Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 162 of 279
Found at i:53532915 original size:60 final size:60
Alignment explanation
Indices: 53532744--53532922 Score: 214
Period size: 60 Copynumber: 3.0 Consensus size: 60
53532734 GTACTGCATT
* * * * * *
53532744 GGTGGTGGATGACTTTGAGTGGGCGGCAAGTATTGACTTGGTGATGGATGAACTTGAGTA
1 GGTGGTGTATGACCTTGAGTGGGCGGCGAGTATTGAGTTGGTGGTGGATGAGCTTGAGTA
* * * * *
53532804 GGTGGCGTATGACCTTGAGTGGGCGGTGAATGTTGCGTTGGTGGTGGATGAGCTTGAGTA
1 GGTGGTGTATGACCTTGAGTGGGCGGCGAGTATTGAGTTGGTGGTGGATGAGCTTGAGTA
* * * * *
53532864 GGTGGTGTACGACCTTGAGTGGGTGGCGAGTATTGGGATGGTGGTGGATGAGTTTGAGT
1 GGTGGTGTATGACCTTGAGTGGGCGGCGAGTATTGAGTTGGTGGTGGATGAGCTTGAGT
53532923 GGGAGGTGAG
Statistics
Matches: 99, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 99 1.00
ACGTcount: A:0.17, C:0.08, G:0.44, T:0.30
Consensus pattern (60 bp):
GGTGGTGTATGACCTTGAGTGGGCGGCGAGTATTGAGTTGGTGGTGGATGAGCTTGAGTA
Found at i:53533005 original size:99 final size:99
Alignment explanation
Indices: 53532818--53533068 Score: 308
Period size: 99 Copynumber: 2.5 Consensus size: 99
53532808 GCGTATGACC
* * * * *
53532818 TTGAGTGGGCGGTGAATGTTGCGTTGGTGGTGGATGAGCTTGAGTAGGTGGTGTACGACCTTGAG
1 TTGAGTGGGAGGTGAGTATTGCCTTGGTGGTGGATGAGCTTGAGTAGGTGGTGTACAACCTTGAG
* *
53532883 TGGGTGGCGAGTATTGGGATGGTGGTGGATGAGT
66 TGGGTGGCGAGGATTGGCATGGTGGTGGATGAGT
* * * *
53532917 TTGAGTGGGAGGTGAGTATTGCCTCGGTGGAGGATGAGCTTCAGTAGGTGGT-TCACAACCTTTA
1 TTGAGTGGGAGGTGAGTATTGCCTTGGTGGTGGATGAGCTTGAGTAGGTGGTGT-ACAACCTTGA
* *
53532981 GTGGGTGGCGTGGATT-GCATTGGTGGTGGATGTGT
65 GTGGGTGGCGAGGATTGGCA-TGGTGGTGGATGAGT
* * * * *
53533016 TTGAATGGGTGGCGAGTATTGCCTTGGTGGTGGATGGGCTTGAGTGGGTGGTG
1 TTGAGTGGGAGGTGAGTATTGCCTTGGTGGTGGATGAGCTTGAGTAGGTGGTG
53533069 AGTATTGTGT
Statistics
Matches: 128, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
98 3 0.02
99 125 0.98
ACGTcount: A:0.15, C:0.09, G:0.45, T:0.31
Consensus pattern (99 bp):
TTGAGTGGGAGGTGAGTATTGCCTTGGTGGTGGATGAGCTTGAGTAGGTGGTGTACAACCTTGAG
TGGGTGGCGAGGATTGGCATGGTGGTGGATGAGT
Found at i:53533025 original size:39 final size:39
Alignment explanation
Indices: 53532980--53533105 Score: 171
Period size: 39 Copynumber: 3.2 Consensus size: 39
53532970 CACAACCTTT
* *
53532980 AGTGGGTGGCGTGGATTGCATTGGTGGTGGATGTGTTTG
1 AGTGGGTGGCGAGTATTGCATTGGTGGTGGATGTGTTTG
* * * *
53533019 AATGGGTGGCGAGTATTGCCTTGGTGGTGGATGGGCTTG
1 AGTGGGTGGCGAGTATTGCATTGGTGGTGGATGTGTTTG
* **
53533058 AGTGGGTGGTGAGTATTGTGTTGGTGGTGGATGTGTTTG
1 AGTGGGTGGCGAGTATTGCATTGGTGGTGGATGTGTTTG
53533097 AGTGGGTGG
1 AGTGGGTGG
53533106 TGGATGAGCT
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.11, C:0.05, G:0.49, T:0.35
Consensus pattern (39 bp):
AGTGGGTGGCGAGTATTGCATTGGTGGTGGATGTGTTTG
Found at i:53533026 original size:21 final size:21
Alignment explanation
Indices: 53533002--53533225 Score: 102
Period size: 21 Copynumber: 11.4 Consensus size: 21
53532992 GGATTGCATT
*
53533002 GGTGGTGGATGTGTTTGAATG
1 GGTGGTGGATGTGTTTGAGTG
* * ** *
53533023 GGTGG-CGA-GT-ATTGCCTT
1 GGTGGTGGATGTGTTTGAGTG
* *
53533041 GGTGGTGGATGGGCTTGAGTG
1 GGTGGTGGATGTGTTTGAGTG
* * *
53533062 GGTGGT-GA-GT-ATTGTGTT
1 GGTGGTGGATGTGTTTGAGTG
53533080 GGTGGTGGATGTGTTTGAGTG
1 GGTGGTGGATGTGTTTGAGTG
* * *
53533101 GGTGGTGGATGAGCTTGAGTA
1 GGTGGTGGATGTGTTTGAGTG
* * *
53533122 GGTGGTGGGTATAGCTT---T-
1 GGTGGTGGATGT-GTTTGAGTG
*
53533140 GGCGGTGGATGTGTTTGAGTG
1 GGTGGTGGATGTGTTTGAGTG
* * **
53533161 GGTGGCGG--GT-ATTGCCT-
1 GGTGGTGGATGTGTTTGAGTG
* * *
53533178 --TGGTGGAGGAGTTTGAGTT
1 GGTGGTGGATGTGTTTGAGTG
53533197 GGTGGTGGATGTGTTTGAGTG
1 GGTGGTGGATGTGTTTGAGTG
53533218 GGTGGTGG
1 GGTGGTGG
53533226 GCATTGCCTT
Statistics
Matches: 145, Mismatches: 41, Indels: 34
0.66 0.19 0.15
Matches are distributed among these distances:
15 5 0.03
17 4 0.03
18 37 0.26
19 10 0.07
20 8 0.06
21 77 0.53
22 4 0.03
ACGTcount: A:0.11, C:0.04, G:0.50, T:0.35
Consensus pattern (21 bp):
GGTGGTGGATGTGTTTGAGTG
Found at i:53533059 original size:138 final size:138
Alignment explanation
Indices: 53532878--53533183 Score: 353
Period size: 138 Copynumber: 2.2 Consensus size: 138
53532868 GTGTACGACC
*** *
53532878 TTGAGTGGGTGGCGAGTATTGGGATGGTGGTGGATGAGTTTGAGTGGGAGGTGAGTATTGCCTCG
1 TTGAGTGGGTGGCGAGTATTGCCTTGGTGGTGGATGAGCTTGAGTGGGAGGTGAGTATTGCCTCG
* * * * *
53532943 GTGGAGGATGAGCTTCAGTAGGTGGTTCACAACCTTTAGTGGGTGGCGTGG-ATTGCATTGGTGG
66 GTGGAGGATGAGCTTCAGTAGGTGGTGCACAACCTTGAGTAGGTGGCG-GGTATAGCATTGGCGG
53533007 TGGATGTGT
130 TGGATGTGT
* * * ** *
53533016 TTGAATGGGTGGCGAGTATTGCCTTGGTGGTGGATGGGCTTGAGTGGGTGGTGAGTATTGTGTTG
1 TTGAGTGGGTGGCGAGTATTGCCTTGGTGGTGGATGAGCTTGAGTGGGAGGTGAGTATTGCCTCG
* * * * * * ** * * *
53533081 GTGGTGGATGTGTTTGAGTGGGTGGTGGATGAGCTTGAGTAGGTGGTGGGTATAGCTTTGGCGGT
66 GTGGAGGATGAGCTTCAGTAGGTGGTGCACAACCTTGAGTAGGTGGCGGGTATAGCATTGGCGGT
53533146 GGATGTGT
131 GGATGTGT
*
53533154 TTGAGTGGGTGGCGGGTATTGCCTTGGTGG
1 TTGAGTGGGTGGCGAGTATTGCCTTGGTGG
53533184 AGGAGTTTGA
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
137 2 0.01
138 137 0.99
ACGTcount: A:0.13, C:0.07, G:0.46, T:0.33
Consensus pattern (138 bp):
TTGAGTGGGTGGCGAGTATTGCCTTGGTGGTGGATGAGCTTGAGTGGGAGGTGAGTATTGCCTCG
GTGGAGGATGAGCTTCAGTAGGTGGTGCACAACCTTGAGTAGGTGGCGGGTATAGCATTGGCGGT
GGATGTGT
Found at i:53533147 original size:60 final size:60
Alignment explanation
Indices: 53533041--53533225 Score: 191
Period size: 60 Copynumber: 3.1 Consensus size: 60
53533031 GTATTGCCTT
* * * *
53533041 GGTGGTGGATGGGCTTGAGTGGGTGGTGAGTATTGTGTTGGTGGTGGATGTGTTTGAGTG
1 GGTGGTGGATGAGCTTGAGTAGGTGGTGAGTATAGTGTTGGCGGTGGATGTGTTTGAGTG
*
53533101 GGTGGTGGATGAGCTTGAGTAGGTGGTGGGTATAGCT-TTGGCGGTGGATGTGTTTGAGTG
1 GGTGGTGGATGAGCTTGAGTAGGTGGTGAGTATAG-TGTTGGCGGTGGATGTGTTTGAGTG
* * ** * * * * *
53533161 GGTGGCGGGT-A--TTGCCTTGGTGGAGGAGT-TTGAGTTGGTGGTGGATGTGTTTGAGTG
1 GGTGGTGGATGAGCTTGAGTAGGTGG-TGAGTATAGTGTTGGCGGTGGATGTGTTTGAGTG
53533218 GGTGGTGG
1 GGTGGTGG
53533226 GCATTGCCTT
Statistics
Matches: 106, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
57 40 0.38
58 3 0.03
59 1 0.01
60 61 0.58
61 1 0.01
ACGTcount: A:0.11, C:0.04, G:0.51, T:0.35
Consensus pattern (60 bp):
GGTGGTGGATGAGCTTGAGTAGGTGGTGAGTATAGTGTTGGCGGTGGATGTGTTTGAGTG
Found at i:53533164 original size:18 final size:18
Alignment explanation
Indices: 53533143--53533222 Score: 54
Period size: 18 Copynumber: 4.3 Consensus size: 18
53533133 TAGCTTTGGC
53533143 GGTGGATGTGTTTGAGTG
1 GGTGGATGTGTTTGAGTG
* * ** *
53533161 GGTGG-CGGGTATTGCCTT
1 GGTGGATGTGT-TTGAGTG
* *
53533179 GGTGGAGGAGTTTGAGTTGG
1 GGTGGATGTGTTTGAG-T-G
53533199 TGGTGGATGTGTTTGAGTG
1 -GGTGGATGTGTTTGAGTG
53533218 GGTGG
1 GGTGG
53533223 TGGGCATTGC
Statistics
Matches: 45, Mismatches: 12, Indels: 10
0.67 0.18 0.15
Matches are distributed among these distances:
17 3 0.07
18 22 0.49
19 5 0.11
20 1 0.02
21 14 0.31
ACGTcount: A:0.10, C:0.04, G:0.51, T:0.35
Consensus pattern (18 bp):
GGTGGATGTGTTTGAGTG
Found at i:53533207 original size:57 final size:56
Alignment explanation
Indices: 53533138--53533708 Score: 506
Period size: 57 Copynumber: 9.8 Consensus size: 56
53533128 GGGTATAGCT
* *
53533138 TTGGCGGTGGATGTGTTTGAGTGGGTGGCGGGTATTGCCTTGGTGGAGGAGTTTGAG
1 TTGGTGGTGGATG-GCTTGAGTGGGTGGCGGGTATTGCCTTGGTGGAGGAGTTTGAG
* * * *
53533195 TTGGTGGTGGATGTGTTTGAGTGGGTGGTGGGCATTGCCTTGGTGGAGGGTGAGTTTGTG
1 TTGGTGGTGGATG-GCTTGAGTGGGTGGCGGGTATTGCCTTGGTGGA--G-GAGTTTGAG
* * * *
53533255 TAGGTGGTGGATGAGCTTGAATGGGTGGTGGGTATTGCCTTGGTGGAGGATGAACTTGAG
1 TTGGTGGTGGATG-GCTTGAGTGGGTGGCGGGTATTGCCTTGGTGGAGGA-G--TTTGAG
* * *
53533315 TGGGTGGCGGATGGCCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAG
1 TTGGTGGTGGATGG-CTTGAGTGGGTGGCGGGTATTGCCTTGGTGGAGGAGTTTGAG
*
53533372 TTGGTGGTGGATGGCCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAG
1 TTGGTGGTGGATGG-CTTGAGTGGGTGGCGGGTATTGCCTTGGTGGAGGAGTTTGAG
**
53533429 TTGGTGGTGGATGGCCTTGAGTGGGTGGCAAGTATTGCCTTGGTGGAGGA-TAAACTTGAG
1 TTGGTGGTGGATGG-CTTGAGTGGGTGGCGGGTATTGCCTTGGTGGAGGAGT----TTGAG
* * * ** ** * * **
53533489 TGGGTGGCGGATGGCCTTGAGTGGGTGGTGAATGAGCTTGAGTGGGTGGCGG-GTATTGCC
1 TTGGTGGTGGATGG-CTTGAGTGGGTGGCGGGT-A--TTGCCTTGGTGGAGGAGT-TTGAG
* * * * * * * **
53533549 TTTGTGGAGGA--GTTTGAGTTGGTGG-TGG-ATGGCCTTGAGTGGGTGGCGAGTATTGCC
1 TTGGTGGTGGATGGCTTGAGTGGGTGGCGGGTATTGCCTTG-GT-GG-AG-GAGT-TTGAG
*
53533606 TTGGTGGTGGATGAGCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAG
1 TTGGTGGTGGATG-GCTTGAGTGGGTGGCGGGTATTGCCTTGGTGGAGGAGTTTGAG
*
53533663 TTGGTGGTGGATGGCCTTGAGTGGGTGGCGAGTATTGCCTTGGTGG
1 TTGGTGGTGGATGG-CTTGAGTGGGTGGCGGGTATTGCCTTGGTGG
53533709 TGGATGAGCT
Statistics
Matches: 429, Mismatches: 59, Indels: 52
0.79 0.11 0.10
Matches are distributed among these distances:
52 4 0.01
53 2 0.00
54 3 0.01
55 1 0.00
56 3 0.01
57 226 0.53
58 7 0.02
59 4 0.01
60 155 0.36
61 5 0.01
62 7 0.02
63 12 0.03
ACGTcount: A:0.12, C:0.09, G:0.47, T:0.32
Consensus pattern (56 bp):
TTGGTGGTGGATGGCTTGAGTGGGTGGCGGGTATTGCCTTGGTGGAGGAGTTTGAG
Found at i:53533222 original size:39 final size:39
Alignment explanation
Indices: 53533000--53533222 Score: 154
Period size: 39 Copynumber: 5.7 Consensus size: 39
53532990 GTGGATTGCA
* * **
53533000 TTGGTGGTGGATGTGTTTGAATGGGTGG-CGAGTATTGCC
1 TTGGTGGTGGATGTGTTTGAGTGGGTGGATGAGT-TTGAG
* * *
53533039 TTGGTGGTGGATGGGCTTGAGTGGGTGG-TGAGTATTGTG
1 TTGGTGGTGGATGTGTTTGAGTGGGTGGATGAGT-TTGAG
*
53533078 TTGGTGGTGGATGTGTTTGAGTGGGTGGTGGATGAGCTTGAG
1 TTGGTGGTGGATGTGTTTGAGT--G-GGTGGATGAGTTTGAG
* * * * *
53533120 TAGGTGGTGGGTATAGCTTTG-G-CGGTGGATGTGTTTGAG
1 TTGGTGGTGGATGT-G-TTTGAGTGGGTGGATGAGTTTGAG
* * * ** * *
53533159 TGGGTGGCGG--GT-ATTGCCTTGGTGGAGGAGTTTGAG
1 TTGGTGGTGGATGTGTTTGAGTGGGTGGATGAGTTTGAG
53533195 TTGGTGGTGGATGTGTTTGAGTGGGTGG
1 TTGGTGGTGGATGTGTTTGAGTGGGTGG
53533223 TGGGCATTGC
Statistics
Matches: 143, Mismatches: 30, Indels: 22
0.73 0.15 0.11
Matches are distributed among these distances:
34 3 0.02
36 22 0.15
37 1 0.01
38 2 0.01
39 84 0.59
41 1 0.01
42 20 0.14
43 6 0.04
44 4 0.03
ACGTcount: A:0.11, C:0.04, G:0.49, T:0.35
Consensus pattern (39 bp):
TTGGTGGTGGATGTGTTTGAGTGGGTGGATGAGTTTGAG
Found at i:53533300 original size:39 final size:39
Alignment explanation
Indices: 53533101--53533321 Score: 134
Period size: 39 Copynumber: 5.7 Consensus size: 39
53533091 TGTTTGAGTG
* * *
53533101 GGTGGTGGATGAGCTTGAGTAGGTGGTGGGTATAGCTTT
1 GGTGGTGGATGAGCTTGAGTGGGTGGTGGGTATTGCCTT
* * * *
53533140 GGCGGTGGATGTGTTTGAGTGGGTGGCGGGTATTGCCTT
1 GGTGGTGGATGAGCTTGAGTGGGTGGTGGGTATTGCCTT
* * ** *
53533179 GGTGGAGGAGTTTGAG-TTG-GT-GGTGGATGTGT-TTGAGTG
1 GGTGGTGGA---TGAGCTTGAGTGGGTGG-TGGGTATTGCCTT
* * ** *
53533218 GGTGGTGGGCATTG-CCTTG-GTGGAG-GGTGAGT-TTGTGTA
1 GGTGGT-GG-A-TGAGCTTGAGTGG-GTGGTGGGTATTGCCTT
*
53533257 GGTGGTGGATGAGCTTGAATGGGTGGTGGGTATTGCCTT
1 GGTGGTGGATGAGCTTGAGTGGGTGGTGGGTATTGCCTT
* *
53533296 GGTGGAGGATGAACTTGAGTGGGTGG
1 GGTGGTGGATGAGCTTGAGTGGGTGG
53533322 CGGATGGCCT
Statistics
Matches: 140, Mismatches: 29, Indels: 26
0.72 0.15 0.13
Matches are distributed among these distances:
36 2 0.01
37 6 0.04
38 11 0.08
39 103 0.74
40 10 0.07
41 5 0.04
42 3 0.02
ACGTcount: A:0.13, C:0.06, G:0.49, T:0.33
Consensus pattern (39 bp):
GGTGGTGGATGAGCTTGAGTGGGTGGTGGGTATTGCCTT
Found at i:53533326 original size:21 final size:21
Alignment explanation
Indices: 53533296--53533345 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
53533286 GTATTGCCTT
*
53533296 GGTGGAGGATGAACTTGAGTG
1 GGTGGCGGATGAACTTGAGTG
**
53533317 GGTGGCGGATGGCCTTGAGTG
1 GGTGGCGGATGAACTTGAGTG
53533338 GGTGGCGG
1 GGTGGCGG
53533346 GTATTGCCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.14, C:0.10, G:0.54, T:0.22
Consensus pattern (21 bp):
GGTGGCGGATGAACTTGAGTG
Found at i:53533378 original size:18 final size:18
Alignment explanation
Indices: 53533357--53533435 Score: 52
Period size: 18 Copynumber: 4.2 Consensus size: 18
53533347 TATTGCCTTT
53533357 GTGGAGGAGTTTGAGTTG
1 GTGGAGGAGTTTGAGTTG
* * *
53533375 GTGGTGGATGGCCTTGAGTGG
1 GTGGAGGA--G-TTTGAGTTG
* ** *
53533396 GTGGCGG-GTATTGCCTTT
1 GTGGAGGAGT-TTGAGTTG
53533414 GTGGAGGAGTTTGAGTTG
1 GTGGAGGAGTTTGAGTTG
53533432 GTGG
1 GTGG
53533436 TGGATGGCCT
Statistics
Matches: 43, Mismatches: 13, Indels: 10
0.65 0.20 0.15
Matches are distributed among these distances:
18 27 0.63
19 2 0.05
20 1 0.02
21 13 0.30
ACGTcount: A:0.11, C:0.06, G:0.49, T:0.33
Consensus pattern (18 bp):
GTGGAGGAGTTTGAGTTG
Found at i:53533381 original size:96 final size:96
Alignment explanation
Indices: 53533317--53533999 Score: 832
Period size: 96 Copynumber: 7.1 Consensus size: 96
53533307 AACTTGAGTG
*
53533317 GGTGGCGGATG-GCCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAGTTGGTGGTG
1 GGTGGTGGATGAG-CTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAGTTGGTGGTG
*
53533381 GATGGCCTTGAGTGGGTGGCGGGTATTGCCTT
65 GATGGCCTTGAGTGGGTGGCGAGTATTGCCTT
* * * * * * * **
53533413 --T-GTGGAGGAGTTTGAGTTGGTGG-TGG-ATGGCCTTGAGTGGGTGGCAAGTATTGCCTTGGT
1 GGTGGTGGATGAGCTTGAGTGGGTGGCGGGTATTGCCTT-TGT-GGAGG--AGT-TTGAGTTGGT
* *** *
53533473 GGAGGATAAACTTGAGTGGGTGGCG-G-ATGGCCTT
61 GGTGGATGGCCTTGAGTGGGTGGCGAGTATTGCCTT
53533507 GAGTGGGTGGTGAATGAGCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAGTTGGT
1 G-GT-GGT-G-G-ATGAGCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAGTTGGT
53533572 GGTGGATGGCCTTGAGTGGGTGGCGAGTATTGCCTT
61 GGTGGATGGCCTTGAGTGGGTGGCGAGTATTGCCTT
53533608 GGTGGTGGATGAGCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAGTTGGTGGTGG
1 GGTGGTGGATGAGCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAGTTGGTGGTGG
53533673 ATGGCCTTGAGTGGGTGGCGAGTATTGCCTT
66 ATGGCCTTGAGTGGGTGGCGAGTATTGCCTT
53533704 GGTGGTGGATGAGCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAGTTGGTGGTGG
1 GGTGGTGGATGAGCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAGTTGGTGGTGG
53533769 ATGGCCTTGAGTGGGTGGCGAGTATTGCCTT
66 ATGGCCTTGAGTGGGTGGCGAGTATTGCCTT
53533800 GGTGGTGGATGAGCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAGTTGGTGGTGG
1 GGTGGTGGATGAGCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAGTTGGTGGTGG
* * * *
53533865 ATGTG-TTTGAGTGGGTGGTGGGTATTGCATT
66 ATG-GCCTTGAGTGGGTGGCGAGTATTGCCTT
* * * * * * * * **
53533896 GGTGGAGGATGTGTTTGAATGGGTGG-TGG-ATGGCCTTGAGTGGGTGGTGAGTATTGCCTTGGT
1 GGTGGTGGATGAGCTTGAGTGGGTGGCGGGTATTGCCTT-TGT-GG-AG-GAGT-TTGAGTTGGT
* *
53533959 GGAGGATGAG-CTTGAGTGGGTGGCGGGTATTGCCTT
61 GGTGGATG-GCCTTGAGTGGGTGGCGAGTATTGCCTT
53533995 GGTGG
1 GGTGG
53534000 AGTTTGAGTT
Statistics
Matches: 515, Mismatches: 48, Indels: 45
0.85 0.08 0.07
Matches are distributed among these distances:
91 7 0.01
92 4 0.01
93 20 0.04
94 16 0.03
95 8 0.02
96 327 0.63
97 4 0.01
98 5 0.01
99 78 0.15
100 7 0.01
101 9 0.02
102 19 0.04
103 4 0.01
104 7 0.01
ACGTcount: A:0.12, C:0.09, G:0.47, T:0.32
Consensus pattern (96 bp):
GGTGGTGGATGAGCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAGTTGGTGGTGG
ATGGCCTTGAGTGGGTGGCGAGTATTGCCTT
Found at i:53533494 original size:21 final size:21
Alignment explanation
Indices: 53533470--53533537 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
53533460 GTATTGCCTT
*
53533470 GGTGGAGGATAAACTTGAGTG
1 GGTGGAGGATGAACTTGAGTG
* **
53533491 GGTGGCGGATGGCCTTGAGTG
1 GGTGGAGGATGAACTTGAGTG
* * *
53533512 GGTGGTGAATGAGCTTGAGTG
1 GGTGGAGGATGAACTTGAGTG
53533533 GGTGG
1 GGTGG
53533538 CGGGTATTGC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.18, C:0.07, G:0.50, T:0.25
Consensus pattern (21 bp):
GGTGGAGGATGAACTTGAGTG
Found at i:53533529 original size:81 final size:78
Alignment explanation
Indices: 53533424--53533594 Score: 220
Period size: 81 Copynumber: 2.2 Consensus size: 78
53533414 GTGGAGGAGT
* *
53533424 TTGAGTTGGTGGTGGATGGCCTTGAGTGGGTGGCAAGTATTGCCTTGGTGGAGGA-TAAACTTGA
1 TTGAGTGGGTGGTGAATGGCCTTGAGTGGGTGGCAAGTATTGCCTTGGTGGAGGAGT----TTGA
53533488 GTGGGTGGCGGATGGCC
62 GTGGGTGGCGGATGGCC
** * *
53533505 TTGAGTGGGTGGTGAATGAG-CTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAGTT
1 TTGAGTGGGTGGTGAATG-GCCTTGAGTGGGTGGCAAGTATTGCCTTGGTGGAGGAGTTTGAGTG
*
53533569 GGTGGTGGATGGCC
65 GGTGGCGGATGGCC
53533583 TTGAGTGGGTGG
1 TTGAGTGGGTGG
53533595 CGAGTATTGC
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
78 31 0.38
81 48 0.59
82 2 0.02
ACGTcount: A:0.14, C:0.09, G:0.47, T:0.30
Consensus pattern (78 bp):
TTGAGTGGGTGGTGAATGGCCTTGAGTGGGTGGCAAGTATTGCCTTGGTGGAGGAGTTTGAGTGG
GTGGCGGATGGCC
Found at i:53533578 original size:138 final size:138
Alignment explanation
Indices: 53533367--53533945 Score: 536
Period size: 138 Copynumber: 4.1 Consensus size: 138
53533357 GTGGAGGAGT
* *
53533367 TTGAGTTGGTGGTGGATGGCCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAGTTG
1 TTGAGTGGGTGGTGAATGGCCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAGTTG
53533432 GTGGTGGATGGCCTTGAGTGGGTGGCAAGTATTGCCTTGGTGGAGGATAAACTTGAGTGGGTGGC
66 GTGGTGGATGGCCTTGAGTGGGTGGCAAGTATTGCCTTGGTGGAGGATAAACTTGAGTGGGTGGC
53533497 GGATGGCC
131 GGATGGCC
53533505 TTGAGTGGGTGGTGAATGAG-CTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAGTT
1 TTGAGTGGGTGGTGAATG-GCCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAGTT
* * * *
53533569 GGTGGTGGATGGCCTTGAGTGGGTGGCGAGTATTGCCTTGGTGGTGGATGAGCTTGAGTGGGTGG
65 GGTGGTGGATGGCCTTGAGTGGGTGGCAAGTATTGCCTTGGTGGAGGATAAACTTGAGTGGGTGG
*
53533634 CGGGTATTGCC
130 C-GG-ATGGCC
* *
53533645 TTTGTGGAGGAGTTTGAGTTGGTGGTGGATGGCCTTGAGTGGGTGGCGAGTATTGCCTTGGTGGT
1 --T-T----GAG--T--G--GGTGGTGAATGGCCTTGAGTGGGTGGCGGGTATTGCCTT--T-GT
* * * * * * * ** *
53533710 GGATGAGCTTGAGTGGGTGGCGGGTATTGCCTT-TGT-GGAGG--AGT-TTGAGTTGGTGGTGGA
50 GGAGGAGTTTGAGTTGGTGG-TGG-ATGGCCTTGAGTGGGTGGCAAGTATTGCCTTGGTGGAGGA
*** *
53533770 TGGCCTTGAGTGGGTGGCGAGTATTGCC
113 TAAACTTGAGTGGGTGGCG-G-ATGGCC
53533798 TTG-GT-GGT-G-G-ATGAG-CTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAGTT
1 TTGAGTGGGTGGTGAATG-GCCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAGTT
* *** * **** *
53533857 GGTGGTGGATGTG-TTTGAGTGGGTGGTGGGTATTGCATTGGTGGAGGATGTGTTTGAATGGGTG
65 GGTGGTGGATG-GCCTTGAGTGGGTGGCAAGTATTGCCTTGGTGGAGGATAAACTTGAGTGGGTG
*
53533921 GTGGATGGCC
129 GCGGATGGCC
53533931 TTGAGTGGGTGGTGA
1 TTGAGTGGGTGGTGA
53533946 GTATTGCCTT
Statistics
Matches: 367, Mismatches: 39, Indels: 70
0.77 0.08 0.15
Matches are distributed among these distances:
130 4 0.01
131 5 0.01
132 23 0.06
133 9 0.02
134 5 0.01
135 58 0.16
136 3 0.01
137 2 0.01
138 125 0.34
139 3 0.01
140 5 0.01
142 1 0.00
143 2 0.01
145 1 0.00
146 1 0.00
147 3 0.01
149 1 0.00
150 1 0.00
151 2 0.01
152 2 0.01
153 73 0.20
154 3 0.01
155 1 0.00
156 23 0.06
157 4 0.01
158 7 0.02
ACGTcount: A:0.12, C:0.08, G:0.47, T:0.32
Consensus pattern (138 bp):
TTGAGTGGGTGGTGAATGGCCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAGTTG
GTGGTGGATGGCCTTGAGTGGGTGGCAAGTATTGCCTTGGTGGAGGATAAACTTGAGTGGGTGGC
GGATGGCC
Found at i:53533610 original size:39 final size:39
Alignment explanation
Indices: 53533567--53533999 Score: 181
Period size: 39 Copynumber: 11.2 Consensus size: 39
53533557 GGAGTTTGAG
53533567 TTGGTGGTGGATGGCCTTGAGTGGGTGGCGAGTATTGCC
1 TTGGTGGTGGATGGCCTTGAGTGGGTGGCGAGTATTGCC
*
53533606 TTGGTGGTGGATGAG-CTTGAGTGGGTGGCGGGTATTGCC
1 TTGGTGGTGGATG-GCCTTGAGTGGGTGGCGAGTATTGCC
* * * * * *
53533645 TTTGTGGAGGA--G-TTTGAGTTGGTGGTG-G-ATGGCC
1 TTGGTGGTGGATGGCCTTGAGTGGGTGGCGAGTATTGCC
* * * **
53533679 TTGAGTGGGTGGCGAGTATTGCCTTG-GT-GGTGGATGAG-CTTGAG
1 TTG-GT-GGT---G-G-ATGGCCTTGAGTGGGTGG-CGAGTATTGCC
* * * * * **
53533723 TGGGTGGCGGGTATTGCCTT-TGT-GG-AG-GAGT-TTGAG
1 TTGGTGG-TGG-ATGGCCTTGAGTGGGTGGCGAGTATTGCC
53533759 TTGGTGGTGGATGGCCTTGAGTGGGTGGCGAGTATTGCC
1 TTGGTGGTGGATGGCCTTGAGTGGGTGGCGAGTATTGCC
*
53533798 TTGGTGGTGGATGAG-CTTGAGTGGGTGGCGGGTATTGCC
1 TTGGTGGTGGATG-GCCTTGAGTGGGTGGCGAGTATTGCC
* * * * * * **
53533837 TTTGTGGAGGA--G-TTTGAGTTGGTGGTGGATGTGTTTGAG
1 TTGGTGGTGGATGGCCTTGAGTGGGTGG-CGA-GT-ATTGCC
* * * ** * **
53533876 TGGGTGGTGGGTATTGCATTG-GTGGAG-GATGTGT-TTGAA
1 TTGGTGGT-GG-ATGGCCTTGAGTGG-GTGGCGAGTATTGCC
* *
53533915 TGGGTGGTGGATGGCCTTGAGTGGGTGGTGAGTATTGCC
1 TTGGTGGTGGATGGCCTTGAGTGGGTGGCGAGTATTGCC
* *
53533954 TTGGTGGAGGATGAG-CTTGAGTGGGTGGCGGGTATTGCC
1 TTGGTGGTGGATG-GCCTTGAGTGGGTGGCGAGTATTGCC
53533993 TTGGTGG
1 TTGGTGG
53534000 AGTTTGAGTT
Statistics
Matches: 306, Mismatches: 53, Indels: 70
0.71 0.12 0.16
Matches are distributed among these distances:
34 14 0.05
35 7 0.02
36 43 0.14
37 10 0.03
38 18 0.06
39 171 0.56
40 7 0.02
41 4 0.01
42 8 0.03
43 12 0.04
44 12 0.04
ACGTcount: A:0.12, C:0.08, G:0.47, T:0.33
Consensus pattern (39 bp):
TTGGTGGTGGATGGCCTTGAGTGGGTGGCGAGTATTGCC
Found at i:53533825 original size:57 final size:57
Alignment explanation
Indices: 53533702--53533825 Score: 169
Period size: 57 Copynumber: 2.1 Consensus size: 57
53533692 GAGTATTGCC
* *
53533702 TTGGTGGTGGATGAGCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAG
1 TTGGTGGTGGATGAGCTTGAGTGGGTGGCGAGTATTGCCTTTGTGGAGGAGCTTGAG
*
53533759 TTGGTGGTGGATG-GCCTTGAGTGGGTGGCGAGTATTGCCTTGGTGGTGGATGAGCTTGAG
1 TTGGTGGTGGATGAG-CTTGAGTGGGTGGCGAGTATTGCCTT--T-GTGGAGGAGCTTGAG
*
53533819 TGGGTGG
1 TTGGTGG
53533826 CGGGTATTGC
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
56 1 0.02
57 38 0.64
59 1 0.02
60 19 0.32
ACGTcount: A:0.11, C:0.08, G:0.48, T:0.32
Consensus pattern (57 bp):
TTGGTGGTGGATGAGCTTGAGTGGGTGGCGAGTATTGCCTTTGTGGAGGAGCTTGAG
Found at i:53533864 original size:21 final size:21
Alignment explanation
Indices: 53533840--53533885 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
53533830 TATTGCCTTT
*
53533840 GTGGAGGAGTTTGAGTTGGTG
1 GTGGAGGAGTTTGAGTGGGTG
* *
53533861 GTGGATGTGTTTGAGTGGGTG
1 GTGGAGGAGTTTGAGTGGGTG
53533882 GTGG
1 GTGG
53533886 GTATTGCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.11, C:0.00, G:0.54, T:0.35
Consensus pattern (21 bp):
GTGGAGGAGTTTGAGTGGGTG
Found at i:53533920 original size:21 final size:21
Alignment explanation
Indices: 53533848--53533944 Score: 76
Period size: 21 Copynumber: 4.8 Consensus size: 21
53533838 TTGTGGAGGA
* *
53533848 GTTTGAGTTGGTGGTGGATGT
1 GTTTGAATGGGTGGTGGATGT
*
53533869 GTTTGAGTGGGTGGTGG--GT
1 GTTTGAATGGGTGGTGGATGT
* * * *
53533888 -ATTGCATTGGTGGAGGATGT
1 GTTTGAATGGGTGGTGGATGT
53533908 GTTTGAATGGGTGGTGGATG-
1 GTTTGAATGGGTGGTGGATGT
* *
53533928 GCCTTGAGTGGGTGGTG
1 G-TTTGAATGGGTGGTG
53533945 AGTATTGCCT
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
18 11 0.18
19 2 0.03
20 3 0.05
21 44 0.73
ACGTcount: A:0.11, C:0.03, G:0.49, T:0.36
Consensus pattern (21 bp):
GTTTGAATGGGTGGTGGATGT
Found at i:53533979 original size:60 final size:60
Alignment explanation
Indices: 53533800--53533981 Score: 237
Period size: 60 Copynumber: 3.1 Consensus size: 60
53533790 GTATTGCCTT
* * *
53533800 GGTGGTGGATGAGCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGA-G--GAGTTTGAGTT
1 GGTGGTGGATGAGCTTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGATGAGTTTGAGTG
* * * * *
53533857 GGTGGTGGATGTGTTTGAGTGGGTGGTGGGTATTGCATTGGTGGAGGATGTGTTTGAATG
1 GGTGGTGGATGAGCTTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGATGAGTTTGAGTG
* *
53533917 GGTGGTGGATG-GCCTTGAGTGGGTGGTGAGTATTGCCTTGGTGGAGGATGAGCTTGAGTG
1 GGTGGTGGATGAG-CTTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGATGAGTTTGAGTG
53533977 GGTGG
1 GGTGG
53533982 CGGGTATTGC
Statistics
Matches: 107, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
57 40 0.37
58 1 0.01
59 1 0.01
60 65 0.61
ACGTcount: A:0.13, C:0.05, G:0.49, T:0.33
Consensus pattern (60 bp):
GGTGGTGGATGAGCTTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGATGAGTTTGAGTG
Found at i:53534020 original size:72 final size:72
Alignment explanation
Indices: 53533931--53534073 Score: 205
Period size: 72 Copynumber: 2.0 Consensus size: 72
53533921 GTGGATGGCC
* * * *
53533931 TTGAGTGGGTGGTGAGTATTGCCTTGGTGGAGGATGAGCTTGAGTGGGTGGCGGGTATTGCCTTG
1 TTGAGTGGGCGGTGAGTATTGCATTGGTGGAGGATGAGCTTGAGTGGGCGGCGGGTACTGCCTTG
53533996 GTGGAGT
66 GTGGAGT
* * * * *
53534003 TTGAGTTGGCGGTGAGTATTGCATTGGTGGTGGATGTGTTTGAGTGGGCGGTGGGTACTGCCTTG
1 TTGAGTGGGCGGTGAGTATTGCATTGGTGGAGGATGAGCTTGAGTGGGCGGCGGGTACTGCCTTG
53534068 GTGGAG
66 GTGGAG
53534074 GATGAGTTTG
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.12, C:0.08, G:0.47, T:0.33
Consensus pattern (72 bp):
TTGAGTGGGCGGTGAGTATTGCATTGGTGGAGGATGAGCTTGAGTGGGCGGCGGGTACTGCCTTG
GTGGAGT
Found at i:53534041 original size:132 final size:132
Alignment explanation
Indices: 53533869--53534131 Score: 336
Period size: 132 Copynumber: 2.0 Consensus size: 132
53533859 TGGTGGATGT
* * *
53533869 GTTTGAGTGGGTGGTGGGTATTGCATTGGTGGAGGATGTGTTTGAATGGGTGGT-GG-A-TGGCC
1 GTTTGAGTGGGCGGTGAGTATTGCATTGGTGGAGGATGTGTTTGAATGGGCGGTGGGTACT-GCC
* * *
53533931 TTGAGTGG-GTGGTGAGTATTGCCTTGGTGGAGGATGAGCTTGAGTGGGTGGCGGGTATTGCCTT
65 TTG-GTGGAG-GATGAGT-TTGCCTGGGTGGAGGATGAGCTTGAGTGGGTGGCGAGTATTGCCTT
53533995 GGTGGA
127 GGTGGA
* * *
53534001 GTTTGAGTTGGCGGTGAGTATTGCATTGGTGGTGGATGTGTTTGAGTGGGCGGTGGGTACTGCCT
1 GTTTGAGTGGGCGGTGAGTATTGCATTGGTGGAGGATGTGTTTGAATGGGCGGTGGGTACTGCCT
** * * *
53534066 TGGTGGAGGATGAGTTTGTGTGGGTGGTGGATGTGTTTGAGTGGGTGGCGAGTATTGCCTTGGTG
66 TGGTGGAGGATGAGTTTGCCTGGGTGGAGGATGAGCTTGAGTGGGTGGCGAGTATTGCCTTGGTG
53534131 G
131 G
53534132 TGGATGAGCT
Statistics
Matches: 113, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
132 92 0.81
133 12 0.11
134 8 0.07
135 1 0.01
ACGTcount: A:0.12, C:0.07, G:0.48, T:0.34
Consensus pattern (132 bp):
GTTTGAGTGGGCGGTGAGTATTGCATTGGTGGAGGATGTGTTTGAATGGGCGGTGGGTACTGCCT
TGGTGGAGGATGAGTTTGCCTGGGTGGAGGATGAGCTTGAGTGGGTGGCGAGTATTGCCTTGGTG
GA
Found at i:53534095 original size:39 final size:39
Alignment explanation
Indices: 53533775--53534095 Score: 186
Period size: 39 Copynumber: 8.4 Consensus size: 39
53533765 GTGGATGGCC
* * * *
53533775 TTGAGTGGGTGGCGAGTATTGCCTTGGTGGTGGATGAGC
1 TTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGATGAGT
* *
53533814 TTGAGTGGGTGGCGGGTATTGCCTTTGTGGA-G--GAGT
1 TTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGATGAGT
* * * *
53533850 TTGAGTTGGTGGT-GG-ATGTG-TTTGAGTGG-GTGGTGGGT
1 TTGAGTGGGTGGTGGGTAT-TGCCTTG-GTGGAG-GATGAGT
* * * ** * * *
53533888 ATTGCA-TTGGTGGAGGATGTGTTTGAATGGGTGGTGGATG-GCC
1 -TTG-AGTGGGTGGTGG--GT-ATTGCCTTGGTGGAGGATGAG-T
* *
53533931 TTGAGTGGGTGGTGAGTATTGCCTTGGTGGAGGATGAGC
1 TTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGATGAGT
*
53533970 TTGAGTGGGTGGCGGGTATTGCCTTGGT----G--GAGT
1 TTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGATGAGT
* * * * * *
53534003 TTGAGTTGGCGGTGAGTATTGCATTGGTGGTGGATGTGT
1 TTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGATGAGT
* *
53534042 TTGAGTGGGCGGTGGGTACTGCCTTGGTGGAGGATGAGT
1 TTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGATGAGT
*
53534081 TTGTGTGGGTGGTGG
1 TTGAGTGGGTGGTGG
53534096 ATGTGTTTGA
Statistics
Matches: 218, Mismatches: 40, Indels: 48
0.71 0.13 0.16
Matches are distributed among these distances:
33 26 0.12
34 4 0.02
35 9 0.04
36 15 0.07
37 1 0.00
38 4 0.02
39 128 0.59
40 5 0.02
41 1 0.00
42 12 0.06
43 9 0.04
44 4 0.02
ACGTcount: A:0.12, C:0.07, G:0.48, T:0.34
Consensus pattern (39 bp):
TTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGATGAGT
Found at i:53534097 original size:60 final size:60
Alignment explanation
Indices: 53534028--53534155 Score: 193
Period size: 60 Copynumber: 2.1 Consensus size: 60
53534018 GTATTGCATT
* * * *
53534028 GGTGGTGGATGTGTTTGAGTGGGCGGTGGGTACTGCCTTGGTGGAGGATGAGTTTGTGTG
1 GGTGGTGGATGTGTTTGAGTGGGCGGCGAGTACTGCCTTGGTGGAGGATGAGCTTGAGTG
* * *
53534088 GGTGGTGGATGTGTTTGAGTGGGTGGCGAGTATTGCCTTGGTGGTGGATGAGCTTGAGTG
1 GGTGGTGGATGTGTTTGAGTGGGCGGCGAGTACTGCCTTGGTGGAGGATGAGCTTGAGTG
53534148 GGTGGTGG
1 GGTGGTGG
53534156 GTATTGTCTT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.10, C:0.06, G:0.51, T:0.33
Consensus pattern (60 bp):
GGTGGTGGATGTGTTTGAGTGGGCGGCGAGTACTGCCTTGGTGGAGGATGAGCTTGAGTG
Found at i:53534119 original size:99 final size:99
Alignment explanation
Indices: 53534001--53534193 Score: 287
Period size: 99 Copynumber: 1.9 Consensus size: 99
53533991 CCTTGGTGGA
* * * *
53534001 GTTTGAGTTGGCGGTGAGTATTGCATTGGTGGTGGATGTGTTTGAGTGGGCGGTGGGTACTGCCT
1 GTTTGAGTGGGCGGCGAGTATTGCATTGGTGGTGGATGAGCTTGAGTGGGCGGTGGGTACTGCCT
* *
53534066 TGGTGGAGGATGAGTTTGTGTGGGTGGTGGATGT
66 TGGTGGAGGATGAGCTTGAGTGGGTGGTGGATGT
* * * * *
53534100 GTTTGAGTGGGTGGCGAGTATTGCCTTGGTGGTGGATGAGCTTGAGTGGGTGGTGGGTATTGTCT
1 GTTTGAGTGGGCGGCGAGTATTGCATTGGTGGTGGATGAGCTTGAGTGGGCGGTGGGTACTGCCT
53534165 TGGTGGAGGATGAGCTTGAGTGGGTGGTG
66 TGGTGGAGGATGAGCTTGAGTGGGTGGTG
53534194 AGAGAGGATG
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
99 83 1.00
ACGTcount: A:0.11, C:0.06, G:0.48, T:0.34
Consensus pattern (99 bp):
GTTTGAGTGGGCGGCGAGTATTGCATTGGTGGTGGATGAGCTTGAGTGGGCGGTGGGTACTGCCT
TGGTGGAGGATGAGCTTGAGTGGGTGGTGGATGT
Found at i:53534131 original size:39 final size:39
Alignment explanation
Indices: 53534088--53534191 Score: 154
Period size: 39 Copynumber: 2.7 Consensus size: 39
53534078 AGTTTGTGTG
* *
53534088 GGTGGTGGATGTGTTTGAGTGGGTGGCGAGTATTGCCTT
1 GGTGGTGGATGAGCTTGAGTGGGTGGCGAGTATTGCCTT
* * *
53534127 GGTGGTGGATGAGCTTGAGTGGGTGGTGGGTATTGTCTT
1 GGTGGTGGATGAGCTTGAGTGGGTGGCGAGTATTGCCTT
*
53534166 GGTGGAGGATGAGCTTGAGTGGGTGG
1 GGTGGTGGATGAGCTTGAGTGGGTGG
53534192 TGAGAGAGGA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.12, C:0.06, G:0.50, T:0.33
Consensus pattern (39 bp):
GGTGGTGGATGAGCTTGAGTGGGTGGCGAGTATTGCCTT
Found at i:53534140 original size:171 final size:171
Alignment explanation
Indices: 53533855--53534172 Score: 521
Period size: 171 Copynumber: 1.9 Consensus size: 171
53533845 GGAGTTTGAG
* * *
53533855 TTGGTGGTGGATGTGTTTGAGTGGGTGGTGGGTATTGCATTGGTGGAGGATGTGTTTGAATGGGT
1 TTGGTGGTGGATGTGTTTGAGTGGGCGGTGGGTACTGCATTGGTGGAGGATGAGTTTGAATGGGT
*
53533920 GGTGGATGGCCTTGAGTGGGTGGTGAGTATTGCCTTGGTGGAGGATGAGCTTGAGTGGGTGGCGG
66 GGTGGATGGCCTTGAGTGGGTGGCGAGTATTGCCTTGGTGGAGGATGAGCTTGAGTGGGTGGCGG
53533985 GTATTGCCTTGGTGGAGTTTGAGTTGGCGGTGAGTATTGCA
131 GTATTGCCTTGGTGGAGTTTGAGTTGGCGGTGAGTATTGCA
* **
53534026 TTGGTGGTGGATGTGTTTGAGTGGGCGGTGGGTACTGCCTTGGTGGAGGATGAGTTTGTGTGGGT
1 TTGGTGGTGGATGTGTTTGAGTGGGCGGTGGGTACTGCATTGGTGGAGGATGAGTTTGAATGGGT
* * *
53534091 GGTGGATGTG-TTTGAGTGGGTGGCGAGTATTGCCTTGGTGGTGGATGAGCTTGAGTGGGTGGTG
66 GGTGGATG-GCCTTGAGTGGGTGGCGAGTATTGCCTTGGTGGAGGATGAGCTTGAGTGGGTGGCG
*
53534155 GGTATTGTCTTGGTGGAG
130 GGTATTGCCTTGGTGGAG
53534173 GATGAGCTTG
Statistics
Matches: 135, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
171 134 0.99
172 1 0.01
ACGTcount: A:0.12, C:0.06, G:0.48, T:0.34
Consensus pattern (171 bp):
TTGGTGGTGGATGTGTTTGAGTGGGCGGTGGGTACTGCATTGGTGGAGGATGAGTTTGAATGGGT
GGTGGATGGCCTTGAGTGGGTGGCGAGTATTGCCTTGGTGGAGGATGAGCTTGAGTGGGTGGCGG
GTATTGCCTTGGTGGAGTTTGAGTTGGCGGTGAGTATTGCA
Found at i:53534151 original size:21 final size:21
Alignment explanation
Indices: 53534067--53534437 Score: 104
Period size: 21 Copynumber: 18.2 Consensus size: 21
53534057 GTACTGCCTT
* * *
53534067 GGTGGAGGATGAGTTTGTGTG
1 GGTGGTGGATGAGCTTGAGTG
* *
53534088 GGTGGTGGATGTGTTTGAGTG
1 GGTGGTGGATGAGCTTGAGTG
* ** *
53534109 GGTGG-CGA-GTA--TTGCCTT
1 GGTGGTGGATG-AGCTTGAGTG
53534127 GGTGGTGGATGAGCTTGAGTG
1 GGTGGTGGATGAGCTTGAGTG
* ** *
53534148 GGTGGTGGGT-A--TTGTCTT
1 GGTGGTGGATGAGCTTGAGTG
*
53534166 GGTGGAGGATGAGCTTGAGTG
1 GGTGGTGGATGAGCTTGAGTG
*
53534187 GGTGGTGAGAGAGGATGAGATTGAGTG
1 GGTGGT------GGATGAGCTTGAGTG
* ** *
53534214 GGTGGT-GA-G-GATTTTGTT
1 GGTGGTGGATGAGCTTGAGTG
*
53534232 GGTGGTGGATGAGCTTGAGTA
1 GGTGGTGGATGAGCTTGAGTG
* *
53534253 GGTGGT-G-TGCAACCTTGAGTA
1 GGTGGTGGATG--AGCTTGAGTG
** *
53534274 GGTGGTGGATGAATTTGGGTG
1 GGTGGTGGATGAGCTTGAGTG
* * * *
53534295 GGTGGCGGGT-A--TTGCGTT
1 GGTGGTGGATGAGCTTGAGTG
* * *
53534313 GGTGGTGAATGAGCTTGTGTA
1 GGTGGTGGATGAGCTTGAGTG
*
53534334 GGTGGTGGAT-A--TTGCA-TT
1 GGTGGTGGATGAGCTTG-AGTG
* * *
53534352 GGTGGAGGATGAGTTTGTGTG
1 GGTGGTGGATGAGCTTGAGTG
53534373 GGTGGTGGATG-GCCTTGAGTG
1 GGTGGTGGATGAG-CTTGAGTG
* * ** *
53534394 GGTGG-CGA-GA-ATTGCCTT
1 GGTGGTGGATGAGCTTGAGTG
*
53534412 GGTGGAGGATGAGCTTGAGTG
1 GGTGGTGGATGAGCTTGAGTG
53534433 GGTGG
1 GGTGG
53534438 CGGGTATTGC
Statistics
Matches: 253, Mismatches: 63, Indels: 68
0.66 0.16 0.18
Matches are distributed among these distances:
18 67 0.26
19 15 0.06
20 15 0.06
21 133 0.53
22 1 0.00
23 2 0.01
27 20 0.08
ACGTcount: A:0.15, C:0.05, G:0.48, T:0.32
Consensus pattern (21 bp):
GGTGGTGGATGAGCTTGAGTG
Found at i:53534191 original size:60 final size:60
Alignment explanation
Indices: 53534127--53534437 Score: 217
Period size: 60 Copynumber: 5.1 Consensus size: 60
53534117 GTATTGCCTT
*
53534127 GGTGGTGGATGAGCTTGAGTGGGTGGTGGGTATTGTCTTGGTGGAGGATGAGCTTGAGTG
1 GGTGGTGGATGAGCTTGAGTGGGTGGTGGGAATTGTCTTGGTGGAGGATGAGCTTGAGTG
* * * *
53534187 GGTGGTGAGAGAGGATGAGATTGAGTGGGTGGTGAGG-ATTTTGTTGGTGGTGGATGAGCTTGAG
1 GGTGGT------GGATGAGCTTGAGTGGGTGGTG-GGAATTGTCTTGGTGGAGGATGAGCTTGAG
*
53534251 TA
59 TG
* * ** * * * * *
53534253 GGTGGT-G-TGCAACCTTGAGTAGGTGGTGGATGAATTTGGGTGGGTGGCGGGT-A--TTGCGTT
1 GGTGGTGGATG--AGCTTGAGTGGGTGGTGG--GAA-TTGTCTTGGTGGAGGATGAGCTTGAGTG
* * * * *
53534313 GGTGGTGAATGAGCTTGTGTAGGTGGT-GGATATTG-CATTGGTGGAGGATGAGTTTGTGTG
1 GGTGGTGGATGAGCTTGAGTGGGTGGTGGGA-ATTGTC-TTGGTGGAGGATGAGCTTGAGTG
* * *
53534373 GGTGGTGGATG-GCCTTGAGTGGGTGGCGAGAATTGCCTTGGTGGAGGATGAGCTTGAGTG
1 GGTGGTGGATGAG-CTTGAGTGGGTGGTGGGAATTGTCTTGGTGGAGGATGAGCTTGAGTG
53534433 GGTGG
1 GGTGG
53534438 CGGGTATTGC
Statistics
Matches: 197, Mismatches: 31, Indels: 46
0.72 0.11 0.17
Matches are distributed among these distances:
57 14 0.07
58 4 0.02
59 4 0.02
60 101 0.51
61 4 0.02
62 4 0.02
63 12 0.06
66 52 0.26
67 2 0.01
ACGTcount: A:0.15, C:0.05, G:0.48, T:0.31
Consensus pattern (60 bp):
GGTGGTGGATGAGCTTGAGTGGGTGGTGGGAATTGTCTTGGTGGAGGATGAGCTTGAGTG
Found at i:53534201 original size:27 final size:27
Alignment explanation
Indices: 53534170--53534222 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
53534160 TGTCTTGGTG
*
53534170 GAGGATGAGCTTGAGTGGGTGGTGAGA
1 GAGGATGAGATTGAGTGGGTGGTGAGA
53534197 GAGGATGAGATTGAGTGGGTGGTGAG
1 GAGGATGAGATTGAGTGGGTGGTGAG
53534223 GATTTTGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.02, G:0.53, T:0.23
Consensus pattern (27 bp):
GAGGATGAGATTGAGTGGGTGGTGAGA
Found at i:53534203 original size:66 final size:66
Alignment explanation
Indices: 53534133--53534259 Score: 193
Period size: 66 Copynumber: 1.9 Consensus size: 66
53534123 CCTTGGTGGT
* *
53534133 GGATGAGCTTGAGTGGGTGGTG-GGTATTGTCTTGGTGGAGGATGAGCTTGAGTGGGTGGTGAGA
1 GGATGAGATTGAGTGGGTGGTGAGG-ATTGTCTTGGTGGAGGATGAGCTTGAGTAGGTGGTGAGA
53534197 GA
65 GA
* * *
53534199 GGATGAGATTGAGTGGGTGGTGAGGATTTTGTTGGTGGTGGATGAGCTTGAGTAGGTGGTG
1 GGATGAGATTGAGTGGGTGGTGAGGATTGTCTTGGTGGAGGATGAGCTTGAGTAGGTGGTG
53534260 TGCAACCTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 53 0.96
67 2 0.04
ACGTcount: A:0.17, C:0.03, G:0.50, T:0.31
Consensus pattern (66 bp):
GGATGAGATTGAGTGGGTGGTGAGGATTGTCTTGGTGGAGGATGAGCTTGAGTAGGTGGTGAGAG
A
Found at i:53534223 original size:23 final size:24
Alignment explanation
Indices: 53534165--53534225 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 24
53534155 GGTATTGTCT
*
53534165 TGGTGGAGGATGAGCTTGAGTGGG
1 TGGTGGAGGATGAGATTGAGTGGG
53534189 TGGTGAGAGAGGATGAGATTGAGTGGG
1 TGGT--G-GAGGATGAGATTGAGTGGG
53534216 TGGT-GAGGAT
1 TGGTGGAGGAT
53534226 TTTGTTGGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 6 0.18
24 4 0.12
26 1 0.03
27 22 0.67
ACGTcount: A:0.21, C:0.02, G:0.52, T:0.25
Consensus pattern (24 bp):
TGGTGGAGGATGAGATTGAGTGGG
Found at i:53534250 original size:39 final size:38
Alignment explanation
Indices: 53534199--53534380 Score: 121
Period size: 39 Copynumber: 4.6 Consensus size: 38
53534189 TGGTGAGAGA
* *
53534199 GGATGAGATTGAGTGGGTGGTGAGGATTTTGTTGGTGGT
1 GGATGAGCTTGAGTGGGTGGTG-GGATTGTGTTGGTGGT
* * * *
53534238 GGATGAGCTTGAGTAGGTGGTGTGCAACCTTGAGTAGGTGGT
1 GGATGAGCTTGAGTGGGTGGTG-G-GA--TTGTGTTGGTGGT
** * * *
53534280 GGATGAATTTGGGTGGGTGGCGGGTATTGCGTTGGTGGT
1 GGATGAGCTTGAGTGGGTGGTGGG-ATTGTGTTGGTGGT
* * * * ** *
53534319 GAATGAGCTTGTGTAGGTGGTGGATATTGCATTGGTGGA
1 GGATGAGCTTGAGTGGGTGGTGG-GATTGTGTTGGTGGT
* *
53534358 GGATGAGTTTGTGTGGGTGGTGG
1 GGATGAGCTTGAGTGGGTGGTGG
53534381 ATGGCCTTGA
Statistics
Matches: 111, Mismatches: 27, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
39 81 0.73
40 1 0.01
41 2 0.02
42 27 0.24
ACGTcount: A:0.15, C:0.04, G:0.47, T:0.33
Consensus pattern (38 bp):
GGATGAGCTTGAGTGGGTGGTGGGATTGTGTTGGTGGT
Found at i:53534381 original size:39 final size:39
Alignment explanation
Indices: 53534274--53534382 Score: 137
Period size: 39 Copynumber: 2.8 Consensus size: 39
53534264 ACCTTGAGTA
* * * * *
53534274 GGTGGTGGATGAATTTGGGTGGGTGGCGGGTATTGCGTT
1 GGTGGTGGATGAGTTTGTGTGGGTGGTGGATATTGCATT
* * *
53534313 GGTGGTGAATGAGCTTGTGTAGGTGGTGGATATTGCATT
1 GGTGGTGGATGAGTTTGTGTGGGTGGTGGATATTGCATT
*
53534352 GGTGGAGGATGAGTTTGTGTGGGTGGTGGAT
1 GGTGGTGGATGAGTTTGTGTGGGTGGTGGAT
53534383 GGCCTTGAGT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.14, C:0.04, G:0.49, T:0.34
Consensus pattern (39 bp):
GGTGGTGGATGAGTTTGTGTGGGTGGTGGATATTGCATT
Found at i:53534395 original size:99 final size:99
Alignment explanation
Indices: 53534274--53534725 Score: 257
Period size: 99 Copynumber: 4.4 Consensus size: 99
53534264 ACCTTGAGTA
* * * * * * *
53534274 GGTGGTGGATGAATTTGGGTGGGTGGCGGGTATTGCGTTGGTGGTGAATGAGCTTGTGTAGGTGG
1 GGTGGTGGATGAACTTGAGTGGGTGGCGAGAATTGCCTTGGTGGAGAATGAGCTTGAGTAGGTGG
*
53534339 TGGATATTGCATTGGTGGAGGATGAGTTTGTGTG
66 CGGATATTGCATTGGTGGAGGATGAGTTTGTGTG
** * *
53534373 GGTGGTGGATGGCCTTGAGTGGGTGGCGAGAATTGCCTTGGTGGAGGATGAGCTTGAGTGGGTGG
1 GGTGGTGGATGAACTTGAGTGGGTGGCGAGAATTGCCTTGGTGGAGAATGAGCTTGAGTAGGTGG
* * ** *
53534438 CGGGTATTGCCTTGGTGGAGTTTGAGTTGGCGGTGAGTATTGCATT
66 CGGATATTGCATTGGTGGAG---GA--------TGAGT-TTGTGTG
* *** * * * *
53534484 GGTGGTTGATGTGTTTGAGTGGGTGGCGAGTATTGCCTTTGTGGTGGATGAGCTTGAGTAGGTGG
1 GGTGGTGGATGAACTTGAGTGGGTGGCGAGAATTGCCTTGGTGGAGAATGAGCTTGAGTAGGTGG
* * * *
53534549 TGGGTATTGTC-TTGGTGGAGGATGAGCTTGAGTG
66 CGGATATTG-CATTGGTGGAGGATGAGTTTGTGTG
* * * * * ** * * * *
53534583 GGTGG-AGA-GAA-TTGTGTTGGTGGTGTGCAACCTTGAGTAGGTGGTGGATGAGCTTGAGTGGG
1 GGTGGTGGATGAACTTGAGTGGGTGGCGAG-AA--TTGCCTTGGTGGAGAATGAGCTTGAGTAGG
* * * * * * *
53534645 GGGCGGGTATTGCCTTGGTGGTGAATGAGCTTGTGTA
63 TGGCGGATATTGCATTGGTGGAGGATGAGTTTGTGTG
* * * *
53534682 GGTGGTGTG-TGACCTTGAGCGGGTGGCGAGTATTGCATTGGTGG
1 GGTGGTG-GATGAACTTGAGTGGGTGGCGAGAATTGCCTTGGTGG
53534726 TGGATGACTT
Statistics
Matches: 272, Mismatches: 60, Indels: 42
0.73 0.16 0.11
Matches are distributed among these distances:
96 12 0.04
97 2 0.01
98 3 0.01
99 148 0.54
100 4 0.01
101 4 0.01
102 13 0.05
108 2 0.01
110 5 0.02
111 78 0.29
112 1 0.00
ACGTcount: A:0.14, C:0.08, G:0.46, T:0.32
Consensus pattern (99 bp):
GGTGGTGGATGAACTTGAGTGGGTGGCGAGAATTGCCTTGGTGGAGAATGAGCTTGAGTAGGTGG
CGGATATTGCATTGGTGGAGGATGAGTTTGTGTG
Found at i:53534416 original size:39 final size:39
Alignment explanation
Indices: 53534373--53534607 Score: 223
Period size: 39 Copynumber: 6.2 Consensus size: 39
53534363 AGTTTGTGTG
*
53534373 GGTGGTGGATG-GCCTTGAGTGGGTGGCGAGAATTGCCTT
1 GGTGGTGGATGAG-CTTGAGTGGGTGGCGAGTATTGCCTT
* *
53534412 GGTGGAGGATGAGCTTGAGTGGGTGGCGGGTATTGCC-T
1 GGTGGTGGATGAGCTTGAGTGGGTGGCGAGTATTGCCTT
* * * * *
53534450 --TGGT-G--GAGTTTGAGTTGGCGGTGAGTATTGCATT
1 GGTGGTGGATGAGCTTGAGTGGGTGGCGAGTATTGCCTT
* * *
53534484 GGTGGTTGATGTGTTTGAGTGGGTGGCGAGTATTGCCTT
1 GGTGGTGGATGAGCTTGAGTGGGTGGCGAGTATTGCCTT
* * * * *
53534523 TGTGGTGGATGAGCTTGAGTAGGTGGTGGGTATTGTCTT
1 GGTGGTGGATGAGCTTGAGTGGGTGGCGAGTATTGCCTT
* * * **
53534562 GGTGGAGGATGAGCTTGAGTGGGTGGAGAGAATTGTGTT
1 GGTGGTGGATGAGCTTGAGTGGGTGGCGAGTATTGCCTT
53534601 GGTGGTG
1 GGTGGTG
53534608 TGCAACCTTG
Statistics
Matches: 158, Mismatches: 31, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
33 21 0.13
34 1 0.01
35 1 0.01
36 7 0.04
37 1 0.01
38 1 0.01
39 125 0.79
40 1 0.01
ACGTcount: A:0.14, C:0.07, G:0.46, T:0.33
Consensus pattern (39 bp):
GGTGGTGGATGAGCTTGAGTGGGTGGCGAGTATTGCCTT
Found at i:53534537 original size:210 final size:210
Alignment explanation
Indices: 53534287--53534665 Score: 507
Period size: 210 Copynumber: 1.8 Consensus size: 210
53534277 GGTGGATGAA
* * * *
53534287 TTTGGGTGGGTGGCGGGTATTGCGTTGGTGGTGAATGAGCTTGTGTAGGTGGTGGATATTG-CAT
1 TTTGAGTGGGTGGCGAGTATTGCCTTGGTGGTGAATGAGCTTGAGTAGGTGGTGGATATTGTC-T
* * * * *
53534351 TGGTGGAGGATGAGTTTGTGTGGGTGGTG-G-ATGGCCTTGAGTGG-GTGGCGAGA-ATTGCCTT
65 TGGTGGAGGATGAGCTTGAGTGGGTGGAGAGAATGGCCTTG-GTGGTGT-GC-A-ACATTGACTA
*
53534412 GGTGGAGGATGAGCTTGAGTGGGTGGCGGGTATTGCCTTGGTGGAGTTTGAGTTGGCGGTGAGTA
126 GGTGGAGGATGAGCTTGAGTGGGGGGCGGGTATTGCCTTGGTGGAGTTTGAGTTGGCGGTGAGTA
53534477 TTGCATTGGTGGTTGATGTG
191 TTGCATTGGTGGTTGATGTG
* * *
53534497 TTTGAGTGGGTGGCGAGTATTGCCTTTGTGGTGGATGAGCTTGAGTAGGTGGTGGGTATTGTCTT
1 TTTGAGTGGGTGGCGAGTATTGCCTTGGTGGTGAATGAGCTTGAGTAGGTGGTGGATATTGTCTT
* ** * *
53534562 GGTGGAGGATGAGCTTGAGTGGGTGGAGAGAATTGTGTTGGTGGTGTGCAACCTTGAGTAGGTGG
66 GGTGGAGGATGAGCTTGAGTGGGTGGAGAGAATGGCCTTGGTGGTGTGCAACATTGACTAGGTGG
*
53534627 TGGATGAGCTTGAGTGGGGGGCGGGTATTGCCTTGGTGG
131 AGGATGAGCTTGAGTGGGGGGCGGGTATTGCCTTGGTGG
53534666 TGAATGAGCT
Statistics
Matches: 145, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
209 1 0.01
210 128 0.88
211 8 0.06
212 8 0.06
ACGTcount: A:0.13, C:0.07, G:0.46, T:0.33
Consensus pattern (210 bp):
TTTGAGTGGGTGGCGAGTATTGCCTTGGTGGTGAATGAGCTTGAGTAGGTGGTGGATATTGTCTT
GGTGGAGGATGAGCTTGAGTGGGTGGAGAGAATGGCCTTGGTGGTGTGCAACATTGACTAGGTGG
AGGATGAGCTTGAGTGGGGGGCGGGTATTGCCTTGGTGGAGTTTGAGTTGGCGGTGAGTATTGCA
TTGGTGGTTGATGTG
Found at i:53534548 original size:21 final size:21
Alignment explanation
Indices: 53534524--53534641 Score: 65
Period size: 21 Copynumber: 5.9 Consensus size: 21
53534514 TATTGCCTTT
53534524 GTGGTGGATGAGCTTGAGTAG
1 GTGGTGGATGAGCTTGAGTAG
* ** *
53534545 GTGGTGGGT-A--TTGTCTTG
1 GTGGTGGATGAGCTTGAGTAG
*
53534563 GTGGAGGATGAGCTTGAGT--
1 GTGGTGGATGAGCTTGAGTAG
* * *
53534582 G-GGTGGA-GAGAATTGTGTTG
1 GTGGTGGATGAG-CTTGAGTAG
*
53534602 GTGGT-G-TGCAACCTTGAGTAG
1 GTGGTGGATG--AGCTTGAGTAG
53534623 GTGGTGGATGAGCTTGAGT
1 GTGGTGGATGAGCTTGAGT
53534642 GGGGGGCGGG
Statistics
Matches: 69, Mismatches: 16, Indels: 24
0.63 0.15 0.22
Matches are distributed among these distances:
17 3 0.04
18 22 0.32
19 2 0.03
20 4 0.06
21 34 0.49
22 2 0.03
23 2 0.03
ACGTcount: A:0.17, C:0.06, G:0.46, T:0.31
Consensus pattern (21 bp):
GTGGTGGATGAGCTTGAGTAG
Found at i:53534663 original size:60 final size:59
Alignment explanation
Indices: 53534562--53534733 Score: 177
Period size: 60 Copynumber: 2.9 Consensus size: 59
53534552 GTATTGTCTT
* * * **
53534562 GGTGGAGGATGAGCTTGAGTGGGTGGAGAGAATTGTGTTGGTGGTG-TGCAACCTTGAGTA
1 GGTGGTGGATGAGCTTGAGTGGGTGGCGAGTATTGCATTGGTGGTGATG--ACCTTGAGTA
* * * * *
53534622 GGTGGTGGATGAGCTTGAGTGGGGGGCGGGTATTGCCTTGGTGGTGAATGAGCTTGTGTA
1 GGTGGTGGATGAGCTTGAGTGGGTGGCGAGTATTGCATTGGTGGTG-ATGACCTTGAGTA
* *
53534682 GGTGGTGTG-TGACCTTGAGCGGGTGGCGAGTATTGCATTGGTGGTGGATGAC
1 GGTGGTG-GATGAGCTTGAGTGGGTGGCGAGTATTGCATTGGTGGT-GATGAC
53534734 TTTCAATGGG
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
60 89 0.96
61 2 0.02
62 2 0.02
ACGTcount: A:0.16, C:0.09, G:0.47, T:0.29
Consensus pattern (59 bp):
GGTGGTGGATGAGCTTGAGTGGGTGGCGAGTATTGCATTGGTGGTGATGACCTTGAGTA
Found at i:53537577 original size:18 final size:17
Alignment explanation
Indices: 53537548--53537581 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
53537538 ACAAGTTCTA
53537548 TTAAATTATAATTATTT
1 TTAAATTATAATTATTT
53537565 TTAAATATATAATTATT
1 TTAAAT-TATAATTATT
53537582 ACAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAATTATAATTATTT
Found at i:53541353 original size:39 final size:39
Alignment explanation
Indices: 53541289--53541422 Score: 115
Period size: 39 Copynumber: 3.4 Consensus size: 39
53541279 AGGAGGCTGC
* *
53541289 GGATGAATTTGAGTAGGTGGTGAGTACTGCATTGGTGGT
1 GGATGAATTTGAGTAGGCGGCGAGTACTGCATTGGTGGT
* * * **
53541328 GGATGACTTTGAGTGGGCGGCGAGTATTGGGTTGGTGGT
1 GGATGAATTTGAGTAGGCGGCGAGTACTGCATTGGTGGT
* * * * * * * *
53541367 GGATGAGTTTGAGTTGGAGGTGAGTATTGCCTCGGTGGA
1 GGATGAATTTGAGTAGGCGGCGAGTACTGCATTGGTGGT
**
53541406 GGATGAGCTTGAGTAGG
1 GGATGAATTTGAGTAGG
53541423 TGGTTCACAA
Statistics
Matches: 78, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.18, C:0.07, G:0.45, T:0.31
Consensus pattern (39 bp):
GGATGAATTTGAGTAGGCGGCGAGTACTGCATTGGTGGT
Found at i:53541455 original size:99 final size:100
Alignment explanation
Indices: 53541334--53541524 Score: 260
Period size: 99 Copynumber: 1.9 Consensus size: 100
53541324 TGGTGGATGA
** *
53541334 CTTTGAGTGGGCGGCGAGTATTGGGTTGGTGGTGGATGAGTTTGAGTTG-GAGGTGAGTATTGCC
1 CTTTGAGTGGGCGGCGAGTATTGCATTGGTGGTGGATGAGTTTGA-ATGAGAGGTGAGTATTGCC
53541398 TCGGTGGAGGATGAGCTTGAGTAGGTGGTTCACAAC
65 TCGGTGGAGGATGAGCTTGAGTAGGTGGTTCACAAC
* * * *
53541434 CTTT-AGTGGGTGGCGTGTATTGCATTGGTGGTGGATGTGTTTGAATGAGTGGTGAGTATTGCCT
1 CTTTGAGTGGGCGGCGAGTATTGCATTGGTGGTGGATGAGTTTGAATGAGAGGTGAGTATTGCCT
* * * *
53541498 TGGTGGCGGATGAGCTTGTGTGGGTGG
66 CGGTGGAGGATGAGCTTGAGTAGGTGG
53541525 CGGGTATTGC
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
98 2 0.03
99 73 0.92
100 4 0.05
ACGTcount: A:0.15, C:0.09, G:0.43, T:0.33
Consensus pattern (100 bp):
CTTTGAGTGGGCGGCGAGTATTGCATTGGTGGTGGATGAGTTTGAATGAGAGGTGAGTATTGCCT
CGGTGGAGGATGAGCTTGAGTAGGTGGTTCACAAC
Found at i:53541493 original size:39 final size:39
Alignment explanation
Indices: 53541438--53541565 Score: 139
Period size: 39 Copynumber: 3.3 Consensus size: 39
53541428 CACAACCTTT
* *
53541438 AGTGGGTGGCGTGTATTGCATTGGTGGTGGATGTGTTTG
1 AGTGGGTGGTGAGTATTGCATTGGTGGTGGATGTGTTTG
* * * * * *
53541477 AATGAGTGGTGAGTATTGCCTTGGTGGCGGATGAGCTTG
1 AGTGGGTGGTGAGTATTGCATTGGTGGTGGATGTGTTTG
* * * * *
53541516 TGTGGGTGGCGGGTATTGCGTTGGCGGTGGATGTGTTTG
1 AGTGGGTGGTGAGTATTGCATTGGTGGTGGATGTGTTTG
53541555 AGTGGGTGGTG
1 AGTGGGTGGTG
53541566 GATGAGCTTG
Statistics
Matches: 69, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.11, C:0.07, G:0.48, T:0.34
Consensus pattern (39 bp):
AGTGGGTGGTGAGTATTGCATTGGTGGTGGATGTGTTTG
Found at i:53541545 original size:99 final size:97
Alignment explanation
Indices: 53541458--53541719 Score: 312
Period size: 99 Copynumber: 2.7 Consensus size: 97
53541448 GTGTATTGCA
* *
53541458 TTGGTGGTGGATGTGTTTGAATGAGTGGTGAGTATTGCCTTGGTGGCGGATGAGCTTGTGTGGGT
1 TTGGTGGTGGATGTGTTTGAATGAGTGGTGGGTATTGCCTTGGTGGAGGATGAGCTTGTGTGGGT
*
53541523 GGCGGGTATTGCGTTGGCGGTGGATGTGTTTGAG
66 GGCGGGTATTGCCTTGGCGGTGG--GTGTTTGAG
* * * * * * *
53541557 TGGGTGGTGGATGAGCTTGAAT-AGGTGGTGGGTATAGCCTTGGTGGTGGATGTGCTTGAGTGGG
1 TTGGTGGTGGATGTGTTTGAATGA-GTGGTGGGTATTGCCTTGGTGGAGGATGAGCTTGTGTGGG
* * *
53541621 TGGCGGGTATTGCCTTGGTGG-AGGAGTTTGAG
65 TGGCGGGTATTGCCTTGGCGGTGGGTGTTTGAG
* * * * * *
53541653 TTGGTGGTGGATGTGTTTGAGTGGGTGGTGGGCATTGCCTTGGTGGAGGGTGAGTTTGTGTAGGT
1 TTGGTGGTGGATGTGTTTGAATGAGTGGTGGGTATTGCCTTGGTGGAGGATGAGCTTGTGTGGGT
53541718 GG
66 GG
53541720 TGGATGAGCT
Statistics
Matches: 136, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
96 61 0.45
98 2 0.01
99 73 0.54
ACGTcount: A:0.11, C:0.06, G:0.48, T:0.34
Consensus pattern (97 bp):
TTGGTGGTGGATGTGTTTGAATGAGTGGTGGGTATTGCCTTGGTGGAGGATGAGCTTGTGTGGGT
GGCGGGTATTGCCTTGGCGGTGGGTGTTTGAG
Found at i:53541548 original size:138 final size:138
Alignment explanation
Indices: 53541297--53541641 Score: 330
Period size: 138 Copynumber: 2.5 Consensus size: 138
53541287 GCGGATGAAT
* * * * ** * **
53541297 TTGAGTAGGTGGTGAGTACTGCATTGGTGGTGGATGACTTTGAGTGGGCGGCGAGTATTGGGTTG
1 TTGAATAGGTGGCGGGTATTGCATTGGTGGTGGATGTGTTTGAGTGGGTGGCGAGTATTGCCTTG
* * * * *
53541362 GTGGTGGATGAGTTTGAGTTGGAGGTGAGTATTGCCTCGGTGGAGGATGAGCTTGAGTAGGTGGT
66 GTGGCGGATGAGCTTGAGTGGGAGGCGAGTATTGCCTCGGCGGAGGATGAGCTTGAGTAGGTGGT
*
53541427 TCACAACC
131 GCACAACC
* * * * * * *
53541435 TTTAGTGGGTGGCGTGTATTGCATTGGTGGTGGATGTGTTTGAATGAGTGGTGAGTATTGCCTTG
1 TTGAATAGGTGGCGGGTATTGCATTGGTGGTGGATGTGTTTGAGTGGGTGGCGAGTATTGCCTTG
* * * * * * * * *
53541500 GTGGCGGATGAGCTTGTGTGGGTGGCGGGTATTGCGTTGGCGGTGGATGTGTTTGAGTGGGTGGT
66 GTGGCGGATGAGCTTGAGTGGGAGGCGAGTATTGCCTCGGCGGAGGATGAGCTTGAGTAGGTGGT
* ** *
53541565 GGATGAGC
131 GCACAACC
* * * * *
53541573 TTGAATAGGTGGTGGGTATAGCCTTGGTGGTGGATGTGCTTGAGTGGGTGGCGGGTATTGCCTTG
1 TTGAATAGGTGGCGGGTATTGCATTGGTGGTGGATGTGTTTGAGTGGGTGGCGAGTATTGCCTTG
53541638 GTGG
66 GTGG
53541642 AGGAGTTTGA
Statistics
Matches: 163, Mismatches: 44, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
138 163 1.00
ACGTcount: A:0.14, C:0.08, G:0.45, T:0.33
Consensus pattern (138 bp):
TTGAATAGGTGGCGGGTATTGCATTGGTGGTGGATGTGTTTGAGTGGGTGGCGAGTATTGCCTTG
GTGGCGGATGAGCTTGAGTGGGAGGCGAGTATTGCCTCGGCGGAGGATGAGCTTGAGTAGGTGGT
GCACAACC
Found at i:53541565 original size:21 final size:21
Alignment explanation
Indices: 53541541--53541683 Score: 70
Period size: 21 Copynumber: 7.2 Consensus size: 21
53541531 TTGCGTTGGC
53541541 GGTGGATGTGTTTGAGTGGGT
1 GGTGGATGTGTTTGAGTGGGT
* * * *
53541562 GGTGGATGAGCTTGAATAGGT
1 GGTGGATGTGTTTGAGTGGGT
* * ** *
53541583 GGTGG--GT-ATAGCCTTGGT
1 GGTGGATGTGTTTGAGTGGGT
*
53541601 GGTGGATGTGCTTGAGTGGGT
1 GGTGGATGTGTTTGAGTGGGT
* * **
53541622 GGCGG--GT-ATTGCCT---T
1 GGTGGATGTGTTTGAGTGGGT
* * *
53541637 GGTGGAGGAGTTTGAGTTGGT
1 GGTGGATGTGTTTGAGTGGGT
53541658 GGTGGATGTGTTTGAGTGGGT
1 GGTGGATGTGTTTGAGTGGGT
53541679 GGTGG
1 GGTGG
53541684 GCATTGCCTT
Statistics
Matches: 86, Mismatches: 27, Indels: 18
0.66 0.21 0.14
Matches are distributed among these distances:
15 5 0.06
17 1 0.01
18 19 0.22
19 3 0.03
20 2 0.02
21 56 0.65
ACGTcount: A:0.12, C:0.05, G:0.50, T:0.34
Consensus pattern (21 bp):
GGTGGATGTGTTTGAGTGGGT
Found at i:53541569 original size:60 final size:60
Alignment explanation
Indices: 53541499--53541680 Score: 192
Period size: 60 Copynumber: 3.1 Consensus size: 60
53541489 GTATTGCCTT
** * * *
53541499 GGTGGCGGATGAGCTTGTGTGGGTGGCGGGTATTGCGTTGGCGGTGGATGTGTTTGAGTG
1 GGTGGCGGATGAGCTTGAATAGGTGGAGGGTATTGCGTTGGTGGTGGATGTGTTTGAGTG
* * * * *
53541559 GGTGGTGGATGAGCTTGAATAGGTGGTGGGTATAGCCTTGGTGGTGGATGTGCTTGAGTG
1 GGTGGCGGATGAGCTTGAATAGGTGGAGGGTATTGCGTTGGTGGTGGATGTGTTTGAGTG
* ** * *
53541619 GGTGGCGGGT-A--TTGCCTTGGTGGAGGAGT-TTGAGTTGGTGGTGGATGTGTTTGAGTG
1 GGTGGCGGATGAGCTTGAATAGGTGGAGG-GTATTGCGTTGGTGGTGGATGTGTTTGAGTG
53541676 GGTGG
1 GGTGG
53541681 TGGGCATTGC
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
57 40 0.39
58 2 0.02
59 1 0.01
60 59 0.58
ACGTcount: A:0.11, C:0.07, G:0.50, T:0.32
Consensus pattern (60 bp):
GGTGGCGGATGAGCTTGAATAGGTGGAGGGTATTGCGTTGGTGGTGGATGTGTTTGAGTG
Found at i:53541719 original size:60 final size:60
Alignment explanation
Indices: 53541598--53541938 Score: 444
Period size: 60 Copynumber: 5.8 Consensus size: 60
53541588 GTATAGCCTT
* *
53541598 GGTGGTGGATGTGCTTGAGTGGGTGGCGGGTATTGCCTTGGTGGA--G-GAGTTTGAGTT
1 GGTGGTGGATGTGCTTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGGTGAGTTTGAGTA
* * *
53541655 GGTGGTGGATGTGTTTGAGTGGGTGGTGGGCATTGCCTTGGTGGAGGGTGAGTTTGTGTA
1 GGTGGTGGATGTGCTTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGGTGAGTTTGAGTA
* * * ** *
53541715 GGTGGTGGATGAGCTTGAATGGGTGGTGGGTATTGCCTTGGTGGAGGATGAACTTGAGTG
1 GGTGGTGGATGTGCTTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGGTGAGTTTGAGTA
* * * *
53541775 GGTGGCGGATG-GCCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGA--G-GAGTTTGAGTT
1 GGTGGTGGATGTG-CTTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGGTGAGTTTGAGTA
* * *
53541832 GGTGGTGGATGTGTTTGAGTGGGTGGTGGGCATTGCCTTGGTGGAGGGTGAGTTTGTGTA
1 GGTGGTGGATGTGCTTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGGTGAGTTTGAGTA
* *
53541892 GGTGGTGGATGAGCTTGAATGGGTGGTGGGTATTGCCTTGGTGGAGG
1 GGTGGTGGATGTGCTTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGG
53541939 ATGAACTTGA
Statistics
Matches: 243, Mismatches: 33, Indels: 13
0.84 0.11 0.04
Matches are distributed among these distances:
57 88 0.36
58 1 0.00
59 3 0.01
60 151 0.62
ACGTcount: A:0.12, C:0.07, G:0.49, T:0.33
Consensus pattern (60 bp):
GGTGGTGGATGTGCTTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGGTGAGTTTGAGTA
Found at i:53541720 original size:156 final size:156
Alignment explanation
Indices: 53541497--53541953 Score: 432
Period size: 177 Copynumber: 2.8 Consensus size: 156
53541487 GAGTATTGCC
* * * * * *
53541497 TTGGTGGCGGATGAGCTTGTGTGGGTGGCGGGTATTGCGTTGGCGGTGGATGTGTTTGAGTGGGT
1 TTGGTGGCGGATGAGCTTGAGTGGGTGGCGGGCATTGCCTTGGCGGAGGATGAGTTTGAGTAGGT
* **
53541562 GGTGGATGAGCTTGAATAGGTGGTGGGTATAGCCTTGGTGGTGGATGTGCTTGAGTGGGTGGCGG
66 GGTGGATGAGCTTGAATAGGTGGTGGGTATAGCCTTGGTGGAGGATGAACTTGAGTGGGTGGCGG
53541627 GTATTGCCTTGGTGGAGGAGTTTGAG
131 GTATTGCCTTGGTGGAGGAGTTTGAG
* * * * * * *
53541653 TTGGTGGTGGATGTGTTTGAGTGGGTGGTGGGCATTGCCTTGGTGGAGGGTGAGTTTGTGTAGGT
1 TTGGTGGCGGATGAGCTTGAGTGGGTGGCGGGCATTGCCTTGGCGGAGGATGAGTTTGAGTAGGT
* *
53541718 GGTGGATGAGCTTGAATGGGTGGTGGGTATTGCCTTGGTGGAGGATGAACTTGAGTGGGTGGC-G
66 GGTGGATGAGCTTGAATAGGTGGTGGGTATAGCCTTGGTGGAGGATGAACTTGAGTGGGTGGCGG
* *
53541782 G-ATGGCCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAG
131 GTATTGCC-T---T-GGTGG-AGG-A--G---TT-T----GAG
* * * * * * *
53541824 TTTGAGTTGGTGGTGGATGTGTTTGAGTGGGTGGTGGGCATTGCCTTGGTGGAGGGTGAGTTTGT
1 -TTG-G----TGGCGGATGAGCTTGAGTGGGTGGCGGGCATTGCCTTGGCGGAGGATGAGTTTGA
* *
53541889 GTAGGTGGTGGATGAGCTTGAATGGGTGGTGGGTATTGCCTTGGTGGAGGATGAACTTGAGTGGG
60 GTAGGTGGTGGATGAGCTTGAATAGGTGGTGGGTATAGCCTTGGTGGAGGATGAACTTGAGTGGG
53541954 GGGGGGGTGG
Statistics
Matches: 258, Mismatches: 20, Indels: 25
0.85 0.07 0.08
Matches are distributed among these distances:
154 5 0.02
155 3 0.01
156 110 0.43
158 1 0.00
159 5 0.02
160 2 0.01
161 1 0.00
163 1 0.00
166 2 0.01
167 1 0.00
171 3 0.01
172 3 0.01
173 1 0.00
177 120 0.47
ACGTcount: A:0.12, C:0.07, G:0.48, T:0.32
Consensus pattern (156 bp):
TTGGTGGCGGATGAGCTTGAGTGGGTGGCGGGCATTGCCTTGGCGGAGGATGAGTTTGAGTAGGT
GGTGGATGAGCTTGAATAGGTGGTGGGTATAGCCTTGGTGGAGGATGAACTTGAGTGGGTGGCGG
GTATTGCCTTGGTGGAGGAGTTTGAG
Found at i:53541724 original size:177 final size:176
Alignment explanation
Indices: 53541541--53541945 Score: 564
Period size: 177 Copynumber: 2.3 Consensus size: 176
53541531 TTGCGTTGGC
* * * * * * * *
53541541 GGTGGATGTGTTTGAGTGGGTGGTGGATGAGCTTGAATAGGTGGTGG-GTA-TAGCCTTGGTGGT
1 GGTGGATGAGCTTGAATGGGTGGTGGAT-A--TTGAATAGGTGGAGGAGAACTAGACTGGGTGGC
53541604 GGATGTG-CTTGAGTGGGTGGCGGGTATTGCCTTGGTGGAGGAGTTTGAGTTGGTGGTGGATGTG
63 GGATG-GCCTTGAGTGGGTGGCGGGTATTGCCTTGGTGGAGGAGTTTGAGTTGGTGGTGGATGTG
53541668 TTTGAGTGGGTGGTGGGCATTGCCTTGGTGGAGGGTGAGTTTGTGTAGGT
127 TTTGAGTGGGTGGTGGGCATTGCCTTGGTGGAGGGTGAGTTTGTGTAGGT
* ** * * *
53541718 GGTGGATGAGCTTGAATGGGTGGTGGGTATTGCCTTGGTGGAGGATGAACTTGAGTGGGTGGCGG
1 GGTGGATGAGCTTGAATGGGTGGTGGATATTGAATAGGTGGAGGA-GAACTAGACTGGGTGGCGG
*
53541783 ATGGCCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAGTTGGTGGTGGATGTGTTT
65 ATGGCCTTGAGTGGGTGGCGGGTATTGCCTTGGTGGAGGAGTTTGAGTTGGTGGTGGATGTGTTT
53541848 GAGTGGGTGGTGGGCATTGCCTTGGTGGAGGGTGAGTTTGTGTAGGT
130 GAGTGGGTGGTGGGCATTGCCTTGGTGGAGGGTGAGTTTGTGTAGGT
* ** *
53541895 GGTGGATGAGCTTGAATGGGTGGTGGGTATTGCCTTGGTGGAGGATGAACT
1 GGTGGATGAGCTTGAATGGGTGGTGGATATTGAATAGGTGGAGGA-GAACT
53541946 TGAGTGGGGG
Statistics
Matches: 209, Mismatches: 15, Indels: 8
0.90 0.06 0.03
Matches are distributed among these distances:
174 11 0.05
176 4 0.02
177 194 0.93
ACGTcount: A:0.13, C:0.07, G:0.48, T:0.33
Consensus pattern (176 bp):
GGTGGATGAGCTTGAATGGGTGGTGGATATTGAATAGGTGGAGGAGAACTAGACTGGGTGGCGGA
TGGCCTTGAGTGGGTGGCGGGTATTGCCTTGGTGGAGGAGTTTGAGTTGGTGGTGGATGTGTTTG
AGTGGGTGGTGGGCATTGCCTTGGTGGAGGGTGAGTTTGTGTAGGT
Found at i:53541758 original size:39 final size:39
Alignment explanation
Indices: 53541559--53541779 Score: 152
Period size: 39 Copynumber: 5.7 Consensus size: 39
53541549 TGTTTGAGTG
* * *
53541559 GGTGGTGGATGAGCTTGAATAGGTGGTGGGTATAGCCTT
1 GGTGGTGGATGAGCTTGAGTGGGTGGTGGGTATTGCCTT
* *
53541598 GGTGGTGGATGTGCTTGAGTGGGTGGCGGGTATTGCCTT
1 GGTGGTGGATGAGCTTGAGTGGGTGGTGGGTATTGCCTT
* * ** *
53541637 GGTGGAGGAGTTTGAG-TTG-GT-GGTGGATGTGT-TTGAGTG
1 GGTGGTGGA---TGAGCTTGAGTGGGTGG-TGGGTATTGCCTT
* * ** *
53541676 GGTGGTGGGCATTG-CCTTG-GTGGAG-GGTGAGT-TTGTGTA
1 GGTGGT-GG-A-TGAGCTTGAGTGG-GTGGTGGGTATTGCCTT
*
53541715 GGTGGTGGATGAGCTTGAATGGGTGGTGGGTATTGCCTT
1 GGTGGTGGATGAGCTTGAGTGGGTGGTGGGTATTGCCTT
* *
53541754 GGTGGAGGATGAACTTGAGTGGGTGG
1 GGTGGTGGATGAGCTTGAGTGGGTGG
53541780 CGGATGGCCT
Statistics
Matches: 143, Mismatches: 26, Indels: 26
0.73 0.13 0.13
Matches are distributed among these distances:
36 2 0.01
37 6 0.04
38 11 0.08
39 106 0.74
40 10 0.07
41 5 0.03
42 3 0.02
ACGTcount: A:0.13, C:0.06, G:0.48, T:0.32
Consensus pattern (39 bp):
GGTGGTGGATGAGCTTGAGTGGGTGGTGGGTATTGCCTT
Found at i:53541784 original size:21 final size:21
Alignment explanation
Indices: 53541754--53541803 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
53541744 GTATTGCCTT
*
53541754 GGTGGAGGATGAACTTGAGTG
1 GGTGGCGGATGAACTTGAGTG
**
53541775 GGTGGCGGATGGCCTTGAGTG
1 GGTGGCGGATGAACTTGAGTG
53541796 GGTGGCGG
1 GGTGGCGG
53541804 GTATTGCCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.14, C:0.10, G:0.54, T:0.22
Consensus pattern (21 bp):
GGTGGCGGATGAACTTGAGTG
Found at i:53541839 original size:21 final size:21
Alignment explanation
Indices: 53541815--53541860 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
53541805 TATTGCCTTT
*
53541815 GTGGAGGAGTTTGAGTTGGTG
1 GTGGAGGAGTTTGAGTGGGTG
* *
53541836 GTGGATGTGTTTGAGTGGGTG
1 GTGGAGGAGTTTGAGTGGGTG
53541857 GTGG
1 GTGG
53541861 GCATTGCCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.11, C:0.00, G:0.54, T:0.35
Consensus pattern (21 bp):
GTGGAGGAGTTTGAGTGGGTG
Found at i:53541939 original size:117 final size:116
Alignment explanation
Indices: 53541596--53541939 Score: 442
Period size: 117 Copynumber: 2.9 Consensus size: 116
53541586 GGGTATAGCC
* *
53541596 TTGGTGGTGGATGTGCTTGAGTGGGTGGCGGGTATTGCCTTGGTGGA--G-GAGTTTGAGTTGGT
1 TTGGTGGTGGATGTGCTTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGGTGAGTTTGAGTAGGT
* * *
53541658 GGTGGATGTGTTTGAGTGGGTGGTGGGCATTGCCTTGGTGGAGGGTGAGTTTGTG
66 GGTGGATG-GCTTGAGTGGGTGGTGGGTATTGCCTTGGTGGA--G-GAGTTTGAG
* * * * ** *
53541713 TAGGTGGTGGATGAGCTTGAATGGGTGGTGGGTATTGCCTTGGTGGAGGATGAACTTGAGTGGGT
1 TTGGTGGTGGATGTGCTTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGGTGAGTTTGAGTAGGT
* * *
53541778 GGCGGATGGCCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAG
66 GGTGGATGG-CTTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGAGTTTGAG
* * *
53541830 TTGGTGGTGGATGTGTTTGAGTGGGTGGTGGGCATTGCCTTGGTGGAGGGTGAGTTTGTGTAGGT
1 TTGGTGGTGGATGTGCTTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGGTGAGTTTGAGTAGGT
*
53541895 GGTGGATGAGCTTGAATGGGTGGTGGGTATTGCCTTGGTGGAGGA
66 GGTGGATG-GCTTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGA
53541940 TGAACTTGAG
Statistics
Matches: 194, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
117 145 0.75
118 2 0.01
119 1 0.01
120 46 0.24
ACGTcount: A:0.12, C:0.07, G:0.49, T:0.33
Consensus pattern (116 bp):
TTGGTGGTGGATGTGCTTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGGTGAGTTTGAGTAGGT
GGTGGATGGCTTGAGTGGGTGGTGGGTATTGCCTTGGTGGAGGAGTTTGAG
Found at i:53541946 original size:177 final size:177
Alignment explanation
Indices: 53541598--53541953 Score: 678
Period size: 177 Copynumber: 2.0 Consensus size: 177
53541588 GTATAGCCTT
*
53541598 GGTGGTGGATGTGCTTGAGTGGGTGGCGGGTATTGCCTTGGTGGAGGAGTTTGAGTTGGTGGTGG
1 GGTGGCGGATGTGCTTGAGTGGGTGGCGGGTATTGCCTTGGTGGAGGAGTTTGAGTTGGTGGTGG
53541663 ATGTGTTTGAGTGGGTGGTGGGCATTGCCTTGGTGGAGGGTGAGTTTGTGTAGGTGGTGGATGAG
66 ATGTGTTTGAGTGGGTGGTGGGCATTGCCTTGGTGGAGGGTGAGTTTGTGTAGGTGGTGGATGAG
53541728 CTTGAATGGGTGGTGGGTATTGCCTTGGTGGAGGATGAACTTGAGTG
131 CTTGAATGGGTGGTGGGTATTGCCTTGGTGGAGGATGAACTTGAGTG
*
53541775 GGTGGCGGATG-GCCTTGAGTGGGTGGCGGGTATTGCCTTTGTGGAGGAGTTTGAGTTGGTGGTG
1 GGTGGCGGATGTG-CTTGAGTGGGTGGCGGGTATTGCCTTGGTGGAGGAGTTTGAGTTGGTGGTG
53541839 GATGTGTTTGAGTGGGTGGTGGGCATTGCCTTGGTGGAGGGTGAGTTTGTGTAGGTGGTGGATGA
65 GATGTGTTTGAGTGGGTGGTGGGCATTGCCTTGGTGGAGGGTGAGTTTGTGTAGGTGGTGGATGA
53541904 GCTTGAATGGGTGGTGGGTATTGCCTTGGTGGAGGATGAACTTGAGTG
130 GCTTGAATGGGTGGTGGGTATTGCCTTGGTGGAGGATGAACTTGAGTG
53541952 GG
1 GG
53541954 GGGGGGGTGG
Statistics
Matches: 176, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
176 1 0.01
177 175 0.99
ACGTcount: A:0.12, C:0.07, G:0.49, T:0.32
Consensus pattern (177 bp):
GGTGGCGGATGTGCTTGAGTGGGTGGCGGGTATTGCCTTGGTGGAGGAGTTTGAGTTGGTGGTGG
ATGTGTTTGAGTGGGTGGTGGGCATTGCCTTGGTGGAGGGTGAGTTTGTGTAGGTGGTGGATGAG
CTTGAATGGGTGGTGGGTATTGCCTTGGTGGAGGATGAACTTGAGTG
Found at i:53542293 original size:42 final size:41
Alignment explanation
Indices: 53542176--53542293 Score: 95
Period size: 42 Copynumber: 2.9 Consensus size: 41
53542166 NNNNNNNNNN
*
53542176 GAGCTTGTGTGGGTGGCGGGTATTGCGTTGGCGGT--GGAT
1 GAGCTTGTGTGGGTGGCGGGTATTGCGTTTGCGGTGGGGAT
* * * * *
53542215 GTGTTTGAGTGGGTGTTGGATGGGT-TTGAG--TG-GGTGGCGGAT
1 GAGCTTGTGT-GG-G-TGG-CGGGTATTGCGTTTGCGGTGG-GGAT
53542257 GAGCTTGTGTGGGTGGCGGGTATTGCGTTTGCGGTGG
1 GAGCTTGTGTGGGTGGCGGGTATTGCGTTTGCGGTGG
53542294 ATGTGTTTGA
Statistics
Matches: 57, Mismatches: 11, Indels: 19
0.66 0.13 0.22
Matches are distributed among these distances:
38 4 0.07
39 17 0.30
40 4 0.07
41 5 0.09
42 23 0.40
43 4 0.07
ACGTcount: A:0.08, C:0.08, G:0.52, T:0.33
Consensus pattern (41 bp):
GAGCTTGTGTGGGTGGCGGGTATTGCGTTTGCGGTGGGGAT
Found at i:53542295 original size:60 final size:60
Alignment explanation
Indices: 53542231--53542374 Score: 180
Period size: 60 Copynumber: 2.4 Consensus size: 60
53542221 GAGTGGGTGT
* ** * * * *
53542231 TGGATGGGTTTGAGTGGGTGGCGGATGAGCTTGTGTGGGTGGCGGGTATTGCGTTTGCGG
1 TGGATGAGTTTGAGTGGGTGGCGGATGAGCTTGAATAGGTGGCGGGTATAGCCTTGGCGG
* * * *
53542291 TGGATGTGTTTGAGTGGGTGGTGGATGAGCTTGAATAGGTGGTGGGTATAGCCTTGGTGG
1 TGGATGAGTTTGAGTGGGTGGCGGATGAGCTTGAATAGGTGGCGGGTATAGCCTTGGCGG
*
53542351 TGGATGAGCTTGAGTGGGTGGCGG
1 TGGATGAGTTTGAGTGGGTGGCGG
53542375 GTATTGCCTT
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 71 1.00
ACGTcount: A:0.12, C:0.07, G:0.50, T:0.31
Consensus pattern (60 bp):
TGGATGAGTTTGAGTGGGTGGCGGATGAGCTTGAATAGGTGGCGGGTATAGCCTTGGCGG
Found at i:53542353 original size:81 final size:81
Alignment explanation
Indices: 53542176--53542332 Score: 260
Period size: 81 Copynumber: 1.9 Consensus size: 81
53542166 NNNNNNNNNN
* * *
53542176 GAGCTTGTGTGGGTGGCGGGTATTGCGTTGGCGGTGGATGTGTTTGAGTGGGTGTTGGATGGGTT
1 GAGCTTGTGTGGGTGGCGGGTATTGCGTTGGCGGTGGATGTGTTTGAGTGGGTGGTGGATGAGCT
* *
53542241 TGAGTGGGTGGCGGAT
66 TGAATAGGTGGCGGAT
*
53542257 GAGCTTGTGTGGGTGGCGGGTATTGCGTTTGCGGTGGATGTGTTTGAGTGGGTGGTGGATGAGCT
1 GAGCTTGTGTGGGTGGCGGGTATTGCGTTGGCGGTGGATGTGTTTGAGTGGGTGGTGGATGAGCT
53542322 TGAATAGGTGG
66 TGAATAGGTGG
53542333 TGGGTATAGC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.10, C:0.06, G:0.50, T:0.33
Consensus pattern (81 bp):
GAGCTTGTGTGGGTGGCGGGTATTGCGTTGGCGGTGGATGTGTTTGAGTGGGTGGTGGATGAGCT
TGAATAGGTGGCGGAT
Found at i:53542370 original size:21 final size:21
Alignment explanation
Indices: 53542208--53542371 Score: 92
Period size: 21 Copynumber: 8.1 Consensus size: 21
53542198 TTGCGTTGGC
* *
53542208 GGTGGATGTGTTTGAGTGGGT
1 GGTGGATGAGCTTGAGTGGGT
* * *
53542229 GTTGGATGGGTTTGAGTGGGT
1 GGTGGATGAGCTTGAGTGGGT
* *
53542250 GGCGGATGAGCTTGTGTGGGT
1 GGTGGATGAGCTTGAGTGGGT
* * * ** *
53542271 GGCGGGT-A--TTGCGTTTGC
1 GGTGGATGAGCTTGAGTGGGT
* *
53542289 GGTGGATGTGTTTGAGTGGGT
1 GGTGGATGAGCTTGAGTGGGT
* *
53542310 GGTGGATGAGCTTGAATAGGT
1 GGTGGATGAGCTTGAGTGGGT
*
53542331 GGTGGGTAT-AGCCT---T-GGT
1 GGT-GG-ATGAGCTTGAGTGGGT
53542349 GGTGGATGAGCTTGAGTGGGT
1 GGTGGATGAGCTTGAGTGGGT
53542370 GG
1 GG
53542372 CGGGTATTGC
Statistics
Matches: 108, Mismatches: 25, Indels: 20
0.71 0.16 0.13
Matches are distributed among these distances:
16 2 0.02
17 6 0.06
18 17 0.16
19 1 0.01
20 2 0.02
21 72 0.67
22 6 0.06
23 2 0.02
ACGTcount: A:0.12, C:0.05, G:0.50, T:0.33
Consensus pattern (21 bp):
GGTGGATGAGCTTGAGTGGGT
Found at i:53542384 original size:39 final size:39
Alignment explanation
Indices: 53542307--53542521 Score: 226
Period size: 39 Copynumber: 5.7 Consensus size: 39
53542297 TGTTTGAGTG
* * *
53542307 GGTGGTGGATGAGCTTGAATAGGTGGTGGGTATAGCCTT
1 GGTGGTGGATGAGCTTGAGTGGGTGGTGGGTATTGCCTT
*
53542346 GGTGGTGGATGAGCTTGAGTGGGTGGCGGGTATTGCC-T
1 GGTGGTGGATGAGCTTGAGTGGGTGGTGGGTATTGCCTT
* * * * *
53542384 --TGGT-G--GAGTTTGAGTTGGCGGTGAGTATTGCATT
1 GGTGGTGGATGAGCTTGAGTGGGTGGTGGGTATTGCCTT
* * * * *
53542418 GGTGGTTGATGTGTTTGAGTGGGTGGCGAGTATTGCCTT
1 GGTGGTGGATGAGCTTGAGTGGGTGGTGGGTATTGCCTT
* * *
53542457 TGTGGTGGATGAGCTTGAGTAGGTGGTGGGTATTGTCTT
1 GGTGGTGGATGAGCTTGAGTGGGTGGTGGGTATTGCCTT
*
53542496 GGTGGAGGATGAGCTTGAGTGGGTGG
1 GGTGGTGGATGAGCTTGAGTGGGTGG
53542522 AGAGAATTGT
Statistics
Matches: 144, Mismatches: 26, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
33 21 0.15
34 1 0.01
35 1 0.01
36 8 0.06
37 1 0.01
38 1 0.01
39 111 0.77
ACGTcount: A:0.13, C:0.07, G:0.46, T:0.33
Consensus pattern (39 bp):
GGTGGTGGATGAGCTTGAGTGGGTGGTGGGTATTGCCTT
Found at i:53542482 original size:21 final size:21
Alignment explanation
Indices: 53542458--53542575 Score: 65
Period size: 21 Copynumber: 5.9 Consensus size: 21
53542448 TATTGCCTTT
53542458 GTGGTGGATGAGCTTGAGTAG
1 GTGGTGGATGAGCTTGAGTAG
* ** *
53542479 GTGGTGGGT-A--TTGTCTTG
1 GTGGTGGATGAGCTTGAGTAG
*
53542497 GTGGAGGATGAGCTTGAGT--
1 GTGGTGGATGAGCTTGAGTAG
* * *
53542516 G-GGTGGA-GAGAATTGTGTTG
1 GTGGTGGATGAG-CTTGAGTAG
*
53542536 GTGGT-G-TGCAACCTTGAGTAG
1 GTGGTGGATG--AGCTTGAGTAG
53542557 GTGGTGGATGAGCTTGAGT
1 GTGGTGGATGAGCTTGAGT
53542576 GGGGGGCGGG
Statistics
Matches: 69, Mismatches: 16, Indels: 24
0.63 0.15 0.22
Matches are distributed among these distances:
17 3 0.04
18 22 0.32
19 2 0.03
20 4 0.06
21 34 0.49
22 2 0.03
23 2 0.03
ACGTcount: A:0.17, C:0.06, G:0.46, T:0.31
Consensus pattern (21 bp):
GTGGTGGATGAGCTTGAGTAG
Found at i:53542540 original size:78 final size:74
Alignment explanation
Indices: 53542307--53542563 Score: 241
Period size: 78 Copynumber: 3.4 Consensus size: 74
53542297 TGTTTGAGTG
* *
53542307 GGTGGTGGATGAGCTTGAATAGGTGGTGGGTATAGCCTTGGTGGTGGATGAGCTTGAGTGGGTGG
1 GGTGGT-G-TGAGCTTGAGTAGGTGGTGGGTATTG-CTTGGTGGTGGATGAGCTTGAGTGGGTGG
* *
53542372 CGGGTATTGCCT
63 CGAGTATTGCTT
* * * * * * *
53542384 --TGGTG-GAGTTTGAGTTGGCGGTGAGTATTGCATTGGTGGTTGATGTGTTTGAGTGGGTGGCG
1 GGTGGTGTGAGCTTGAGTAGGTGGTGGGTATTGC-TTGGTGGTGGATGAGCTTGAGTGGGTGGCG
53542446 AGTATTGCCTT
65 AGTATTG-CTT
* *
53542457 TGTGGTGGATGAGCTTGAGTAGGTGGTGGGTATTGTCTTGGTGGAGGATGAGCTTGAGTGGGTGG
1 GGTGGT-G-TGAGCTTGAGTAGGTGGTGGGTATTG-CTTGGTGGTGGATGAGCTTGAGTGGGTGG
* * *
53542522 AGAGAATTGTGTT
63 CGAGTATTG-CTT
*
53542535 GGTGGTGTGCAACCTTGAGTAGGTGGTGG
1 GGTGGTGTG--AGCTTGAGTAGGTGGTGG
53542564 ATGAGCTTGA
Statistics
Matches: 145, Mismatches: 25, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
71 1 0.01
72 52 0.36
73 2 0.01
74 1 0.01
75 8 0.06
76 3 0.02
77 1 0.01
78 76 0.52
79 1 0.01
ACGTcount: A:0.14, C:0.07, G:0.46, T:0.33
Consensus pattern (74 bp):
GGTGGTGTGAGCTTGAGTAGGTGGTGGGTATTGCTTGGTGGTGGATGAGCTTGAGTGGGTGGCGA
GTATTGCTT
Found at i:53542597 original size:60 final size:59
Alignment explanation
Indices: 53542496--53542667 Score: 177
Period size: 60 Copynumber: 2.9 Consensus size: 59
53542486 GTATTGTCTT
* * * **
53542496 GGTGGAGGATGAGCTTGAGTGGGTGGAGAGAATTGTGTTGGTGGTG-TGCAACCTTGAGTA
1 GGTGGTGGATGAGCTTGAGTGGGTGGCGAGTATTGCATTGGTGGTGATG--ACCTTGAGTA
* * * * *
53542556 GGTGGTGGATGAGCTTGAGTGGGGGGCGGGTATTGCCTTGGTGGTGAATGAGCTTGTGTA
1 GGTGGTGGATGAGCTTGAGTGGGTGGCGAGTATTGCATTGGTGGTG-ATGACCTTGAGTA
* *
53542616 GGTGGTGTG-TGACCTTGAGCGGGTGGCGAGTATTGCATTGGTGGTGGATGAC
1 GGTGGTG-GATGAGCTTGAGTGGGTGGCGAGTATTGCATTGGTGGT-GATGAC
53542668 TTTCAATGGG
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
60 89 0.96
61 2 0.02
62 2 0.02
ACGTcount: A:0.16, C:0.09, G:0.47, T:0.29
Consensus pattern (59 bp):
GGTGGTGGATGAGCTTGAGTGGGTGGCGAGTATTGCATTGGTGGTGATGACCTTGAGTA
Found at i:53545511 original size:18 final size:17
Alignment explanation
Indices: 53545482--53545515 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
53545472 ACAAGTTCTA
53545482 TTAAATTATAATTATTT
1 TTAAATTATAATTATTT
53545499 TTAAATATATAATTATT
1 TTAAAT-TATAATTATT
53545516 ACAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAATTATAATTATTT
Found at i:53551399 original size:37 final size:37
Alignment explanation
Indices: 53551349--53551424 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
53551339 TTTTACCTTC
*
53551349 TCAAATGTAACCTATCACCTTTTTAAGTAGAACAGCA
1 TCAAATGTAACCTATCACCTTTCTAAGTAGAACAGCA
*
53551386 TCAAATGTAACCTATTACCTTTCTAAGTAGAACAGCA
1 TCAAATGTAACCTATCACCTTTCTAAGTAGAACAGCA
53551423 TC
1 TC
53551425 CTCTCTTAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (37 bp):
TCAAATGTAACCTATCACCTTTCTAAGTAGAACAGCA
Found at i:53554959 original size:18 final size:19
Alignment explanation
Indices: 53554924--53554966 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
53554914 GATTTAAAAC
*
53554924 ATTTTTAACATTATTTTT-
1 ATTTTTAACACTATTTTTA
53554942 ATTTTTAA-ACTATGTTTTA
1 ATTTTTAACACTAT-TTTTA
53554961 ATTTTT
1 ATTTTT
53554967 TAAATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 4 0.18
18 12 0.55
19 6 0.27
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (19 bp):
ATTTTTAACACTATTTTTA
Found at i:53558720 original size:29 final size:31
Alignment explanation
Indices: 53558644--53558720 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
53558634 CAAAATTAAT
* * *
53558644 GTTTCAAGTATACATTTGAACCAGAATTAAA
1 GTTTCATGTATACAATTGAACCAGAAATAAA
* *
53558675 GTTTCATGTGTATAATTGAACCA-AAATAAA
1 GTTTCATGTATACAATTGAACCAGAAATAAA
*
53558705 -TTTCGTGTATACAATT
1 GTTTCATGTATACAATT
53558721 ACACATTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 13 0.34
30 6 0.16
31 19 0.50
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (31 bp):
GTTTCATGTATACAATTGAACCAGAAATAAA
Found at i:53558981 original size:35 final size:35
Alignment explanation
Indices: 53558935--53559005 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
53558925 ATGCGACACC
53558935 ACATATTGGTTAATAGTATCATATCAGTACAAACT
1 ACATATTGGTTAATAGTATCATATCAGTACAAACT
53558970 ACATATTGGTTAATAGTATCATATCAGTACAAACT
1 ACATATTGGTTAATAGTATCATATCAGTACAAACT
53559005 A
1 A
53559006 ACGATATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (35 bp):
ACATATTGGTTAATAGTATCATATCAGTACAAACT
Found at i:53570953 original size:21 final size:22
Alignment explanation
Indices: 53570927--53570973 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
53570917 CTCTGCTCAA
*
53570927 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
53570948 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
53570970 ACTC
1 ACTC
53570974 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:53582191 original size:123 final size:125
Alignment explanation
Indices: 53582055--53582295 Score: 380
Period size: 123 Copynumber: 1.9 Consensus size: 125
53582045 TTCTCGTCAA
*
53582055 CACGTTTTTTATGAAATTTCTTCTTAAAACGATT-TCACGTAAGCACGTTTTAAATTTTTTGACC
1 CACGTTTTTTATGAAATTTCTCCTTAAAACGATTCT-ACGTAAGCACGTTTTAAATTTTTTGACC
*
53582119 CATTTTGATAAATAAAGTTAAGCGGCCCA-TTCTGTAAATAAAATTAGAAATGAACTTGAG
65 CATTCTGATAAATAAAGTTAAGCGGCCCATTTCTGTAAATAAAATTAGAAATGAACTTGAG
* **
53582179 CACG-TTTTTATGAAATTTCTCCTTAAAACGATTCTACGTAGGCACGTTTTGGATTTTTTGACCC
1 CACGTTTTTTATGAAATTTCTCCTTAAAACGATTCTACGTAAGCACGTTTTAAATTTTTTGACCC
* * *
53582243 ATTCTGATAAATAAAGTTAAGTGGCCCATTTTTGTAAATAAGATTAGAAATGA
66 ATTCTGATAAATAAAGTTAAGCGGCCCATTTCTGTAAATAAAATTAGAAATGA
53582296 GTATTTTTTT
Statistics
Matches: 107, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
123 80 0.75
124 27 0.25
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (125 bp):
CACGTTTTTTATGAAATTTCTCCTTAAAACGATTCTACGTAAGCACGTTTTAAATTTTTTGACCC
ATTCTGATAAATAAAGTTAAGCGGCCCATTTCTGTAAATAAAATTAGAAATGAACTTGAG
Found at i:53583055 original size:15 final size:15
Alignment explanation
Indices: 53583035--53583065 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53583025 CTATCATCTT
*
53583035 TAACTGCTAGCAGAC
1 TAACTGCTAACAGAC
53583050 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
53583065 T
1 T
53583066 TACAACGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (15 bp):
TAACTGCTAACAGAC
Found at i:53584990 original size:18 final size:18
Alignment explanation
Indices: 53584957--53584991 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
53584947 ACCAGCAGAT
* *
53584957 GGCATACTGACTTGTTGG
1 GGCATACTAACCTGTTGG
53584975 GGCATACTAACCTGTTG
1 GGCATACTAACCTGTTG
53584992 TGGAGAGCTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (18 bp):
GGCATACTAACCTGTTGG
Found at i:53585896 original size:14 final size:14
Alignment explanation
Indices: 53585877--53585909 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
53585867 AATCCAAGAA
53585877 GCGCTGTAATTTAT
1 GCGCTGTAATTTAT
53585891 GCGCTGTAATTTAT
1 GCGCTGTAATTTAT
53585905 GCGCT
1 GCGCT
53585910 TTCACAGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.39
Consensus pattern (14 bp):
GCGCTGTAATTTAT
Found at i:53586270 original size:15 final size:15
Alignment explanation
Indices: 53586250--53586280 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53586240 CTATCATCTT
*
53586250 TAACTGCTAACAGAC
1 TAACTGCCAACAGAC
53586265 TAACTGCCAACAGAC
1 TAACTGCCAACAGAC
53586280 T
1 T
53586281 TACAACGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.29, G:0.13, T:0.19
Consensus pattern (15 bp):
TAACTGCCAACAGAC
Found at i:53586314 original size:20 final size:20
Alignment explanation
Indices: 53586289--53586326 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53586279 CTTACAACGG
*
53586289 TACAACGGGTTTGACTATGT
1 TACAACGGCTTTGACTATGT
*
53586309 TACAACTGCTTTGACTAT
1 TACAACGGCTTTGACTAT
53586327 ATTAACTCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (20 bp):
TACAACGGCTTTGACTATGT
Found at i:53589652 original size:50 final size:50
Alignment explanation
Indices: 53589528--53589882 Score: 388
Period size: 50 Copynumber: 6.8 Consensus size: 50
53589518 GATAATAACA
* * ** * *
53589528 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
53589579 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
53589629 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
53589679 TGCCCATGCCATGTCTCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
53589734 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
53589785 TGCCCATGCCATGTCTCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
53589840 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
53589883 TTACCCAAAT
Statistics
Matches: 258, Mismatches: 33, Indels: 21
0.83 0.11 0.07
Matches are distributed among these distances:
49 1 0.00
50 131 0.51
51 35 0.14
52 1 0.00
53 6 0.02
54 2 0.01
55 4 0.02
56 78 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:53589780 original size:106 final size:106
Alignment explanation
Indices: 53589527--53589882 Score: 564
Period size: 106 Copynumber: 3.4 Consensus size: 106
53589517 TGATAATAAC
* ** *
53589527 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCATGCCAT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGGTGCCCATGCCAT
* * *
53589591 GTCCCAGACATGGTCTTATAGGGGACCTCTC---ATC-T-CGG
64 GTCTCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
*
53589629 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
53589693 CTCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
66 CTCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
53589734 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
53589799 CTCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
66 CTCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
*
53589840 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
53589883 TTACCCAAAT
Statistics
Matches: 238, Mismatches: 9, Indels: 10
0.93 0.04 0.04
Matches are distributed among these distances:
99 1 0.00
100 49 0.21
101 36 0.15
103 3 0.01
104 1 0.00
105 2 0.01
106 146 0.61
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (106 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
CTCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
Found at i:53589814 original size:156 final size:161
Alignment explanation
Indices: 53589527--53589882 Score: 455
Period size: 156 Copynumber: 2.3 Consensus size: 161
53589517 TGATAATAAC
* * ** * *
53589527 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGA---T--GG-TGCCCAT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATGATCTTAAGGATGCCAAT
*
53589586 GCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACA
65 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACA
* *
53589651 TGGTCTTACATGGGACCTCTC-G-TC-T-CGG
130 TGGTCTTACAGGGGACCTCTCAGATCTTAAGG
* *
53589679 -TGCCCATGCCATGTCTCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGGATGCCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGGATGCCAATG
* * * * *
53589743 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGTCTCAGACAT
66 CCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACAT
53589808 GGTCTTACAGGGGACCTCTCATGATCTTAAGG
131 GGTCTTACAGGGGACCTCTCA-GATCTTAAGG
* *
53589840 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
53589883 TTACCCAAAT
Statistics
Matches: 172, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
150 7 0.04
151 33 0.19
153 1 0.01
155 2 0.01
156 85 0.49
158 1 0.01
159 2 0.01
160 1 0.01
161 2 0.01
162 38 0.22
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (161 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGGATGCCAATG
CCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACAT
GGTCTTACAGGGGACCTCTCAGATCTTAAGG
Found at i:53589998 original size:13 final size:13
Alignment explanation
Indices: 53589977--53590008 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
53589967 GCTTGGATCA
*
53589977 TCATCAAATAAAT
1 TCATAAAATAAAT
53589990 TCATAAAATAAAT
1 TCATAAAATAAAT
53590003 TCATAA
1 TCATAA
53590009 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:53590255 original size:30 final size:30
Alignment explanation
Indices: 53590220--53590277 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
53590210 CCTCGACTCT
*
53590220 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
53590250 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
53590278 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:53591389 original size:27 final size:27
Alignment explanation
Indices: 53591352--53591406 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
53591342 AAGTCCTAAG
* * *
53591352 AAGATTTGTTAGCTTGTTAGTAGGAGT
1 AAGAGTTGTTAGCTTCTTAATAGGAGT
53591379 AAGAGTTGTTAGCTTCTTAATAGGAGT
1 AAGAGTTGTTAGCTTCTTAATAGGAGT
53591406 A
1 A
53591407 GCAATTTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.05, G:0.27, T:0.38
Consensus pattern (27 bp):
AAGAGTTGTTAGCTTCTTAATAGGAGT
Found at i:53593361 original size:53 final size:53
Alignment explanation
Indices: 53593220--53593370 Score: 221
Period size: 53 Copynumber: 2.8 Consensus size: 53
53593210 ATAAGTGCGC
* **
53593220 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
53593273 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* * *
53593326 CCGTATAAGACCATATCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT-A-ATGTGA
53593371 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 82 0.92
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:53596952 original size:68 final size:67
Alignment explanation
Indices: 53596880--53597029 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
53596870 CATCATGTGT
* * * *
53596880 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
53596942 ATGTAG
62 ATGTAG
** * *
53596948 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
53597013 AG
66 AG
53597015 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
53597030 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:53596985 original size:64 final size:64
Alignment explanation
Indices: 53596904--53597087 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
53596894 AGACATTATG
* *
53596904 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
53596968 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
53597033 AA
63 AA
* * * *
53597035 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
53597088 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:53601399 original size:68 final size:67
Alignment explanation
Indices: 53601327--53601476 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
53601317 CATCATGTGT
* * * *
53601327 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
53601389 ATGTAG
62 ATGTAG
** * *
53601395 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
53601460 AG
66 AG
53601462 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
53601477 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:53601432 original size:64 final size:64
Alignment explanation
Indices: 53601351--53601535 Score: 189
Period size: 67 Copynumber: 2.9 Consensus size: 64
53601341 AGACATTATG
* *
53601351 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
53601415 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
53601480 AA
63 AA
* * *
53601482 ACTG--GCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGCT
1 A-TGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGCT
53601536 GAACTATATG
Statistics
Matches: 99, Mismatches: 16, Indels: 13
0.77 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 20 0.20
64 21 0.21
65 7 0.07
66 17 0.17
67 31 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:53604476 original size:19 final size:21
Alignment explanation
Indices: 53604449--53604487 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
53604439 TATTAAAATT
*
53604449 AAATGAAAA-TATTAAACAAG
1 AAATGAAAATTATAAAACAAG
53604469 AAAT-AAAATTATAAAACAA
1 AAATGAAAATTATAAAACAA
53604488 TATGTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (21 bp):
AAATGAAAATTATAAAACAAG
Found at i:53604779 original size:208 final size:208
Alignment explanation
Indices: 53604407--53604877 Score: 809
Period size: 208 Copynumber: 2.3 Consensus size: 208
53604397 TTAATTTTAA
*
53604407 TAATGCATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATGAAAATATTAAACAAGAAA
1 TAATGCATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAACAAGAAA
* * *
53604472 TAAAATTATAAAACAATATGTTATTTGGAAAATAACTATTATTGTAATGAGATACATGTTTTATT
66 TAAAACTAAAAAACAATATGTTATTTGGAAAATAACAATTATTGTAATGAGATACATGTTTTATT
53604537 AGGTATAAGCATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAATATATATATAATCATA
131 AGGTATAAGCATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAATATATATATAATCATA
*
53604602 TTAGTGAATCTGC
196 TTACTGAATCTGC
* ** *
53604615 TAATGCGTACTTTTTCCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAATAAGAAA
1 TAATGCATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAACAAGAAA
*
53604680 TAAAACTAAAAAATAATATGTTATTT-GAGAAATAACAATTATTGTAATGAGATACATGTTTTAT
66 TAAAACTAAAAAACAATATGTTATTTGGA-AAATAACAATTATTGTAATGAGATACATGTTTTAT
*
53604744 TAGGTATAAGTATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAATATATATATAATCAT
130 TAGGTATAAGCATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAATATATATATAATCAT
53604809 ATTACTGAATCTGC
195 ATTACTGAATCTGC
* *
53604823 TAATACATACTTCATCCGAATAAAGTATGCATTATTAAAATTAAATTAAAATATT
1 TAATGCATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATT
53604878 TTTTAAAAAC
Statistics
Matches: 246, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
207 2 0.01
208 244 0.99
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (208 bp):
TAATGCATACTTCATCCGGATAAAGTATGCATTATTAAAATTAAATTAAAATATTAAACAAGAAA
TAAAACTAAAAAACAATATGTTATTTGGAAAATAACAATTATTGTAATGAGATACATGTTTTATT
AGGTATAAGCATTTAAAATTTTGTTTTTGTAATGTGATACATGCGTAAATATATATATAATCATA
TTACTGAATCTGC
Found at i:53612591 original size:21 final size:23
Alignment explanation
Indices: 53612548--53612593 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
53612538 CTTTTTTAAA
*
53612548 TAATAATAAATTAATAATTCATG
1 TAATAATAAATTAATAATACATG
*
53612571 TAAT-ATAAATT-TTAATACATG
1 TAATAATAAATTAATAATACATG
53612592 TA
1 TA
53612594 TAGTCTGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 7 0.33
23 4 0.19
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (23 bp):
TAATAATAAATTAATAATACATG
Found at i:53619556 original size:23 final size:23
Alignment explanation
Indices: 53619530--53619577 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
53619520 ACACTCTTAT
53619530 TTATTTCAAATTCGATCAAAGAA
1 TTATTTCAAATTCGATCAAAGAA
*
53619553 TTATTTCAAATTCGATTAAAGAA
1 TTATTTCAAATTCGATCAAAGAA
53619576 TT
1 TT
53619578 GAGTATAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (23 bp):
TTATTTCAAATTCGATCAAAGAA
Found at i:53630440 original size:16 final size:17
Alignment explanation
Indices: 53630412--53630443 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
53630402 TTTGCTGGGT
53630412 GAGCTCAGGTACTGTTA
1 GAGCTCAGGTACTGTTA
53630429 GAGCTC-GGTACTGTT
1 GAGCTCAGGTACTGTT
53630444 GAGATCCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (17 bp):
GAGCTCAGGTACTGTTA
Found at i:53636862 original size:21 final size:22
Alignment explanation
Indices: 53636838--53636879 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
53636828 CCAATCAATA
53636838 TTTAAAAA-ATAATTTTTTTAC
1 TTTAAAAAGATAATTTTTTTAC
53636859 TTTAAAAAGATAATTTTTTTA
1 TTTAAAAAGATAATTTTTTTA
53636880 GTGACCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTAAAAAGATAATTTTTTTAC
Found at i:53639976 original size:21 final size:21
Alignment explanation
Indices: 53639935--53639976 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
53639925 ACAGTTAAAC
53639935 AATAACAAAATGATTGCAAAAT
1 AATAACAAAATGA-TGCAAAAT
53639957 AATAACAAAATAGA-GCAAAA
1 AATAACAAAAT-GATGCAAAA
53639977 CAACTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 11 0.58
23 2 0.11
ACGTcount: A:0.64, C:0.10, G:0.10, T:0.17
Consensus pattern (21 bp):
AATAACAAAATGATGCAAAAT
Found at i:53647652 original size:20 final size:20
Alignment explanation
Indices: 53647627--53647676 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
53647617 TGGCTTAAAA
53647627 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
53647647 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
53647664 GTGGTAGTGGATT
1 TTGGTAGTGGATT
53647677 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:53652292 original size:20 final size:20
Alignment explanation
Indices: 53652267--53652316 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
53652257 TGGCTTAAAA
53652267 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
53652287 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
53652304 GTGGTAGTGGATT
1 TTGGTAGTGGATT
53652317 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:53653269 original size:99 final size:99
Alignment explanation
Indices: 53653094--53653299 Score: 405
Period size: 99 Copynumber: 2.1 Consensus size: 99
53653084 AGTTTCATCT
53653094 CAAA-ATCTGGTATCTTATCTTCTGCTTTAATCCATTATCCCATGCTTAAAAGAAACACACAAAA
1 CAAACATCTGGTATCTTATCTTCTGCTTTAATCCATTATCCCATGCTTAAAAGAAACACACAAAA
53653158 TGTCAGCTCAACTTTATATTGTCAACAAAATTAG
66 TGTCAGCTCAACTTTATATTGTCAACAAAATTAG
53653192 CAAACATCTGGTATCTTATCTTCTGCTTTAATCCATTATCCCATGCTTAAAAGAAACACACAAAA
1 CAAACATCTGGTATCTTATCTTCTGCTTTAATCCATTATCCCATGCTTAAAAGAAACACACAAAA
53653257 TGTCAGCTCAACTTTATATTGTCAACAAAATTAG
66 TGTCAGCTCAACTTTATATTGTCAACAAAATTAG
53653291 CAAACATCT
1 CAAACATCT
53653300 TTTACTGAAG
Statistics
Matches: 107, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
98 4 0.04
99 103 0.96
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (99 bp):
CAAACATCTGGTATCTTATCTTCTGCTTTAATCCATTATCCCATGCTTAAAAGAAACACACAAAA
TGTCAGCTCAACTTTATATTGTCAACAAAATTAG
Found at i:53654929 original size:30 final size:31
Alignment explanation
Indices: 53654876--53654938 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 31
53654866 AAAATTATAC
* *
53654876 TTTAGCCTCTTAAAAATAATAAAA-AATTGA
1 TTTAACCTCTTAAAAATAATAAAATAATAGA
* **
53654906 TTTAACCTTTTAAAAATTGTAAAATAATAGA
1 TTTAACCTCTTAAAAATAATAAAATAATAGA
53654937 TT
1 TT
53654939 ATTAAAATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (31 bp):
TTTAACCTCTTAAAAATAATAAAATAATAGA
Found at i:53663179 original size:15 final size:15
Alignment explanation
Indices: 53663156--53663192 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
53663146 CTGAAAATTT
*
53663156 TATGTGTAAAAGATA
1 TATGGGTAAAAGATA
53663171 TATGGGTAAAAGATA
1 TATGGGTAAAAGATA
53663186 TATGGGT
1 TATGGGT
53663193 CTATTTTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (15 bp):
TATGGGTAAAAGATA
Found at i:53664431 original size:38 final size:40
Alignment explanation
Indices: 53664370--53664445 Score: 111
Period size: 38 Copynumber: 1.9 Consensus size: 40
53664360 ATTTGATGTG
*
53664370 TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGTAAAA
1 TATCCGGGCTTAAAGACCCGCAGGCTTCATGCCGGTAAAA
* *
53664410 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCCGGTAA
1 TATCCGGGCTTAAAGACCCGCAGGCTTCATGCCGGTAA
53664446 TGTATATTCG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 20 0.61
39 5 0.15
40 8 0.24
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTTCATGCCGGTAAAA
Found at i:53664497 original size:43 final size:43
Alignment explanation
Indices: 53664427--53664518 Score: 166
Period size: 43 Copynumber: 2.1 Consensus size: 43
53664417 GTTAAATCCC
53664427 GCAGGCTTCGTGCCGGTAATGTATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTAATGTATATTCGGGCCTTCGTGCCTA
* *
53664470 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTAATGTATATTCGGGCCTTCGTGCCTA
53664513 GCAGGC
1 GCAGGC
53664519 GTAATGCCGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.12, C:0.26, G:0.34, T:0.28
Consensus pattern (43 bp):
GCAGGCTTCGTGCCGGTAATGTATATTCGGGCCTTCGTGCCTA
Found at i:53664527 original size:43 final size:43
Alignment explanation
Indices: 53664437--53664531 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
53664427 GCAGGCTTCG
* * **
53664437 TGCCGGTAATGTATATTCGGGCCTTCGTGCCTAGCAGGCTTCG
1 TGCCGGTGATGTATATTCGGGCCTTCGTGCCTAGCAGGCGTAA
*
53664480 TGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCGTAA
1 TGCCGGTGATGTATATTCGGGCCTTCGTGCCTAGCAGGCGTAA
53664523 TGCCGGTGA
1 TGCCGGTGA
53664532 AATGATATGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.14, C:0.24, G:0.34, T:0.28
Consensus pattern (43 bp):
TGCCGGTGATGTATATTCGGGCCTTCGTGCCTAGCAGGCGTAA
Found at i:53665937 original size:30 final size:26
Alignment explanation
Indices: 53665879--53665931 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
53665869 ATCTAAGTAT
* *
53665879 GTATGTATCTATTGATCGATATAGGA
1 GTATGTATCTATCGATCAATATAGGA
53665905 GTATGTATCTATCGATCAATATAGGA
1 GTATGTATCTATCGATCAATATAGGA
53665931 G
1 G
53665932 CGAGTAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (26 bp):
GTATGTATCTATCGATCAATATAGGA
Found at i:53688278 original size:21 final size:21
Alignment explanation
Indices: 53688254--53688319 Score: 105
Period size: 21 Copynumber: 3.1 Consensus size: 21
53688244 ATGAGCCAAA
53688254 AGAAGCTCGTAAGAGCTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
* *
53688275 AGAAACTCATAAGAGCTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
*
53688296 AGAAGCTCGTAAGAGCTAAAC
1 AGAAGCTCGTAAGAGCTGAAC
53688317 AGA
1 AGA
53688320 GACTTATCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTGAAC
Found at i:53695120 original size:47 final size:47
Alignment explanation
Indices: 53695011--53695121 Score: 129
Period size: 47 Copynumber: 2.4 Consensus size: 47
53695001 CCGGGATAAG
* *
53695011 CACATAGTGAT-TCATCGGAACAAATTTGGAACTTTAACATTATAGTA
1 CACATAGTG-TCTCATCGGAACAAATTCGGAACTTTAACAGTATAGTA
* * *
53695058 CACAAAGT-ACTTCATCGGAACAAATTCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGTC-TCATCGGAACAAATTCGGAACTTTAACAGTA-TAGTA
53695105 CACATAGTGTCTCATCG
1 CACATAGTGTCTCATCG
53695122 ACTCAATGTC
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
47 50 0.94
48 3 0.06
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (47 bp):
CACATAGTGTCTCATCGGAACAAATTCGGAACTTTAACAGTATAGTA
Found at i:53695894 original size:4 final size:4
Alignment explanation
Indices: 53695885--53695913 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
53695875 CCCTTTTCTA
53695885 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
53695914 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:53697064 original size:23 final size:23
Alignment explanation
Indices: 53697029--53697073 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
53697019 GTGAGATATC
* *
53697029 GTCGCGACGTCACATATCTCCTT
1 GTCGCAACATCACATATCTCCTT
53697052 GTCGCAACATCACATATCTCCT
1 GTCGCAACATCACATATCTCCT
53697074 CATCGTGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.36, G:0.13, T:0.29
Consensus pattern (23 bp):
GTCGCAACATCACATATCTCCTT
Found at i:53697084 original size:23 final size:23
Alignment explanation
Indices: 53697038--53697087 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
53697028 CGTCGCGACG
**
53697038 TCACATATCTCCTTGTCGCAACA
1 TCACATATCTCCTCATCGCAACA
**
53697061 TCACATATCTCCTCATCGTGACA
1 TCACATATCTCCTCATCGCAACA
53697084 TCAC
1 TCAC
53697088 GTGTCTGTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.36, G:0.08, T:0.30
Consensus pattern (23 bp):
TCACATATCTCCTCATCGCAACA
Found at i:53698548 original size:15 final size:15
Alignment explanation
Indices: 53698528--53698558 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53698518 AATAATTCAT
*
53698528 TTTTAATAATAAAAA
1 TTTTAACAATAAAAA
53698543 TTTTAACAATAAAAA
1 TTTTAACAATAAAAA
53698558 T
1 T
53698559 ATGAAATTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
TTTTAACAATAAAAA
Found at i:53699265 original size:39 final size:38
Alignment explanation
Indices: 53699212--53699287 Score: 125
Period size: 39 Copynumber: 2.0 Consensus size: 38
53699202 TTGAATTAAA
* *
53699212 ATTTCTGCTGCTTCCAACACGATGTAAGCAGTCTTTTG
1 ATTTCTGCTGCTTCCAACACAATGTAAGCAGTATTTTG
53699250 ATTTCCTGCTGCTTCCAACACAATGTAAGCAGTATTTT
1 ATTT-CTGCTGCTTCCAACACAATGTAAGCAGTATTTT
53699288 TGTACAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 4 0.11
39 31 0.89
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (38 bp):
ATTTCTGCTGCTTCCAACACAATGTAAGCAGTATTTTG
Found at i:53720521 original size:3 final size:3
Alignment explanation
Indices: 53720513--53720541 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
53720503 TTCTCGACCT
53720513 CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
53720542 TCAGGACTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:53726095 original size:20 final size:18
Alignment explanation
Indices: 53726061--53726097 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
53726051 GCAACTCATA
53726061 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
53726079 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
53726098 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:53751075 original size:29 final size:30
Alignment explanation
Indices: 53751017--53751084 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
53751007 TTAAATTAAT
* *
53751017 AATAATAAAATTATATTTTAATTTTCAAAA
1 AATAATAAAATTATAATTTAATCTTCAAAA
53751047 AATAATAAAATT-TAATTTAATACTT-AAAA
1 AATAATAAAATTATAATTTAAT-CTTCAAAA
*
53751076 AATTATAAA
1 AATAATAAA
53751085 TATATAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 20 0.59
30 14 0.41
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (30 bp):
AATAATAAAATTATAATTTAATCTTCAAAA
Found at i:53751095 original size:15 final size:16
Alignment explanation
Indices: 53751074--53751113 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
53751064 TAATACTTAA
53751074 AAAATTAT-AAAT-AT
1 AAAATTATAAAATAAT
53751088 ATAAATTATAAAATAAT
1 A-AAATTATAAAATAAT
53751105 AAAATTATA
1 AAAATTATA
53751114 TTTTTACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 1 0.04
15 7 0.30
16 12 0.52
17 3 0.13
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATTATAAAATAAT
Found at i:53751142 original size:23 final size:23
Alignment explanation
Indices: 53751074--53751144 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
53751064 TAATACTTAA
*
53751074 AAAATTATAAATATATA-AATTAT
1 AAAATTATAAAAATATATAATT-T
* * *
53751097 AAAATAATAAAATTATAT-TTTT
1 AAAATTATAAAAATATATAATTT
**
53751119 ACTATTATAAAAATATATAATTT
1 AAAATTATAAAAATATATAATTT
53751142 AAA
1 AAA
53751145 TCCGGCCTGA
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
22 15 0.43
23 20 0.57
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAATTATAAAAATATATAATTT
Found at i:53767677 original size:6 final size:6
Alignment explanation
Indices: 53767666--53767700 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
53767656 TTTTTTTCTG
* *
53767666 CTCTTC CTCTTC CTCTTC CTCTTC ATCTTC TTCTT
1 CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC CTCTT
53767701 TCTTCTTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.03, C:0.43, G:0.00, T:0.54
Consensus pattern (6 bp):
CTCTTC
Found at i:53770015 original size:29 final size:29
Alignment explanation
Indices: 53769973--53770029 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
53769963 AACTCTTCAT
*
53769973 ATTTTTTGAATTTAGTCCCTATACTTTTA
1 ATTTTTAGAATTTAGTCCCTATACTTTTA
* * *
53770002 ATTTTTAGTATTTAGTTCTTATACTTTT
1 ATTTTTAGAATTTAGTCCCTATACTTTT
53770030 TAAAATTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.60
Consensus pattern (29 bp):
ATTTTTAGAATTTAGTCCCTATACTTTTA
Found at i:53770181 original size:12 final size:12
Alignment explanation
Indices: 53770164--53770207 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
53770154 TCACGTGAAT
53770164 AAATTTAATAAA
1 AAATTTAATAAA
* *
53770176 AAATTTAACAAT
1 AAATTTAATAAA
53770188 AAATTTAATAAA
1 AAATTTAATAAA
53770200 AAATTTAA
1 AAATTTAA
53770208 CAATGTTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (12 bp):
AAATTTAATAAA
Found at i:53770189 original size:24 final size:24
Alignment explanation
Indices: 53770161--53770211 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
53770151 ATGTCACGTG
53770161 AATAAATTTAATAAAAAATTTAAC
1 AATAAATTTAATAAAAAATTTAAC
53770185 AATAAATTTAATAAAAAATTTAAC
1 AATAAATTTAATAAAAAATTTAAC
53770209 AAT
1 AAT
53770212 GTTAATCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
AATAAATTTAATAAAAAATTTAAC
Found at i:53771910 original size:17 final size:16
Alignment explanation
Indices: 53771870--53771926 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
53771860 CAAAATTTTA
*
53771870 ATAATTTTT--AATAT
1 ATAATTTTTGCAATTT
53771884 ATATATTTTTGCACATTT
1 ATA-ATTTTTGCA-ATTT
*
53771902 ATAATTTTTGGAATTT
1 ATAATTTTTGCAATTT
*
53771918 CTAATTTTT
1 ATAATTTTT
53771927 TAAAATATTC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
14 3 0.08
15 6 0.17
16 12 0.33
17 9 0.25
18 6 0.17
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (16 bp):
ATAATTTTTGCAATTT
Done.