160 TTTTGGG--
1 TTTTGGGAT
50344167 TTTTGGGAT
1 TTTTGGGAT
50344176 TTTTGGG
1 TTTTGGG
50344183 GCGTTACACA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.33
9 14 0.67
ACGTcount: A:0.06, C:0.00, G:0.38, T:0.56
Consensus pattern (9 bp):
TTTTGGGAT
Found at i:50344172 original size:16 final size:16
Alignment explanation
Indices: 50344151--50344182 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
50344141 AAATTCAAGA
50344151 TTTTGGGATTTTTGGG
1 TTTTGGGATTTTTGGG
50344167 TTTTGGGATTTTTGGG
1 TTTTGGGATTTTTGGG
50344183 GCGTTACACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.00, G:0.38, T:0.56
Consensus pattern (16 bp):
TTTTGGGATTTTTGGG
Found at i:50344835 original size:5 final size:5
Alignment explanation
Indices: 50344827--50344855 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
50344817 AGGTTAGGGT
50344827 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
50344856 TCAACTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:50345157 original size:23 final size:24
Alignment explanation
Indices: 50345113--50345159 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
50345103 TCATAGTTGG
50345113 TTGACTGGTTTTTTTTTAGTTTAA
1 TTGACTGGTTTTTTTTTAGTTTAA
*
50345137 TTGATTGG-TTTTTTTTAGTTTAA
1 TTGACTGGTTTTTTTTTAGTTTAA
50345160 GTTAATGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.17, C:0.02, G:0.17, T:0.64
Consensus pattern (24 bp):
TTGACTGGTTTTTTTTTAGTTTAA
Found at i:50348918 original size:53 final size:53
Alignment explanation
Indices: 50348813--50348919 Score: 178
Period size: 53 Copynumber: 2.0 Consensus size: 53
50348803 AGATGTTGAC
*
50348813 TATGTCTCTAAATGAGTGGAAGCATTTGGATTACCAATGAAAGATATAAAGTT
1 TATGTCTCTAAATGAGTGGAAGCATTTGGATTACCAATGAAAGATACAAAGTT
* * *
50348866 TATGTCTCTAAATGGGTTGAAGCATTTGGATTACCAATGAAAGATACGAAGTT
1 TATGTCTCTAAATGAGTGGAAGCATTTGGATTACCAATGAAAGATACAAAGTT
50348919 T
1 T
50348920 GTGGTAAACT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (53 bp):
TATGTCTCTAAATGAGTGGAAGCATTTGGATTACCAATGAAAGATACAAAGTT
Found at i:50350390 original size:21 final size:21
Alignment explanation
Indices: 50350366--50350428 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
50350356 AAATTATACG
50350366 TAATTAATGAATAATAATATA
1 TAATTAATGAATAATAATATA
*
50350387 TAATTTAT-AATAA-AATATA
1 TAATTAATGAATAATAATATA
50350406 -AA-TAATGTAAGTAATAATATA
1 TAATTAATG-AA-TAATAATATA
50350427 TA
1 TA
50350429 TAGTAAAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
17 3 0.09
18 2 0.06
19 8 0.23
20 8 0.23
21 13 0.37
22 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
TAATTAATGAATAATAATATA
Found at i:50350448 original size:19 final size:19
Alignment explanation
Indices: 50350426--50350462 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
50350416 GTAATAATAT
*
50350426 ATATAGTAAAATGTATAAC
1 ATATAATAAAATGTATAAC
*
50350445 ATATAATAAAATTTATAA
1 ATATAATAAAATGTATAA
50350463 AAATATATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (19 bp):
ATATAATAAAATGTATAAC
Found at i:50350497 original size:18 final size:19
Alignment explanation
Indices: 50350463--50350510 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
50350453 AAATTTATAA
*
50350463 AAAT-ATATATAATAATAT
1 AAATAATATATAATAATAC
50350481 AAATAATATATAA-AATAC
1 AAATAATATATAATAATAC
50350499 AAATAATATATA
1 AAATAATATATA
50350511 TACTATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 20 0.71
19 8 0.29
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATAATATATAATAATAC
Found at i:50350559 original size:47 final size:46
Alignment explanation
Indices: 50350477--50350565 Score: 117
Period size: 47 Copynumber: 1.9 Consensus size: 46
50350467 ATATATAATA
*
50350477 ATATAAATAATATATAAAATACAAATAATATATATACTATTTTTAC
1 ATATAAATAATATATAAAATACAAATAATACATATACTATTTTTAC
* * *
50350523 ATATAACTAATATTTATAAAA-ATAAATAATACATATAGTATTT
1 ATATAAATAATA--TATAAAATACAAATAATACATATACTATTT
50350566 AAAATAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
46 11 0.30
47 19 0.51
48 7 0.19
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (46 bp):
ATATAAATAATATATAAAATACAAATAATACATATACTATTTTTAC
Found at i:50352485 original size:44 final size:44
Alignment explanation
Indices: 50352013--50352477 Score: 630
Period size: 44 Copynumber: 10.6 Consensus size: 44
50352003 TTCCTCGTCT
* * * *
50352013 AATACAGAGACGAC-AATCTGTTATCTTCGATTTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* *
50352056 AATACAGAGACGCCAAATCTGCTATCTTCTATCTGCTCTCTGCC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* *
50352100 AATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * * *
50352144 AATATAGAAATGCCAAATCTGCTATCTTCAATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* *
50352188 AATACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGCC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* *
50352232 AATACAGAAATGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* * * *
50352276 CATACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCTAAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* **
50352320 AATACAGAGATGCCAAATAGGCTATCTTCGATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
* *
50352364 AATACAGAGACGTCAAATCTG-TCATCTTCGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCT-ATCTTCGATCTGCTCTCTGAC
* * *
50352408 AATACAGGGATGCCAAATCTG-TCATCTTCGATCTGCTCTCTGTC
1 AATACAGAGACGCCAAATCTGCT-ATCTTCGATCTGCTCTCTGAC
*
50352452 AATACAGAGACGCCAGATCTGCTATC
1 AATACAGAGACGCCAAATCTGCTATC
50352478 GGTGATCTAT
Statistics
Matches: 371, Mismatches: 48, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
43 14 0.04
44 356 0.96
45 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (44 bp):
AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAC
Found at i:50363535 original size:19 final size:19
Alignment explanation
Indices: 50363513--50363549 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
50363503 AATGAGGTGT
*
50363513 ATATAGTAAAATGTATAAC
1 ATATAATAAAATGTATAAC
*
50363532 ATATAATAAAATTTATAA
1 ATATAATAAAATGTATAA
50363550 AAAATATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (19 bp):
ATATAATAAAATGTATAAC
Found at i:50363661 original size:47 final size:49
Alignment explanation
Indices: 50363551--50363661 Score: 115
Period size: 47 Copynumber: 2.3 Consensus size: 49
50363541 AATTTATAAA
* * * *
50363551 AAATATATATAATAATATAAATAATATATATACTATTTTTACATATAACT
1 AAATATATATAA-AAAATAAATAATACATATACTATTTTAAAATATAACT
* *
50363601 -AATAT-T-TAGAAAAATAAATAATACATATAGTA-TTTAAAATA-AATT
1 AAATATATATA-AAAAATAAATAATACATATACTATTTTAAAATATAACT
50363646 AAATATATATAAAAAA
1 AAATATATATAAAAAA
50363662 ATTAAAATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
45 3 0.06
46 12 0.24
47 27 0.53
48 4 0.08
49 5 0.10
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (49 bp):
AAATATATATAAAAAATAAATAATACATATACTATTTTAAAATATAACT
Found at i:50365189 original size:25 final size:26
Alignment explanation
Indices: 50365155--50365207 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
50365145 CCGTACAAGA
50365155 TTAATCGA-TTCTTGCAAATGGCACT
1 TTAATCGATTTCTTGCAAATGGCACT
*
50365180 TTAATCGATTTCTTGCAAATGGCGCT
1 TTAATCGATTTCTTGCAAATGGCACT
50365206 TT
1 TT
50365208 TGAATTGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.40
Consensus pattern (26 bp):
TTAATCGATTTCTTGCAAATGGCACT
Found at i:50369376 original size:61 final size:58
Alignment explanation
Indices: 50369271--50369387 Score: 162
Period size: 61 Copynumber: 2.0 Consensus size: 58
50369261 ATTATTTTAA
* *
50369271 TATTAAATTAATATAATACTTATCAAGATAAATATTAGACTAAATTTAATATTAAATC
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAAACTAAATTTAATATTAAATC
* * *
50369329 TATTAAATTAATAGAATATTTATGTATAAGATAAATATTAAATTAAATTTAATATTAAA
1 TATTAAATTAATAGAATACTTA--T-CAAGATAAATATTAAACTAAATTTAATATTAAA
50369388 ATAACCATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
58 20 0.39
60 1 0.02
61 30 0.59
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.41
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTATCAAGATAAATATTAAACTAAATTTAATATTAAATC
Found at i:50369384 original size:17 final size:19
Alignment explanation
Indices: 50369362--50369407 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
50369352 GTATAAGATA
*
50369362 AATATTAAATTAA-A-TTT
1 AATATTAAAATAACATTTT
50369379 AATATTAAAATAACCATTTT
1 AATATTAAAATAA-CATTTT
50369399 AATATTAAA
1 AATATTAAA
50369408 GTAATAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 12 0.48
19 1 0.04
20 12 0.48
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (19 bp):
AATATTAAAATAACATTTT
Done.