Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 279 of 343
Found at i:92594954 original size:48 final size:46
Alignment explanation
Indices: 92594807--92594962 Score: 154
Period size: 48 Copynumber: 3.3 Consensus size: 46
92594797 GCCATATTCC
* * * *
92594807 AGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCAATACATGTCCT
1 AGACATGTCTTACACTAGC-T-TATATCTCGAAGCCAATGCATGTCCT
** ** *
92594855 AGACATGTCTTACACTAGCTCT-CGTCTC-AATGCTGATGCATGTCCC
1 AGACATGTCTTACACTAGCT-TATATCTCGAA-GCCAATGCATGTCCT
*
92594901 AGACATGTCTTACACTGGCTTAAATATCTCGAAGCCAATGCATGTCCT
1 AGACATGTCTTACACTAGCTT--ATATCTCGAAGCCAATGCATGTCCT
92594949 AGACATGTCTTACA
1 AGACATGTCTTACA
92594963 TTGGCTCTCA
Statistics
Matches: 87, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
45 2 0.02
46 33 0.38
47 2 0.02
48 48 0.55
49 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (46 bp):
AGACATGTCTTACACTAGCTTATATCTCGAAGCCAATGCATGTCCT
Found at i:92600166 original size:43 final size:43
Alignment explanation
Indices: 92600083--92600169 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
92600073 GGAAGGGGAG
92600083 TAAGCTATAAAGCTTAGTAAGTTCATATGAAAATAATAAGTAA
1 TAAGCTATAAAGCTTAGTAAGTTCATATGAAAATAATAAGTAA
92600126 TAAGCTATAAAGCTTAGTAAGTTCATATGAAAATAATAAGTAA
1 TAAGCTATAAAGCTTAGTAAGTTCATATGAAAATAATAAGTAA
92600169 T
1 T
92600170 TTATTAACTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (43 bp):
TAAGCTATAAAGCTTAGTAAGTTCATATGAAAATAATAAGTAA
Found at i:92608581 original size:49 final size:48
Alignment explanation
Indices: 92608501--92608630 Score: 170
Period size: 49 Copynumber: 2.6 Consensus size: 48
92608491 GGTTCATATG
* * *
92608501 CCGACGCCATGTCCCAGACATGGTCTTACACTGGCTTTTATATAGCGAGA
1 CCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATATAGCG-GA
* * * *
92608551 CCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCATCTATCGGT
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCGGA
92608599 CTCGATGCCATGTCCCAGACAGGTCTTACACT
1 C-CGATGCCATGTCCCAGACAGGTCTTACACT
92608631 AACGCAGCAC
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
48 2 0.03
49 51 0.72
50 18 0.25
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCGGA
Found at i:92608722 original size:92 final size:94
Alignment explanation
Indices: 92608607--92608816 Score: 230
Period size: 94 Copynumber: 2.3 Consensus size: 94
92608597 GTCTCGATGC
* * * **
92608607 CATGTCCCAGACAGGTCTTACACTAACGC-AG-CACAA-GTTGATGCCATATTCCAGACAGGTCT
1 CATGTCCTAGACATGTCTTACACTAACGCTAGTCACAATGCTGATGCC-TAGCCCAGACAGGTCT
** *
92608669 TACACT-AGCTTGTATATCGTGAGGTCAATG
65 TACACTGA-CTTAAATATCGTGAGGCCAATG
* * * * * *
92608699 CATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAATGCTGATGCCTGGCCCAGACATGTCTT
1 CATGTCCTAGACATGTCTTACACTAACGCTAGTCACAATGCTGATGCCTAGCCCAGACAGGTCTT
* *
92608764 ACACTGACTTAAATATCTTGAGGCCGATG
66 ACACTGACTTAAATATCGTGAGGCCAATG
92608793 CATGTCCTAGACATGTCTTACACT
1 CATGTCCTAGACATGTCTTACACT
92608817 GGCTCTCATG
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
92 25 0.26
93 1 0.01
94 63 0.64
95 9 0.09
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (94 bp):
CATGTCCTAGACATGTCTTACACTAACGCTAGTCACAATGCTGATGCCTAGCCCAGACAGGTCTT
ACACTGACTTAAATATCGTGAGGCCAATG
Found at i:92608851 original size:94 final size:93
Alignment explanation
Indices: 92608659--92608865 Score: 238
Period size: 94 Copynumber: 2.2 Consensus size: 93
92608649 GCCATATTCC
* ** *
92608659 AGACAGGTCTTACACTAGCTTGTATATCGTGAGGTCAATGCATGTCCTAGACATGTCTTACACTA
1 AGACATGTCTTACACTAGCTTAAATATCGTGAGGCCAATGCATGTCCTAGACATGTCTTACACTA
* * * *
92608724 GCTCTCGTCTCAATGCTGATGCCTGGCCC
66 GCTCTCATCT-AATGCTAATGCATGGCCA
* *
92608753 AGACATGTCTTACACT-GACTTAAATATCTTGAGGCCGATGCATGTCCTAGACATGTCTTACACT
1 AGACATGTCTTACACTAG-CTTAAATATCGTGAGGCCAATGCATGTCCTAGACATGTCTTACACT
* * *
92608817 GGCTCTCATGCT-GTGGCTAATGCATGTCCA
65 AGCTCTCAT-CTAAT-GCTAATGCATGGCCA
*
92608847 AGACATTTCTTACACTAGC
1 AGACATGTCTTACACTAGC
92608866 ACACATATCA
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
93 2 0.02
94 90 0.95
95 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (93 bp):
AGACATGTCTTACACTAGCTTAAATATCGTGAGGCCAATGCATGTCCTAGACATGTCTTACACTA
GCTCTCATCTAATGCTAATGCATGGCCA
Found at i:92612161 original size:33 final size:33
Alignment explanation
Indices: 92612124--92612205 Score: 146
Period size: 33 Copynumber: 2.5 Consensus size: 33
92612114 TGCTTGAAAC
*
92612124 ACATACCAAATCATATCATTCCATAAGCAAAAA
1 ACATACCAAATTATATCATTCCATAAGCAAAAA
*
92612157 ACATACCAAATTATATCATTCCATAAGCCAAAA
1 ACATACCAAATTATATCATTCCATAAGCAAAAA
92612190 ACATACCAAATTATAT
1 ACATACCAAATTATAT
92612206 GATTTATAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.50, C:0.23, G:0.02, T:0.24
Consensus pattern (33 bp):
ACATACCAAATTATATCATTCCATAAGCAAAAA
Found at i:92613063 original size:42 final size:42
Alignment explanation
Indices: 92612955--92613112 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 42
92612945 AGCTCGTACA
***
92612955 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAATA-CG
** *
92612998 ATGCCATTGT-CCAGACAGGGGTCTTACACAAAATCAAATACG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACAAAATCAAATACG
* *
92613040 ATGCCAACATCCCAGACGTGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACGTGGTCTTACAC-AAAATCA-AA-TACG
* * *
92613084 ATGCCAATGTCACAGATGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
92613113 GATAACATAT
Statistics
Matches: 95, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
42 26 0.27
43 39 0.41
44 29 0.31
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAATACG
Found at i:92620617 original size:20 final size:22
Alignment explanation
Indices: 92620592--92620633 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
92620582 TTATTTTCAC
92620592 TATTTTA-AATATAA-AAATTT
1 TATTTTATAATATAATAAATTT
*
92620612 TATTTTATATTATAATAAATTT
1 TATTTTATAATATAATAAATTT
92620634 AAATTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 6 0.32
22 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTTTATAATATAATAAATTT
Found at i:92621720 original size:52 final size:52
Alignment explanation
Indices: 92621642--92621747 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
92621632 CTTCCACATG
92621642 ATAGTTAAACCACCATATTTTTAACATAGTCAACAACAAAGCAACCACTCAT
1 ATAGTTAAACCACCATATTTTTAACATAGTCAACAACAAAGCAACCACTCAT
92621694 ATAGTTAAACCACCATATTTTTAACATAGTCAACAACAAAGCAACCACTCAT
1 ATAGTTAAACCACCATATTTTTAACATAGTCAACAACAAAGCAACCACTCAT
92621746 AT
1 AT
92621748 CACATTACCT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (52 bp):
ATAGTTAAACCACCATATTTTTAACATAGTCAACAACAAAGCAACCACTCAT
Found at i:92625302 original size:14 final size:14
Alignment explanation
Indices: 92625285--92625323 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
92625275 GGGGATGGTA
92625285 GTGGGGGAGGTCCG
1 GTGGGGGAGGTCCG
*
92625299 GTGGGGGTGGTCCG
1 GTGGGGGAGGTCCG
92625313 GTGGGGGAGGT
1 GTGGGGGAGGT
92625324 TATTTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.05, C:0.10, G:0.67, T:0.18
Consensus pattern (14 bp):
GTGGGGGAGGTCCG
Found at i:92633533 original size:10 final size:10
Alignment explanation
Indices: 92633518--92633557 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
92633508 CCCACTATTT
92633518 TATTATATAA
1 TATTATATAA
92633528 TATTATATAA
1 TATTATATAA
92633538 TATTATAT--
1 TATTATATAA
92633546 TA-TATATAA
1 TATTATATAA
92633555 TAT
1 TAT
92633558 GGGGAGGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
7 5 0.19
8 2 0.07
9 2 0.07
10 18 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TATTATATAA
Found at i:92633540 original size:15 final size:15
Alignment explanation
Indices: 92633522--92633551 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
92633512 CTATTTTATT
92633522 ATATAATATTATATA
1 ATATAATATTATATA
*
92633537 ATATTATATTATATA
1 ATATAATATTATATA
92633552 TAATATGGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATAATATTATATA
Found at i:92635906 original size:21 final size:21
Alignment explanation
Indices: 92635880--92635952 Score: 92
Period size: 21 Copynumber: 3.4 Consensus size: 21
92635870 AGACACATAA
92635880 GTGCCTGAAATGACACACGAG
1 GTGCCTGAAATGACACACGAG
* *
92635901 GTGCCTGATACGACACACGAG
1 GTGCCTGAAATGACACACGAG
* *
92635922 GTGCCTCAAATACGACACACAAG
1 GTGCCTGAAAT--GACACACGAG
92635945 GTGCCTGA
1 GTGCCTGA
92635953 TCGGCAAAGC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 27 0.63
23 16 0.37
ACGTcount: A:0.32, C:0.27, G:0.26, T:0.15
Consensus pattern (21 bp):
GTGCCTGAAATGACACACGAG
Found at i:92635934 original size:23 final size:21
Alignment explanation
Indices: 92635891--92635950 Score: 84
Period size: 23 Copynumber: 2.8 Consensus size: 21
92635881 TGCCTGAAAT
*
92635891 GACACACGAGGTGCCTGATAC
1 GACACACGAGGTGCCTAATAC
92635912 GACACACGAGGTGCCTCAAATAC
1 GACACACGAGGTGCCT--AATAC
*
92635935 GACACACAAGGTGCCT
1 GACACACGAGGTGCCT
92635951 GATCGGCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 16 0.46
23 19 0.54
ACGTcount: A:0.32, C:0.30, G:0.25, T:0.13
Consensus pattern (21 bp):
GACACACGAGGTGCCTAATAC
Found at i:92636932 original size:7 final size:7
Alignment explanation
Indices: 92636912--92636950 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
92636902 ATTTTTATTA
92636912 ATATAAT
1 ATATAAT
92636919 AATATAAT
1 -ATATAAT
92636927 ATATAAT
1 ATATAAT
92636934 ATATAAT
1 ATATAAT
92636941 ATATAA-
1 ATATAAT
92636947 ATAT
1 ATAT
92636951 CTTTACTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 4 0.13
7 20 0.65
8 7 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATATAAT
Found at i:92637099 original size:16 final size:16
Alignment explanation
Indices: 92637078--92637119 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
92637068 AATCTCATAA
92637078 TATAATTAATATAAAT
1 TATAATTAATATAAAT
*
92637094 TATAATTTA-ATAAAT
1 TATAATTAATATAAAT
92637109 TAATAA-TAATA
1 T-ATAATTAATA
92637120 ATACACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATAATTAATATAAAT
Found at i:92637458 original size:23 final size:23
Alignment explanation
Indices: 92637432--92637488 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
92637422 TTATTTCCTA
92637432 TAATATAATATATTAA-CTTTAAT
1 TAATATAATATA-TAAGCTTTAAT
* *
92637455 TAATATAATTTATAATGTTTTAAT
1 TAATATAATATATAA-GCTTTAAT
92637479 TAA-ATAATAT
1 TAATATAATAT
92637489 TTTTATAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 3 0.10
23 17 0.59
24 9 0.31
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
TAATATAATATATAAGCTTTAAT
Found at i:92647503 original size:6 final size:6
Alignment explanation
Indices: 92647492--92647545 Score: 72
Period size: 6 Copynumber: 8.8 Consensus size: 6
92647482 TAACAAGAAG
* * *
92647492 AATAAA AATAAA AATAAA AGATAAA AATAAA CATAAA CATAAA CATAAA
1 AATAAA AATAAA AATAAA A-ATAAA AATAAA AATAAA AATAAA AATAAA
92647541 AATAA
1 AATAA
92647546 TTGGACTCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
6 39 0.87
7 6 0.13
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:92650167 original size:196 final size:196
Alignment explanation
Indices: 92649744--92650167 Score: 508
Period size: 196 Copynumber: 2.2 Consensus size: 196
92649734 TCATCATACA
* * * * *
92649744 GCCTAGGACACGCCTGTGTGTCCAGGCCGTGTAGTTCACACAACCTTATCCCACGGCTGTGTGCT
1 GCCTAGGACACACCCGTGTGTCCAGGCTGTGTAGTTCACACAACCGTATCCCACGGCCGTGTGCT
* ** * * * * * * *
92649809 ATGTTGTTCGCTTCTCCCATACCCGTGTGGTCTCTCATACGCCCGTATGTCTGAACACACGGCCA
66 ACGTCATTCGCTTCTCCCATACCCATGTGGTATCCCACACACCCGTATATCAGAACACACGGCCA
* * * * * * *
92649874 TGTGCTTCGCCCGTGGAGCTCTCTGACTTGTTTAAAATTTGAAAATTAATCTTCAGTTTTCACAT
131 TGTACCTCACACGTGGAGCTCTCTGACTTGTTTAAAATTTAAAAATTAAGCTCCAGTTTTCACAT
92649939 G
196 G
* * * ** *
92649940 GCCTAGGACACCCCCGTGTGTCTAGGCTGTGTAGTTTACACGGCCGTATCGCACGGCCGTGTGCT
1 GCCTAGGACACACCCGTGTGTCCAGGCTGTGTAGTTCACACAACCGTATCCCACGGCCGTGTGCT
* * * *
92650005 ACGTCATTCGCTTCTCCCATGCCCATGTGGTATCCCACATACCCGTGTATCAGAACACACGGCCG
66 ACGTCATTCGCTTCTCCCATACCCATGTGGTATCCCACACACCCGTATATCAGAACACACGGCCA
* * *
92650070 TGTACCTCACATGTGGAGCTCTCTGACTTGTTTTAAATTTAAAAATTTAGCTCCAGTTTTCACAT
131 TGTACCTCACACGTGGAGCTCTCTGACTTGTTTAAAATTTAAAAATTAAGCTCCAGTTTTCACAT
92650135 G
196 G
*
92650136 GCCTAGGACACACCCGTGTCG-CCAAGCTGTGT
1 GCCTAGGACACACCCGTGT-GTCCAGGCTGTGT
92650168 TCTCTATACG
Statistics
Matches: 190, Mismatches: 37, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
196 189 0.99
197 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (196 bp):
GCCTAGGACACACCCGTGTGTCCAGGCTGTGTAGTTCACACAACCGTATCCCACGGCCGTGTGCT
ACGTCATTCGCTTCTCCCATACCCATGTGGTATCCCACACACCCGTATATCAGAACACACGGCCA
TGTACCTCACACGTGGAGCTCTCTGACTTGTTTAAAATTTAAAAATTAAGCTCCAGTTTTCACAT
G
Found at i:92657308 original size:31 final size:31
Alignment explanation
Indices: 92657273--92657337 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
92657263 TTCACTAAAT
92657273 TATATGATAAACCATCCAAAAATATGCTAAG
1 TATATGATAAACCATCCAAAAATATGCTAAG
92657304 TATATGATAAACCATCCAAAAATATGCTAAG
1 TATATGATAAACCATCCAAAAATATGCTAAG
92657335 TAT
1 TAT
92657338 GGGATTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (31 bp):
TATATGATAAACCATCCAAAAATATGCTAAG
Found at i:92658991 original size:18 final size:18
Alignment explanation
Indices: 92658968--92659003 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
92658958 CTGGAAAGTA
92658968 AACTTACCGGTTAATTAG
1 AACTTACCGGTTAATTAG
92658986 AACTTACCGGTTAATTAG
1 AACTTACCGGTTAATTAG
92659004 CATACAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (18 bp):
AACTTACCGGTTAATTAG
Found at i:92670429 original size:19 final size:19
Alignment explanation
Indices: 92670371--92670431 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
92670361 CAAATATCAT
92670371 TATTTACTAAAAAT-A-AA
1 TATTTACTAAAAATAATAA
* * *
92670388 TATTACACATAAAAA-AGTTA
1 TATT-TAC-TAAAAATAATAA
92670408 TATTTACTAAAAATAATAA
1 TATTTACTAAAAATAATAA
92670427 TATTT
1 TATTT
92670432 GACAATAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 4 0.12
18 8 0.24
19 16 0.48
20 5 0.15
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.38
Consensus pattern (19 bp):
TATTTACTAAAAATAATAA
Found at i:92670471 original size:20 final size:18
Alignment explanation
Indices: 92670439--92670477 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
92670429 TTTGACAATA
92670439 ATTATTTGATTTATCAAAT
1 ATTATTTGATTTAT-AAAT
92670458 ATTATTTGATTTTATAAAT
1 ATTATTTGA-TTTATAAAT
92670477 A
1 A
92670478 AAAGAGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (18 bp):
ATTATTTGATTTATAAAT
Found at i:92671840 original size:18 final size:18
Alignment explanation
Indices: 92671819--92671863 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
92671809 TCGTGTGGGT
* *
92671819 CACATGGGCTTGTAGATC
1 CACACGGGCTTGTAGACC
92671837 CACACGGGCTTGTAGACC
1 CACACGGGCTTGTAGACC
92671855 CACACGGGC
1 CACACGGGC
92671864 AGACCATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.22, C:0.31, G:0.29, T:0.18
Consensus pattern (18 bp):
CACACGGGCTTGTAGACC
Found at i:92682541 original size:78 final size:79
Alignment explanation
Indices: 92682446--92682600 Score: 249
Period size: 78 Copynumber: 2.0 Consensus size: 79
92682436 GCTGATACAT
* * * *
92682446 CTCTATGTTACTCTGTTGATGAATAATATGCAATATCTAAATATGTTGGATTGATGGTTACTGAT
1 CTCTACGTTACTCTGTTGATGAAGAATATACAATATCTAAATATGTTAGATTGATGGTTACTGAT
92682511 T-TGATTTATAACC
66 TCTGATTTATAACC
* *
92682524 CTCTACGTTACTCTGTTGATGAAGAATATACGATATCTAAATATGTTAGATTGATTGTTACTGAT
1 CTCTACGTTACTCTGTTGATGAAGAATATACAATATCTAAATATGTTAGATTGATGGTTACTGAT
92682589 TCTGATTTATAA
66 TCTGATTTATAA
92682601 TCGTGCATGT
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 60 0.86
79 10 0.14
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (79 bp):
CTCTACGTTACTCTGTTGATGAAGAATATACAATATCTAAATATGTTAGATTGATGGTTACTGAT
TCTGATTTATAACC
Found at i:92684499 original size:39 final size:41
Alignment explanation
Indices: 92684452--92684542 Score: 105
Period size: 41 Copynumber: 2.3 Consensus size: 41
92684442 TTGTTCTGTG
92684452 TATTAGTAATA-CTA-ATACATTATAATATATTATATTATA
1 TATTAGTAATAGCTATATACATTATAATATATTATATTATA
* * * ** * *
92684491 TATTAGTAATAGTTATTTATATTATTTTATTTTATTTTATA
1 TATTAGTAATAGCTATATACATTATAATATATTATATTATA
92684532 TATTAGTAATA
1 TATTAGTAATA
92684543 TATTAATTCA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 11 0.26
40 2 0.05
41 30 0.70
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (41 bp):
TATTAGTAATAGCTATATACATTATAATATATTATATTATA
Found at i:92685302 original size:32 final size:31
Alignment explanation
Indices: 92685266--92685388 Score: 110
Period size: 32 Copynumber: 3.9 Consensus size: 31
92685256 GGTCAAAAGA
92685266 ATTTTTTACCAACTTTTAAGGGACCCAAAAAT
1 ATTTTTT-CCAACTTTTAAGGGACCCAAAAAT
* *
92685298 ATTTTTT-TAGCTTTTAAGGG-CTCC-AAAAT
1 ATTTTTTCCAACTTTTAAGGGAC-CCAAAAAT
* * *
92685327 TTTTTTTACCAACTTTTAAGGTACCTAAAAAT
1 ATTTTTT-CCAACTTTTAAGGGACCCAAAAAT
* *
92685359 -TTTTTTCTCTAACTTTTAAGGAACCTAAAA
1 ATTTTTTC-C-AACTTTTAAGGGACCCAAAA
92685389 CCTCGTGTTA
Statistics
Matches: 76, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
29 12 0.16
30 14 0.18
31 18 0.24
32 32 0.42
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.41
Consensus pattern (31 bp):
ATTTTTTCCAACTTTTAAGGGACCCAAAAAT
Found at i:92688091 original size:24 final size:26
Alignment explanation
Indices: 92688064--92688113 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
92688054 GCGAGATTTC
92688064 TTTCTT-GTGATTTT-TAAAAGTAGT
1 TTTCTTCGTGATTTTCTAAAAGTAGT
* *
92688088 TTTCTTCTTGATTTTCTACAAGTAGT
1 TTTCTTCGTGATTTTCTAAAAGTAGT
92688114 CGTGGGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 6 0.27
25 7 0.32
26 9 0.41
ACGTcount: A:0.22, C:0.10, G:0.14, T:0.54
Consensus pattern (26 bp):
TTTCTTCGTGATTTTCTAAAAGTAGT
Found at i:92690856 original size:21 final size:21
Alignment explanation
Indices: 92690832--92690923 Score: 148
Period size: 21 Copynumber: 4.4 Consensus size: 21
92690822 GACACATAAA
* *
92690832 GTGCCTAAAACGACACACGAG
1 GTGCCTGATACGACACACGAG
*
92690853 GTGCCTGATACGACACACGAT
1 GTGCCTGATACGACACACGAG
*
92690874 GTGCCTGATATGACACACGAG
1 GTGCCTGATACGACACACGAG
92690895 GTGCCTGATACGACACACGAG
1 GTGCCTGATACGACACACGAG
92690916 GTGCCTGA
1 GTGCCTGA
92690924 AATATGACAC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.16
Consensus pattern (21 bp):
GTGCCTGATACGACACACGAG
Found at i:92690922 original size:42 final size:43
Alignment explanation
Indices: 92690843--92690934 Score: 159
Period size: 42 Copynumber: 2.1 Consensus size: 43
92690833 TGCCTAAAAC
*
92690843 GACACACGAGGTGCCTGATACGACACACGATGTGCCTG-ATAT
1 GACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAATAT
92690885 GACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAAATAT
1 GACACACGAGGTGCCTGATACGACACACGAGGTGCCTG-AATAT
92690929 GACACA
1 GACACA
92690935 TAAAGTGCCT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
42 37 0.79
44 10 0.21
ACGTcount: A:0.32, C:0.26, G:0.26, T:0.16
Consensus pattern (43 bp):
GACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAATAT
Found at i:92690944 original size:44 final size:42
Alignment explanation
Indices: 92690843--92690947 Score: 138
Period size: 42 Copynumber: 2.5 Consensus size: 42
92690833 TGCCTAAAAC
* * *
92690843 GACACACGAGGTGCCTGATACGACACACGATGTGCCTGATAT
1 GACACACAAAGTGCCTGATACGACACACGAGGTGCCTGATAT
* *
92690885 GACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAAATAT
1 GACACACAAAGTGCCTGATACGACACACGAGGTGCCTG--ATAT
*
92690929 GACACATAAAGTGCCTGAT
1 GACACACAAAGTGCCTGAT
92690948 CGATAAAGCC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
42 37 0.65
44 20 0.35
ACGTcount: A:0.31, C:0.25, G:0.26, T:0.18
Consensus pattern (42 bp):
GACACACAAAGTGCCTGATACGACACACGAGGTGCCTGATAT
Found at i:92691344 original size:15 final size:14
Alignment explanation
Indices: 92691320--92691359 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
92691310 TGTATATTAT
92691320 ATAATTCAATCAAA
1 ATAATTCAATCAAA
92691334 ATAATTTCAATCAATA
1 ATAA-TTCAATCAA-A
*
92691350 AAAATTCAAT
1 ATAATTCAAT
92691360 AAATTCATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 15 0.65
16 4 0.17
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATTCAATCAAA
Found at i:92697266 original size:23 final size:21
Alignment explanation
Indices: 92697215--92697288 Score: 121
Period size: 21 Copynumber: 3.4 Consensus size: 21
92697205 CTGATCAGAG
*
92697215 TACGACACACGAGGTGTCTGA
1 TACGACACACGAGGTGCCTGA
92697236 TACGACACACGAGGTGCCTGA
1 TACGACACACGAGGTGCCTGA
92697257 TACGACACACGAGGTGCCTGAAA
1 TACGACACACGAGGTGCCTG--A
92697280 TACGACACA
1 TACGACACA
92697289 TAAAGTGCCT
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
21 40 0.80
23 10 0.20
ACGTcount: A:0.32, C:0.27, G:0.26, T:0.15
Consensus pattern (21 bp):
TACGACACACGAGGTGCCTGA
Found at i:92698586 original size:40 final size:40
Alignment explanation
Indices: 92698501--92698676 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
92698491 AAGCCAAGTA
* * *
92698501 CCTTCGGGATTTAACCC-GATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
92698539 CCTTCGGGACATAGCTCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
92698579 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
92698619 CCTTCAGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
92698659 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
92698677 ATTATCATCC
Statistics
Matches: 121, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
38 14 0.12
39 15 0.12
40 92 0.76
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:92700864 original size:15 final size:14
Alignment explanation
Indices: 92700840--92700879 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
92700830 TGTATATTAT
92700840 ATAATTCAATCAAA
1 ATAATTCAATCAAA
92700854 ATAATTTCAATCAATA
1 ATAA-TTCAATCAA-A
*
92700870 AAAATTCAAT
1 ATAATTCAAT
92700880 AAATTCATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 15 0.65
16 4 0.17
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATTCAATCAAA
Found at i:92707144 original size:41 final size:41
Alignment explanation
Indices: 92707087--92707236 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
92707077 TCGGGGTTTA
92707087 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
92707128 AATCCGAGCTTGGTCTCGAAGGGCTTTTAAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
92707169 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
92707209 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
92707237 TGAGTCAGCG
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 31 0.34
41 61 0.66
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:92709417 original size:20 final size:20
Alignment explanation
Indices: 92709394--92709432 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
92709384 GATATACTAT
92709394 GATTTGA-AATGATATGATTC
1 GATTTGATAA-GATATGATTC
92709414 GATTTGATAAGATATGATT
1 GATTTGATAAGATATGATT
92709433 TGGTATGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.41
Consensus pattern (20 bp):
GATTTGATAAGATATGATTC
Found at i:92723497 original size:13 final size:13
Alignment explanation
Indices: 92723479--92723505 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
92723469 GTTTTCATCC
92723479 GCATAATTATTTT
1 GCATAATTATTTT
92723492 GCATAATTATTTT
1 GCATAATTATTTT
92723505 G
1 G
92723506 AAGTTCGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (13 bp):
GCATAATTATTTT
Found at i:92735326 original size:45 final size:45
Alignment explanation
Indices: 92735257--92735633 Score: 272
Period size: 45 Copynumber: 8.3 Consensus size: 45
92735247 AAATTACAAG
92735257 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGATAGCAAA
* * * * * * *
92735302 TCTTATTTCTCTGAAGTTGTAGTGGAACAGATTGAAGCTATAAACCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-GAT--AGCA-A-A
* * * ** * * * *
92735353 TCTCATCTCTCTAAAGTTGCAGTAAAGTAGA-TCA--ACA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGATAGCAAA
*
92735394 TCTTATCTCCCTGAAGATGCAGTGGAGCAGACTAAGGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGATAGCAAA
* * * *
92735439 TCTTAT-TCCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGA
1 TCTTATCT-CCCTGAAGTTGCAGTGGAGCAGACT-AAG-GAT--AGCA-A-A
* * * * * * *
92735490 TCTCATCTCTCTGAAGTTGCAATAGAGTAGA-TCAA-CAT---AAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGGATAGCAAA
*
92735531 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGATAACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGATAGCAAA
*
92735576 TCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTAAGGATAGC-AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGATAGCAAA
*
92735620 TCTTATTTCCCTGA
1 TCTTATCTCCCTGA
92735634 TAGCAAATCT
Statistics
Matches: 258, Mismatches: 51, Indels: 47
0.72 0.14 0.13
Matches are distributed among these distances:
41 52 0.20
42 7 0.03
43 3 0.01
44 20 0.08
45 101 0.39
46 7 0.03
47 4 0.02
48 2 0.01
49 7 0.03
50 6 0.02
51 48 0.19
52 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGATAGCAAA
Found at i:92735417 original size:137 final size:137
Alignment explanation
Indices: 92735252--92735606 Score: 620
Period size: 137 Copynumber: 2.6 Consensus size: 137
92735242 AGGCTAAATT
*
92735252 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGATAGCAAATCTTATTTCTCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGATAGCAAATCTTATTTCCCTGAA
* *
92735317 GTTGTAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTAAAGTTGCAGTAAAGTA
66 GTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTAAAGTTGCAATAAAGTA
92735382 GATCAAC
131 GATCAAC
* *
92735389 ACAAGTCTTATCTCCCTGAAGATGCAGTGGAGCAGACTAAGGATAGCAAATCTTATTCCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGATAGCAAATCTTATTTCCCTGAA
* *
92735454 GTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTGCAATAGAGTA
66 GTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTAAAGTTGCAATAAAGTA
92735519 GATCAAC
131 GATCAAC
* *
92735526 ATAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGATAACAAATCTTATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGATAGCAAATCTTATTTCCCTGAA
*
92735591 GTTGCAGTGGAGCAGA
66 GTTGCAGTGGAACAGA
92735607 CTAAGGATAG
Statistics
Matches: 206, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
137 206 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (137 bp):
ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGGATAGCAAATCTTATTTCCCTGAA
GTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTAAAGTTGCAATAAAGTA
GATCAAC
Found at i:92735637 original size:20 final size:21
Alignment explanation
Indices: 92735612--92735654 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
92735602 GCAGACTAAG
92735612 GATAGC-AATCTTATTTCCCT
1 GATAGCAAATCTTATTTCCCT
*
92735632 GATAGCAAATCTTATTTCTCT
1 GATAGCAAATCTTATTTCCCT
92735653 GA
1 GA
92735655 AGTTACAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.40
Consensus pattern (21 bp):
GATAGCAAATCTTATTTCCCT
Found at i:92735780 original size:202 final size:202
Alignment explanation
Indices: 92735430--92735803 Score: 667
Period size: 202 Copynumber: 1.9 Consensus size: 202
92735420 GCAGACTAAG
*
92735430 GATAGCAAATCTTATTCCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCA
1 GATAGCAAATCTTATTCCCCTGAAGTTACAGTGGAACAGATTGAAGCTATAAACCACAGATCTCA
* * *
92735495 TCTCTCTGAAGTTGCAATAGAGTAGATCAACATAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA
66 TCTCTCTGAAGTTGCAATAGAGCAGATCAACACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCA
92735560 GACTAAGGATAACAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTAAGGATAGCAATCTTA
131 GACTAAGGATAACAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTAAGGATAGCAATCTTA
92735625 TTTCCCT
196 TTTCCCT
* *
92735632 GATAGCAAATCTTATTTCTCTGAAGTTACAGTGGAACAGATTGAAGCTATAAACCACAGATCTCA
1 GATAGCAAATCTTATTCCCCTGAAGTTACAGTGGAACAGATTGAAGCTATAAACCACAGATCTCA
*
92735697 TCTCTCTGAAGTTGCAGTAGAGCAGATCAACACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCA
66 TCTCTCTGAAGTTGCAATAGAGCAGATCAACACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCA
* *
92735762 GACTAAGGATAGCAAATCTTATTTTCCTGAAGTTGCAGTGGA
131 GACTAAGGATAACAAATCTTATTTCCCTGAAGTTGCAGTGGA
92735804 ACAAATTGAA
Statistics
Matches: 163, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
202 163 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (202 bp):
GATAGCAAATCTTATTCCCCTGAAGTTACAGTGGAACAGATTGAAGCTATAAACCACAGATCTCA
TCTCTCTGAAGTTGCAATAGAGCAGATCAACACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCA
GACTAAGGATAACAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTAAGGATAGCAATCTTA
TTTCCCT
Found at i:92735796 original size:45 final size:45
Alignment explanation
Indices: 92735632--92736079 Score: 170
Period size: 45 Copynumber: 9.8 Consensus size: 45
92735622 TTATTTCCCT
* * *
92735632 GATAGCAAATCTTATTTCTCTGAAGTTACAGTGGAACAGATTGAAG
1 GATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGACT-AAG
* * * * * * * *
92735678 CTATAAACCACAGATCTCATCTCTCTGAAGTTGCAGTAGAGCAGA-TCA-
1 -GAT--AGCA-A-ATCTTATTTCCCTGAAGTTGCAGTGGAACAGACTAAG
* * * * *
92735726 -ACA-CAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAG
1 GATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGACTAAG
* * *
92735769 GATAGCAAATCTTATTTTCCTGAAGTTGCAGTGGAACAAATTGAAG
1 GATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGACT-AAG
* * * * * * * * *
92735815 TTATAAATCACAAATCTCATCTCTCTGAAATTGCAGTAGAACA-AATCA-
1 -GAT--A--GCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGACTAAG
* * * * *
92735863 -ACA-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAA
1 GATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGACTAAG
* *
92735906 GATAGCAAATCTTATTTCCCTGAAGTTGC-GTGGAATAGATTGAAG
1 GATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGACT-AAG
* * * * * *
92735951 CTATAAATCACAGATCTCATCTCTCTGAAGTTGCAGTAGG-GCAGA-TCAA-
1 -GAT--AGCA-A-ATCTTATTTCCCTGAAGTTGCAGT-GGAACAGACT-AAG
* * * * * *
92736000 -A-A-CAAACCCTATCTCCCTAAAGTTGCAGTGGAACAAACTAAA
1 GATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGACTAAG
* *
92736042 AATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACA
1 GATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACA
92736080 AATTGAAGCT
Statistics
Matches: 302, Mismatches: 67, Indels: 66
0.69 0.15 0.15
Matches are distributed among these distances:
40 2 0.01
41 78 0.26
42 8 0.03
43 5 0.02
44 17 0.06
45 84 0.28
46 7 0.02
47 5 0.02
48 3 0.01
49 7 0.02
50 25 0.08
51 59 0.20
52 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (45 bp):
GATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGACTAAG
Found at i:92735917 original size:339 final size:338
Alignment explanation
Indices: 92735293--92735939 Score: 1096
Period size: 339 Copynumber: 1.9 Consensus size: 338
92735283 GCAGACTAAG
**
92735293 GATAGCAAATCTTATTTCTCTGAAGTTGTAGTGGAACAGATTGAAGCTATAAACCACAGATCTCA
1 GATAGCAAATCTTATTTCTCTGAAGTTACAGTGGAACAGATTGAAGCTATAAACCACAGATCTCA
* *
92735358 TCTCTCTAAAGTTGCAGTAAAGTAGATCAACACAAGTCTTATCTCCCTGAAGATGCAGTGGAGCA
66 TCTCTCTAAAGTTGCAGTAAAGCAGATCAACACAAGTCTTATCTCCCTAAAGATGCAGTGGAGCA
*
92735423 GACTAAGGATAGCAAATCTTATTCCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACA
131 GACTAAGGATAGCAAATCTTATTCCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAACCACA
* * ** * *
92735488 GATCTCATCTCTCTGAAGTTGCAATAGAGTAGATCAACATAAGTCTTATCTCCCTGAAGTTGCAG
196 AATCTCATCTCTCTGAAATTGCAATAGAACAAATCAACACAAGTCTTATCTCCCTGAAGTTGCAG
*
92735553 TGGAGCAGACTAAGGATAACAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTAAGGATAGC
261 TGGAGCAGACTAAAGATAACAAATCTTATTTCCCTGAAGTTGC-GTGGAGCAGACTAAGGATAGC
92735618 AATCTTATTTCCCT
325 AATCTTATTTCCCT
92735632 GATAGCAAATCTTATTTCTCTGAAGTTACAGTGGAACAGATTGAAGCTATAAACCACAGATCTCA
1 GATAGCAAATCTTATTTCTCTGAAGTTACAGTGGAACAGATTGAAGCTATAAACCACAGATCTCA
* * *
92735697 TCTCTCTGAAGTTGCAGTAGAGCAGATCAACACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCA
66 TCTCTCTAAAGTTGCAGTAAAGCAGATCAACACAAGTCTTATCTCCCTAAAGATGCAGTGGAGCA
** * *
92735762 GACTAAGGATAGCAAATCTTATTTTCCTGAAGTTGCAGTGGAACAAATTGAAGTTATAAATCACA
131 GACTAAGGATAGCAAATCTTATTCCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAACCACA
*
92735827 AATCTCATCTCTCTGAAATTGCAGTAGAACAAATCAACACAAGTCTTATCTCCCTGAAGTTGCAG
196 AATCTCATCTCTCTGAAATTGCAATAGAACAAATCAACACAAGTCTTATCTCCCTGAAGTTGCAG
*
92735892 TGGAGCAGACTAAAGATAGCAAATCTTATTTCCCTGAAGTTGCGTGGA
261 TGGAGCAGACTAAAGATAACAAATCTTATTTCCCTGAAGTTGCGTGGA
92735940 ATAGATTGAA
Statistics
Matches: 287, Mismatches: 21, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
338 5 0.02
339 282 0.98
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (338 bp):
GATAGCAAATCTTATTTCTCTGAAGTTACAGTGGAACAGATTGAAGCTATAAACCACAGATCTCA
TCTCTCTAAAGTTGCAGTAAAGCAGATCAACACAAGTCTTATCTCCCTAAAGATGCAGTGGAGCA
GACTAAGGATAGCAAATCTTATTCCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAACCACA
AATCTCATCTCTCTGAAATTGCAATAGAACAAATCAACACAAGTCTTATCTCCCTGAAGTTGCAG
TGGAGCAGACTAAAGATAACAAATCTTATTTCCCTGAAGTTGCGTGGAGCAGACTAAGGATAGCA
ATCTTATTTCCCT
Found at i:92736023 original size:136 final size:137
Alignment explanation
Indices: 92735632--92736169 Score: 772
Period size: 137 Copynumber: 3.9 Consensus size: 137
92735622 TTATTTCCCT
* * * *
92735632 GATAGCAAATCTTATTTCTCTGAAGTTACAGTGGAACAGATTGAAGCTATAAACCACAGATCTCA
1 GATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATCACAGATCTCA
* ** *
92735697 TCTCTCTGAAGTTGCAGTAGAGCAGATCAACACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCA
66 TCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCCTATCTCCCTAAAGTTGCAGTGGAGCA
*
92735762 GACTAAG
131 GACTAAA
* * *
92735769 GATAGCAAATCTTATTTTCCTGAAGTTGCAGTGGAACAAATTGAAGTTATAAATCACAAATCTCA
1 GATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATCACAGATCTCA
* * * * ** * *
92735834 TCTCTCTGAAATTGCAGTAGAACAAATCAACACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA
66 TCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCCTATCTCCCTAAAGTTGCAGTGGAGCA
92735899 GACTAAA
131 GACTAAA
* *
92735906 GATAGCAAATCTTATTTCCCTGAAGTTGC-GTGGAATAGATTGAAGCTATAAATCACAGATCTCA
1 GATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATCACAGATCTCA
* *
92735970 TCTCTCTGAAGTTGCAGTAGGGCAGATCAAAACAAACCCTATCTCCCTAAAGTTGCAGTGGAACA
66 TCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCCTATCTCCCTAAAGTTGCAGTGGAGCA
*
92736035 AACTAAA
131 GACTAAA
* *
92736042 AATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAAATTGAAGCTATAAATCACAGATCTCA
1 GATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATCACAGATCTCA
* * * * * *
92736107 TCTCTCTTAAGTCGCAATAGAGCAGATCAAAACAAACCCCATCTCCCTGAAGTTACAGTGGAG
66 TCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCCTATCTCCCTAAAGTTGCAGTGGAG
92736170 TGGATCACAG
Statistics
Matches: 360, Mismatches: 40, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
136 119 0.33
137 241 0.67
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (137 bp):
GATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATCACAGATCTCA
TCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCCTATCTCCCTAAAGTTGCAGTGGAGCA
GACTAAA
Found at i:92736156 original size:273 final size:274
Alignment explanation
Indices: 92735632--92736169 Score: 808
Period size: 273 Copynumber: 2.0 Consensus size: 274
92735622 TTATTTCCCT
*
92735632 GATAGCAAATCTTATTTCTCTGAAGTTACAGTGGAACAGATTGAAGCTATAAACCACAGATCTCA
1 GATAGCAAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTGAAGCTATAAACCACAGATCTCA
* ** * *
92735697 TCTCTCTGAAGTTGCAGTAGAGCAGATCAACACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCA
66 TCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCCTATCTCCCTAAAGTTGCAGTGGAACA
* ** * * *
92735762 GACTAAGGATAGCAAATCTTATTTTCCTGAAGTTGCAGTGGAACAAATTGAAGTTATAAATCACA
131 AACTAAAAATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAAATTGAAGCTATAAATCACA
* * * ** ** *
92735827 AATCTCATCTCTCTGAAATTGCAGTAGAACAAATCAACACAAGTCTTATCTCCCTGAAGTTGCAG
196 AATCTCATCTCTCTGAAATCGCAATAGAACAAATCAAAACAAACCCCATCTCCCTGAAGTTACAG
92735892 TGGAGCAGACTAAA
261 TGGAGCAGACTAAA
* * *
92735906 GATAGCAAATCTTATTTCCCTGAAGTTGC-GTGGAATAGATTGAAGCTATAAATCACAGATCTCA
1 GATAGCAAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTGAAGCTATAAACCACAGATCTCA
*
92735970 TCTCTCTGAAGTTGCAGTAGGGCAGATCAAAACAAACCCTATCTCCCTAAAGTTGCAGTGGAACA
66 TCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCCTATCTCCCTAAAGTTGCAGTGGAACA
92736035 AACTAAAAATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAAATTGAAGCTATAAATCACA
131 AACTAAAAATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAAATTGAAGCTATAAATCACA
* * * * *
92736100 GATCTCATCTCTCTTAAGTCGCAATAGAGCAGATCAAAACAAACCCCATCTCCCTGAAGTTACAG
196 AATCTCATCTCTCTGAAATCGCAATAGAACAAATCAAAACAAACCCCATCTCCCTGAAGTTACAG
92736165 TGGAG
261 TGGAG
92736170 TGGATCACAG
Statistics
Matches: 235, Mismatches: 29, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
273 208 0.89
274 27 0.11
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (274 bp):
GATAGCAAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTGAAGCTATAAACCACAGATCTCA
TCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAACCCTATCTCCCTAAAGTTGCAGTGGAACA
AACTAAAAATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAAATTGAAGCTATAAATCACA
AATCTCATCTCTCTGAAATCGCAATAGAACAAATCAAAACAAACCCCATCTCCCTGAAGTTACAG
TGGAGCAGACTAAA
Found at i:92737656 original size:13 final size:13
Alignment explanation
Indices: 92737638--92737678 Score: 82
Period size: 13 Copynumber: 3.2 Consensus size: 13
92737628 TGTTTTCATA
92737638 TGCATAATTATTT
1 TGCATAATTATTT
92737651 TGCATAATTATTT
1 TGCATAATTATTT
92737664 TGCATAATTATTT
1 TGCATAATTATTT
92737677 TG
1 TG
92737679 AAGTTCGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.10, T:0.54
Consensus pattern (13 bp):
TGCATAATTATTT
Found at i:92745279 original size:5 final size:5
Alignment explanation
Indices: 92745269--92745322 Score: 58
Period size: 5 Copynumber: 10.8 Consensus size: 5
92745259 GGGTAGGATT
* *
92745269 TGATA TGATA TGCA-A TGATT TGATA TGATA TGACT- TGATA TGATA AGATA
1 TGATA TGATA TG-ATA TGATA TGATA TGATA TGA-TA TGATA TGATA TGATA
92745319 TGAT
1 TGAT
92745323 CTGGTATGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
4 2 0.05
5 37 0.90
6 2 0.05
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (5 bp):
TGATA
Found at i:92745307 original size:20 final size:21
Alignment explanation
Indices: 92745265--92745321 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
92745255 ATAGGGGTAG
92745265 GATTTGATATGATATG-CAAT
1 GATTTGATATGATATGACAAT
*
92745285 GATTTGATATGATATGAC-TT
1 GATTTGATATGATATGACAAT
* *
92745305 GATATGATAAGATATGA
1 GATTTGATATGATATGA
92745322 TCTGGTATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.04, G:0.21, T:0.39
Consensus pattern (21 bp):
GATTTGATATGATATGACAAT
Found at i:92751821 original size:36 final size:36
Alignment explanation
Indices: 92751781--92751849 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 36
92751771 GAGGTGGTTT
* *
92751781 TGGTGGAGGTGTCGGAGGAGGGGTTGGTGGTGGCCA
1 TGGTGGAGGTGTAGGAGGAGGCGTTGGTGGTGGCCA
* * * *
92751817 TGGTGGTGGTTTAGGTGGAGGCTTTGGTGGTGG
1 TGGTGGAGGTGTAGGAGGAGGCGTTGGTGGTGG
92751850 AAAAGGTGGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 27 1.00
ACGTcount: A:0.09, C:0.06, G:0.57, T:0.29
Consensus pattern (36 bp):
TGGTGGAGGTGTAGGAGGAGGCGTTGGTGGTGGCCA
Found at i:92751920 original size:24 final size:24
Alignment explanation
Indices: 92751893--92751939 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
92751883 CGGCGCAGGT
*
92751893 GGTGGTGGTGGTCTTGGAGGTGGC
1 GGTGGTGGCGGTCTTGGAGGTGGC
92751917 GGTGGTGGCGGTCTTGGAGGTGG
1 GGTGGTGGCGGTCTTGGAGGTGG
92751940 AAAAGGTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.04, C:0.09, G:0.60, T:0.28
Consensus pattern (24 bp):
GGTGGTGGCGGTCTTGGAGGTGGC
Found at i:92751947 original size:24 final size:24
Alignment explanation
Indices: 92751896--92751948 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
92751886 CGCAGGTGGT
* ****
92751896 GGTGGTGGTCTTGGAGGTGGCGGT
1 GGTGGCGGTCTTGGAGGTGGAAAA
92751920 GGTGGCGGTCTTGGAGGTGGAAAA
1 GGTGGCGGTCTTGGAGGTGGAAAA
92751944 GGTGG
1 GGTGG
92751949 AGGGATAGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.11, C:0.08, G:0.57, T:0.25
Consensus pattern (24 bp):
GGTGGCGGTCTTGGAGGTGGAAAA
Found at i:92751981 original size:36 final size:36
Alignment explanation
Indices: 92751930--92752341 Score: 201
Period size: 36 Copynumber: 11.3 Consensus size: 36
92751920 GGTGGCGGTC
*
92751930 TTGGAGGTGGAAAAGGTGGAGGGATAGGAGGTGGAG
1 TTGGTGGTGGAAAAGGTGGAGGGATAGGAGGTGGAG
*
92751966 TTGGTGGTGGAAAAGGTGGAGGCATAGGAGGTGGAG
1 TTGGTGGTGGAAAAGGTGGAGGGATAGGAGGTGGAG
* **** *
92752002 CTGGTGGTGGTGCTGGTGGAGGTATAGGAGGTGGAG
1 TTGGTGGTGGAAAAGGTGGAGGGATAGGAGGTGGAG
** * *
92752038 CGGGTGGTGGAAAAGGTGGAGGCATAGGAGCAGGTGGTGG
1 TTGGTGGTGGAAAAGGTGGAGGGATA-G-G-AGGTGG-AG
* **** * * * * * **
92752078 TGCCGGTGGTGGCGCTGGAGGTGGTGCT-GGTGTTGGTT
1 T--TGGTGGTGGAAAAGGTGGAGG-GATAGGAGGTGGAG
*
92752116 TTGGAGGTGGAAAAGGTGGAGGGATAGGAGGTGGAG
1 TTGGTGGTGGAAAAGGTGGAGGGATAGGAGGTGGAG
* * *
92752152 CTGGTGGTGGAAAAGGTGGAGGCATAGGAGCAGGTGGTG
1 TTGGTGGTGGAAAAGGTGGAGGGATA-G-G-AGGTGGAG
* ** * * * * * **
92752191 GTGCCGGTGGTAGAA-CTGGAGGCAGTGCTGGTGGTGGTT
1 TTGGTGGTGG-AAAAGGTGGAGGGA-T--AGGAGGTGGAG
* *
92752230 TTGGAGGTGGAAAAGGTGGAGGGATAGGAGGTGGTG
1 TTGGTGGTGGAAAAGGTGGAGGGATAGGAGGTGGAG
* * ** * *
92752266 TTGGAGGTGG---AGCT-GCTGG-T-GGTGGTGGTG
1 TTGGTGGTGGAAAAGGTGGAGGGATAGGAGGTGGAG
*
92752296 GTGGTGGTGGAAAAGGTGGAGGGATAGGAGGTGGAG
1 TTGGTGGTGGAAAAGGTGGAGGGATAGGAGGTGGAG
* *
92752332 CTGGAGGTGG
1 TTGGTGGTGG
92752342 TGCTGGTGGT
Statistics
Matches: 278, Mismatches: 76, Indels: 44
0.70 0.19 0.11
Matches are distributed among these distances:
30 17 0.06
31 1 0.00
32 3 0.01
33 6 0.02
34 3 0.01
35 3 0.01
36 160 0.58
37 2 0.01
38 7 0.03
39 52 0.19
40 7 0.03
41 2 0.01
42 14 0.05
43 1 0.00
ACGTcount: A:0.19, C:0.05, G:0.54, T:0.21
Consensus pattern (36 bp):
TTGGTGGTGGAAAAGGTGGAGGGATAGGAGGTGGAG
Found at i:92752029 original size:72 final size:72
Alignment explanation
Indices: 92751944--92752161 Score: 231
Period size: 72 Copynumber: 2.9 Consensus size: 72
92751934 AGGTGGAAAA
*
92751944 GGTGGAGGGATAGGAGGTGGAGTTGGTGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGG
1 GGTGGAGGTATAGGAGGTGGAGTTGGTGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGG
*
92752009 TGGTGCT
66 TGGCGCT
** *
92752016 GGTGGAGGTATAGGAGGTGGAGCGGGTGGTGGAAAAGGTGGAGGCATAGGAGCAGGTGGTGGTGC
1 GGTGGAGGTATAGGAGGTGGAGTTGGTGGTGGAAAAGGTGGAGGCATA-G-G-A---GGTGGAGC
*
92752081 CGGTGGTGGCGCT
60 TGGTGGTGGCGCT
* * * * * ** * *
92752094 GGAGGTGGTGCT-GGTGTTGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGAGGTGGAGCTGGTG
1 GGTGGAGGT-ATAGGAGGTGGAGTTGGTGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTG
92752158 GTGG
65 GTGG
92752162 AAAAGGTGGA
Statistics
Matches: 120, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
72 60 0.50
73 1 0.01
74 1 0.01
75 2 0.02
76 1 0.01
77 1 0.01
78 53 0.44
79 1 0.01
ACGTcount: A:0.18, C:0.06, G:0.56, T:0.21
Consensus pattern (72 bp):
GGTGGAGGTATAGGAGGTGGAGTTGGTGGTGGAAAAGGTGGAGGCATAGGAGGTGGAGCTGGTGG
TGGCGCT
Found at i:92752087 original size:12 final size:12
Alignment explanation
Indices: 92752070--92752114 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
92752060 CATAGGAGCA
*
92752070 GGTGGTGGTGCC
1 GGTGGTGGTGCT
*
92752082 GGTGGTGGCGCT
1 GGTGGTGGTGCT
*
92752094 GGAGGTGGTGCT
1 GGTGGTGGTGCT
*
92752106 GGTGTTGGT
1 GGTGGTGGT
92752115 TTTGGAGGTG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.02, C:0.11, G:0.58, T:0.29
Consensus pattern (12 bp):
GGTGGTGGTGCT
Found at i:92752276 original size:114 final size:114
Alignment explanation
Indices: 92752016--92752263 Score: 424
Period size: 114 Copynumber: 2.2 Consensus size: 114
92752006 TGGTGGTGCT
* *
92752016 GGTGGAGGTATAGGAGGTGGAGCGGGTGGTGGAAAAGGTGGAGGCATAGGAGCAGGTGGTGGTGC
1 GGTGGAGGGATAGGAGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGCAGGTGGTGGTGC
* ** ** *
92752081 CGGTGGTGGCGCTGGAGGTGGTGCTGGTGTTGGTTTTGGAGGTGGAAAA
66 CGGTGGTAGAACTGGAGGCAGTGCTGGTGGTGGTTTTGGAGGTGGAAAA
92752130 GGTGGAGGGATAGGAGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGCAGGTGGTGGTGC
1 GGTGGAGGGATAGGAGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGCAGGTGGTGGTGC
92752195 CGGTGGTAGAACTGGAGGCAGTGCTGGTGGTGGTTTTGGAGGTGGAAAA
66 CGGTGGTAGAACTGGAGGCAGTGCTGGTGGTGGTTTTGGAGGTGGAAAA
92752244 GGTGGAGGGATAGGAGGTGG
1 GGTGGAGGGATAGGAGGTGG
92752264 TGTTGGAGGT
Statistics
Matches: 126, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 126 1.00
ACGTcount: A:0.19, C:0.06, G:0.54, T:0.21
Consensus pattern (114 bp):
GGTGGAGGGATAGGAGGTGGAGCTGGTGGTGGAAAAGGTGGAGGCATAGGAGCAGGTGGTGGTGC
CGGTGGTAGAACTGGAGGCAGTGCTGGTGGTGGTTTTGGAGGTGGAAAA
Found at i:92752339 original size:12 final size:12
Alignment explanation
Indices: 92752322--92752378 Score: 78
Period size: 12 Copynumber: 4.8 Consensus size: 12
92752312 TGGAGGGATA
*
92752322 GGAGGTGGAGCT
1 GGAGGTGGTGCT
92752334 GGAGGTGGTGCT
1 GGAGGTGGTGCT
* *
92752346 GGTGGTGGTGTT
1 GGAGGTGGTGCT
92752358 GGAGGTGGTGCT
1 GGAGGTGGTGCT
*
92752370 GGCGGTGGT
1 GGAGGTGGT
92752379 TTTGGCGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.07, C:0.07, G:0.60, T:0.26
Consensus pattern (12 bp):
GGAGGTGGTGCT
Found at i:92752352 original size:66 final size:66
Alignment explanation
Indices: 92752219--92752367 Score: 217
Period size: 66 Copynumber: 2.3 Consensus size: 66
92752209 GAGGCAGTGC
** * * *
92752219 TGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGGATAGGAGGTGGTGTTGGAGGTGGAGCTGCTG
1 TGGTGGTGGTGGTGGTGGTGGAAAAGGTGGAGGGATAGGAGGTGGAGCTGGAGGTGGAGCTGCTG
92752284 G
66 G
* *
92752285 TGGTGGTGGTGGTGGTGGTGGAAAAGGTGGAGGGATAGGAGGTGGAGCTGGAGGTGGTGCTGGTG
1 TGGTGGTGGTGGTGGTGGTGGAAAAGGTGGAGGGATAGGAGGTGGAGCTGGAGGTGGAGCTGCTG
92752350 G
66 G
* *
92752351 TGGTGTTGGAGGTGGTG
1 TGGTGGTGGTGGTGGTG
92752368 CTGGCGGTGG
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 74 1.00
ACGTcount: A:0.15, C:0.03, G:0.57, T:0.26
Consensus pattern (66 bp):
TGGTGGTGGTGGTGGTGGTGGAAAAGGTGGAGGGATAGGAGGTGGAGCTGGAGGTGGAGCTGCTG
G
Found at i:92752378 original size:24 final size:24
Alignment explanation
Indices: 92752333--92752470 Score: 89
Period size: 24 Copynumber: 5.6 Consensus size: 24
92752323 GAGGTGGAGC
*
92752333 TGGAGGTGGTGCTGGTGGTGGTGT
1 TGGAGGTGGTGCTGGCGGTGGTGT
*
92752357 TGGAGGTGGTGCTGGCGGTGGTTT
1 TGGAGGTGGTGCTGGCGGTGGTGT
* **** * *
92752381 TGGCGGTGGAAAAGGCGGAGGTAT
1 TGGAGGTGGTGCTGGCGGTGGTGT
* * * *
92752405 AGGAGGTGGAGTTGGCGGTGGTGG
1 TGGAGGTGGTGCTGGCGGTGGTGT
* * *
92752429 AGGAGGTGTTGGTGGTGGCGGTAGCT-T
1 TGGA-G-G-TGGTGCTGGCGGT-GGTGT
92752456 TGGAGGTGGTGCTGG
1 TGGAGGTGGTGCTGG
92752471 TAGAGGAATT
Statistics
Matches: 87, Mismatches: 23, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
24 67 0.77
25 2 0.02
26 2 0.02
27 14 0.16
28 2 0.02
ACGTcount: A:0.11, C:0.07, G:0.56, T:0.27
Consensus pattern (24 bp):
TGGAGGTGGTGCTGGCGGTGGTGT
Found at i:92752384 original size:12 final size:12
Alignment explanation
Indices: 92752337--92752389 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
92752327 TGGAGCTGGA
* *
92752337 GGTGGTGCTGGT
1 GGTGGTGTTGGC
*
92752349 GGTGGTGTTGGA
1 GGTGGTGTTGGC
*
92752361 GGTGGTGCTGGC
1 GGTGGTGTTGGC
*
92752373 GGTGGTTTTGGC
1 GGTGGTGTTGGC
92752385 GGTGG
1 GGTGG
92752390 AAAAGGCGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.02, C:0.08, G:0.58, T:0.32
Consensus pattern (12 bp):
GGTGGTGTTGGC
Found at i:92752439 original size:21 final size:21
Alignment explanation
Indices: 92752406--92752446 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
92752396 CGGAGGTATA
*
92752406 GGAGGTGGAGTTGGCGGTGGT
1 GGAGGAGGAGTTGGCGGTGGT
* *
92752427 GGAGGAGGTGTTGGTGGTGG
1 GGAGGAGGAGTTGGCGGTGG
92752447 CGGTAGCTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.02, G:0.63, T:0.24
Consensus pattern (21 bp):
GGAGGAGGAGTTGGCGGTGGT
Found at i:92754307 original size:24 final size:20
Alignment explanation
Indices: 92754278--92754323 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 20
92754268 AATTTACATG
92754278 ATAATAGTATTAAAAACTATATAT
1 ATAATA-TA-TAAAAA-TATA-AT
92754302 ATAATATATAAAAATATAAT
1 ATAATATATAAAAATATAAT
92754322 AT
1 AT
92754324 TAAAATACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.18
21 4 0.18
22 6 0.27
23 2 0.09
24 6 0.27
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
ATAATATATAAAAATATAAT
Found at i:92754392 original size:26 final size:25
Alignment explanation
Indices: 92754347--92754415 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
92754337 CATAAAAGGG
*
92754347 TAAAATGAATAATATGGAAAAAAATT
1 TAAAATAAATAATATGG-AAAAAATT
* * *
92754373 TAATATAAATAATAAT-GAAACATTT
1 TAAAATAAATAAT-ATGGAAAAAATT
*
92754398 TAAAATAAATAAGATGGA
1 TAAAATAAATAATATGGA
92754416 GTTTAAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 2 0.06
25 19 0.54
26 12 0.34
27 2 0.06
ACGTcount: A:0.59, C:0.01, G:0.10, T:0.29
Consensus pattern (25 bp):
TAAAATAAATAATATGGAAAAAATT
Found at i:92754456 original size:18 final size:19
Alignment explanation
Indices: 92754433--92754473 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
92754423 AATAAGGTAT
92754433 ATAAAATAATTTAAAATA-
1 ATAAAATAATTTAAAATAG
*
92754451 ATAAAATAATTTTAAATAG
1 ATAAAATAATTTAAAATAG
92754470 ATAA
1 ATAA
92754474 TACATGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
ATAAAATAATTTAAAATAG
Found at i:92756227 original size:21 final size:21
Alignment explanation
Indices: 92756183--92756227 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
92756173 TTGATATGAG
* * **
92756183 TTGTAGTTTGGGTTTTAATTT
1 TTGTAATTTGGATTTTAAAAT
92756204 TTGTAATTTGGATTTTAAAAT
1 TTGTAATTTGGATTTTAAAAT
92756225 TTG
1 TTG
92756228 GACATTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.58
Consensus pattern (21 bp):
TTGTAATTTGGATTTTAAAAT
Found at i:92756635 original size:14 final size:14
Alignment explanation
Indices: 92756612--92756641 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
92756602 TTTTTTTTTG
*
92756612 AAACATAAATTGAA
1 AAACAAAAATTGAA
92756626 AAACAAAAATTGAA
1 AAACAAAAATTGAA
92756640 AA
1 AA
92756642 TACCTCAACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.17
Consensus pattern (14 bp):
AAACAAAAATTGAA
Found at i:92756735 original size:89 final size:89
Alignment explanation
Indices: 92756471--92756805 Score: 449
Period size: 89 Copynumber: 3.8 Consensus size: 89
92756461 TATCCTCCGT
* * * * *
92756471 GTGTGACCTGATACTCAACTCACCTCACGCAATATGAGTTGATTTTTTTGAAAAATAAATTAAAA
1 GTGTTACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAA
* *
92756536 AACAGAAATTGAAAATACTTCAGC
66 AACAAAAATTGAAAATACCTCAGC
* * *
92756560 GTCTTACCTGGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAACATAAATTGA
1 GTGTTACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAACATAAATTGA
*
92756625 AAAACAAAAATTGAAAATACCTCAAC
64 AAAACAAAAATTGAAAATACCTCAGC
* *
92756651 GTGTTACTTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAGACATAAATTGAAA
1 GTGTTACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAA
92756716 AACAAAAATTGAAAATACCTCAGC
66 AACAAAAATTGAAAATACCTCAGC
* * * * * * *
92756740 GTGTGACCT-AAAGCTCAACTCACCTCTCGTAATAGGAGTTGA-TTTTTAGAAATATATATTGAA
1 GTGTTACCTGAGA-CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAA
92756803 AAA
65 AAA
92756806 TTGAAATAAA
Statistics
Matches: 217, Mismatches: 26, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
88 22 0.10
89 115 0.53
91 80 0.37
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (89 bp):
GTGTTACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAA
AACAAAAATTGAAAATACCTCAGC
Found at i:92757694 original size:42 final size:42
Alignment explanation
Indices: 92757590--92757701 Score: 152
Period size: 42 Copynumber: 2.7 Consensus size: 42
92757580 CATTAAGACG
* * * * *
92757590 CCTTTTCGGGTTTTTATCCTAATATTTTGTTTATCAAGACAC
1 CCTTTCCGGGTTTTCATCTTGATCTTTTGTTTATCAAGACAC
*
92757632 CCTTTCCGGGTTTTCATCTTGATCTTTTGTTTATCAAGACTC
1 CCTTTCCGGGTTTTCATCTTGATCTTTTGTTTATCAAGACAC
* *
92757674 CCTTTCTGGGTTTTCGTCTTGATCTTTT
1 CCTTTCCGGGTTTTCATCTTGATCTTTT
92757702 TTTCTTTTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (42 bp):
CCTTTCCGGGTTTTCATCTTGATCTTTTGTTTATCAAGACAC
Found at i:92768446 original size:36 final size:37
Alignment explanation
Indices: 92768373--92768456 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 37
92768363 AATATACATG
* * * *
92768373 ATAATAGTATTAAAAACTATATACATAATATATTAAA
1 ATAATAATATTAAAAACTATATACATAAAAGAGTAAA
*
92768410 AT-ATAATATTAAAATAC-ATATACATAAAAGGGTAAA
1 ATAATAATATTAAAA-ACTATATACATAAAAGAGTAAA
92768446 ATGAATAATAT
1 AT-AATAATAT
92768457 GGAAAATAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
36 28 0.72
37 4 0.10
38 7 0.18
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (37 bp):
ATAATAATATTAAAAACTATATACATAAAAGAGTAAA
Found at i:92768552 original size:18 final size:19
Alignment explanation
Indices: 92768529--92768569 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
92768519 AATAAGGTAT
*
92768529 ATAAAATAATTTAAAATA-
1 ATAAAACAATTTAAAATAG
*
92768547 ATAAAACAATTTTAAATAG
1 ATAAAACAATTTAAAATAG
92768566 ATAA
1 ATAA
92768570 TACATGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
ATAAAACAATTTAAAATAG
Found at i:92770339 original size:21 final size:21
Alignment explanation
Indices: 92770295--92770339 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
92770285 TTAATATGGG
* * **
92770295 TTGTAGTTTGGGTTTTAATTT
1 TTGTAATTTGGATTTTAAAAT
92770316 TTGTAATTTGGATTTTAAAAT
1 TTGTAATTTGGATTTTAAAAT
92770337 TTG
1 TTG
92770340 GACATTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.58
Consensus pattern (21 bp):
TTGTAATTTGGATTTTAAAAT
Found at i:92770548 original size:19 final size:19
Alignment explanation
Indices: 92770526--92770572 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
92770516 ATGTTATGTG
*
92770526 ATGAATTATTATTTATTTT
1 ATGAATTATTATTTACTTT
92770545 ATGATATT-TTATTTACTTT
1 ATGA-ATTATTATTTACTTT
*
92770564 ATAAATTAT
1 ATGAATTAT
92770573 AATGTCAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 3 0.12
19 18 0.75
20 3 0.12
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
ATGAATTATTATTTACTTT
Found at i:92774204 original size:14 final size:14
Alignment explanation
Indices: 92774183--92774253 Score: 115
Period size: 14 Copynumber: 5.1 Consensus size: 14
92774173 ATAGAAATAT
92774183 AGATACAAATATAC
1 AGATACAAATATAC
* *
92774197 GGAAACAAATATAC
1 AGATACAAATATAC
92774211 AGATACAAATATAC
1 AGATACAAATATAC
92774225 AGATACAAATATAC
1 AGATACAAATATAC
*
92774239 AGATACAAAAATAC
1 AGATACAAATATAC
92774253 A
1 A
92774254 AATATTGATA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 52 1.00
ACGTcount: A:0.59, C:0.14, G:0.08, T:0.18
Consensus pattern (14 bp):
AGATACAAATATAC
Found at i:92776650 original size:17 final size:18
Alignment explanation
Indices: 92776628--92776662 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
92776618 ATTTGGGCTA
92776628 TGTGGGC-CACACGGGCG
1 TGTGGGCTCACACGGGCG
*
92776645 TGTGGGCTCACATGGGCG
1 TGTGGGCTCACACGGGCG
92776663 AACATTATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.11, C:0.26, G:0.46, T:0.17
Consensus pattern (18 bp):
TGTGGGCTCACACGGGCG
Found at i:92785917 original size:25 final size:25
Alignment explanation
Indices: 92785879--92785947 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
92785869 ATGTTCATAC
* *
92785879 GAGCTGTA-AACGGGAAGCTCCTCT
1 GAGCTGAATAACGGGAAGCTCATCT
*
92785903 GAGCTGAATAACGGGAAGCTCATGT
1 GAGCTGAATAACGGGAAGCTCATCT
*
92785928 GAGCTAAATAACGGGAAGCT
1 GAGCTGAATAACGGGAAGCT
92785948 TATGTGTGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 7 0.17
25 33 0.82
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.19
Consensus pattern (25 bp):
GAGCTGAATAACGGGAAGCTCATCT
Found at i:92785952 original size:25 final size:25
Alignment explanation
Indices: 92785887--92785959 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
92785877 ACGAGCTGTA
* * *
92785887 AACGGGAAGCTCCTCTGAGCTGAAT
1 AACGGGAAGCTCATGTGAGCTAAAT
92785912 AACGGGAAGCTCATGTGAGCTAAAT
1 AACGGGAAGCTCATGTGAGCTAAAT
* *
92785937 AACGGGAAGCTTATGTGTGCTAA
1 AACGGGAAGCTCATGTGAGCTAA
92785960 GTGTCAGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.22
Consensus pattern (25 bp):
AACGGGAAGCTCATGTGAGCTAAAT
Found at i:92787502 original size:41 final size:41
Alignment explanation
Indices: 92787457--92787538 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
92787447 AGTATTACCA
92787457 AAATTTAAAATTTTACCCATGATATATATTTGTGTATAATG
1 AAATTTAAAATTTTACCCATGATATATATTTGTGTATAATG
92787498 AAATTTAAAATTTTACCCATGATATATATTTGTGTATAATG
1 AAATTTAAAATTTTACCCATGATATATATTTGTGTATAATG
92787539 GTAGAAAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (41 bp):
AAATTTAAAATTTTACCCATGATATATATTTGTGTATAATG
Found at i:92787547 original size:39 final size:40
Alignment explanation
Indices: 92787463--92787547 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 40
92787453 ACCAAAATTT
**
92787463 AAAATTTTACCCATGATATATATTTGTGTATAATGAAATTT
1 AAAATTTTACCCATGATATATATTTGTGTATAATG-AATAG
*
92787504 AAAATTTTACCCATGATATATATTTGTGTATAATG-GTAG
1 AAAATTTTACCCATGATATATATTTGTGTATAATGAATAG
92787543 AAAAT
1 AAAAT
92787548 GCATGTTTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 6 0.15
41 35 0.85
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (40 bp):
AAAATTTTACCCATGATATATATTTGTGTATAATGAATAG
Found at i:92791182 original size:17 final size:17
Alignment explanation
Indices: 92791162--92791202 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
92791152 TTTTAATAAA
*
92791162 ATTTTTCATAAAATATT
1 ATTTTACATAAAATATT
*
92791179 A-TTTACTTAAAATATT
1 ATTTTACATAAAATATT
92791195 A-TTTACAT
1 ATTTTACAT
92791203 TAAGTATGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 20 0.95
17 1 0.05
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTACATAAAATATT
Found at i:92791191 original size:16 final size:17
Alignment explanation
Indices: 92791170--92791205 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
92791160 AAATTTTTCA
92791170 TAAAATATTATTTAC-T
1 TAAAATATTATTTACAT
92791186 TAAAATATTATTTACAT
1 TAAAATATTATTTACAT
92791203 TAA
1 TAA
92791206 GTATGTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAATATTATTTACAT
Found at i:92794151 original size:24 final size:24
Alignment explanation
Indices: 92794124--92794175 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
92794114 TTAGTAAGTC
*
92794124 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
92794148 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
92794172 AAAT
1 AAAT
92794176 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:92796121 original size:24 final size:24
Alignment explanation
Indices: 92796094--92796145 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
92796084 TTAGTAAGTC
*
92796094 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
92796118 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
92796142 AAAT
1 AAAT
92796146 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:92796647 original size:27 final size:28
Alignment explanation
Indices: 92796604--92796663 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 28
92796594 TAGTTTCCCC
* * *
92796604 TTATTTTAAATATTTTAATAATTAAATT
1 TTATTTAAAATATTTTAAAAACTAAATT
92796632 TTATTTAAAATA-TTTAAAAACTAAATT
1 TTATTTAAAATATTTTAAAAACTAAATT
92796659 TTATT
1 TTATT
92796664 AATTAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 18 0.62
28 11 0.38
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (28 bp):
TTATTTAAAATATTTTAAAAACTAAATT
Found at i:92800237 original size:11 final size:11
Alignment explanation
Indices: 92800221--92800245 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
92800211 TTACTCCAAT
92800221 GGGTTTCTTAG
1 GGGTTTCTTAG
92800232 GGGTTTCTTAG
1 GGGTTTCTTAG
92800243 GGG
1 GGG
92800246 CCAATGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.44, T:0.40
Consensus pattern (11 bp):
GGGTTTCTTAG
Found at i:92802622 original size:12 final size:12
Alignment explanation
Indices: 92802607--92802671 Score: 67
Period size: 12 Copynumber: 5.4 Consensus size: 12
92802597 AATTGGAGGT
92802607 GGTGGTGGAATA
1 GGTGGTGGAATA
* * *
92802619 GGTGGAGGTATT
1 GGTGGTGGAATA
92802631 GGTGGTGGAATA
1 GGTGGTGGAATA
* *
92802643 GGTGGAGGTATA
1 GGTGGTGGAATA
* *
92802655 GGAGGTGGAATT
1 GGTGGTGGAATA
92802667 GGTGG
1 GGTGG
92802672 AGGCATAGGA
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.22, C:0.00, G:0.52, T:0.26
Consensus pattern (12 bp):
GGTGGTGGAATA
Found at i:92802647 original size:36 final size:36
Alignment explanation
Indices: 92802607--92802680 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 36
92802597 AATTGGAGGT
* * * *
92802607 GGTGGTGGAATAGGTGGAGGTATTGGTGGTGGAATA
1 GGTGGAGGAATAGGAGGAGGAATTGGTGGAGGAATA
* * *
92802643 GGTGGAGGTATAGGAGGTGGAATTGGTGGAGGCATA
1 GGTGGAGGAATAGGAGGAGGAATTGGTGGAGGAATA
92802679 GG
1 GG
92802681 AGTTGGAGGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.23, C:0.01, G:0.51, T:0.24
Consensus pattern (36 bp):
GGTGGAGGAATAGGAGGAGGAATTGGTGGAGGAATA
Found at i:92802679 original size:24 final size:24
Alignment explanation
Indices: 92802610--92802687 Score: 111
Period size: 24 Copynumber: 3.2 Consensus size: 24
92802600 TGGAGGTGGT
* *
92802610 GGTGGAATAGGTGGAGGTATTGGT
1 GGTGGAATAGGTGGAGGTATAGGA
92802634 GGTGGAATAGGTGGAGGTATAGGA
1 GGTGGAATAGGTGGAGGTATAGGA
* *
92802658 GGTGGAATTGGTGGAGGCATAGGA
1 GGTGGAATAGGTGGAGGTATAGGA
*
92802682 GTTGGA
1 GGTGGA
92802688 GGTGGAGCTG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.24, C:0.01, G:0.50, T:0.24
Consensus pattern (24 bp):
GGTGGAATAGGTGGAGGTATAGGA
Found at i:92805460 original size:19 final size:18
Alignment explanation
Indices: 92805436--92805471 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
92805426 TCTCAAGTGA
92805436 TATCCAAATTATACTTAAT
1 TATCCAAATTAT-CTTAAT
92805455 TATCCAAATTATCTTAA
1 TATCCAAATTATCTTAA
92805472 CCATTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (18 bp):
TATCCAAATTATCTTAAT
Found at i:92809490 original size:45 final size:45
Alignment explanation
Indices: 92809441--92809530 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
92809431 AAAAACTTCC
* *
92809441 AATAAATCATAACCATTGAACATATGGAATTGATTAAAGGATAGT
1 AATAAATCACAACCATTGAACATATGAAATTGATTAAAGGATAGT
92809486 AATAAATCACAACCATTGAACATATGAAATTGATTAAAGGATAGT
1 AATAAATCACAACCATTGAACATATGAAATTGATTAAAGGATAGT
92809531 GTTTATTAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (45 bp):
AATAAATCACAACCATTGAACATATGAAATTGATTAAAGGATAGT
Found at i:92809811 original size:96 final size:96
Alignment explanation
Indices: 92809647--92809837 Score: 301
Period size: 96 Copynumber: 2.0 Consensus size: 96
92809637 TTATGTTGGG
* * *
92809647 AACAACTTTGGAAAGATGGCAGGATTCCTAGGCTGTTCCACTTTTGGGATATGTTATAGAGCATG
1 AACAACGTTGGAAAGATGGCAAGATTCCTAGGCTGTTCCACTTTTGGGATATCTTATAGAGCATG
*
92809712 GCTTGGAAGTTCAGATACGAATATTATTGAA
66 GCTTGGAAGTTCAGATACAAATATTATTGAA
* * *
92809743 AACAACGTTGGAAAGATGGTAAGATTCCTAGGTTGTTCCACTTTTGGGATGTCTTATAGAGCATG
1 AACAACGTTGGAAAGATGGCAAGATTCCTAGGCTGTTCCACTTTTGGGATATCTTATAGAGCATG
* *
92809808 GCTTGGAAGTTCATATACAAATATTTTTGA
66 GCTTGGAAGTTCAGATACAAATATTATTGA
92809838 GAAGTTTACT
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 86 1.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (96 bp):
AACAACGTTGGAAAGATGGCAAGATTCCTAGGCTGTTCCACTTTTGGGATATCTTATAGAGCATG
GCTTGGAAGTTCAGATACAAATATTATTGAA
Found at i:92813464 original size:31 final size:34
Alignment explanation
Indices: 92813401--92813465 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 34
92813391 ATTTATAAAA
*
92813401 TTTTAAATTAATAATAGTAAAATTATACTTTAATCC
1 TTTTAAA-TAATAATAG-AAAATTATAATTTAATCC
92813437 TTTTAAA-AATAATA-AAAATT-TAATTTAAT
1 TTTTAAATAATAATAGAAAATTATAATTTAAT
92813466 AGTTTAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 8 0.29
32 6 0.21
34 7 0.25
36 7 0.25
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.45
Consensus pattern (34 bp):
TTTTAAATAATAATAGAAAATTATAATTTAATCC
Found at i:92815558 original size:3 final size:3
Alignment explanation
Indices: 92815552--92815581 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
92815542 TTTTCTAATA
92815552 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
92815582 ATTTTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:92815848 original size:3 final size:3
Alignment explanation
Indices: 92815842--92815879 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
92815832 AAAAAAAAAG
92815842 AGA AGA AGA AGA AGAA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AG-A AGA AGA AGA AGA AGA AGA AGA A
92815880 AGTTAGTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:92815864 original size:19 final size:18
Alignment explanation
Indices: 92815838--92815876 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
92815828 AGAGAAAAAA
92815838 AAAGAGAAGAAGAAGAAG
1 AAAGAGAAGAAGAAGAAG
92815856 AAAGAAGAAGAAGAAGAAG
1 AAAG-AGAAGAAGAAGAAG
92815875 AA
1 AA
92815877 GAAAGTTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
AAAGAGAAGAAGAAGAAG
Found at i:92815877 original size:22 final size:21
Alignment explanation
Indices: 92815825--92815881 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 21
92815815 CAAAGAAACA
* *
92815825 AAGAGAGAAAAAAAAAGAGAAG
1 AAGA-AGAAGAAAGAAGAGAAG
92815847 AAGAAGAAGAAAGAAGAAGAAG
1 AAGAAGAAGAAAGAAG-AGAAG
92815869 AAGAAGAAGAAAG
1 AAGAAGAAGAAAG
92815882 TTAGTAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 10 0.31
22 22 0.69
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (21 bp):
AAGAAGAAGAAAGAAGAGAAG
Found at i:92818298 original size:20 final size:21
Alignment explanation
Indices: 92818258--92818314 Score: 93
Period size: 20 Copynumber: 2.9 Consensus size: 21
92818248 GGTTTTGTAT
92818258 TGTAAATTACTTTATTTTTTA
1 TGTAAATTACTTTATTTTTTA
92818279 TGTAAATTACTTTA-TTTTTA
1 TGTAAATTACTTTATTTTTTA
92818299 TGTAAATTA-TTT-TTTT
1 TGTAAATTACTTTATTTT
92818315 GCATTATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.17
20 15 0.43
21 14 0.40
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.63
Consensus pattern (21 bp):
TGTAAATTACTTTATTTTTTA
Found at i:92818500 original size:14 final size:14
Alignment explanation
Indices: 92818481--92818514 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
92818471 CTTTTTCTTT
92818481 CAACATGTAAT-AA
1 CAACATGTAATGAA
92818494 GCAACATGTAATGAA
1 -CAACATGTAATGAA
92818509 CAACAT
1 CAACAT
92818515 CTTAATTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.89
15 2 0.11
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.21
Consensus pattern (14 bp):
CAACATGTAATGAA
Found at i:92825299 original size:39 final size:38
Alignment explanation
Indices: 92825253--92825367 Score: 106
Period size: 39 Copynumber: 2.9 Consensus size: 38
92825243 CCGATTTTCT
* * *
92825253 CCCTCTCCTCCATCGTCTTTCCCCCTACTTTGATCCTCT
1 CCCTCTCC-CCATCGTCTTTCCCCCTACTTCGACCCTCA
** * *
92825292 CTGTCTCCCTCATCATCCTTCCCCCTACTTCGACCCTCA
1 CCCTCTCCC-CATCGTCTTTCCCCCTACTTCGACCCTCA
* *
92825331 CCCTCTCCCCCATCGTCCTTT-CCTCTACTTCAACCCT
1 CCCTCT-CCCCATCGT-CTTTCCCCCTACTTCGACCCT
92825368 GTCCTTCTCT
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 1 0.02
39 53 0.88
40 6 0.10
ACGTcount: A:0.10, C:0.51, G:0.04, T:0.34
Consensus pattern (38 bp):
CCCTCTCCCCATCGTCTTTCCCCCTACTTCGACCCTCA
Found at i:92825387 original size:39 final size:39
Alignment explanation
Indices: 92825307--92825392 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 39
92825297 TCCCTCATCA
* * *
92825307 TCCTTCCCCCTACTTCGACCCTCACCCTCTCCCCCATCG
1 TCCTTTCCCCTACTTCAACCCTCACCCTCTCCCCCACCG
* ** * *
92825346 TCCTTTCCTCTACTTCAACCCTGTCCTTCTCTCCCACCG
1 TCCTTTCCCCTACTTCAACCCTCACCCTCTCCCCCACCG
92825385 TCCCTTTC
1 T-CCTTTC
92825393 TCTTTGCTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 32 0.84
40 6 0.16
ACGTcount: A:0.09, C:0.53, G:0.05, T:0.33
Consensus pattern (39 bp):
TCCTTTCCCCTACTTCAACCCTCACCCTCTCCCCCACCG
Found at i:92837934 original size:44 final size:44
Alignment explanation
Indices: 92837893--92838051 Score: 185
Period size: 44 Copynumber: 3.6 Consensus size: 44
92837883 TTAAACATGC
* *
92837893 CTTGTGTTCCTCAGCCATTCTGATAAGTGTAGACTTGAACATAT
1 CTTGTGTTCCTCAACCGTTCTGATAAGTGTAGACTTGAACATAT
* * * *
92837937 CTTGTGTTCCTCATCTGTTCTGATAAGTGTGGTCTTGAACATAT
1 CTTGTGTTCCTCAACCGTTCTGATAAGTGTAGACTTGAACATAT
* * ** *
92837981 CTTATGTTCCTCAACCGTTCTGGTAAGTGT-GGGTGAGAACATAT
1 CTTGTGTTCCTCAACCGTTCTGATAAGTGTAGACT-TGAACATAT
* *
92838025 CTTATGTTCCTCAACCCTTCTGATAAG
1 CTTGTGTTCCTCAACCGTTCTGATAAG
92838052 ACAAGTTTGT
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 2 0.02
44 98 0.98
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (44 bp):
CTTGTGTTCCTCAACCGTTCTGATAAGTGTAGACTTGAACATAT
Found at i:92837978 original size:88 final size:88
Alignment explanation
Indices: 92837866--92838051 Score: 203
Period size: 88 Copynumber: 2.1 Consensus size: 88
92837856 CGAGATAAAT
* * * * *
92837866 TTCTGATAACCGTGGGCTTAAACATGCCTTGTGTTCCTCAGCCATTCTGATAAGTGTAGACT-TG
1 TTCTGATAAGCGTGGGCTTAAACATACCTTATGTTCCTCAACCATTCTGATAAGTGT-GACTGAG
* * **
92837930 AACATATCTTGTGTTCCTCATCTG
65 AACATATCTTATGTTCCTCAACCC
* * * * * * **
92837954 TTCTGATAAGTGTGGTCTTGAACATATCTTATGTTCCTCAACCGTTCTGGTAAGTGTGGGTGAGA
1 TTCTGATAAGCGTGGGCTTAAACATACCTTATGTTCCTCAACCATTCTGATAAGTGTGACTGAGA
92838019 ACATATCTTATGTTCCTCAACCC
66 ACATATCTTATGTTCCTCAACCC
92838042 TTCTGATAAG
1 TTCTGATAAG
92838052 ACAAGTTTGT
Statistics
Matches: 80, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
87 2 0.03
88 78 0.98
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.37
Consensus pattern (88 bp):
TTCTGATAAGCGTGGGCTTAAACATACCTTATGTTCCTCAACCATTCTGATAAGTGTGACTGAGA
ACATATCTTATGTTCCTCAACCC
Found at i:92850903 original size:14 final size:14
Alignment explanation
Indices: 92850886--92850915 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
92850876 GCCTCATACA
*
92850886 AACAGTTCGCATAT
1 AACAATTCGCATAT
92850900 AACAATTCGCATAT
1 AACAATTCGCATAT
92850914 AA
1 AA
92850916 ATGGGTTTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (14 bp):
AACAATTCGCATAT
Found at i:92851461 original size:54 final size:54
Alignment explanation
Indices: 92851397--92851518 Score: 210
Period size: 54 Copynumber: 2.3 Consensus size: 54
92851387 AAAACATCAA
*
92851397 GCATAAAATAATAGGGTTCGTATATGACACATGTTTGCATGCAATATGGGTTTT
1 GCATAAAATAATAGGGTTCGTATATGACACATGTCTGCATGCAATATGGGTTTT
92851451 GCATAAAATAATAGGGTTCGTATATGACACATGTCTGCATGCAATATGGGTTTT
1 GCATAAAATAATAGGGTTCGTATATGACACATGTCTGCATGCAATATGGGTTTT
* *
92851505 -CATAATATTATAGG
1 GCATAAAATAATAGG
92851519 TTCACAAACG
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
53 12 0.18
54 53 0.82
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.34
Consensus pattern (54 bp):
GCATAAAATAATAGGGTTCGTATATGACACATGTCTGCATGCAATATGGGTTTT
Found at i:92853682 original size:41 final size:41
Alignment explanation
Indices: 92853541--92853688 Score: 147
Period size: 41 Copynumber: 3.6 Consensus size: 41
92853531 ATTCTCCATA
* * * *
92853541 CGGCACGAAGCCTGCTAGGCTCAAGGTCT-AATTTCA-TACAT
1 CGGCACAAAGCCTGCTAGGCTCAAAGCCTGAA--TCATTACAC
*
92853582 CGGCACGAAGCCTGCTAGGCTCAAAGCCTGAATCATTACAC
1 CGGCACAAAGCCTGCTAGGCTCAAAGCCTGAATCATTACAC
** * * * *
92853623 CAACACAAAACCTACTAGGCTTAAATCCTGAATCATTACAC
1 CGGCACAAAGCCTGCTAGGCTCAAAGCCTGAATCATTACAC
* *
92853664 TGGCACAAAGCCTGCTAGGTTCAAA
1 CGGCACAAAGCCTGCTAGGCTCAAA
92853689 ACCCGATACA
Statistics
Matches: 88, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
40 3 0.03
41 83 0.94
42 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.21
Consensus pattern (41 bp):
CGGCACAAAGCCTGCTAGGCTCAAAGCCTGAATCATTACAC
Found at i:92856449 original size:21 final size:21
Alignment explanation
Indices: 92856425--92856471 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
92856415 TTAAAAAAAT
92856425 TCTAAAAATAAATACTTTTTG
1 TCTAAAAATAAATACTTTTTG
** **
92856446 TCTAAGTATCGATACTTTTTG
1 TCTAAAAATAAATACTTTTTG
92856467 TCTAA
1 TCTAA
92856472 GTATCGATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.45
Consensus pattern (21 bp):
TCTAAAAATAAATACTTTTTG
Found at i:92856472 original size:21 final size:21
Alignment explanation
Indices: 92856436--92856484 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
92856426 CTAAAAATAA
92856436 ATACTTTTTGTCTAAGTATCG
1 ATACTTTTTGTCTAAGTATCG
92856457 ATACTTTTTGTCTAAGTATCG
1 ATACTTTTTGTCTAAGTATCG
92856478 ATA-TTTT
1 ATACTTTT
92856485 ACAGTATATC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.51
Consensus pattern (21 bp):
ATACTTTTTGTCTAAGTATCG
Found at i:92856563 original size:20 final size:20
Alignment explanation
Indices: 92856535--92856584 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
92856525 TATCGATCCA
*
92856535 GTATCGATACT-TTTCTTAAG
1 GTATCGATA-TATTTCCTAAG
*
92856555 GTATTGATATATTTCCTAAG
1 GTATCGATATATTTCCTAAG
92856575 GTATCGATAT
1 GTATCGATAT
92856585 TCCTACTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (20 bp):
GTATCGATATATTTCCTAAG
Found at i:92859047 original size:26 final size:26
Alignment explanation
Indices: 92859011--92859120 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
92859001 TGATACAAAT
92859011 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
92859037 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
92859063 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
92859089 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
92859115 TGATAA
1 TGATAA
92859121 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:92861068 original size:15 final size:15
Alignment explanation
Indices: 92861045--92861083 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
92861035 ATGTTACCTG
92861045 AATAGGCTTAGGCCC
1 AATAGGCTTAGGCCC
*
92861060 AATAAGCTTAGGCCC
1 AATAGGCTTAGGCCC
92861075 AATAGGCTT
1 AATAGGCTT
92861084 GAGCTGACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (15 bp):
AATAGGCTTAGGCCC
Found at i:92863324 original size:17 final size:17
Alignment explanation
Indices: 92863299--92863333 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
92863289 TCAAATTTAC
92863299 AACTAAACTAATAGAAT
1 AACTAAACTAATAGAAT
* *
92863316 AACTTAACTAATATAAT
1 AACTAAACTAATAGAAT
92863333 A
1 A
92863334 GTAATATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (17 bp):
AACTAAACTAATAGAAT
Found at i:92867326 original size:19 final size:20
Alignment explanation
Indices: 92867302--92867340 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
92867292 GGGTTAGTAA
*
92867302 TGGTATCGGTACCTA-ACCT
1 TGGTATCGATACCTATACCT
92867321 TGGTATCGATACCTATACCT
1 TGGTATCGATACCTATACCT
92867341 AGATTTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (20 bp):
TGGTATCGATACCTATACCT
Found at i:92869058 original size:40 final size:40
Alignment explanation
Indices: 92869014--92869093 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
92869004 ATTTTTTTTT
*
92869014 TTAATTTAAAAAGTAGAGCAACTAAATCCCTATAATTAAA
1 TTAATTTAAAAAGTAGAGCAACTAAATCCCTATAAATAAA
* *
92869054 TTAATTTAAAAAGTAGAGCGACTAAATTCCTATAAATAAA
1 TTAATTTAAAAAGTAGAGCAACTAAATCCCTATAAATAAA
92869094 AGTAGTGAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (40 bp):
TTAATTTAAAAAGTAGAGCAACTAAATCCCTATAAATAAA
Found at i:92870536 original size:33 final size:35
Alignment explanation
Indices: 92870472--92870536 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 35
92870462 CAGGTTAATT
* *
92870472 ATAATATTTTTTTCAATTACATAATTATCAAGTGA
1 ATAATATTTTTTTAAATTACATAAATATCAAGTGA
* *
92870507 ATAA-ATTTTTTTAAATTTCA-AAATGTCAAG
1 ATAATATTTTTTTAAATTACATAAATATCAAG
92870537 ACAATTTGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 8 0.31
34 14 0.54
35 4 0.15
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.45
Consensus pattern (35 bp):
ATAATATTTTTTTAAATTACATAAATATCAAGTGA
Found at i:92875827 original size:38 final size:38
Alignment explanation
Indices: 92875769--92875846 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 38
92875759 AATTGTAGTA
* *
92875769 TATATATTGGATAAACTATCAAAGTAGTTACTTTTGTT
1 TATATATTGGATAAACTATCAAAATAGTCACTTTTGTT
* * * *
92875807 TATATCTTGGGTAAATTATCAAAATTGTCACTTTTGTT
1 TATATATTGGATAAACTATCAAAATAGTCACTTTTGTT
92875845 TA
1 TA
92875847 CCTCAGATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.46
Consensus pattern (38 bp):
TATATATTGGATAAACTATCAAAATAGTCACTTTTGTT
Found at i:92880623 original size:26 final size:25
Alignment explanation
Indices: 92880587--92880644 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 25
92880577 TTTAAGATAC
*
92880587 ATAATAAAACAAATTTGAATAAACA
1 ATAATAAAACAAATTAGAATAAACA
* *
92880612 ATACATAAAACAAGTTAGAATAAATA
1 ATA-ATAAAACAAATTAGAATAAACA
92880638 ATAATAA
1 ATAATAA
92880645 TTTGAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.24
Consensus pattern (25 bp):
ATAATAAAACAAATTAGAATAAACA
Found at i:92890803 original size:33 final size:36
Alignment explanation
Indices: 92890726--92890801 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
92890716 CCTGTAAGAA
* *
92890726 ATTATTAATAATATTTTTAAATTATAATATATTAAT
1 ATTATTAATAATAGTTTTAAACTATAATATATTAAT
*
92890762 ATTATTAATAATAGTTTTAAACTATAATGTATTAAT
1 ATTATTAATAATAGTTTTAAACTATAATATATTAAT
92890798 ATTA
1 ATTA
92890802 ATATTTATAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (36 bp):
ATTATTAATAATAGTTTTAAACTATAATATATTAAT
Found at i:92890934 original size:17 final size:18
Alignment explanation
Indices: 92890893--92890935 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
92890883 AAATTAGTTA
92890893 AATATTTTTATTTACATT
1 AATATTTTTATTTACATT
92890911 AAT-TTTTTAATTTA-A-T
1 AATATTTTT-ATTTACATT
92890927 AATATTTTT
1 AATATTTTT
92890936 TGAAGAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.17
17 11 0.48
18 8 0.35
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
AATATTTTTATTTACATT
Found at i:92893736 original size:100 final size:100
Alignment explanation
Indices: 92893563--92893762 Score: 391
Period size: 100 Copynumber: 2.0 Consensus size: 100
92893553 CTGCTGGTTC
92893563 CGCAAGAGAGGTCTACTATATTGCTTCATATTTACTATTACTCTTGATAGTGGAAAGAATATTAA
1 CGCAAGAGAGGTCTACTATATTGCTTCATATTTACTATTACTCTTGATAGTGGAAAGAATATTAA
*
92893628 CCATATGAATTCTTTTGTATATCAATTTCTTTTTT
66 CCATATGAATTCTTTTATATATCAATTTCTTTTTT
92893663 CGCAAGAGAGGTCTACTATATTGCTTCATATTTACTATTACTCTTGATAGTGGAAAGAATATTAA
1 CGCAAGAGAGGTCTACTATATTGCTTCATATTTACTATTACTCTTGATAGTGGAAAGAATATTAA
92893728 CCATATGAATTCTTTTATATATCAATTTCTTTTTT
66 CCATATGAATTCTTTTATATATCAATTTCTTTTTT
92893763 TCTTTTTTTT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (100 bp):
CGCAAGAGAGGTCTACTATATTGCTTCATATTTACTATTACTCTTGATAGTGGAAAGAATATTAA
CCATATGAATTCTTTTATATATCAATTTCTTTTTT
Found at i:92894011 original size:35 final size:35
Alignment explanation
Indices: 92893965--92894034 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
92893955 AGGTATAAGC
92893965 TAAGTATAATTTCAAACATTAGTTCTGTGTTTTGT
1 TAAGTATAATTTCAAACATTAGTTCTGTGTTTTGT
92894000 TAAGTATAATTTCAAACATTAGTTCTGTGTTTTGT
1 TAAGTATAATTTCAAACATTAGTTCTGTGTTTTGT
92894035 CTGTATGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.49
Consensus pattern (35 bp):
TAAGTATAATTTCAAACATTAGTTCTGTGTTTTGT
Found at i:92899777 original size:15 final size:14
Alignment explanation
Indices: 92899755--92899796 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
92899745 TTTTATTTGA
92899755 TTTTTATATAATTT
1 TTTTTATATAATTT
*
92899769 TTATTTATATAGTTT
1 TT-TTTATATAATTT
92899784 TTTTATATATAAT
1 TTTT-TATATAAT
92899797 CGTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TTTTTATATAATTT
Done.