Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 163 of 325
Found at i:52604922 original size:43 final size:44
Alignment explanation
Indices: 52604856--52605026 Score: 156
Period size: 43 Copynumber: 4.0 Consensus size: 44
52604846 AGTTCGTACA
* ** *
52604856 ATGCCAAC-ATCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACTGTCCCAGACAAGGTCTTACATGAAATCAAATATCG
* * *
52604899 ATGCC-ACTATCCTAGACAAGGTCTTACACGAAATCAAATA-CG
1 ATGCCAACTGTCCCAGACAAGGTCTTACATGAAATCAAATATCG
* * * *
52604941 ATGCCGA-TGTCCCAAACATGGTCTTACATGTAAATCTCAA-ATCG
1 ATGCCAACTGTCCCAGACAAGGTCTTACATG-AAATC-AAATATCG
** *
52604985 ATGCCAAC-GTCCCAGACGGGGTCTTACATGAAATCACATATC
1 ATGCCAACTGTCCCAGACAAGGTCTTACATGAAATCAAATATC
52605027 AGAATCCTAT
Statistics
Matches: 104, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
42 28 0.27
43 47 0.45
44 29 0.28
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.24
Consensus pattern (44 bp):
ATGCCAACTGTCCCAGACAAGGTCTTACATGAAATCAAATATCG
Found at i:52606910 original size:50 final size:50
Alignment explanation
Indices: 52606792--52606978 Score: 216
Period size: 50 Copynumber: 3.7 Consensus size: 50
52606782 CTGGTATGCA
* * *
52606792 TAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTGGTACACG
**
52606841 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTGGTACACG
* * *** * * *
52606891 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTTGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCT-GGTACACG
*
52606942 TAGTAGCCTGCACTTAGTACTACACATGTGACCTCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCAC
52606979 AATAGATCAT
Statistics
Matches: 116, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 29 0.25
50 46 0.40
51 41 0.35
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTGGTACACG
Found at i:52606965 original size:101 final size:99
Alignment explanation
Indices: 52606792--52606978 Score: 277
Period size: 101 Copynumber: 1.9 Consensus size: 99
52606782 CTGGTATGCA
* *
52606792 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTGGTACACATAGTAGCCTGCACTTA
52606857 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGTGACCTCACCATCTAATACACG
* * * *
52606891 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTTGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG--TCT-GGTACACATAGTAGCCTGCAC
*
52606955 TTAGTACTACACATGTGACCTCAC
63 TTAGTACTACACACGTGACCTCAC
52606979 AATAGATCAT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 4 0.05
99 30 0.38
100 2 0.03
101 42 0.54
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTGGTACACATAGTAGCCTGCACTTA
GTACTACACACGTGACCTCACCATCTAATACACG
Found at i:52609161 original size:15 final size:15
Alignment explanation
Indices: 52609105--52609169 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
52609095 TAAAGATAAC
*
52609105 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
52609119 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
52609134 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
52609149 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
52609164 AAGAAA
1 AAGAAA
52609170 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:52609171 original size:30 final size:31
Alignment explanation
Indices: 52609105--52609173 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
52609095 TAAAGATAAC
*
52609105 AAGAAAACC-GAATAAAGAAATCCAAGATAG
1 AAGAAACCCAGAATAAAGAAATCCAAGATAG
52609135 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATAG
52609164 AAGAAACCCA
1 AAGAAACCCA
52609174 AGATACGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.61, C:0.17, G:0.13, T:0.09
Consensus pattern (31 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATAG
Found at i:52611929 original size:16 final size:19
Alignment explanation
Indices: 52611894--52611930 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
52611884 TCTAATACTA
52611894 TTTTACTACTAATGTTCAC
1 TTTTACTACTAATGTTCAC
52611913 TTTTAC-AC-AAT-TTCAC
1 TTTTACTACTAATGTTCAC
52611929 TT
1 TT
52611931 AATCCATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 2 0.11
19 6 0.33
ACGTcount: A:0.27, C:0.22, G:0.03, T:0.49
Consensus pattern (19 bp):
TTTTACTACTAATGTTCAC
Found at i:52612261 original size:50 final size:50
Alignment explanation
Indices: 52612132--52612328 Score: 213
Period size: 50 Copynumber: 3.9 Consensus size: 50
52612122 GCCGAAGCTA
* * **
52612132 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGAC-CAGTAG
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTCACCAG
*
52612181 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTCACCA-
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CTCACCAG
** * * *
52612231 TCTAATACACGTAGTAGCCTGCAGTTAGTACTACACACGTGA-TCA-CAG
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTCACCAG
* * *
52612279 TTTTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTCAC
1 -TCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CTCAC
52612329 AATAGATCAT
Statistics
Matches: 123, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
47 2 0.02
48 3 0.02
49 41 0.33
50 71 0.58
51 3 0.02
52 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTCACCAG
Found at i:52612315 original size:100 final size:98
Alignment explanation
Indices: 52612143--52612328 Score: 266
Period size: 100 Copynumber: 1.9 Consensus size: 98
52612133 CTGGTACGCA
* *
52612143 TAGTAGCCTGCACTTAGTACTACACATGCGACCAGTAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAGTA-TCTGGTACACATAGTAGCCTGCACTTA
*
52612208 GTACTACACATGTGACCTCACCATCTAATACACG
65 GTACTACACATGCGACCTCACCATCTAATACACG
* * * *
52612242 TAGTAGCCTGCAGTTAGTACTACACACGTGATCACAGT-TTTGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAGTATCT-GGTACACATAGTAGCCTGCACT
52612306 TAGTACTACACATGCGACCTCAC
63 TAGTACTACACATGCGACCTCAC
52612329 AATAGATCAT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
99 30 0.39
100 43 0.56
101 4 0.05
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAGTATCTGGTACACATAGTAGCCTGCACTTAG
TACTACACATGCGACCTCACCATCTAATACACG
Found at i:52616339 original size:32 final size:31
Alignment explanation
Indices: 52616280--52616339 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 31
52616270 GAACAGTTTA
* *
52616280 TTTTTATTAATTTAGACATTTTTATTTTATT
1 TTTTTATTAATTTAGACATTCTAATTTTATT
**
52616311 TTTTTAGTTAATTTTTACATTCTAATTTT
1 TTTTTA-TTAATTTAGACATTCTAATTTT
52616340 TCTTTTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 6 0.25
32 18 0.75
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (31 bp):
TTTTTATTAATTTAGACATTCTAATTTTATT
Found at i:52620001 original size:7 final size:7
Alignment explanation
Indices: 52619983--52620028 Score: 60
Period size: 7 Copynumber: 6.7 Consensus size: 7
52619973 TTACCCTTTG
52619983 TATTTAAT
1 TATTT-AT
52619991 TATTTAT
1 TATTTAT
52619998 TATTTAT
1 TATTTAT
52620005 TATTTAT
1 TATTTAT
*
52620012 AATTT-T
1 TATTTAT
52620018 TA-TTAT
1 TATTTAT
52620024 TATTT
1 TATTT
52620029 CATTTATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
5 2 0.06
6 5 0.15
7 22 0.65
8 5 0.15
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TATTTAT
Found at i:52620133 original size:19 final size:18
Alignment explanation
Indices: 52620099--52620155 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
52620089 TCAAGTTGTT
52620099 TTTCTTTCTATTATTTTA
1 TTTCTTTCTATTATTTTA
*
52620117 TTTCTTTACTGTTATTTTA
1 TTTCTTT-CTATTATTTTA
*
52620136 TTTCTTT-TAGTTATTATA
1 TTTCTTTCTA-TTATTTTA
52620154 TT
1 TT
52620156 GTTTCTTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.03
18 16 0.47
19 17 0.50
ACGTcount: A:0.18, C:0.09, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCTTTCTATTATTTTA
Found at i:52622130 original size:23 final size:23
Alignment explanation
Indices: 52622085--52622131 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
52622075 AGAATGAATT
**
52622085 TTTATTGATTTGGGATTTTTTTG
1 TTTATTGATTTGGGATTAATTTG
52622108 TTTATATG-TTTGGGATTAATTTG
1 TTTAT-TGATTTGGGATTAATTTG
52622131 T
1 T
52622132 AGATATTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.17, C:0.00, G:0.21, T:0.62
Consensus pattern (23 bp):
TTTATTGATTTGGGATTAATTTG
Found at i:52622137 original size:23 final size:23
Alignment explanation
Indices: 52622093--52622137 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
52622083 TTTTTATTGA
** **
52622093 TTTGGGATTTTTTTGTTTATATG
1 TTTGGGATTAATTTGTAGATATG
52622116 TTTGGGATTAATTTGTAGATAT
1 TTTGGGATTAATTTGTAGATAT
52622138 TTGTGCATTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.22, T:0.58
Consensus pattern (23 bp):
TTTGGGATTAATTTGTAGATATG
Found at i:52622849 original size:19 final size:19
Alignment explanation
Indices: 52622813--52622848 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
52622803 ATGGTTCTTG
52622813 ATTTATGCACTTGTTTTTA
1 ATTTATGCACTTGTTTTTA
*
52622832 ATTTA-GCATTTGTTTTT
1 ATTTATGCACTTGTTTTT
52622849 TTTTCTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.19, C:0.08, G:0.11, T:0.61
Consensus pattern (19 bp):
ATTTATGCACTTGTTTTTA
Found at i:52654743 original size:79 final size:80
Alignment explanation
Indices: 52654632--52654811 Score: 206
Period size: 79 Copynumber: 2.2 Consensus size: 80
52654622 GCTACTCGTT
* * * *
52654632 CAAAGGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAA-GCCTTCGGGACTTAGCCTGGAAT-TAGTAACTCACACAAATGCCTTC-GGATCTTAACCC
* *
52654695 GGATTTAGTAAC-TCGCA
63 GGATATAGTAACTTAGCA
* **
52654712 CCAATGCCTTCGGG-CTTAGCCTGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAGTCCGG
1 -CAAAGCCTTCGGGACTTAGCCTGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAACCCGG
*
52654776 ATATAGTCACTTAGCA
65 ATATAGTAACTTAGCA
52654792 CAAAGCCTTCGGGACTTAGC
1 CAAAGCCTTCGGGACTTAGC
52654812 TCGGACATCA
Statistics
Matches: 84, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
78 3 0.04
79 58 0.69
80 20 0.24
81 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCTGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:52654810 original size:40 final size:40
Alignment explanation
Indices: 52654632--52654816 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
52654622 GCTACTCGTT
* * * *
52654632 CAAAGGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * *
52654672 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* *
52654712 CCAATGCCTTCGGG-CTTAGCCTGGA-ATTAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACT-AGCA
* *
52654751 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
*
52654792 CAAA-GCCTTCGGGACTTAGCTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52654817 CATCATTCGA
Statistics
Matches: 121, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
38 2 0.02
39 29 0.24
40 79 0.65
41 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:52665839 original size:44 final size:44
Alignment explanation
Indices: 52665791--52666371 Score: 910
Period size: 44 Copynumber: 13.2 Consensus size: 44
52665781 CTCAGGAACA
52665791 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* * *
52665835 CCAAATCTGCTATCTTTGATCTGTTCTCCGCCAACACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* ** *
52665879 CCAAATCTGCTATCTTCGATTTGCTCTCTACCAATACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* *
52665923 CCAAATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGACA
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* * * *
52665967 CCAAATCTACTATCTTCGATCTACTCTCCGCCAACACAAAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
*
52666011 CCAAATTTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* * * *
52666055 CCAAATCTACTATCTTCGATCTACTCTTCGCCAATATAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* * *
52666099 CCAAATCTACTATCTTCGATCTGCTCTCTGCCAATACAGAGACA
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
*
52666143 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGAGG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
52666187 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
*
52666231 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* *
52666275 CCAAATCTGCTATCTTTGATCTGCTCTCTGCCAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
* *
52666319 CCAAATCTGCTATCTTCGATCTACTCTCCGCCACTACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
*
52666363 TCAAATCTG
1 CCAAATCTG
52666372 TCTGGTCTTA
Statistics
Matches: 488, Mismatches: 49, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 488 1.00
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.27
Consensus pattern (44 bp):
CCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACG
Found at i:52666754 original size:131 final size:131
Alignment explanation
Indices: 52666551--52667476 Score: 944
Period size: 131 Copynumber: 7.1 Consensus size: 131
52666541 TCGAGAAGAT
* * * * * *
52666551 AAGACCTACAATCCTCATCCCACTTCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATATGCT
1 AAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTGCT
** * * * * * * * *
52666616 TTGCTGCATCTTCAGGAAGCCAAGATTTATCGTCTTTGATTTGCCTCACTGTAACTTCAGGGAGA
66 TCACTGCAACTTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCCTCACTGCAACTTCAGGGAAA
*
52666681 T
131 C
* * * *
52666682 GAGATCTACAATCCTCAACCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTACT
1 AAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTGCT
* * * * **
52666747 TTACTGCAACATCAGGAAGCCTAGATTCGCCGTCTTCGATCTGCCCCACTATAA-TCTCAGGGAA
66 TCACTGCAACTTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCCTCACTGCAACT-TCAGGGAA
52666811 AC
130 AC
* * *
52666813 AAGATCTATAATCTTCAGCCTACTCCACTACAACCTTAGGGAGCTAGGA--TGCTTAAATCTGCT
1 AAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTGCT
* * * * * * * * *
52666876 TCGCTGCATCTTTAAGAAG-CTAAGATTTATCATCTTTGATTTGCCTCACTGCAACTTCAGGGAA
66 TCACTGCAACTTCAGGAAGCCT-AGATTCACCGTCTTCGATCTGCCTCACTGCAACTTCAGGGAA
*
52666940 GC
130 AC
* * * *
52666942 GAGATCTACAATCCTCAGCCTACTCCACTACAACTTTAGAGAGCTAAGACTTGCTTAAATATGCT
1 AAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTGCT
* * *
52667007 TCACTGCAACATCAGGAAGCCTAGATTCGCCGTCTTCGATCTGCCCCACTGCAA-TCTCAGGGAA
66 TCACTGCAACTTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCCTCACTGCAACT-TCAGGGAA
52667071 AC
130 AC
* *
52667073 AAGATCTATAATCTTCAGCCTACTCCACTACAACCTTAG-GAAGCTAGGA-TGGTGGCTTAAATC
1 AAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGAG-AGCTAGGACT--T-GCTTAAATC
* * ** *
52667136 TGCTTCACTGCAACTTCAGGAAGCTTAGATTCGCCGTCTTCGATC-GTTTCACTGCAACTTTAGG
62 TGCTTCACTGCAACTTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCCTCACTGCAACTTCAGG
52667200 GAAAC
127 GAAAC
* * * * * *
52667205 AAGATCT-GAATTTTTAGCCTACTCCATTACAACTTTAGGGAGCTAGG-TTGGTGGCTTAAATCT
1 AAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACT--T-GCTTAAATCT
* * * *
52667268 GCTTCACTGCAACTTCAGGAAGCTTAGATACACTGTCTTCGATCTGCTTCACTGCAACTTCAGGG
63 GCTTCACTGCAACTTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCCTCACTGCAACTTCAGGG
52667333 AAAC
128 AAAC
* * * * * *
52667337 GAGATCTGA-AAT-TTTAACCTACTGCACTACAACTTTAGGGAGCTAGG-TTGGTGGCTTAAATC
1 AAGATCT-ACAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACT--T-GCTTAAATC
* * ** *
52667399 TACTTCACTGCAACTTCAGGAAG-CTCAGATTCACCGTCTTCGATCTGCTTCACTTTAATTTCAG
62 TGCTTCACTGCAACTTCAGGAAGCCT-AGATTCACCGTCTTCGATCTGCCTCACTGCAACTTCAG
52667463 GGAAAC
126 GGAAAC
52667469 AAGATCTA
1 AAGATCTA
52667477 AAATTTTAGC
Statistics
Matches: 680, Mismatches: 97, Indels: 36
0.84 0.12 0.04
Matches are distributed among these distances:
128 2 0.00
129 101 0.15
130 5 0.01
131 346 0.51
132 171 0.25
133 55 0.08
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (131 bp):
AAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTGCT
TCACTGCAACTTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCCTCACTGCAACTTCAGGGAAA
C
Found at i:52667065 original size:260 final size:261
Alignment explanation
Indices: 52666576--52667476 Score: 1026
Period size: 260 Copynumber: 3.4 Consensus size: 261
52666566 CATCCCACTT
* * * * * *
52666576 CACTACAACTTTAGAGAGCTAGGACTTGCTTAAATATGCTTTGCTGCATCTTCAGGAAGCCAAGA
1 CACTACAACCTTAGGGAGCTAGGA-GTGCTTAAATCTGCTTCGCTGCATCTTCAGGAAGCTAAGA
* * *
52666641 TTTATCGTCTTTGATTTGCCTCACTGTAACTTCAGGG-AGATGAGATCTACAATCCTCAACCTAC
65 TTTATCGTCTTTGATTTGCCTCACTGCAACTTCAGGGAAG-CGAGATCTACAATCCTCAGCCTAC
* * *
52666705 TCCACTACAACTTTAGAGAGCTAGGACTTGCTTAAATCTACTTTACTGCAACATCAGGAAGCCTA
129 TCCACTACAACTTTAGAGAGCTAAGACTTGCTTAAATCTGCTTCACTGCAACATCAGGAAGCCTA
**
52666770 GATTCGCCGTCTTCGATCTGCCCCACTATAATCTCAGGGAAACAAGATCTATAATCTTCAGCCTA
194 GATTCGCCGTCTTCGATCTGCCCCACTGCAATCTCAGGGAAACAAGATCTATAATCTTCAGCCTA
52666835 CTC
259 CTC
* *
52666838 CACTACAACCTTAGGGAGCTAGGA-TGCTTAAATCTGCTTCGCTGCATCTTTAAGAAGCTAAGAT
1 CACTACAACCTTAGGGAGCTAGGAGTGCTTAAATCTGCTTCGCTGCATCTTCAGGAAGCTAAGAT
*
52666902 TTATCATCTTTGATTTGCCTCACTGCAACTTCAGGGAAGCGAGATCTACAATCCTCAGCCTACTC
66 TTATCGTCTTTGATTTGCCTCACTGCAACTTCAGGGAAGCGAGATCTACAATCCTCAGCCTACTC
*
52666967 CACTACAACTTTAGAGAGCTAAGACTTGCTTAAATATGCTTCACTGCAACATCAGGAAGCCTAGA
131 CACTACAACTTTAGAGAGCTAAGACTTGCTTAAATCTGCTTCACTGCAACATCAGGAAGCCTAGA
52667032 TTCGCCGTCTTCGATCTGCCCCACTGCAATCTCAGGGAAACAAGATCTATAATCTTCAGCCTACT
196 TTCGCCGTCTTCGATCTGCCCCACTGCAATCTCAGGGAAACAAGATCTATAATCTTCAGCCTACT
52667097 C
261 C
* * * *
52667098 CACTACAACCTTAGGAAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGCTTA
1 CACTACAACCTTAGGGAGCTAGGA--GT-GCTTAAATCTGCTTCGCTGCATCTTCAGGAAGCTAA
*** * * ** * * * * ** *
52667163 GATTCGCCGTCTTCGA-TCGTTTCACTGCAACTTTAGGGAAACAAGATCT-GAATTTTTAGCCTA
63 GATTTATCGTCTTTGATTTGCCTCACTGCAACTTCAGGGAAGCGAGATCTACAATCCTCAGCCTA
* * ** *
52667226 CTCCATTACAACTTTAGGGAGCT-AGGTTGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAG
128 CTCCACTACAACTTTAGAGAGCTAAGACT--T-GCTTAAATCTGCTTCACTGCAACATCAGGAAG
* * * * ** * *
52667290 CTTAGATACACTGTCTTCGATCTGCTTCACTGCAA-CTTCAGGGAAACGAGATCTGA-AAT-TTT
190 CCTAGATTCGCCGTCTTCGATCTGCCCCACTGCAATC-TCAGGGAAACAAGATCT-ATAATCTTC
* *
52667352 AACCTACTG
253 AGCCTACTC
* * * * * *
52667361 CACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTACTTCACTGCAACTTCAGGAAGCTCA
1 CACTACAACCTTAGGGAGCTAGG--AGT-GCTTAAATCTGCTTCGCTGCATCTTCAGGAAGCTAA
* * * * * ** * * *
52667426 GATTCACCGTCTTCGATCTGCTTCACTTTAATTTCAGGGAAACAAGATCTA
63 GATTTATCGTCTTTGATTTGCCTCACTGCAACTTCAGGGAAGCGAGATCTA
52667477 AAATTTTAGC
Statistics
Matches: 558, Mismatches: 67, Indels: 25
0.86 0.10 0.04
Matches are distributed among these distances:
260 241 0.43
261 5 0.01
262 53 0.09
263 112 0.20
264 146 0.26
265 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (261 bp):
CACTACAACCTTAGGGAGCTAGGAGTGCTTAAATCTGCTTCGCTGCATCTTCAGGAAGCTAAGAT
TTATCGTCTTTGATTTGCCTCACTGCAACTTCAGGGAAGCGAGATCTACAATCCTCAGCCTACTC
CACTACAACTTTAGAGAGCTAAGACTTGCTTAAATCTGCTTCACTGCAACATCAGGAAGCCTAGA
TTCGCCGTCTTCGATCTGCCCCACTGCAATCTCAGGGAAACAAGATCTATAATCTTCAGCCTACT
C
Found at i:52667451 original size:45 final size:44
Alignment explanation
Indices: 52667132--52667452 Score: 127
Period size: 43 Copynumber: 7.3 Consensus size: 44
52667122 TGGTGGCTTA
* *
52667132 AATCTGCTTCACTGCAACTTCAGGAAGCTTAGATTCGCCGTCTTC
1 AATCTGCTTCACTGCAACTTCAGGAAGC-TAGATTCACTGTCTTC
* * * * * * * *
52667177 GATC-GTTTCACTGCAACTTTAGGGAAACAAGATCTGAAT-T-TTT
1 AATCTGCTTCACTGCAACTTCA-GGAAGCTAGAT-TCACTGTCTTC
** * * * * * * * ** * *
52667220 AGCCTACTCCATTACAACTTTAGGGAGCTAGGTT-GGTGGCTTA
1 AATCTGCTTCACTGCAACTTCAGGAAGCTAGATTCACTGTCTTC
*
52667263 AATCTGCTTCACTGCAACTTCAGGAAGCTTAGATACACTGTCTTC
1 AATCTGCTTCACTGCAACTTCAGGAAGC-TAGATTCACTGTCTTC
* * * * *
52667308 GATCTGCTTCACTGCAACTTCAGGGAAACGAGATCTGAAAT-T-TT-
1 AATCTGCTTCACTGCAACTTCA-GGAAGCTAGAT-T-CACTGTCTTC
* * * * * * * ** * *
52667352 AACCTACTGCACTACAACTTTAGGGAGCTAGGTT-GGTGGCTTA
1 AATCTGCTTCACTGCAACTTCAGGAAGCTAGATTCACTGTCTTC
* *
52667395 AATCTACTTCACTGCAACTTCAGGAAGCTCAGATTCACCGTCTTC
1 AATCTGCTTCACTGCAACTTCAGGAAGCT-AGATTCACTGTCTTC
*
52667440 GATCTGCTTCACT
1 AATCTGCTTCACT
52667453 TTAATTTCAG
Statistics
Matches: 189, Mismatches: 72, Indels: 30
0.65 0.25 0.10
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 4 0.02
43 63 0.33
44 56 0.30
45 56 0.30
46 6 0.03
47 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTGCTTCACTGCAACTTCAGGAAGCTAGATTCACTGTCTTC
Found at i:52692809 original size:39 final size:41
Alignment explanation
Indices: 52692708--52692891 Score: 197
Period size: 39 Copynumber: 4.6 Consensus size: 41
52692698 TTGAATGATG
* *
52692708 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
52692748 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
52692788 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* * *
52692827 T-CGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
52692866 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52692892 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
38 9 0.07
39 51 0.41
40 51 0.41
41 12 0.10
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:52692905 original size:40 final size:40
Alignment explanation
Indices: 52692709--52692891 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
52692699 TGAATGATGT
* * * *
52692709 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
52692749 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
52692789 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
52692827 TCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
52692867 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
52692892 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 8 0.07
39 51 0.42
40 55 0.45
41 8 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:52692923 original size:79 final size:78
Alignment explanation
Indices: 52692760--52692924 Score: 199
Period size: 79 Copynumber: 2.1 Consensus size: 78
52692750 CGGACTAAGA
* * **
52692760 TCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTA
* *
52692825 AATCGGGTTAAGT
66 AATCCGGTTAAAT
* * *
52692838 CCCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAG
1 TCCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-
*
52692901 CTATATCCGGTTAAAT
63 CTAAATCCGGTTAAAT
52692917 TCCGAAGG
1 TCCGAAGG
52692925 TACGTGATTT
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
77 2 0.03
78 33 0.45
79 38 0.52
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
TCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTA
AATCCGGTTAAAT
Found at i:52700764 original size:79 final size:81
Alignment explanation
Indices: 52700628--52700812 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
52700618 TTGAATGATG
* *
52700628 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
52700692 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
52700707 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
52700769 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
52700787 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
52700813 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:52700826 original size:40 final size:40
Alignment explanation
Indices: 52700629--52700812 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
52700619 TGAATGATGT
* * * *
52700629 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
52700669 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
52700709 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
52700747 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
52700788 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
52700813 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:52700834 original size:79 final size:79
Alignment explanation
Indices: 52700681--52700845 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
52700671 GGACTAAGAT
* * **
52700681 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
52700746 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
52700760 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
52700823 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
52700839 CCGAAGG
1 CCGAAGG
52700846 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:52705980 original size:58 final size:58
Alignment explanation
Indices: 52705905--52706016 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 58
52705895 AAATTCACAT
* * *
52705905 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGACCCCTTTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATG-CCCCGTTAGGCCCAAATC
* * * *
52705963 ACCTGTATATGGGCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGCCCCGTTAGGCCCA
52706017 GTCACATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
58 33 0.72
59 13 0.28
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGCCCCGTTAGGCCCAAATC
Found at i:52705982 original size:29 final size:29
Alignment explanation
Indices: 52705908--52706016 Score: 105
Period size: 29 Copynumber: 3.8 Consensus size: 29
52705898 TTCACATACC
* * *
52705908 TGTATCTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* * *
52705936 T-TCATATGACCCCTTTAGGCCCAAATCACC
1 TGT-ATATG-GCCCATTAGGCCCAAATCACA
*
52705966 TGTATATGGGCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
52705995 TTTATATGGCCCGTTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
52706017 GTCACATTCA
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
27 1 0.02
28 5 0.08
29 46 0.72
30 11 0.17
31 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.28
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:52708599 original size:42 final size:41
Alignment explanation
Indices: 52708547--52708676 Score: 215
Period size: 42 Copynumber: 3.1 Consensus size: 41
52708537 TCTCGATATA
52708547 ATATATATCCAGGTTAAATGCCGCAGGCTTCGTGCTGGTAAT
1 ATATATATCCAGGTTAAAT-CCGCAGGCTTCGTGCTGGTAAT
52708589 ATATATATCCAGGTTAAATCCTGCAGGCTTCGTGCTGGTAAT
1 ATATATATCCAGGTTAAATCC-GCAGGCTTCGTGCTGGTAAT
* *
52708631 ATATATATCCAGGTTAAATCCCGCAGGCTTAGTGCTGGTACT
1 ATATATATCCAGGTTAAAT-CCGCAGGCTTCGTGCTGGTAAT
52708673 ATAT
1 ATAT
52708677 CCGGACTTAG
Statistics
Matches: 84, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
41 2 0.02
42 80 0.95
43 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (41 bp):
ATATATATCCAGGTTAAATCCGCAGGCTTCGTGCTGGTAAT
Found at i:52716354 original size:42 final size:42
Alignment explanation
Indices: 52716267--52716354 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
52716257 TCTCGATATA
* *
52716267 ATATATATCCAGGTTAAATCCCGCAGGCTTCATGCTGGTAAT
1 ATATATATCCAGGTTAAATCCCGCAGGCTTCATCCTAGTAAT
* *
52716309 ATATATATCCGGGTTAAATCCCGCAGGCTT-AGTCCTAGTACT
1 ATATATATCCAGGTTAAATCCCGCAGGCTTCA-TCCTAGTAAT
52716351 ATAT
1 ATAT
52716355 CCGGACTTAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 40 0.98
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (42 bp):
ATATATATCCAGGTTAAATCCCGCAGGCTTCATCCTAGTAAT
Found at i:52724155 original size:28 final size:29
Alignment explanation
Indices: 52724123--52724238 Score: 130
Period size: 29 Copynumber: 4.0 Consensus size: 29
52724113 TACCTGTATC
* *
52724123 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
52724151 TGGCCCCTTTAGGCCCAAATCACCTAT-ATA
1 TGG-CCCATTAGGCCCAAATCACAT-TCATA
52724181 TGGCCCATTAGGCCCAAATCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
** *
52724210 TGGCCTGTTAGGCCC-AATCACATCCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
52724238 T
1 T
52724239 TTATGCTTAC
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
28 17 0.23
29 45 0.60
30 12 0.16
31 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:52724221 original size:58 final size:56
Alignment explanation
Indices: 52724114--52724230 Score: 155
Period size: 58 Copynumber: 2.0 Consensus size: 56
52724104 AAATTCACAT
* * *
52724114 ACCTGTATCTGGCCCATTAAGCCCAATCATATTCATATGGCCCCTTTAGGCCCAAATC
1 ACCTATATATGGCCCATTAAGCCCAATCACATTCATATGG-CCCTTTAGGCCC-AATC
*
52724172 ACCTATATATGGCCCATTAGGCCCAAATCACATTCATATGG-CCTGTTAGGCCCAATC
1 ACCTATATATGGCCCATTAAGCCC-AATCACATTCATATGGCCCT-TTAGGCCCAATC
52724229 AC
1 AC
52724231 ATCCATATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
57 9 0.17
58 29 0.55
59 15 0.28
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (56 bp):
ACCTATATATGGCCCATTAAGCCCAATCACATTCATATGGCCCTTTAGGCCCAATC
Found at i:52725744 original size:9 final size:9
Alignment explanation
Indices: 52725730--52725761 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
52725720 AAATTCAAGA
52725730 TTTTGGGAT
1 TTTTGGGAT
52725739 TTTTGGG--
1 TTTTGGGAT
52725746 TTTTGGGAT
1 TTTTGGGAT
52725755 TTTTGGG
1 TTTTGGG
52725762 GCGTTACACG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.33
9 14 0.67
ACGTcount: A:0.06, C:0.00, G:0.38, T:0.56
Consensus pattern (9 bp):
TTTTGGGAT
Found at i:52725751 original size:16 final size:16
Alignment explanation
Indices: 52725730--52725761 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
52725720 AAATTCAAGA
52725730 TTTTGGGATTTTTGGG
1 TTTTGGGATTTTTGGG
52725746 TTTTGGGATTTTTGGG
1 TTTTGGGATTTTTGGG
52725762 GCGTTACACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.00, G:0.38, T:0.56
Consensus pattern (16 bp):
TTTTGGGATTTTTGGG
Found at i:52726930 original size:27 final size:27
Alignment explanation
Indices: 52726900--52727142 Score: 158
Period size: 27 Copynumber: 9.0 Consensus size: 27
52726890 AGAAATGCCT
* *
52726900 TCGACTTGTAAAATTACCAAAGTACCC
1 TCGATTTGTAAAATTACCAAAATACCC
* * * * ***
52726927 TCGATTTATAGAATCACTATTTTACCC
1 TCGATTTGTAAAATTACCAAAATACCC
** ***
52726954 TCGATTTACAAAATTACCATTTTACCC
1 TCGATTTGTAAAATTACCAAAATACCC
* *
52726981 TCGA-TTGTGAAATTACTAAAATACCCC
1 TCGATTTGTAAAATTACCAAAATA-CCC
* *
52727008 TAC-A-TGGTAGAATTACCAAAATACCC
1 T-CGATTTGTAAAATTACCAAAATACCC
*
52727034 -CTAGTTTGTAAAATTACCAAAATACCAC
1 TCGA-TTTGTAAAATTACCAAAATACC-C
* *
52727062 T-GGTTTGTGAAATTACCAAAATACCC
1 TCGATTTGTAAAATTACCAAAATACCC
**
52727088 TTAATTTGTAAAATTACCAAAATACCC
1 TCGATTTGTAAAATTACCAAAATACCC
**
52727115 -CTGATTTACAAAATTA-CAGAAATACCC
1 TC-GATTTGTAAAATTACCA-AAATACCC
52727142 T
1 T
52727143 TGACTTTCTA
Statistics
Matches: 170, Mismatches: 35, Indels: 21
0.75 0.15 0.09
Matches are distributed among these distances:
24 1 0.01
25 1 0.01
26 19 0.11
27 147 0.86
28 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (27 bp):
TCGATTTGTAAAATTACCAAAATACCC
Found at i:52727128 original size:81 final size:80
Alignment explanation
Indices: 52726951--52727142 Score: 219
Period size: 81 Copynumber: 2.4 Consensus size: 80
52726941 CACTATTTTA
*** *
52726951 CCCTCGATTTACAAAATTACCATTTTACCCTCGATTGTGAAATTACTAAAATACCCCTACATGGT
1 CCCT-GATTTACAAAATTACCAAAATACCCTCGATTGTGAAATTACCAAAATACCCCTACATGGT
*
52727016 AGAATTACCAAAATAC
65 AAAATTACCAAAATAC
** * * * *
52727032 CCCT-AGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCAAAATACCCTTA-ATTT
1 CCCTGA-TTTACAAAATTACCAAAATACC-CTCGATTGTGAAATTACCAAAATACCCCTACA-TG
52727095 GTAAAATTACCAAAATAC
63 GTAAAATTACCAAAATAC
52727113 CCCTGATTTACAAAATTA-CAGAAATACCCT
1 CCCTGATTTACAAAATTACCA-AAATACCCT
52727143 TGACTTTCTA
Statistics
Matches: 93, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
79 1 0.01
80 22 0.24
81 69 0.74
82 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (80 bp):
CCCTGATTTACAAAATTACCAAAATACCCTCGATTGTGAAATTACCAAAATACCCCTACATGGTA
AAATTACCAAAATAC
Found at i:52727129 original size:54 final size:54
Alignment explanation
Indices: 52727018--52727196 Score: 200
Period size: 54 Copynumber: 3.3 Consensus size: 54
52727008 TACATGGTAG
* * ***
52727018 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCACTGGTTTACAA
* *
52727072 AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCACTGGTTTACAA
* * * *
52727126 AATTA-CAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCCTT-AATTTGT-AAAATTACCA-AAATACCACTGGTTTACAA
*
52727182 AATTACTAAAATACC
1 AATTACCAAAATACC
52727197 ATTGGTTTGT
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
53 2 0.02
54 62 0.58
55 6 0.06
56 35 0.33
57 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCACTGGTTTACAA
Found at i:52727219 original size:27 final size:27
Alignment explanation
Indices: 52727018--52727204 Score: 119
Period size: 27 Copynumber: 6.9 Consensus size: 27
52727008 TACATGGTAG
** * **
52727018 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCATTGGTTTACAA
* ***
52727045 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCATTGGTTTACAA
* ** **
52727072 AATTACCAAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCATTGGTTTACAA
** *
52727099 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCATTGGTTTACAA
* *
52727126 AATTA-CAGAAATACCCTTGACTTT-CTAAA
1 AATTACCA-AAATACCATTG-GTTTAC--AA
*
52727155 AATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCATTGGTTTACAA
*
52727182 AATTACTAAAATACCATTGGTTT
1 AATTACCAAAATACCATTGGTTT
52727205 GTAGATTCAC
Statistics
Matches: 137, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.01
27 107 0.78
28 8 0.06
29 20 0.15
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCATTGGTTTACAA
Found at i:52727322 original size:27 final size:27
Alignment explanation
Indices: 52727258--52727322 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
52727248 ACCTCTAATA
*
52727258 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
52727285 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
52727312 GGTAAAATGAC
1 GGTAAAATGAC
52727323 GAATATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:52728218 original size:24 final size:25
Alignment explanation
Indices: 52728142--52728211 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
52728132 AGGAAGTGCT
* * * *
52728142 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
52728167 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
52728192 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
52728212 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:52728224 original size:24 final size:24
Alignment explanation
Indices: 52728167--52728238 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
52728157 TAGTTTACCG
52728167 AAAAG-GGCTTTGCCCCAGTTTATC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
52728191 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
52728215 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
52728239 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 19 0.46
25 22 0.54
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:52728480 original size:31 final size:31
Alignment explanation
Indices: 52728431--52728513 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
52728421 CGCTTACAGT
52728431 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
52728461 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
52728492 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
52728514 TCGAGACTGA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 16 0.31
31 36 0.69
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:52734362 original size:20 final size:20
Alignment explanation
Indices: 52734339--52734377 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
52734329 TAAACATGGT
52734339 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
52734359 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
52734378 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:52734489 original size:24 final size:24
Alignment explanation
Indices: 52734428--52734568 Score: 164
Period size: 24 Copynumber: 6.0 Consensus size: 24
52734418 GAGGAAGTGA
* * *
52734428 AAAAGGGTTTACGCCCCAATTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
52734451 TAAAGGG-TTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
52734474 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
* *
52734498 AAAAGGGCTTACGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
*
52734522 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
52734545 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
52734569 ATGATAAAGA
Statistics
Matches: 104, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
22 13 0.12
23 29 0.28
24 54 0.52
25 8 0.08
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:52773179 original size:54 final size:54
Alignment explanation
Indices: 52773116--52773222 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 54
52773106 ATAGGAATAG
52773116 TTAAGATACATATGTCATGACATAGGATTTTCGATATGTGATTTCATGTAAGAT
1 TTAAGATACATATGTCATGACATAGGATTTTCGATATGTGATTTCATGTAAGAT
*
52773170 TTAAGATACATATGTCATGACATAGGATTTTCGATATGTGATTTCGTGTAAGA
1 TTAAGATACATATGTCATGACATAGGATTTTCGATATGTGATTTCATGTAAGA
52773223 CCACGTTTGG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (54 bp):
TTAAGATACATATGTCATGACATAGGATTTTCGATATGTGATTTCATGTAAGAT
Found at i:52773256 original size:43 final size:43
Alignment explanation
Indices: 52773200--52773310 Score: 138
Period size: 44 Copynumber: 2.6 Consensus size: 43
52773190 CATAGGATTT
* *
52773200 TCGATATGTGATTTCGTGTAAGACCACGTTTGGGACGT-TGGCA
1 TCGATTTGTGATTTCGTGTAAGACCACGTTTGGGACATCT-GCA
* *
52773243 TCGATTTGAGATTTACGTGTAAGACCATGTTTGGGACATCTGCA
1 TCGATTTGTGATTT-CGTGTAAGACCACGTTTGGGACATCTGCA
52773287 TC-ATATT-TGATTTCGTGTAAGACC
1 TCGAT-TTGTGATTTCGTGTAAGACC
52773311 CTATCTTGGA
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
42 11 0.18
43 19 0.32
44 29 0.48
45 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.35
Consensus pattern (43 bp):
TCGATTTGTGATTTCGTGTAAGACCACGTTTGGGACATCTGCA
Found at i:52773288 original size:44 final size:43
Alignment explanation
Indices: 52773200--52773372 Score: 160
Period size: 43 Copynumber: 4.0 Consensus size: 43
52773190 CATAGGATTT
* *
52773200 TCGATATGTGATTTCGTGTAAGACCACGTTTGGGACGTTGGCA
1 TCGATTTGTGATTTCGTGTAAGACCACGTTTGGGACATTGGCA
* *
52773243 TCGATTTGAGATTTACGTGTAAGACCATGTTTGGGACATCT-GCA
1 TCGATTTGTGATTT-CGTGTAAGACCACGTTTGGGACAT-TGGCA
* *
52773287 TC-ATATT-TGATTTCGTGTAAGACC-C-TATCTTGGACAGTGGCA
1 TCGAT-TTGTGATTTCGTGTAAGACCACGT-T-TGGGACATTGGCA
* * * *
52773329 TTGATATT-TGATTACATGTAAGACCACGTCTGGGACATTGGCA
1 TCGAT-TTGTGATTTCGTGTAAGACCACGTTTGGGACATTGGCA
52773372 T
1 T
52773373 TGTACGAGCT
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 21 0.20
43 51 0.48
44 30 0.28
45 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (43 bp):
TCGATTTGTGATTTCGTGTAAGACCACGTTTGGGACATTGGCA
Found at i:52773328 original size:86 final size:85
Alignment explanation
Indices: 52773203--52773366 Score: 192
Period size: 86 Copynumber: 1.9 Consensus size: 85
52773193 AGGATTTTCG
*
52773203 ATATGTGATTTCGTGTAAGACCACGTTTGGGACGTTGGCATCGAT-TTGAGATTTACGTGTAAGA
1 ATATGTGATTTCGTGTAAGACCACGTTTGGGACGTTGGCATCGATATT-AGA-TTACATGTAAGA
* *
52773267 CCATGTTTGGGACATCTGCATC
64 CCACGTCTGGGACATCTGCATC
* * * *
52773289 ATATTTGATTTCGTGTAAGACC-C-TATCTTGGACAG-TGGCATTGATATTTGATTACATGTAAG
1 ATATGTGATTTCGTGTAAGACCACGT-T-TGGGAC-GTTGGCATCGATATTAGATTACATGTAAG
52773351 ACCACGTCTGGGACAT
63 ACCACGTCTGGGACAT
52773367 TGGCATTGTA
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
84 1 0.01
85 26 0.39
86 37 0.55
87 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (85 bp):
ATATGTGATTTCGTGTAAGACCACGTTTGGGACGTTGGCATCGATATTAGATTACATGTAAGACC
ACGTCTGGGACATCTGCATC
Found at i:52773645 original size:29 final size:29
Alignment explanation
Indices: 52773581--52773646 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
52773571 CTTTCATTTA
* *
52773581 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATATACACT
* * *
52773610 TTTCTCAATTTAATCCCT-AATATGCATT
1 TTTCTCAATTTAACCCCTCAATATACACT
52773638 TTTACTCAA
1 TTT-CTCAA
52773647 AATCTCTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATATACACT
Found at i:52777358 original size:28 final size:29
Alignment explanation
Indices: 52777311--52777367 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
52777301 ACAAATTAAG
52777311 TCGACTAATCCGATACTTTC-ATTTTCCC
1 TCGACTAATCCGATACTTTCGATTTTCCC
*
52777339 TCGATCTAGATCCGA-A-TTTCGCTTTTCCC
1 TCGA-CTA-ATCCGATACTTTCGATTTTCCC
52777368 AATCTAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
28 8 0.32
29 11 0.44
30 6 0.24
ACGTcount: A:0.19, C:0.32, G:0.11, T:0.39
Consensus pattern (29 bp):
TCGACTAATCCGATACTTTCGATTTTCCC
Found at i:52783702 original size:39 final size:39
Alignment explanation
Indices: 52783648--52783791 Score: 189
Period size: 39 Copynumber: 3.7 Consensus size: 39
52783638 TTCAGTGATG
*
52783648 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
52783687 TATATCCGAACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * *
52783726 TATATCCGGACTTAAGGTCCGTAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * * *
52783765 TATGTCCGGGCTAAAGTTCCGCAGGCT
1 TATATCCGGACTTAGGGTCCGCAGGCT
52783792 TCTAGCTGGT
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:52783800 original size:78 final size:78
Alignment explanation
Indices: 52783648--52783811 Score: 188
Period size: 78 Copynumber: 2.1 Consensus size: 78
52783638 TTCAGTGATG
* * * * * *
52783648 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAATTATATCCGAACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGAACTAAAGGTCCGCAGGC
*
52783713 TATGTGCTGGAAT
66 TATCTGCTGGAAT
* * ** *
52783726 TATATCCGGACTTAAGGTCCGTAGGCTACGTGCTGGAAATATGTCCGGGCTAAAGTTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGAACTAAAGGTCCGCAGGC
*
52783791 T-TCTAGCTGGTAT
66 TATCT-GCTGGAAT
52783804 TATA-CCGG
1 TATATCCGG
52783812 GTTTAAATTC
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
77 6 0.08
78 66 0.92
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGAACTAAAGGTCCGCAGGC
TATCTGCTGGAAT
Found at i:52790290 original size:39 final size:39
Alignment explanation
Indices: 52790236--52790351 Score: 214
Period size: 39 Copynumber: 3.0 Consensus size: 39
52790226 TTCAGTGATG
52790236 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
52790275 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* *
52790314 TATATCCGGACTTAAGGTCCGTAGGCTATGTGCTGGAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
52790352 ATATGTTCGG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:52790377 original size:78 final size:78
Alignment explanation
Indices: 52790236--52790426 Score: 201
Period size: 78 Copynumber: 2.5 Consensus size: 78
52790226 TTCAGTGATG
* * **
52790236 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
52790301 TATGTGCTGGAAT
66 TATGTGCTGGAAT
* * * *
52790314 TATATCCGGACTTAAGGTCCGTAGGCTATGTGCTGGAAATATGTTCGGGC-TAAAGTCCTGCAGG
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGTCC-GCAGG
* *
52790378 CT-TCGAGCTGGTAT
65 CTAT-GTGCTGGAAT
** **
52790392 TATA-CCGGGTTTAAATTCCCGCAGGCT-TGTGCTGG
1 TATATCCGGACTTAAGGT-CCGCAGGCTATGTGCTGG
52790427 TAATTGGTTT
Statistics
Matches: 95, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
77 24 0.25
78 71 0.75
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGTGCTGGAAT
Found at i:52793422 original size:30 final size:30
Alignment explanation
Indices: 52793388--52793448 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52793378 TCCTTAACTC
52793388 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
52793418 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
52793448 A
1 A
52793449 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:52799526 original size:68 final size:67
Alignment explanation
Indices: 52799454--52799601 Score: 176
Period size: 67 Copynumber: 2.2 Consensus size: 67
52799444 CATCATGTGT
* * * *
52799454 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC-AG-CA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
52799516 ATGTAG
62 ATGTAG
* * *
52799522 ACAAGAGAGCTACAGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
52799587 AG
66 AG
52799589 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
52799602 GAGATAAACT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 3 0.04
67 27 0.39
68 13 0.19
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:52807141 original size:18 final size:20
Alignment explanation
Indices: 52807112--52807151 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
52807102 TGTGGTTTAA
52807112 CCGTGTGCGGCCCACAT-AC
1 CCGTGTGCGGCCCACATGAC
52807131 CCGTG-GCGGCCCACATGAC
1 CCGTGTGCGGCCCACATGAC
52807150 CC
1 CC
52807152 AATTCAGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.15, C:0.45, G:0.28, T:0.12
Consensus pattern (20 bp):
CCGTGTGCGGCCCACATGAC
Found at i:52819037 original size:19 final size:20
Alignment explanation
Indices: 52819013--52819050 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
52819003 GGTACCACCA
52819013 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
52819032 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
52819051 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:52819395 original size:93 final size:93
Alignment explanation
Indices: 52819280--52819450 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
52819270 GCCCCTAAGT
*
52819280 GAACTCGGACTCAACTCAACGAGCTTAGG-CGTTCGCATCCATAAATGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTAGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
52819344 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * *
52819373 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTAGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
52819438 CGAGTTCGGATGC
66 CGAGTTCGGATGC
52819451 TCGACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTAGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52819447 original size:46 final size:46
Alignment explanation
Indices: 52819275--52819447 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
52819265 AACCCGCCCC
* * *
52819275 TAAGTGAACTCGGACTCAACTCAACGAGCTTAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCATCCA
* * *
52819321 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
52819369 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
52819414 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52819448 TGCTCGACCA
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 6 0.06
46 56 0.52
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:52819904 original size:30 final size:30
Alignment explanation
Indices: 52819870--52819929 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
52819860 ATTTAATACG
*
52819870 AACTTTAAAAAAATTACACTTTTTCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
52819900 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
52819930 GGCTCAGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.38
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:52820925 original size:30 final size:30
Alignment explanation
Indices: 52820891--52820951 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52820881 TCCTCAACTC
52820891 AAACTTTGGCAAAATTACAATTTTACCCCT
1 AAACTTTGGCAAAATTACAATTTTACCCCT
* * * * *
52820921 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTACCCCT
52820951 A
1 A
52820952 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTACCCCT
Found at i:52830653 original size:43 final size:43
Alignment explanation
Indices: 52830605--52830689 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
52830595 TACATACTAC
52830605 ATAACTAAAATTCAAAACTTTAATTTACCGAAACAATAACCGG
1 ATAACTAAAATTCAAAACTTTAATTTACCGAAACAATAACCGG
52830648 ATAACTAAAATTCAAAACTTTAATTTACCGAAACAATAACCG
1 ATAACTAAAATTCAAAACTTTAATTTACCGAAACAATAACCG
52830690 AATAGCGTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.26
Consensus pattern (43 bp):
ATAACTAAAATTCAAAACTTTAATTTACCGAAACAATAACCGG
Found at i:52833793 original size:27 final size:27
Alignment explanation
Indices: 52833754--52833823 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
52833744 CAGTATGGCA
** *
52833754 GCAAAGCTGCCAGTATTAGTATATGTG
1 GCAAAGCCACCAGTATCAGTATATGTG
*
52833781 GCAAAGCCACCAGTAACAGTATATGTG
1 GCAAAGCCACCAGTATCAGTATATGTG
* *
52833808 GCGAAGCCACAAGTAT
1 GCAAAGCCACCAGTAT
52833824 ATTACACTTC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.21
Consensus pattern (27 bp):
GCAAAGCCACCAGTATCAGTATATGTG
Found at i:52838401 original size:36 final size:36
Alignment explanation
Indices: 52838350--52838426 Score: 136
Period size: 36 Copynumber: 2.1 Consensus size: 36
52838340 TTCTAATGCT
*
52838350 CGTATTGGGCTTTGAGGGCCCAATCAAGGGAAGTTA
1 CGTATTGGGCCTTGAGGGCCCAATCAAGGGAAGTTA
52838386 CGTATTGGGCCTTGAGGGCCCAATCAAGGGAAGTTA
1 CGTATTGGGCCTTGAGGGCCCAATCAAGGGAAGTTA
*
52838422 TGTAT
1 CGTAT
52838427 GATCTCAGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (36 bp):
CGTATTGGGCCTTGAGGGCCCAATCAAGGGAAGTTA
Found at i:52839625 original size:19 final size:19
Alignment explanation
Indices: 52839586--52839622 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
52839576 TAGTATAGCC
52839586 ATTTAATTTGTCTTGAGTT
1 ATTTAATTTGTCTTGAGTT
52839605 ATTTAATTTGTCTT-AGTT
1 ATTTAATTTGTCTTGAGTT
52839623 TATACAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.59
Consensus pattern (19 bp):
ATTTAATTTGTCTTGAGTT
Found at i:52839634 original size:27 final size:28
Alignment explanation
Indices: 52839604--52839659 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
52839594 TGTCTTGAGT
** *
52839604 TATTTAATTTGTCTT-AGTTTATACAAC
1 TATTTAAAGTGTCTTAAGTTTAGACAAC
52839631 TATTTAAAGTGTCTTAAGTTTAGACAAC
1 TATTTAAAGTGTCTTAAGTTTAGACAAC
52839659 T
1 T
52839660 TAATTGCATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (28 bp):
TATTTAAAGTGTCTTAAGTTTAGACAAC
Found at i:52844217 original size:17 final size:16
Alignment explanation
Indices: 52844174--52844231 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
52844164 AATAATCTGT
52844174 TGAAAAAGCAAAAGAAAA
1 TGAAAAAG-AAAA-AAAA
* *
52844192 TCAACAAGAAAAAAGAA
1 TGAAAAAGAAAAAA-AA
52844209 TGAAAAAGAAAAAGAAA
1 TGAAAAAGAAAAA-AAA
*
52844226 AGAAAA
1 TGAAAA
52844232 TCTAGAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
16 2 0.06
17 24 0.73
18 7 0.21
ACGTcount: A:0.74, C:0.05, G:0.16, T:0.05
Consensus pattern (16 bp):
TGAAAAAGAAAAAAAA
Found at i:52845047 original size:22 final size:22
Alignment explanation
Indices: 52845022--52845065 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
52845012 TACTTTGACG
*
52845022 ATATTTTAATTTATAGTAAGTC
1 ATATTTTAATTTATAGCAAGTC
52845044 ATATTTTAATTTATAGCAAGTC
1 ATATTTTAATTTATAGCAAGTC
52845066 TTTGACTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (22 bp):
ATATTTTAATTTATAGCAAGTC
Found at i:52847462 original size:19 final size:19
Alignment explanation
Indices: 52847423--52847459 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
52847413 TAGTGCAGCC
*
52847423 ATTTAATTTGTCTTGAGTT
1 ATTTAATTTGTCATGAGTT
52847442 ATTTAATTTGTCAT-AGTT
1 ATTTAATTTGTCATGAGTT
52847460 TATACAGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57
Consensus pattern (19 bp):
ATTTAATTTGTCATGAGTT
Found at i:52847473 original size:46 final size:44
Alignment explanation
Indices: 52847341--52847474 Score: 108
Period size: 46 Copynumber: 2.9 Consensus size: 44
52847331 AATTAATGTA
* * * *
52847341 TCTTGAGTTTATTTAATATGTCTAAGTATATACGGCAATTAATATG
1 TCTTGAG-TTATTTAATTTGTCT-AGTTTATACAGCATTTAATATG
* * * * * *
52847387 TCTTAAGATAATTAATTTGTTCTA-ATTAGTGCAGCCATTTAATTTG
1 TCTTGAGTTATTTAATTTG-TCTAGTTTA-TACAG-CATTTAATATG
52847433 TCTTGAGTTATTTAATTTGTCATAGTTTATACAGCTATTTAA
1 TCTTGAGTTATTTAATTTGTC-TAGTTTATACAGC-ATTTAA
52847475 GGTATCTTAA
Statistics
Matches: 67, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
44 2 0.03
45 16 0.24
46 46 0.69
47 3 0.04
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (44 bp):
TCTTGAGTTATTTAATTTGTCTAGTTTATACAGCATTTAATATG
Found at i:52850050 original size:44 final size:45
Alignment explanation
Indices: 52849955--52850069 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 45
52849945 ACAGGACAGA
* **
52849955 ACAGAAATAAGCCATGTAAGTCCATATTAGAAATATGGGTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * *
52850001 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
**
52850045 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATAAGCCATGTAAGTCCAT
52850070 GTCAAAGACA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 34 0.58
46 25 0.42
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.28
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:52857667 original size:25 final size:25
Alignment explanation
Indices: 52857638--52857715 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
52857628 CTAATAGCCG
52857638 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ** *
52857663 ATGTGAT-AAGGCCTAA-TGGCT-G
1 ATGTGATGAATGTGAAAGTGTATAT
52857685 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
52857710 ATGTGA
1 ATGTGA
52857716 CAAGGCCGAG
Statistics
Matches: 36, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 13 0.36
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:52857751 original size:47 final size:47
Alignment explanation
Indices: 52857197--52857722 Score: 809
Period size: 47 Copynumber: 11.1 Consensus size: 47
52857187 GAAATGATAG
52857197 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* **
52857246 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACATGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
52857293 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
52857340 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
52857387 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
52857434 TAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * *
52857481 TAGGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * *
52857528 TAGGGTCTAATAGCCGATGTGATGAATGTGAAAGAGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * *
52857575 TAAGGCCTAATAGCCGACGTGATGAATTTGAAAGTGTATGTGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
52857622 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
52857669 TAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
52857716 CAAGGCC
1 TAAGGCC
52857723 GAGTGGCCAA
Statistics
Matches: 447, Mismatches: 30, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
47 412 0.92
49 35 0.08
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:52857941 original size:37 final size:37
Alignment explanation
Indices: 52857885--52857963 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
52857875 CCGAGCTCTA
* * *
52857885 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
52857922 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
52857959 AAGAC
1 AAGAC
52857964 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:52859952 original size:29 final size:28
Alignment explanation
Indices: 52859911--52859986 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 28
52859901 GACTGTAAAA
52859911 GTGATTGGGCCTAGTGGGCCATAT-AGAT
1 GTGATTGGGCCTAGTGGGCCATATGA-AT
*
52859939 GTGATTTGGGCCTAATGGGCCATATGAAT
1 GTGA-TTGGGCCTAGTGGGCCATATGAAT
*
52859968 GAGATTGGGCCTAGTGGGC
1 GTGATTGGGCCTAGTGGGC
52859987 TACAAGCATG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 18 0.42
29 24 0.56
30 1 0.02
ACGTcount: A:0.21, C:0.14, G:0.37, T:0.28
Consensus pattern (28 bp):
GTGATTGGGCCTAGTGGGCCATATGAAT
Found at i:52861612 original size:28 final size:28
Alignment explanation
Indices: 52861581--52861667 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
52861571 ATGTTTGAGA
52861581 ATGTTTGCGATAGGTGGATGTTTTGGAT
1 ATGTTTGCGATAGGTGGATGTTTTGGAT
**** *
52861609 ATGTACTTATTTTA--TGTATG-TTTGAGA-
1 ATGT--TTGCGATAGGTGGATGTTTTG-GAT
52861636 ATGTTTGCGATAGGTGGATGTTTTGGAT
1 ATGTTTGCGATAGGTGGATGTTTTGGAT
52861664 ATGT
1 ATGT
52861668 ATTAAAATTA
Statistics
Matches: 42, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
25 4 0.10
27 15 0.36
28 19 0.45
30 4 0.10
ACGTcount: A:0.21, C:0.03, G:0.30, T:0.46
Consensus pattern (28 bp):
ATGTTTGCGATAGGTGGATGTTTTGGAT
Found at i:52861641 original size:55 final size:55
Alignment explanation
Indices: 52861557--52861668 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
52861547 CTAAATTTGA
*
52861557 TACTTATTTTTTGTATGTTTGAGAATGTTTGCGATAGGTGGATGTTTTGGATATG
1 TACTTATTTTATGTATGTTTGAGAATGTTTGCGATAGGTGGATGTTTTGGATATG
52861612 TACTTATTTTATGTATGTTTGAGAATGTTTGCGATAGGTGGATGTTTTGGATATG
1 TACTTATTTTATGTATGTTTGAGAATGTTTGCGATAGGTGGATGTTTTGGATATG
52861667 TA
1 TA
52861669 TTAAAATTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.21, C:0.04, G:0.27, T:0.48
Consensus pattern (55 bp):
TACTTATTTTATGTATGTTTGAGAATGTTTGCGATAGGTGGATGTTTTGGATATG
Found at i:52861656 original size:27 final size:27
Alignment explanation
Indices: 52861571--52861658 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 27
52861561 TATTTTTTGT
52861571 ATGTTTGAGAATGTTTGCGATAGGTGG
1 ATGTTTGAGAATGTTTGCGATAGGTGG
**** *
52861598 ATGTTTTG-GATATGTACTTATTTTA--TGT
1 ATG-TTTGAGA-ATGT--TTGCGATAGGTGG
52861626 ATGTTTGAGAATGTTTGCGATAGGTGG
1 ATGTTTGAGAATGTTTGCGATAGGTGG
52861653 ATGTTT
1 ATGTTT
52861659 TGGATATGTA
Statistics
Matches: 44, Mismatches: 10, Indels: 14
0.65 0.15 0.21
Matches are distributed among these distances:
25 4 0.09
27 21 0.48
28 15 0.34
30 4 0.09
ACGTcount: A:0.22, C:0.03, G:0.30, T:0.45
Consensus pattern (27 bp):
ATGTTTGAGAATGTTTGCGATAGGTGG
Found at i:52863999 original size:29 final size:28
Alignment explanation
Indices: 52863959--52864038 Score: 117
Period size: 29 Copynumber: 2.8 Consensus size: 28
52863949 GACTGTAAAA
*
52863959 GTGATTGGGCCTAGTGGGCCATAT-AGAT
1 GTGATTGGGCCTAATGGGCCATATGA-AT
52863987 GTGATTCGGGCCTAATGGGCCATATGAAT
1 GTGATT-GGGCCTAATGGGCCATATGAAT
*
52864016 GAGATTGGGCCTAATGGGCCATA
1 GTGATTGGGCCTAATGGGCCATA
52864039 AGCATGCCTG
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
28 23 0.48
29 24 0.50
30 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.26
Consensus pattern (28 bp):
GTGATTGGGCCTAATGGGCCATATGAAT
Found at i:52868415 original size:48 final size:45
Alignment explanation
Indices: 52868221--52868435 Score: 192
Period size: 48 Copynumber: 4.7 Consensus size: 45
52868211 ATTTGTGTGC
* *
52868221 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACCTTATGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGG-CA-CGTA-GAGAGT
* * *
52868267 CAGTGTATGACCATGTCTGGGACATGGCATCAGCA-TTAAGACAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGT-AG--AGAGT
* * *
52868313 CTAGTGTAAGA-CATGTCTGAGACAT-GAATCGGCTACG-AGATGTGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGTAGA-GAGT
*
52868358 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACG--TAGA-GAGT
52868406 CAGTGTAAGACCATGTCTGGGACATGGCAT
1 CAGTGTAAGACCATGTCTGGGACATGGCAT
52868436 TGTCATTATA
Statistics
Matches: 143, Mismatches: 11, Indels: 28
0.79 0.06 0.15
Matches are distributed among these distances:
43 1 0.01
44 11 0.08
45 28 0.20
46 32 0.22
47 28 0.20
48 43 0.30
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTAGAGAGT
Found at i:52872676 original size:40 final size:40
Alignment explanation
Indices: 52872627--52872879 Score: 238
Period size: 40 Copynumber: 6.4 Consensus size: 40
52872617 CGGATACTAA
* * * *
52872627 CGGGTTAAGTCCCGAAGACATGTGTGCTAGTGATTAAT-TC
1 CGGGCTAAGTCCCGAAGGCAT-TGTGCGAGTGACTAATATC
* *
52872667 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC-AA-ATT
1 CGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTGACTAATATC
*
52872706 CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAT-TC
1 CGGGCTAAGTCCCGAAGGCATT-GTGCGAGTGACTAATATC
52872746 CGGGCTAAGTCCCGAAGGCATTGTGC-AGTTG-CT-ATATC
1 CGGGCTAAGTCCCGAAGGCATTGTGCGAG-TGACTAATATC
* * * *
52872784 CGGGCTAAGACCCGAAGGCATTTATGCTAGTGAC-CATATC
1 CGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTGACTAATATC
* * * *
52872824 CGGGCTAAAGACCCGAAGGCCTTGTGCGAGTG-GTTATATC
1 CGGGCT-AAGTCCCGAAGGCATTGTGCGAGTGACTAATATC
*
52872864 C-GGCTAAATCCCGAAG
1 CGGGCTAAGTCCCGAAG
52872880 ATACTTGGGT
Statistics
Matches: 183, Mismatches: 17, Indels: 28
0.80 0.07 0.12
Matches are distributed among these distances:
37 2 0.01
38 36 0.20
39 50 0.27
40 81 0.44
41 14 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTGTGCGAGTGACTAATATC
Found at i:52872763 original size:79 final size:79
Alignment explanation
Indices: 52872627--52872854 Score: 266
Period size: 79 Copynumber: 2.9 Consensus size: 79
52872617 CGGATACTAA
* * *
52872627 CGGGTTAAGTCCCGAAGACA-TGTGTGCTAGTGATTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTG-GTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCA-TTG
*
52872691 TGCGAGTTAC-AAATT
64 TGCGAGTTACTAAATC
* *
52872706 CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTGTG
1 CGGGCTAAGTCCCGAAGGCATTGGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTGTG
* *
52872771 C-AGTTGCTATATC
66 CGAGTTACTAAATC
* ** * * *
52872784 CGGGCTAAGACCCGAAGGCATTTATGCTAGTGAC-CATATCCGGGCTAAAGACCCGAAGGCCTTG
1 CGGGCTAAGTCCCGAAGGCATTGGTGCTAGTGACTAAT-TCCGGGCT-AAGTCCCGAAGGCATTG
52872848 TGCGAGT
64 TGCGAGT
52872855 GGTTATATCC
Statistics
Matches: 128, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
77 7 0.05
78 46 0.36
79 70 0.55
80 5 0.04
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (79 bp):
CGGGCTAAGTCCCGAAGGCATTGGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTGTG
CGAGTTACTAAATC
Found at i:52880890 original size:34 final size:33
Alignment explanation
Indices: 52880852--52880925 Score: 78
Period size: 34 Copynumber: 2.2 Consensus size: 33
52880842 CATCCTCTTT
52880852 GTTCTTGACCGAAAAATCAAAGG-AGAAGAAAGGA
1 GTTCTTG--CGAAAAATCAAAGGAAGAAGAAAGGA
***
52880886 GTTCTCTTGCTTCAAATCAAAGGAAGAAGAAAGGA
1 G-T-TCTTGCGAAAAATCAAAGGAAGAAGAAAGGA
52880921 GTTCT
1 GTTCT
52880926 CTTGCTTCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
33 3 0.09
34 13 0.38
35 13 0.38
36 5 0.15
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (33 bp):
GTTCTTGCGAAAAATCAAAGGAAGAAGAAAGGA
Found at i:52880921 original size:35 final size:34
Alignment explanation
Indices: 52880865--52880934 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 34
52880855 CTTGACCGAA
52880865 AAATCAAAGGAGAAGAAAGGAGTTCTCTTGCTTC
1 AAATCAAAGGAGAAGAAAGGAGTTCTCTTGCTTC
52880899 AAATCAAAGGAAGAAGAAAGGAGTTCTCTTGCTTC
1 AAATCAAAGG-AGAAGAAAGGAGTTCTCTTGCTTC
52880934 A
1 A
52880935 TGTTCGGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 10 0.29
35 25 0.71
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (34 bp):
AAATCAAAGGAGAAGAAAGGAGTTCTCTTGCTTC
Found at i:52882290 original size:40 final size:40
Alignment explanation
Indices: 52882204--52882293 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 40
52882194 GTGCCAGTTG
* *
52882204 CTATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGA
1 CTATATCCGGGCTAAGACCCGAAGGCACTTATGCGAGTGA
* * *
52882244 CCATATCCGGGCTAAAGACCCGAAGGC-CTTGTGCGAGTGG
1 CTATATCCGGGCT-AAGACCCGAAGGCACTTATGCGAGTGA
*
52882284 TTATATCCGG
1 CTATATCCGG
52882294 ATAAATCCCG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 29 0.69
41 13 0.31
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CTATATCCGGGCTAAGACCCGAAGGCACTTATGCGAGTGA
Found at i:52885890 original size:23 final size:23
Alignment explanation
Indices: 52885864--52885911 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
52885854 GAAGCATTTT
52885864 TACTATAAGTTAGCAATCTTTAA
1 TACTATAAGTTAGCAATCTTTAA
52885887 TACTATAAGTTAGCAATCTTTAA
1 TACTATAAGTTAGCAATCTTTAA
52885910 TA
1 TA
52885912 AAAAGAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (23 bp):
TACTATAAGTTAGCAATCTTTAA
Found at i:52896448 original size:12 final size:12
Alignment explanation
Indices: 52896431--52896455 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52896421 CCAACTCATT
52896431 TTCTCTTAGTTG
1 TTCTCTTAGTTG
52896443 TTCTCTTAGTTG
1 TTCTCTTAGTTG
52896455 T
1 T
52896456 AGTAGCCCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.16, T:0.60
Consensus pattern (12 bp):
TTCTCTTAGTTG
Found at i:52911245 original size:16 final size:16
Alignment explanation
Indices: 52911224--52911286 Score: 90
Period size: 16 Copynumber: 3.9 Consensus size: 16
52911214 CATTGTGATG
*
52911224 GAATAGGGCTGTAATT
1 GAATAGAGCTGTAATT
*
52911240 GAATAGAGTTGTAATT
1 GAATAGAGCTGTAATT
* *
52911256 GAATAGAGATGTAATA
1 GAATAGAGCTGTAATT
52911272 GAATAGAGCTGTAAT
1 GAATAGAGCTGTAAT
52911287 AAGCAATTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.40, C:0.03, G:0.27, T:0.30
Consensus pattern (16 bp):
GAATAGAGCTGTAATT
Found at i:52915941 original size:32 final size:32
Alignment explanation
Indices: 52915900--52915964 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
52915890 TTGCAATTTG
*
52915900 TTTTATATTTGCCCTTGGCTTTTACATCTATC
1 TTTTATATTTGCCCTTGGCCTTTACATCTATC
*
52915932 TTTTATATTTTCCCTTGGCCTTTACATCTATC
1 TTTTATATTTGCCCTTGGCCTTTACATCTATC
52915964 T
1 T
52915965 CATCATCTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.15, C:0.23, G:0.08, T:0.54
Consensus pattern (32 bp):
TTTTATATTTGCCCTTGGCCTTTACATCTATC
Found at i:52921815 original size:59 final size:62
Alignment explanation
Indices: 52921700--52921816 Score: 177
Period size: 62 Copynumber: 1.9 Consensus size: 62
52921690 AGTGATTATC
* * * *
52921700 TTAATATTAAATTTAATTTAATGTTTATTTTATAGATAAATATTTTATTAATTTAATAAAAT
1 TTAATATTAAATTTAATCTAATATTTATTCTATAGATAAATATTATATTAATTTAATAAAAT
52921762 TTAATATTAAATTTAATCTAATATTTA-TCT-T-GATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATTCTATAGATAAATATTATATTAATTTAATA
52921817 TTAAAGTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 23 0.45
60 1 0.02
61 2 0.04
62 25 0.49
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (62 bp):
TTAATATTAAATTTAATCTAATATTTATTCTATAGATAAATATTATATTAATTTAATAAAAT
Found at i:52925058 original size:43 final size:43
Alignment explanation
Indices: 52925010--52925125 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
52925000 TATCACATAT
* * *
52925010 CGATGCCACTGTCCCAGAC-TGGGTCTTACACGAAATCATAATA
1 CGATGCCAATGTCCCAGACAT-GGTCTTACACAAAATAATAATA
* *
52925053 CGATGCCAATATCCTTA-ACATGGTCTTACACAAAATAATAATA
1 CGATGCCAATGTCC-CAGACATGGTCTTACACAAAATAATAATA
*
52925096 CAATGCCAATGTCCCAGACATGGTCTTACA
1 CGATGCCAATGTCCCAGACATGGTCTTACA
52925126 TGTAATCAGA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
42 1 0.02
43 59 0.95
44 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACAAAATAATAATA
Found at i:52930159 original size:48 final size:48
Alignment explanation
Indices: 52930088--52930669 Score: 966
Period size: 48 Copynumber: 12.0 Consensus size: 48
52930078 CAAGATAAAT
52930088 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52930136 ATATGTATATATGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
*
52930186 ATATGTATTTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52930234 ATATCTATATGTGGTAAAGCCGAATGGCTAATGTGAAGTATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52930282 ATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
52930330 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
* *
52930380 ATATGTATTTATGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52930428 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGCAGTATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52930476 ATATGTAAATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
52930524 ATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
52930572 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
52930620 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
52930668 AT
1 AT
52930670 GTGTGTATAT
Statistics
Matches: 498, Mismatches: 32, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
48 405 0.81
49 8 0.02
50 85 0.17
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:52930417 original size:194 final size:194
Alignment explanation
Indices: 52930088--52930669 Score: 1024
Period size: 194 Copynumber: 3.0 Consensus size: 194
52930078 CAAGATAAAT
* *
52930088 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATATGGTAA
1 ATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
52930153 AGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATTTGTGGTAAAGCCGAATGGCTAAT
66 AGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATTTGTGGTAAAGCCGAATGGCTAAT
*
52930218 GTGAAATATGTATGAGATATCTATATGTGGTAAAGCCGAATGGCTAATGTGAAGTATGTATGAG
131 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAGTATGTATGAG
*
52930282 ATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATAAGATATGTATATGTGGTAA
1 ATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
*
52930347 AGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATTTATGGTAAAGCCGAATGGCTAAT
66 AGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATTTGTGGTAAAGCCGAATGGCTAAT
*
52930412 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGCAGTATGTATGAG
131 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAGTATGTATGAG
*
52930476 ATATGTAAATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
* * * *
52930541 AGTCGAATGGCTAATGTG-AA-ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGT
66 AGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATTTGTGGTAAAGCCGAATGGCTAAT
* * *
52930604 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
131 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAGTATGTATGAG
52930668 AT
1 AT
52930670 GTGTGTATAT
Statistics
Matches: 371, Mismatches: 17, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
192 101 0.27
193 2 0.01
194 268 0.72
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (194 bp):
ATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATTTGTGGTAAAGCCGAATGGCTAAT
GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAGTATGTATGAG
Found at i:52930917 original size:37 final size:37
Alignment explanation
Indices: 52930809--52930917 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
52930799 GGAAATATAT
*
52930809 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
52930846 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
52930883 TCTGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
52930918 CATCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:52933560 original size:27 final size:28
Alignment explanation
Indices: 52933476--52933573 Score: 144
Period size: 27 Copynumber: 3.5 Consensus size: 28
52933466 CATGAGATTG
* * *
52933476 GCACTAAGTGTGCGGGTTTAAATTGTATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
52933505 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
52933533 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
52933560 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
52933574 GACTTAATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
27 24 0.37
28 23 0.35
29 18 0.28
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:52933584 original size:27 final size:27
Alignment explanation
Indices: 52933501--52933587 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 27
52933491 GTTTAAATTG
*
52933501 TATAGCACTAAGTGTGCGAGTTTGATTA
1 TATAGCACTAAGTGTGCGA-CTTGATTA
*
52933529 TATAGCACTAAGTGTGCGAGTTGATTA
1 TATAGCACTAAGTGTGCGACTTGATTA
* *
52933556 TATAGCACTGAGTGTGCGGACTTAATATA
1 TATAGCACTAAGTGTGC-GACTTGAT-TA
52933585 TAT
1 TAT
52933588 TTTTGAATCA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.43
28 25 0.47
29 5 0.09
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.34
Consensus pattern (27 bp):
TATAGCACTAAGTGTGCGACTTGATTA
Found at i:52938117 original size:40 final size:40
Alignment explanation
Indices: 52938059--52938283 Score: 267
Period size: 40 Copynumber: 5.7 Consensus size: 40
52938049 GGATATAACC
* * * *
52938059 ACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * * *
52938098 ACTAGCATAAATGCCTTCGGGTCTTAGCCCGG-ATATAGCA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
*
52938138 ACTCGCACAGATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
52938178 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATTTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
52938218 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
52938258 ACTAGCACACATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
52938284 ACCCCGTTAG
Statistics
Matches: 163, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 6 0.04
40 155 0.95
41 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:52938283 original size:120 final size:119
Alignment explanation
Indices: 52938059--52938283 Score: 294
Period size: 120 Copynumber: 1.9 Consensus size: 119
52938049 GGATATAACC
* * * *
52938059 ACTCGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGTCTTA
1 ACTCGCACAAGGCCTTCGGGACTTAGCCCGGATATGGTAACTAGCACAAATGCCTTCGGGACTTA
* *
52938124 GCCCGGATATAGCAACTCGCACAGATGCCTTCGGGACTTAGCCCGGAATTAGTA
66 GCCCGGATATAGCAACTAGCACACATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
52938178 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGA-ATTTGTAACTCGCACAAATGCCTTCGGGACT
1 ACTCGCA-CAAGGCCTTCGGGACTTAGCCCGGATA-TGGTAACTAGCACAAATGCCTTCGGGACT
* *
52938242 TAGCCCGGA-ATTAATC-ACTAGCACACATGTCTTCGGGACTTA
64 TAGCCCGGATA-T-AGCAACTAGCACACATGCCTTCGGGACTTA
52938284 ACCCCGTTAG
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
119 9 0.10
120 80 0.88
121 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (119 bp):
ACTCGCACAAGGCCTTCGGGACTTAGCCCGGATATGGTAACTAGCACAAATGCCTTCGGGACTTA
GCCCGGATATAGCAACTAGCACACATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:52946359 original size:40 final size:40
Alignment explanation
Indices: 52946296--52946519 Score: 222
Period size: 40 Copynumber: 5.7 Consensus size: 40
52946286 GGATATAACC
* * * *
52946296 ACTCGCAC-AAGGCCTT-GGGTCTTAGCCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * * *
52946334 ACTAGCATAAATGCCTTCGGGTCTTAGCCCGG-ATATAGCA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * *
52946374 ACTCGCACAGATGCCTTTGCGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
52946414 ACTCGCACCAATGCCTTCGAGACTTAGCCCGGAATTTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
52946454 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
52946494 ACTAGCACACATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
52946520 ACCCCGTTAG
Statistics
Matches: 155, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
38 6 0.04
39 7 0.05
40 140 0.90
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:52946429 original size:80 final size:78
Alignment explanation
Indices: 52946271--52946519 Score: 227
Period size: 80 Copynumber: 3.2 Consensus size: 78
52946261 ACCCAAGTAT
* * * * * *
52946271 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCACAAGGCCTTGGGTCTTAGCCCGG-ATATGGT
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAATGCCTTTGGACTTAGCCCGGAAT-TAGT
* *
52946333 CACTAGCATAAATGC
64 AACTAGCACAAATGC
52946348 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAGATGCCTTTGCGACTTAGCCCGGAATTAGT
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACA-ATGCCTTTG-GACTTAGCCCGGAATTAGT
* *
52946413 AACTCGCACCAATGC
64 AACTAGCACAAATGC
* * * * * *
52946428 CTTCGAGACTTAGCCCGGA-ATTTGTAACTCGCACAAATGCCTTCAGGACTTAGCCCGGAATTAA
1 CTTCGGGTCTTAGCCCGGATA-TAGCAACTCGCAC-AATGCCTT-TGGACTTAGCCCGGAATTAG
* * *
52946492 TCACTAGCACACATGT
63 TAACTAGCACAAATGC
*
52946508 CTTCGGGACTTA
1 CTTCGGGTCTTA
52946520 ACCCCGTTAG
Statistics
Matches: 142, Mismatches: 22, Indels: 13
0.80 0.12 0.07
Matches are distributed among these distances:
76 1 0.01
77 11 0.08
78 19 0.13
79 8 0.06
80 99 0.70
81 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAATGCCTTTGGACTTAGCCCGGAATTAGTAA
CTAGCACAAATGC
Found at i:52951941 original size:28 final size:28
Alignment explanation
Indices: 52951888--52951947 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
52951878 AAATAGTTGG
* *
52951888 GCCTGATGGGCCATATGAATGTGATTGA
1 GCCTGATGGGCCATATGAACGAGATTGA
* * *
52951916 GCCTGATGGGCCATGTTAACGAGATTGG
1 GCCTGATGGGCCATATGAACGAGATTGA
52951944 GCCT
1 GCCT
52951948 AAAGAGGCCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (28 bp):
GCCTGATGGGCCATATGAACGAGATTGA
Found at i:52952292 original size:27 final size:27
Alignment explanation
Indices: 52952262--52952601 Score: 273
Period size: 27 Copynumber: 12.7 Consensus size: 27
52952252 ATAATAAAGA
* * *
52952262 AAAATTACCAAAATACCCCCGGTTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
* * * *
52952289 AAAATTATCGAAGTACCAC-CGTTTTTT
1 AAAATTACCGAAATACC-CTCGATTTGT
* *
52952316 AAAATTACGGAAGTA-CCTCGATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
* * *
52952342 AAAATTATCGAAATACCCCCAATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
*
52952369 AAAATTACCAAAATACCC-CTGA-TTGT
1 AAAATTACCGAAATACCCTC-GATTTGT
**
52952395 GAAAA-TATTGAAATACCCTCGATTTGT
1 -AAAATTACCGAAATACCCTCGATTTGT
* * *
52952422 GAAATTACCGAAACACTCAT-GATTTGT
1 AAAATTACCGAAATAC-CCTCGATTTGT
* * *
52952449 AAAATTAACAAAACACCCTCGATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
* *
52952476 AAAATT-CCGAAACACCCTCAATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
*
52952502 AAAATTATCGAAATACCCTCGATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
** ** * *
52952529 AAAATTATTGAACCACCCCCAATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
* * *
52952556 AAAATTATCGAAATACCCTTGTAGTT-T
1 AAAATTACCGAAATACCCTCG-ATTTGT
*
52952583 AAAATTATCGAAATACCCT
1 AAAATTACCGAAATACCCT
52952602 TATAGTGTAA
Statistics
Matches: 254, Mismatches: 47, Indels: 24
0.78 0.14 0.07
Matches are distributed among these distances:
25 1 0.00
26 64 0.25
27 183 0.72
28 6 0.02
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.30
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCGATTTGT
Found at i:52952400 original size:80 final size:80
Alignment explanation
Indices: 52952262--52952600 Score: 258
Period size: 80 Copynumber: 4.2 Consensus size: 80
52952252 ATAATAAAGA
* * * * * * * *
52952262 AAAATTACCAAAATACCCCCGGTTTGTAAAATTATCGAAGTACCACC-GTTTTTTAAAATTACGG
1 AAAATTACCGAAATACCCCCGATTTGTAAAATTAACAAAATACC-CCTG-ATTTGAAAATTACCG
*
52952326 AAGTA-CCTCGATTTGT
64 AAATACCCTCGATTTGT
* * * **
52952342 AAAATTATCGAAATACCCCCAATTTGTAAAATTACCAAAATACCCCTGATTGTGAAAA-TATTGA
1 AAAATTACCGAAATACCCCCGATTTGTAAAATTAACAAAATACCCCTGATT-TGAAAATTACCGA
52952406 AATACCCTCGATTTGT
65 AATACCCTCGATTTGT
* * * ** *
52952422 GAAATTACCGAAACACTCATGATTTGTAAAATTAACAAAACA-CCCTCGATTTGTAAAATT-CCG
1 AAAATTACCGAAATACCCCCGATTTGTAAAATTAACAAAATACCCCT-GATTTG-AAAATTACCG
* *
52952485 AAACACCCTCAATTTGT
64 AAATACCCTCGATTTGT
* * *** ** ** *
52952502 AAAATTATCGAAATACCCTCGATTTGTAAAATTATTGAACCACCCCCAATTTGTAAAATTATCGA
1 AAAATTACCGAAATACCCCCGATTTGTAAAATTAACAAAATACCCCTGATTTG-AAAATTACCGA
* *
52952567 AATACCCTTGTAGTT-T
65 AATACCCTCG-ATTTGT
*
52952583 AAAATTATCGAAATACCC
1 AAAATTACCGAAATACCC
52952601 TTATAGTGTA
Statistics
Matches: 208, Mismatches: 42, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
79 17 0.08
80 155 0.75
81 33 0.16
82 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.30
Consensus pattern (80 bp):
AAAATTACCGAAATACCCCCGATTTGTAAAATTAACAAAATACCCCTGATTTGAAAATTACCGAA
ATACCCTCGATTTGT
Found at i:52952408 original size:53 final size:53
Alignment explanation
Indices: 52952262--52952573 Score: 270
Period size: 53 Copynumber: 5.8 Consensus size: 53
52952252 ATAATAAAGA
* * * * *
52952262 AAAATTACCAAAATACCCCCGGTTTGTAAAATTATCGAAGTACCACCGTTTTTT
1 AAAATTACCAAAATA-CCCCGATTTGTAAAATTATCGAAATACCCCCGATTTGT
** * * *
52952316 AAAATTACGGAAGTACCTCGATTTGTAAAATTATCGAAATACCCCCAATTTGT
1 AAAATTACCAAAATACCCCGATTTGTAAAATTATCGAAATACCCCCGATTTGT
* *
52952369 AAAATTACCAAAATACCCCTGA-TTGTGAAAA-TATTGAAATACCCTCGATTTGT
1 AAAATTACCAAAATACCCC-GATTTGT-AAAATTATCGAAATACCCCCGATTTGT
* * * ** * * * *
52952422 GAAATTACCGAAACACTCATGATTTGTAAAATTAACAAAACACCCTCGATTTGT
1 AAAATTACCAAAATAC-CCCGATTTGTAAAATTATCGAAATACCCCCGATTTGT
* * * *
52952476 AAAATT-CCGAAACACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTTGT
1 AAAATTACCAAAATACCC-CGATTTGTAAAATTATCGAAATACCCCCGATTTGT
*** ** *
52952529 AAAATTATTGAACCACCCCCAATTTGTAAAATTATCGAAATACCC
1 AAAATTACCAAAATA-CCCCGATTTGTAAAATTATCGAAATACCC
52952574 TTGTAGTTTA
Statistics
Matches: 214, Mismatches: 36, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
52 1 0.00
53 133 0.62
54 77 0.36
55 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (53 bp):
AAAATTACCAAAATACCCCGATTTGTAAAATTATCGAAATACCCCCGATTTGT
Found at i:52952602 original size:27 final size:27
Alignment explanation
Indices: 52952499--52952614 Score: 110
Period size: 27 Copynumber: 4.3 Consensus size: 27
52952489 ACCCTCAATT
* *
52952499 TGTAAAATTATCGAAATACCCTCGAT-T
1 TGTAAAATTATCGAAATACCCT-TATAG
* ** ** *
52952526 TGTAAAATTATTGAACCACCCCCA-ATT
1 TGTAAAATTATCGAAATACCCTTATA-G
*
52952553 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTATAG
*
52952580 TTTAAAATTATCGAAATACCCTTATAG
1 TGTAAAATTATCGAAATACCCTTATAG
52952607 TGTAAAAT
1 TGTAAAAT
52952615 GACCAACATA
Statistics
Matches: 71, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
26 1 0.01
27 69 0.97
28 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTATAG
Found at i:52952614 original size:54 final size:54
Alignment explanation
Indices: 52952339--52952600 Score: 208
Period size: 53 Copynumber: 4.9 Consensus size: 54
52952329 TACCTCGATT
* * * * * * **
52952339 TGTAAAATTATCGAAATACCCCCAATTTGTAAAATTACCAAAATACCCCTGAT-
1 TGTAAAATTATCGAAATACCCTCGAGTTGTAAAATTATCGAAACACCCCCAATG
* * * * * *** *
52952392 TGTGAAAA-TATTGAAATACCCTCGATTTGTGAAATTACCGAAACACTCATGATT
1 TGT-AAAATTATCGAAATACCCTCGAGTTGTAAAATTATCGAAACACCCCCAATG
* * * * * * *
52952446 TGTAAAATTAACAAAACACCCTCGATTTGTAAAATT-CCGAAACACCCTCAATT
1 TGTAAAATTATCGAAATACCCTCGAGTTGTAAAATTATCGAAACACCCCCAATG
* * * *
52952499 TGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATTGAACCACCCCCAATT
1 TGTAAAATTATCGAAATACCCTCGAGTTGTAAAATTATCGAAACACCCCCAATG
* *
52952553 TGTAAAATTATCGAAATACCCTTGTAGTT-TAAAATTATCGAAATACCC
1 TGTAAAATTATCGAAATACCCTCG-AGTTGTAAAATTATCGAAACACCC
52952601 TTATAGTGTA
Statistics
Matches: 175, Mismatches: 29, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
53 90 0.51
54 82 0.47
55 3 0.02
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (54 bp):
TGTAAAATTATCGAAATACCCTCGAGTTGTAAAATTATCGAAACACCCCCAATG
Found at i:52952625 original size:27 final size:26
Alignment explanation
Indices: 52952566--52952644 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 26
52952556 AAAATTATCG
* * *
52952566 AAATACCCTTGTAGTTTAAAATTATCG
1 AAATACCCTTGTAGTGTAAAATGA-CC
*
52952593 AAATACCCTTATAGTGTAAAATGACC
1 AAATACCCTTGTAGTGTAAAATGACC
* *
52952619 AACATACCCCTGTAGGGTAAAATGAC
1 AA-ATACCCTTGTAGTGTAAAATGAC
52952645 TATTTTGCCC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 3 0.07
27 41 0.93
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (26 bp):
AAATACCCTTGTAGTGTAAAATGACC
Found at i:52955772 original size:27 final size:27
Alignment explanation
Indices: 52955742--52955796 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
52955732 GATTCAAAAA
*
52955742 TATATATTAAGTC-CGCACACTCAGTGC
1 TATATAATAA-TCTCGCACACTCAGTGC
* *
52955769 TATATAATCATCTCGCACACTTAGTGC
1 TATATAATAATCTCGCACACTCAGTGC
52955796 T
1 T
52955797 GTACAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (27 bp):
TATATAATAATCTCGCACACTCAGTGC
Found at i:52963830 original size:28 final size:28
Alignment explanation
Indices: 52963787--52963868 Score: 112
Period size: 28 Copynumber: 2.9 Consensus size: 28
52963777 ATATATTAAG
52963787 TATAATC-AACTCGCACACTTAGTGCTA
1 TATAATCAAACTCGCACACTTAGTGCTA
*
52963814 TATAATCAAACTCGCACACTTAGTGCTG
1 TATAATCAAACTCGCACACTTAGTGCTA
* * *
52963842 TACAATTTAAACCCGCACACTTAGTGC
1 TATAA-TCAAACTCGCACACTTAGTGC
52963869 CAATCTCATG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 7 0.14
28 23 0.47
29 19 0.39
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (28 bp):
TATAATCAAACTCGCACACTTAGTGCTA
Found at i:52968046 original size:96 final size:97
Alignment explanation
Indices: 52967855--52968089 Score: 319
Period size: 96 Copynumber: 2.4 Consensus size: 97
52967845 GTAAGATGCT
* * **
52967855 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATATCGGTGCCAATGCCATGCTCCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA-CAATGCCAATGCCATGCTCCAA
* *
52967920 ACATGGTCTTACTCTAGCCCACATGTCGAGGCC
65 ACATGGTCTTACACTAGCCCACATATCGAGGCC
* * * *
52967953 GATGCCATGTCCCAAATATGGTCTTACACTAGCTCTCATATA-AATGCCGATGCCATGTTCCAAA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATACAATGCCAATGCCATGCTCCAAA
* *
52968017 CATGGTCTTACACTGGCTCACATATCGAGGCC
66 CATGGTCTTACACTAGCCCACATATCGAGGCC
* * *
52968049 GATGTCATATCCCAGACATGGTCTTACACTAGCTCTTATAT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT
52968090 CCCTAATATC
Statistics
Matches: 120, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
96 82 0.68
98 38 0.32
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (97 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATACAATGCCAATGCCATGCTCCAAA
CATGGTCTTACACTAGCCCACATATCGAGGCC
Found at i:52968090 original size:48 final size:48
Alignment explanation
Indices: 52967855--52968090 Score: 251
Period size: 48 Copynumber: 4.9 Consensus size: 48
52967845 GTAAGATGCT
* * *
52967855 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATATCG-GTGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTC--ATATCGAG-GCC
* * * * *
52967905 AATGCCATG-CTCCAAACATGGTCTTACTCTAGCCCACATGTCGAGGCC
1 GATGCCATGTC-CCAAACATGGTCTTACACTAGCTCTCATATCGAGGCC
* ** *
52967953 GATGCCATGTCCCAAATATGGTCTTACACTAGCTCTCATATAAATGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGAGGCC
* * *
52968001 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGAGGCC
* * * *
52968049 GATGTCATATCCCAGACATGGTCTTACACTAGCTCTTATATC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATC
52968091 CCTAATATCA
Statistics
Matches: 152, Mismatches: 31, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
48 121 0.80
49 3 0.02
50 28 0.18
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGAGGCC
Found at i:52969353 original size:43 final size:42
Alignment explanation
Indices: 52969287--52969408 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 42
52969277 TTACATATCA
* * * *
52969287 ATGCCACTGTTCTAGACAAGGTCTTACATGGAATCATAATAC
1 ATGCCAATGTCCTAGACATGGTCTTACATGAAATCATAATAC
* *
52969329 GATGCCAATGTCCTTGACATGGTCTTACACGAAATCATAATAC
1 -ATGCCAATGTCCTAGACATGGTCTTACATGAAATCATAATAC
* *
52969372 ACTGCCAATGTCCCAGACATGGTCTTACATGTAATCA
1 A-TGCCAATGTCCTAGACATGGTCTTACATGAAATCA
52969409 CATCTCGATA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.01
43 67 0.99
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGCCAATGTCCTAGACATGGTCTTACATGAAATCATAATAC
Found at i:52976753 original size:5 final size:5
Alignment explanation
Indices: 52976743--52976769 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
52976733 CAAACTAATC
52976743 ATATT ATATT ATATT ATATT ATATT AT
1 ATATT ATATT ATATT ATATT ATATT AT
52976770 GACACATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:52986124 original size:23 final size:22
Alignment explanation
Indices: 52986098--52986179 Score: 67
Period size: 24 Copynumber: 3.5 Consensus size: 22
52986088 CACAACCTAT
52986098 CGGGACGCTCCGAAGAGCTATAA
1 CGGGACGCT-CGAAGAGCTATAA
*
52986121 CGGGAAC-CTCGCAAGAACCATATAA
1 CGGG-ACGCTCG-AAG-AGC-TATAA
* *
52986146 CGGGAAGCTCGAGAGGGCTAATAA
1 CGGGACGCTCGA-AGAGCT-ATAA
52986170 CGGGACGCTC
1 CGGGACGCTC
52986180 TTTCAAGCTG
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
22 2 0.04
23 10 0.21
24 20 0.43
25 15 0.32
ACGTcount: A:0.32, C:0.26, G:0.30, T:0.12
Consensus pattern (22 bp):
CGGGACGCTCGAAGAGCTATAA
Found at i:52989629 original size:47 final size:47
Alignment explanation
Indices: 52989566--52989869 Score: 419
Period size: 47 Copynumber: 6.4 Consensus size: 47
52989556 CCCTTCGGGA
* * *
52989566 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * * *
52989613 CTTATCACATATATACACTTTCACATTTATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
52989660 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
52989707 CTTATCACATATATACACTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
52989754 CCTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
52989801 CCTATCACATATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
52989850 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
52989870 GTACATCAAT
Statistics
Matches: 234, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
47 189 0.81
49 45 0.19
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
Found at i:52999919 original size:43 final size:43
Alignment explanation
Indices: 52999761--52999927 Score: 126
Period size: 43 Copynumber: 3.9 Consensus size: 43
52999751 GGTTAACGAG
* *
52999761 ATGTGATTACATGTAAGACCATGTCT-GGAACATTGGCAT-TAT
1 ATGTGATTACATGTAAGACCATATCTAGG-ACATTGGCATCAAT
** * * **
52999803 ATTGTGATTATGTGTAAGACCATATCTGGGACATTTGCATCGTT
1 A-TGTGATTACATGTAAGACCATATCTAGGACATTGGCATCAAT
* * * * * * *
52999847 AAT-CGATTTCGTGTAAGACCCTTTTTAGGACAGTGGCATCAAT
1 -ATGTGATTACATGTAAGACCATATCTAGGACATTGGCATCAAT
* *
52999890 ATGTGATAACATGTAAGACCATATCTAGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATATCTAGGACATTGGCAT
52999928 TATACGAGCT
Statistics
Matches: 95, Mismatches: 25, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
42 9 0.09
43 81 0.85
44 4 0.04
45 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATATCTAGGACATTGGCATCAAT
Found at i:53000717 original size:22 final size:21
Alignment explanation
Indices: 53000692--53000739 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
53000682 GTCATGTAAG
53000692 TTTGGT-GATTTTGGCATATAGA
1 TTTGGTAG-TTTTGGC-TATAGA
53000714 TTTGGTATGTTTTGGCTATAGA
1 TTTGGTA-GTTTTGGCTATAGA
53000736 TTTG
1 TTTG
53000740 AGTAATTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 16 0.67
23 7 0.29
24 1 0.04
ACGTcount: A:0.19, C:0.04, G:0.27, T:0.50
Consensus pattern (21 bp):
TTTGGTAGTTTTGGCTATAGA
Found at i:53009273 original size:28 final size:28
Alignment explanation
Indices: 53009242--53009340 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
53009232 TACTCAATGC
* *
53009242 CTCGCACACTAAGTGTCATACTCGATAT
1 CTCGCACACTAAGTGCCACACTCGATAT
* *
53009270 CTCGCACACAAAGTGCCACACTCTATAT
1 CTCGCACACTAAGTGCCACACTCGATAT
*
53009298 CTTGCACACTAAGTGCCACACTCGATAT
1 CTCGCACACTAAGTGCCACACTCGATAT
53009326 CTCGCACACTAAGTG
1 CTCGCACACTAAGTG
53009341 TCGTACACAG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.24
Consensus pattern (28 bp):
CTCGCACACTAAGTGCCACACTCGATAT
Found at i:53009372 original size:40 final size:40
Alignment explanation
Indices: 53009327--53009423 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
53009317 ACTCGATATC
* *
53009327 TCGCACACTAAGTGTCGTACACAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATACACAGCCGAAGCTATCTCAAA
* * * *
53009367 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATACACAGCCGAAGCTATCTCAAA
*
53009407 TCGTACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
53009424 CAAATAACTG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.22
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACACAGCCGAAGCTATCTCAAA
Done.