Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 304 of 438
Found at i:95120800 original size:35 final size:35
Alignment explanation
Indices: 95120752--95120984 Score: 242
Period size: 35 Copynumber: 6.7 Consensus size: 35
95120742 TTCACAACTC
* *
95120752 AGTATGGTTAATACCATACCTACATTTCATAGCTT
1 AGTATGGATAATACCATACCTACGTTTCATAGCTT
* * * *
95120787 AGTATGGACAATACCATACCTATGTTTCACAACTT
1 AGTATGGATAATACCATACCTACGTTTCATAGCTT
*
95120822 GGTATGGGA-AATACCATACCTACGTATT-ATAGC-T
1 AGTAT-GGATAATACCATACCTACGT-TTCATAGCTT
* *
95120856 CGATATGGATAATACCATACCTACGTTTCATAGCTC
1 AG-TATGGATAATACCATACCTACGTTTCATAGCTT
* * *
95120892 AGTATGGACAATACCATACCTACGTTTCACAACTT
1 AGTATGGATAATACCATACCTACGTTTCATAGCTT
* *
95120927 GGTATGGGA-AATACCATACCTACGTATT-ATAGCTC
1 AGTAT-GGATAATACCATACCTACGT-TTCATAGCTT
* *
95120962 GGCATGGATAATACCATACCTAC
1 AGTATGGATAATACCATACCTAC
95120985 ATGTCATAAC
Statistics
Matches: 167, Mismatches: 22, Indels: 18
0.81 0.11 0.09
Matches are distributed among these distances:
34 10 0.06
35 146 0.87
36 11 0.07
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (35 bp):
AGTATGGATAATACCATACCTACGTTTCATAGCTT
Found at i:95120936 original size:105 final size:105
Alignment explanation
Indices: 95120754--95120992 Score: 415
Period size: 105 Copynumber: 2.3 Consensus size: 105
95120744 CACAACTCAG
* * *
95120754 TATGGTTAATACCATACCTACATTTCATAGCTTAGTATGGACAATACCATACCTATGTTTCACAA
1 TATGGATAATACCATACCTACATTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAA
95120819 CTTGGTATGGGAAATACCATACCTACGTATTATAGCTCGA
66 CTTGGTATGGGAAATACCATACCTACGTATTATAGCTCGA
*
95120859 TATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAA
1 TATGGATAATACCATACCTACATTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAA
*
95120924 CTTGGTATGGGAAATACCATACCTACGTATTATAGCTCGG
66 CTTGGTATGGGAAATACCATACCTACGTATTATAGCTCGA
* *
95120964 CATGGATAATACCATACCTACATGTCATA
1 TATGGATAATACCATACCTACATTTCATA
95120993 ACTTTGCCAT
Statistics
Matches: 126, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
105 126 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (105 bp):
TATGGATAATACCATACCTACATTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAA
CTTGGTATGGGAAATACCATACCTACGTATTATAGCTCGA
Found at i:95121013 original size:70 final size:70
Alignment explanation
Indices: 95120860--95121006 Score: 181
Period size: 70 Copynumber: 2.1 Consensus size: 70
95120850 ATAGCTCGAT
* * *
95120860 ATGGATAATACCATACCTACGTTTCATAGCTCAGTATGGACAATACCATACCTACGTTTCACAAC
1 ATGGATAATACCATACCTACGTTTCATAGCTCAGCATGGACAATACCATACCTACATGTCACAAC
**
95120925 TTGGT
66 TTGCC
* * *
95120930 ATGGGA-AATACCATACCTACGTATT-ATAGCTCGGCATGGATAATACCATACCTACATGTCATA
1 AT-GGATAATACCATACCTACGT-TTCATAGCTCAGCATGGACAATACCATACCTACATGTCACA
95120993 ACTTTGCC
64 AC-TTGCC
95121001 ATGGAT
1 ATGGAT
95121007 TAACCATGGT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
70 55 0.85
71 10 0.15
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (70 bp):
ATGGATAATACCATACCTACGTTTCATAGCTCAGCATGGACAATACCATACCTACATGTCACAAC
TTGCC
Found at i:95122918 original size:23 final size:23
Alignment explanation
Indices: 95122892--95122960 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
95122882 TAACCTTTCA
95122892 AATAAATAACCCACTTCGATTAG
1 AATAAATAACCCACTTCGATTAG
* * ** *
95122915 AATAACTGAGTC-CTT---TCA-
1 AATAAATAACCCACTTCGATTAG
95122933 AATAAATAACCCACTTCGATTAG
1 AATAAATAACCCACTTCGATTAG
95122956 AATAA
1 AATAA
95122961 CTGAGTCGAT
Statistics
Matches: 31, Mismatches: 10, Indels: 10
0.61 0.20 0.20
Matches are distributed among these distances:
18 8 0.26
19 5 0.16
22 5 0.16
23 13 0.42
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (23 bp):
AATAAATAACCCACTTCGATTAG
Found at i:95122920 original size:19 final size:19
Alignment explanation
Indices: 95122896--95122961 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
95122886 CTTTCAAATA
95122896 AATAACCCACTTCGATTAG
1 AATAACCCACTTCGATTAG
** * *
95122915 AATAACTGAGTCCTTTCAAATA-
1 AATAACCCA---C-TTCGATTAG
95122937 AATAACCCACTTCGATTAG
1 AATAACCCACTTCGATTAG
95122956 AATAAC
1 AATAAC
95122962 TGAGTCGATT
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
18 6 0.18
19 14 0.41
22 8 0.24
23 6 0.18
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (19 bp):
AATAACCCACTTCGATTAG
Found at i:95122931 original size:41 final size:41
Alignment explanation
Indices: 95122885--95122967 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
95122875 ACTCAATTAA
95122885 CCTTTCAAATAAATAACCCACTTCGATTAGAATAACTGAGT
1 CCTTTCAAATAAATAACCCACTTCGATTAGAATAACTGAGT
95122926 CCTTTCAAATAAATAACCCACTTCGATTAGAATAACTGAGT
1 CCTTTCAAATAAATAACCCACTTCGATTAGAATAACTGAGT
95122967 C
1 C
95122968 GATTTTATCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (41 bp):
CCTTTCAAATAAATAACCCACTTCGATTAGAATAACTGAGT
Found at i:95124009 original size:13 final size:13
Alignment explanation
Indices: 95123991--95124016 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95123981 GATAAAAGAA
95123991 CATATAGAATACC
1 CATATAGAATACC
95124004 CATATAGAATACC
1 CATATAGAATACC
95124017 TAGAAGAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
CATATAGAATACC
Found at i:95126004 original size:35 final size:35
Alignment explanation
Indices: 95125965--95126229 Score: 268
Period size: 35 Copynumber: 7.6 Consensus size: 35
95125955 ATATGGTTAG
** *
95125965 TACCATACCTAAATCTCATAGCTCAGTATGGACAA
1 TACCATACCTACGTTTCATAGCTCAGTATGGACAA
* * *
95126000 TACCATACCTACGTTTCACAACTCGGTATGGGA-AA
1 TACCATACCTACGTTTCATAGCTCAGTAT-GGACAA
* * *
95126035 TACCATACCTACGTATT-ATAGTTCGGTATGGATAA
1 TACCATACCTACGT-TTCATAGCTCAGTATGGACAA
* * *
95126070 TATCATACCTACATTTCATAGCTCAGTATGAACAA
1 TACCATACCTACGTTTCATAGCTCAGTATGGACAA
* * * *
95126105 TACCATACCTACATTTCACAACTCGGTATGGGA-AA
1 TACCATACCTACGTTTCATAGCTCAGTAT-GGACAA
* *
95126140 TACCATACCTACGTATT-ATAGCTCAATATGGATAA
1 TACCATACCTACGT-TTCATAGCTCAGTATGGACAA
* * *
95126175 TATCATACCTACGTGTCATAGCTCAATATGGACAA
1 TACCATACCTACGTTTCATAGCTCAGTATGGACAA
*
95126210 TACCATACCTACGTGTCATA
1 TACCATACCTACGTTTCATA
95126230 ACTTTGCCAT
Statistics
Matches: 193, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
34 9 0.05
35 175 0.91
36 9 0.05
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.29
Consensus pattern (35 bp):
TACCATACCTACGTTTCATAGCTCAGTATGGACAA
Found at i:95126250 original size:105 final size:105
Alignment explanation
Indices: 95125951--95126232 Score: 429
Period size: 105 Copynumber: 2.7 Consensus size: 105
95125941 CGATTCACAA
* * * *
95125951 CTCAATATGGTTAGTACCATACCTAAATCTCATAGCTCAGTATGGACAATACCATACCTACGTTT
1 CTCAATATGGATAATATCATACCTACATCTCATAGCTCAGTATGGACAATACCATACCTACGTTT
95126016 CACAACTCGGTATGGGAAATACCATACCTACGTATTATAG
66 CACAACTCGGTATGGGAAATACCATACCTACGTATTATAG
* ** * * *
95126056 TTCGGTATGGATAATATCATACCTACATTTCATAGCTCAGTATGAACAATACCATACCTACATTT
1 CTCAATATGGATAATATCATACCTACATCTCATAGCTCAGTATGGACAATACCATACCTACGTTT
95126121 CACAACTCGGTATGGGAAATACCATACCTACGTATTATAG
66 CACAACTCGGTATGGGAAATACCATACCTACGTATTATAG
* * * *
95126161 CTCAATATGGATAATATCATACCTACGTGTCATAGCTCAATATGGACAATACCATACCTACGTGT
1 CTCAATATGGATAATATCATACCTACATCTCATAGCTCAGTATGGACAATACCATACCTACGTTT
*
95126226 CATAACT
66 CACAACT
95126233 TTGCCATGGA
Statistics
Matches: 157, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
105 157 1.00
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.29
Consensus pattern (105 bp):
CTCAATATGGATAATATCATACCTACATCTCATAGCTCAGTATGGACAATACCATACCTACGTTT
CACAACTCGGTATGGGAAATACCATACCTACGTATTATAG
Found at i:95132048 original size:8 final size:8
Alignment explanation
Indices: 95131990--95132107 Score: 51
Period size: 8 Copynumber: 13.0 Consensus size: 8
95131980 ATAAATATGA
95131990 ATAAAAAT
1 ATAAAAAT
95131998 A-AAAAAT
1 ATAAAAAT
*
95132005 ATTAAAAT
1 ATAAAAAT
95132013 ATTAAAAATT
1 A-TAAAAA-T
*
95132023 GATATAAACTT
1 -ATA-AAA-AT
95132034 ATAAAAAAT
1 AT-AAAAAT
95132043 ATAAAAACT
1 ATAAAAA-T
95132052 -TACAAATATT
1 ATA-AAA-A-T
*
95132062 ATCACAAAGT
1 AT-A-AAAAT
95132072 ATAAAAAT
1 ATAAAAAT
95132080 ATAATAAAGT
1 ATAA-AAA-T
95132090 ATAAAAAATT
1 AT-AAAAA-T
95132100 ATAAAAAT
1 ATAAAAAT
95132108 TTAATAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 30
0.70 0.06 0.24
Matches are distributed among these distances:
7 7 0.08
8 23 0.26
9 21 0.24
10 22 0.25
11 9 0.10
12 5 0.06
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (8 bp):
ATAAAAAT
Found at i:95132114 original size:11 final size:10
Alignment explanation
Indices: 95131996--95132116 Score: 58
Period size: 10 Copynumber: 12.6 Consensus size: 10
95131986 ATGAATAAAA
95131996 ATAAAAAA-T
1 ATAAAAAATT
*
95132005 AT-TAAAA-T
1 ATAAAAAATT
*
95132013 ATTAAAAATT
1 ATAAAAAATT
* *
95132023 GATATAAACTT
1 -ATAAAAAATT
95132034 ATAAAAAA-T
1 ATAAAAAATT
*
95132043 ATAAAAACTT
1 ATAAAAAATT
* *
95132053 A-CAAATATT
1 ATAAAAAATT
* * *
95132062 ATCACAAAGT
1 ATAAAAAATT
95132072 AT-AAAAA-T
1 ATAAAAAATT
* *
95132080 ATAATAAAGT
1 ATAAAAAATT
95132090 ATAAAAAATT
1 ATAAAAAATT
*
95132100 ATAAAAATTT
1 ATAAAAAATT
95132110 AATAAAA
1 -ATAAAA
95132117 CTTATTTGAA
Statistics
Matches: 85, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
8 10 0.12
9 28 0.33
10 34 0.40
11 13 0.15
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:95132527 original size:10 final size:9
Alignment explanation
Indices: 95132512--95132537 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
95132502 TTGGTTTGAT
95132512 AAAAAAATA
1 AAAAAAATA
95132521 AAAAAAATA
1 AAAAAAATA
95132530 AAAAAAAT
1 AAAAAAAT
95132538 CATTTCAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAAATA
Found at i:95132766 original size:22 final size:21
Alignment explanation
Indices: 95132725--95132782 Score: 50
Period size: 21 Copynumber: 2.8 Consensus size: 21
95132715 AATTTTTATT
*
95132725 ATTTTT-TAAGAATTAT-AATA
1 ATTTTTATAA-AATTTTAAATA
95132745 CATTTTTATAAAATTTTAAATA
1 -ATTTTTATAAAATTTTAAATA
* *
95132767 AGTTTTAT-TAATTTTA
1 ATTTTTATAAAATTTTA
95132783 CAATTTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 7 0.22
21 18 0.56
22 7 0.22
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (21 bp):
ATTTTTATAAAATTTTAAATA
Found at i:95132880 original size:2 final size:2
Alignment explanation
Indices: 95132873--95132904 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
95132863 TTGATAATTT
*
95132873 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
95132905 ACTTTTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:95133400 original size:14 final size:14
Alignment explanation
Indices: 95133381--95133412 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
95133371 TTATATTACA
95133381 ATTTTGTTGCTATT
1 ATTTTGTTGCTATT
*
95133395 ATTTTGTTGTTATT
1 ATTTTGTTGCTATT
95133409 ATTT
1 ATTT
95133413 GGATATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.03, G:0.12, T:0.69
Consensus pattern (14 bp):
ATTTTGTTGCTATT
Found at i:95133475 original size:30 final size:30
Alignment explanation
Indices: 95133441--95133498 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
95133431 AATTTATTAT
95133441 TAATTTTGTTATTATTTTAAAGGCATTTAC
1 TAATTTTGTTATTATTTTAAAGGCATTTAC
* *
95133471 TAATTTTGTTATTATTTTAGAGGTATTT
1 TAATTTTGTTATTATTTTAAAGGCATTT
95133499 GCTTGTTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (30 bp):
TAATTTTGTTATTATTTTAAAGGCATTTAC
Found at i:95134454 original size:21 final size:21
Alignment explanation
Indices: 95134408--95134459 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 21
95134398 CAAAATTATA
*
95134408 TTTAAAATTTATTAGTTTCATC
1 TTTAAAATTT-TTAATTTCATC
95134430 -TTAAAATTTTTAATTT-AGTC
1 TTTAAAATTTTTAATTTCA-TC
95134450 TTT-AAATTTT
1 TTTAAAATTTT
95134460 ATAAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 1 0.04
20 15 0.56
21 11 0.41
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTAAAATTTTTAATTTCATC
Found at i:95137426 original size:21 final size:20
Alignment explanation
Indices: 95137381--95137429 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
95137371 AAAATACTAA
*
95137381 AAAAAATTAAAAATATTTTCC
1 AAAAAATTAAAAAAATTTT-C
95137402 AAAAAATTGAAAATAAATTTT-
1 AAAAAATT-AAAA-AAATTTTC
95137423 AAAAAAT
1 AAAAAAT
95137430 ATGTAGACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 15 0.60
22 4 0.16
23 6 0.24
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAAAATTAAAAAAATTTTC
Found at i:95137427 original size:22 final size:21
Alignment explanation
Indices: 95137380--95137428 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
95137370 AAAAATACTA
*
95137380 AAAAAAATTAAAAATATTTTC
1 AAAAAAATTAAAAAAATTTTC
*
95137401 CAAAAAATTGAAAATAAATTTT-
1 AAAAAAATT-AAAA-AAATTTTC
95137423 AAAAAA
1 AAAAAA
95137429 TATGTAGACC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 8 0.35
22 9 0.39
23 6 0.26
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAAAATTAAAAAAATTTTC
Found at i:95137506 original size:30 final size:30
Alignment explanation
Indices: 95137472--95137531 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
95137462 ACTTAACAAG
*
95137472 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
95137502 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
95137532 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:95139613 original size:41 final size:41
Alignment explanation
Indices: 95139502--95139613 Score: 102
Period size: 41 Copynumber: 2.7 Consensus size: 41
95139492 GATATTTGGG
* * ** * *
95139502 CTTTGAGCCTAGCAAGCCTTGTGCCGGTGAATTTAATCGGG
1 CTTTGAGCCTAGCAGGCCTTGTGCCGGTGTATAAAATCAGA
* * *
95139543 C-TTGACGCCTAGCAGG-CTTATTGCTGGTGTATAAAATTAGA
1 CTTTGA-GCCTAGCAGGCCTT-GTGCCGGTGTATAAAATCAGA
*
95139584 CTTTGAGTCTAGCAGGCCTTGTGCCGGTGT
1 CTTTGAGCCTAGCAGGCCTTGTGCCGGTGT
95139614 GTGATACAGG
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
40 7 0.13
41 41 0.75
42 7 0.13
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.31
Consensus pattern (41 bp):
CTTTGAGCCTAGCAGGCCTTGTGCCGGTGTATAAAATCAGA
Found at i:95144588 original size:22 final size:22
Alignment explanation
Indices: 95144568--95144612 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
95144558 TAAGAAAATT
95144568 AAATAAAAGAAAAATAAAAATAA
1 AAATAAAA-AAAAATAAAAATAA
*
95144591 AAATAAAAAGAAAT-AAAATAA
1 AAATAAAAAAAAATAAAAATAA
95144612 A
1 A
95144613 TGGACTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.13
Consensus pattern (22 bp):
AAATAAAAAAAAATAAAAATAA
Found at i:95144592 original size:12 final size:12
Alignment explanation
Indices: 95144568--95144603 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
95144558 TAAGAAAATT
95144568 AAAT-AAAAGAA
1 AAATAAAAAGAA
*
95144579 AAATAAAAATAA
1 AAATAAAAAGAA
95144591 AAATAAAAAGAA
1 AAATAAAAAGAA
95144603 A
1 A
95144604 TAAAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.18
12 18 0.82
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (12 bp):
AAATAAAAAGAA
Found at i:95144774 original size:38 final size:40
Alignment explanation
Indices: 95144700--95144783 Score: 93
Period size: 38 Copynumber: 2.1 Consensus size: 40
95144690 CGGACGGGTG
* *
95144700 AAGGGAGAAGGGGAGGAGAGGAAGGAAAGAAGAGAAAAGA
1 AAGGGAGAAAGGGAGGAGAGGAAGGAAAGAAAAGAAAAGA
* * *
95144740 GAGGGAGAAAGGGATG-G-GGAA-GAAAGAAAAAGAAAGGA
1 AAGGGAGAAAGGGAGGAGAGGAAGGAAAG-AAAAGAAAAGA
95144778 AAGGGA
1 AAGGGA
95144784 AGGTGAGAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
37 5 0.14
38 18 0.49
39 1 0.03
40 13 0.35
ACGTcount: A:0.52, C:0.00, G:0.46, T:0.01
Consensus pattern (40 bp):
AAGGGAGAAAGGGAGGAGAGGAAGGAAAGAAAAGAAAAGA
Found at i:95145435 original size:121 final size:121
Alignment explanation
Indices: 95145255--95145495 Score: 376
Period size: 121 Copynumber: 2.0 Consensus size: 121
95145245 CCATATGGCC
* *
95145255 AGGCCGTGTGGTCCATACGGTCATGTCGCACATCCATGTGGCTCTACCGCAAGTCGTGTGGCTCG
1 AGGCCGTGTGGTCCACACGGTCATGTCGCACACCCATGTGGCTCTACCGCAAGTCGTGTGGCTCG
* *
95145320 ATGCTTGGGAATTTTTAGCCCTATTTTCACATGGCCGTGGATACACCCGTGTGTCT
66 ATGCTTGGGAATTTTTAGCCCTATTTTCACACGGCCATGGATACACCCGTGTGTCT
** * *
95145376 AGGCCGTGTGGTCCACACGGTCATGTCGCATGCCCATGTGGCTCTATCGC-AGGCTGTGTGGCTC
1 AGGCCGTGTGGTCCACACGGTCATGTCGCACACCCATGTGGCTCTACCGCAAGTC-GTGTGGCTC
* *
95145440 GATGCTTGGGAATTTTTAGCCCTGTTTTCACACGGCCATGGATACATCCGTGTGTC
65 GATGCTTGGGAATTTTTAGCCCTATTTTCACACGGCCATGGATACACCCGTGTGTC
95145496 CATGCAGTGT
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
120 3 0.03
121 106 0.97
ACGTcount: A:0.16, C:0.27, G:0.28, T:0.29
Consensus pattern (121 bp):
AGGCCGTGTGGTCCACACGGTCATGTCGCACACCCATGTGGCTCTACCGCAAGTCGTGTGGCTCG
ATGCTTGGGAATTTTTAGCCCTATTTTCACACGGCCATGGATACACCCGTGTGTCT
Found at i:95162367 original size:44 final size:44
Alignment explanation
Indices: 95161899--95162339 Score: 341
Period size: 44 Copynumber: 9.9 Consensus size: 44
95161889 TACAAATTAT
* * * ** *
95161899 AAATCTTATCTCCCTCAA-TTGCAGTGGAGAAAATTGAAGCCAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* * * *
95161942 AAATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATAGA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-C
* * *
95161987 AAATCTTAT-T-CCTGAAGTTGAAGTGG-GACGGGTTGAAGCTATCATGGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTGAAG-T-T-A---C
** * * * * * **
95162035 CGATTTTATCTCCCTGAAGTTGTAGGGGAGTAGGTTGAAGCCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* * * * *
95162079 TAATCTTATCTCCCTGAAGTAGCAGTGGAACAGATTAAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-C
* * ** * * * ** *
95162124 AAATCTCATATCTATGAAGTTTCAGTAGAGCAGATTAAAACTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* * *
95162168 AAATCTTATATCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* * * *
95162212 AAGTCTTATCTCCCTGAAGTTGCGGTAGAGCATATTGAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* *
95162256 AAATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* *
95162300 AAATCTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
95162340 CAACAATTCC
Statistics
Matches: 313, Mismatches: 73, Indels: 23
0.77 0.18 0.06
Matches are distributed among these distances:
42 1 0.00
43 37 0.12
44 199 0.64
45 43 0.14
46 1 0.00
47 1 0.00
48 7 0.02
49 1 0.00
50 22 0.07
51 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
Found at i:95162603 original size:19 final size:19
Alignment explanation
Indices: 95162581--95162629 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
95162571 AGTTTAATGT
95162581 TACAAGCCCAATTTACAAA
1 TACAAGCCCAATTTACAAA
95162600 TACAAGCCCAATTTACAAA
1 TACAAGCCCAATTTACAAA
95162619 TACAAGCCCAA
1 TACAAGCCCAA
95162630 ACTAAAACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.47, C:0.29, G:0.06, T:0.18
Consensus pattern (19 bp):
TACAAGCCCAATTTACAAA
Found at i:95162905 original size:22 final size:22
Alignment explanation
Indices: 95162877--95162928 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
95162867 CAACAGTGGC
95162877 TAAACAGTAGCGAAA-A-TGAAA
1 TAAACAGTAG-GAAATAGTGAAA
95162898 GTAAACAGTAGGAAATAGTGAAA
1 -TAAACAGTAGGAAATAGTGAAA
95162921 TAAACAGT
1 TAAACAGT
95162929 GCAATATCGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.14
22 19 0.68
23 5 0.18
ACGTcount: A:0.54, C:0.08, G:0.21, T:0.17
Consensus pattern (22 bp):
TAAACAGTAGGAAATAGTGAAA
Found at i:95164087 original size:32 final size:30
Alignment explanation
Indices: 95164043--95164109 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 30
95164033 TCTCATTTTA
95164043 CTTTATTTTATTTTATT-TT-TATTTTGTTT
1 CTTTATTTTATTTTATTATTCT-TTTTGTTT
95164072 CCTTTATGTGTTATTTTATTATTCTTTTTGTTT
1 -CTTTAT-T-TTATTTTATTATTCTTTTTGTTT
95164105 CTTTA
1 CTTTA
95164110 AATTCATGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
30 6 0.18
31 1 0.03
32 15 0.45
33 10 0.30
34 1 0.03
ACGTcount: A:0.13, C:0.07, G:0.06, T:0.73
Consensus pattern (30 bp):
CTTTATTTTATTTTATTATTCTTTTTGTTT
Found at i:95169374 original size:37 final size:37
Alignment explanation
Indices: 95169324--95169529 Score: 281
Period size: 37 Copynumber: 5.6 Consensus size: 37
95169314 ATACTCCTTG
*
95169324 ATTTGGCATGTTATCGGGTGGATTAGCTCTTATGAGC
1 ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
* *
95169361 ATTTGGCGTGTTATCGGGTGGATTAACTCTTATGAGT
1 ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
** *
95169398 ATTTGGCGTGTTATCGGGTATATTAGCTCTTATAAGC
1 ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
** *
95169435 ATTTGTTGTGTTATCGGGTGGATTAGCTTTTATGAGC
1 ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
* *
95169472 ATTTGGCGTGTTATCAGGTGGATTAGCTCTTACGAGC
1 ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
*
95169509 GA-TTGGCGTGTT-TCGGTTGGA
1 -ATTTGGCGTGTTATCGGGTGGA
95169530 ATATCTACGT
Statistics
Matches: 147, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
36 7 0.05
37 139 0.95
38 1 0.01
ACGTcount: A:0.18, C:0.12, G:0.30, T:0.40
Consensus pattern (37 bp):
ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
Found at i:95181016 original size:51 final size:51
Alignment explanation
Indices: 95180944--95181057 Score: 201
Period size: 51 Copynumber: 2.2 Consensus size: 51
95180934 CTGATCACAT
95180944 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* *
95180995 TTATCACTTGTCACTGGTCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
95181046 TTATCGCTTGTC
1 TTATCACTTGTC
95181058 GCTTGTCGCT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:95184516 original size:19 final size:19
Alignment explanation
Indices: 95184500--95184537 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
95184490 GGTGTTTTTC
95184500 CTTATTTTTCATGTTTTAT
1 CTTATTTTTCATGTTTTAT
95184519 CTTATTTTTCATGTTTTAT
1 CTTATTTTTCATGTTTTAT
95184538 TAACTTTTAA
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:0.16, C:0.11, G:0.05, T:0.68
Consensus pattern (19 bp):
CTTATTTTTCATGTTTTAT
Found at i:95185567 original size:25 final size:25
Alignment explanation
Indices: 95185514--95185567 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
95185504 AATCAAAATA
*
95185514 TTATTTCTATTCTTTTTCTTTCTTC
1 TTATTTCTATTCTTTTTCTTTATTC
*
95185539 TTATTTCT-TTTTATTTTCATTTATT-
1 TTATTTCTATTCT-TTTTC-TTTATTC
95185564 TTAT
1 TTAT
95185568 ATTTTACTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 3 0.12
25 17 0.68
26 5 0.20
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (25 bp):
TTATTTCTATTCTTTTTCTTTATTC
Found at i:95186051 original size:38 final size:39
Alignment explanation
Indices: 95185966--95186055 Score: 105
Period size: 38 Copynumber: 2.3 Consensus size: 39
95185956 TCTATAGCGG
*
95185966 CGCTTTTTTAGAAACGCCATTATATATCGAACATTAGCTA
1 CGCTTTTTTA-AAACGCCATTATAGATCGAACATTAGCTA
* * *
95186006 CGC-TTTTTAAAACGTCGTTATAGATCGAGCATTAGC-A
1 CGCTTTTTTAAAACGCCATTATAGATCGAACATTAGCTA
95186043 -GCATTTTTTAAAA
1 CGC-TTTTTTAAAA
95186056 AGAGCCGCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
36 2 0.05
37 1 0.02
38 32 0.73
39 6 0.14
40 3 0.07
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (39 bp):
CGCTTTTTTAAAACGCCATTATAGATCGAACATTAGCTA
Found at i:95186195 original size:40 final size:37
Alignment explanation
Indices: 95186132--95186279 Score: 161
Period size: 40 Copynumber: 3.7 Consensus size: 37
95186122 CTTTAGTGGT
*
95186132 ATTAGCGGCGCTTTTTGACAAACGCCGCTATATGTCGACC
1 ATTAGCGGCGC-TTTTGAAAAACGCCGCTATA-GT-GACC
*
95186172 ATTAGCGGCGCTTTTATAAAAACGCCGCTATAGGTTGACC
1 ATTAGCGGCGCTTTT-GAAAAACGCCGCTATA-G-TGACC
* *
95186212 ATTAGCGGCGCTGTTTGAAAAACGCTGCTATAGATGAGC
1 ATTAGCGGCGCT-TTTGAAAAACGCCGCTATAG-TGACC
*
95186251 AATAGCGGCGCTTTCTAGAAAAACGCCGC
1 ATTAGCGGCGCTTT-T-GAAAAACGCCGC
95186280 AAAAAACATT
Statistics
Matches: 94, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
38 2 0.02
39 21 0.22
40 67 0.71
41 4 0.04
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (37 bp):
ATTAGCGGCGCTTTTGAAAAACGCCGCTATAGTGACC
Found at i:95186273 original size:80 final size:80
Alignment explanation
Indices: 95186132--95186279 Score: 210
Period size: 80 Copynumber: 1.9 Consensus size: 80
95186122 CTTTAGTGGT
* * * *
95186132 ATTAGCGGCGCTTTTTGACAAACGCCGCTATATGTCGACCATTAGCGGCGCTTTTATAAAAACGC
1 ATTAGCGGCGCTGTTTGAAAAACGCCGCTATATGTCGACCAATAGCGGCGCTTTTAGAAAAACGC
95186197 CGCTATAGGTTGACC
66 CGCTATAGGTTGACC
* *
95186212 ATTAGCGGCGCTGTTTGAAAAACGCTGCTATA-GAT-GAGCAATAGCGGCGCTTTCTAGAAAAAC
1 ATTAGCGGCGCTGTTTGAAAAACGCCGCTATATG-TCGACCAATAGCGGCGCTTT-TAGAAAAAC
95186275 GCCGC
64 GCCGC
95186280 AAAAAACATT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
79 17 0.28
80 43 0.72
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (80 bp):
ATTAGCGGCGCTGTTTGAAAAACGCCGCTATATGTCGACCAATAGCGGCGCTTTTAGAAAAACGC
CGCTATAGGTTGACC
Found at i:95186734 original size:14 final size:14
Alignment explanation
Indices: 95186669--95186746 Score: 59
Period size: 14 Copynumber: 5.6 Consensus size: 14
95186659 TTAGGGGGGG
95186669 TAAGGGTTAGAGG-T
1 TAAGGGTTA-AGGTT
* *
95186683 TAAGGGCTAGGGTT
1 TAAGGGTTAAGGTT
* * *
95186697 TAAGGTTTATGTTT
1 TAAGGGTTAAGGTT
* **
95186711 TATGATTTAAGGTT
1 TAAGGGTTAAGGTT
*
95186725 TAAGGGTTAAGGGT
1 TAAGGGTTAAGGTT
95186739 TAAGGGTT
1 TAAGGGTT
95186747 CGGAGTTAGA
Statistics
Matches: 49, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
13 2 0.04
14 47 0.96
ACGTcount: A:0.26, C:0.01, G:0.35, T:0.38
Consensus pattern (14 bp):
TAAGGGTTAAGGTT
Found at i:95186741 original size:21 final size:21
Alignment explanation
Indices: 95186669--95186743 Score: 55
Period size: 21 Copynumber: 3.6 Consensus size: 21
95186659 TTAGGGGGGG
*
95186669 TAAGGGTTAGAGG-TTAAGGGC
1 TAAGGGTTA-AGGTTTAAGGGT
* **
95186690 T-AGGGTTTAAGGTTTATGTTT
1 TAAGGG-TTAAGGTTTAAGGGT
* **
95186711 TATGATTTAAGGTTTAAGGGT
1 TAAGGGTTAAGGTTTAAGGGT
95186732 TAAGGGTTAAGG
1 TAAGGGTTAAGG
95186744 GTTCGGAGTT
Statistics
Matches: 38, Mismatches: 13, Indels: 6
0.67 0.23 0.11
Matches are distributed among these distances:
20 7 0.18
21 30 0.79
22 1 0.03
ACGTcount: A:0.27, C:0.01, G:0.35, T:0.37
Consensus pattern (21 bp):
TAAGGGTTAAGGTTTAAGGGT
Found at i:95186744 original size:7 final size:7
Alignment explanation
Indices: 95186717--95186746 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
95186707 GTTTTATGAT
*
95186717 TTAAGGT
1 TTAAGGG
95186724 TTAAGGG
1 TTAAGGG
95186731 TTAAGGG
1 TTAAGGG
95186738 TTAAGGG
1 TTAAGGG
95186745 TT
1 TT
95186747 CGGAGTTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.37, T:0.37
Consensus pattern (7 bp):
TTAAGGG
Found at i:95186882 original size:18 final size:16
Alignment explanation
Indices: 95186842--95186883 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
95186832 AGAGATAATA
95186842 TTAAATT-TAATATAT
1 TTAAATTATAATATAT
*
95186857 TAAAATTATGAATATAGT
1 TTAAATTAT-AATATA-T
95186875 TTAAATTAT
1 TTAAATTAT
95186884 TTAAGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 6 0.27
16 1 0.05
17 6 0.27
18 9 0.41
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (16 bp):
TTAAATTATAATATAT
Found at i:95186945 original size:17 final size:17
Alignment explanation
Indices: 95186893--95186945 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
95186883 TTTAAGAGAA
95186893 AATAGATAAACTTTTAT
1 AATAGATAAACTTTTAT
*
95186910 ATATA-TTAAA-TGGTTTAT
1 A-ATAGATAAACT--TTTAT
95186928 AATAGATAAACTTTTAT
1 AATAGATAAACTTTTAT
95186945 A
1 A
95186946 TATAAAATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
16 1 0.03
17 14 0.48
18 13 0.45
19 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (17 bp):
AATAGATAAACTTTTAT
Found at i:95186962 original size:30 final size:32
Alignment explanation
Indices: 95186893--95186970 Score: 106
Period size: 35 Copynumber: 2.4 Consensus size: 32
95186883 TTTAAGAGAA
*
95186893 AATAGATAAACTTTTATATATATTAAATGGTTTAT
1 AATAGATAAACTTTTATATATA-TAAATAG--TAT
95186928 AATAGATAAACTTTTATATATA-AAATAG-AT
1 AATAGATAAACTTTTATATATATAAATAGTAT
95186958 AATAGATAAACTT
1 AATAGATAAACTT
95186971 GAGATTTGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
30 15 0.36
33 5 0.12
35 22 0.52
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.40
Consensus pattern (32 bp):
AATAGATAAACTTTTATATATATAAATAGTAT
Found at i:95187780 original size:37 final size:37
Alignment explanation
Indices: 95187720--95187847 Score: 175
Period size: 37 Copynumber: 3.5 Consensus size: 37
95187710 TCCCCCAAAT
* * * *
95187720 CCTTTGCCTCGTGCATTGCAACCCATCTCCTCCGTCG
1 CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
* *
95187757 CCTTCGCCCGGTGCATCGCAACCCATCTCCTCTATCG
1 CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
* *
95187794 CCTTCGCCCCGTGCATCGCAACCTATCTCCTCCATCA
1 CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
*
95187831 CCTTCGCCCTGTGCATC
1 CCTTCGCCCCGTGCATC
95187848 TGCTGCATAG
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 80 1.00
ACGTcount: A:0.12, C:0.46, G:0.15, T:0.27
Consensus pattern (37 bp):
CCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATCG
Found at i:95195029 original size:13 final size:14
Alignment explanation
Indices: 95195013--95195041 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
95195003 TTTTAAATAT
95195013 TTATAATA-TTTAA
1 TTATAATAGTTTAA
95195026 TTATAATAGTTTAA
1 TTATAATAGTTTAA
95195040 TT
1 TT
95195042 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (14 bp):
TTATAATAGTTTAA
Found at i:95195740 original size:47 final size:47
Alignment explanation
Indices: 95195648--95195741 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
95195638 CGTTGAATTT
* *
95195648 TTGAAGTATCATTTAGGTTTGCTATTATTAGTTGGATTTGGTGTTGC
1 TTGAAGTATCATTTAGATTTGCTATTATTAGTTGGATTTGATGTTGC
* * *
95195695 TTGAAGTATCATTTAGATTTGCTGTTATTGGTTGGATTTTATGTTGC
1 TTGAAGTATCATTTAGATTTGCTATTATTAGTTGGATTTGATGTTGC
95195742 AGGAAGGATT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.19, C:0.06, G:0.24, T:0.50
Consensus pattern (47 bp):
TTGAAGTATCATTTAGATTTGCTATTATTAGTTGGATTTGATGTTGC
Found at i:95196271 original size:16 final size:16
Alignment explanation
Indices: 95196240--95196276 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
95196230 ATGTGAAGAA
95196240 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
95196256 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
95196272 TATTA
1 TATTA
95196277 AAATAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:95196401 original size:22 final size:22
Alignment explanation
Indices: 95196376--95196420 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
95196366 ATGTTTAATA
95196376 ATATTGAAAATTAT-AATATTTT
1 ATATT-AAAATTATAAATATTTT
* *
95196398 ATATTAATATTTTAAATATTTT
1 ATATTAAAATTATAAATATTTT
95196420 A
1 A
95196421 AAAATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
ATATTAAAATTATAAATATTTT
Found at i:95205376 original size:15 final size:15
Alignment explanation
Indices: 95205335--95205470 Score: 57
Period size: 15 Copynumber: 8.8 Consensus size: 15
95205325 TTTATTATTT
*
95205335 TAATAAATTATTTAA
1 TAATAAATTTTTTAA
*
95205350 TATTTCAAATTTTTTAA
1 TA-AT-AAATTTTTTAA
95205367 TAATAAA--TTTTAA
1 TAATAAATTTTTTAA
* * * *
95205380 AAATAATAATCTTAAA
1 TAATAA-ATTTTTTAA
*
95205396 TAAT--ATTCTTTCAA
1 TAATAAATT-TTTTAA
* *
95205410 T-ATTAATATTTTAA
1 TAATAAATTTTTTAA
95205424 TAATAAATATTTATTATAA
1 TAAT-AA-ATTT-TT-TAA
* *
95205443 TAATAAATATATTAA
1 TAATAAATTTTTTAA
95205458 TAATAAATGTTTT
1 TAATAAAT-TTTT
95205471 GTAGTCTAAA
Statistics
Matches: 89, Mismatches: 18, Indels: 27
0.66 0.13 0.20
Matches are distributed among these distances:
13 15 0.17
14 12 0.13
15 20 0.22
16 13 0.15
17 18 0.20
18 4 0.04
19 7 0.08
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.48
Consensus pattern (15 bp):
TAATAAATTTTTTAA
Found at i:95205400 original size:16 final size:17
Alignment explanation
Indices: 95205364--95205400 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
95205354 TCAAATTTTT
*
95205364 TAATAATAAATTTTAAA
1 TAATAATAAATCTTAAA
95205381 -AATAAT-AATCTTAAA
1 TAATAATAAATCTTAAA
95205396 TAATA
1 TAATA
95205401 TTCTTTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAAATCTTAAA
Found at i:95205443 original size:19 final size:19
Alignment explanation
Indices: 95205416--95205452 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
95205406 TCAATATTAA
*
95205416 TATTTTAATAATAAATATT
1 TATTATAATAATAAATATT
95205435 TATTATAATAATAAATAT
1 TATTATAATAATAAATAT
95205453 ATTAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTATAATAATAAATATT
Found at i:95208212 original size:30 final size:30
Alignment explanation
Indices: 95208176--95208235 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
95208166 TATTTTATTA
*
95208176 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
95208206 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
95208236 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:95213980 original size:35 final size:35
Alignment explanation
Indices: 95213932--95214042 Score: 177
Period size: 35 Copynumber: 3.2 Consensus size: 35
95213922 TCTCTTCTCT
* *
95213932 TTTCTTTAGTTCGAAAATCATATATATTCTTTTCC
1 TTTCTTTATTTCGAAAATCATCTATATTCTTTTCC
*
95213967 TTTCTTTATTTCGAAAATCATCTATATTTTTTTCC
1 TTTCTTTATTTCGAAAATCATCTATATTCTTTTCC
* *
95214002 TTTCTTTATTTCGAAAATCATCTATATTCTTCTCA
1 TTTCTTTATTTCGAAAATCATCTATATTCTTTTCC
95214037 TTTCTT
1 TTTCTT
95214043 CTTTTCCAAC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 70 1.00
ACGTcount: A:0.23, C:0.18, G:0.04, T:0.55
Consensus pattern (35 bp):
TTTCTTTATTTCGAAAATCATCTATATTCTTTTCC
Found at i:95216234 original size:22 final size:21
Alignment explanation
Indices: 95216195--95216253 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 21
95216185 ATTGAAAAAA
**
95216195 TTATCTAATTGAAAATTTAAT
1 TTATCTAATTGATTATTTAAT
95216216 TTATCTAATTTGATTATTTAAT
1 TTATCTAA-TTGATTATTTAAT
*
95216238 TAAT-TAATT-ATTATTT
1 TTATCTAATTGATTATTT
95216254 TGAAAATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.21
20 2 0.06
21 11 0.32
22 14 0.41
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.56
Consensus pattern (21 bp):
TTATCTAATTGATTATTTAAT
Found at i:95223458 original size:27 final size:26
Alignment explanation
Indices: 95223428--95223668 Score: 246
Period size: 27 Copynumber: 9.2 Consensus size: 26
95223418 GCAACGAAGT
95223428 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGAT-CAGATATTGTGGCAGAGC
* *
95223455 CACCAAAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAT-TGTGGCAGAGC
* *
95223482 CACCAGATCAGATAATCGTGGCATAGC
1 CACCAGATCAGAT-ATTGTGGCAGAGC
*
95223509 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAT-TGTGGCAGAGC
*
95223536 CACCAGATCAGATAATTGTGACCAGA--
1 CACCAGATCAGAT-ATTGTG-GCAGAGC
95223562 -A-CAGAT---ATA-TGTGGCAGAGC
1 CACCAGATCAGATATTGTGGCAGAGC
* * *
95223582 CACTAGATCAAATAATTGTGGCATAGC
1 CACCAGATCAGAT-ATTGTGGCAGAGC
*
95223609 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAT-TGTGGCAGAGC
*
95223636 CACCAGATCAGATAATTGTGGCATAGC
1 CACCAGATCAGAT-ATTGTGGCAGAGC
95223663 CACCAG
1 CACCAG
95223669 GACGCTTCCT
Statistics
Matches: 178, Mismatches: 20, Indels: 32
0.77 0.09 0.14
Matches are distributed among these distances:
18 4 0.02
19 4 0.02
20 1 0.01
21 3 0.02
22 4 0.02
24 5 0.03
25 3 0.02
26 12 0.07
27 132 0.74
28 10 0.06
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.18
Consensus pattern (26 bp):
CACCAGATCAGATATTGTGGCAGAGC
Found at i:95223503 original size:54 final size:54
Alignment explanation
Indices: 95223428--95223668 Score: 365
Period size: 54 Copynumber: 4.6 Consensus size: 54
95223418 GCAACGAAGT
* *
95223428 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAAAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
95223482 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
95223536 CACCAGATCAGATAA-T-T-G--T-G--ACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
95223582 CACTAGATCAAATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
95223636 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
95223669 GACGCTTCCT
Statistics
Matches: 170, Mismatches: 8, Indels: 18
0.87 0.04 0.09
Matches are distributed among these distances:
46 39 0.23
47 1 0.01
48 2 0.01
49 2 0.01
51 2 0.01
52 2 0.01
53 5 0.03
54 117 0.69
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:95223563 original size:46 final size:47
Alignment explanation
Indices: 95223509--95223655 Score: 206
Period size: 46 Copynumber: 3.0 Consensus size: 47
95223499 GTGGCATAGC
95223509 CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTG
1 CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTG
* *
95223556 -ACCAGAACAGATATATGTGGCAGAGCCACTAGATCAAATAATTGTGGCATAG
1 CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAA-T-T-G--T-G
95223608 CCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTG
1 -CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTG
95223656 GCATAGCCAC
Statistics
Matches: 88, Mismatches: 4, Indels: 15
0.82 0.04 0.14
Matches are distributed among these distances:
46 39 0.44
47 1 0.01
48 2 0.02
49 2 0.02
51 2 0.02
52 2 0.02
53 1 0.01
54 39 0.44
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (47 bp):
CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTG
Found at i:95223577 original size:100 final size:100
Alignment explanation
Indices: 95223456--95223655 Score: 364
Period size: 100 Copynumber: 2.0 Consensus size: 100
95223446 TGGCAGAGCC
*
95223456 ACCAAAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGA
1 ACCAAAACAGATATATGTGGCAGAGCCACCAGATCAAATAATCGTGGCATAGCCACCAGAACAGA
95223521 TATATGTGGCAGAGCCACCAGATCAGATAATTGTG
66 TATATGTGGCAGAGCCACCAGATCAGATAATTGTG
* * *
95223556 ACCAGAACAGATATATGTGGCAGAGCCACTAGATCAAATAATTGTGGCATAGCCACCAGAACAGA
1 ACCAAAACAGATATATGTGGCAGAGCCACCAGATCAAATAATCGTGGCATAGCCACCAGAACAGA
95223621 TATATGTGGCAGAGCCACCAGATCAGATAATTGTG
66 TATATGTGGCAGAGCCACCAGATCAGATAATTGTG
95223656 GCATAGCCAC
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 96 1.00
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (100 bp):
ACCAAAACAGATATATGTGGCAGAGCCACCAGATCAAATAATCGTGGCATAGCCACCAGAACAGA
TATATGTGGCAGAGCCACCAGATCAGATAATTGTG
Found at i:95223602 original size:73 final size:73
Alignment explanation
Indices: 95223483--95223622 Score: 185
Period size: 73 Copynumber: 1.9 Consensus size: 73
95223473 TGGCAGAGCC
* * * *
95223483 ACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGA
1 ACCAGAACAGATAATCGTGGCAGAGCCACCAGAACAAATATATGTGGCAGAGCCACCAGAACAGA
95223548 TAATTGTG
66 TAATTGTG
* * *
95223556 ACCAGAACAGATATAT-GTGGCAGAGCCACTAGATCAAATA-ATTGTGGCATAGCCACCAGAACA
1 ACCAGAACAGATA-ATCGTGGCAGAGCCACCAGAACAAATATA-TGTGGCAGAGCCACCAGAACA
95223619 GATA
64 GATA
95223623 TATGTGGCAG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
72 1 0.02
73 55 0.95
74 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (73 bp):
ACCAGAACAGATAATCGTGGCAGAGCCACCAGAACAAATATATGTGGCAGAGCCACCAGAACAGA
TAATTGTG
Found at i:95225320 original size:26 final size:26
Alignment explanation
Indices: 95225290--95225345 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
95225280 TGAAATGCCC
95225290 ATCATGGAACATTTACCCAACCCATT
1 ATCATGGAACATTTACCCAACCCATT
*
95225316 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCCAACCCATT
95225342 ATCA
1 ATCA
95225346 ATTTGTACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (26 bp):
ATCATGGAACATTTACCCAACCCATT
Found at i:95234212 original size:20 final size:20
Alignment explanation
Indices: 95234189--95234227 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
95234179 CCAAAAAACA
* *
95234189 AAAAAGACAATGAAAACATG
1 AAAAAGAAAAGGAAAACATG
*
95234209 AAAAGGAAAAGGAAAACAT
1 AAAAAGAAAAGGAAAACAT
95234228 ATTGAAACTT
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:0.67, C:0.08, G:0.18, T:0.08
Consensus pattern (20 bp):
AAAAAGAAAAGGAAAACATG
Found at i:95238481 original size:12 final size:13
Alignment explanation
Indices: 95238459--95238487 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
95238449 TACATAAAAA
95238459 TATAATAATAAAT
1 TATAATAATAAAT
95238472 TATAAT-ATAAAT
1 TATAATAATAAAT
95238484 TATA
1 TATA
95238488 CAAATCCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATAATAATAAAT
Found at i:95238939 original size:30 final size:30
Alignment explanation
Indices: 95238905--95238967 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
95238895 GCTTATTTTA
*
95238905 TTGTTAATTTTGTTATTATTTTAAATATAT
1 TTGTTAATTTTGTTATTATTTTAAAGATAT
*
95238935 TTGTTAATTTTGTTATTATTTTAGAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGATAT
95238965 TTG
1 TTG
95238968 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGATAT
Found at i:95239111 original size:12 final size:12
Alignment explanation
Indices: 95239090--95239123 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
95239080 TATATTTTTT
*
95239090 AAAATTATATAA
1 AAAATAATATAA
95239102 AAAATAATATAA
1 AAAATAATATAA
*
95239114 AAATTAATAT
1 AAAATAATAT
95239124 GCAGGCCAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:95242937 original size:27 final size:27
Alignment explanation
Indices: 95242906--95243064 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
95242896 GCCAGGTTGC
* *
95242906 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
95242933 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
95242959 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
95242986 CAGATAATCGTGGCATAGCCACTAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
95243013 CAGATATATGTGGCAGAGCCACTAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
95243040 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
95243065 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 100 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:95243006 original size:54 final size:54
Alignment explanation
Indices: 95242924--95243064 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
95242914 GTGACGAAGT
*
95242924 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
95242978 CACCAGATCAGATAATCGTGGCATAGCCACTAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
95243032 CACTAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
95243065 GACGCTTCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 75 0.94
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:95251069 original size:65 final size:63
Alignment explanation
Indices: 95250958--95251079 Score: 167
Period size: 65 Copynumber: 1.9 Consensus size: 63
95250948 AAGAATCATT
* * *
95250958 AGAAAAGTTGGTGTTATTTTAGCATTTTATATTTTTTTAAAGTATGTTTCGTTTTCTTGCATAA
1 AGAAAAGTTGGTGTTATTTTAGAATTTTATATTATTTTAAAGTATGTTT-ATTTTCTTGCATAA
95251022 AGAATAAGTTGGTGTTATTTTAGAATTTT-TATGCTATTTTAAA-TATGTTTATTTTCTT
1 AGAA-AAGTTGGTGTTATTTTAGAATTTTATAT--TATTTTAAAGTATGTTTATTTTCTT
95251080 TATTCAAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
64 14 0.27
65 30 0.58
66 8 0.15
ACGTcount: A:0.27, C:0.05, G:0.15, T:0.53
Consensus pattern (63 bp):
AGAAAAGTTGGTGTTATTTTAGAATTTTATATTATTTTAAAGTATGTTTATTTTCTTGCATAA
Found at i:95254343 original size:30 final size:30
Alignment explanation
Indices: 95254299--95254361 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
95254289 ACTTAACAAG
*
95254299 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
95254329 CAAATACCTTTAAAATGATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
95254359 CAA
1 CAA
95254362 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:95262835 original size:57 final size:58
Alignment explanation
Indices: 95262738--95262860 Score: 167
Period size: 57 Copynumber: 2.1 Consensus size: 58
95262728 AATTCATATT
* * * * *
95262738 ATAATAATTACATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTATTTA
1 ATAATAATTACATTAAAAATATGATTAAATTATATATTATTTTATTAAAATATATTTA
* * *
95262796 ATAATAATTA-TTTAAAAATATGATTAAGTTATTTATTATTTTATTAAAATATATTTA
1 ATAATAATTACATTAAAAATATGATTAAATTATATATTATTTTATTAAAATATATTTA
95262853 ATAATAAT
1 ATAATAAT
95262861 CTTATTAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
57 47 0.82
58 10 0.18
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.50
Consensus pattern (58 bp):
ATAATAATTACATTAAAAATATGATTAAATTATATATTATTTTATTAAAATATATTTA
Found at i:95262866 original size:31 final size:30
Alignment explanation
Indices: 95262774--95262866 Score: 72
Period size: 31 Copynumber: 3.2 Consensus size: 30
95262764 AAATTATATA
* *
95262774 TTATTTTATTAAATTGTATTTAATAATAA-
1 TTATTTTATTAAAATATATTTAATAATAAT
* *
95262803 TTA-TTTA--AAAATATGA-TTAAGTTAT-TT
1 TTATTTTATTAAAATAT-ATTTAA-TAATAAT
95262830 ATTATTTTATTAAAATATATTTAATAATAAT
1 -TTATTTTATTAAAATATATTTAATAATAAT
95262861 CTTATT
1 -TTATT
95262867 AAAATTTAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 16
0.68 0.10 0.23
Matches are distributed among these distances:
26 9 0.19
27 4 0.08
28 7 0.15
29 7 0.15
30 4 0.08
31 17 0.35
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (30 bp):
TTATTTTATTAAAATATATTTAATAATAAT
Found at i:95264921 original size:30 final size:30
Alignment explanation
Indices: 95264864--95264922 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
95264854 ACAAAGGCTG
* *
95264864 CCACATGGGCGTGTGGCCAGCCCGTGTGGC
1 CCACACGGGCGTGTGGCCAACCCGTGTGGC
*
95264894 CCACACGGGCGTGT-GCTCAACCTGTGTGG
1 CCACACGGGCGTGTGGC-CAACCCGTGTGG
95264923 AAATGGTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.12, C:0.32, G:0.37, T:0.19
Consensus pattern (30 bp):
CCACACGGGCGTGTGGCCAACCCGTGTGGC
Found at i:95266088 original size:40 final size:40
Alignment explanation
Indices: 95266029--95266218 Score: 186
Period size: 40 Copynumber: 4.7 Consensus size: 40
95266019 TGACGATAAC
* *
95266029 TCGGCTATGTACGGCACTTAGTGTGCGATTCAAGATAGCT
1 TCGGCTATGAATGGCACTTAGTGTGCGATTCAAGATAGCT
** * *
95266069 TCAACTATGAATGGCACTTAGTGAGCGATTCAAGATAGTT
1 TCGGCTATGAATGGCACTTAGTGTGCGATTCAAGATAGCT
* * * *
95266109 TTGGCTATGTATGACACTTAGTGTGCTATTCAAGATAGCT
1 TCGGCTATGAATGGCACTTAGTGTGCGATTCAAGATAGCT
* *
95266149 TCGGCTATGTAA-AGCACTTAGTGTGCGAGATT-AAAATAGCT
1 TCGGCTATG-AATGGCACTTAGTGTGC--GATTCAAGATAGCT
** * *
95266190 TATGCTATGTATTGGTACTTAGTGTGCGA
1 TCGGCTATG-AATGGCACTTAGTGTGCGA
95266219 GAATTCGAGT
Statistics
Matches: 121, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
40 88 0.73
41 18 0.15
42 15 0.12
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (40 bp):
TCGGCTATGAATGGCACTTAGTGTGCGATTCAAGATAGCT
Found at i:95273548 original size:40 final size:40
Alignment explanation
Indices: 95273493--95273590 Score: 135
Period size: 41 Copynumber: 2.4 Consensus size: 40
95273483 AGTTATATAC
* *
95273493 GGCACTTAGTGTGCGATTCAGAATAGCTTCGGCTATGTA-T
1 GGCACTTAGTGTGCGATT-AAAATAACTTCGGCTATGTATT
95273533 GGCACTTAGTGTGCGAGATTAAAATAACTTCGGCTATGTATT
1 GGCACTTAGTGTGC--GATTAAAATAACTTCGGCTATGTATT
*
95273575 GGCATTTAGTGTGCGA
1 GGCACTTAGTGTGCGA
95273591 GAATTTGAGT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
40 16 0.31
41 18 0.35
42 18 0.35
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (40 bp):
GGCACTTAGTGTGCGATTAAAATAACTTCGGCTATGTATT
Found at i:95273588 original size:42 final size:42
Alignment explanation
Indices: 95273493--95273592 Score: 143
Period size: 42 Copynumber: 2.4 Consensus size: 42
95273483 AGTTATATAC
* *
95273493 GGCACTTAGTGTGC--GATTCAGAATAGCTTCGGCTATGTAT
1 GGCACTTAGTGTGCGAGATTCAAAATAACTTCGGCTATGTAT
95273533 GGCACTTAGTGTGCGAGATT-AAAATAACTTCGGCTATGTATT
1 GGCACTTAGTGTGCGAGATTCAAAATAACTTCGGCTATGTA-T
*
95273575 GGCATTTAGTGTGCGAGA
1 GGCACTTAGTGTGCGAGA
95273593 ATTTGAGTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
40 14 0.26
41 18 0.33
42 22 0.41
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (42 bp):
GGCACTTAGTGTGCGAGATTCAAAATAACTTCGGCTATGTAT
Found at i:95278904 original size:18 final size:18
Alignment explanation
Indices: 95278877--95278911 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
95278867 ATTTTAAACT
*
95278877 TTAAACTAAATATTAAAA
1 TTAAACTAAATAATAAAA
*
95278895 TTAAATTAAATAATAAA
1 TTAAACTAAATAATAAA
95278912 TAGTTTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
TTAAACTAAATAATAAAA
Found at i:95279407 original size:21 final size:20
Alignment explanation
Indices: 95279360--95279415 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
95279350 ATATATAAAA
95279360 AATATAAATTTTT-TAATTT
1 AATATAAATTTTTATAATTT
95279379 -ATGGATAAAATTTTTATAATTT
1 AAT--AT-AAATTTTTATAATTT
95279401 AATAT-AATTTTTATA
1 AATATAAATTTTTATA
95279416 TAATTGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
18 2 0.06
19 10 0.31
20 2 0.06
21 10 0.31
22 6 0.19
23 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (20 bp):
AATATAAATTTTTATAATTT
Found at i:95302064 original size:22 final size:24
Alignment explanation
Indices: 95302026--95302092 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
95302016 ATCTTACTGA
*
95302026 TTCAGCTCGAA-AAAGCTTATTG-T
1 TTCAGCTC-AATAGAGCTTATTGTT
*
95302049 TT-AGCTCAATAGAGCTTATCGTT
1 TTCAGCTCAATAGAGCTTATTGTT
*
95302072 TTCAGGTCAATAGAGCTTATT
1 TTCAGCTCAATAGAGCTTATT
95302093 ATTATTAGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 2 0.05
22 14 0.38
23 5 0.14
24 16 0.43
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (24 bp):
TTCAGCTCAATAGAGCTTATTGTT
Found at i:95309153 original size:23 final size:23
Alignment explanation
Indices: 95309126--95309239 Score: 79
Period size: 23 Copynumber: 4.9 Consensus size: 23
95309116 ATAGCTTGTA
*
95309126 AGAGCTTACTGTTTTAGCTCATT
1 AGAGCTTACTGTTTTAGCTCAAT
* * * * *
95309149 GGAGCCTATTGATTCAGCTCGAA-
1 AGAGCTTACTGTTTTAGCTC-AAT
* * *
95309172 AGAGTTTACTG-TTCATCTCAAT
1 AGAGCTTACTGTTTTAGCTCAAT
* * *
95309194 GGAGCTTACCGTTTTCAACTCAAT
1 AGAGCTTACTGTTTT-AGCTCAAT
95309218 AGAGCTTACTGTTATTAGCTCA
1 AGAGCTTACTGTT-TTAGCTCA
95309240 TGAAGAGCTT
Statistics
Matches: 67, Mismatches: 19, Indels: 9
0.71 0.20 0.09
Matches are distributed among these distances:
21 2 0.03
22 15 0.22
23 24 0.36
24 24 0.36
25 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (23 bp):
AGAGCTTACTGTTTTAGCTCAAT
Found at i:95309239 original size:24 final size:24
Alignment explanation
Indices: 95309126--95309239 Score: 64
Period size: 24 Copynumber: 4.9 Consensus size: 24
95309116 ATAGCTTGTA
*
95309126 AGAGCTTACTGTT-TTAGCTCATT
1 AGAGCTTACTGTTATTAGCTCAAT
* * *
95309149 GGAGCCTA-T-TGATTCAGCTCGAA-
1 AGAGCTTACTGTTATT-AGCTC-AAT
*
95309172 AGAGTTTACTGTTCA-T--CTCAAT
1 AGAGCTTACTGTT-ATTAGCTCAAT
* * *
95309194 GGAGCTTACCGTT-TTCAACTCAAT
1 AGAGCTTACTGTTATT-AGCTCAAT
95309218 AGAGCTTACTGTTATTAGCTCA
1 AGAGCTTACTGTTATTAGCTCA
95309240 TGAAGAGCTT
Statistics
Matches: 65, Mismatches: 14, Indels: 23
0.64 0.14 0.23
Matches are distributed among these distances:
21 4 0.06
22 16 0.25
23 16 0.25
24 24 0.37
25 4 0.06
26 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (24 bp):
AGAGCTTACTGTTATTAGCTCAAT
Found at i:95313978 original size:2 final size:2
Alignment explanation
Indices: 95313971--95314018 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
95313961 TGTTGAAAAG
* * *
95313971 TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA TA CA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
95314013 TA TA TA
1 TA TA TA
95314019 AATGCATTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:95313990 original size:14 final size:14
Alignment explanation
Indices: 95313971--95314018 Score: 78
Period size: 14 Copynumber: 3.4 Consensus size: 14
95313961 TGTTGAAAAG
*
95313971 TATATATATATATA
1 TATATATACATATA
95313985 TATATATACATATA
1 TATATATACATATA
*
95313999 TATATATACACATA
1 TATATATACATATA
95314013 TATATA
1 TATATA
95314019 AATGCATTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (14 bp):
TATATATACATATA
Found at i:95313992 original size:16 final size:16
Alignment explanation
Indices: 95313971--95314018 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
95313961 TGTTGAAAAG
*
95313971 TATATATATATATATA
1 TATATACATATATATA
95313987 TATATACATATATATA
1 TATATACATATATATA
*
95314003 TATACACATATATATA
1 TATATACATATATATA
95314019 AATGCATTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
TATATACATATATATA
Found at i:95315939 original size:20 final size:19
Alignment explanation
Indices: 95315909--95315955 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
95315899 GGGTGTTAAA
95315909 GATACCCATACAATTTTTATC
1 GATA-CCATAC-ATTTTTATC
*
95315930 GATACCATACTTTTTTATC
1 GATACCATACATTTTTATC
95315949 GATACCA
1 GATACCA
95315956 AAATTGCTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 15 0.60
20 6 0.24
21 4 0.16
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.38
Consensus pattern (19 bp):
GATACCATACATTTTTATC
Found at i:95318689 original size:26 final size:26
Alignment explanation
Indices: 95318653--95318788 Score: 229
Period size: 26 Copynumber: 5.2 Consensus size: 26
95318643 TGATACAAAT
*
95318653 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
95318678 GTGATAATAGGTTAGGTAAATGTTCCA
1 -TGATAATGGGTTAGGTAAATGTTTCA
95318705 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
95318731 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
95318757 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
95318783 TGATAA
1 TGATAA
95318789 GAATTTCATG
Statistics
Matches: 106, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
26 103 0.97
27 3 0.03
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:95325956 original size:75 final size:75
Alignment explanation
Indices: 95325856--95326028 Score: 204
Period size: 75 Copynumber: 2.3 Consensus size: 75
95325846 GCAGAGGAGT
* * * *
95325856 TTTAAGCCTAGCGCTAGTCGGGTTAGCCAATGATATTAAATGTGAGCCCAGCTCTAGTCT-GATA
1 TTTAAGCCCAGCGCTAGTCGGGTTAGCCAACGATATTAAATGTAAGCCCAACTCTAGT-TGGATA
95325920 AACCAACAATG
65 AACCAACAATG
* * * * *
95325931 TTTACGCCCAGCGCTTGTCGTGTTAGCCTACGATATTGAATGTAAGCCCAACTCTAGTTGGATAA
1 TTTAAGCCCAGCGCTAGTCGGGTTAGCCAACGATATTAAATGTAAGCCCAACTCTAGTTGGATAA
*
95325996 ACCAACAGTG
66 ACCAACAATG
** * *
95326006 TTTGTGTCCAGCGCTAGTTGGGT
1 TTTAAGCCCAGCGCTAGTCGGGT
95326029 ATTCTAACGA
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
74 1 0.01
75 80 0.99
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (75 bp):
TTTAAGCCCAGCGCTAGTCGGGTTAGCCAACGATATTAAATGTAAGCCCAACTCTAGTTGGATAA
ACCAACAATG
Found at i:95327465 original size:20 final size:20
Alignment explanation
Indices: 95327437--95327480 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
95327427 TACCAACTTG
*
95327437 CAACTTACCATAATCTTTCA
1 CAACATACCATAATCTTTCA
*
95327457 CAACATACCATAGTCTTTCA
1 CAACATACCATAATCTTTCA
95327477 CAAC
1 CAAC
95327481 TTAAACATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.02, T:0.30
Consensus pattern (20 bp):
CAACATACCATAATCTTTCA
Found at i:95327627 original size:43 final size:43
Alignment explanation
Indices: 95327558--95327678 Score: 147
Period size: 43 Copynumber: 2.8 Consensus size: 43
95327548 ACACATAGTA
* *
95327558 CATACCAATGCCATATCCCAGATATGGTCTTACATGGGA-TCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACATGGAAGTCT
* * *
95327600 CATATCAATGCCAATAGCCCAGCTATGGTCTTACA-CGAAGTCT
1 CATATCAATGCC-ATATCCCAGATATGGTCTTACATGGAAGTCT
** *
95327643 CATATTGATGCCATATCCCAGATATGGTCTCACATG
1 CATATCAATGCCATATCCCAGATATGGTCTTACATG
95327679 TAATCTCCAC
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 32 0.49
43 33 0.51
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACATGGAAGTCT
Found at i:95342019 original size:20 final size:22
Alignment explanation
Indices: 95341994--95342039 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
95341984 TTCATAATTT
95341994 TATTAATAGAA-TAAAT-TTAA
1 TATTAATAGAACTAAATGTTAA
* *
95342014 TATTAATTGAACTAATTGTTAA
1 TATTAATAGAACTAAATGTTAA
95342036 TATT
1 TATT
95342040 GTTAGCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
21 4 0.18
22 8 0.36
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (22 bp):
TATTAATAGAACTAAATGTTAA
Found at i:95342483 original size:12 final size:11
Alignment explanation
Indices: 95342385--95342490 Score: 68
Period size: 11 Copynumber: 9.3 Consensus size: 11
95342375 ACTATTGTTA
95342385 TTATTATTATT
1 TTATTATTATT
**
95342396 TTGCTATTATT
1 TTATTATTATT
*** *
95342407 TCGCTATTATA
1 TTATTATTATT
*
95342418 TTACTATTATT
1 TTATTATTATT
95342429 TTATTATTATTAT
1 TTATTATTA-T-T
* * *
95342442 TTGAATATCATA
1 TT-ATTATTATT
*
95342454 TAATTATTATT
1 TTATTATTATT
95342465 TTATTATTAATT
1 TTATTATT-ATT
*
95342477 TTGTTATTATT
1 TTATTATTATT
95342488 TTA
1 TTA
95342491 AGTGTATTTG
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
11 52 0.71
12 12 0.16
13 4 0.05
14 5 0.07
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (11 bp):
TTATTATTATT
Found at i:95342569 original size:25 final size:26
Alignment explanation
Indices: 95342541--95342591 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
95342531 TGTAGGAAGC
*
95342541 ATTTATTTTGTAT-T-ATATTTTTTAA
1 ATTTATTTT-TATATAAAATTTTTTAA
95342566 ATTTATTTTTATATAAAATTTTTTAA
1 ATTTATTTTTATATAAAATTTTTTAA
95342592 TACGGGTGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 3 0.13
25 10 0.43
26 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
ATTTATTTTTATATAAAATTTTTTAA
Found at i:95352156 original size:3 final size:3
Alignment explanation
Indices: 95352133--95352171 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
95352123 TTTAGGGTTT
* *
95352133 AAG AAG -AG AAA AAG AAA AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
95352172 GGAGAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:95358280 original size:3 final size:3
Alignment explanation
Indices: 95358269--95358343 Score: 105
Period size: 3 Copynumber: 25.0 Consensus size: 3
95358259 TTTTACAGTC
* * * * *
95358269 TCT TGT TCT TCT TCT TCT TTT TCT TGT TCT TGT TCT TGT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
95358317 TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT
95358344 CTGTTATTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.00, C:0.27, G:0.05, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:95358545 original size:30 final size:31
Alignment explanation
Indices: 95358493--95358560 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
95358483 CTGTTAACCG
* *
95358493 GTGACTATTTTGTCACTTTTTTATAACGTT-A
1 GTGACTGTTTTGTCACTTTTTTA-AAAGTTGA
*
95358524 GTGACTGTTTTGTTA-TTTTTTAAAAGTTGA
1 GTGACTGTTTTGTCACTTTTTTAAAAGTTGA
95358554 GTGACTG
1 GTGACTG
95358561 ATATGAAACC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 5 0.15
30 15 0.45
31 13 0.39
ACGTcount: A:0.22, C:0.09, G:0.19, T:0.50
Consensus pattern (31 bp):
GTGACTGTTTTGTCACTTTTTTAAAAGTTGA
Found at i:95362105 original size:3 final size:3
Alignment explanation
Indices: 95362084--95362154 Score: 119
Period size: 3 Copynumber: 24.0 Consensus size: 3
95362074 CTATCTCAAT
95362084 TAA TAGA TAA -AA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
95362128 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
95362155 GTAAATATCT
Statistics
Matches: 65, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
2 4 0.06
3 58 0.89
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:95366807 original size:26 final size:26
Alignment explanation
Indices: 95366725--95366858 Score: 163
Period size: 26 Copynumber: 5.3 Consensus size: 26
95366715 CTAGAGGCCT
95366725 AGCCTCTTTT-AAT-AACTGGGG-A-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
* * *
95366748 AACCCTTTT-GATAAATTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
95366772 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
95366798 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* * *
95366824 AGCCCTTTTCAATAAATTAGGGTATA
1 AGCCCTTTTCAATAAACTGGGGCATA
95366850 AGCCCTTTT
1 AGCCCTTTT
95366859 GCACTTCCTC
Statistics
Matches: 98, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.07
23 10 0.10
24 10 0.10
25 12 0.12
26 59 0.60
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:95366933 original size:20 final size:20
Alignment explanation
Indices: 95366908--95366961 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
95366898 TTATGAATAC
*
95366908 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
95366928 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
95366948 GTCATGTGCATATC
1 ATCATGTGCATATC
95366962 GTATCAACCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:95369888 original size:28 final size:28
Alignment explanation
Indices: 95369856--95369911 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
95369846 CCAAGGCTGA
95369856 CTTTT-ATCT-CTTGATTTCAATTTCAATC
1 CTTTTAATCTACTTG-TTT-AATTTCAATC
*
95369884 CTTTTAATTTACTTGTTTAATTTCAATC
1 CTTTTAATCTACTTGTTTAATTTCAATC
95369912 ATTTACTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 15 0.60
29 6 0.24
30 4 0.16
ACGTcount: A:0.23, C:0.18, G:0.04, T:0.55
Consensus pattern (28 bp):
CTTTTAATCTACTTGTTTAATTTCAATC
Found at i:95377907 original size:28 final size:28
Alignment explanation
Indices: 95377874--95377929 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
95377864 CTAAGGCTGA
*
95377874 CTTTTATCT-CTTGATTTCAATTTCAATCT
1 CTTTAATCTACTTG-TTT-AATTTCAATCT
*
95377903 CTTTAATTTACTTGTTTAATTTCAATC
1 CTTTAATCTACTTGTTTAATTTCAATC
95377930 ATTTACTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.42
29 10 0.42
30 4 0.17
ACGTcount: A:0.23, C:0.18, G:0.04, T:0.55
Consensus pattern (28 bp):
CTTTAATCTACTTGTTTAATTTCAATCT
Found at i:95379547 original size:2 final size:2
Alignment explanation
Indices: 95379535--95379578 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
95379525 TAATTGTTAC
*
95379535 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95379577 AT
1 AT
95379579 TTTTTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:95383918 original size:65 final size:65
Alignment explanation
Indices: 95383814--95383959 Score: 213
Period size: 65 Copynumber: 2.2 Consensus size: 65
95383804 ATGGGACATG
* * * * *
95383814 TTTGGTGTGTAGGAGAGTGTTAGCTTTATGCTTCACTTTTGGGATATGTTTGAA-TGTATGAGTC
1 TTTGGTGTGTTGGAGAGTATTAGCTTTATGCTTCACTTTTGGGATAT-ATTCAACTCTATGAGTC
95383878 A
65 A
*
95383879 TTTGGTGCGTTGGAGAGTATTAGCTTTATGCTTCACTTTTGGGATATATTCAACTCTATGAGTCA
1 TTTGGTGTGTTGGAGAGTATTAGCTTTATGCTTCACTTTTGGGATATATTCAACTCTATGAGTCA
*
95383944 TTTGGTGTGTTTGAGA
1 TTTGGTGTGTTGGAGA
95383960 TTCGTGTATC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
64 4 0.06
65 68 0.94
ACGTcount: A:0.20, C:0.10, G:0.27, T:0.43
Consensus pattern (65 bp):
TTTGGTGTGTTGGAGAGTATTAGCTTTATGCTTCACTTTTGGGATATATTCAACTCTATGAGTCA
Found at i:95386791 original size:48 final size:48
Alignment explanation
Indices: 95386730--95387002 Score: 226
Period size: 48 Copynumber: 5.7 Consensus size: 48
95386720 TTATTTGTAG
95386730 GCTAGTGTAAGACCATGTCTGGGACATGGCATCTGCCTCAATATGTGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCTGCCTCAATATGTGA
* * * * * ** *** *
95386778 GCCAATGTAAGACCATGTTTGGAACATGACAT-TGGTATTGTTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCT-GCCTCAATATGTGA
* * * * *
95386826 GTTAGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCAATATATCA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCTGCCTCAATATGTGA
* * * * * * *** *
95386874 GCCAGTGTAAGACCGTGTTTGGAACATGGCATCGGCATTGTTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCTGCCTCAATATGTGA
* * *
95386922 GCTAGTGTAAGATCATGCCTGGGACATGGCAT-TGGCCTCAATATGTAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCT-GCCTCAATATGTGA
* * *
95386970 GGTAGTGTAAGACCATGTTTGAGACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
95387003 GACATTTTAC
Statistics
Matches: 163, Mismatches: 58, Indels: 7
0.71 0.25 0.03
Matches are distributed among these distances:
47 1 0.01
48 162 0.99
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCTGCCTCAATATGTGA
Found at i:95386896 original size:96 final size:96
Alignment explanation
Indices: 95386730--95387008 Score: 380
Period size: 96 Copynumber: 2.9 Consensus size: 96
95386720 TTATTTGTAG
* * *
95386730 GCTAGTGTAAGACCATGTCTGGGACATGGCATCTGCCTCAATATGTGAGCCAATGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTAAGCCAGTGTAAGACCATG
* *
95386795 TTTGGAACATGACATTGGTATTGTTATGAGA
66 TTTGGAACATGACATCGGCATTGTTATGAGA
* * * * *
95386826 GTTAGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCAATATATCAGCCAGTGTAAGACCGTG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTAAGCCAGTGTAAGACCATG
*
95386891 TTTGGAACATGGCATCGGCATTGTTATGAGA
66 TTTGGAACATGACATCGGCATTGTTATGAGA
* * * **
95386922 GCTAGTGTAAGATCATGCCTGGGACATGGCATTGGCCTCAATATGTAAGGTAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTAAGCCAGTGTAAGACCATG
* *
95386987 TTT-GAGACATGGCATCGACATT
66 TTTGGA-ACATGACATCGGCATT
95387009 TTACCCTTTT
Statistics
Matches: 161, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
95 2 0.01
96 159 0.99
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTAAGCCAGTGTAAGACCATG
TTTGGAACATGACATCGGCATTGTTATGAGA
Found at i:95388155 original size:27 final size:27
Alignment explanation
Indices: 95388101--95388178 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
95388091 AAGGTTTAGT
95388101 ACACGGGCGTGTCATGGCCGTGTGAGGG
1 ACACGGGCGTGTCAT-GCCGTGTGAGGG
*
95388129 ACACGTGCGTGTCATGCCGTGTGAGGG
1 ACACGGGCGTGTCATGCCGTGTGAGGG
*
95388156 ACACGGGCGTGTCATGCCATGTG
1 ACACGGGCGTGTCATGCCGTGTG
95388179 TGCCAGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
27 33 0.70
28 14 0.30
ACGTcount: A:0.15, C:0.23, G:0.41, T:0.21
Consensus pattern (27 bp):
ACACGGGCGTGTCATGCCGTGTGAGGG
Found at i:95390775 original size:40 final size:40
Alignment explanation
Indices: 95390713--95390936 Score: 274
Period size: 40 Copynumber: 5.5 Consensus size: 40
95390703 TATTCGGATG
* *
95390713 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGAAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGATAGTGACT
* *
95390753 ATATTCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGT--GA-TAG-TGACT
* *
95390796 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGATAGTGACT
** *
95390836 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGATAGTGACT
* *
95390876 ATATCCGGGCTAAGACCCGAAGGCATTTGTGTTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGATAG-TGACT
*
95390916 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
95390937 ATACTTGGGT
Statistics
Matches: 161, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 15 0.09
40 109 0.68
41 3 0.02
42 2 0.01
43 31 0.19
44 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGATAGTGACT
Found at i:95390858 original size:83 final size:80
Alignment explanation
Indices: 95390717--95390936 Score: 275
Period size: 83 Copynumber: 2.7 Consensus size: 80
95390707 CGGATGATAT
* * * * **
95390717 CCGGGCTAAGTCCCGAAGGCATTTGTGAAAGTTACTATATTCGGGCTAAGTCCTGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGATAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
95390782 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
95390800 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGATAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
95390865 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
95390880 CCGGGCTAAGACCCGAAGGCATTTGTGTTAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGATAG-TGACTATATCCGGGCTAAGTCCCGAAG
95390937 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
79 16 0.13
80 45 0.36
81 2 0.02
83 61 0.49
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGATAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:95392724 original size:4 final size:4
Alignment explanation
Indices: 95392715--95392768 Score: 108
Period size: 4 Copynumber: 13.5 Consensus size: 4
95392705 TTAGAAAAGA
95392715 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
95392763 AAAT AA
1 AAAT AA
95392769 GAAGTATGGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:95393116 original size:13 final size:15
Alignment explanation
Indices: 95393100--95393135 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
95393090 TTGAGCCCGT
95393100 AAATATTTAAT-A-A
1 AAATATTTAATGATA
95393113 AAATATTT-ATGATA
1 AAATATTTAATGATA
95393127 AAATATTTA
1 AAATATTTA
95393136 TGGATTGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.10
13 9 0.45
14 9 0.45
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
AAATATTTAATGATA
Found at i:95393131 original size:14 final size:15
Alignment explanation
Indices: 95393100--95393137 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
95393090 TTGAGCCCGT
95393100 AAATATTTA--ATAA
1 AAATATTTATGATAA
95393113 AAATATTTATGAT-A
1 AAATATTTATGATAA
95393127 AAATATTTATG
1 AAATATTTATG
95393138 GATTGATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 9 0.39
14 12 0.52
15 2 0.09
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (15 bp):
AAATATTTATGATAA
Found at i:95395128 original size:13 final size:14
Alignment explanation
Indices: 95395097--95395129 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
95395087 TGTATGCTAA
95395097 TTACTCGGTAAGTT
1 TTACTCGGTAAGTT
95395111 TTACTCGGTAAG-T
1 TTACTCGGTAAGTT
95395124 TTACTC
1 TTACTC
95395130 TTCGGTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.42
Consensus pattern (14 bp):
TTACTCGGTAAGTT
Found at i:95400864 original size:27 final size:27
Alignment explanation
Indices: 95400826--95400883 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
95400816 GACCTATGGA
95400826 GAAGAACCAGTTAAGATATTGGCTCGT
1 GAAGAACCAGTTAAGATATTGGCTCGT
95400853 GAAGAACCAGTTAAGATATTGGCTCGT
1 GAAGAACCAGTTAAGATATTGGCTCGT
95400880 GAAG
1 GAAG
95400884 TTAAACAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (27 bp):
GAAGAACCAGTTAAGATATTGGCTCGT
Found at i:95404032 original size:13 final size:13
Alignment explanation
Indices: 95404014--95404039 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95404004 TAATAATTAT
95404014 AATAAAAGGTTAA
1 AATAAAAGGTTAA
95404027 AATAAAAGGTTAA
1 AATAAAAGGTTAA
95404040 TAATTAATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (13 bp):
AATAAAAGGTTAA
Found at i:95404781 original size:14 final size:14
Alignment explanation
Indices: 95404762--95404789 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
95404752 CTGATTCAAC
95404762 AAAACATTTCATTA
1 AAAACATTTCATTA
95404776 AAAACATTTCATTA
1 AAAACATTTCATTA
95404790 TTCTAACCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (14 bp):
AAAACATTTCATTA
Found at i:95407445 original size:22 final size:22
Alignment explanation
Indices: 95407401--95407445 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
95407391 TTAATCATTA
* **
95407401 TTATTCAGTATCAGTCATTTAT
1 TTATTCAGTAACAGTCAAATAT
95407423 TTATTCAGTAACAGTCAAATAT
1 TTATTCAGTAACAGTCAAATAT
95407445 T
1 T
95407446 CAGTAGCAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (22 bp):
TTATTCAGTAACAGTCAAATAT
Found at i:95407863 original size:28 final size:27
Alignment explanation
Indices: 95407832--95407892 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
95407822 TTACTACATT
*
95407832 TTTCCATATCAATCTACA-TGCAATTCA
1 TTTCCATA-CAATATACATTGCAATTCA
* *
95407859 CTTTCAATACAATATACATTTCAATTCA
1 -TTTCCATACAATATACATTGCAATTCA
95407887 TTTCCA
1 TTTCCA
95407893 ATAATCACAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 13 0.46
28 15 0.54
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (27 bp):
TTTCCATACAATATACATTGCAATTCA
Found at i:95408825 original size:22 final size:23
Alignment explanation
Indices: 95408787--95408834 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
95408777 TAAAAATCTT
*
95408787 ATAATATAATATAATAA-CAATA
1 ATAATATAATATAATAATAAATA
*
95408809 ATAATATACT-TATATAATAAATA
1 ATAATATAATATA-ATAATAAATA
95408832 ATA
1 ATA
95408835 CTTTTATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 13 0.59
23 7 0.32
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
ATAATATAATATAATAATAAATA
Found at i:95423907 original size:20 final size:20
Alignment explanation
Indices: 95423860--95423908 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
95423850 ACATTTGCAC
*
95423860 ATATGACCAAAGCATCATAA
1 ATATGACCAAAACATCATAA
*
95423880 ACAT-ACCAAAACAT-ATATA
1 ATATGACCAAAACATCATA-A
95423899 ATATGACCAA
1 ATATGACCAA
95423909 TTCAAATTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.12
19 13 0.54
20 8 0.33
ACGTcount: A:0.53, C:0.20, G:0.06, T:0.20
Consensus pattern (20 bp):
ATATGACCAAAACATCATAA
Found at i:95426251 original size:37 final size:37
Alignment explanation
Indices: 95426208--95426282 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
95426198 ATTCATCAAT
*
95426208 GACAACATTCAAAATCTTTAACTATTTCAACAATGAA
1 GACAACATTCAAAATCTTTAACTATTTCAACAACGAA
*
95426245 GACAACATTCAAAGTCTTTAACTATTTCAACAACGAA
1 GACAACATTCAAAATCTTTAACTATTTCAACAACGAA
95426282 G
1 G
95426283 GTACGAACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (37 bp):
GACAACATTCAAAATCTTTAACTATTTCAACAACGAA
Found at i:95431954 original size:14 final size:14
Alignment explanation
Indices: 95431935--95431962 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
95431925 TATGGTAGGT
95431935 CATGCATATTGAGA
1 CATGCATATTGAGA
95431949 CATGCATATTGAGA
1 CATGCATATTGAGA
95431963 TGTTTATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (14 bp):
CATGCATATTGAGA
Found at i:95445907 original size:22 final size:20
Alignment explanation
Indices: 95445878--95445938 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
95445868 GTCTCTCTAA
95445878 AAAAAATTATAAAAAGAAATC
1 AAAAAATTATAAAAA-AAATC
* *
95445899 AAAATAATT-TTAAAAAATTC
1 AAAA-AATTATAAAAAAAATC
95445919 AAAAAATTTATAAAAAAAAT
1 AAAAAA-TTATAAAAAAAAT
95445939 TCCAAATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 2 0.06
20 10 0.30
21 17 0.52
22 4 0.12
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAAAATTATAAAAAAAATC
Found at i:95445920 original size:20 final size:20
Alignment explanation
Indices: 95445877--95445935 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
95445867 AGTCTCTCTA
* *
95445877 AAAAAAATTATAAAAAGAAATC
1 AAAAAATTTAT-AAAA-AATTC
95445899 AAAATAATTT-TAAAAAATTC
1 AAAA-AATTTATAAAAAATTC
95445919 AAAAAATTTATAAAAAA
1 AAAAAATTTATAAAAAA
95445936 AATTCCAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 5 0.15
20 15 0.45
21 4 0.12
22 5 0.15
23 4 0.12
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.25
Consensus pattern (20 bp):
AAAAAATTTATAAAAAATTC
Found at i:95445953 original size:22 final size:22
Alignment explanation
Indices: 95445877--95445940 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
95445867 AGTCTCTCTA
*
95445877 AAAAAAATTATAAAAAGAAA-TC
1 AAAAAATTTATAAAAA-AAATTC
95445899 AAAATAATTT-T--AAAAAATTC
1 AAAA-AATTTATAAAAAAAATTC
95445919 AAAAAATTTATAAAAAAAATTC
1 AAAAAATTTATAAAAAAAATTC
95445941 CAAATTTTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
19 8 0.22
20 10 0.28
22 14 0.39
23 4 0.11
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.27
Consensus pattern (22 bp):
AAAAAATTTATAAAAAAAATTC
Done.