Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 102 of 167
Found at i:33773027 original size:175 final size:174
Alignment explanation
Indices: 33772729--33773057 Score: 577
Period size: 175 Copynumber: 1.9 Consensus size: 174
33772719 TACTCAAGGT
* * *
33772729 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGTACCCTTCATATAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTATA
*
33772794 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
33772859 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* *
33772903 ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTAT
1 ACTTACC-TTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTAT
33772968 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
65 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
* *
33773033 TACTTTAAACTCGCACACTTAGTGC
130 CACTTTAAACTCACACACTTAGTGC
33773058 TGTACAATTT
Statistics
Matches: 146, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
174 7 0.05
175 139 0.95
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:33773049 original size:29 final size:30
Alignment explanation
Indices: 33773010--33773088 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
33773000 CTTAATAATC
33773010 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
33773040 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
33773069 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
33773089 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:33789160 original size:19 final size:19
Alignment explanation
Indices: 33789123--33789160 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
33789113 ACCTATCAGA
*
33789123 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
33789142 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
33789161 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:33800461 original size:111 final size:111
Alignment explanation
Indices: 33800266--33800471 Score: 292
Period size: 111 Copynumber: 1.9 Consensus size: 111
33800256 CCTTTGTGAC
* * * **
33800266 GAACTACGAAAGAATAAGTCTTTGTGGCGAACTATGAAAGAATAAGATTTTGTGGAGAACTATGA
1 GAACTACGAAAGAATAAGTCCTTGTGGCGAACTATGAAACAAAAAGACCTTGTGGAGAACTATGA
33800331 AACAATAAGCCTTTATGGTGAACTATGAAATAATAAACTCCTGTGT
66 AACAATAAGCCTTTATGGTGAACTATGAAATAATAAACTCCTGTGT
*
33800377 GAACTACGAAAGATTAAG-CACTTGTGGCGAACTATGAAACAAAAAGACCTTGTGGCA-AACTAT
1 GAACTACGAAAGAATAAGTC-CTTGTGGCGAACTATGAAACAAAAAGACCTTGTGG-AGAACTAT
* *
33800440 GAAAGAATAAGACC-TTGTGGTGAACTATGAAA
64 GAAACAATAAG-CCTTTATGGTGAACTATGAAA
33800472 GACTAAGCCC
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
110 1 0.01
111 80 0.95
112 3 0.04
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (111 bp):
GAACTACGAAAGAATAAGTCCTTGTGGCGAACTATGAAACAAAAAGACCTTGTGGAGAACTATGA
AACAATAAGCCTTTATGGTGAACTATGAAATAATAAACTCCTGTGT
Found at i:33800483 original size:28 final size:28
Alignment explanation
Indices: 33800245--33800511 Score: 223
Period size: 28 Copynumber: 9.6 Consensus size: 28
33800235 AACACGTTAG
* * ** *
33800245 GAAAGAACAAGCCTTTGTGACGAACTAC
1 GAAAGAATAAGCCCTTGTGGTGAACTAT
* * *
33800273 GAAAGAATAAGTCTTTGTGGCGAACTAT
1 GAAAGAATAAGCCCTTGTGGTGAACTAT
*** *
33800301 GAAAGAATAAGATTTTGTGGAGAACTAT
1 GAAAGAATAAGCCCTTGTGGTGAACTAT
* * *
33800329 GAAACAATAAGCCTTTATGGTGAACTAT
1 GAAAGAATAAGCCCTTGTGGTGAACTAT
* * *
33800357 GAAATAATAAACTCC-TGT-GTGAACTAC
1 GAAAGAATAAGC-CCTTGTGGTGAACTAT
* * *
33800384 GAAAGATTAAGCACTTGTGGCGAACTAT
1 GAAAGAATAAGCCCTTGTGGTGAACTAT
* * * **
33800412 GAAACAAAAAGACCTTGTGGCAAACTAT
1 GAAAGAATAAGCCCTTGTGGTGAACTAT
*
33800440 GAAAGAATAAGACCTTGTGGTGAACTAT
1 GAAAGAATAAGCCCTTGTGGTGAACTAT
* * *
33800468 GAAAGACTAAGCCCTTGTTGTTAACTAT
1 GAAAGAATAAGCCCTTGTGGTGAACTAT
* *
33800496 CAAAGATTAAGCCCTT
1 GAAAGAATAAGCCCTT
33800512 ATGGCGACTC
Statistics
Matches: 197, Mismatches: 39, Indels: 6
0.81 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 20 0.10
28 175 0.89
29 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (28 bp):
GAAAGAATAAGCCCTTGTGGTGAACTAT
Found at i:33805062 original size:24 final size:24
Alignment explanation
Indices: 33805028--33805104 Score: 91
Period size: 24 Copynumber: 3.2 Consensus size: 24
33805018 AAAGGCTATC
*
33805028 AGGAGAAGATTTAGGAGCTGGTAA
1 AGGAGAAGATTTAGGAGCTGATAA
* * **
33805052 GGGAGAGGATTTAGGAAATGATAA
1 AGGAGAAGATTTAGGAGCTGATAA
* *
33805076 AGCAGAAGATTTAGGAGCTGATCA
1 AGGAGAAGATTTAGGAGCTGATAA
33805100 AGGAG
1 AGGAG
33805105 CAGGAGTTGG
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.39, C:0.05, G:0.36, T:0.19
Consensus pattern (24 bp):
AGGAGAAGATTTAGGAGCTGATAA
Found at i:33813031 original size:24 final size:24
Alignment explanation
Indices: 33812933--33813029 Score: 167
Period size: 24 Copynumber: 4.0 Consensus size: 24
33812923 AGGCTGTCAT
33812933 GAGAAGATTTAGGAGCTGATAAGG
1 GAGAAGATTTAGGAGCTGATAAGG
*
33812957 GAGAGGATTTAGGAGCTGATAAGG
1 GAGAAGATTTAGGAGCTGATAAGG
*
33812981 GAGAAGATTTAGGAGCTGATAAAG
1 GAGAAGATTTAGGAGCTGATAAGG
33813005 GAGAAGATTTAGGAGCTGATCAAGG
1 GAGAAGATTTAGGAGCTGAT-AAGG
33813030 AGTAGGAGTT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
24 65 0.96
25 3 0.04
ACGTcount: A:0.37, C:0.05, G:0.37, T:0.21
Consensus pattern (24 bp):
GAGAAGATTTAGGAGCTGATAAGG
Found at i:33831977 original size:42 final size:40
Alignment explanation
Indices: 33831930--33832042 Score: 149
Period size: 40 Copynumber: 2.8 Consensus size: 40
33831920 CGAATTCTCA
*
33831930 CACACTAAGTGCCAATACATAGCCGAATCTAT-TTCAATCCCG
1 CACACTAAGTGCC-ATACATAGCCGAATCTATCTACAAT--CG
* * *
33831972 CACACTAAATGCCATACATAGCCGAAGCTATCTAGAATCG
1 CACACTAAGTGCCATACATAGCCGAATCTATCTACAATCG
33832012 CACACTAAGTGCCATACATAGCCGAAT-TATC
1 CACACTAAGTGCCATACATAGCCGAATCTATC
33832043 GTCAAATATG
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
39 4 0.06
40 27 0.42
41 17 0.27
42 16 0.25
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.22
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCGAATCTATCTACAATCG
Found at i:33837771 original size:39 final size:39
Alignment explanation
Indices: 33837712--33837791 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
33837702 CCTCTCCTCC
33837712 CTGGCCACCCGTTACAAGTCTAGAATCAGACGGTGCTAT
1 CTGGCCACCCGTTACAAGTCTAGAATCAGACGGTGCTAT
* *
33837751 CTGGCTACCCGTTACGAGTCTAGAATCAGACGGTGCTAT
1 CTGGCCACCCGTTACAAGTCTAGAATCAGACGGTGCTAT
33837790 CT
1 CT
33837792 CTTCAATGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CTGGCCACCCGTTACAAGTCTAGAATCAGACGGTGCTAT
Found at i:33842457 original size:54 final size:54
Alignment explanation
Indices: 33842267--33842474 Score: 217
Period size: 54 Copynumber: 3.9 Consensus size: 54
33842257 TTTCCTTTTT
* * * * ** *
33842267 GAACTTACCATTGTCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTAT-
1 GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * **
33842320 GAACTCA-CTAATGCCATGCCTTGGA-ATTGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTTATC-AATGCCATGCCTT-GACATGGTCTTACATGATATCC-TTGCCTTATA
* * *
33842374 GTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCATATA
1 G-AACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
*
33842429 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
33842475 ATCTTACCAA
Statistics
Matches: 129, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
52 3 0.02
53 37 0.29
54 47 0.36
55 39 0.30
56 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (54 bp):
GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:33842508 original size:47 final size:47
Alignment explanation
Indices: 33842453--33842574 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
33842443 CATGCCTTGG
* *
33842453 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
33842500 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
33842547 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
33842575 GTGCCAATGC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:33849133 original size:54 final size:54
Alignment explanation
Indices: 33848953--33849146 Score: 212
Period size: 55 Copynumber: 3.6 Consensus size: 54
33848943 TTACCATTGT
* * * * * * * *
33848953 CATGTCTTGACATGGCCTTACGTGGTATCTTTGCGTTAT-GAACTCACCAATGC
1 CATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGC
** *
33849006 CATGCCTTGGCATGGTCTTACATGGGA-CCTTTGTCTTATAGTAACTCATCAATGC
1 CATGCCTTGGCATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAATGC
* ** * *
33849061 CATGTCTTAACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGC
1 CATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGC
33849115 CATGCCTTGGCATGGTCTTACATGATATCCTT
1 CATGCCTTGGCATGGTCTTACATGATATCCTT
33849147 ATCTTACCAA
Statistics
Matches: 116, Mismatches: 21, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
52 1 0.01
53 29 0.25
54 41 0.35
55 43 0.37
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
CATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGC
Found at i:33849152 original size:109 final size:108
Alignment explanation
Indices: 33848953--33849152 Score: 267
Period size: 109 Copynumber: 1.8 Consensus size: 108
33848943 TTACCATTGT
* * * * *
33848953 CATGTCTTGACATGGCCTTACGTGGTATCTTTGCGTTATGAACTCACCAATGCCATGCCTTGGCA
1 CATGTCTTAACATGGCCTTACATGATATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCA
* *
33849018 TGGTCTTACATGGGACCTTTGTCTTATAGTAACTCATCAATGC
66 TGGTCTTACATGAGACCTTTATCTTATAGTAACTCATCAATGC
* * * *
33849061 CATGTCTTAACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGC
1 CATGTCTTAACATGGCCTTACATGATATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGC
*
33849126 ATGGTCTTACATGATATCC-TTATCTTA
65 ATGGTCTTACATGAGA-CCTTTATCTTA
33849153 CCAAATGTCA
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
108 32 0.41
109 44 0.56
110 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (108 bp):
CATGTCTTAACATGGCCTTACATGATATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCA
TGGTCTTACATGAGACCTTTATCTTATAGTAACTCATCAATGC
Found at i:33849178 original size:47 final size:47
Alignment explanation
Indices: 33849125--33849245 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
33849115 CATGCCTTGG
* *
33849125 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
33849172 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
33849219 CATGGTCTTACAT-AGTATCCTTGTCTT
1 CATGGTCTTACATGA-TATCCTTGTCTT
33849246 GGTGCCAATG
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:33849320 original size:47 final size:45
Alignment explanation
Indices: 33849109--33849378 Score: 143
Period size: 47 Copynumber: 5.8 Consensus size: 45
33849099 TAGAACTTAT
* * ** * *
33849109 CAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATC-TTAC
1 CAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT-GCAATAC
* *** * *
33849154 CAAATGTCATGTTCCAAACATGGTCTTACATGGTATCCTTGTC-TTAC
1 C-AATGCCATG-TCTTGACATGGTCTTACATGGGATCCTTG-CAATAC
*** * * ** *
33849201 CAAATGCCATGTTCCAAACATGGTCTTACATAGTATCCTTGTCTTGGTGC
1 C-AATGCCATG-TCTTGACATGGTCTTACATGGGATCCTTG-C--AATAC
** * * *
33849251 CAATGCCACATCTTAATC-TGGTCTTACAT-GGAGTCCTTAATCAATGC
1 CAATGCCATGTCTTGA-CATGGTCTTACATGGGA-TCCTT--GCAATAC
**
33849298 CAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCCTAC
1 CAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCAATAC
*
33849343 CAATGCCATGTCTTGACATGGTCTTACATGGTATCC
1 CAATGCCATGTCTTGACATGGTCTTACATGGGATCC
33849379 CTAACCGTCA
Statistics
Matches: 185, Mismatches: 28, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
45 39 0.21
46 9 0.05
47 102 0.55
48 23 0.12
49 9 0.05
50 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.34
Consensus pattern (45 bp):
CAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCAATAC
Found at i:33854305 original size:19 final size:18
Alignment explanation
Indices: 33854271--33854317 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
33854261 TTTTTATCAT
33854271 TTATCATTTA-TCAGGCA
1 TTATCATTTATTCAGGCA
33854288 TTATCATTTATTTCAGGCA
1 TTATCATTTA-TTCAGGCA
*
33854307 TTATCACTTAT
1 TTATCATTTAT
33854318 CGGGCTTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 10 0.37
18 1 0.04
19 16 0.59
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.47
Consensus pattern (18 bp):
TTATCATTTATTCAGGCA
Found at i:33855958 original size:32 final size:32
Alignment explanation
Indices: 33855921--33855984 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
33855911 AGATCGGATT
33855921 GTCGAACCCAAAGGAACCAAGAGTACTAGTAA
1 GTCGAACCCAAAGGAACCAAGAGTACTAGTAA
33855953 GTCGAACCCAAAGGAACCAAGAGTACTAGTAA
1 GTCGAACCCAAAGGAACCAAGAGTACTAGTAA
33855985 TTACTTTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (32 bp):
GTCGAACCCAAAGGAACCAAGAGTACTAGTAA
Found at i:33869769 original size:17 final size:17
Alignment explanation
Indices: 33869747--33869808 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
33869737 TAAAATATTA
33869747 TGTGATTATATGAGTAT
1 TGTGATTATATGAGTAT
*
33869764 TGTGATATATGCTTGAATGT-T
1 TGTGAT-TAT--ATG-A-GTAT
33869785 ATGTGATTATATGAGTAT
1 -TGTGATTATATGAGTAT
33869803 TGTGAT
1 TGTGAT
33869809 AAATGCTTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
17 14 0.39
18 5 0.14
19 2 0.06
20 2 0.06
21 5 0.14
22 8 0.22
ACGTcount: A:0.27, C:0.02, G:0.24, T:0.47
Consensus pattern (17 bp):
TGTGATTATATGAGTAT
Found at i:33869798 original size:39 final size:39
Alignment explanation
Indices: 33869717--33869935 Score: 312
Period size: 39 Copynumber: 5.6 Consensus size: 39
33869707 AACATGTTTT
* *
33869717 TGAGTATTTTGATATATGCTTAAAATATTATGTGATTATA
1 TGAGTATTGTGATATATGCTT-AAATGTTATGTGATTATA
*
33869757 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
33869796 TGAGTATTGTGATAAATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
*
33869835 TGAGTATTGTGATATATACTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
33869874 TGAGTATTCTGACATATGCTTAAATTTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
** * *
33869913 TGCTTAATATGATATATGCTTAA
1 TGAGTATTGTGATATATGCTTAA
33869936 TATGATATAT
Statistics
Matches: 163, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 143 0.88
40 20 0.12
ACGTcount: A:0.32, C:0.04, G:0.18, T:0.46
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:33869943 original size:14 final size:15
Alignment explanation
Indices: 33869910--33869962 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 15
33869900 TTATGTGATT
33869910 ATATGCTTAATATGA
1 ATATGCTTAATATGA
33869925 TATATGCTTAATATGA
1 -ATATGCTTAATATGA
*
33869941 TATATGCTTAAAAGTGA
1 -ATATGCTTAATA-TGA
33869958 ATATG
1 ATATG
33869963 ATTACCATGT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
16 32 0.91
17 3 0.09
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.40
Consensus pattern (15 bp):
ATATGCTTAATATGA
Found at i:33869962 original size:16 final size:16
Alignment explanation
Indices: 33869909--33869951 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
33869899 TTTATGTGAT
33869909 TATATGCTTAATATGA
1 TATATGCTTAATATGA
33869925 TATATGCTTAATATGA
1 TATATGCTTAATATGA
33869941 TATATGCTTAA
1 TATATGCTTAA
33869952 AAGTGAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (16 bp):
TATATGCTTAATATGA
Found at i:33870838 original size:68 final size:68
Alignment explanation
Indices: 33870729--33870865 Score: 238
Period size: 68 Copynumber: 2.0 Consensus size: 68
33870719 TCAGTTTTGA
* * * *
33870729 GATTTTGCTGAGTGGACCTTATACATGTTTAATTATTATTACAAGAATATTTGATGTATGTTCAG
1 GATTTTGCTAAATGGACCTTATACATGTTTAATTATTATTACAAGAATATCTAATGTATGTTCAG
33870794 CAT
66 CAT
33870797 GATTTTGCTAAATGGACCTTATACATGTTTAATTATTATTACAAGAATATCTAATGTATGTTCAG
1 GATTTTGCTAAATGGACCTTATACATGTTTAATTATTATTACAAGAATATCTAATGTATGTTCAG
33870862 CAT
66 CAT
33870865 G
1 G
33870866 CAACAATGAT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (68 bp):
GATTTTGCTAAATGGACCTTATACATGTTTAATTATTATTACAAGAATATCTAATGTATGTTCAG
CAT
Found at i:33888202 original size:40 final size:40
Alignment explanation
Indices: 33888158--33888381 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
33888148 AAGTGAATAT
* * * * **
33888158 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
33888198 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
33888238 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
33888278 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
33888318 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
33888357 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
33888382 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:33888256 original size:80 final size:80
Alignment explanation
Indices: 33888119--33888381 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
33888109 TTGAATGCTG
* * * * *
33888119 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
33888181 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
33888199 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
33888264 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
33888279 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
33888343 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
33888358 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
33888382 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:33888333 original size:120 final size:120
Alignment explanation
Indices: 33888119--33888381 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
33888109 TTGAATGCTG
* * *
33888119 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
33888183 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
33888239 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
33888301 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
33888358 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
33888382 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:33907429 original size:21 final size:21
Alignment explanation
Indices: 33907405--33907444 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
33907395 AATAAAGTTC
* *
33907405 AAAAGCAATTAAAATTTAATA
1 AAAACCAATTAAAAGTTAATA
*
33907426 AAAACCATTTAAAAGTTAA
1 AAAACCAATTAAAAGTTAA
33907445 GTCTAGAATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (21 bp):
AAAACCAATTAAAAGTTAATA
Found at i:33907764 original size:31 final size:29
Alignment explanation
Indices: 33907706--33907773 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
33907696 GATAGGTTAG
* * *
33907706 GTACCACATTGGATATTTTTAAAGTACAC
1 GTACCATATTGAATATTTTTAAAGTACAA
*
33907735 GTATCATATTGAATATTTTATAAAAGTACAA
1 GTACCATATTGAATATTTT-T-AAAGTACAA
33907766 GTACCATA
1 GTACCATA
33907774 ATAAAAACAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 16 0.50
30 1 0.03
31 15 0.47
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (29 bp):
GTACCATATTGAATATTTTTAAAGTACAA
Found at i:33914276 original size:42 final size:42
Alignment explanation
Indices: 33914217--33914306 Score: 153
Period size: 42 Copynumber: 2.1 Consensus size: 42
33914207 ATGGCCAAGA
* * *
33914217 CACACGCCCGTGTTCTAGGCCGTGTGGTACACACGGTTGAGG
1 CACACACCCATGTTCTAGGCCGTGTGGCACACACGGTTGAGG
33914259 CACACACCCATGTTCTAGGCCGTGTGGCACACACGGTTGAGG
1 CACACACCCATGTTCTAGGCCGTGTGGCACACACGGTTGAGG
33914301 CACACA
1 CACACA
33914307 GCCGTGTGCC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.21, C:0.31, G:0.29, T:0.19
Consensus pattern (42 bp):
CACACACCCATGTTCTAGGCCGTGTGGCACACACGGTTGAGG
Found at i:33927852 original size:24 final size:23
Alignment explanation
Indices: 33927825--33927870 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
33927815 CCTGTTACAT
* *
33927825 GGCTCTTTGTGAGCATTCTTGATA
1 GGCTCTTCGTGAGC-TTCCTGATA
33927849 GGCTCTTCGTGAGCTTCCTGAT
1 GGCTCTTCGTGAGCTTCCTGAT
33927871 TAAAAGTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.13, C:0.22, G:0.26, T:0.39
Consensus pattern (23 bp):
GGCTCTTCGTGAGCTTCCTGATA
Found at i:33929893 original size:20 final size:19
Alignment explanation
Indices: 33929868--33929910 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
33929858 AGTTTAAGTC
33929868 TTTAATGTGTCTTAATTTAA
1 TTTAATGTGT-TTAATTTAA
* *
33929888 TTTAATGTGTTTCATTTAG
1 TTTAATGTGTTTAATTTAA
33929907 TTTA
1 TTTA
33929911 GTAATTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.58
Consensus pattern (19 bp):
TTTAATGTGTTTAATTTAA
Found at i:33932595 original size:24 final size:25
Alignment explanation
Indices: 33932567--33932617 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
33932557 CAGCTTTGTT
33932567 CCCTTACTT-TCTGCCTTGGTTT-TG
1 CCCTTACTTGTCTGCC-TGGTTTCTG
* *
33932591 CCCTTCCTTGTCTTCCTGGTTTCTG
1 CCCTTACTTGTCTGCCTGGTTTCTG
33932616 CC
1 CC
33932618 TCCTTCACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.02, C:0.35, G:0.16, T:0.47
Consensus pattern (25 bp):
CCCTTACTTGTCTGCCTGGTTTCTG
Found at i:33933893 original size:13 final size:13
Alignment explanation
Indices: 33933875--33933899 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33933865 ATTATTCTGC
33933875 AAAAAAATAAAAT
1 AAAAAAATAAAAT
33933888 AAAAAAATAAAA
1 AAAAAAATAAAA
33933900 ACAAGCTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAAATAAAAT
Found at i:33937893 original size:40 final size:40
Alignment explanation
Indices: 33937830--33937927 Score: 108
Period size: 40 Copynumber: 2.5 Consensus size: 40
33937820 CTATCTCGGT
* * *
33937830 ATCACACACTTAGTGCCACATATAGCCGAAGTTAT-TCCA
1 ATCACACACTAAGTGCCACATATAGCCCAAGCTATCTCCA
*** *
33937869 ATTCACACACTAAGTGCTTTATATAGCCCAAGCTATCTCGA
1 A-TCACACACTAAGTGCCACATATAGCCCAAGCTATCTCCA
*
33937910 ATCGCACACTAAGTGCCA
1 ATCACACACTAAGTGCCA
33937928 AACATAGTCG
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
39 1 0.02
40 42 0.89
41 4 0.09
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (40 bp):
ATCACACACTAAGTGCCACATATAGCCCAAGCTATCTCCA
Found at i:33938172 original size:20 final size:19
Alignment explanation
Indices: 33938134--33938175 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
33938124 CTATATGTAT
*
33938134 TCAAAATTAACCCATTTAA
1 TCAAAATTAACCAATTTAA
*
33938153 TCAAAATTAATTCAATTTAA
1 TCAAAATTAA-CCAATTTAA
33938173 TCA
1 TCA
33938176 TTATTGAGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.36
Consensus pattern (19 bp):
TCAAAATTAACCAATTTAA
Found at i:33955843 original size:52 final size:53
Alignment explanation
Indices: 33955768--33955885 Score: 132
Period size: 52 Copynumber: 2.2 Consensus size: 53
33955758 ATAGGGCAAA
* *
33955768 TCAGTTATTTTACCTTACAGGGGTATTACAGTCATTTTACCATAT-AAGGGTATT
1 TCAGTCATTTTACC-TACAGGGGTATTACAGTCATTTTACCATATGAA-AGTATT
* * * * *
33955822 TCAGTCATTTTACC-ATAGGGGTATTTCGGTTATTTTACCCTATGAAAGTATT
1 TCAGTCATTTTACCTACAGGGGTATTACAGTCATTTTACCATATGAAAGTATT
*
33955874 TCGGTCATTTTA
1 TCAGTCATTTTA
33955886 TCTCATAAGG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
52 40 0.73
53 2 0.04
54 13 0.24
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.42
Consensus pattern (53 bp):
TCAGTCATTTTACCTACAGGGGTATTACAGTCATTTTACCATATGAAAGTATT
Found at i:33955856 original size:25 final size:26
Alignment explanation
Indices: 33955768--33955860 Score: 107
Period size: 27 Copynumber: 3.5 Consensus size: 26
33955758 ATAGGGCAAA
* *
33955768 TCAGTTATTTTACCTTACAGGGGTATT
1 TCAGTCATTTTACC-TATAGGGGTATT
* *
33955795 ACAGTCATTTTACCATATAAGGGTATT
1 TCAGTCATTTTACC-TATAGGGGTATT
33955822 TCAGTCATTTTACC-ATAGGGGTATT
1 TCAGTCATTTTACCTATAGGGGTATT
* *
33955847 TCGGTTATTTTACC
1 TCAGTCATTTTACC
33955861 CTATGAAAGT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
25 22 0.39
27 35 0.61
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (26 bp):
TCAGTCATTTTACCTATAGGGGTATT
Found at i:33955910 original size:27 final size:27
Alignment explanation
Indices: 33955877--33956003 Score: 132
Period size: 27 Copynumber: 4.7 Consensus size: 27
33955867 AAGTATTTCG
* *
33955877 GTCATTTTATCTCATAAGGGAAAAATC
1 GTCATTTTATCGCATAAGGGCAAAATC
* * *
33955904 GTTATTTTATCGCATAGGGGTAAAATC
1 GTCATTTTATCGCATAAGGGCAAAATC
* *
33955931 ATCATTTTATCGCATAAGGGCAAAATA
1 GTCATTTTATCGCATAAGGGCAAAATC
* *
33955958 GTCA-TTTACCCCATAAGGGCAAAA-C
1 GTCATTTTATCGCATAAGGGCAAAATC
* *
33955983 AGTCATTTTGTCTCATAAGGG
1 -GTCATTTTATCGCATAAGGG
33956004 TTCAGGTACG
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 22 0.27
27 60 0.73
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (27 bp):
GTCATTTTATCGCATAAGGGCAAAATC
Found at i:33955936 original size:54 final size:53
Alignment explanation
Indices: 33955877--33956003 Score: 148
Period size: 53 Copynumber: 2.4 Consensus size: 53
33955867 AAGTATTTCG
* * * * * *
33955877 GTCATTTTATCTCATAAGGGAAAAATCGTTATTTTATCGCATAGGGGTAAAATCA
1 GTCATTTTATCTCATAAGGGAAAAATAGTCA-TTTACCCCATAAGGGCAAAA-CA
* *
33955932 -TCATTTTATCGCATAAGGGCAAAATAGTCATTTACCCCATAAGGGCAAAACA
1 GTCATTTTATCTCATAAGGGAAAAATAGTCATTTACCCCATAAGGGCAAAACA
*
33955984 GTCATTTTGTCTCATAAGGG
1 GTCATTTTATCTCATAAGGG
33956004 TTCAGGTACG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
52 2 0.03
53 33 0.54
54 26 0.43
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (53 bp):
GTCATTTTATCTCATAAGGGAAAAATAGTCATTTACCCCATAAGGGCAAAACA
Found at i:33974307 original size:49 final size:49
Alignment explanation
Indices: 33974245--33974348 Score: 181
Period size: 49 Copynumber: 2.1 Consensus size: 49
33974235 TAGTTGTGGT
* *
33974245 AATCGTGTAAAGATAATTAAATGTGATGTGTTAGTAACTATAGAAGCAA
1 AATCATGTAAAGATAATTAAATGTGACGTGTTAGTAACTATAGAAGCAA
*
33974294 AATCATGTAAAGATAATTAAGTGTGACGTGTTAGTAACTATAGAAGCAA
1 AATCATGTAAAGATAATTAAATGTGACGTGTTAGTAACTATAGAAGCAA
33974343 AATCAT
1 AATCAT
33974349 CTCTTATTGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.43, C:0.08, G:0.19, T:0.30
Consensus pattern (49 bp):
AATCATGTAAAGATAATTAAATGTGACGTGTTAGTAACTATAGAAGCAA
Found at i:33978803 original size:14 final size:14
Alignment explanation
Indices: 33978770--33978796 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33978760 GTACTTCCTC
33978770 GACTTTTAACCCAA
1 GACTTTTAACCCAA
33978784 GACTTTTAACCCA
1 GACTTTTAACCCA
33978797 GTACTTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (14 bp):
GACTTTTAACCCAA
Found at i:33979116 original size:17 final size:18
Alignment explanation
Indices: 33979094--33979128 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
33979084 AATGTGTTTC
33979094 TCATTTC-TCCATTTTTA
1 TCATTTCATCCATTTTTA
33979111 TCATTTCTATCCATTTTT
1 TCATTTC-ATCCATTTTT
33979129 GTTCATTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (18 bp):
TCATTTCATCCATTTTTA
Found at i:33979918 original size:9 final size:9
Alignment explanation
Indices: 33979877--33979910 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
33979867 ATATGTAGTT
33979877 TTAATTC-A
1 TTAATTCGA
33979885 GTTAATTCGA
1 -TTAATTCGA
33979895 TTAATTCGA
1 TTAATTCGA
33979904 TTAATTC
1 TTAATTC
33979911 AGATAATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 23 0.96
10 1 0.04
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (9 bp):
TTAATTCGA
Found at i:33980086 original size:7 final size:7
Alignment explanation
Indices: 33980074--33980100 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
33980064 GGTTTGGTTT
33980074 GGTTAAC
1 GGTTAAC
33980081 GGTTAAC
1 GGTTAAC
33980088 GGTTAAC
1 GGTTAAC
33980095 GGTTAA
1 GGTTAA
33980101 AGGATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (7 bp):
GGTTAAC
Found at i:33981118 original size:6 final size:6
Alignment explanation
Indices: 33981107--33981142 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
33981097 GGTTTTCTCA
*
33981107 AAATGG AAATGG AAATGG AAATGA AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
33981143 ATTCATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:33983925 original size:20 final size:20
Alignment explanation
Indices: 33983902--33983941 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
33983892 CTTCACTAGG
33983902 GGGCTATATTCTTAATGGAA
1 GGGCTATATTCTTAATGGAA
*
33983922 GGGCTATCTTCTTAATGGAA
1 GGGCTATATTCTTAATGGAA
33983942 AACCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (20 bp):
GGGCTATATTCTTAATGGAA
Found at i:34005338 original size:21 final size:21
Alignment explanation
Indices: 34005314--34005353 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
34005304 AATAAAGTTC
* *
34005314 AAAAGCAATTAAAATTTAATA
1 AAAACCAATTAAAAGTTAATA
*
34005335 AAAACCATTTAAAAGTTAA
1 AAAACCAATTAAAAGTTAA
34005354 GTCTAGAATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (21 bp):
AAAACCAATTAAAAGTTAATA
Found at i:34005673 original size:31 final size:29
Alignment explanation
Indices: 34005615--34005682 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
34005605 GATAGGTTAG
* * *
34005615 GTACCACATTGGATATTTTTAAAGTACAC
1 GTACCATATTGAATATTTTTAAAGTACAA
*
34005644 GTATCATATTGAATATTTTATAAAAGTACAA
1 GTACCATATTGAATATTTT-T-AAAGTACAA
34005675 GTACCATA
1 GTACCATA
34005683 ATAAAAACAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 16 0.50
30 1 0.03
31 15 0.47
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (29 bp):
GTACCATATTGAATATTTTTAAAGTACAA
Found at i:34012185 original size:42 final size:42
Alignment explanation
Indices: 34012126--34012215 Score: 153
Period size: 42 Copynumber: 2.1 Consensus size: 42
34012116 ATGGCCAAGA
* * *
34012126 CACACGCCCGTGTTCTAGGCCGTGTGGTACACACGGTTGAGG
1 CACACACCCATGTTCTAGGCCGTGTGGCACACACGGTTGAGG
34012168 CACACACCCATGTTCTAGGCCGTGTGGCACACACGGTTGAGG
1 CACACACCCATGTTCTAGGCCGTGTGGCACACACGGTTGAGG
34012210 CACACA
1 CACACA
34012216 GCCGTGTGCC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.21, C:0.31, G:0.29, T:0.19
Consensus pattern (42 bp):
CACACACCCATGTTCTAGGCCGTGTGGCACACACGGTTGAGG
Found at i:34025761 original size:24 final size:23
Alignment explanation
Indices: 34025734--34025779 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
34025724 CCTGTTACAT
* *
34025734 GGCTCTTTGTGAGCATTCTTGATA
1 GGCTCTTCGTGAGC-TTCCTGATA
34025758 GGCTCTTCGTGAGCTTCCTGAT
1 GGCTCTTCGTGAGCTTCCTGAT
34025780 TAAAAGTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.13, C:0.22, G:0.26, T:0.39
Consensus pattern (23 bp):
GGCTCTTCGTGAGCTTCCTGATA
Found at i:34027802 original size:20 final size:19
Alignment explanation
Indices: 34027777--34027819 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
34027767 AGTTTAAGTC
34027777 TTTAATGTGTCTTAATTTAA
1 TTTAATGTGT-TTAATTTAA
* *
34027797 TTTAATGTGTTTCATTTAG
1 TTTAATGTGTTTAATTTAA
34027816 TTTA
1 TTTA
34027820 GTAATTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.58
Consensus pattern (19 bp):
TTTAATGTGTTTAATTTAA
Found at i:34030504 original size:24 final size:25
Alignment explanation
Indices: 34030476--34030526 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
34030466 CAGCTTTGTT
34030476 CCCTTACTT-TCTGCCTTGGTTT-TG
1 CCCTTACTTGTCTGCC-TGGTTTCTG
* *
34030500 CCCTTCCTTGTCTTCCTGGTTTCTG
1 CCCTTACTTGTCTGCCTGGTTTCTG
34030525 CC
1 CC
34030527 TCCTTCACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.02, C:0.35, G:0.16, T:0.47
Consensus pattern (25 bp):
CCCTTACTTGTCTGCCTGGTTTCTG
Found at i:34031802 original size:13 final size:13
Alignment explanation
Indices: 34031784--34031808 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34031774 ATTATTCTGC
34031784 AAAAAAATAAAAT
1 AAAAAAATAAAAT
34031797 AAAAAAATAAAA
1 AAAAAAATAAAA
34031809 ACAAGCTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAAATAAAAT
Found at i:34035802 original size:40 final size:40
Alignment explanation
Indices: 34035739--34035836 Score: 108
Period size: 40 Copynumber: 2.5 Consensus size: 40
34035729 CTATCTCGGT
* * *
34035739 ATCACACACTTAGTGCCACATATAGCCGAAGTTAT-TCCA
1 ATCACACACTAAGTGCCACATATAGCCCAAGCTATCTCCA
*** *
34035778 ATTCACACACTAAGTGCTTTATATAGCCCAAGCTATCTCGA
1 A-TCACACACTAAGTGCCACATATAGCCCAAGCTATCTCCA
*
34035819 ATCGCACACTAAGTGCCA
1 ATCACACACTAAGTGCCA
34035837 AACATAGTCG
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
39 1 0.02
40 42 0.89
41 4 0.09
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (40 bp):
ATCACACACTAAGTGCCACATATAGCCCAAGCTATCTCCA
Found at i:34036081 original size:20 final size:19
Alignment explanation
Indices: 34036043--34036084 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
34036033 CTATATGTAT
*
34036043 TCAAAATTAACCCATTTAA
1 TCAAAATTAACCAATTTAA
*
34036062 TCAAAATTAATTCAATTTAA
1 TCAAAATTAA-CCAATTTAA
34036082 TCA
1 TCA
34036085 TTATTGAGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.36
Consensus pattern (19 bp):
TCAAAATTAACCAATTTAA
Found at i:34053752 original size:52 final size:53
Alignment explanation
Indices: 34053677--34053794 Score: 132
Period size: 52 Copynumber: 2.2 Consensus size: 53
34053667 ATAGGGCAAA
* *
34053677 TCAGTTATTTTACCTTACAGGGGTATTACAGTCATTTTACCATAT-AAGGGTATT
1 TCAGTCATTTTACC-TACAGGGGTATTACAGTCATTTTACCATATGAA-AGTATT
* * * * *
34053731 TCAGTCATTTTACC-ATAGGGGTATTTCGGTTATTTTACCCTATGAAAGTATT
1 TCAGTCATTTTACCTACAGGGGTATTACAGTCATTTTACCATATGAAAGTATT
*
34053783 TCGGTCATTTTA
1 TCAGTCATTTTA
34053795 TCTCATAAGG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
52 40 0.73
53 2 0.04
54 13 0.24
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.42
Consensus pattern (53 bp):
TCAGTCATTTTACCTACAGGGGTATTACAGTCATTTTACCATATGAAAGTATT
Found at i:34053765 original size:25 final size:26
Alignment explanation
Indices: 34053677--34053769 Score: 107
Period size: 27 Copynumber: 3.5 Consensus size: 26
34053667 ATAGGGCAAA
* *
34053677 TCAGTTATTTTACCTTACAGGGGTATT
1 TCAGTCATTTTACC-TATAGGGGTATT
* *
34053704 ACAGTCATTTTACCATATAAGGGTATT
1 TCAGTCATTTTACC-TATAGGGGTATT
34053731 TCAGTCATTTTACC-ATAGGGGTATT
1 TCAGTCATTTTACCTATAGGGGTATT
* *
34053756 TCGGTTATTTTACC
1 TCAGTCATTTTACC
34053770 CTATGAAAGT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
25 22 0.39
27 35 0.61
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (26 bp):
TCAGTCATTTTACCTATAGGGGTATT
Found at i:34053819 original size:27 final size:27
Alignment explanation
Indices: 34053786--34053912 Score: 132
Period size: 27 Copynumber: 4.7 Consensus size: 27
34053776 AAGTATTTCG
* *
34053786 GTCATTTTATCTCATAAGGGAAAAATC
1 GTCATTTTATCGCATAAGGGCAAAATC
* * *
34053813 GTTATTTTATCGCATAGGGGTAAAATC
1 GTCATTTTATCGCATAAGGGCAAAATC
* *
34053840 ATCATTTTATCGCATAAGGGCAAAATA
1 GTCATTTTATCGCATAAGGGCAAAATC
* *
34053867 GTCA-TTTACCCCATAAGGGCAAAA-C
1 GTCATTTTATCGCATAAGGGCAAAATC
* *
34053892 AGTCATTTTGTCTCATAAGGG
1 -GTCATTTTATCGCATAAGGG
34053913 TTCAGGTACG
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 22 0.27
27 60 0.73
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (27 bp):
GTCATTTTATCGCATAAGGGCAAAATC
Found at i:34053845 original size:54 final size:53
Alignment explanation
Indices: 34053786--34053912 Score: 148
Period size: 53 Copynumber: 2.4 Consensus size: 53
34053776 AAGTATTTCG
* * * * * *
34053786 GTCATTTTATCTCATAAGGGAAAAATCGTTATTTTATCGCATAGGGGTAAAATCA
1 GTCATTTTATCTCATAAGGGAAAAATAGTCA-TTTACCCCATAAGGGCAAAA-CA
* *
34053841 -TCATTTTATCGCATAAGGGCAAAATAGTCATTTACCCCATAAGGGCAAAACA
1 GTCATTTTATCTCATAAGGGAAAAATAGTCATTTACCCCATAAGGGCAAAACA
*
34053893 GTCATTTTGTCTCATAAGGG
1 GTCATTTTATCTCATAAGGG
34053913 TTCAGGTACG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
52 2 0.03
53 33 0.54
54 26 0.43
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (53 bp):
GTCATTTTATCTCATAAGGGAAAAATAGTCATTTACCCCATAAGGGCAAAACA
Found at i:34074897 original size:33 final size:33
Alignment explanation
Indices: 34074844--34074924 Score: 117
Period size: 33 Copynumber: 2.5 Consensus size: 33
34074834 GTGAATAACA
* *
34074844 CAATATCAGTATAGTCTGGGCCAAAGCCCTATT
1 CAATATCAGTACAGTCTGGGCCAAAGCCCTATC
* *
34074877 CAGTATCAGTACAGTTTGGGCCAAAGCCCTATC
1 CAATATCAGTACAGTCTGGGCCAAAGCCCTATC
*
34074910 CAATCTCAGTACAGT
1 CAATATCAGTACAGT
34074925 GCAAAATACA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (33 bp):
CAATATCAGTACAGTCTGGGCCAAAGCCCTATC
Found at i:34077608 original size:39 final size:39
Alignment explanation
Indices: 34077554--34077631 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
34077544 ATTGTGAATG
* *
34077554 ACAGTACATATTGCAGAAGTCGTACAACTAATGCACTAA
1 ACAGTACATATTGCAGAAGTCGTACAACCAACGCACTAA
34077593 ACAGTACATATTGCAGAAGTCGTACAACCAACGCACTAA
1 ACAGTACATATTGCAGAAGTCGTACAACCAACGCACTAA
34077632 CTTTTGCTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.21
Consensus pattern (39 bp):
ACAGTACATATTGCAGAAGTCGTACAACCAACGCACTAA
Found at i:34085667 original size:43 final size:43
Alignment explanation
Indices: 34085547--34085682 Score: 138
Period size: 43 Copynumber: 3.2 Consensus size: 43
34085537 AGCTCGTACA
* * *
34085547 ATGCCAACATCCCAGATGTAGTCTTACATGT-AATCAAATATCA
1 ATGCCAACGTCCCAGATGTAGTCTTACACGTAAATCAAATA-CG
*
34085590 ATGCC-ACTGTCCCAGACAG-AGTCTTACACG-AAATCAAATACG
1 ATGCCAAC-GTCCCAGA-TGTAGTCTTACACGTAAATCAAATACG
* *
34085632 ATGCCAACGTCCCAGATGTGGTCTTATACGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGATGTAGTCTTACACGTAAATCA-AA-TACG
34085676 ATGCCAA
1 ATGCCAA
34085683 TGTACCAAAC
Statistics
Matches: 78, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
41 1 0.01
42 25 0.32
43 39 0.50
44 12 0.15
45 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGATGTAGTCTTACACGTAAATCAAATACG
Found at i:34089512 original size:35 final size:35
Alignment explanation
Indices: 34089473--34089747 Score: 288
Period size: 35 Copynumber: 7.9 Consensus size: 35
34089463 ATGGAAAAGT
* * *
34089473 TATGACACGTAGGTATGGTATTGTCCATACTGAGC
1 TATGAAACGTAGGTATGGTATTATCCATACCGAGC
* *
34089508 TATGACACATAGGTATGGTATTATCCATACCGAGC
1 TATGAAACGTAGGTATGGTATTATCCATACCGAGC
*
34089543 TAT-AATACGTAGGTATGGTATT-TCCCATACCGAGT
1 TATGAA-ACGTAGGTATGGTATTAT-CCATACCGAGC
* * * *
34089578 TGTGAAATGTAGGTATGGTATTGTCCATACTGAGC
1 TATGAAACGTAGGTATGGTATTATCCATACCGAGC
* * *
34089613 TTTAAAACGTAGGTATGGTATTATCCAAACCGAGC
1 TATGAAACGTAGGTATGGTATTATCCATACCGAGC
* * *
34089648 TAT-AATATGTAGGTATGGTATT-TCCCATACCAAGT
1 TATGAA-ACGTAGGTATGGTATTAT-CCATACCGAGC
* * **
34089683 TGTGAAACGTAGGTATGGTATTGTCCATATTGAGC
1 TATGAAACGTAGGTATGGTATTATCCATACCGAGC
* *
34089718 TATGAAACGAAGGTATGGTATTAACCATAC
1 TATGAAACGTAGGTATGGTATTATCCATAC
34089748 TGAGTTGTGA
Statistics
Matches: 200, Mismatches: 32, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
34 5 0.03
35 189 0.94
36 6 0.03
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (35 bp):
TATGAAACGTAGGTATGGTATTATCCATACCGAGC
Found at i:34089633 original size:105 final size:105
Alignment explanation
Indices: 34089469--34089747 Score: 441
Period size: 105 Copynumber: 2.7 Consensus size: 105
34089459 ATCCATGGAA
* * * *
34089469 AAGTTATGACACGTAGGTATGGTATTGTCCATACTGAGCTATGACACATAGGTATGGTATTATCC
1 AAGTTGTGAAACGTAGGTATGGTATTGTCCATACTGAGCTATGAAACGTAGGTATGGTATTATCC
34089534 ATACCGAGCTATAATACGTAGGTATGGTATTTCCCATACC
66 ATACCGAGCTATAATACGTAGGTATGGTATTTCCCATACC
* * * *
34089574 GAGTTGTGAAATGTAGGTATGGTATTGTCCATACTGAGCTTTAAAACGTAGGTATGGTATTATCC
1 AAGTTGTGAAACGTAGGTATGGTATTGTCCATACTGAGCTATGAAACGTAGGTATGGTATTATCC
* *
34089639 AAACCGAGCTATAATATGTAGGTATGGTATTTCCCATACC
66 ATACCGAGCTATAATACGTAGGTATGGTATTTCCCATACC
* * *
34089679 AAGTTGTGAAACGTAGGTATGGTATTGTCCATATTGAGCTATGAAACGAAGGTATGGTATTAACC
1 AAGTTGTGAAACGTAGGTATGGTATTGTCCATACTGAGCTATGAAACGTAGGTATGGTATTATCC
34089744 ATAC
66 ATAC
34089748 TGAGTTGTGA
Statistics
Matches: 156, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
105 156 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (105 bp):
AAGTTGTGAAACGTAGGTATGGTATTGTCCATACTGAGCTATGAAACGTAGGTATGGTATTATCC
ATACCGAGCTATAATACGTAGGTATGGTATTTCCCATACC
Found at i:34091120 original size:68 final size:67
Alignment explanation
Indices: 34091074--34091299 Score: 398
Period size: 68 Copynumber: 3.3 Consensus size: 67
34091064 ATACTATATA
34091074 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAAACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAAACAAGAGAGCTACG-GAGAGATA
34091139 AAT
65 AAT
34091142 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAAACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAAACAAGAGAGCTACG-GAGAGATA
34091207 AAT
65 AAT
*
34091210 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAAACAAGAGAGCTACG-GAGAGATA
34091275 AAT
65 AAT
* *
34091278 GTAGCTAGGTCGCATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
34091300 TCCAAGTGAA
Statistics
Matches: 155, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 155 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAAACAAGAGAGCTACGGAGAGATAA
AT
Found at i:34091373 original size:66 final size:67
Alignment explanation
Indices: 34091108--34091373 Score: 192
Period size: 68 Copynumber: 3.9 Consensus size: 67
34091098 GGGATGTATC
* * * *
34091108 CCATGTAAACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-C--GGGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
* *
34091170 TGTATC-
62 AGGA-CA
* * * *
34091176 CCATGTAAACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-C--GGGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
* *
34091238 TGTATC-
62 AGGA-CA
*
34091244 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
34091309 AGGACA
62 AGGACA
* *
34091315 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
34091374 TTCACCATGT
Statistics
Matches: 183, Mismatches: 10, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
66 24 0.13
67 9 0.05
68 122 0.67
69 1 0.01
70 1 0.01
71 26 0.14
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:34095390 original size:49 final size:49
Alignment explanation
Indices: 34095287--34095502 Score: 179
Period size: 49 Copynumber: 4.6 Consensus size: 49
34095277 ATATACAAGT
* * * **
34095287 AGTGTAAGACCTGTCT-GGGACATGGCATCAGCTTG-TTG-TG--TGTT
1 AGTGTAAGACCTGTCTAGGGACATGGCATCAGCCTGATAGATGAAAGCC
*
34095331 AATGTAAGACCTGTCTAGGG-CATGGCATCGACGCC-GATAGAT-AAGAGCC
1 AGTGTAAGACCTGTCTAGGGACATGGCATC-A-GCCTGATAGATGAA-AGCC
* *
34095380 AGTGTAAGACCTGTCT-GGGACATGGCATCAGCCTTGATATATGAAAGTC
1 AGTGTAAGACCTGTCTAGGGACATGGCATCAGCC-TGATAGATGAAAGCC
* * **
34095429 AGTGTAAGACCTGTC-AGGGACATGGCATCAACTTTGAT-G-TGCTAGCC
1 AGTGTAAGACCTGTCTAGGGACATGGCATCAGC-CTGATAGATGAAAGCC
34095476 AGTGTAAGACCATGTCT-GGGACATGGC
1 AGTGTAAGACC-TGTCTAGGGACATGGC
34095503 GTCGGCATCT
Statistics
Matches: 141, Mismatches: 15, Indels: 28
0.77 0.08 0.15
Matches are distributed among these distances:
44 24 0.17
45 5 0.04
46 4 0.03
47 20 0.14
48 18 0.13
49 68 0.48
50 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTAGGGACATGGCATCAGCCTGATAGATGAAAGCC
Found at i:34102286 original size:46 final size:46
Alignment explanation
Indices: 34102219--34102393 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
34102209 TGTAACCCGC
* *
34102219 CCATAAGTGAAATCAGACTCAACTCAACGAGCTCGGGCATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
34102265 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G-GG-C-A-TTCACAT
* * * * * * * *
34102315 -C-TTA-CGAACTTGGACTCAACTCAATGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
*
34102358 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
34102394 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 3 0.03
46 57 0.54
47 24 0.23
48 4 0.04
49 2 0.02
50 5 0.05
51 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
Found at i:34103678 original size:6 final size:6
Alignment explanation
Indices: 34103660--34103735 Score: 59
Period size: 6 Copynumber: 12.3 Consensus size: 6
34103650 AAGAAACACT
* *
34103660 ATCAGA A-CTAGA ATCAGA ATCAGA ATCA-A GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
*
34103709 ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
34103736 ATGAATGCAA
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
5 5 0.09
6 42 0.75
7 6 0.11
8 3 0.05
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:34103701 original size:25 final size:25
Alignment explanation
Indices: 34103669--34103735 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
34103659 TATCAGAACT
*
34103669 AGAATCAGAATCAGAATCAAGTGAC
1 AGAATCAGAATCAGAATCAAGTAAC
* *
34103694 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAAGTAAC
*
34103719 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
34103736 ATGAATGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAAGTAAC
Found at i:34104505 original size:27 final size:27
Alignment explanation
Indices: 34104258--34104502 Score: 303
Period size: 27 Copynumber: 9.1 Consensus size: 27
34104248 GTAATTTTAT
* *
34104258 GGGTAAAACGGTAATTCTATAAATTGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
** *
34104285 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
** * *
34104312 GGGTAAAATAGTACTTTTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* * *
34104339 GGGTAAAACAGTAATTCTATCAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* *
34104366 GGGTAAAACGGTAATTTTGTAAATCAA
1 GGGTAAAACGGTAATTCTGTAAATCGA
** *
34104393 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
*
34104420 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
34104447 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTGTAAATCGA
* *
34104474 GGGTAAAATGGTAATTCTATAAATC-A
1 GGGTAAAACGGTAATTCTGTAAATCGA
34104500 GGG
1 GGG
34104503 GTACTTTGGT
Statistics
Matches: 192, Mismatches: 26, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
26 4 0.02
27 188 0.98
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GGGTAAAACGGTAATTCTGTAAATCGA
Found at i:34104512 original size:27 final size:27
Alignment explanation
Indices: 34104482--34104760 Score: 251
Period size: 27 Copynumber: 10.3 Consensus size: 27
34104472 GAGGGTAAAA
* * *
34104482 TGGTAATTCTATAAATCAGGGGTACTT
1 TGGTAATTTTACAAATCAGGGGTATTT
* *
34104509 TGGTAATTTTACAAGTCAAGGGTATTT
1 TGGTAATTTTACAAATCAGGGGTATTT
*** * **
34104536 CAATAATTTTATAGGTC-GAGGGTATTT
1 TGGTAATTTTACAAATCAG-GGGTATTT
** * *
34104563 CAGTAATTTCACAAATTAGGGGTATTT
1 TGGTAATTTTACAAATCAGGGGTATTT
34104590 TGGTAATTTTACAAA-CTAGGGGTATTT
1 TGGTAATTTTACAAATC-AGGGGTATTT
* *
34104617 TGATAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAAATCAGGGGTATTT
*
34104644 TGGTAATTTTACAAA-CAATGGGTATTT
1 TGGTAATTTTACAAATC-AGGGGTATTT
* *
34104671 TGGTAATTTTATAAA-CAAAGGGTATTT
1 TGGTAATTTTACAAATC-AGGGGTATTT
* *
34104698 TAGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAAATCAGGGGTATTT
* ** * *
34104725 TGGTGATTTTGTAAACCAAGGGTATTT
1 TGGTAATTTTACAAATCAGGGGTATTT
34104752 TGGTAATTT
1 TGGTAATTT
34104761 GGTAAATTAA
Statistics
Matches: 211, Mismatches: 35, Indels: 12
0.82 0.14 0.05
Matches are distributed among these distances:
26 1 0.00
27 207 0.98
28 3 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
TGGTAATTTTACAAATCAGGGGTATTT
Found at i:34104516 original size:81 final size:81
Alignment explanation
Indices: 34104258--34104502 Score: 384
Period size: 81 Copynumber: 3.0 Consensus size: 81
34104248 GTAATTTTAT
* **
34104258 GGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATAG
1 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAG
*
34104323 TACTTTTGTAAATCGA
66 TAATTTTGTAAATCGA
* * *
34104339 GGGTAAAACAGTAATTCTATCAATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAATAG
1 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAG
34104404 TAATTTTGTAAATCGA
66 TAATTTTGTAAATCGA
* *
34104420 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGG
1 GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAG
* *
34104485 TAATTCTATAAATC-A
66 TAATTTTGTAAATCGA
34104500 GGG
1 GGG
34104503 GTACTTTGGT
Statistics
Matches: 150, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
80 4 0.03
81 146 0.97
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAG
TAATTTTGTAAATCGA
Found at i:34104532 original size:54 final size:52
Alignment explanation
Indices: 34104236--34104519 Score: 242
Period size: 54 Copynumber: 5.4 Consensus size: 52
34104226 TTAACACCCT
34104236 AGGGGTAAAATGGTAATTTT--AT---GGGTAAAACGGTAATTCTATAAAT-
1 AGGGGTAAAATGGTAATTTTAAATCGAGGGTAAAACGGTAATTCTATAAATC
* * ** * * *
34104282 TGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATAGTACTTTTGTAAATC
1 AG-GGGTAAAATGGTAA-TTT-TAAATCGAGGGTAAAACGGTAATTCTATAAATC
** * * *
34104337 -GAGGGTAAAACAGTAATTCTATCAATCGAGGGTAAAACGGTAATTTTGTAAATC
1 AG-GGGTAAAATGGTAATT-T-TAAATCGAGGGTAAAACGGTAATTCTATAAATC
* *
34104391 AAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATC
1 AGGGGTAAAATGGTAA-TTT-TAAATCGAGGGTAAAACGGTAATTCTATAAATC
* *
34104445 -GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATC
1 AG-GGGTAAAATGGTAATT-T-TAAATCGAGGGTAAAACGGTAATTCTATAAATC
***
34104499 AGGGGTACTTTGGTAATTTTA
1 AGGGGTAAAATGGTAATTTTA
34104520 CAAGTCAAGG
Statistics
Matches: 196, Mismatches: 27, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
46 1 0.01
47 13 0.07
48 3 0.02
49 1 0.01
51 2 0.01
52 2 0.01
53 5 0.03
54 166 0.85
55 3 0.02
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.31
Consensus pattern (52 bp):
AGGGGTAAAATGGTAATTTTAAATCGAGGGTAAAACGGTAATTCTATAAATC
Found at i:34106728 original size:6 final size:6
Alignment explanation
Indices: 34106710--34106785 Score: 59
Period size: 6 Copynumber: 12.3 Consensus size: 6
34106700 AAGAAACACT
* *
34106710 ATCAGA A-CTAGA ATCAGA ATCAGA ATCA-A GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
*
34106759 ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
34106786 ATGAATGCAA
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
5 5 0.09
6 42 0.75
7 6 0.11
8 3 0.05
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:34106751 original size:25 final size:25
Alignment explanation
Indices: 34106719--34106785 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
34106709 TATCAGAACT
*
34106719 AGAATCAGAATCAGAATCAAGTGAC
1 AGAATCAGAATCAGAATCAAGTAAC
* *
34106744 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAAGTAAC
*
34106769 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
34106786 ATGAATGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAAGTAAC
Found at i:34106951 original size:27 final size:26
Alignment explanation
Indices: 34106903--34106962 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
34106893 GCGAGGCTGC
*
34106903 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
34106930 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
34106956 CAGATAT
1 CAGATAT
34106963 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:34107319 original size:27 final size:27
Alignment explanation
Indices: 34107289--34107586 Score: 375
Period size: 27 Copynumber: 11.1 Consensus size: 27
34107279 AACACCCTAG
* *
34107289 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* *
34107316 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
*
34107343 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
*
34107370 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* * *
34107397 GGGTAAAACAGTAATTCTGTCAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
*
34107424 GGGTAAAACGGTAATTTTGTAAATCAA
1 GGGTAAAACGGTAATTTTGTAAATCGA
*
34107451 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* **
34107478 GGGTAAAACGGTAATTCTGTAAATATA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* *** * *
34107505 AGGTAAAATAATAATTCTATAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
*
34107532 GGGTAAAACGATAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* *
34107559 GGGT-AAACGGTAATTCTATAAATC-A
1 GGGTAAAACGGTAATTTTGTAAATCGA
34107584 GGG
1 GGG
34107587 GTACTTTGGT
Statistics
Matches: 239, Mismatches: 32, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
25 4 0.02
26 17 0.07
27 218 0.91
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GGGTAAAACGGTAATTTTGTAAATCGA
Found at i:34107401 original size:81 final size:81
Alignment explanation
Indices: 34107289--34107586 Score: 422
Period size: 81 Copynumber: 3.7 Consensus size: 81
34107279 AACACCCTAG
** *
34107289 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG
34107354 TAATTTTGTAAATCGA
66 TAATTTTGTAAATCGA
* * * *
34107370 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTCAATCGAGGGTAAAACGG
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG
*
34107435 TAATTTTGTAAATCAA
66 TAATTTTGTAAATCGA
* ** * * *
34107451 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATATAAGGTAAAATAA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG
* *
34107516 TAATTCTATAAATCGA
66 TAATTTTGTAAATCGA
34107532 GGGTAAAAC-GATAATTTTGTAAATCGAGGGT-AAACGGTAATTCTATAAATC-AGGG
1 GGGTAAAACAG-TAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGG
34107587 GTACTTTGGT
Statistics
Matches: 194, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
79 3 0.02
80 19 0.10
81 172 0.89
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (81 bp):
GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG
TAATTTTGTAAATCGA
Found at i:34107851 original size:27 final size:27
Alignment explanation
Indices: 34107567--34107844 Score: 268
Period size: 27 Copynumber: 10.3 Consensus size: 27
34107557 GAGGGTAAAC
* * * * *
34107567 GGTAATTCTATAAATCAGGGGTACTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
** * *
34107594 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAACCAAGGGTATTTT
** *** * *
34107621 AATAATTTTACAGGTCGAGGGTATTTC
1 GGTAATTTTACAAACCAAGGGTATTTT
* * * *
34107648 AGTAATTTCACAAATCAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* *
34107675 GGTAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* *
34107702 GATAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
*
34107729 GGTAATTTTACAAACCAAGTGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* **
34107756 GGTAATTTTATAAATAAAGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
* *
34107783 AGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
**
34107810 GGTAATTTTGTAAACCAAGGGTATTTT
1 GGTAATTTTACAAACCAAGGGTATTTT
34107837 GGTAATTT
1 GGTAATTT
34107845 GGTAAACTAA
Statistics
Matches: 212, Mismatches: 39, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 212 1.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGTAATTTTACAAACCAAGGGTATTTT
Found at i:34110506 original size:15 final size:15
Alignment explanation
Indices: 34110468--34110525 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
34110458 AAGAAAACCG
*
34110468 AATAAAAAAATTCAA
1 AATAAAAAAATCCAA
* * *
34110483 GATAGAAAAACCCAA
1 AATAAAAAAATCCAA
*
34110498 AAT-AAAAAATCCAG
1 AATAAAAAAATCCAA
*
34110512 AATAAAAAGATCCA
1 AATAAAAAAATCCA
34110526 GGATAAAGAA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
14 11 0.33
15 22 0.67
ACGTcount: A:0.66, C:0.14, G:0.07, T:0.14
Consensus pattern (15 bp):
AATAAAAAAATCCAA
Found at i:34110526 original size:15 final size:14
Alignment explanation
Indices: 34110488--34110532 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
34110478 TTCAAGATAG
* *
34110488 AAAAACCCAAAATA
1 AAAAATCCAGAATA
34110502 AAAAATCCAGAATA
1 AAAAATCCAGAATA
*
34110516 AAAAGATCCAGGATA
1 AAAA-ATCCAGAATA
34110531 AA
1 AA
34110533 GAAACCCAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.64, C:0.16, G:0.09, T:0.11
Consensus pattern (14 bp):
AAAAATCCAGAATA
Found at i:34110545 original size:15 final size:14
Alignment explanation
Indices: 34110480--34110545 Score: 53
Period size: 15 Copynumber: 4.5 Consensus size: 14
34110470 TAAAAAAATT
34110480 CAAGATAGAAAAACC
1 CAAGATA-AAAAACC
* *
34110495 CAAAATAAAAAATC
1 CAAGATAAAAAACC
*
34110509 C-AGAATAAAAAGATC
1 CAAG-ATAAAAA-ACC
*
34110524 CAGGATAAAGAAACC
1 CAAGATAAA-AAACC
34110539 CAAGATA
1 CAAGATA
34110546 CGATACTATG
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
13 1 0.02
14 14 0.34
15 23 0.56
16 3 0.07
ACGTcount: A:0.61, C:0.17, G:0.12, T:0.11
Consensus pattern (14 bp):
CAAGATAAAAAACC
Found at i:34113547 original size:46 final size:46
Alignment explanation
Indices: 34113489--34114343 Score: 1615
Period size: 46 Copynumber: 18.6 Consensus size: 46
34113479 CCCATAAGCA
34113489 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
1 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
* * * * ***
34113535 AACTCAGACTCAACTCAACGAGCTC-GG-ATGCCTAGTTACATCTCAC
1 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTA--TCCATATGTG
34113581 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
1 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
34113627 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
1 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
34113673 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
1 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
34113719 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
1 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
34113765 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
1 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
34113811 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
1 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
34113857 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
1 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
34113903 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
1 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
34113949 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
1 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
34113995 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
1 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
34114041 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
1 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
34114087 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
1 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
34114133 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
1 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
34114179 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
1 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
34114225 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
1 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
34114271 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
1 AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
34114317 AACTCAGACTCAACTCAACGAGCTCGG
1 AACTCAGACTCAACTCAACGAGCTCGG
34114344 ATGCCTAGTT
Statistics
Matches: 791, Mismatches: 14, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
44 5 0.01
45 2 0.00
46 777 0.98
47 2 0.00
48 5 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (46 bp):
AACTCAGACTCAACTCAACGAGCTCGGGCATTCGTATCCATATGTG
Found at i:34119204 original size:48 final size:47
Alignment explanation
Indices: 34119134--34119230 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 47
34119124 ATCATAAGAG
34119134 GGAAAAGGTGAAACTCCCTGTTAGAAGGATGCGGAGCTTGATTCTGA
1 GGAAAAGGTGAAACTCCCTGTTAGAAGGATGCGGAGCTTGATTCTGA
34119181 GGAAAGAGGTGAAACTCCCTGTTAGAAGGATGCGGAGCTTGATTCTGA
1 GGAAA-AGGTGAAACTCCCTGTTAGAAGGATGCGGAGCTTGATTCTGA
34119229 GG
1 GG
34119231 CTGGAGTGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 5 0.10
48 44 0.90
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (47 bp):
GGAAAAGGTGAAACTCCCTGTTAGAAGGATGCGGAGCTTGATTCTGA
Found at i:34119549 original size:4 final size:5
Alignment explanation
Indices: 34119505--34119585 Score: 58
Period size: 6 Copynumber: 15.0 Consensus size: 5
34119495 AAGAAAATTG
*
34119505 AAATGA AAATAA AAATCA AAAGAA AAATA AGAATA AAAT- AAATA AAATA
1 AAAT-A AAAT-A AAAT-A AAA-TA AAATA A-AATA AAATA AAATA AAATA
*
34119554 AAATAA AAACA AGAAT- AAATAA AAATA AAATA
1 AAAT-A AAATA A-AATA AAAT-A AAATA AAATA
34119586 GGAGGATTCA
Statistics
Matches: 62, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
4 7 0.11
5 23 0.37
6 32 0.52
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (5 bp):
AAATA
Found at i:34127090 original size:44 final size:46
Alignment explanation
Indices: 34127035--34127201 Score: 178
Period size: 49 Copynumber: 3.6 Consensus size: 46
34127025 TATACAAGCT
*
34127035 AGTGTAAGACCTGTCTGGGACATAGCATCAG-CTTGTTGTG-TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGACTTGTTGTGATGTC
* * * *
34127079 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGACTTG-T-TGTG-ATGTC
* * * *
34127128 AGTGTAAGCCCTGTCTGGGACATGGCATC-GACTTTGATGTGCTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAGAC-TTGTTGTGAT-GTC
34127175 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
34127202 GTCGGCATCT
Statistics
Matches: 102, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
44 30 0.29
45 3 0.03
46 1 0.01
47 18 0.18
48 17 0.17
49 33 0.32
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (46 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCAGACTTGTTGTGATGTC
Found at i:34127141 original size:93 final size:97
Alignment explanation
Indices: 34126997--34127201 Score: 264
Period size: 93 Copynumber: 2.2 Consensus size: 97
34126987 AGTGTAGGAA
*
34126997 ATGTCTGGGACAT-GCATCGGCCTCAAGATATACAAGCTAGTGTAAGACCTGTCTGGGACATAGC
1 ATGTCTGGGACATGGCATCAGCCTCAAGATATACAAGCTAGTGTAAGACCTGTCTGGGACATAGC
* *
34127061 ATC-AGC-TTGTTGTG-T-GTCAGTGTAAGACC
66 ATCGA-CTTTGATGTGCTAGCCAGTGTAAGACC
* * * *
34127090 -TGTCTGGGACATGGCATCAGCCTCGATATATGA-AAG-TCAGTGTAAGCCCTGTCTGGGACATG
1 ATGTCTGGGACATGGCATCAGCCTCAAGATAT-ACAAGCT-AGTGTAAGACCTGTCTGGGACATA
34127152 GCATCGACTTTGATGTGCTAGCCAGTGTAAGACC
64 GCATCGACTTTGATGTGCTAGCCAGTGTAAGACC
34127186 ATGTCTGGGACATGGC
1 ATGTCTGGGACATGGC
34127202 GTCGGCATCT
Statistics
Matches: 97, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
92 13 0.13
93 46 0.47
94 9 0.09
95 1 0.01
96 13 0.13
97 15 0.15
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (97 bp):
ATGTCTGGGACATGGCATCAGCCTCAAGATATACAAGCTAGTGTAAGACCTGTCTGGGACATAGC
ATCGACTTTGATGTGCTAGCCAGTGTAAGACC
Found at i:34127145 original size:49 final size:49
Alignment explanation
Indices: 34126998--34127156 Score: 172
Period size: 49 Copynumber: 3.4 Consensus size: 49
34126988 GTGTAGGAAA
* * *
34126998 TGTCTGGGACAT-GCATCGGCCTCAAGATAT-ACAAG-CTAGTGTAAGACC
1 TGTCTGGGACATGGCATCAGCCTCGATATATGA-AAGTC-AGTGTAAGACC
* * * *
34127046 TGTCTGGGACATAGCATCAG-CTTG-T-TGTG--TGTCAGTGTAAGACC
1 TGTCTGGGACATGGCATCAGCCTCGATATATGAAAGTCAGTGTAAGACC
*
34127090 TGTCTGGGACATGGCATCAGCCTCGATATATGAAAGTCAGTGTAAGCCC
1 TGTCTGGGACATGGCATCAGCCTCGATATATGAAAGTCAGTGTAAGACC
34127139 TGTCTGGGACATGGCATC
1 TGTCTGGGACATGGCATC
34127157 GACTTTGATG
Statistics
Matches: 92, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
44 31 0.34
45 4 0.04
46 3 0.03
47 3 0.03
48 14 0.15
49 37 0.40
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (49 bp):
TGTCTGGGACATGGCATCAGCCTCGATATATGAAAGTCAGTGTAAGACC
Found at i:34131640 original size:21 final size:21
Alignment explanation
Indices: 34131605--34131645 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
34131595 TAATTGCAGA
** *
34131605 AGAAGAAAGGGAGAAGAAAAG
1 AGAAGAAAGAAAGAAAAAAAG
34131626 AGAAGAAAGAAAGAAAAAAA
1 AGAAGAAAGAAAGAAAAAAA
34131646 ATCAGTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (21 bp):
AGAAGAAAGAAAGAAAAAAAG
Found at i:34131677 original size:50 final size:51
Alignment explanation
Indices: 34131619--34131728 Score: 172
Period size: 50 Copynumber: 2.2 Consensus size: 51
34131609 GAAAGGGAGA
34131619 AGAA-AAGAGAAGAAAGAA-AGAAAAAAAATCAGTAAAAAAAGAAGATTAC
1 AGAAGAAGAGAAGAAAGAAGAGAAAAAAAATCAGTAAAAAAAGAAGATTAC
** *
34131668 AGAAGAAGAG-AGGGAGAAGAGAAAAAAATTCAGTAAAAAAAGAAGATTAC
1 AGAAGAAGAGAAGAAAGAAGAGAAAAAAAATCAGTAAAAAAAGAAGATTAC
34131718 AGAAGAAGAGA
1 AGAAGAAGAGA
34131729 GGGAGAAGAG
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
49 10 0.18
50 45 0.82
ACGTcount: A:0.65, C:0.04, G:0.24, T:0.08
Consensus pattern (51 bp):
AGAAGAAGAGAAGAAAGAAGAGAAAAAAAATCAGTAAAAAAAGAAGATTAC
Found at i:34131729 original size:50 final size:50
Alignment explanation
Indices: 34131633--34131740 Score: 200
Period size: 50 Copynumber: 2.2 Consensus size: 50
34131623 AAGAGAAGAA
34131633 AGAA-AGAAAAAAAATCAGTAAAAAAAGAAGATTACAGAAGAAGAGAGGG
1 AGAAGAGAAAAAAAATCAGTAAAAAAAGAAGATTACAGAAGAAGAGAGGG
*
34131682 AGAAGAGAAAAAAATTCAGTAAAAAAAGAAGATTACAGAAGAAGAGAGGG
1 AGAAGAGAAAAAAAATCAGTAAAAAAAGAAGATTACAGAAGAAGAGAGGG
34131732 AGAAGAGAA
1 AGAAGAGAA
34131741 GAAATAAAAT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
49 4 0.07
50 53 0.93
ACGTcount: A:0.62, C:0.04, G:0.26, T:0.08
Consensus pattern (50 bp):
AGAAGAGAAAAAAAATCAGTAAAAAAAGAAGATTACAGAAGAAGAGAGGG
Found at i:34139489 original size:24 final size:23
Alignment explanation
Indices: 34139455--34139499 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
34139445 GTGACATGGT
* *
34139455 TTTTTTTAATATTAATTTTTAATA
1 TTTTTTAAATAAT-ATTTTTAATA
34139479 TTTTTTAAATAATATTTTTAA
1 TTTTTTAAATAATATTTTTAA
34139500 AATATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTTTAAATAATATTTTTAATA
Found at i:34139509 original size:16 final size:14
Alignment explanation
Indices: 34139474--34139503 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34139464 TATTAATTTT
*
34139474 TAATATTTTTTAAA
1 TAATATTTTTAAAA
34139488 TAATATTTTTAAAA
1 TAATATTTTTAAAA
34139502 TA
1 TA
34139504 TAATATCAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAATATTTTTAAAA
Found at i:34151509 original size:46 final size:46
Alignment explanation
Indices: 34151457--34151771 Score: 488
Period size: 46 Copynumber: 6.8 Consensus size: 46
34151447 GCTCTCTGAA
* *
34151457 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
34151503 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
34151549 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
*
34151595 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGGC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
** *
34151641 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
*** *
34151687 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* * * *
34151733 A-GAAAGTGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATGAAA-TGTGTAAGACCATGGTTGAAAGATACCATGGCA
34151772 TTATGTCGAA
Statistics
Matches: 253, Mismatches: 15, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 249 0.98
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
Found at i:34151917 original size:26 final size:26
Alignment explanation
Indices: 34151860--34151954 Score: 70
Period size: 26 Copynumber: 3.6 Consensus size: 26
34151850 TCAAATGATG
* *
34151860 AATGGTTTTATGAATTGGTTATACAA
1 AATGGTTGTATGAAATGGTTATACAA
34151886 AATGGTTGTATGAAAT-GTT-TACAA
1 AATGGTTGTATGAAATGGTTATACAA
** * *
34151910 GAATTGGTCATATGGAAAT-ATATGTACAA
1 -AA-TGGTTGTAT-GAAATGGT-TATACAA
*
34151939 AATAGTTGTATGAAAT
1 AATGGTTGTATGAAAT
34151955 AATTAAGAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
24 5 0.09
25 5 0.09
26 26 0.46
27 12 0.21
28 3 0.05
29 5 0.09
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (26 bp):
AATGGTTGTATGAAATGGTTATACAA
Found at i:34154823 original size:12 final size:12
Alignment explanation
Indices: 34154801--34154829 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34154791 AATTGATCAC
34154801 ATATA-TTAAAA
1 ATATATTTAAAA
34154812 ATATATTTAAAA
1 ATATATTTAAAA
34154824 ATATAT
1 ATATAT
34154830 ATTTTGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATTTAAAA
Found at i:34156836 original size:43 final size:43
Alignment explanation
Indices: 34156775--34156861 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
34156765 CAGATTGCAC
34156775 AGAAATTTTACAAATGGACTATTTGCGTCTTAAAAACTACCGT
1 AGAAATTTTACAAATGGACTATTTGCGTCTTAAAAACTACCGT
34156818 AGAAATTTTACAAATGGACTATTTGCGTCTTAAAAACTACCGT
1 AGAAATTTTACAAATGGACTATTTGCGTCTTAAAAACTACCGT
34156861 A
1 A
34156862 CATCTTTCCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (43 bp):
AGAAATTTTACAAATGGACTATTTGCGTCTTAAAAACTACCGT
Found at i:34159577 original size:14 final size:15
Alignment explanation
Indices: 34159541--34159574 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
34159531 TTATTATTGA
*
34159541 ATTTTGAAAATTTTC
1 ATTTTGAAAAATTTC
34159556 ATTTTGAAAAATTTC
1 ATTTTGAAAAATTTC
34159571 ATTT
1 ATTT
34159575 GAAGAGCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (15 bp):
ATTTTGAAAAATTTC
Found at i:34160686 original size:23 final size:23
Alignment explanation
Indices: 34160660--34160710 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
34160650 CACACATATA
34160660 TCACTTTGTATCATATTACTTAT
1 TCACTTTGTATCATATTACTTAT
34160683 TCACTTTGTATCATATTACTTAT
1 TCACTTTGTATCATATTACTTAT
34160706 TCACT
1 TCACT
34160711 ACATTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.25, C:0.20, G:0.04, T:0.51
Consensus pattern (23 bp):
TCACTTTGTATCATATTACTTAT
Found at i:34160743 original size:17 final size:17
Alignment explanation
Indices: 34160716--34160748 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
34160706 TCACTACATT
34160716 TTTATTTCACATATTCAC
1 TTTATTTCACA-ATTCAC
34160734 TTTA-TTCACAATTCA
1 TTTATTTCACAATTCA
34160749 TAAAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTATTTCACAATTCAC
Found at i:34161954 original size:10 final size:10
Alignment explanation
Indices: 34161927--34161964 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
34161917 TTAAATTCTA
34161927 AAAGATAAAT
1 AAAGATAAAT
34161937 ACAA-ATAAAT
1 A-AAGATAAAT
*
34161947 AAAGATAATT
1 AAAGATAAAT
34161957 AAAGATAA
1 AAAGATAA
34161965 CAACTAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:34164572 original size:18 final size:18
Alignment explanation
Indices: 34164551--34164585 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
34164541 AGCAGATTAG
34164551 CCCTTCTCAGCAACCAAA
1 CCCTTCTCAGCAACCAAA
34164569 CCCTTCTCAGCAACCAA
1 CCCTTCTCAGCAACCAA
34164586 CTTTCAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.46, G:0.06, T:0.17
Consensus pattern (18 bp):
CCCTTCTCAGCAACCAAA
Found at i:34167130 original size:23 final size:23
Alignment explanation
Indices: 34167103--34167176 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
34167093 TGGTAGGAGC
*
34167103 TTATTGGCACTTTGGTGCGATTG
1 TTATTGGCACTTTAGTGCGATTG
*
34167126 TTATTGACACTTTAGTGCGATTG
1 TTATTGGCACTTTAGTGCGATTG
* *
34167149 TTATTGGCACTTCAATGCGATTG
1 TTATTGGCACTTTAGTGCGATTG
34167172 TTATT
1 TTATT
34167177 ATGGAGTGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.19, C:0.14, G:0.23, T:0.45
Consensus pattern (23 bp):
TTATTGGCACTTTAGTGCGATTG
Found at i:34167285 original size:27 final size:27
Alignment explanation
Indices: 34167250--34167304 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
34167240 GTCTGAAGTT
*
34167250 TAAATTTGTGTATTTGTATTGAGTTAA
1 TAAACTTGTGTATTTGTATTGAGTTAA
34167277 TAAACTTGTGTATTTGTATTGAGTTAA
1 TAAACTTGTGTATTTGTATTGAGTTAA
34167304 T
1 T
34167305 GCCTAGTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.02, G:0.18, T:0.51
Consensus pattern (27 bp):
TAAACTTGTGTATTTGTATTGAGTTAA
Found at i:34171207 original size:81 final size:82
Alignment explanation
Indices: 34171112--34171359 Score: 268
Period size: 81 Copynumber: 3.1 Consensus size: 82
34171102 CACCCCTGCC
* * * * * * *
34171112 TTTGGCACTCCTTCTTCCACCCCTGCCTTTGGCACTCCTTCTTCCACCCCGGCCTTTGGAACTCC
1 TTTGGCACTACTTCTTCCACACCTGCATTTGGCACTCCGTCTTCGACACCGGCATTTGGAACTCC
* *
34171177 -TCCTTCAACTCCGGCT
66 ATCCTTCGACACCGGCT
** * * *
34171193 TTTGGGGCTACTTCTTCCACACCGGCATTTGGCACTCCGTCTTCGACACCGGCGTTTGGCACTCC
1 TTTGGCACTACTTCTTCCACACCTGCATTTGGCACTCCGTCTTCGACACCGGCATTTGGAACTCC
*
34171258 AT-CTTCGACACCGGCG
66 ATCCTTCGACACCGGCT
* * * * * **
34171274 TTTGGCACTCCGTCTTCGACACCTTCGTTTGGGGCTCCGTCTTCGACACCGGCATTTGGAACTCC
1 TTTGGCACTACTTCTTCCACACCTGCATTTGGCACTCCGTCTTCGACACCGGCATTTGGAACTCC
*
34171339 GTCC-TCGACACCGGCT
66 ATCCTTCGACACCGGCT
34171355 TTTGG
1 TTTGG
34171360 AACTCCATCA
Statistics
Matches: 137, Mismatches: 28, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
81 135 0.99
82 2 0.01
ACGTcount: A:0.12, C:0.38, G:0.21, T:0.30
Consensus pattern (82 bp):
TTTGGCACTACTTCTTCCACACCTGCATTTGGCACTCCGTCTTCGACACCGGCATTTGGAACTCC
ATCCTTCGACACCGGCT
Found at i:34171291 original size:27 final size:27
Alignment explanation
Indices: 34171082--34171365 Score: 237
Period size: 27 Copynumber: 10.5 Consensus size: 27
34171072 TTCCACTTCT
* * * * *
34171082 GCCTTCGGCACTCCTTCTTCCACCCCT
1 GCCTTTGGCACTCCGTCTTCGACACCG
* * * *
34171109 GCCTTTGGCACTCCTTCTTCCACCCCT
1 GCCTTTGGCACTCCGTCTTCGACACCG
* * *
34171136 GCCTTTGGCACTCCTTCTTCCACCCCG
1 GCCTTTGGCACTCCGTCTTCGACACCG
* * *
34171163 GCCTTTGGAACTCC-TCCTTCAACTCCG
1 GCCTTTGGCACTCCGT-CTTCGACACCG
* ** * * *
34171190 GCTTTTGGGGCTACTTCTTCCACACCG
1 GCCTTTGGCACTCCGTCTTCGACACCG
*
34171217 GCATTTGGCACTCCGTCTTCGACACCG
1 GCCTTTGGCACTCCGTCTTCGACACCG
* *
34171244 GCGTTTGGCACTCCATCTTCGACACCG
1 GCCTTTGGCACTCCGTCTTCGACACCG
* *
34171271 GCGTTTGGCACTCCGTCTTCGACACCT
1 GCCTTTGGCACTCCGTCTTCGACACCG
* * **
34171298 TCGTTTGGGGCTCCGTCTTCGACACCG
1 GCCTTTGGCACTCCGTCTTCGACACCG
* * *
34171325 GCATTTGGAACTCCGTCCTCGACACCG
1 GCCTTTGGCACTCCGTCTTCGACACCG
* *
34171352 GCTTTTGGAACTCC
1 GCCTTTGGCACTCC
34171366 ATCAACGCCG
Statistics
Matches: 224, Mismatches: 31, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.00
27 222 0.99
28 1 0.00
ACGTcount: A:0.12, C:0.40, G:0.19, T:0.29
Consensus pattern (27 bp):
GCCTTTGGCACTCCGTCTTCGACACCG
Found at i:34178595 original size:146 final size:148
Alignment explanation
Indices: 34178367--34178687 Score: 476
Period size: 146 Copynumber: 2.2 Consensus size: 148
34178357 AGTTTTGATT
34178367 TTTTTTTTAAAAAGAGAAAGTTTAGATTTTTAAAAATAGAAATATATTTTTTAGTCATTTTAAAG
1 TTTTTTTTAAAAAGAGAAAGTTTAGATTTTTAAAAATAGAAATATATTTTTTAGTCATTTTAAAG
* * *
34178432 GAAAAGTTTAAATTTTTAAAACAAAACTTTGATATTTTCCAACTATTTCGAAATAAAGTTTTGAT
66 GAAAAGTTTAAAATTTTAAAACAAAACTTTGATATTTTCCAACTATTTCGAAATAAAATTTTAAT
34178497 TTTTAAGAAAAA-TAATAA
131 TTTTAA-AAAAAGTAATAA
*
34178515 TTTTTTTTAGAAAA-AGAGAGTTTAGATTTTTAAAAATA-AAA-ATATTTTTTAGTCATTTTAAA
1 TTTTTTTTA-AAAAGAGAAAGTTTAGATTTTTAAAAATAGAAATATATTTTTTAGTCATTTTAAA
** * *
34178577 GGAAAAGTTTAAAATTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAATTTTAA
65 GGAAAAGTTTAAAATTTTAAAACAAAACTTTGATATTTTCCAACTATTTCGAAATAAAATTTTAA
* *
34178642 TTTTTAAAAAAAGTAGTGA
130 TTTTTAAAAAAAGTAATAA
*
34178661 -TTTTTTTAAAAAGA-AAACTTT-GATTTT
1 TTTTTTTTAAAAAGAGAAAGTTTAGATTTT
34178688 GCAAAAAAAA
Statistics
Matches: 158, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
143 6 0.04
144 9 0.06
145 14 0.09
146 90 0.57
147 3 0.02
148 32 0.20
149 4 0.03
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (148 bp):
TTTTTTTTAAAAAGAGAAAGTTTAGATTTTTAAAAATAGAAATATATTTTTTAGTCATTTTAAAG
GAAAAGTTTAAAATTTTAAAACAAAACTTTGATATTTTCCAACTATTTCGAAATAAAATTTTAAT
TTTTAAAAAAAGTAATAA
Found at i:34182162 original size:20 final size:21
Alignment explanation
Indices: 34182137--34182182 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
34182127 AAAAATATAA
34182137 ATTTTGGAATTTTT-ATAAA-T
1 ATTTTGGAATTTTTGA-AAATT
34182157 ATTTT-GAATTTTTGAAAATT
1 ATTTTGGAATTTTTGAAAATT
34182177 ATTTTG
1 ATTTTG
34182183 ATTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.57
Consensus pattern (21 bp):
ATTTTGGAATTTTTGAAAATT
Found at i:34182183 original size:20 final size:19
Alignment explanation
Indices: 34182132--34182188 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
34182122 TTTTAAAAAA
*
34182132 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAATTTT
34182150 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
34182169 TGA-AAATTATTTTG-ATTTT
1 T-ATAAA-TATTTTGAATTTT
34182188 T
1 T
34182189 TTTTTGTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 7 0.20
19 20 0.57
20 8 0.23
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:34183982 original size:60 final size:60
Alignment explanation
Indices: 34183900--34184034 Score: 168
Period size: 60 Copynumber: 2.2 Consensus size: 60
34183890 GTGTTAACTG
*
34183900 GGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCT-TTAC-AGTATC-AGAGTATATTA
1 GGCC-TAGCCCATATCAATATTAATCTAGGCCATAGCCCTATTACAAG--TCGAGA-TATATTA
* * *
34183961 GGCCTAGCCCATATCAGTATTAATCTAGGCCGTAGCCCTATTACAAGTCGAGATATATTG
1 GGCCTAGCCCATATCAATATTAATCTAGGCCATAGCCCTATTACAAGTCGAGATATATTA
*
34184021 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
34184035 TAACACAGTT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
60 53 0.80
61 11 0.17
62 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (60 bp):
GGCCTAGCCCATATCAATATTAATCTAGGCCATAGCCCTATTACAAGTCGAGATATATTA
Found at i:34184695 original size:8 final size:8
Alignment explanation
Indices: 34184682--34184706 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
34184672 TTCACAAATG
34184682 TCGGCTTT
1 TCGGCTTT
34184690 TCGGCTTT
1 TCGGCTTT
34184698 TCGGCTTT
1 TCGGCTTT
34184706 T
1 T
34184707 GCCGATCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.24, G:0.24, T:0.52
Consensus pattern (8 bp):
TCGGCTTT
Found at i:34186342 original size:27 final size:27
Alignment explanation
Indices: 34186312--34186365 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
34186302 ATTACTAGAC
*
34186312 TAAACATA-CTAAATAATAATAATTTCA
1 TAAACATATCT-AATAATAAAAATTTCA
34186339 TAAACATATCTAATAATAAAAATTTCA
1 TAAACATATCTAATAATAAAAATTTCA
34186366 AATACCAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.92
28 2 0.08
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (27 bp):
TAAACATATCTAATAATAAAAATTTCA
Found at i:34186734 original size:13 final size:13
Alignment explanation
Indices: 34186716--34186758 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
34186706 AAATTTTTTC
34186716 CTAAATATTATCA
1 CTAAATATTATCA
34186729 CTAAATA--ATC-
1 CTAAATATTATCA
34186739 CTAAATATTATCA
1 CTAAATATTATCA
34186752 CTAAATA
1 CTAAATA
34186759 ATTCAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:34186740 original size:23 final size:23
Alignment explanation
Indices: 34186714--34186760 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
34186704 CTAAATTTTT
34186714 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
34186737 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
34186760 T
1 T
34186761 TCAAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:34186767 original size:23 final size:23
Alignment explanation
Indices: 34186718--34186767 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
34186708 ATTTTTTCCT
*
34186718 AAATATTATCACTAAATAATCCT
1 AAATATTATCACTAAATAATCCA
*
34186741 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATCCA
34186764 AAAT
1 AAAT
34186768 TTAAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:34189106 original size:27 final size:27
Alignment explanation
Indices: 34189068--34189129 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
34189058 TGTAAAAGTC
*
34189068 TATAGGAAAAATTAGCTTATTTACCTT
1 TATAGGAAAAATTAACTTATTTACCTT
34189095 TATAGGAAAAATTAACTTATTTACCTT
1 TATAGGAAAAATTAACTTATTTACCTT
34189122 TATGAGGA
1 TAT-AGGA
34189130 CATCTTGCAG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 29 0.88
28 4 0.12
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (27 bp):
TATAGGAAAAATTAACTTATTTACCTT
Found at i:34189583 original size:27 final size:27
Alignment explanation
Indices: 34189545--34189597 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
34189535 TTCTAGGGTT
* *
34189545 TGGGGGAGGTACCGCCAATGATTTATA
1 TGGGGGAGGTACCACAAATGATTTATA
34189572 TGGGGGAGGTACCACAAATGATTTAT
1 TGGGGGAGGTACCACAAATGATTTAT
34189598 GTGGTGCGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.26
Consensus pattern (27 bp):
TGGGGGAGGTACCACAAATGATTTATA
Found at i:34191682 original size:48 final size:48
Alignment explanation
Indices: 34191558--34191832 Score: 264
Period size: 48 Copynumber: 5.7 Consensus size: 48
34191548 TGATATGTGT
*
34191558 GCCAGTGTAAGACCACGTCTGGGACATGGCATCGGCCACAATATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGA
** * * * * * * *** *
34191606 TTCAGTGTAAGAACATATTTGGAACATGGCATCAGCGATGTTGTGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGA
* ** * *
34191654 GCCAGTGTAAGACCATGTCTGGGGCATGGCATCGG-CATTGATATGTGC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CAATATGAGA
* * *
34191702 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGA
* * * * *
34191750 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGA
* * * *
34191798 GCCAATGTAAAACCATGTTTGGAACATGGCATCGG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
34191833 TAACTCACTC
Statistics
Matches: 180, Mismatches: 45, Indels: 4
0.79 0.20 0.02
Matches are distributed among these distances:
47 1 0.01
48 177 0.98
49 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAATATGAGA
Found at i:34191729 original size:96 final size:95
Alignment explanation
Indices: 34191558--34191831 Score: 300
Period size: 96 Copynumber: 2.9 Consensus size: 95
34191548 TGATATGTGT
* * * ** *
34191558 GCCAGTGTAAGACCACGTCTGGGACATGGCATCGGCCA-CAATATGAGATTCAGTGTAAGAACAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCGATATGTGGCT-AGTGTAAGACCAT
* * ** *
34191622 ATTTGGAACATGGCATC-AGCGATGTTGTGAGA
64 GTTTGGAACATGGCATCGA-CCACATTATGAGA
* *
34191654 GCCAGTGTAAGACCATGTCTGGGGCATGGCATCGGCATTGATATGTGCGCTAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTG-GCTAGTGTAAGACCATG
* *
34191719 TCTGGGACATGGCATCGACCACATTATGAGA
65 TTTGGAACATGGCATCGACCACATTATGAGA
* * * * * *
34191750 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAATGTAAAACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTG-GCTAGTGTAAGACCATG
34191815 TTTGGAACATGGCATCG
65 TTTGGAACATGGCATCG
34191832 GTAACTCACT
Statistics
Matches: 149, Mismatches: 26, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
95 2 0.01
96 145 0.97
97 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (95 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGGCTAGTGTAAGACCATGT
TTGGAACATGGCATCGACCACATTATGAGA
Found at i:34191813 original size:144 final size:144
Alignment explanation
Indices: 34191548--34191832 Score: 349
Period size: 144 Copynumber: 2.0 Consensus size: 144
34191538 GACATTTGGA
* * *
34191548 TGATATGTGTGCCAGTGTAAGACCACGTCTGGGACATGGCATCGGCCACAATATGAGATTCAGTG
1 TGATATGTGCGCCAGTGTAAGACCACGTCTGGGACATGGCATCGACCACAATATGAGACTCAGTG
* *** * * **
34191613 TAAGAACATATTTGGAACATGGCATCAGCGATGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGG
66 TAAGAACATATCTGGAACATGGCATCAGCGATGACATGAGAGCCAATGTAAAACCATGTCTGGAA
34191678 CATGGCATCGGCAT
131 CATGGCATCGGCAT
* * *
34191692 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCT-AGT
1 TGATATGTGCGCCAGTGTAAGACCACGTCTGGGACATGGCATCGACCACAATATGAGA-CTCAGT
* * * * * * *
34191756 GTAAGACCATGTCTGGGACATGGCATCGGC-CTCGACATGTGAGCCAATGTAAAACCATGTTTGG
65 GTAAGAACATATCTGGAACATGGCATCAGCGAT-GACATGAGAGCCAATGTAAAACCATGTCTGG
34191820 AACATGGCATCGG
129 AACATGGCATCGG
34191833 TAACTCACTC
Statistics
Matches: 118, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
143 1 0.01
144 116 0.98
145 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (144 bp):
TGATATGTGCGCCAGTGTAAGACCACGTCTGGGACATGGCATCGACCACAATATGAGACTCAGTG
TAAGAACATATCTGGAACATGGCATCAGCGATGACATGAGAGCCAATGTAAAACCATGTCTGGAA
CATGGCATCGGCAT
Done.