Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 34 of 310
Found at i:9486889 original size:27 final size:28
Alignment explanation
Indices: 9486837--9486906 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
9486827 GTGACAGAGT
* *
9486837 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTATGTGGCAGGGC
9486866 CACCAGAACAGATA-TATGTGGCAGGGC
1 CACCAGAACAGATATTATGTGGCAGGGC
9486893 CACCAGAACAGATA
1 CACCAGAACAGATA
9486907 ATTTATGGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 25 0.64
28 7 0.18
29 7 0.18
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (28 bp):
CACCAGAACAGATATTATGTGGCAGGGC
Found at i:9486924 original size:28 final size:27
Alignment explanation
Indices: 9486837--9486926 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
9486827 GTGACAGAGT
*
9486837 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* *
9486866 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
9486893 CACCAGAACAGATAATTTATGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
9486921 CACCAG
1 CACCAG
9486927 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 24 0.45
28 22 0.42
29 7 0.13
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:9487079 original size:28 final size:28
Alignment explanation
Indices: 9487032--9487096 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
9487022 AAATTAACCG
*
9487032 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
9487060 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
9487088 TAGGGGTAT
1 TAGGGGTAT
9487097 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:9491002 original size:28 final size:28
Alignment explanation
Indices: 9490945--9491042 Score: 97
Period size: 28 Copynumber: 3.5 Consensus size: 28
9490935 GATGTCTCGC
* * * * *
9490945 ACACTATGTACCATACTCGATACCTCGT
1 ACACTAAGTGCCATCCTCGATACTTTGT
* * * **
9490973 ACACTAAGTGCTATTCTGGATGTTTTGT
1 ACACTAAGTGCCATCCTCGATACTTTGT
*
9491001 ACACTAAGTGCCATCCTCGATACTTTGC
1 ACACTAAGTGCCATCCTCGATACTTTGT
9491029 ACACTAAGTGCCAT
1 ACACTAAGTGCCAT
9491043 TTATGTGACA
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (28 bp):
ACACTAAGTGCCATCCTCGATACTTTGT
Found at i:9492697 original size:40 final size:40
Alignment explanation
Indices: 9492638--9492855 Score: 330
Period size: 40 Copynumber: 5.5 Consensus size: 40
9492628 CGGATGACAA
*
9492638 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
9492678 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
9492718 CTGGGCTAAGTCCTGAAGGCATTTGTGCGAGTCACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
9492758 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* ** *
9492798 CCGGGCTAAGTCCCGAAGGCAGTTGAACGAGTAACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
9492838 CC-GGATAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
9492856 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 14 0.09
40 149 0.91
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:9500635 original size:40 final size:40
Alignment explanation
Indices: 9500579--9500716 Score: 199
Period size: 40 Copynumber: 3.5 Consensus size: 40
9500569 CGGATGACAA
*
9500579 CCGGGCTAAGTACCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
9500619 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * **
9500659 CCGGGCTAAGTCCCAAAGGCAGTTGAACGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
9500699 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
9500717 TACTTGGTTT
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.18
40 74 0.82
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:9506924 original size:49 final size:48
Alignment explanation
Indices: 9506844--9506974 Score: 145
Period size: 49 Copynumber: 2.7 Consensus size: 48
9506834 GGTTCATATG
* * *
9506844 CCGACGCCATGTCCCAGACATGGTCTTACACTAGCTTTTATATAGCGAGA
1 CCGATGCCATGTCCCAGACA-GGTCTTACACTAGCTCTCATATAGCG-GA
* * * * *
9506894 CCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCATCTATCGGT
1 CCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATAGCGGA
* *
9506942 CTTGATGCCATGTCACAGACAGGTCTTACACTA
1 C-CGATGCCATGTCCCAGACAGGTCTTACACTA
9506975 ACGCAGCACA
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
48 2 0.03
49 48 0.71
50 18 0.26
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATAGCGGA
Found at i:9507148 original size:48 final size:46
Alignment explanation
Indices: 9507002--9507208 Score: 159
Period size: 46 Copynumber: 4.4 Consensus size: 46
9506992 GCCATATTCC
* * * *
9507002 AGACAGGTCTTACACTAGCTTGTATATCGTGAGGTCAATGCATGTCCT
1 AGACATGTCTTACACTAGC-T-TATATCTTGAGGCCGATGCATGTCCT
** ** * * *
9507050 AGACATGTCTTACACTAGCTCT-CGTCTCAATGCCGATGCATGGCCC
1 AGACATGTCTTACACTAGCT-TATATCTTGAGGCCGATGCATGTCCT
*
9507096 AGACATGTCTTACACTGGCTTAAATATCTTGAGGCCGATGCATGTCCT
1 AGACATGTCTTACACTAGCTT--ATATCTTGAGGCCGATGCATGTCCT
* * * ** *
9507144 AGACATGTCTTACACTGGCTCTCAT-GC-TGTGGCTAATGCATGTCCA
1 AGACATGTCTTACACTAGCT-T-ATATCTTGAGGCCGATGCATGTCCT
*
9507190 AGACATTTCTTACACTAGC
1 AGACATGTCTTACACTAGC
9507209 ACACATATCA
Statistics
Matches: 127, Mismatches: 28, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
45 1 0.01
46 65 0.51
47 3 0.02
48 57 0.45
49 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (46 bp):
AGACATGTCTTACACTAGCTTATATCTTGAGGCCGATGCATGTCCT
Found at i:9507183 original size:94 final size:93
Alignment explanation
Indices: 9507000--9507208 Score: 249
Period size: 94 Copynumber: 2.2 Consensus size: 93
9506990 ATGCCATATT
* ** *
9507000 CCAGACAGGTCTTACACTAGCTTGTATATCGTGAGGTCAATGCATGTCCTAGACATGTCTTACAC
1 CCAGACATGTCTTACACTAGCTTAAATATCGTGAGGCCAATGCATGTCCTAGACATGTCTTACAC
* *
9507065 TAGCTCTCGTCTCAATGCCGATGCATGGC
66 TAGCTCTCATCT-AATGCCAATGCATGGC
* * *
9507094 CCAGACATGTCTTACACTGGCTTAAATATCTTGAGGCCGATGCATGTCCTAGACATGTCTTACAC
1 CCAGACATGTCTTACACTAGCTTAAATATCGTGAGGCCAATGCATGTCCTAGACATGTCTTACAC
* * * *
9507159 TGGCTCTCATGCT-GTGGCTAATGCATGTC
66 TAGCTCTCAT-CTAAT-GCCAATGCATGGC
* *
9507188 CAAGACATTTCTTACACTAGC
1 CCAGACATGTCTTACACTAGC
9507209 ACACATATCA
Statistics
Matches: 97, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
93 1 0.01
94 94 0.97
95 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (93 bp):
CCAGACATGTCTTACACTAGCTTAAATATCGTGAGGCCAATGCATGTCCTAGACATGTCTTACAC
TAGCTCTCATCTAATGCCAATGCATGGC
Found at i:9509131 original size:33 final size:33
Alignment explanation
Indices: 9509094--9509175 Score: 137
Period size: 33 Copynumber: 2.5 Consensus size: 33
9509084 TGCTTGAAAC
*
9509094 ACATACCAAATCATATCATTCCATAAGCAAAAA
1 ACATACCAAATTATATCATTCCATAAGCAAAAA
*
9509127 ACATACCAAATTATATCATTCCATAAGCCAAAA
1 ACATACCAAATTATATCATTCCATAAGCAAAAA
*
9509160 GCATACCAAATTATAT
1 ACATACCAAATTATAT
9509176 GATTTATAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.49, C:0.23, G:0.04, T:0.24
Consensus pattern (33 bp):
ACATACCAAATTATATCATTCCATAAGCAAAAA
Found at i:9510033 original size:42 final size:42
Alignment explanation
Indices: 9509925--9510082 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 42
9509915 AGCTCGTACA
***
9509925 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAATA-CG
** *
9509968 ATGCCATTGT-CCAGACAGGGGTCTTACACAAAATCAAATACG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACAAAATCAAATACG
* *
9510010 ATGCCAACATCCCAGACGTGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACGTGGTCTTACAC-AAAATCA-AA-TACG
* * *
9510054 ATGCCAATGTCACAGATGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
9510083 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:9517586 original size:20 final size:22
Alignment explanation
Indices: 9517561--9517601 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
9517551 TTATTTTCAC
9517561 TATTTTA-AATATAA-AAATTT
1 TATTTTATAATATAATAAATTT
*
9517581 TATTTTATATTATAATAAATT
1 TATTTTATAATATAATAAATT
9517602 AAAATTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 6 0.33
22 5 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TATTTTATAATATAATAAATTT
Found at i:9521692 original size:23 final size:23
Alignment explanation
Indices: 9521666--9521710 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
9521656 GGGGGATGGT
*
9521666 AGTGGGGGAGGTCCGGTGGGGGG
1 AGTGGGAGAGGTCCGGTGGGGGG
9521689 AGTGGGAGAGGTCCGGTGGGGG
1 AGTGGGAGAGGTCCGGTGGGGG
9521711 AGGTTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.11, C:0.09, G:0.67, T:0.13
Consensus pattern (23 bp):
AGTGGGAGAGGTCCGGTGGGGGG
Found at i:9531583 original size:18 final size:18
Alignment explanation
Indices: 9531525--9531585 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
9531515 AGTGTAGATG
*
9531525 AAAAAAATAATGATATTT
1 AAAATAATAATGATATTT
* * * *
9531543 GAAAT-AT-TTTATATATA
1 AAAATAATAATGATAT-TT
9531560 AAAATAATAATGATATTT
1 AAAATAATAATGATATTT
9531578 AAAATAAT
1 AAAATAAT
9531586 TATTTTATTT
Statistics
Matches: 31, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
16 5 0.16
17 7 0.23
18 14 0.45
19 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATAATAATGATATTT
Found at i:9535885 original size:38 final size:38
Alignment explanation
Indices: 9535834--9535909 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
9535824 GTAATGATCT
* * *
9535834 TTCCTAGTGGCCTTGTTTAACTTCGTATAATTCCTACA
1 TTCCTAGTAGCCTTGTTTAACTTCCTATAAGTCCTACA
*
9535872 TTCCTAGTAGCCTTGTTTAACTTCCTGTAAGTCCTACA
1 TTCCTAGTAGCCTTGTTTAACTTCCTATAAGTCCTACA
9535910 AATCCTTCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.41
Consensus pattern (38 bp):
TTCCTAGTAGCCTTGTTTAACTTCCTATAAGTCCTACA
Found at i:9539018 original size:21 final size:20
Alignment explanation
Indices: 9538994--9539039 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
9538984 CGGAATGCAA
9538994 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
9539015 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
9539035 T-AACC
1 TCAACC
9539040 ATTTTAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:9542422 original size:18 final size:19
Alignment explanation
Indices: 9542401--9542454 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 19
9542391 TAAAATAGAC
* *
9542401 ATAACAAGAAGAATAAAA-
1 ATAAAAAGAAAAATAAAAG
*
9542419 ATAAAAATAAAAATAAAAG
1 ATAAAAAGAAAAATAAAAG
* *
9542438 ATAAAAATAAACATAAA
1 ATAAAAAGAAAAATAAA
9542455 CATGAACATA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.15
Consensus pattern (19 bp):
ATAAAAAGAAAAATAAAAG
Found at i:9542423 original size:6 final size:6
Alignment explanation
Indices: 9542412--9542471 Score: 75
Period size: 6 Copynumber: 9.8 Consensus size: 6
9542402 TAACAAGAAG
* * *
9542412 AATAAA AATAAA AATAAA AATAAA AGATAAA AATAAA CATAAA CATGAA
1 AATAAA AATAAA AATAAA AATAAA A-ATAAA AATAAA AATAAA AATAAA
*
9542461 CATAAA AATAA
1 AATAAA AATAA
9542472 TTGGACTCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
6 43 0.88
7 6 0.12
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:9543852 original size:8 final size:8
Alignment explanation
Indices: 9543839--9543867 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
9543829 TAAAAAAAAG
9543839 TAAATAAT
1 TAAATAAT
9543847 TAAATAAT
1 TAAATAAT
9543855 TAAATAAT
1 TAAATAAT
9543863 TAAAT
1 TAAAT
9543868 TAAATCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAAATAAT
Found at i:9544951 original size:196 final size:196
Alignment explanation
Indices: 9544677--9545088 Score: 500
Period size: 196 Copynumber: 2.1 Consensus size: 196
9544667 CTCATCATAC
** * * *
9544677 GGCCTAGGACATGCCTGTGTGTCCAGGCCGTGTAGTTCACACAACCTTATCCCACGGCTGTGTGC
1 GGCCTAGGACACACCCGTGTGTCCAGGCCGTGTAGTTCACACAACCGTATCCCACGGCCGTGTGC
* ** * * ** * * *
9544742 TATGTTGTTCGCTTCTCCCATACCCGTATGGTCTTTCATACGCCCATATGTCTGAACACACGGCC
66 TACGTCATTCGCTTCTCCCATACCCATATGGTATCCCACACGCCCATATATCAGAACACACGGCC
* * * * * *
9544807 ATGTGCTTCGCCCGTGGAGCTCTCTGACTTGTTTAAAATTTGAAAATTAATCTTCAGTTTTCACA
131 ATGTACCTCACCCGTGGAGCTCTCTGACTTGTTTAAAATTTAAAAATTAAGCTCCAGTTTTCACA
9544872 T
196 T
* * * * ** *
9544873 GGCCTAGGACACCCCCGTGTGTCTAGGCTGTGTAGTTTACACGGCCGTATCGCACGGCCGTGTGC
1 GGCCTAGGACACACCCGTGTGTCCAGGCCGTGTAGTTCACACAACCGTATCCCACGGCCGTGTGC
* * * * *
9544938 TACGTCATTCGCTTCTCCCATGCCCATGTGGTATCCCACATGCCCGTGTATCAGAACACACGGCC
66 TACGTCATTCGCTTCTCCCATACCCATATGGTATCCCACACGCCCATATATCAGAACACACGGCC
* * *
9545003 ATGTACCTCACCTGTGGAGCTCTCTGACTTGTTTTAAATTTAAAAATTTAGCTCCAGTTTTCACA
131 ATGTACCTCACCCGTGGAGCTCTCTGACTTGTTTAAAATTTAAAAATTAAGCTCCAGTTTTCACA
9545068 T
196 T
9545069 GGCCTAGGACACACCCGTGT
1 GGCCTAGGACACACCCGTGT
9545089 CGCCAAGCTG
Statistics
Matches: 180, Mismatches: 36, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
196 180 1.00
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.30
Consensus pattern (196 bp):
GGCCTAGGACACACCCGTGTGTCCAGGCCGTGTAGTTCACACAACCGTATCCCACGGCCGTGTGC
TACGTCATTCGCTTCTCCCATACCCATATGGTATCCCACACGCCCATATATCAGAACACACGGCC
ATGTACCTCACCCGTGGAGCTCTCTGACTTGTTTAAAATTTAAAAATTAAGCTCCAGTTTTCACA
T
Found at i:9553898 original size:18 final size:18
Alignment explanation
Indices: 9553875--9553910 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
9553865 CTGGAAAGTA
9553875 AACTTACCGGTTAATTAG
1 AACTTACCGGTTAATTAG
9553893 AACTTACCGGTTAATTAG
1 AACTTACCGGTTAATTAG
9553911 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:9565433 original size:19 final size:19
Alignment explanation
Indices: 9565375--9565435 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
9565365 CAAATATCAT
9565375 TATTTACTAAAAAT-A-AA
1 TATTTACTAAAAATAATAA
* * *
9565392 TATTACACATAAAAA-AGTTA
1 TATT-TAC-TAAAAATAATAA
9565412 TATTTACTAAAAATAATAA
1 TATTTACTAAAAATAATAA
9565431 TATTT
1 TATTT
9565436 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:9565475 original size:20 final size:18
Alignment explanation
Indices: 9565443--9565481 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
9565433 TTTGACAATA
9565443 ATTATTTGATTTATCAAAT
1 ATTATTTGATTTAT-AAAT
9565462 ATTATTTGATTTTATAAAT
1 ATTATTTGA-TTTATAAAT
9565481 A
1 A
9565482 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:9566842 original size:18 final size:18
Alignment explanation
Indices: 9566821--9566866 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
9566811 GTCGTGTGGG
* *
9566821 CCACATGGGCTTGTAGAT
1 CCACACGGGCTTGTAGAC
9566839 CCACACGGGCTTGTAGAC
1 CCACACGGGCTTGTAGAC
9566857 CCACACGGGC
1 CCACACGGGC
9566867 AGACCATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.22, C:0.33, G:0.28, T:0.17
Consensus pattern (18 bp):
CCACACGGGCTTGTAGAC
Found at i:9577581 original size:78 final size:79
Alignment explanation
Indices: 9577451--9577607 Score: 253
Period size: 78 Copynumber: 2.0 Consensus size: 79
9577441 GCTGATACAT
* * * *
9577451 CTCTATGTTACTCTGTTGATGAATAATATGCAATATCTAAATATGTTGGATTGATGGTTACTGAT
1 CTCTACGTTACTCTGTTGATGAAGAATATACAATATCTAAATATGTTAGATTGATGGTTACTGAT
9577516 T-TGATTTATAACC
66 TCTGATTTATAACC
* *
9577529 CTCTACGTTACTCTGTTGATGAAGAATATACGATATCTAAATATGTTAGATTGATTGTTACTGAT
1 CTCTACGTTACTCTGTTGATGAAGAATATACAATATCTAAATATGTTAGATTGATGGTTACTGAT
9577594 TCTGATTTATAACC
66 TCTGATTTATAACC
9577608 GTGCATGTGA
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 60 0.83
79 12 0.17
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (79 bp):
CTCTACGTTACTCTGTTGATGAAGAATATACAATATCTAAATATGTTAGATTGATGGTTACTGAT
TCTGATTTATAACC
Found at i:9578129 original size:15 final size:15
Alignment explanation
Indices: 9578111--9578159 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
9578101 TCTACTCTGC
9578111 TCTGTTCTCTTATGT
1 TCTGTTCTCTTATGT
*
9578126 TCTGCTCTGCTT-TGT
1 TCTGTTCT-CTTATGT
* *
9578141 TCTATTCTCTTATTT
1 TCTGTTCTCTTATGT
9578156 TCTG
1 TCTG
9578160 CTCTGTCCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
14 3 0.11
15 21 0.78
16 3 0.11
ACGTcount: A:0.06, C:0.22, G:0.12, T:0.59
Consensus pattern (15 bp):
TCTGTTCTCTTATGT
Found at i:9579504 original size:39 final size:41
Alignment explanation
Indices: 9579457--9579547 Score: 105
Period size: 41 Copynumber: 2.3 Consensus size: 41
9579447 TTGTTCTGTG
9579457 TATTAGTAATA-CTA-ATACATTATAATATATTATATTATA
1 TATTAGTAATAGCTATATACATTATAATATATTATATTATA
* * * ** * *
9579496 TATTAGTAATAGTTATTTATATTATTTTATTTTATTTTATA
1 TATTAGTAATAGCTATATACATTATAATATATTATATTATA
9579537 TATTAGTAATA
1 TATTAGTAATA
9579548 TATTAATTTA
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:9580307 original size:32 final size:31
Alignment explanation
Indices: 9580271--9580394 Score: 126
Period size: 32 Copynumber: 3.9 Consensus size: 31
9580261 GGTCAAAAGA
9580271 ATTTTTTACCAACTTTTAAGGGACCCAAAAAT
1 ATTTTTT-CCAACTTTTAAGGGACCCAAAAAT
* * *
9580303 ATTTTTT-TAGCTTTTAAGGGCCCCAAAAAT
1 ATTTTTTCCAACTTTTAAGGGACCCAAAAAT
* * *
9580333 TTTTTTTACCAACTTTTAAGGTACCTAAAAAT
1 ATTTTTT-CCAACTTTTAAGGGACCCAAAAAT
* *
9580365 -TTTTTTCTCTAACTTTTAAGGAACCTAAAA
1 ATTTTTTC-C-AACTTTTAAGGGACCCAAAA
9580395 CCTCGTGTTA
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
30 27 0.35
31 7 0.09
32 44 0.56
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (31 bp):
ATTTTTTCCAACTTTTAAGGGACCCAAAAAT
Found at i:9583097 original size:24 final size:26
Alignment explanation
Indices: 9583070--9583119 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
9583060 GCAAGATTTC
9583070 TTTCTT-GTGATTTT-TAAAAGTAGT
1 TTTCTTCGTGATTTTCTAAAAGTAGT
* *
9583094 TTTCTTCTTGATTTTCTACAAGTAGT
1 TTTCTTCGTGATTTTCTAAAAGTAGT
9583120 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:9598913 original size:41 final size:41
Alignment explanation
Indices: 9598856--9599005 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
9598846 TCGGGGTTTA
9598856 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
9598897 AATCCGAGCTTGGTCTCGAAGGGCTTTTAAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
9598938 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
9598978 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
9599006 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:9601186 original size:20 final size:20
Alignment explanation
Indices: 9601163--9601201 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
9601153 GATATACTAT
9601163 GATTTGA-AATGATATGATTC
1 GATTTGATAA-GATATGATTC
9601183 GATTTGATAAGATATGATT
1 GATTTGATAAGATATGATT
9601202 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:9602943 original size:13 final size:13
Alignment explanation
Indices: 9602925--9602951 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9602915 GCTCGGCAGG
9602925 GACACGCCCGTGT
1 GACACGCCCGTGT
9602938 GACACGCCCGTGT
1 GACACGCCCGTGT
9602951 G
1 G
9602952 CGATTACTCC
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:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:9603726 original size:14 final size:14
Alignment explanation
Indices: 9603703--9603732 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9603693 TTTTTTTTTG
*
9603703 AAACATAAATTGAA
1 AAACAAAAATTGAA
9603717 AAACAAAAATTGAA
1 AAACAAAAATTGAA
9603731 AA
1 AA
9603733 TACCTCAGCG
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:9603833 original size:89 final size:89
Alignment explanation
Indices: 9603560--9604075 Score: 784
Period size: 89 Copynumber: 5.8 Consensus size: 89
9603550 TATCCTCCGT
* * * * * *
9603560 GTGTGACCTGATACTCAACTCACCTCACGCAATATAAGTTGATTTTTTTTG-GAAAATAAATTAA
1 GTGTTACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAG-ACATAAATTGA
* *
9603624 AAAACAGAAATTGAAAATACTTCAGC
64 AAAACAAAAATTGAAAATACCTCAGC
* * * *
9603650 GTCTTACCTGGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAACATAAATTG
1 GTGTTACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAGACATAAATTG
9603715 AAAAACAAAAATTGAAAATACCTCAGC
63 AAAAACAAAAATTGAAAATACCTCAGC
*
9603742 GTGTTACCTGAGACTCAACTCACGTCTCGCAATATGAGTTGATTTTTTTGAGACATAAATTGAAA
1 GTGTTACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAGACATAAATTGAAA
9603807 AACAAAAATTGAAAATACCTCAGC
66 AACAAAAATTGAAAATACCTCAGC
*
9603831 GTGTTACCTGAGACTCAACTCACGTCTCGCAATATGAGTTGATTTTTTTGAGACATAAATTGAAA
1 GTGTTACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAGACATAAATTGAAA
9603896 AACAAAAATTGAAAATACCTCAGC
66 AACAAAAATTGAAAATACCTCAGC
*
9603920 GTGTTACCTGAGACTCAACTCACGTCTCGCAATATGAGTTGATTTTTTTGAGACATAAATTGAAA
1 GTGTTACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAGACATAAATTGAAA
9603985 AACAAAAATTGAAAATACCTCAGC
66 AACAAAAATTGAAAATACCTCAGC
* * * * *
9604009 GTGTGACCT-AAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAGAAACATACATTGAA
1 GTGTTACCTGAGA-CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAGACATAAATTGAA
9604073 AAA
65 AAA
9604076 TTGAAATAAA
Statistics
Matches: 399, Mismatches: 23, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
88 2 0.01
89 282 0.71
90 35 0.09
92 80 0.20
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (89 bp):
GTGTTACCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAGACATAAATTGAAA
AACAAAAATTGAAAATACCTCAGC
Found at i:9604964 original size:42 final size:42
Alignment explanation
Indices: 9604860--9604971 Score: 161
Period size: 42 Copynumber: 2.7 Consensus size: 42
9604850 CATTAAGACG
* * * *
9604860 CCTTTTCGGGTTTTTATCCTAATCTTTTGTTTATCAAGACAC
1 CCTTTCCGGGTTTTCATCTTGATCTTTTGTTTATCAAGACAC
*
9604902 CCTTTCCGGGTTTTCATCTTGATCTTTTGTTTATCAAGACTC
1 CCTTTCCGGGTTTTCATCTTGATCTTTTGTTTATCAAGACAC
* *
9604944 CCTTTCTGGGTTTTCGTCTTGATCTTTT
1 CCTTTCCGGGTTTTCATCTTGATCTTTT
9604972 TTTCTTTTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.13, C:0.22, G:0.14, T:0.50
Consensus pattern (42 bp):
CCTTTCCGGGTTTTCATCTTGATCTTTTGTTTATCAAGACAC
Found at i:9615617 original size:46 final size:46
Alignment explanation
Indices: 9615577--9615668 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
9615567 AAAAATACTG
9615577 ATAATGCTACTTATAAATATACATGATAATAGTATTAAAAACTATA
1 ATAATGCTACTTATAAATATACATGATAATAGTATTAAAAACTATA
9615623 ATAATGCTACTTATAAATATACATGATAATAGTATTAAAAACTATA
1 ATAATGCTACTTATAAATATACATGATAATAGTATTAAAAACTATA
9615669 TACATAATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.35
Consensus pattern (46 bp):
ATAATGCTACTTATAAATATACATGATAATAGTATTAAAAACTATA
Found at i:9615622 original size:25 final size:25
Alignment explanation
Indices: 9615594--9615668 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
9615584 TACTTATAAA
9615594 TATACATGATAATAGTATTAAAAAC
1 TATACATGATAATAGTATTAAAAAC
*
9615619 TAT--A--ATAAT-GCTACTTATAAA-
1 TATACATGATAATAG-TA-TTAAAAAC
9615640 TATACATGATAATAGTATTAAAAAC
1 TATACATGATAATAGTATTAAAAAC
9615665 TATA
1 TATA
9615669 TACATAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 16
0.69 0.03 0.28
Matches are distributed among these distances:
20 1 0.03
21 10 0.25
22 6 0.15
23 2 0.05
24 6 0.15
25 14 0.35
26 1 0.03
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.35
Consensus pattern (25 bp):
TATACATGATAATAGTATTAAAAAC
Found at i:9615687 original size:46 final size:46
Alignment explanation
Indices: 9615584--9615689 Score: 144
Period size: 46 Copynumber: 2.3 Consensus size: 46
9615574 CTGATAATGC
* **
9615584 TACTTATAAATATACATGATAATAGTATTAAAAACTATAATAATGC
1 TACTTAAAAATATACATGATAATAGTATTAAAAACTATAATAATAA
*
9615630 TACTTATAAATATACATGATAATAGTATTAAAAACTAT-ATACATAA
1 TACTTAAAAATATACATGATAATAGTATTAAAAACTATAATA-ATAA
9615676 TA-TATAAAAATATA
1 TACT-TAAAAATATA
9615690 ATATTAAAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
45 4 0.07
46 51 0.93
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.35
Consensus pattern (46 bp):
TACTTAAAAATATACATGATAATAGTATTAAAAACTATAATAATAA
Found at i:9615692 original size:15 final size:15
Alignment explanation
Indices: 9615672--9615713 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
9615662 AACTATATAC
9615672 ATAATATATAAAAAT
1 ATAATATATAAAAAT
9615687 ATAATAT-T-AAAAT
1 ATAATATATAAAAAT
*
9615700 ATATATACATAAAA
1 ATA-ATATATAAAA
9615714 GGGTAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 8 0.35
14 4 0.17
15 8 0.35
16 3 0.13
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATATATAAAAAT
Found at i:9615826 original size:18 final size:19
Alignment explanation
Indices: 9615803--9615843 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
9615793 AATAAGGTAT
*
9615803 ATAAAATAATTTAAAATA-
1 ATAAAACAATTTAAAATAG
*
9615821 ATAAAACAATTTTAAATAG
1 ATAAAACAATTTAAAATAG
9615840 ATAA
1 ATAA
9615844 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:9616919 original size:21 final size:21
Alignment explanation
Indices: 9616875--9616919 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
9616865 TTGATATGGG
* * **
9616875 TTGTAGTTTGGGTTTTAATTT
1 TTGTAATTTGGATTTTAAAAT
9616896 TTGTAATTTGGATTTTAAAAT
1 TTGTAATTTGGATTTTAAAAT
9616917 TTG
1 TTG
9616920 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:9617128 original size:19 final size:19
Alignment explanation
Indices: 9617106--9617152 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
9617096 ATGTTATGTG
*
9617106 ATGAATTATTATTTATTTT
1 ATGAATTATTATTTACTTT
9617125 ATGATATT-TTATTTACTTT
1 ATGA-ATTATTATTTACTTT
*
9617144 ATAAATTAT
1 ATGAATTAT
9617153 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:9620783 original size:14 final size:14
Alignment explanation
Indices: 9620762--9620832 Score: 106
Period size: 14 Copynumber: 5.1 Consensus size: 14
9620752 ATAGAAATAT
9620762 AGATACAAATATAC
1 AGATACAAATATAC
* *
9620776 GGAAACAAATATAC
1 AGATACAAATATAC
*
9620790 AGATACAGATATAC
1 AGATACAAATATAC
9620804 AGATACAAATATAC
1 AGATACAAATATAC
*
9620818 AGATACAAAAATAC
1 AGATACAAATATAC
9620832 A
1 A
9620833 AATATTGATA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 50 1.00
ACGTcount: A:0.58, C:0.14, G:0.10, T:0.18
Consensus pattern (14 bp):
AGATACAAATATAC
Found at i:9620808 original size:42 final size:42
Alignment explanation
Indices: 9620742--9620832 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 42
9620732 ATACCACCCC
* * * *
9620742 ATATATAGATATAGAAATATAGATACAAATATACGGAAACAA
1 ATATACAGATACAGAAATACAGATACAAATATACAGAAACAA
* *
9620784 ATATACAGATACAGATATACAGATACAAATATACAGATACAA
1 ATATACAGATACAGAAATACAGATACAAATATACAGAAACAA
*
9620826 AAATACA
1 ATATACA
9620833 AATATTGATA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.57, C:0.11, G:0.10, T:0.22
Consensus pattern (42 bp):
ATATACAGATACAGAAATACAGATACAAATATACAGAAACAA
Found at i:9620831 original size:22 final size:22
Alignment explanation
Indices: 9620792--9620837 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
9620782 AAATATACAG
* * *
9620792 ATACAGATATACAGATACAAAT
1 ATACAGATACAAAAATACAAAT
9620814 ATACAGATACAAAAATACAAAT
1 ATACAGATACAAAAATACAAAT
9620836 AT
1 AT
9620838 TGATACATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.13, G:0.07, T:0.22
Consensus pattern (22 bp):
ATACAGATACAAAAATACAAAT
Found at i:9623227 original size:17 final size:18
Alignment explanation
Indices: 9623205--9623239 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9623195 ATTTGGGCTA
9623205 TGTGGGC-CACACGGGCG
1 TGTGGGCTCACACGGGCG
*
9623222 TGTGGGCTCACATGGGCG
1 TGTGGGCTCACACGGGCG
9623240 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:9632496 original size:25 final size:25
Alignment explanation
Indices: 9632458--9632526 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
9632448 ATGTTCATAC
* *
9632458 GAGCTGTA-AACGGGAAGCTCCTCT
1 GAGCTGAATAACGGGAAGCTCATCT
*
9632482 GAGCTGAATAACGGGAAGCTCATGT
1 GAGCTGAATAACGGGAAGCTCATCT
*
9632507 GAGCTAAATAACGGGAAGCT
1 GAGCTGAATAACGGGAAGCT
9632527 TATGTGCGCT
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:9632531 original size:25 final size:25
Alignment explanation
Indices: 9632466--9632538 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
9632456 ACGAGCTGTA
* * *
9632466 AACGGGAAGCTCCTCTGAGCTGAAT
1 AACGGGAAGCTCATGTGAGCTAAAT
9632491 AACGGGAAGCTCATGTGAGCTAAAT
1 AACGGGAAGCTCATGTGAGCTAAAT
* *
9632516 AACGGGAAGCTTATGTGCGCTAA
1 AACGGGAAGCTCATGTGAGCTAA
9632539 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:0.19, G:0.29, T:0.21
Consensus pattern (25 bp):
AACGGGAAGCTCATGTGAGCTAAAT
Found at i:9634081 original size:41 final size:41
Alignment explanation
Indices: 9634036--9634117 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
9634026 AGTATTACCA
9634036 AAATTTAAAATTTTACCCATGATATATATTTGTGTATAATG
1 AAATTTAAAATTTTACCCATGATATATATTTGTGTATAATG
9634077 AAATTTAAAATTTTACCCATGATATATATTTGTGTATAATG
1 AAATTTAAAATTTTACCCATGATATATATTTGTGTATAATG
9634118 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:9634126 original size:39 final size:40
Alignment explanation
Indices: 9634042--9634126 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 40
9634032 ACCAAAATTT
**
9634042 AAAATTTTACCCATGATATATATTTGTGTATAATGAAATTT
1 AAAATTTTACCCATGATATATATTTGTGTATAATG-AATAG
*
9634083 AAAATTTTACCCATGATATATATTTGTGTATAATG-GTAG
1 AAAATTTTACCCATGATATATATTTGTGTATAATGAATAG
9634122 AAAAT
1 AAAAT
9634127 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:9642668 original size:24 final size:24
Alignment explanation
Indices: 9642641--9642692 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9642631 TTAGTAAGTC
*
9642641 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
9642665 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
9642689 AAAT
1 AAAT
9642693 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:9643193 original size:27 final size:28
Alignment explanation
Indices: 9643150--9643209 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 28
9643140 TAGTTTCCCC
* * *
9643150 TTATTTTAAATATTTTAATAATTAAATT
1 TTATTTAAAATATTTTAAAAACTAAATT
9643178 TTATTTAAAATA-TTTAAAAACTAAATT
1 TTATTTAAAATATTTTAAAAACTAAATT
9643205 TTATT
1 TTATT
9643210 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:9646775 original size:11 final size:11
Alignment explanation
Indices: 9646759--9646783 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9646749 TTACTCCAAT
9646759 GGGTTTCTTAG
1 GGGTTTCTTAG
9646770 GGGTTTCTTAG
1 GGGTTTCTTAG
9646781 GGG
1 GGG
9646784 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:9649158 original size:12 final size:12
Alignment explanation
Indices: 9649143--9649207 Score: 67
Period size: 12 Copynumber: 5.4 Consensus size: 12
9649133 AATTGGAGGT
9649143 GGTGGTGGAATA
1 GGTGGTGGAATA
* * *
9649155 GGTGGAGGTATT
1 GGTGGTGGAATA
9649167 GGTGGTGGAATA
1 GGTGGTGGAATA
* *
9649179 GGTGGAGGTATA
1 GGTGGTGGAATA
* *
9649191 GGAGGTGGAATT
1 GGTGGTGGAATA
9649203 GGTGG
1 GGTGG
9649208 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:9649183 original size:36 final size:36
Alignment explanation
Indices: 9649143--9649216 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 36
9649133 AATTGGAGGT
* * * *
9649143 GGTGGTGGAATAGGTGGAGGTATTGGTGGTGGAATA
1 GGTGGAGGAATAGGAGGAGGAATTGGTGGAGGAATA
* * *
9649179 GGTGGAGGTATAGGAGGTGGAATTGGTGGAGGCATA
1 GGTGGAGGAATAGGAGGAGGAATTGGTGGAGGAATA
9649215 GG
1 GG
9649217 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:9649215 original size:24 final size:24
Alignment explanation
Indices: 9649146--9649223 Score: 111
Period size: 24 Copynumber: 3.2 Consensus size: 24
9649136 TGGAGGTGGT
* *
9649146 GGTGGAATAGGTGGAGGTATTGGT
1 GGTGGAATAGGTGGAGGTATAGGA
9649170 GGTGGAATAGGTGGAGGTATAGGA
1 GGTGGAATAGGTGGAGGTATAGGA
* *
9649194 GGTGGAATTGGTGGAGGCATAGGA
1 GGTGGAATAGGTGGAGGTATAGGA
*
9649218 GTTGGA
1 GGTGGA
9649224 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:9651996 original size:19 final size:18
Alignment explanation
Indices: 9651972--9652007 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
9651962 TCTCAAGTGA
9651972 TATCCAAATTATACTTAAT
1 TATCCAAATTAT-CTTAAT
9651991 TATCCAAATTATCTTAA
1 TATCCAAATTATCTTAA
9652008 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:9656027 original size:45 final size:45
Alignment explanation
Indices: 9655978--9656067 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
9655968 AAAAACTTCC
*
9655978 AATAAATCACAACCATTGAACATATGGAATTGATTAAAGGATAGT
1 AATAAATCACAACCATTGAACATATGAAATTGATTAAAGGATAGT
9656023 AATAAATCACAACCATTGAACATATGAAATTGATTAAAGGATAGT
1 AATAAATCACAACCATTGAACATATGAAATTGATTAAAGGATAGT
9656068 GTTTATTAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (45 bp):
AATAAATCACAACCATTGAACATATGAAATTGATTAAAGGATAGT
Found at i:9656348 original size:96 final size:96
Alignment explanation
Indices: 9656184--9656374 Score: 301
Period size: 96 Copynumber: 2.0 Consensus size: 96
9656174 TTATGTTGGG
* * *
9656184 AACAACTTTGGAAAGATGGCAGGATTCCTAGGCTGTTCCACTTTTGGGATATGTTATAGAGCATG
1 AACAACGTTGGAAAGATGGCAAGATTCCTAGGCTGTTCCACTTTTGGGATATCTTATAGAGCATG
*
9656249 GCTTGGAAGTTCAGATACGAATATTATTGAA
66 GCTTGGAAGTTCAGATACAAATATTATTGAA
* * *
9656280 AACAACGTTGGAAAGATGGTAAGATTCCTAGGTTGTTCCACTTTTGGGATGTCTTATAGAGCATG
1 AACAACGTTGGAAAGATGGCAAGATTCCTAGGCTGTTCCACTTTTGGGATATCTTATAGAGCATG
* *
9656345 GCTTGGAAGTTCATATACAAATATTTTTGA
66 GCTTGGAAGTTCAGATACAAATATTATTGA
9656375 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:9659998 original size:31 final size:34
Alignment explanation
Indices: 9659935--9659999 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 34
9659925 ATTTATAAAA
*
9659935 TTTTAAATTAATAATAGTAAAATTATACTTTAATCC
1 TTTTAAA-TAATAATAG-AAAATTATAATTTAATCC
9659971 TTTTAAA-AATAATA-AAAATT-TAATTTAAT
1 TTTTAAATAATAATAGAAAATTATAATTTAAT
9660000 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:9665720 original size:17 final size:17
Alignment explanation
Indices: 9665700--9665760 Score: 86
Period size: 17 Copynumber: 3.6 Consensus size: 17
9665690 GCATAAGAAC
9665700 AGTTCATTCAATATAAT
1 AGTTCATTCAATATAAT
* *
9665717 AGTTCATACAATATAAC
1 AGTTCATTCAATATAAT
*
9665734 ATTTCATTCAATATAAT
1 AGTTCATTCAATATAAT
*
9665751 AATTCATTCA
1 AGTTCATTCA
9665761 TACCACATCG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.39
Consensus pattern (17 bp):
AGTTCATTCAATATAAT
Found at i:9666866 original size:31 final size:30
Alignment explanation
Indices: 9666740--9666884 Score: 94
Period size: 31 Copynumber: 4.5 Consensus size: 30
9666730 TCCACGCATG
*
9666740 TATATATTATATATATAACAAGACCATTTTACACA
1 TATATA-T-TATATATAACAAGACCA---TAAACA
* * * *
9666775 TATTTATTATATAAAACATGACCTTCAAACGCA
1 TATATATTATATATAACAAGACCAT-AAA--CA
*** *
9666808 TATATATTATATATTTTATGACCCATAAACA
1 TATATATTATATATAACAAGA-CCATAAACA
*
9666839 TATATATTATATATAACAAGACGCATAAATA
1 TATATATTATATATAACAAGAC-CATAAACA
9666870 TAT-TATTTATATATA
1 TATATA-TTATATATA
9666885 TCTATTTAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 16
0.73 0.13 0.13
Matches are distributed among these distances:
30 4 0.05
31 40 0.45
33 35 0.40
34 4 0.05
35 5 0.06
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.39
Consensus pattern (30 bp):
TATATATTATATATAACAAGACCATAAACA
Found at i:9672927 original size:39 final size:38
Alignment explanation
Indices: 9672881--9672995 Score: 106
Period size: 39 Copynumber: 2.9 Consensus size: 38
9672871 CCGATTTTCT
* * *
9672881 CCCTCTCCTCCATCGTCTTTCCCCCTACTTTGATCCTCT
1 CCCTCTCC-CCATCGTCTTTCCCCCTACTTCGACCCTCA
** * *
9672920 CTGTCTCCCTCATCATCCTTCCCCCTACTTCGACCCTCA
1 CCCTCTCCC-CATCGTCTTTCCCCCTACTTCGACCCTCA
* *
9672959 CCCTCTCCCCCATCGTCCTTT-CCTCTACTTCAACCCT
1 CCCTCT-CCCCATCGT-CTTTCCCCCTACTTCGACCCT
9672996 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:9681230 original size:14 final size:14
Alignment explanation
Indices: 9681211--9681239 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9681201 AGATCAAGGA
9681211 AAGGAAAAAGTTCG
1 AAGGAAAAAGTTCG
9681225 AAGGAAAAAGTTCG
1 AAGGAAAAAGTTCG
9681239 A
1 A
9681240 GATTAGTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.28, T:0.14
Consensus pattern (14 bp):
AAGGAAAAAGTTCG
Found at i:9693297 original size:14 final size:14
Alignment explanation
Indices: 9693280--9693309 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9693270 GCCTCATACA
*
9693280 AACAGTTCGCATAT
1 AACAATTCGCATAT
9693294 AACAATTCGCATAT
1 AACAATTCGCATAT
9693308 AA
1 AA
9693310 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:9693855 original size:54 final size:54
Alignment explanation
Indices: 9693791--9693912 Score: 210
Period size: 54 Copynumber: 2.3 Consensus size: 54
9693781 AAAACATCAA
*
9693791 GCATAAAATAATAGGGTTCGTATATGACACATGTTTGCATGCAATATGGGTTTT
1 GCATAAAATAATAGGGTTCGTATATGACACATGTCTGCATGCAATATGGGTTTT
9693845 GCATAAAATAATAGGGTTCGTATATGACACATGTCTGCATGCAATATGGGTTTT
1 GCATAAAATAATAGGGTTCGTATATGACACATGTCTGCATGCAATATGGGTTTT
* *
9693899 -CATAATATTATAGG
1 GCATAAAATAATAGG
9693913 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:9696075 original size:41 final size:41
Alignment explanation
Indices: 9695935--9696081 Score: 140
Period size: 41 Copynumber: 3.6 Consensus size: 41
9695925 TTCTCCATAC
*
9695935 GGCACAAAGCCTGCTAGGCTCAAGGT-CT-AATTTCA-TACA-T
1 GGCACAAAGCCTGCTAGGCTCAA-ATCCTGAA--TCATTACACT
* * *
9695975 CGGCACGAAGCCTGCTAGGCTCAAAGCCTGAATCATTACACC
1 -GGCACAAAGCCTGCTAGGCTCAAATCCTGAATCATTACACT
** * * *
9696017 AACACAAAACCTACTAGGCTTAAATCCTGAATCATTACACT
1 GGCACAAAGCCTGCTAGGCTCAAATCCTGAATCATTACACT
*
9696058 GGCACAAAGCCTGCTAGGTTCAAA
1 GGCACAAAGCCTGCTAGGCTCAAA
9696082 ACCCGATACA
Statistics
Matches: 84, Mismatches: 18, Indels: 8
0.76 0.16 0.07
Matches are distributed among these distances:
40 3 0.04
41 79 0.94
42 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (41 bp):
GGCACAAAGCCTGCTAGGCTCAAATCCTGAATCATTACACT
Found at i:9698841 original size:21 final size:21
Alignment explanation
Indices: 9698817--9698863 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
9698807 TTAAAAAAAT
9698817 TCTAAAAATAAATACTTTTTG
1 TCTAAAAATAAATACTTTTTG
** **
9698838 TCTAAGTATCGATACTTTTTG
1 TCTAAAAATAAATACTTTTTG
9698859 TCTAA
1 TCTAA
9698864 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:9698864 original size:21 final size:21
Alignment explanation
Indices: 9698828--9698876 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
9698818 CTAAAAATAA
9698828 ATACTTTTTGTCTAAGTATCG
1 ATACTTTTTGTCTAAGTATCG
9698849 ATACTTTTTGTCTAAGTATCG
1 ATACTTTTTGTCTAAGTATCG
9698870 ATA-TTTT
1 ATACTTTT
9698877 ACAATATATC
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:9698955 original size:20 final size:20
Alignment explanation
Indices: 9698927--9698976 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
9698917 TATCGATCCA
*
9698927 GTATCGATACT-TTTCTTAAG
1 GTATCGATA-TATTTCCTAAG
*
9698947 GTATTGATATATTTCCTAAG
1 GTATCGATATATTTCCTAAG
9698967 GTATCGATAT
1 GTATCGATAT
9698977 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:9701442 original size:26 final size:26
Alignment explanation
Indices: 9701406--9701515 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
9701396 TGATACAAAT
9701406 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
9701432 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
9701458 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
9701484 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
9701510 TGATAA
1 TGATAA
9701516 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:9703464 original size:15 final size:15
Alignment explanation
Indices: 9703441--9703479 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
9703431 ATGTTACCTG
9703441 AATAGGCTTAGGCCC
1 AATAGGCTTAGGCCC
*
9703456 AATAAGCTTAGGCCC
1 AATAGGCTTAGGCCC
9703471 AATAGGCTT
1 AATAGGCTT
9703480 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:9705720 original size:17 final size:17
Alignment explanation
Indices: 9705695--9705729 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9705685 TCAAATTTAC
9705695 AACTAAACTAATAGAAT
1 AACTAAACTAATAGAAT
* *
9705712 AACTTAACTAATATAAT
1 AACTAAACTAATAGAAT
9705729 A
1 A
9705730 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:9709725 original size:19 final size:20
Alignment explanation
Indices: 9709701--9709739 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
9709691 GGGTTAGTAA
*
9709701 TGGTATCGGTACCTA-ACCT
1 TGGTATCGATACCTATACCT
9709720 TGGTATCGATACCTATACCT
1 TGGTATCGATACCTATACCT
9709740 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:9711454 original size:40 final size:40
Alignment explanation
Indices: 9711410--9711489 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
9711400 TGAATTTTTT
9711410 TTAATTTAAAAAGTAGAGCAACTAAATCCCTATAAATAAA
1 TTAATTTAAAAAGTAGAGCAACTAAATCCCTATAAATAAA
* *
9711450 TTAATTTAAAAAGTAGAGCGACTAAATTCCTATAAATAAA
1 TTAATTTAAAAAGTAGAGCAACTAAATCCCTATAAATAAA
9711490 AGTAGTGAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (40 bp):
TTAATTTAAAAAGTAGAGCAACTAAATCCCTATAAATAAA
Found at i:9712929 original size:33 final size:35
Alignment explanation
Indices: 9712865--9712929 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 35
9712855 CAGGTTAATT
* *
9712865 ATAATATTTTTTTCAATTACATAATTATCAAGTGA
1 ATAATATTTTTTTAAATTACATAAATATCAAGTGA
* *
9712900 ATAA-ATTTTTTTAAATTTCA-AAATGTCAAG
1 ATAATATTTTTTTAAATTACATAAATATCAAG
9712930 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:9718176 original size:38 final size:38
Alignment explanation
Indices: 9718118--9718195 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 38
9718108 AATTGTAGTA
* *
9718118 TATATATTGGATAAACTATCAAAGTAGTTACTTTTGTT
1 TATATATTGGATAAACTATCAAAATAGTCACTTTTGTT
* * * *
9718156 TATATCTTGGGTAAATTATCAAAATTGTCACTTTTGTT
1 TATATATTGGATAAACTATCAAAATAGTCACTTTTGTT
9718194 TA
1 TA
9718196 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:9718444 original size:9 final size:9
Alignment explanation
Indices: 9718406--9718450 Score: 54
Period size: 10 Copynumber: 4.8 Consensus size: 9
9718396 AGCAATTTAA
9718406 TTTTTTTCT
1 TTTTTTTCT
*
9718415 TTTATGTTCT
1 TTT-TTTTCT
*
9718425 TTTAATTTCT
1 TTT-TTTTCT
9718435 TTTTTTTCT
1 TTTTTTTCT
9718444 TTTTTTT
1 TTTTTTT
9718451 TCATTCTCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
9 15 0.48
10 16 0.52
ACGTcount: A:0.07, C:0.09, G:0.02, T:0.82
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:9718447 original size:20 final size:20
Alignment explanation
Indices: 9718410--9718446 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
9718400 ATTTAATTTT
9718410 TTTCTTTTATGTTCTTTTAA
1 TTTCTTTTATGTTCTTTTAA
*
9718430 TTTCTTTT-TTTTCTTTT
1 TTTCTTTTATGTTCTTTT
9718447 TTTTTCATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.08, C:0.11, G:0.03, T:0.78
Consensus pattern (20 bp):
TTTCTTTTATGTTCTTTTAA
Found at i:9722644 original size:26 final size:23
Alignment explanation
Indices: 9722595--9722645 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
9722585 ATTTTAAAAT
**
9722595 AAATAATAAATAAGTCAATTTAA
1 AAATAATAAATAAGTCAAAGTAA
9722618 AAATAATAAATAAGAATCTAAAGTAA
1 AAATAATAAATAAG--TC-AAAGTAA
9722644 AA
1 AA
9722646 GAGAGATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 14 0.61
25 2 0.09
26 7 0.30
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (23 bp):
AAATAATAAATAAGTCAAAGTAA
Found at i:9722897 original size:2 final size:2
Alignment explanation
Indices: 9722890--9722915 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9722880 TATGTGGATT
9722890 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
9722916 AAAGGTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9722970 original size:26 final size:25
Alignment explanation
Indices: 9722934--9722991 Score: 89
Period size: 26 Copynumber: 2.3 Consensus size: 25
9722924 TTTAAGATAC
* *
9722934 ATAATAAAACAATTTTGAATAAATA
1 ATAATAAAACAAGTTAGAATAAATA
9722959 ATACATAAAACAAGTTAGAATAAATA
1 ATA-ATAAAACAAGTTAGAATAAATA
9722985 ATAATAA
1 ATAATAA
9722992 TTTGAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 7 0.23
26 23 0.77
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (25 bp):
ATAATAAAACAAGTTAGAATAAATA
Found at i:9723662 original size:11 final size:10
Alignment explanation
Indices: 9723638--9723671 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
9723628 ATTTAAAAAT
*
9723638 AAAAGATAAA
1 AAAATATAAA
9723648 AAAATATATAA
1 AAAATATA-AA
9723659 AAAATATAAA
1 AAAATATAAA
9723669 AAA
1 AAA
9723672 GAAAAGAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (10 bp):
AAAATATAAA
Found at i:9733438 original size:33 final size:36
Alignment explanation
Indices: 9733361--9733436 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
9733351 CCTGTAAGAA
* *
9733361 ATTATTAATAATATTTTTAAATTATAATATATTAAT
1 ATTATTAATAATAGTTTTAAACTATAATATATTAAT
*
9733397 ATTATTAATAATAGTTTTAAACTATAATGTATTAAT
1 ATTATTAATAATAGTTTTAAACTATAATATATTAAT
9733433 ATTA
1 ATTA
9733437 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:9733569 original size:17 final size:18
Alignment explanation
Indices: 9733528--9733570 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
9733518 AAATTAGTTA
9733528 AATATTTTTATTTACATT
1 AATATTTTTATTTACATT
9733546 AAT-TTTTTAATTTA-A-T
1 AATATTTTT-ATTTACATT
9733562 AATATTTTT
1 AATATTTTT
9733571 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:9736369 original size:100 final size:100
Alignment explanation
Indices: 9736196--9736495 Score: 582
Period size: 100 Copynumber: 3.0 Consensus size: 100
9736186 CTGCTGGTTC
9736196 CGCAAGAGAGGTCTACTATATTGCTTCATATTTACTATTACTCTTGATAGTGGCAAGAATATTAA
1 CGCAAGAGAGGTCTACTATATTGCTTCATATTTACTATTACTCTTGATAGTGGCAAGAATATTAA
9736261 CCATATGAATTCTTTTGTATATCAATTTCTTTTTT
66 CCATATGAATTCTTTTGTATATCAATTTCTTTTTT
9736296 CGCAAGAGAGGTCTACTATATTGCTTCATATTTACTATTACTCTTGATAGTGGCAAGAATATTAA
1 CGCAAGAGAGGTCTACTATATTGCTTCATATTTACTATTACTCTTGATAGTGGCAAGAATATTAA
9736361 CCATATGAATTCTTTTGTATATCAATTTCTTTTTT
66 CCATATGAATTCTTTTGTATATCAATTTCTTTTTT
*
9736396 CGCAAGAGAGGTCTACTATATTGCTTCATATTTACTATTACTCTTGATAGTGGAAAGAATATTAA
1 CGCAAGAGAGGTCTACTATATTGCTTCATATTTACTATTACTCTTGATAGTGGCAAGAATATTAA
*
9736461 CCATATGAATTCTTTTATATATCAATTTCTTTTTT
66 CCATATGAATTCTTTTGTATATCAATTTCTTTTTT
9736496 TCTTTTTTTT
Statistics
Matches: 198, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 198 1.00
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (100 bp):
CGCAAGAGAGGTCTACTATATTGCTTCATATTTACTATTACTCTTGATAGTGGCAAGAATATTAA
CCATATGAATTCTTTTGTATATCAATTTCTTTTTT
Found at i:9736744 original size:35 final size:35
Alignment explanation
Indices: 9736698--9736767 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
9736688 AGGTATAAGC
9736698 TAAGTATAATTTCAAACATTAGTTCTGTGTTTTGT
1 TAAGTATAATTTCAAACATTAGTTCTGTGTTTTGT
9736733 TAAGTATAATTTCAAACATTAGTTCTGTGTTTTGT
1 TAAGTATAATTTCAAACATTAGTTCTGTGTTTTGT
9736768 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:9746850 original size:104 final size:105
Alignment explanation
Indices: 9746600--9747150 Score: 549
Period size: 105 Copynumber: 5.3 Consensus size: 105
9746590 ATTCTTTATC
* * * **
9746600 TTAAATCAGCTAACTTAAAGAAATTTAGGTTGTGATATTAAATCAGTTAACCTTTATAATTCCAG
1 TTAAATCAGCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAACTAACCTTTATAATTCCAG
* * * * *
9746665 GTGTGAACGTAGGTTAGCA-AACTGTTTAGGAGTTGTGATC
66 CTGTGAATGTAGGTCAG-AGAGCTGTTTAGGAGTTGTGATA
* * ** * * *
9746705 TTGAATTAATTAACTCAAAGAAATTTATGTTGCGATCTTAAATCAACTAACCTTTATAATTCTAA
1 TTAAATCAGCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAACTAACCTTTATAATTCCAG
* ** *
9746770 CTGTGAACGTAGGTCAGAGAGCT-TTTAGGAGTTGCAATG
66 CTGTGAATGTAGGTCAGAGAGCTGTTTAGGAGTTGTGATA
* * * *
9746809 TTAAATCATCTAACTCAAAGAAGTTTAGGTTGCAATCTTAAATCAACTAACCTTTATAATTCTAG
1 TTAAATCAGCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAACTAACCTTTATAATTCCAG
* *
9746874 CCGTGAATGTAGGTCA-ACAAGCTGTTTAGGAGTTGTGATA
66 CTGTGAATGTAGGTCAGA-GAGCTGTTTAGGAGTTGTGATA
* * *
9746914 TTAAATCGGCTAACTCAACA-AAATTTAGGCTGCAATCTTAAATCAGA-TAACCTTTATAATTCC
1 TTAAATCAGCTAACTCAA-AGAAATTTAGGTTGCGATCTTAAATCA-ACTAACCTTTATAATTCC
** * ** * *
9746977 ATTTGTGAATGTAAGTTTGCGAGTTGTTTAGGAGTTGTGATA
64 AGCTGTGAATGTAGGTCAGAGAGCTGTTTAGGAGTTGTGATA
** * ** * *
9747019 TTAAATCAATTAACTCAAAGAAAATTA-GTTGCGATCTTAAATCAGTTAACTTTTATAGTTCCAG
1 TTAAATCAGCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAACTAACCTTTATAATTCCAG
* * * * *
9747083 TTGTGAATGTAGG-CTTGCGAGCTATTTAGGAGTTGCGATA
66 CTGTGAATGTAGGTC-AGAGAGCTGTTTAGGAGTTGTGATA
* *
9747123 TTAAGTTAGCTAACTCAAAGAAATTTAG
1 TTAAATCAGCTAACTCAAAGAAATTTAG
9747151 ACATGAACAT
Statistics
Matches: 370, Mismatches: 66, Indels: 20
0.81 0.14 0.04
Matches are distributed among these distances:
103 1 0.00
104 176 0.48
105 191 0.52
106 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (105 bp):
TTAAATCAGCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAACTAACCTTTATAATTCCAG
CTGTGAATGTAGGTCAGAGAGCTGTTTAGGAGTTGTGATA
Found at i:9746967 original size:209 final size:210
Alignment explanation
Indices: 9746600--9747150 Score: 619
Period size: 209 Copynumber: 2.6 Consensus size: 210
9746590 ATTCTTTATC
* * * *
9746600 TTAAATCAGCTAACTTAAAGAAATTTAGGTTGTGATATTAAATCAGTTAACCTTTATAATTCCAG
1 TTAAATCATCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAGTTAACCTTTATAATTCCAG
* * * * * * **
9746665 GTGTGAACGTAGGTTAGCAAACTGTTTAGGAGTTGTGATCTTGAATTAATTAACTCAAAGAAATT
66 CTGTGAATGTAGGTCAGCAAGCTGTTTAGGAGTTGTGATATTAAATTAGCTAACTCAAAGAAATT
* * * * *
9746730 TATGTTGCGATCTTAAATCAACTAACCTTTATAATTCTAACTGTGAACGTAGGTCAGAGAGCT-T
131 TAGGCTGCAATCTTAAATCAACTAACCTTTATAATTCCAACTGTGAACGTAAGTCAGAGAGCTGT
*
9746794 TTAGGAGTTGCAATG
196 TTAGGAGTTGCAATA
* * ** *
9746809 TTAAATCATCTAACTCAAAGAAGTTTAGGTTGCAATCTTAAATCAACTAACCTTTATAATTCTAG
1 TTAAATCATCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAGTTAACCTTTATAATTCCAG
* * **
9746874 CCGTGAATGTAGGTCAACAAGCTGTTTAGGAGTTGTGATATTAAATCGGCTAACTCAACA-AAAT
66 CTGTGAATGTAGGTCAGCAAGCTGTTTAGGAGTTGTGATATTAAATTAGCTAACTCAA-AGAAAT
** * ** * *
9746938 TTAGGCTGCAATCTTAAATCAGA-TAACCTTTATAATTCCATTTGTGAATGTAAGTTTGCGAGTT
130 TTAGGCTGCAATCTTAAATCA-ACTAACCTTTATAATTCCAACTGTGAACGTAAGTCAGAGAGCT
**
9747002 GTTTAGGAGTTGTGATA
194 GTTTAGGAGTTGCAATA
* * *
9747019 TTAAATCAAT-TAACTCAAAGAAAATTA-GTTGCGATCTTAAATCAGTTAACTTTTATAGTTCCA
1 TTAAATC-ATCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAGTTAACCTTTATAATTCCA
* * * * * *
9747082 GTTGTGAATGTAGG-CTTGCGAGCTATTTAGGAGTTGCGATATTAAGTTAGCTAACTCAAAGAAA
65 GCTGTGAATGTAGGTC-AGCAAGCTGTTTAGGAGTTGTGATATTAAATTAGCTAACTCAAAGAAA
9747146 TTTAG
129 TTTAG
9747151 ACATGAACAT
Statistics
Matches: 282, Mismatches: 54, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
208 2 0.01
209 241 0.85
210 37 0.13
211 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (210 bp):
TTAAATCATCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAGTTAACCTTTATAATTCCAG
CTGTGAATGTAGGTCAGCAAGCTGTTTAGGAGTTGTGATATTAAATTAGCTAACTCAAAGAAATT
TAGGCTGCAATCTTAAATCAACTAACCTTTATAATTCCAACTGTGAACGTAAGTCAGAGAGCTGT
TTAGGAGTTGCAATA
Found at i:9754573 original size:32 final size:32
Alignment explanation
Indices: 9754532--9754599 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
9754522 CCCCTTAACC
*
9754532 CCGCACCACCCTCTCAGCCCGACCAGCCACCA
1 CCGCACCACCCTCTCAACCCGACCAGCCACCA
*
9754564 CCGCACCACCCTCTCAACCCGACTAGCCACCA
1 CCGCACCACCCTCTCAACCCGACCAGCCACCA
9754596 CCGC
1 CCGC
9754600 TCGCTCCAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.22, C:0.59, G:0.12, T:0.07
Consensus pattern (32 bp):
CCGCACCACCCTCTCAACCCGACCAGCCACCA
Found at i:9756108 original size:12 final size:12
Alignment explanation
Indices: 9756093--9756132 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
9756083 TGTCTTTAGA
*
9756093 TTTATTTTTCTT
1 TTTATTTTTCAT
9756105 TTTATTTTTCAT
1 TTTATTTTTCAT
*
9756117 TTTATGTTT-AT
1 TTTATTTTTCAT
9756128 TTTAT
1 TTTAT
9756133 CCTTAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 7 0.27
12 19 0.73
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.78
Consensus pattern (12 bp):
TTTATTTTTCAT
Found at i:9766845 original size:25 final size:26
Alignment explanation
Indices: 9766817--9766885 Score: 83
Period size: 25 Copynumber: 2.7 Consensus size: 26
9766807 GTCCCGACCC
9766817 ATAGCTCGTATGAGCATACCGAT-TT
1 ATAGCTCGTATGAGCATACCGATCTT
9766842 ATAGCTCGTGA-GAGCATACCGATCTT
1 ATAGCTCGT-ATGAGCATACCGATCTT
*
9766868 -TAGCTTG-AGTGAGCATAC
1 ATAGCTCGTA-TGAGCATAC
9766886 TGGTTCACAG
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
23 1 0.03
25 35 0.90
26 3 0.08
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (26 bp):
ATAGCTCGTATGAGCATACCGATCTT
Found at i:9771248 original size:43 final size:43
Alignment explanation
Indices: 9771182--9771348 Score: 160
Period size: 43 Copynumber: 3.9 Consensus size: 43
9771172 AGCTCATACA
* * *
9771182 ATGCC-ATGTCCCAGATATAGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * * *
9771224 ATGCCACTGTCCTAGACATGGTCTTACATGAAATCGA-TTAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATC-ACATATCG
* * * * *
9771267 ATGCCAATGTCCCAGATATGGTTTTACACGTAATCTCA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT-CG
* *
9771310 ATTCCAATGTCCTAGACATGGTCTTACATGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
9771349 CTTGATAACT
Statistics
Matches: 96, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
42 6 0.06
43 89 0.93
44 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:9771332 original size:86 final size:85
Alignment explanation
Indices: 9771182--9771344 Score: 220
Period size: 86 Copynumber: 1.9 Consensus size: 85
9771172 AGCTCATACA
* * * *
9771182 ATGCCATGTCCCAGATATAGTCTTACATGTTATCACATATCGATGCCACTGTCCTAGACATGGTC
1 ATGCCATGTCCCAGATATAGTCTTACACGTAATCACATATCAATGCCAATGTCCTAGACATGGTC
9771247 TTACATGAAATCGATTAACG
66 TTACATGAAATCGATTAACG
* * * *
9771267 ATGCCAATGTCCCAGATATGGTTTTACACGTAATCTCA-ATACAATTCCAATGTCCTAGACATGG
1 ATGCC-ATGTCCCAGATATAGTCTTACACGTAATCACATAT-CAATGCCAATGTCCTAGACATGG
*
9771331 TCTTACATGTAATC
64 TCTTACATGAAATC
9771345 ACATCTTGAT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
85 7 0.10
86 60 0.90
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (85 bp):
ATGCCATGTCCCAGATATAGTCTTACACGTAATCACATATCAATGCCAATGTCCTAGACATGGTC
TTACATGAAATCGATTAACG
Found at i:9776602 original size:61 final size:61
Alignment explanation
Indices: 9776532--9776655 Score: 239
Period size: 61 Copynumber: 2.0 Consensus size: 61
9776522 AAGTGAAGTC
*
9776532 TAGGTGGATTCTTTCTTGGGTATTATCTCTCTCATTGGTTTATTAGATTATTTTCTTACTT
1 TAGGTGGATTCTTTCTTAGGTATTATCTCTCTCATTGGTTTATTAGATTATTTTCTTACTT
9776593 TAGGTGGATTCTTTCTTAGGTATTATCTCTCTCATTGGTTTATTAGATTATTTTCTTACTT
1 TAGGTGGATTCTTTCTTAGGTATTATCTCTCTCATTGGTTTATTAGATTATTTTCTTACTT
9776654 TA
1 TA
9776656 TTCTCTGTCG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.18, C:0.13, G:0.15, T:0.54
Consensus pattern (61 bp):
TAGGTGGATTCTTTCTTAGGTATTATCTCTCTCATTGGTTTATTAGATTATTTTCTTACTT
Found at i:9787296 original size:32 final size:32
Alignment explanation
Indices: 9787255--9787318 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
9787245 ATTCATCATC
* *
9787255 AAGACTGAAGAACTCTCCTTAATTTCCCTTCA
1 AAGACTGAAGAACTATCCTCAATTTCCCTTCA
9787287 AAGACTGAAGAACTATCCTCAATTTCCCTTCA
1 AAGACTGAAGAACTATCCTCAATTTCCCTTCA
9787319 GGATGTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.33, C:0.28, G:0.09, T:0.30
Consensus pattern (32 bp):
AAGACTGAAGAACTATCCTCAATTTCCCTTCA
Found at i:9797081 original size:113 final size:113
Alignment explanation
Indices: 9796883--9797108 Score: 434
Period size: 113 Copynumber: 2.0 Consensus size: 113
9796873 ATATCGAGTC
9796883 CCGTTTGAACCTTAGAAATCTGTAGGATACAAGTGACATGTCATTAGGGTTACATGATTTGAGTA
1 CCGTTTGAACCTTAGAAATCTGTAGGATACAAGTGACATGTCATTAGGGTTACATGATTTGAGTA
*
9796948 CTGGTCTTGAACGTCCTACTGATAGCTGAGGTCCTAGATGTGTTTGGA
66 CTGGTCTTGAACGTCCTACTGATAGCTGAGGTCCTACATGTGTTTGGA
*
9796996 CCGTTTGAACCTTAGGAATCTGTAGGATACAAGTGACATGTCATTAGGGTTACATGATTTGAGTA
1 CCGTTTGAACCTTAGAAATCTGTAGGATACAAGTGACATGTCATTAGGGTTACATGATTTGAGTA
9797061 CTGGTCTTGAACGTCCTACTGATAGCTGAGGTCCTACATGTGTTTGGA
66 CTGGTCTTGAACGTCCTACTGATAGCTGAGGTCCTACATGTGTTTGGA
9797109 ATACTCCACA
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 111 1.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (113 bp):
CCGTTTGAACCTTAGAAATCTGTAGGATACAAGTGACATGTCATTAGGGTTACATGATTTGAGTA
CTGGTCTTGAACGTCCTACTGATAGCTGAGGTCCTACATGTGTTTGGA
Found at i:9799015 original size:20 final size:20
Alignment explanation
Indices: 9798933--9799018 Score: 91
Period size: 20 Copynumber: 4.3 Consensus size: 20
9798923 GGGTGTTACA
* *
9798933 CTGTTTGTATTTCGGTACCT
1 CTGTTTGTACTTCGGTACCC
* *
9798953 CTATTTGTACTTTGGTACCC
1 CTGTTTGTACTTCGGTACCC
* * * *
9798973 TTATTTGTACTTTGGTACTC
1 CTGTTTGTACTTCGGTACCC
*
9798993 CTGTTTGTACTTCGATACCC
1 CTGTTTGTACTTCGGTACCC
9799013 CTGTTT
1 CTGTTT
9799019 ACACACTCGT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.13, C:0.22, G:0.16, T:0.49
Consensus pattern (20 bp):
CTGTTTGTACTTCGGTACCC
Found at i:9800139 original size:38 final size:38
Alignment explanation
Indices: 9800063--9800238 Score: 183
Period size: 38 Copynumber: 4.5 Consensus size: 38
9800053 TTCGTGTAAC
* * * *
9800063 ACCAGCACGAAGCCTACGAGACTTTAAACTCAGTTATAAT
1 ACCAGCACTAAGCCTGCGGGA-TTT-AACTCAGATATAAT
*
9800103 ACCAGCACTAGGCCTGCGGGATTTAACTCAGATATAAT
1 ACCAGCACTAAGCCTGCGGGATTTAACTCAGATATAAT
* * * *
9800141 ACCAGCA-TGAAGCCTGCGAGATTTAACCCGGATATATT
1 ACCAGCACT-AAGCCTGCGGGATTTAACTCAGATATAAT
* *
9800179 ATCAGCACGAAGCCTGCGGGACTTTAAACTCAGATATAAT
1 ACCAGCACTAAGCCTGCGGGA-TTT-AACTCAGATATAAT
* *
9800219 ACTAGCACTAGGCCTGCGGG
1 ACCAGCACTAAGCCTGCGGG
9800239 TCTTTAAGCC
Statistics
Matches: 112, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
37 1 0.01
38 61 0.54
39 6 0.05
40 44 0.39
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.22
Consensus pattern (38 bp):
ACCAGCACTAAGCCTGCGGGATTTAACTCAGATATAAT
Found at i:9800209 original size:78 final size:78
Alignment explanation
Indices: 9800063--9800226 Score: 206
Period size: 78 Copynumber: 2.1 Consensus size: 78
9800053 TTCGTGTAAC
* * * *
9800063 ACCAGCACGAAGCCTACGAGACTTTAAACTCAGTTATAATACCAGCACTAGGCCTGCGGGATTTA
1 ACCAGCACGAAGCCTACGAGACTTTAAACCCAGATATAATACCAGCACGAAGCCTGCGGGATTTA
9800128 ACTCAGATATAAT
66 ACTCAGATATAAT
* * * * *
9800141 ACCAGCATGAAGCCTGCGAGA-TTT-AACCCGGATATATTATCAGCACGAAGCCTGCGGGACTTT
1 ACCAGCACGAAGCCTACGAGACTTTAAACCCAGATATAATACCAGCACGAAGCCTGCGGGA-TTT
9800204 AAACTCAGATATAAT
65 -AACTCAGATATAAT
*
9800219 ACTAGCAC
1 ACCAGCAC
9800227 TAGGCCTGCG
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
76 28 0.38
77 6 0.08
78 39 0.53
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (78 bp):
ACCAGCACGAAGCCTACGAGACTTTAAACCCAGATATAATACCAGCACGAAGCCTGCGGGATTTA
ACTCAGATATAAT
Found at i:9800234 original size:78 final size:78
Alignment explanation
Indices: 9800105--9800254 Score: 198
Period size: 78 Copynumber: 1.9 Consensus size: 78
9800095 GTTATAATAC
* *
9800105 CAGCACTAGGCCTGCGGGATTTAACTCAGATATAATACCAGCATGAAGCCTGCGAG-ATTTAA-C
1 CAGCACGAAGCCTGCGGGATTTAACTCAGATATAATACCAGCATGAAGCCTGCGAGTATTTAAGC
9800168 CCGGATATATTAT
66 CCGGATATATTAT
* * * *
9800181 CAGCACGAAGCCTGCGGGACTTTAAACTCAGATATAATACTAGCACT-AGGCCTGCGGGTCTTTA
1 CAGCACGAAGCCTGCGGGA-TTT-AACTCAGATATAATACCAGCA-TGAAGCCTGCGAGTATTTA
9800245 AGCCCGGATA
63 AGCCCGGATA
9800255 CACATCAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
76 17 0.27
77 3 0.05
78 29 0.46
79 6 0.10
80 8 0.13
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (78 bp):
CAGCACGAAGCCTGCGGGATTTAACTCAGATATAATACCAGCATGAAGCCTGCGAGTATTTAAGC
CCGGATATATTAT
Found at i:9804885 original size:23 final size:26
Alignment explanation
Indices: 9804859--9804907 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
9804849 GCATTTCAAT
9804859 TAAAA-TTTTATTT-TA-ATTTTATA
1 TAAAATTTTTATTTATATATTTTATA
9804882 TAAAATTTTTATTTATATATTTTATA
1 TAAAATTTTTATTTATATATTTTATA
9804908 AAATTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.22
24 8 0.35
25 2 0.09
26 8 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
TAAAATTTTTATTTATATATTTTATA
Found at i:9804925 original size:24 final size:23
Alignment explanation
Indices: 9804859--9804917 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
9804849 GCATTTCAAT
9804859 TAAAATTTTATTTTAAT-TTTATA
1 TAAAA-TTTATTTTAATATTTATA
*
9804882 TAAAATTTTTATTTATATATTT-TA
1 TAAAATTTAT-TTTA-ATATTTATA
9804906 TAAAATTTATTT
1 TAAAATTTATTT
9804918 CTACATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 4 0.13
23 11 0.35
24 13 0.42
25 3 0.10
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TAAAATTTATTTTAATATTTATA
Found at i:9812342 original size:43 final size:44
Alignment explanation
Indices: 9812213--9812342 Score: 149
Period size: 43 Copynumber: 3.0 Consensus size: 44
9812203 CATCGAATTC
* * *
9812213 CGATATGTGATTT-CTTGTAAGACCACATCTGGGATGTTGGCAT
1 CGATGTGTGATTTACATGTAAGACCACATCTGGGACGTTGGCAT
* * * *
9812256 CGATTTGTGATTTACGTGTAAGACCATATCTGGGACATTGGCAT
1 CGATGTGTGATTTACATGTAAGACCACATCTGGGACGTTGGCAT
* *
9812300 CGATAGT-TGA-TTACATGTAAGACCACGTCTGGGACGTAGGCAT
1 CGAT-GTGTGATTTACATGTAAGACCACATCTGGGACGTTGGCAT
9812343 TGTACGAGCT
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
43 40 0.54
44 33 0.45
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (44 bp):
CGATGTGTGATTTACATGTAAGACCACATCTGGGACGTTGGCAT
Found at i:9818650 original size:27 final size:27
Alignment explanation
Indices: 9818619--9818796 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
9818609 TAAATTGTAC
9818619 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
9818646 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
9818672 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
9818700 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
9818728 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
9818755 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
9818782 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
9818797 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:9818733 original size:82 final size:81
Alignment explanation
Indices: 9818620--9818775 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
9818610 AAATTGTACA
* *
9818620 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
9818684 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
9818701 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
9818766 TGCGAGTTGA
65 TGCGAATTGA
9818776 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:9818787 original size:82 final size:81
Alignment explanation
Indices: 9818616--9818796 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
9818606 GATTAAATTG
* *
9818616 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
9818681 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
9818697 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
9818761 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
9818779 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
9818797 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:9826714 original size:27 final size:27
Alignment explanation
Indices: 9826683--9826860 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
9826673 TAAATTGTAC
9826683 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
9826710 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
9826736 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
9826764 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
9826792 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
9826819 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
9826846 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
9826861 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:9826797 original size:82 final size:81
Alignment explanation
Indices: 9826684--9826839 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
9826674 AAATTGTACA
* *
9826684 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
9826748 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
9826765 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
9826830 TGCGAGTTGA
65 TGCGAATTGA
9826840 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:9826851 original size:82 final size:81
Alignment explanation
Indices: 9826680--9826860 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
9826670 GATTAAATTG
* *
9826680 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
9826745 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
9826761 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
9826825 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
9826843 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
9826861 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:9836586 original size:54 final size:54
Alignment explanation
Indices: 9836522--9836627 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
9836512 TTTAAATTGT
9836522 TATTTTATACTTTCACTCGTCATTACTGCTGTATTTTTTTTTTTTGG-AAGTTTA
1 TATTTTATACTTTCACTCGTCATTACTGCTGTA-TTTTTTTTTTTGGTAAGTTTA
9836576 TATTTTATACTTTCACTCGTCATTACTGCTGTATTTTTTTTTTTGGTAAGTT
1 TATTTTATACTTTCACTCGTCATTACTGCTGTATTTTTTTTTTTGGTAAGTT
9836628 GATAAAAATA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
53 13 0.25
54 38 0.75
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (54 bp):
TATTTTATACTTTCACTCGTCATTACTGCTGTATTTTTTTTTTTGGTAAGTTTA
Found at i:9837758 original size:7 final size:8
Alignment explanation
Indices: 9837739--9837768 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
9837729 TTTCATAATT
9837739 TTTTTTAA
1 TTTTTTAA
9837747 TTTTTTAA
1 TTTTTTAA
9837755 TTTTTATAA
1 TTTTT-TAA
9837764 TTTTT
1 TTTTT
9837769 CTTCTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTAA
Found at i:9839380 original size:21 final size:22
Alignment explanation
Indices: 9839354--9839404 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
9839344 ATGAGCGAAT
9839354 TAAAATAAACATAT-AACA-ATC
1 TAAAATAAACATATGAA-AGATC
*
9839375 TAAAAT-AACATATGAAAGGTC
1 TAAAATAAACATATGAAAGATC
9839396 TAAAATAAA
1 TAAAATAAA
9839405 TAACAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 8 0.31
21 16 0.62
22 2 0.08
ACGTcount: A:0.61, C:0.10, G:0.06, T:0.24
Consensus pattern (22 bp):
TAAAATAAACATATGAAAGATC
Found at i:9839835 original size:32 final size:33
Alignment explanation
Indices: 9839799--9839867 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
9839789 ATATATATTG
9839799 TATAAAAAA-TTTGTAATAAAATATGTAAATAA
1 TATAAAAAATTTTGTAATAAAATATGTAAATAA
9839831 TATAAAAAATTTTGTAATAAAATATGTAAATAA
1 TATAAAAAATTTTGTAATAAAATATGTAAATAA
9839864 -ATAA
1 TATAA
9839868 TAACGATAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 13 0.36
33 23 0.64
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (33 bp):
TATAAAAAATTTTGTAATAAAATATGTAAATAA
Found at i:9844314 original size:195 final size:195
Alignment explanation
Indices: 9843982--9844374 Score: 786
Period size: 195 Copynumber: 2.0 Consensus size: 195
9843972 ATATTATCGG
9843982 GCCTTCAACGTAGTGAACCGGGTTTAAAAATAATTGTTAAAAATATTTATGAGTTTAGTGATGTG
1 GCCTTCAACGTAGTGAACCGGGTTTAAAAATAATTGTTAAAAATATTTATGAGTTTAGTGATGTG
9844047 TCTAATTAGGTTTTAATTAGGTGAATTTAGCTTAATTTAGAGTAATTAGAAAAAAATGACTAAAT
66 TCTAATTAGGTTTTAATTAGGTGAATTTAGCTTAATTTAGAGTAATTAGAAAAAAATGACTAAAT
9844112 TGAATAAGAGGTGAAACTTTAAATTTAAAGCAATAGAAAGTAAAAAGGGCCAAAATGGCAAATAT
131 TGAATAAGAGGTGAAACTTTAAATTTAAAGCAATAGAAAGTAAAAAGGGCCAAAATGGCAAATAT
9844177 GCCTTCAACGTAGTGAACCGGGTTTAAAAATAATTGTTAAAAATATTTATGAGTTTAGTGATGTG
1 GCCTTCAACGTAGTGAACCGGGTTTAAAAATAATTGTTAAAAATATTTATGAGTTTAGTGATGTG
9844242 TCTAATTAGGTTTTAATTAGGTGAATTTAGCTTAATTTAGAGTAATTAGAAAAAAATGACTAAAT
66 TCTAATTAGGTTTTAATTAGGTGAATTTAGCTTAATTTAGAGTAATTAGAAAAAAATGACTAAAT
9844307 TGAATAAGAGGTGAAACTTTAAATTTAAAGCAATAGAAAGTAAAAAGGGCCAAAATGGCAAATAT
131 TGAATAAGAGGTGAAACTTTAAATTTAAAGCAATAGAAAGTAAAAAGGGCCAAAATGGCAAATAT
9844372 GCC
1 GCC
9844375 ATTAAATAAT
Statistics
Matches: 198, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
195 198 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.32
Consensus pattern (195 bp):
GCCTTCAACGTAGTGAACCGGGTTTAAAAATAATTGTTAAAAATATTTATGAGTTTAGTGATGTG
TCTAATTAGGTTTTAATTAGGTGAATTTAGCTTAATTTAGAGTAATTAGAAAAAAATGACTAAAT
TGAATAAGAGGTGAAACTTTAAATTTAAAGCAATAGAAAGTAAAAAGGGCCAAAATGGCAAATAT
Found at i:9852980 original size:17 final size:18
Alignment explanation
Indices: 9852948--9852981 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9852938 CAGAGGAGAA
*
9852948 AAAGAGAAAGATAAAGGG
1 AAAGAGAAAGAAAAAGGG
9852966 AAAGA-AAAGAAAAAGG
1 AAAGAGAAAGAAAAAGG
9852982 AAAAACTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (18 bp):
AAAGAGAAAGAAAAAGGG
Found at i:9854034 original size:45 final size:45
Alignment explanation
Indices: 9853968--9854062 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 45
9853958 ATGTGCTGAC
*
9853968 TACTGTTACTGATTCGACACTTTGTGTGTCGAATACTATTACTGT
1 TACTGTTACAGATTCGACACTTTGTGTGTCGAATACTATTACTGT
* *
9854013 TACTGTTACAGATTC-AGCACTTTGTGTGTTGAATACTGTTACTGT
1 TACTGTTACAGATTCGA-CACTTTGTGTGTCGAATACTATTACTGT
9854058 TACTG
1 TACTG
9854063 CTACTGTTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 1 0.02
45 45 0.98
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACAGATTCGACACTTTGTGTGTCGAATACTATTACTGT
Found at i:9854057 original size:6 final size:6
Alignment explanation
Indices: 9854046--9854080 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
9854036 GTGTGTTGAA
*
9854046 TACTGT TACTGT TACTGC TACTGT TACTGAT TACT
1 TACTGT TACTGT TACTGT TACTGT TACTG-T TACT
9854081 ATTTAGGTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (6 bp):
TACTGT
Found at i:9858691 original size:15 final size:16
Alignment explanation
Indices: 9858657--9858692 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
9858647 AGAGAATCTT
*
9858657 AAAATAGACAAATTAC
1 AAAATAGACAAATTAA
9858673 AAAATAGAC-AATTAA
1 AAAATAGACAAATTAA
9858688 AAAAT
1 AAAAT
9858693 GTATTCACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.67, C:0.08, G:0.06, T:0.19
Consensus pattern (16 bp):
AAAATAGACAAATTAA
Found at i:9860666 original size:47 final size:46
Alignment explanation
Indices: 9860524--9860678 Score: 140
Period size: 44 Copynumber: 3.4 Consensus size: 46
9860514 TCCGCTCCGT
9860524 TGCAACTTCAGGGAGAT-AGGATTG-GTAATCTTCAGTATGCTCCAC
1 TGCAACTTCAGGGAGATAAGGATTGTGT-ATCTTCAGTATGCTCCAC
* * *** *
9860569 TGCAACTTCAGGGAGATAA-GACCTGT-CA-CTTCAACCTGTTCCAC
1 TGCAACTTCAGGGAGATAAGGA-TTGTGTATCTTCAGTATGCTCCAC
* * *
9860613 TGCAACTTCAGCGAGATAAGGTTTGTGTATTCTTCAGTTTGCTCCAC
1 TGCAACTTCAGGGAGATAAGGATTGTGTA-TCTTCAGTATGCTCCAC
* * *
9860660 TACAACTTCAAGAAGATAA
1 TGCAACTTCAGGGAGATAA
9860679 AACTTACTAC
Statistics
Matches: 85, Mismatches: 18, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
44 33 0.39
45 22 0.26
46 3 0.04
47 27 0.32
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (46 bp):
TGCAACTTCAGGGAGATAAGGATTGTGTATCTTCAGTATGCTCCAC
Done.