Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 141 of 333
Found at i:46171896 original size:50 final size:52
Alignment explanation
Indices: 46171818--46171949 Score: 218
Period size: 50 Copynumber: 2.6 Consensus size: 52
46171808 GGAGGCCTAG
*
46171818 CCTTTTTAAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGC
1 CCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGC
46171867 CCTTTTCAATAAACT-GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGC
1 CCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGC
*
46171918 CCTTTTCAATAAACTGGGGCATAAGCCATTTT
1 CCTTTTCAATAAACTGGGGCATAAGCCCTTTT
46171950 GCACTTCCTC
Statistics
Matches: 77, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
49 14 0.18
50 29 0.38
51 19 0.25
52 15 0.19
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (52 bp):
CCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGC
Found at i:46171918 original size:26 final size:26
Alignment explanation
Indices: 46171818--46171949 Score: 182
Period size: 25 Copynumber: 5.2 Consensus size: 26
46171808 GGAGGCCTAG
*
46171818 CCTTTTTAAT-AACTGGGGCA-AAGC
1 CCTTTTCAATAAACTGGGGCATAAGC
**
46171842 CCTTTTCGGTAAACTGGGGCA-AAGC
1 CCTTTTCAATAAACTGGGGCATAAGC
46171867 CCTTTTCAATAAACT-GGGCATAAGC
1 CCTTTTCAATAAACTGGGGCATAAGC
**
46171892 CCTTTTCGGTAAACTGGGGCATAAGC
1 CCTTTTCAATAAACTGGGGCATAAGC
46171918 CCTTTTCAATAAACTGGGGCATAAGC
1 CCTTTTCAATAAACTGGGGCATAAGC
*
46171944 CATTTT
1 CCTTTT
46171950 GCACTTCCTC
Statistics
Matches: 95, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.13
25 44 0.46
26 39 0.41
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (26 bp):
CCTTTTCAATAAACTGGGGCATAAGC
Found at i:46172024 original size:20 final size:20
Alignment explanation
Indices: 46171999--46172085 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
46171989 TTATGAATAC
46171999 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
46172019 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
46172039 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
46172059 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
46172079 ATCATGT
1 ATCATGT
46172086 ATATCATATC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:46172854 original size:27 final size:27
Alignment explanation
Indices: 46172795--46172856 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
46172785 CATATTCGTT
46172795 ATTTTACCATACAAGGGTATTACGATC
1 ATTTTACCATACAAGGGTATTACGATC
* * *
46172822 ACTTTACCCTACAAGGGCT-TTACGGTC
1 ATTTTACCATACAAGGG-TATTACGATC
*
46172849 TTTTTACC
1 ATTTTACC
46172857 TATTAGGGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (27 bp):
ATTTTACCATACAAGGGTATTACGATC
Found at i:46173001 original size:27 final size:27
Alignment explanation
Indices: 46172885--46173074 Score: 141
Period size: 27 Copynumber: 7.0 Consensus size: 27
46172875 CATTTCATCC
* *
46172885 TACAAACCAAGGGTATTTTAGTAATTT
1 TACAAACCAGGGGTATTTTGGTAATTT
** ** **
46172912 TGTAAACCAATGGTATTTTTATAATTTT
1 TACAAACCAGGGGTATTTTGGTAA-TTT
* * * *
46172940 TAGAAAGTCAAGGGTATTTCT-ATAATTT
1 TACAAA-CCAGGGGTATTT-TGGTAATTT
** *
46172968 TGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAACCAGGGGTATTTTGGTAATTT
** *
46172995 TACAAA-TTGAGGGTATTTCGGTAATTT
1 TACAAACCAG-GGGTATTTTGGTAATTT
* *
46173022 CACAAACCAGTGGTATTTTGGTAATTT
1 TACAAACCAGGGGTATTTTGGTAATTT
*
46173049 TACAAACTAGGGGTATTTTGGTAATT
1 TACAAACCAGGGGTATTTTGGTAATT
46173075 CTATCCTACA
Statistics
Matches: 131, Mismatches: 26, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
26 2 0.02
27 99 0.76
28 15 0.11
29 14 0.11
30 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
TACAAACCAGGGGTATTTTGGTAATTT
Found at i:46173114 original size:27 final size:26
Alignment explanation
Indices: 46172972--46173114 Score: 103
Period size: 27 Copynumber: 5.3 Consensus size: 26
46172962 TAATTTTGTA
*
46172972 AATCAGGGGTATTTTGGTAATTTTAC
1 AATCAGGGGTATTTTGGTAATTTCAC
* *
46172998 AAAT-TGAGGGTATTTCGGTAATTTCAC
1 -AATCAG-GGGTATTTTGGTAATTTCAC
* * *
46173025 AAACCAGTGGTATTTTGGTAATTTTAC
1 -AATCAGGGGTATTTTGGTAATTTCAC
*
46173052 AAACTAGGGGTATTTTGGTAA-TTCTATC
1 AATC-AGGGGTATTTTGGTAATTTC-A-C
* **
46173080 -CTACAGGGGTATTTCAGTAATTTCAC
1 AAT-CAGGGGTATTTTGGTAATTTCAC
46173106 AATCGAGGG
1 AATC-AGGG
46173115 TAAAACAATA
Statistics
Matches: 91, Mismatches: 16, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
26 8 0.09
27 77 0.85
28 6 0.07
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (26 bp):
AATCAGGGGTATTTTGGTAATTTCAC
Found at i:46173168 original size:27 final size:27
Alignment explanation
Indices: 46173106--46173248 Score: 189
Period size: 27 Copynumber: 5.3 Consensus size: 27
46173096 GTAATTTCAC
** *
46173106 AATCGAGGGTAAAACAATAATT-TGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
46173132 AATCAAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
46173159 AATTGAGGGTAAAACGGTAGTTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
46173186 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
46173213 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
46173240 AATCGAGGG
1 AATCGAGGG
46173249 CATTCCAGTA
Statistics
Matches: 101, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 18 0.18
27 83 0.82
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:46177072 original size:36 final size:36
Alignment explanation
Indices: 46177021--46177102 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 36
46177011 ATGATGATTG
* * * * * *
46177021 ATGTGAAAGTGAATATGAGGGTGTGTTGTTCATGCC
1 ATGTGACAGTAAATATGAGCGTATGTTATTCAAGCC
*
46177057 ATGTGACAGTAAATATGCGCGTATGTTATTCAAGCC
1 ATGTGACAGTAAATATGAGCGTATGTTATTCAAGCC
*
46177093 ATGTGGCAGT
1 ATGTGACAGT
46177103 GATTATATTA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.32
Consensus pattern (36 bp):
ATGTGACAGTAAATATGAGCGTATGTTATTCAAGCC
Found at i:46179333 original size:21 final size:21
Alignment explanation
Indices: 46179309--46179359 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
46179299 TATAATGAGT
*
46179309 ATATCATGTGCAGCTCATAAC
1 ATATCATGTGCAGATCATAAC
* **
46179330 ATATCATGTGCATATCATGTC
1 ATATCATGTGCAGATCATAAC
46179351 ATATCATGT
1 ATATCATGT
46179360 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (21 bp):
ATATCATGTGCAGATCATAAC
Found at i:46179343 original size:11 final size:10
Alignment explanation
Indices: 46179329--46179365 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
46179319 CAGCTCATAA
46179329 CATATCATGT
1 CATATCATGT
46179339 GCATATCATGT
1 -CATATCATGT
46179350 CATATCATGT
1 CATATCATGT
46179360 -ATATCA
1 CATATCA
46179366 AAATCTCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 6 0.23
10 10 0.38
11 10 0.38
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (10 bp):
CATATCATGT
Found at i:46179424 original size:25 final size:25
Alignment explanation
Indices: 46179396--46179444 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
46179386 ATAATTAAAC
* * *
46179396 CCTAAGGGTATAATAGTCATTTTTA
1 CCTAAGGGCAAAATAATCATTTTTA
*
46179421 CCTAGGGGCAAAATAATCATTTTT
1 CCTAAGGGCAAAATAATCATTTTT
46179445 CATATTTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (25 bp):
CCTAAGGGCAAAATAATCATTTTTA
Found at i:46201696 original size:28 final size:28
Alignment explanation
Indices: 46201656--46201713 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
46201646 TGTACCGAAG
46201656 TAAGTTCATTTGCAAATAGTGCAACATA
1 TAAGTTCATTTGCAAATAGTGCAACATA
46201684 TAAGTTCATTTGCAAATAGTGCAACATA
1 TAAGTTCATTTGCAAATAGTGCAACATA
46201712 TA
1 TA
46201714 CCATGCTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (28 bp):
TAAGTTCATTTGCAAATAGTGCAACATA
Found at i:46208613 original size:47 final size:47
Alignment explanation
Indices: 46208535--46208867 Score: 513
Period size: 47 Copynumber: 7.1 Consensus size: 47
46208525 CCCTTCGGGA
* * * * * * *
46208535 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
46208582 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46208629 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
46208676 CTTATTACATATATACACTTTCGCATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46208723 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
46208770 CTTATTACATATATACACTTTCGCATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46208817 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46208864 CTTA
1 CTTA
46208868 CTATCATTTC
Statistics
Matches: 260, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 260 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46212336 original size:40 final size:40
Alignment explanation
Indices: 46212279--46212461 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 40
46212269 CCAGCATGAT
* *
46212279 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
46212319 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * * *
46212359 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGTACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
46212400 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
46212440 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
46212462 CATCATTCGA
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 3 0.03
40 96 0.82
41 18 0.15
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:46212805 original size:29 final size:29
Alignment explanation
Indices: 46212773--46212846 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
46212763 AATTCAACCA
*
46212773 CGCACACTTAGTGCCATGTAC-TTTAAA-CT
1 CGCACACTTAGTGCCA--TACATTTAAAGCC
46212802 CGCACACTTAGTGCCATACATTTAAAGCC
1 CGCACACTTAGTGCCATACATTTAAAGCC
46212831 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
46212847 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
27 3 0.07
28 6 0.14
29 33 0.79
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACATTTAAAGCC
Found at i:46212889 original size:43 final size:43
Alignment explanation
Indices: 46212828--46212930 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
46212818 TACATTTAAA
46212828 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
46212871 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
46212914 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
46212931 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:46215020 original size:47 final size:47
Alignment explanation
Indices: 46214942--46215133 Score: 276
Period size: 47 Copynumber: 4.1 Consensus size: 47
46214932 CCCTTCGGGA
* * * * * * *
46214942 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
46214989 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46215036 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46215083 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46215130 CTTA
1 CTTA
46215134 CTATCATTTC
Statistics
Matches: 129, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 129 1.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46215327 original size:47 final size:47
Alignment explanation
Indices: 46215249--46215581 Score: 495
Period size: 47 Copynumber: 7.1 Consensus size: 47
46215239 CCCTTCGGGA
* * * * * * *
46215249 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
46215296 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46215343 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * **
46215390 CTTATTACATATATACAATTTCACATTCATCACATCGGATATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46215437 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* ** *
46215484 CTTATTACATATATACACTTTCTTATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46215531 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46215578 CTTA
1 CTTA
46215582 CTATCATTTC
Statistics
Matches: 256, Mismatches: 30, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 256 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46219174 original size:17 final size:17
Alignment explanation
Indices: 46219152--46219184 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
46219142 TGAATGAAAA
46219152 AAATGCTAG-GGCAATTG
1 AAATGCT-GTGGCAATTG
46219169 AAATGCTGTGGCAATT
1 AAATGCTGTGGCAATT
46219185 CTCAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (17 bp):
AAATGCTGTGGCAATTG
Found at i:46222495 original size:44 final size:45
Alignment explanation
Indices: 46222401--46222503 Score: 156
Period size: 44 Copynumber: 2.3 Consensus size: 45
46222391 TGCCAGTCGG
*
46222401 GGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGACATGTCTG
1 GGACATGCATCGGCCTCGAGATGT-AGCCAGTGTAAGACATGTCTA
*
46222447 GGACATGCATCGG-CTGCGAGATGT-GCTAGTGTAAGACATGTCTA
1 GGACATGCATCGGCCT-CGAGATGTAGCCAGTGTAAGACATGTCTA
46222491 GGACATGCATCGG
1 GGACATGCATCGG
46222504 TACTGATGTG
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
44 31 0.57
45 2 0.04
46 21 0.39
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.22
Consensus pattern (45 bp):
GGACATGCATCGGCCTCGAGATGTAGCCAGTGTAAGACATGTCTA
Found at i:46227235 original size:37 final size:37
Alignment explanation
Indices: 46227172--46227250 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
46227162 TTATTACGAA
* * *
46227172 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGAACAAAATCTCCACACGAAGTCATCGG
*
46227209 GTCTTACCCGAACAAAAT-TCCTACACGTAGTCATCGG
1 GTCTTACCCGAACAAAATCTCC-ACACGAAGTCATCGG
46227246 GTCTT
1 GTCTT
46227251 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 3 0.08
37 34 0.92
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGAACAAAATCTCCACACGAAGTCATCGG
Found at i:46227447 original size:47 final size:47
Alignment explanation
Indices: 46227369--46227815 Score: 705
Period size: 47 Copynumber: 9.5 Consensus size: 47
46227359 CCCTTCGGGA
* * * * * * * *
46227369 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * * *
46227416 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
46227463 CTTATCACATACATACAGTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
46227510 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
46227557 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
46227604 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
46227651 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
46227698 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
46227745 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
46227794 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
46227816 TTGGCTGAAT
Statistics
Matches: 378, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 334 0.88
49 44 0.12
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:46231517 original size:40 final size:40
Alignment explanation
Indices: 46231473--46231571 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
46231463 CATGATTGCT
* * *
46231473 CTTCGGGACTTAGCCCGGATTTAGTAAC-TCGCACCAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAAAGC
* * * *
46231513 CTTC-GGATCTTAGTCCAGATATGGTCACTTAGCACAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCACAAAGC
46231553 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
46231572 CATCATTCGA
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
39 3 0.06
40 37 0.79
41 7 0.15
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTTAGCACAAAGC
Found at i:46231916 original size:29 final size:29
Alignment explanation
Indices: 46231877--46231955 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
46231867 CTTAATAATC
*
46231877 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
46231907 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
46231936 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
46231956 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:46231998 original size:43 final size:43
Alignment explanation
Indices: 46231937--46232031 Score: 190
Period size: 43 Copynumber: 2.2 Consensus size: 43
46231927 TGCATTTCAA
46231937 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
46231980 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
46232023 GCCCGCACA
1 GCCCGCACA
46232032 ACCGTGAACA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.27, C:0.37, G:0.15, T:0.21
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:46232037 original size:25 final size:25
Alignment explanation
Indices: 46232003--46232056 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
46231993 GTGCCAATCT
46232003 CACAACCGTGAACACTTATTGCCCG
1 CACAACCGTGAACACTTATTGCCCG
46232028 CACAACCGTGAACACTTATTGCCCG
1 CACAACCGTGAACACTTATTGCCCG
46232053 CACA
1 CACA
46232057 CTTAGTGCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.30, C:0.37, G:0.15, T:0.19
Consensus pattern (25 bp):
CACAACCGTGAACACTTATTGCCCG
Found at i:46232043 original size:68 final size:68
Alignment explanation
Indices: 46231960--46232099 Score: 280
Period size: 68 Copynumber: 2.1 Consensus size: 68
46231950 GTGCCAATCT
46231960 CACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGC
1 CACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGC
46232025 CCG
66 CCG
46232028 CACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGC
1 CACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGC
46232093 CCG
66 CCG
46232096 CACA
1 CACA
46232100 CTTAGTGCTG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 72 1.00
ACGTcount: A:0.29, C:0.36, G:0.14, T:0.21
Consensus pattern (68 bp):
CACAACCGTGAACACTTATTGCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGC
CCG
Found at i:46234036 original size:37 final size:37
Alignment explanation
Indices: 46233973--46234051 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
46233963 TTATTACGAA
* * *
46233973 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGAACAAAATCTCCACACGAAGTCATCGG
*
46234010 GTCTTACCCGAACAAAAT-TCCTACACGTAGTCATCGG
1 GTCTTACCCGAACAAAATCTCC-ACACGAAGTCATCGG
46234047 GTCTT
1 GTCTT
46234052 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 3 0.08
37 34 0.92
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGAACAAAATCTCCACACGAAGTCATCGG
Found at i:46234248 original size:47 final size:47
Alignment explanation
Indices: 46234170--46234569 Score: 593
Period size: 47 Copynumber: 8.5 Consensus size: 47
46234160 CCCTTCGGGA
* * * * * * * *
46234170 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * * *
46234217 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
46234264 CTTATCACATACATACAGTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
46234311 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
46234358 CTTATCACACATATACACTTTCACATTCGTCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
46234405 CTTATCACACATATACACTTTCACATTCGTCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
46234452 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
46234499 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
46234548 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
46234570 TTGGCTGAAT
Statistics
Matches: 329, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 285 0.87
49 44 0.13
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:46247678 original size:38 final size:38
Alignment explanation
Indices: 46247633--46247710 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
46247623 ACGGAAAGAG
46247633 ATTAAGTTTTAGGTTGGCGATAATGTATTCCTGAAAGT
1 ATTAAGTTTTAGGTTGGCGATAATGTATTCCTGAAAGT
46247671 ATTAAGTTTTAGGTTGGCGATAATGTATTCCTGAAAGT
1 ATTAAGTTTTAGGTTGGCGATAATGTATTCCTGAAAGT
46247709 AT
1 AT
46247711 CTCCATAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (38 bp):
ATTAAGTTTTAGGTTGGCGATAATGTATTCCTGAAAGT
Found at i:46259474 original size:46 final size:46
Alignment explanation
Indices: 46259424--46259599 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
46259414 TGATTGAGCA
46259424 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
46259470 TCCGAACTCGTTAAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
46259515 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
46259563 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46259600 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.56
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:46259580 original size:93 final size:93
Alignment explanation
Indices: 46259421--46259592 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
46259411 GGATGATTGA
* *
46259421 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTAAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACGTCCGAACTCGTTAAGT
46259486 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
46259514 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACGTCC-GAACTCGTTAAG
46259578 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
46259593 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACGTCCGAACTCGTTAAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:46263746 original size:47 final size:47
Alignment explanation
Indices: 46263689--46263992 Score: 428
Period size: 47 Copynumber: 6.4 Consensus size: 47
46263679 ATTGATGTAC
* * *
46263689 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * *
46263736 AAGTATATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * * *
46263785 AAGTGTATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
46263832 AAGTGTATATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
46263879 AAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
46263926 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
46263973 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
46263993 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 192 0.81
49 46 0.19
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:46272820 original size:47 final size:47
Alignment explanation
Indices: 46272742--46273147 Score: 641
Period size: 47 Copynumber: 8.6 Consensus size: 47
46272732 CCCTTCGGGA
* * * * * *
46272742 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46272789 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46272836 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46272883 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46272930 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46272979 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46273026 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46273073 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46273122 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
46273148 CACAATTATC
Statistics
Matches: 334, Mismatches: 21, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 243 0.73
49 91 0.27
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46272980 original size:96 final size:96
Alignment explanation
Indices: 46272742--46273147 Score: 630
Period size: 96 Copynumber: 4.3 Consensus size: 96
46272732 CCCTTCGGGA
* * * * * * *
46272742 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
46272805 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
46272836 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
46272899 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
46272930 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
46272995 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
46273026 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
46273089 ACACTTTCACATTCATCACATCGGCCATTCGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
46273122 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
46273148 CACAATTATC
Statistics
Matches: 288, Mismatches: 16, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
93 1 0.00
94 134 0.47
96 144 0.50
98 9 0.03
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46272998 original size:143 final size:143
Alignment explanation
Indices: 46272742--46273147 Score: 672
Period size: 143 Copynumber: 2.9 Consensus size: 143
46272732 CCCTTCGGGA
* * * * * * * *
46272742 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
46272805 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
*
46272870 TCGGCTATTAGGC
131 TCGGCCATTAGGC
46272883 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
46272948 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
46273013 TCGGCCATTAGGC
131 TCGGCCATTAGGC
46273026 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
46273091 ACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATATACATTCACAT
66 ACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACAT
46273148 CACAATTATC
Statistics
Matches: 248, Mismatches: 15, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
141 47 0.19
143 201 0.81
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:46275895 original size:46 final size:46
Alignment explanation
Indices: 46275845--46276020 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
46275835 TGATTGAGCA
46275845 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
46275891 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
46275936 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
46275984 -CCTGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46276021 GCTGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.55
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:46276001 original size:93 final size:93
Alignment explanation
Indices: 46275842--46276013 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
46275832 GGATGATTGA
* * *
46275842 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACGTCCGAACTCATTGAGT
46275907 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
46275935 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACG-CCTGAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACGTCC-GAACTCATTGAG
46275999 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
46276014 CTTATGGGCT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:46280592 original size:86 final size:86
Alignment explanation
Indices: 46280443--46280604 Score: 193
Period size: 86 Copynumber: 1.9 Consensus size: 86
46280433 TTATTTGTAT
* *
46280443 TGTAACACCCCTAACCCGTATCCGTCGTCAAAACAGGGTTTCAGAGCATTACCAAAACTTTCAGA
1 TGTAACACCCCTAACCCATATCCGTCGTCAAAACAGGGTTTCAGAGCATTACCAAAACATTCAG-
46280508 AACA-TTTACAAGTAAATCATG
65 AACATTTTACAAGTAAATCATG
* * * * ** ***
46280529 TGTAACACCCCTAACTCATATTCGTCG-CTAAAATAGGGTTTCGGAGTGTTACTGGAACATTCAG
1 TGTAACACCCCTAACCCATATCCGTCGTC-AAAACAGGGTTTCAGAGCATTACCAAAACATTCAG
46280593 AACATTTTACAA
65 AACATTTTACAA
46280605 TCAATTCATG
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 5 0.08
86 58 0.92
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.27
Consensus pattern (86 bp):
TGTAACACCCCTAACCCATATCCGTCGTCAAAACAGGGTTTCAGAGCATTACCAAAACATTCAGA
ACATTTTACAAGTAAATCATG
Found at i:46280789 original size:40 final size:40
Alignment explanation
Indices: 46280734--46281099 Score: 660
Period size: 40 Copynumber: 9.2 Consensus size: 40
46280724 TATTGGTATC
46280734 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
1 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
46280774 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
1 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
*
46280814 AGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
1 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
46280854 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
1 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
46280894 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
1 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
*
46280934 AGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
1 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
*
46280974 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGA
1 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
*
46281014 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGA
1 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
* * * *
46281054 AGAGCATTCGTGCTAGTGATATATCCGTGCCAAATCCCGA
1 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
46281094 AGAGCA
1 AGAGCA
46281100 ATCATGCTGG
Statistics
Matches: 316, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 316 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
Found at i:46285689 original size:12 final size:12
Alignment explanation
Indices: 46285672--46285704 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
46285662 CTAGACACAA
46285672 GCCCGTGTGTCT
1 GCCCGTGTGTCT
46285684 GCCCGTGTGTCT
1 GCCCGTGTGTCT
*
46285696 GCCCATGTG
1 GCCCGTGTG
46285705 GACAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.03, C:0.33, G:0.33, T:0.30
Consensus pattern (12 bp):
GCCCGTGTGTCT
Found at i:46287795 original size:47 final size:47
Alignment explanation
Indices: 46287725--46288024 Score: 469
Period size: 47 Copynumber: 6.4 Consensus size: 47
46287715 CCCTTCGGGA
* *
46287725 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
46287772 CTTATCACATATACACAGC-TTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACA-CTTTCACATTCATCACATTGGCCATTCGGC
*
46287819 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
46287866 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
46287913 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
46287960 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATT-AGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
46288006 CTTTATCACATATACACAC
1 C-TTATCACATATATACAC
46288025 CTTGTACATC
Statistics
Matches: 235, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
46 4 0.02
47 230 0.98
48 1 0.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:46287875 original size:22 final size:22
Alignment explanation
Indices: 46287847--46287969 Score: 70
Period size: 22 Copynumber: 5.3 Consensus size: 22
46287837 TTTCACATTC
46287847 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
46287869 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
46287893 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
** * * *
46287916 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
46287940 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
46287963 ATCACAT
1 ATCACAT
46287970 ATATACACTT
Statistics
Matches: 71, Mismatches: 20, Indels: 20
0.64 0.18 0.18
Matches are distributed among these distances:
22 29 0.41
23 10 0.14
24 10 0.14
25 22 0.31
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:46291512 original size:28 final size:27
Alignment explanation
Indices: 46291480--46291584 Score: 95
Period size: 28 Copynumber: 3.7 Consensus size: 27
46291470 CTGACTGATT
*
46291480 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTC-ATTAAAGAAC
* *
46291508 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTC-ATTA-AAGAAC
*
46291537 TCGCACACATAGTGCTCAGTTGAAGAAC
1 TCGCACACATAGTGCTCA-TTAAAGAAC
* *
46291565 TTGCACACACAGTGCCTCAT
1 TCGCACACATAGTG-CTCAT
46291585 AACTCCAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
27 2 0.03
28 33 0.52
29 27 0.43
30 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.22
Consensus pattern (27 bp):
TCGCACACATAGTGCTCATTAAAGAAC
Found at i:46291662 original size:40 final size:40
Alignment explanation
Indices: 46291618--46291899 Score: 478
Period size: 40 Copynumber: 7.0 Consensus size: 40
46291608 GGTTTAGCTT
* * *
46291618 GGATATATCACTAGCACGAATACTCTTCGGAACTTAGCCC
1 GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
46291658 GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
1 GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
46291698 GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
1 GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
46291738 GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
1 GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
46291778 GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
1 GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
*
46291818 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
1 GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
* *
46291858 GGAT--ATAACATCAGCACGAATGCTCTTCGGGACTTAGCCC
1 GGATACATTAC-T-AGCACGAATGCTCTTCGGAACTTAGCCC
46291898 GG
1 GG
46291900 CTATATAACT
Statistics
Matches: 234, Mismatches: 6, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
38 4 0.02
39 1 0.00
40 229 0.98
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
Found at i:46293632 original size:47 final size:47
Alignment explanation
Indices: 46293562--46293814 Score: 389
Period size: 47 Copynumber: 5.4 Consensus size: 47
46293552 CCCTTCGGGA
* *
46293562 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * * * *
46293609 TTTATCACATATAAACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
46293656 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
46293703 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
46293750 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
46293797 CTTATCACATATACACAC
1 CTTATCACATATATACAC
46293815 CTTGTACATC
Statistics
Matches: 187, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 187 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:46293712 original size:22 final size:22
Alignment explanation
Indices: 46293684--46293759 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
46293674 TTTCACATTC
46293684 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
46293706 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
46293730 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
46293753 ATCACAT
1 ATCACAT
46293760 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:46306010 original size:47 final size:47
Alignment explanation
Indices: 46305951--46306069 Score: 211
Period size: 47 Copynumber: 2.5 Consensus size: 47
46305941 ATCCATAAGT
* *
46305951 GAACTCAGACTCAACTCAATGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
46305998 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
*
46306045 GAACACGGACTCAACTCAACGAGTT
1 GAACTCGGACTCAACTCAACGAGTT
46306070 TGGACATTCG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:46306576 original size:30 final size:30
Alignment explanation
Indices: 46306542--46306601 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
46306532 ATTTAATATG
46306542 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
46306572 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
46306602 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:46308183 original size:28 final size:27
Alignment explanation
Indices: 46308136--46308197 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
46308126 TCTGATACTA
* * *
46308136 ATTCTA-TATTGGGCTTAGGCCCACCTT
1 ATTCTATTAATGGGCTAAGG-CCACCTG
46308163 ATTCTATTAATGGGCTAAGGCCACCTG
1 ATTCTATTAATGGGCTAAGGCCACCTG
*
46308190 ATACTATT
1 ATTCTATT
46308198 CTTGTGATGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 19 0.63
28 11 0.37
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (27 bp):
ATTCTATTAATGGGCTAAGGCCACCTG
Found at i:46325029 original size:40 final size:40
Alignment explanation
Indices: 46324985--46325105 Score: 224
Period size: 40 Copynumber: 3.0 Consensus size: 40
46324975 GAGAATTGAG
46324985 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
46325025 AGTGATGTATCCAGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
46325065 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
46325105 A
1 A
46325106 AGTCTCGAAG
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:46325109 original size:23 final size:23
Alignment explanation
Indices: 46325079--46325128 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
46325069 ATGTATCCGG
46325079 GCTAAGTCTCGAAGAGCATTCGT
1 GCTAAGTCTCGAAGAGCATTCGT
46325102 GCTAAGTCTCGAAGAGCATTCGT
1 GCTAAGTCTCGAAGAGCATTCGT
46325125 GCTA
1 GCTA
46325129 GTGATGTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (23 bp):
GCTAAGTCTCGAAGAGCATTCGT
Found at i:46325138 original size:63 final size:63
Alignment explanation
Indices: 46325039--46325168 Score: 226
Period size: 63 Copynumber: 2.1 Consensus size: 63
46325029 ATGTATCCAG
*
46325039 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAG-TCTCGAAGAGCATTCGT
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC-CGAAGAGCATTCGT
*
46325102 GCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGT
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGT
46325165 GCTA
1 GCTA
46325169 GTGATATATC
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
63 62 0.97
64 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (63 bp):
GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGT
Found at i:46325179 original size:103 final size:103
Alignment explanation
Indices: 46324999--46325207 Score: 339
Period size: 103 Copynumber: 2.0 Consensus size: 103
46324989 ATGTATCCGG
46324999 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCAGGCTAAGTCCCGAAGAGCATTCGTGC
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCAGGCTAAGTCCCGAAGAGCATTCGTGC
* ** *
46325064 TAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGT
66 TAGTGATATATCCGGGCTAAACCCCGAAGAGCATTCGT
* *
46325102 GCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATCC-GGACTAAGTTCCGAAGAGCATTCGTG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCAGG-CTAAGTCCCGAAGAGCATTCGTG
*
46325166 CTAGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGT
65 CTAGTGATATATCCGGGCTAAACCCCGAAGAGCATTCGT
46325205 GCT
1 GCT
46325208 GGTGTTATAT
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
102 2 0.02
103 96 0.98
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (103 bp):
GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCAGGCTAAGTCCCGAAGAGCATTCGTGC
TAGTGATATATCCGGGCTAAACCCCGAAGAGCATTCGT
Found at i:46325251 original size:40 final size:40
Alignment explanation
Indices: 46325102--46325239 Score: 186
Period size: 40 Copynumber: 3.5 Consensus size: 40
46325092 GAGCATTCGT
* *
46325102 GCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGG
* * *
46325142 ACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGT
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGG
** * *
46325182 GCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGG
*
46325222 GCTAGGTCCCGAAGAGCA
1 GCTAAGTCCCGAAGAGCA
46325240 ATCATGCTGG
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGG
Found at i:46329315 original size:47 final size:47
Alignment explanation
Indices: 46329261--46329633 Score: 344
Period size: 47 Copynumber: 7.6 Consensus size: 47
46329251 TATTTGAATA
*
46329261 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
46329308 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
46329355 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
** * *
46329404 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGTGATAAGGCCTAATGG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATG-GCCAATG--TGAT-G
* *
46329455 CCGATGTGATGAA-TGTGA-A-A-GTGTATATATGTG-ATAA-GGCCTAATGGCCGATGTGATG
1 --AATGTGA--AAGTGT-ATATATGTG-ATA-A-G-GCCTAATGGCC--A------ATGTGATG
* *
46329513 AATGTGAAAGTGTATATATATGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * * *
46329560 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
46329607 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
46329634 TCCGAGCTCT
Statistics
Matches: 271, Mismatches: 26, Indels: 58
0.76 0.07 0.16
Matches are distributed among these distances:
47 155 0.57
48 3 0.01
49 45 0.17
50 3 0.01
51 1 0.00
52 3 0.01
53 13 0.05
54 12 0.04
55 17 0.06
56 11 0.04
57 2 0.01
58 1 0.00
59 3 0.01
61 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:46329371 original size:94 final size:94
Alignment explanation
Indices: 46329261--46329638 Score: 407
Period size: 96 Copynumber: 3.8 Consensus size: 94
46329251 TATTTGAATA
46329261 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
46329326 TGTGATAAGGCCGAATGGCCAATGTGATG
66 TGTGATAAGGCCGAATGGCCAATGTGATG
46329355 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* ** * *
46329420 TATGTGATAAGGCCTAATGTGATAAGGCCTAATGG
64 TATGTGATAAGGCCGAATG-GCCAATG--TGAT-G
* * * * * *
46329455 CCGATGTGATGAATGTGAAAGTGTATATATG-TGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 --AATGTGA--AA-GT----GTATATATGTGAT-A-AGGCCT-AATGGCCGATGTGATGAATGTG
*
46329519 AAAGTGTATATATATGATAAGGCCGAATGGCCAATGTGATG
54 AAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * * * * *
46329560 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
46329625 TGTGATAAGTCCGA
66 TGTGATAAGGCCGA
46329639 GCTCTAAAGA
Statistics
Matches: 234, Mismatches: 31, Indels: 38
0.77 0.10 0.13
Matches are distributed among these distances:
94 53 0.23
95 2 0.01
96 79 0.34
97 5 0.02
99 3 0.01
100 3 0.01
101 2 0.01
102 6 0.03
103 6 0.03
104 2 0.01
105 3 0.01
106 4 0.02
107 9 0.04
108 7 0.03
109 50 0.21
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:46329441 original size:15 final size:15
Alignment explanation
Indices: 46329421--46329453 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
46329411 AAGTGTATAT
46329421 ATGTGATAAGGCCTA
1 ATGTGATAAGGCCTA
46329436 ATGTGATAAGGCCTA
1 ATGTGATAAGGCCTA
46329451 ATG
1 ATG
46329454 GCCGATGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (15 bp):
ATGTGATAAGGCCTA
Found at i:46329446 original size:62 final size:62
Alignment explanation
Indices: 46329374--46329500 Score: 254
Period size: 62 Copynumber: 2.0 Consensus size: 62
46329364 GTGTATATAT
46329374 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
46329436 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
46329498 ATG
1 ATG
46329501 GCCGATGTGA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (62 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
Found at i:46329524 original size:109 final size:110
Alignment explanation
Indices: 46329325--46329547 Score: 394
Period size: 109 Copynumber: 2.0 Consensus size: 110
46329315 AAGTGTATAT
46329325 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAA
* *
46329390 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
65 TGGCCGATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCGA
* *
46329436 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAAT
46329500 GGCCGATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCGA
66 GGCCGATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCGA
46329545 ATG
1 ATG
46329548 GCCAATGTGA
Statistics
Matches: 108, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
109 68 0.63
111 40 0.37
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (110 bp):
ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCGA
Found at i:46329578 original size:158 final size:157
Alignment explanation
Indices: 46329278--46329589 Score: 563
Period size: 158 Copynumber: 2.0 Consensus size: 157
46329268 AAGTGTATAT
46329278 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
* *
46329343 GCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
66 GCCAATGTGATGAATGTGAAAGTGTATATATA-GTGATAAGGCCGAATGGCCAATGTGATGAATG
46329408 TGAAAGTGTATATATGTGATAAGGCCTA
130 TGAAAGTGTATATATGTGATAAGGCCTA
*
46329436 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
*
46329501 GCCGATGTGATGAATGTGAAAGTGTATATATA-TGATAAGGCCGAATGGCCAATGTGATGAATGT
66 GCCAATGTGATGAATGTGAAAGTGTATATATAGTGATAAGGCCGAATGGCCAATGTGATGAATGT
*
46329565 GAAAGTGTATATATGTGATAGGGCC
131 GAAAGTGTATATATGTGATAAGGCC
46329590 GAGTGGCCAA
Statistics
Matches: 149, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
156 54 0.36
158 95 0.64
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (157 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
GCCAATGTGATGAATGTGAAAGTGTATATATAGTGATAAGGCCGAATGGCCAATGTGATGAATGT
GAAAGTGTATATATGTGATAAGGCCTA
Found at i:46329580 original size:25 final size:25
Alignment explanation
Indices: 46329505--46329583 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
46329495 CTAATGGCCG
46329505 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * * ***
46329530 ATATGAT-AAGGCCG-AA-TGGCCA-
1 ATGTGATGAATG-TGAAAGTGTATAT
46329552 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
46329577 ATGTGAT
1 ATGTGAT
46329584 AGGGCCGAGT
Statistics
Matches: 37, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:46333219 original size:38 final size:38
Alignment explanation
Indices: 46333176--46333305 Score: 145
Period size: 38 Copynumber: 3.4 Consensus size: 38
46333166 CGCAGACTAT
* * *
46333176 ATGCTGGAAATATGTCCGGGTTAAATCCCGTAAGCTTC
1 ATGCTGGTAATATATCCGGGTTAAATCCCGCAAGCTTC
* * *
46333214 GTGCTGGTAATATATCCGGGTTAAATCTCGCAGGCTTC
1 ATGCTGGTAATATATCCGGGTTAAATCCCGCAAGCTTC
* * * *
46333252 ATGCTGGTATTATATCCGGGTTAAATCCTGCAGGCCT-
1 ATGCTGGTAATATATCCGGGTTAAATCCCGCAAGCTTC
*
46333289 AGTGCTGGTATTATATC
1 A-TGCTGGTAATATATC
46333306 TGAGCTTAAA
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
37 1 0.01
38 79 0.99
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (38 bp):
ATGCTGGTAATATATCCGGGTTAAATCCCGCAAGCTTC
Found at i:46334956 original size:40 final size:40
Alignment explanation
Indices: 46334889--46335065 Score: 218
Period size: 40 Copynumber: 4.5 Consensus size: 40
46334879 ACCCAAGTAT
*
46334889 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
46334928 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
46334968 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * * *
46335008 CTTCAGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
46335048 CTT-GGGATCTTAGTCCGG
1 CTTCGGG-TCTTAGCCCGG
46335066 TTATCATCCG
Statistics
Matches: 118, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 100 0.85
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:46335022 original size:80 final size:80
Alignment explanation
Indices: 46334889--46335065 Score: 245
Period size: 80 Copynumber: 2.2 Consensus size: 80
46334879 ACCCAAGTAT
* * * *
46334889 CTTCGGGAT-TTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGGATCTTAGCCGGATATAACAACTAGCACAAATGCCTTCAGGACATAGCCCGGATATAGC
46334953 AACTCGCACAAATGC
66 AACTCGCACAAATGC
*
46334968 CTTCGGG-TCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCAGGACATAGCCCGGATATA
1 CTTCGGGATCTTAG-CCGGATATAA-CAACTAGCACAAATGCCTTCAGGACATAGCCCGGATATA
*
46335031 GCAACTCGCACGAATGC
64 GCAACTCGCACAAATGC
46335048 CTT-GGGATCTTAGTCCGG
1 CTTCGGGATCTTAG-CCGG
46335066 TTATCATCCG
Statistics
Matches: 87, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 14 0.16
80 71 0.82
81 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGATCTTAGCCGGATATAACAACTAGCACAAATGCCTTCAGGACATAGCCCGGATATAGC
AACTCGCACAAATGC
Found at i:46337172 original size:27 final size:26
Alignment explanation
Indices: 46337155--46337224 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
46337145 ATATTAAGTC
46337155 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
46337182 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
46337210 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
46337225 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:46337218 original size:28 final size:28
Alignment explanation
Indices: 46337155--46337252 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
46337145 ATATTAAGTC
*
46337155 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
46337182 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
46337210 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
46337239 CGCACACTTAGTGC
1 CGCACACTTAGTGC
46337253 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:46337716 original size:12 final size:12
Alignment explanation
Indices: 46337699--46337725 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46337689 TGGGCATACT
46337699 TATGTATATATA
1 TATGTATATATA
46337711 TATGTATATATA
1 TATGTATATATA
46337723 TAT
1 TAT
46337726 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:46339369 original size:29 final size:29
Alignment explanation
Indices: 46339335--46339408 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
46339325 TAATCAACCA
*
46339335 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
46339364 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
46339393 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
46339409 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:46347415 original size:29 final size:29
Alignment explanation
Indices: 46347381--46347454 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
46347371 TAATCAACCA
*
46347381 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
46347410 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
46347439 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
46347455 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:46356925 original size:29 final size:27
Alignment explanation
Indices: 46356906--46356973 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
46356896 ATATTAAGTC
46356906 CACACACTCAGTGCTATATAATCAACT
1 CACACACTCAGTGCTATATAATCAACT
* *
46356933 CGCACACTTAGTGCTATATAATCAAACT
1 CACACACTCAGTGCTATATAATC-AACT
* *
46356961 CGCACACTTAGTG
1 CACACACTCAGTG
46356974 TTGTACAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (27 bp):
CACACACTCAGTGCTATATAATCAACT
Found at i:46356998 original size:29 final size:28
Alignment explanation
Indices: 46356908--46357003 Score: 104
Period size: 28 Copynumber: 3.4 Consensus size: 28
46356898 ATTAAGTCCA
* * *
46356908 CACACTCAGTGCTATATAATC-AACTCG
1 CACACTTAGTGCTATACAATCAAACCCG
* *
46356935 CACACTTAGTGCTATATAATCAAACTCG
1 CACACTTAGTGCTATACAATCAAACCCG
* * *
46356963 CACACTTAGTGTTGTACAATTTAAACCCG
1 CACACTTAGTGCTATACAA-TCAAACCCG
46356992 CACACTTAGTGC
1 CACACTTAGTGC
46357004 CAATCTCATG
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 20 0.33
28 22 0.37
29 18 0.30
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (28 bp):
CACACTTAGTGCTATACAATCAAACCCG
Found at i:46357469 original size:14 final size:14
Alignment explanation
Indices: 46357450--46357479 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
46357440 TGGGCATACT
46357450 TATGTATATATATA
1 TATGTATATATATA
46357464 TATGTATATATATA
1 TATGTATATATATA
46357478 TA
1 TA
46357480 CTTCGGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
TATGTATATATATA
Found at i:46366194 original size:16 final size:16
Alignment explanation
Indices: 46366173--46366205 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46366163 GGTTATTAGA
46366173 TGAGCCCTAAGCTTGT
1 TGAGCCCTAAGCTTGT
46366189 TGAGCCCTAAGCTTGT
1 TGAGCCCTAAGCTTGT
46366205 T
1 T
46366206 AATCTTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.33
Consensus pattern (16 bp):
TGAGCCCTAAGCTTGT
Found at i:46367292 original size:44 final size:43
Alignment explanation
Indices: 46367234--46367381 Score: 122
Period size: 43 Copynumber: 3.4 Consensus size: 43
46367224 AATGTGATAT
* * *
46367234 TCGGGCCTC-GGCCTAGCAAGCTTTAA-GCTAGTGA-ATAATATTA
1 TCGGGCTTCGGGCCTAGCAAGCTATAATGCCAGTGAGAT-A-A-TA
* *
46367277 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGAGATAATG
1 TCGGGCTTCGGGCCTAGCAAGCTATAATGCCAGTGAGATAATA
* * * * * * *
46367320 TCAGGCTTCGAGCCTAGCAAGCTCTAATACCGGTGAAATGATA
1 TCGGGCTTCGGGCCTAGCAAGCTATAATGCCAGTGAGATAATA
**
46367363 TCGGGCTTCAAGCCTAGCA
1 TCGGGCTTCGGGCCTAGCA
46367382 GGTGAAATGC
Statistics
Matches: 86, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
43 60 0.70
44 16 0.19
45 8 0.09
46 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (43 bp):
TCGGGCTTCGGGCCTAGCAAGCTATAATGCCAGTGAGATAATA
Found at i:46367461 original size:40 final size:41
Alignment explanation
Indices: 46367389--46367466 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 41
46367379 GCAGGTGAAA
* ** *
46367389 TGCCGGTGAATGAGTTCAGACTTAAAGTCTAGCGGGCTTCG
1 TGCCGGTGAATGAATTCAGACTTAAAACCTAGCAGGCTTCG
**
46367430 TGCCGGTG-ATGAATTCAGGTTTAAAACCTAGCAGGCT
1 TGCCGGTGAATGAATTCAGACTTAAAACCTAGCAGGCT
46367467 AAATGCCAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
40 23 0.74
41 8 0.26
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.27
Consensus pattern (41 bp):
TGCCGGTGAATGAATTCAGACTTAAAACCTAGCAGGCTTCG
Found at i:46375366 original size:3 final size:3
Alignment explanation
Indices: 46375358--46375382 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
46375348 GTTAATAAAT
46375358 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
46375383 AAGATGCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:46376558 original size:19 final size:18
Alignment explanation
Indices: 46376514--46376563 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 18
46376504 TCTGATTAAA
46376514 TATTTT-ATAAAT--TTT
1 TATTTTAATAAATAATTT
* *
46376529 TATTTTGATAATTAATTT
1 TATTTTAATAAATAATTT
46376547 TATTATTAATAAATAAT
1 TATT-TTAATAAATAAT
46376564 AAAATATTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 6 0.21
16 5 0.18
18 7 0.25
19 10 0.36
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TATTTTAATAAATAATTT
Found at i:46378505 original size:39 final size:39
Alignment explanation
Indices: 46378462--46378536 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
46378452 CATTTTGCGT
46378462 TGGTCTTTTGGGGCTACAACTATTTGGTTATGTCCTGAA
1 TGGTCTTTTGGGGCTACAACTATTTGGTTATGTCCTGAA
*
46378501 TGGTCTTTTGGGGCTGCAACTATTTGGTTATGTCCT
1 TGGTCTTTTGGGGCTACAACTATTTGGTTATGTCCT
46378537 AAATATCCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.15, C:0.16, G:0.27, T:0.43
Consensus pattern (39 bp):
TGGTCTTTTGGGGCTACAACTATTTGGTTATGTCCTGAA
Found at i:46380957 original size:26 final size:26
Alignment explanation
Indices: 46380928--46381010 Score: 148
Period size: 26 Copynumber: 3.2 Consensus size: 26
46380918 TGATACAAAT
46380928 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
46380954 TGATAATGGGTTAAGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
46380980 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
46381006 TGATA
1 TGATA
46381011 GGAATTTCAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:46382642 original size:27 final size:27
Alignment explanation
Indices: 46382602--46382760 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
46382592 AGGAAGCGTC
*
46382602 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
46382629 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
46382655 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
46382683 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
46382710 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
46382737 CTGGTGACTCCGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
46382761 GCAGCCTCGC
Statistics
Matches: 117, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
26 11 0.09
27 102 0.87
28 4 0.03
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:46382681 original size:54 final size:54
Alignment explanation
Indices: 46382599--46382760 Score: 256
Period size: 54 Copynumber: 3.0 Consensus size: 54
46382589 TGGAGGAAGC
46382599 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
46382653 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * * * *
46382707 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTGACTCCGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCT
46382760 G
1 G
46382761 GCAGCCTCGC
Statistics
Matches: 102, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
53 13 0.13
54 89 0.87
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:46382754 original size:81 final size:80
Alignment explanation
Indices: 46382602--46382760 Score: 214
Period size: 81 Copynumber: 2.0 Consensus size: 80
46382592 AGGAAGCGTC
* *
46382602 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAC
46382667 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
46382683 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
* *
46382746 CCGTCACAATATCTG
64 ACGCCACAATATCTG
46382761 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
80 16 0.23
81 53 0.77
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAC
GCCACAATATCTGAT
Found at i:46391501 original size:17 final size:18
Alignment explanation
Indices: 46391469--46391504 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
46391459 GGACACTGGG
46391469 ACACGCTCGTGTGTCTTCA
1 ACACGCTCG-GTGTCTTCA
46391488 ACACGCTC-GTGTCTTCA
1 ACACGCTCGGTGTCTTCA
46391505 GGCCGTGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.17, C:0.33, G:0.19, T:0.31
Consensus pattern (18 bp):
ACACGCTCGGTGTCTTCA
Found at i:46393432 original size:40 final size:40
Alignment explanation
Indices: 46393370--46393587 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
46393360 AAGCCAAGTA
* * * *
46393370 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
46393409 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
46393449 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
46393489 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
46393529 CCTTCGGGACTTAGCCCAGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
46393569 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
46393588 TTATCATCCA
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 13 0.08
40 147 0.92
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:46402962 original size:29 final size:29
Alignment explanation
Indices: 46402929--46402987 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
46402919 GATCATCATG
46402929 TAAGAATTCAGTTTAAGGAGCCCATTTAA
1 TAAGAATTCAGTTTAAGGAGCCCATTTAA
46402958 TAAGAATTCAGTTTAAGGAGCCCATTTAA
1 TAAGAATTCAGTTTAAGGAGCCCATTTAA
46402987 T
1 T
46402988 TCCTTTGGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (29 bp):
TAAGAATTCAGTTTAAGGAGCCCATTTAA
Found at i:46404876 original size:29 final size:29
Alignment explanation
Indices: 46404816--46404912 Score: 95
Period size: 31 Copynumber: 3.2 Consensus size: 29
46404806 AAGTTTCAAT
* * *
46404816 TATATATTTAAACCACAATTAAAGTTTTATA
1 TATATAATTATACCA-AATTAAA-ATTTATA
* *
46404847 TGTATAATTGTACCAAATTAAAATTTATA
1 TATATAATTATACCAAATTAAAATTTATA
* *
46404876 TATATAATTATACATTAAATCAAAATTTATA
1 TATATAATTATAC--CAAATTAAAATTTATA
46404907 TATATA
1 TATATA
46404913 TTTTTAGATT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
29 17 0.31
30 7 0.13
31 31 0.56
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (29 bp):
TATATAATTATACCAAATTAAAATTTATA
Found at i:46419041 original size:47 final size:47
Alignment explanation
Indices: 46418982--46419657 Score: 1075
Period size: 47 Copynumber: 14.4 Consensus size: 47
46418972 GATGTACAAG
*
46418982 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
46419029 GTGTATATATGTGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAA
*
46419076 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
46419123 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
46419170 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
46419217 GTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
46419264 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * *
46419311 TTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
46419358 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
46419405 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
46419452 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * * *
46419499 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * * * *
46419546 GTTTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * *
46419593 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
46419640 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
46419658 TCCCGAAGGG
Statistics
Matches: 582, Mismatches: 45, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
46 2 0.00
47 578 0.99
48 2 0.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
Found at i:46426239 original size:48 final size:49
Alignment explanation
Indices: 46426155--46426444 Score: 241
Period size: 48 Copynumber: 5.9 Consensus size: 49
46426145 ATGCTAGGGT
* *
46426155 TATGTGAGCTAGTGTAAGACCATGTTTGGAATATGGCATCGGCATT-GA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTAGA
* * * * ** *
46426203 TATGAGAGCTAGTGTAAGATCTTGTCTGGGACATGGCATCAAC-TTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTAGA
* * *
46426251 TAT-ATGAGCCAGTATAAGACCATGTTTGGAACATGGCATCGGCATTTATA
1 TATGA-GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA-TTAGA
* * * * ** *
46426301 TATGAGAGATAGAGTAAGACCATGTCTAGAACATGGTTTCGGCCTT-GA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTAGA
* * ** *
46426349 CATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCACCGATA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA-TTAGA
* * * *
46426399 TATGAGAG-TCAGTGCAAAACCATGTCTAGG-ACATGGCATAGGCATT
1 TATGAGAGCT-AGTGTAAGACCATGT-TTGGAACATGGCATCGGCATT
46426445 TTACCCTTTT
Statistics
Matches: 185, Mismatches: 48, Indels: 17
0.74 0.19 0.07
Matches are distributed among these distances:
47 3 0.02
48 106 0.57
49 3 0.02
50 69 0.37
51 4 0.02
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (49 bp):
TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTAGA
Found at i:46426357 original size:98 final size:96
Alignment explanation
Indices: 46426156--46426437 Score: 325
Period size: 98 Copynumber: 2.9 Consensus size: 96
46426146 TGCTAGGGTT
* *
46426156 ATGTGAGCTAGTGTAAGACCATGTTTGGAATATGGCATCGGCATT-GATATGAGAGCTAGTGTAA
1 ATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATATATGAGAG-TAGTGTAA
* * * *
46426220 GATCTTGTCTGGGACATGGCATCAACTTCGAT
65 GACCATGTCTAGGACATGGCATCAACTTCGAC
* * * *
46426252 ATATGAGCCAGTATAAGACCATGTTTGGAACATGGCATCGGCATTTATATATGAGAGATAGAGTA
1 ATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA-TTATATATGAGAG-TAGTGTA
* ** **
46426317 AGACCATGTCTAGAACATGGTTTCGGCCTT-GAC
64 AGACCATGTCTAGGACATGGCATC-AACTTCGAC
** *
46426350 ATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCACCGATATATGAGAGTCAGTGCA
1 ATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA-TTATATATGAGAGT-AGTGTA
*
46426415 AAACCATGTCTAGGACATGGCAT
64 AGACCATGTCTAGGACATGGCAT
46426438 AGGCATTTTA
Statistics
Matches: 154, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
96 39 0.25
97 3 0.02
98 109 0.71
99 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (96 bp):
ATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATATATGAGAGTAGTGTAAG
ACCATGTCTAGGACATGGCATCAACTTCGAC
Found at i:46427676 original size:21 final size:21
Alignment explanation
Indices: 46427636--46427674 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46427626 GCCGTGTGAG
46427636 CCACACGGGCGTGTCGCCCTT
1 CCACACGGGCGTGTCGCCCTT
*
46427657 CCACACGGGTGTGT-GCCC
1 CCACACGGGCGTGTCGCCC
46427675 CTGTTTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.10, C:0.41, G:0.31, T:0.18
Consensus pattern (21 bp):
CCACACGGGCGTGTCGCCCTT
Found at i:46441200 original size:26 final size:27
Alignment explanation
Indices: 46441136--46441214 Score: 99
Period size: 26 Copynumber: 3.0 Consensus size: 27
46441126 TTTTGTGTAA
46441136 ATTAAGATAATTAGAAATTTAAATTAT
1 ATTAAGATAATTAGAAATTTAAATTAT
* * *
46441163 ATTATGAAAATTA-AAATTTTAATT-T
1 ATTAAGATAATTAGAAATTTAAATTAT
*
46441188 AGTTAAGATAATTAGAAATCTAAATTA
1 A-TTAAGATAATTAGAAATTTAAATTA
46441215 ATAGGTTAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
25 2 0.05
26 20 0.48
27 20 0.48
ACGTcount: A:0.51, C:0.01, G:0.08, T:0.41
Consensus pattern (27 bp):
ATTAAGATAATTAGAAATTTAAATTAT
Found at i:46442520 original size:54 final size:53
Alignment explanation
Indices: 46442319--46442766 Score: 282
Period size: 54 Copynumber: 8.3 Consensus size: 53
46442309 GTATGAGAAA
* ** * *
46442319 GTTGCGGTCTTAAATTGGCAACTGCAAGATTTAG-AAATCTTGTAAGTATAAG
1 GTTGCGATCTTAAATCAGCAACCGCAAGATTCAGAAAATCTTGTAAGTATAAG
* * * * * **
46442371 GCTGGGATCTTAAAT-GGCGAGCCACAAGATTCTTAAAATCTTGTAAGTATAAG
1 GTTGCGATCTTAAATCAGC-AACCGCAAGATTCAGAAAATCTTGTAAGTATAAG
* * ** * ** *
46442424 GTAATTTGGGATCTTAAATCAATG-AGCAACAAGGTTTGGAAAATCTTGTAAGTATATG
1 G----TTGCGATCTTAAATC-A-GCAACCGCAAGATTCAGAAAATCTTGTAAGTATAAG
* *
46442482 GTTGAGATCTTAAATCAGCAACCAGTAAGATTCAGAAAATCTTGTAAGTATAAG
1 GTTGCGATCTTAAATCAGCAACC-GCAAGATTCAGAAAATCTTGTAAGTATAAG
* * * * * *
46442536 GTTTCGATCTTAAGTCAGTGAGCCACAAGATTC-GATAAACCTTGTAAGTATAAG
1 GTTGCGATCTTAAATCAG-CAACCGCAAGATTCAGA-AAATCTTGTAAGTATAAG
** * *
46442590 GTTGCGATCTTAAATCGAAAAATCGCAAGATTCAGAAAATCCTGTAAGTATAAG
1 GTTGCGATCTTAAATC-AGCAACCGCAAGATTCAGAAAATCTTGTAAGTATAAG
*** * * * *
46442644 GCAACGATCTTAAATC-GACTAGCTGCAAGATTCAAAAAATTTTGTAAG-AGTAAG
1 GTTGCGATCTTAAATCAG-C-AACCGCAAGATTCAGAAAATCTTGTAAGTA-TAAG
* * * * *
46442698 GTTGCGATCTTAAATCGGCAAATCGTAAGA-T-AGGAAAAATCCTATAAGTATAAG
1 GTTGCGATCTTAAATCAGC-AACCGCAAGATTCA-G-AAAATCTTGTAAGTATAAG
*
46442752 GTTGGGATCTTAAAT
1 GTTGCGATCTTAAAT
46442767 TAGTGAGCCG
Statistics
Matches: 307, Mismatches: 67, Indels: 42
0.74 0.16 0.10
Matches are distributed among these distances:
51 3 0.01
52 23 0.07
53 26 0.08
54 204 0.66
55 8 0.03
57 13 0.04
58 29 0.09
60 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (53 bp):
GTTGCGATCTTAAATCAGCAACCGCAAGATTCAGAAAATCTTGTAAGTATAAG
Found at i:46442790 original size:108 final size:108
Alignment explanation
Indices: 46442353--46442799 Score: 357
Period size: 108 Copynumber: 4.1 Consensus size: 108
46442343 CAAGATTTAG
* * *** ** * ** *
46442353 AAATCTTGTAAGTATAAGGCTGGGATCTTAAAT-GGCGAGCCACAAGATTCTTAAAATCTTGTAA
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGAAAAATCGCAAGATTCAGAAAATCCTGTAA
** * ** * * *
46442417 GTATAAGGTAATTTGGGATCTTAAATCAATGAGCAACAAGGTTTGGA
66 GTATAAGG----TTACGATCTTAAATCAGTGAGCCGCAAGATTCGAA
* * ** * * *
46442464 AAATCTTGTAAGTATATGGTTGAGATCTTAAATC-AGCAACCAGTAAGATTCAGAAAATCTTGTA
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGAAAAATC-GCAAGATTCAGAAAATCCTGTA
* * * *
46442528 AGTATAAGGTTTCGATCTTAAGTCAGTGAGCCACAAGATTCGAT
65 AGTATAAGGTTACGATCTTAAATCAGTGAGCCGCAAGATTCGAA
*
46442572 AAACCTTGTAAGTATAAGGTTGCGATCTTAAATCGAAAAATCGCAAGATTCAGAAAATCCTGTAA
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGAAAAATCGCAAGATTCAGAAAATCCTGTAA
** * * *
46442637 GTATAAGGCAACGATCTTAAATCGACT-AGCTGCAAGATTCAAA
66 GTATAAGGTTACGATCTTAAATC-AGTGAGCCGCAAGATTCGAA
* ** * *
46442680 AAATTTTGTAAG-AGTAAGGTTGCGATCTTAAATCGGCAAATCGTAAGA-T-AGGAAAAATCCTA
1 AAATCTTGTAAGTA-TAAGGTTGCGATCTTAAATCGAAAAATCGCAAGATTCA-G-AAAATCCTG
** * * *
46442742 TAAGTATAAGGTTGGGATCTTAAATTAGTGAGCCGTAAGACTCGAA
63 TAAGTATAAGGTTACGATCTTAAATCAGTGAGCCGCAAGATTCGAA
46442788 AAATCTTGTAAG
1 AAATCTTGTAAG
46442800 CAATGAATTG
Statistics
Matches: 274, Mismatches: 54, Indels: 19
0.79 0.16 0.05
Matches are distributed among these distances:
106 1 0.00
107 5 0.02
108 202 0.74
109 6 0.02
111 33 0.12
112 27 0.10
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (108 bp):
AAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGAAAAATCGCAAGATTCAGAAAATCCTGTAA
GTATAAGGTTACGATCTTAAATCAGTGAGCCGCAAGATTCGAA
Found at i:46447196 original size:40 final size:41
Alignment explanation
Indices: 46447097--46447202 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 41
46447087 TTAACTGGAC
*
46447097 ATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGAT
1 ATAAGCAACTCGCACAAATGCCTTCGGGTCATAGCCCGGAT
* * * *
46447137 ATAATC-CCTAGCATAAATGCCTTCGGGTCATAGCCCGGAT
1 ATAAGCAACTCGCACAAATGCCTTCGGGTCATAGCCCGGAT
*
46447177 AT-AGCAACTCGCACGAATGCCTTCGG
1 ATAAGCAACTCGCACAAATGCCTTCGG
46447203 ATCTTAATTC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
39 2 0.04
40 52 0.95
41 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (41 bp):
ATAAGCAACTCGCACAAATGCCTTCGGGTCATAGCCCGGAT
Found at i:46453120 original size:40 final size:40
Alignment explanation
Indices: 46453074--46453237 Score: 222
Period size: 40 Copynumber: 4.1 Consensus size: 40
46453064 CGGGATTTAA
46453074 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
*
46453114 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
46453154 CCGGATATAATC-GCTAGCATAAATGCCTTCGGGTCATAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * * *
46453194 CCGGATATAGCAACTCGCACGAATGCCTTCAGATCTTAGT
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
46453234 CCGG
1 CCGG
46453238 TTATCATCCG
Statistics
Matches: 107, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 105 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:46455603 original size:42 final size:42
Alignment explanation
Indices: 46455533--46455670 Score: 143
Period size: 42 Copynumber: 3.2 Consensus size: 42
46455523 TCTTACATGT
* * *
46455533 AATCAAATATCAATGCCATTGTCCCAGACAAGGTCTTAAACAA
1 AATCAAATA-CGATGCCAATGTCCCAGACATGGTCTTAAACAA
46455576 AATCAAATACGATGCCAATGTCCCAGACATGGTCTTAAACGTAA
1 AATCAAATACGATGCCAATGTCCCAGACATGGTCTTAAAC--AA
** * * * * *
46455620 CTCTCAAAT-CGATGCCAACGTCCTAGACGTGATCTTACACAA
1 -AATCAAATACGATGCCAATGTCCCAGACATGGTCTTAAACAA
46455662 AATCAAATA
1 AATCAAATA
46455671 TCGAAAATCC
Statistics
Matches: 79, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
41 6 0.08
42 30 0.38
43 9 0.11
44 28 0.35
45 6 0.08
ACGTcount: A:0.39, C:0.25, G:0.13, T:0.23
Consensus pattern (42 bp):
AATCAAATACGATGCCAATGTCCCAGACATGGTCTTAAACAA
Found at i:46461039 original size:46 final size:46
Alignment explanation
Indices: 46460972--46461147 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
46460962 TATTTGGGCA
46460972 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
46461018 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* * *
46461065 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
46461111 CCCGATCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46461148 GCGAGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 65 0.60
47 31 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:46461127 original size:93 final size:93
Alignment explanation
Indices: 46460968--46461140 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
46460958 GGGATATTTG
* * *
46460968 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
46461033 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
46461061 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGATCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
46461126 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
46461141 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:46464127 original size:15 final size:15
Alignment explanation
Indices: 46464088--46464167 Score: 74
Period size: 15 Copynumber: 5.4 Consensus size: 15
46464078 GTATCTTGGG
*
46464088 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
46464103 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
46464118 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
* *
46464133 TTTCTCTA-TCTTAGA
1 TTTCTTTATTC-TGGA
*
46464148 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
46464162 TTTCTT
1 TTTCTT
46464168 GTTATCTTTG
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
14 9 0.18
15 40 0.78
16 2 0.04
ACGTcount: A:0.11, C:0.19, G:0.12, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:46466609 original size:46 final size:46
Alignment explanation
Indices: 46466556--46466731 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
46466546 TATTTGGGCA
46466556 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
46466602 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* * * * *
46466649 TCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * **
46466695 -CCCAATCTCATTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46466732 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 59 0.58
47 29 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:46466711 original size:93 final size:93
Alignment explanation
Indices: 46466552--46466722 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
46466542 GGAATATTTG
* * *
46466552 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAG
46466617 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
46466645 GGCATCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACG-CCCAATCTCATTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCATTGA
46466709 GTTGAGTCCGAGTT
65 GTTGAGTCCGAGTT
46466723 TGCTTATGGG
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 4 0.06
93 66 0.94
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:46474786 original size:42 final size:41
Alignment explanation
Indices: 46474686--46474854 Score: 146
Period size: 43 Copynumber: 4.0 Consensus size: 41
46474676 AGTTCGTACA
* * * * *
46474686 ATGCCAATGTCCCAGACGTGGTTTTATATGTAATCAAATATCG
1 ATGCC-ATGTCCCAGACATGGTCTTACACGAAATCAAATA-CG
* *
46474729 ATGCCACTATCCCAGACAAGGTCTTACACGAAATCAAATACG
1 ATGCCA-TGTCCCAGACATGGTCTTACACGAAATCAAATACG
*
46474771 ATGCCGATGTCCCAGACGTGGTCTTACACGTAAATCTCAAAT-CG
1 ATGCC-ATGTCCCAGACATGGTCTTACACG-AAA--TCAAATACG
*
46474815 ATGCCAACGTCCCA-A-ATGTGATCTTACACGAAATCAAATA
1 ATGCC-ATGTCCCAGACATG-G-TCTTACACGAAATCAAATA
46474855 TCGAAAATTC
Statistics
Matches: 105, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
41 6 0.06
42 30 0.29
43 40 0.38
44 23 0.22
45 6 0.06
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (41 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAATCAAATACG
Found at i:46474840 original size:44 final size:44
Alignment explanation
Indices: 46474750--46474849 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 44
46474740 CCAGACAAGG
* * * *
46474750 TCTTACACGAAA--TCAAATACGATGCCGATGTCCCAGACGTGG
1 TCTTACACGAAATCTCAAATACGATGCCAACGTCCCAAACGTGA
*
46474792 TCTTACACGTAAATCTCAAAT-CGATGCCAACGTCCCAAATGTGA
1 TCTTACACG-AAATCTCAAATACGATGCCAACGTCCCAAACGTGA
46474836 TCTTACACGAAATC
1 TCTTACACGAAATC
46474850 AAATATCGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
42 9 0.18
43 8 0.16
44 27 0.54
45 6 0.12
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (44 bp):
TCTTACACGAAATCTCAAATACGATGCCAACGTCCCAAACGTGA
Found at i:46477508 original size:30 final size:30
Alignment explanation
Indices: 46477470--46477533 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
46477460 AACTTATTTT
46477470 ATTT-TTAATTTTGTTATTATTTTAAAGGC
1 ATTTGTTAATTTTGTTATTATTTTAAAGGC
* * *
46477499 ATTTGTTAATTTTTTTATTATTTTAGAGGT
1 ATTTGTTAATTTTGTTATTATTTTAAAGGC
46477529 ATTTG
1 ATTTG
46477534 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 4 0.13
30 27 0.87
ACGTcount: A:0.25, C:0.02, G:0.12, T:0.61
Consensus pattern (30 bp):
ATTTGTTAATTTTGTTATTATTTTAAAGGC
Found at i:46478538 original size:34 final size:34
Alignment explanation
Indices: 46478495--46478562 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
46478485 TTAAACTTTT
46478495 GTACATTTTTCAATTTAGTCCCTATTATCATGTA
1 GTACATTTTTCAATTTAGTCCCTATTATCATGTA
46478529 GTACATTTTTCAATTTAGTCCCTATTATCATGTA
1 GTACATTTTTCAATTTAGTCCCTATTATCATGTA
46478563 ATTTATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (34 bp):
GTACATTTTTCAATTTAGTCCCTATTATCATGTA
Found at i:46478547 original size:17 final size:17
Alignment explanation
Indices: 46478495--46478547 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
46478485 TTAAACTTTT
46478495 GTACATTTTTCAATTTA
1 GTACATTTTTCAATTTA
* * * *
46478512 GTCCCTATTATC-ATGTA
1 GTACAT-TTTTCAATTTA
46478529 GTACATTTTTCAATTTA
1 GTACATTTTTCAATTTA
46478546 GT
1 GT
46478548 CCCTATTATC
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
16 4 0.15
17 18 0.69
18 4 0.15
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.49
Consensus pattern (17 bp):
GTACATTTTTCAATTTA
Found at i:46478571 original size:34 final size:34
Alignment explanation
Indices: 46478496--46478574 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
46478486 TAAACTTTTG
*
46478496 TACATTTTTCAATTTAGTCCCTATTATCATGTAG
1 TACATTTTTCAATTTAGTCCCTATTATCATGTAA
46478530 TACATTTTTCAATTTAGTCCCTATTATCATGTAA
1 TACATTTTTCAATTTAGTCCCTATTATCATGTAA
**
46478564 TTTATTTTTCA
1 TACATTTTTCA
46478575 CCATATAAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.27, C:0.16, G:0.06, T:0.51
Consensus pattern (34 bp):
TACATTTTTCAATTTAGTCCCTATTATCATGTAA
Found at i:46487238 original size:29 final size:29
Alignment explanation
Indices: 46487201--46487278 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
46487191 AAAATAGTAG
* *
46487201 TTAAACTAATTAAATTACTTAAACTAAAA
1 TTAACCTAATTAAATTAATTAAACTAAAA
* *
46487230 TTAACCTAATTGAATTAATTAATCTAAAA
1 TTAACCTAATTAAATTAATTAAACTAAAA
*
46487259 -TAACCTAATGAAATTAATTA
1 TTAACCTAATTAAATTAATTA
46487279 GTCTAAGGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 18 0.42
29 25 0.58
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (29 bp):
TTAACCTAATTAAATTAATTAAACTAAAA
Found at i:46487290 original size:28 final size:27
Alignment explanation
Indices: 46487213--46487284 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 27
46487203 AAACTAATTA
* *
46487213 AATTACTTAAACTAAAATTAACCTAATTG
1 AATTAATTAATCTAAAA-TAACCTAA-TG
46487242 AATTAATTAATCTAAAATAACCTAATG
1 AATTAATTAATCTAAAATAACCTAATG
*
46487269 AAATTAATTAGTCTAA
1 -AATTAATTAATCTAA
46487285 GGTAACTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.05
28 22 0.56
29 15 0.38
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.35
Consensus pattern (27 bp):
AATTAATTAATCTAAAATAACCTAATG
Found at i:46510444 original size:46 final size:47
Alignment explanation
Indices: 46510375--46510507 Score: 164
Period size: 46 Copynumber: 2.9 Consensus size: 47
46510365 ATAATCTCAC
* * * *
46510375 CCATAA-TGAACTCGGAACGCAACTCAACGAGCTCGGGTG-TTCGCAT
1 CCATAAGTAAACTCGGAACACAACTCAACGAGTTCGGATGCTT-GCAT
*
46510421 CCAT-ATTAAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCAT
1 CCATAAGTAAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCAT
* * *
46510467 CCATAAGTGAACTCGAAACACAACTCAATGAGTTCGGATGC
1 CCATAAGTAAACTCGGAACACAACTCAACGAGTTCGGATGC
46510508 CTCATAATTC
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
45 1 0.01
46 41 0.54
47 34 0.45
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.21
Consensus pattern (47 bp):
CCATAAGTAAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCAT
Found at i:46510500 original size:47 final size:47
Alignment explanation
Indices: 46510375--46510552 Score: 191
Period size: 47 Copynumber: 3.8 Consensus size: 47
46510365 ATAATCTCAC
* * *
46510375 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGGTG-TTCGCAT
1 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTCGCAT
* *
46510421 CCATATTAAACTCGGAACACAACTCAACGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTCGCAT
* * * **
46510467 CCATAAGTGAACTCGAAACACAACTCAATGAGTTCGGATGCCTCATAAT
1 CCATAA-TGAACTCGGAACACAACTCAACGAGTTCGGATGCTTC-GCAT
* * * *
46510516 TC-TCACGAACTCGGACCACAACTCAACGAGTTCGGAT
1 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGAT
46510553 CTCAATTTCC
Statistics
Matches: 110, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
46 43 0.39
47 62 0.56
48 2 0.02
49 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (47 bp):
CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTCGCAT
Found at i:46517826 original size:39 final size:40
Alignment explanation
Indices: 46517781--46517948 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
46517771 CGGGGTTTAG
* *
46517781 CCGGATATAACCACTCGCACA-AGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAGAGGCCTTCGGGACTTAAC
*** * * *
46517820 CCGGATATGGTCACTAGCATAGATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACAGAGGCCTTCGGGACTTAAC
** * * * **
46517860 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCACAGAGGCCTTCGGGA-CTTAAC
* ** * * * *
46517900 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCACAGAGGCCTTCGGGACTTAAC
46517941 CCGGATAT
1 CCGGATAT
46517949 CATTCGAGTA
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 19 0.18
40 59 0.55
41 27 0.25
42 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAGAGGCCTTCGGGACTTAAC
Found at i:46517851 original size:40 final size:40
Alignment explanation
Indices: 46517804--46517948 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
46517794 CTCGCACAAG
* * * * * *
46517804 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAGAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
46517844 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
46517884 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
46517925 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
46517949 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:46524082 original size:37 final size:37
Alignment explanation
Indices: 46524013--46524083 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 37
46524003 TTTAATTTAC
* *
46524013 AAGTATATAGTTATTTGTTATGTGAACAAAAATGAAT
1 AAGTATATAGTTATTTGATACGTGAACAAAAATGAAT
* * * *
46524050 AAGTGTATGGTTATTTGATACGTGTACGAAAATG
1 AAGTATATAGTTATTTGATACGTGAACAAAAATG
46524084 TAACAGCCCG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 28 1.00
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.37
Consensus pattern (37 bp):
AAGTATATAGTTATTTGATACGTGAACAAAAATGAAT
Found at i:46524962 original size:30 final size:30
Alignment explanation
Indices: 46524905--46524962 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
46524895 TTTTCGAGCA
* **
46524905 TAGGGGTAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
46524935 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
46524963 ACATGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:46525373 original size:47 final size:47
Alignment explanation
Indices: 46525302--46525562 Score: 241
Period size: 47 Copynumber: 5.6 Consensus size: 47
46525292 TGATTTGTGT
* *
46525302 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGC-CATAGTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCAGAGTATGAGA
* * *
46525348 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAG-ACGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTCAGAGTATGAGA
* * * *
46525396 GCCAGTGTAAGACATGTTTGGGACATGCACCGGCCTCGACAG-A-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTC-AGAGTATGAGA
* * * *
46525443 GCCAGTGTAAGACGTGTCTGGGACACGCATCGGCTAAGAGT-TG-TA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCAGAGTATGAGA
* ** * *
46525488 -CTAGTGTAAGACATGTCTGGGACATGCATTAGCAC-GCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCAGAG--TATGAGA
46525535 GCCAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
46525563 GCAACGACAA
Statistics
Matches: 176, Mismatches: 26, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
43 2 0.01
44 28 0.16
45 6 0.03
46 23 0.13
47 61 0.35
48 37 0.21
49 19 0.11
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCAGAGTATGAGA
Found at i:46527101 original size:95 final size:95
Alignment explanation
Indices: 46526938--46527216 Score: 398
Period size: 95 Copynumber: 2.9 Consensus size: 95
46526928 ACTGGTGGTG
* * * *
46526938 GATACCTCACCGATGGCTAAGATCATGCATATATTGCAGATTCTTCATAGCTCGTGTGAGCAACA
1 GATACCTTACTGATGGCTAAGATCCTGCATATATTGCAGATTCTTCATAGCTCGTGTGAGCAGCA
* *
46527003 TCGTGTAATAGTTAATGTCTCTATTTACTA
66 TCGTGTAATGGTTAATGTCTCAATTTACTA
* * *
46527033 GATACCTTACTGATGGCTAAGATCCTGCATATATTACGGATTCTTCACAGCTCGTGTGAGCAGCA
1 GATACCTTACTGATGGCTAAGATCCTGCATATATTGCAGATTCTTCATAGCTCGTGTGAGCAGCA
*
46527098 TCGTGTAATGGTTAATGTCTCAATTTTCTA
66 TCGTGTAATGGTTAATGTCTCAATTTACTA
* * * * * *
46527128 GATACCTTACTGATGGTTAAGATTCTGCATGTGTTGCAAATTCTTCATAGCTCGTGTGAGGAGCA
1 GATACCTTACTGATGGCTAAGATCCTGCATATATTGCAGATTCTTCATAGCTCGTGTGAGCAGCA
*
46527193 TTGTGTAATGGTTAATGTC-CAATT
66 TCGTGTAATGGTTAATGTCTCAATT
46527217 CACAGCTCAT
Statistics
Matches: 164, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
94 5 0.03
95 159 0.97
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (95 bp):
GATACCTTACTGATGGCTAAGATCCTGCATATATTGCAGATTCTTCATAGCTCGTGTGAGCAGCA
TCGTGTAATGGTTAATGTCTCAATTTACTA
Found at i:46528831 original size:17 final size:17
Alignment explanation
Indices: 46528787--46528832 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 17
46528777 GAAATACATG
*
46528787 GAAATG-ATGGTAT-AT
1 GAAATGAATGATATAAT
*
46528802 GAAAT-ACTGATATAAT
1 GAAATGAATGATATAAT
46528818 GAAATGAATGATATA
1 GAAATGAATGATATA
46528833 TGTTTATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 10 0.40
16 7 0.28
17 8 0.32
ACGTcount: A:0.48, C:0.02, G:0.20, T:0.30
Consensus pattern (17 bp):
GAAATGAATGATATAAT
Found at i:46537385 original size:26 final size:27
Alignment explanation
Indices: 46537348--46537451 Score: 133
Period size: 27 Copynumber: 4.0 Consensus size: 27
46537338 AAAACTGTGA
46537348 CGAAATACCCCCATAGGGTAAAATGAC
1 CGAAATACCCCCATAGGGTAAAATGAC
* * *
46537375 CTAAATA-CCCCATAAGATAAAATGAC
1 CGAAATACCCCCATAGGGTAAAATGAC
*
46537401 CGAAATACCCCCATAGGGTAAAATAAC
1 CGAAATACCCCCATAGGGTAAAATGAC
* *
46537428 CGAGATA--CCCTTAGGGTAAAATGA
1 CGAAATACCCCCATAGGGTAAAATGA
46537452 TTGTATTACC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
25 15 0.23
26 23 0.35
27 28 0.42
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.17
Consensus pattern (27 bp):
CGAAATACCCCCATAGGGTAAAATGAC
Done.