Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 173 of 318
Found at i:54609143 original size:80 final size:80
Alignment explanation
Indices: 54608981--54609147 Score: 235
Period size: 80 Copynumber: 2.1 Consensus size: 80
54608971 CGGGTTAAGT
54608981 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTA
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTA
* * ** *
54609046 TAACCGGGTTAAGTC
66 CAACCGAGCCAAATC
* * * * *
54609061 CCGAAGGCATTCGTGTGGGTTATTATAACTGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGTTA
1 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTA
*
54609126 CATCCGAGCCAAATC
66 CAACCGAGCCAAATC
54609141 CCGAAGG
1 CCGAAGG
54609148 TATTTATGTT
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTA
CAACCGAGCCAAATC
Found at i:54610048 original size:16 final size:17
Alignment explanation
Indices: 54610029--54610061 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
54610019 GTATAAATGG
54610029 AATTAAGTAAT-GAATA
1 AATTAAGTAATCGAATA
*
54610045 AATTATGTAATCGAATA
1 AATTAAGTAATCGAATA
54610062 TTGATGAGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.12, T:0.33
Consensus pattern (17 bp):
AATTAAGTAATCGAATA
Found at i:54611666 original size:46 final size:45
Alignment explanation
Indices: 54611566--54611668 Score: 116
Period size: 46 Copynumber: 2.3 Consensus size: 45
54611556 AGAGCCCTTT
* * *
54611566 TTAGTAACAGAATAATTTGGGCCTTAGCCCATTACAGCAACAGAA
1 TTAGTAATAGAATAATGTGGGCCTAAGCCCATTACAGCAACAGAA
* * * ** *
54611611 TCAGAAATAGAATACATGTGGGCCTAAGCCCATTATAGTGACAGTA
1 TTAGTAATAGAATA-ATGTGGGCCTAAGCCCATTACAGCAACAGAA
54611657 TTAGTAATAGAA
1 TTAGTAATAGAA
54611669 ATGCAACAGT
Statistics
Matches: 46, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
45 11 0.24
46 35 0.76
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (45 bp):
TTAGTAATAGAATAATGTGGGCCTAAGCCCATTACAGCAACAGAA
Found at i:54611889 original size:32 final size:32
Alignment explanation
Indices: 54611839--54611901 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
54611829 CACGGCTTAC
* *
54611839 AGCCATCAGTAGTGGTAATTTGATCAGCACAA
1 AGCCATCAATAGTGGTAATATGATCAGCACAA
*
54611871 AGCCATCAATAGCT-GTAATATGATCGGCACA
1 AGCCATCAATAG-TGGTAATATGATCAGCACA
54611902 CAGTCATGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (32 bp):
AGCCATCAATAGTGGTAATATGATCAGCACAA
Found at i:54612437 original size:27 final size:27
Alignment explanation
Indices: 54612393--54612467 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 27
54612383 CAAAACAGTC
* *
54612393 ATTTTACCCTACAGGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
*
54612420 ATTTTACACTATAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
*
54612447 ATTTTACACTACAAGTGTATT
1 ATTTTACACTACAAGGGTATT
54612468 AACGACCCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGGTA
Found at i:54615367 original size:26 final size:25
Alignment explanation
Indices: 54615265--54615378 Score: 115
Period size: 25 Copynumber: 4.6 Consensus size: 25
54615255 ATACATGTAT
*
54615265 GCTCATACGAGC-GATAAACGGTAA
1 GCTCATACGAGCTGAGAAACGGTAA
** *
54615289 GCTCATATAAGCTGA-ATAATGGTAA
1 GCTCATACGAGCTGAGA-AACGGTAA
* * * *
54615314 GCTCCTCCGAGTTGAGTAACGGTAA
1 GCTCATACGAGCTGAGAAACGGTAA
*
54615339 GCTCTTACGAGCTGAGAAATCGGTAA
1 GCTCATACGAGCTGAGAAA-CGGTAA
54615365 GCTCATACGAGCTG
1 GCTCATACGAGCTG
54615379 CGGTGAGTTC
Statistics
Matches: 71, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
24 11 0.15
25 41 0.58
26 19 0.27
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (25 bp):
GCTCATACGAGCTGAGAAACGGTAA
Found at i:54618119 original size:25 final size:24
Alignment explanation
Indices: 54618071--54618119 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
54618061 ATGTAATTTA
*
54618071 ATTTTAGAAAAATTATTTGATATC
1 ATTTTAGAAAAATTATCTGATATC
54618095 ATTTTAGAAGAAATATATCTG-TATC
1 ATTTTAGAA-AAAT-TATCTGATATC
54618120 TTATTGAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 9 0.41
25 8 0.36
26 5 0.23
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (24 bp):
ATTTTAGAAAAATTATCTGATATC
Found at i:54619115 original size:14 final size:14
Alignment explanation
Indices: 54619096--54619122 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
54619086 AACGAAGAAA
54619096 CAGCTAAGCAAAAC
1 CAGCTAAGCAAAAC
54619110 CAGCTAAGCAAAA
1 CAGCTAAGCAAAA
54619123 GCTTTTCGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.26, G:0.15, T:0.07
Consensus pattern (14 bp):
CAGCTAAGCAAAAC
Found at i:54619181 original size:2 final size:2
Alignment explanation
Indices: 54619176--54619204 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
54619166 TTTTTTCCTC
54619176 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
54619205 CCCAAATCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:54620649 original size:80 final size:79
Alignment explanation
Indices: 54620553--54620743 Score: 224
Period size: 83 Copynumber: 2.4 Consensus size: 79
54620543 TGCTGAGCTC
* *
54620553 GTTTTTATTTGTTCAGTAACGGTAGTTTCTGTTCTCCAATTATGCTTGG-TCGTG-CTTCTAAAA
1 GTTTTTATTTGTTCAGTGACGGTAGTTTCTATTCTCCAATTATGCTTGGCT-GTGCCTT-TAAAA
54620616 AGTTGCTGAGATTGTT
64 AGTTGCTGAGATTGTT
* * * * * *
54620632 GTTTTTAATTTGTTCAGTGACAGTAATTGCTTCTATTCTTCATTTGTGCTTGGCTTTGCCTTTAA
1 GTTTTT-ATTTGTTCAGTGACGGT-A--GTTTCTATTCTCCAATTATGCTTGGCTGTGCCTTTAA
54620697 AAAGTTGCTGAGATTGTT
62 AAAGTTGCTGAGATTGTT
*
54620715 GTTTATCATTTGTTCAGTGACGGTAGTTT
1 GTTT-TTATTTGTTCAGTGACGGTAGTTT
54620744 TACAAATCCA
Statistics
Matches: 94, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
79 6 0.06
80 18 0.19
81 1 0.01
82 1 0.01
83 63 0.67
84 5 0.05
ACGTcount: A:0.19, C:0.13, G:0.21, T:0.47
Consensus pattern (79 bp):
GTTTTTATTTGTTCAGTGACGGTAGTTTCTATTCTCCAATTATGCTTGGCTGTGCCTTTAAAAAG
TTGCTGAGATTGTT
Found at i:54620964 original size:3 final size:3
Alignment explanation
Indices: 54620958--54621014 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
54620948 ACAACCACAA
54620958 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
54621006 CAG CAG CAG
1 CAG CAG CAG
54621015 TTCTTGCATG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:54625178 original size:17 final size:17
Alignment explanation
Indices: 54625153--54625185 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
54625143 AAAATTACAA
54625153 AATAAATTTTAAAATTC
1 AATAAATTTTAAAATTC
*
54625170 AATATATTTTAAAATT
1 AATAAATTTTAAAATT
54625186 TTCAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
AATAAATTTTAAAATTC
Found at i:54625208 original size:25 final size:25
Alignment explanation
Indices: 54625156--54625207 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
54625146 ATTACAAAAT
54625156 AAATTTTAAAATTCAATATATTTTA
1 AAATTTTAAAATTCAATATATTTTA
*
54625181 AAATTTTCAAAATT-TATAT-TTTTA
1 AAATTTT-AAAATTCAATATATTTTA
54625205 AAA
1 AAA
54625208 AAATCATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 8 0.32
25 11 0.44
26 6 0.24
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (25 bp):
AAATTTTAAAATTCAATATATTTTA
Found at i:54636657 original size:142 final size:142
Alignment explanation
Indices: 54636399--54636923 Score: 685
Period size: 143 Copynumber: 3.7 Consensus size: 142
54636389 GAATCCATAA
* * * * * * *
54636399 ATCTTATCTTCTTGAAGTTGTAGTGGAGAAGATTAAAGCCATCAGCCTTATTTTCCTGAAGTTGT
1 ATCTTATCTTCTTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
* *
54636464 AGTGGAGCAGACTGAAGATAGCGAATCTTAATTCCCTGACATTGTAGTGGAACAAATTAAAGCTA
66 AGTGGAGCAGACTGAAGACAGCGAATCTT-ATTCCCTGACGTTGTAGTGGAACAAATTAAAGCTA
*
54636529 CAAATTATGGTGG
130 CAAATTATGGAGG
* * *
54636542 ATCTTATCTTCCTGAGGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTCATCTCCCTGAAGTTG-
1 ATCTTATCTTCTTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
* * * *
54636606 AGTGGAGCAAACTGAAGACAGCGAATCTTACTTTCCTGACGTTGTAGTGGAATAGATTAAAGCTA
66 AGTGGAGCAGACTGAAGACAGCGAATCTTA-TTCCCTGACGTTGTAGTGGAACAAATTAAAGCTA
54636671 CAAATTATGGAGG
130 CAAATTATGGAGG
* * * * *
54636684 ATCTTATCTTCTTGAAGTTG-TGACGGAGTAGATTGAAGCCACCGGCCTTATCTCCTTGAAGTTA
1 ATCTTATCTTCTTGAAGTTGCAG-TGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTG
* ** * *
54636748 CAGTGGAGCAGGCTGAAGACAAAGAATCTTATCTCCCTGAAGTTGTAGTGGAACAAATTGAAGCT
65 CAGTGGAGCAGACTGAAGACAGCGAATCTTAT-TCCCTGACGTTGTAGTGGAACAAATTAAAGCT
* *
54636813 ACAAATTATGGCGA
129 ACAAATTATGGAGG
* * * * * *
54636827 ATCTTATCTTCTTGAAGTTACAGTGGAGCAGATTTAAGCCATCAACCTTATCTCTCTGAAGTTGC
1 ATCTTATCTTCTTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
54636892 AGTGGAGCAGACTGAAGACAGCGAATCTTATT
66 AGTGGAGCAGACTGAAGACAGCGAATCTTATT
54636924 TCCTTGAAGC
Statistics
Matches: 328, Mismatches: 49, Indels: 11
0.85 0.13 0.03
Matches are distributed among these distances:
141 2 0.01
142 125 0.38
143 200 0.61
144 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (142 bp):
ATCTTATCTTCTTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
AGTGGAGCAGACTGAAGACAGCGAATCTTATTCCCTGACGTTGTAGTGGAACAAATTAAAGCTAC
AAATTATGGAGG
Found at i:54637017 original size:96 final size:96
Alignment explanation
Indices: 54636870--54637055 Score: 214
Period size: 96 Copynumber: 1.9 Consensus size: 96
54636860 TTAAGCCATC
* * * **
54636870 AACCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGACAGCGAATCTTATTTCCTTGAAGCT
1 AACCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGACAGCCAATCTTACCTCCTTGAAGCT
*
54636935 GCACCAGAATAGATTGAAGCTACAAGTGGCA
66 CCACCAGAATAGATTGAAGCTACAAGTGGCA
* * *
54636966 AACCTTATCTCCCTGAGGTTACAGTGGAGCAGGCTGAA-ATTA-CCAATTCTTACCTCCTTGAAG
1 AACCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGA-CAGCCAA-TCTTACCTCCTTGAAG
* * * * *
54637029 TTCCAGCGGAGTAGATTGAAGTTACAA
64 CTCCACCAGAATAGATTGAAGCTACAA
54637056 ATCTCTTCTC
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
95 4 0.05
96 70 0.95
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (96 bp):
AACCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGACAGCCAATCTTACCTCCTTGAAGCT
CCACCAGAATAGATTGAAGCTACAAGTGGCA
Found at i:54637200 original size:45 final size:45
Alignment explanation
Indices: 54636969--54637209 Score: 202
Period size: 44 Copynumber: 5.4 Consensus size: 45
54636959 AGTGGCAAAC
* **
54636969 CTTATCTCCCTGAGGTTACAGTGGAGCAGGCTGAAATTACCAATT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAATTACCAATT
* * * * * * *
54637014 CTTACCTCCTTGAAGTTCCAGCGGAGTAGATTGAAGTTA-CAAAT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAATTACCAATT
* * ** *
54637058 CTCT-TCTCCCTGAAATTACATTGGAGCAGATTGAAGCTA-CAATC
1 CT-TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAATTACCAATT
** * * * * * **
54637102 CTTATCTTTCTGGAGTTGCAGTAGAGCAGGA-TAAAAATACACAAAC
1 CTTATCTCCCTGAAGTTACAGTGGAGCA-GATTGAAATTAC-CAATT
54637148 CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAATTACCAATT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAATTACCAATT
*
54637193 CTTATCTCCTTGAAGTT
1 CTTATCTCCCTGAAGTT
54637210 TTAGCGGAGT
Statistics
Matches: 149, Mismatches: 41, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
43 1 0.01
44 60 0.40
45 54 0.36
46 34 0.23
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAATTACCAATT
Found at i:54637305 original size:179 final size:179
Alignment explanation
Indices: 54636964--54637305 Score: 463
Period size: 179 Copynumber: 1.9 Consensus size: 179
54636954 CTACAAGTGG
* *
54636964 CAAACCTTATCTCCCTGAGGTTACAGTGGAGCAGGCTGAAATTACCAATTCTTACCTCCTTGAAG
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAATTACCAATTCTTACCTCCTTGAAG
* ** * *
54637029 TTCCAGCGGAGTAGATTGAAGTTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATTGAAG
66 TTCCAGCGGAGTAGATCGAAACTACAAATCTCTTCTCCCTGAAATTACATCGGAGCAGATCGAAG
* * * ** * *
54637094 CTACAATCCTTATCTTTCTGGAGTTGCAGTAGAGCAGGATAAAAATACA
131 CGACAATCCTTAACCTTCTAAAGATACAGTAGAGCAGGATAAAAATACA
* *
54637143 CAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAATTACCAATTCTTATCTCCTTGAAG
1 CAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAATTACCAATTCTTACCTCCTTGAAG
** * *
54637208 TTTTAGCGGAGTAGATCGAAACTACAAATCTCTTTTCCCTGAAATTACATCGGAGCGGATCGAAG
66 TTCCAGCGGAGTAGATCGAAACTACAAATCTCTTCTCCCTGAAATTACATCGGAGCAGATCGAAG
*
54637273 CGCCAATTCC-TACACCTT-TAAAGATACAGTAGA
131 CGACAA-TCCTTA-ACCTTCTAAAGATACAGTAGA
54637306 TTGGAACGAG
Statistics
Matches: 140, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
179 134 0.96
180 6 0.04
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (179 bp):
CAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAATTACCAATTCTTACCTCCTTGAAG
TTCCAGCGGAGTAGATCGAAACTACAAATCTCTTCTCCCTGAAATTACATCGGAGCAGATCGAAG
CGACAATCCTTAACCTTCTAAAGATACAGTAGAGCAGGATAAAAATACA
Found at i:54638690 original size:17 final size:17
Alignment explanation
Indices: 54638668--54638701 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
54638658 AATATAGTCC
* *
54638668 TTTATTTATTTATTTAT
1 TTTATTCATTTACTTAT
54638685 TTTATTCATTTACTTAT
1 TTTATTCATTTACTTAT
54638702 CTATTGTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATTCATTTACTTAT
Found at i:54639016 original size:21 final size:22
Alignment explanation
Indices: 54638976--54639016 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
54638966 ACCTTCATTA
54638976 TTATTGATTTTTTAATTATCCG
1 TTATTGATTTTTTAATTATCCG
54638998 TTATT-ATTATTTT-ATTATC
1 TTATTGATT-TTTTAATTATC
54639017 ATTATCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.63
Consensus pattern (22 bp):
TTATTGATTTTTTAATTATCCG
Found at i:54639109 original size:12 final size:13
Alignment explanation
Indices: 54639094--54639137 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
54639084 ATATTGTTCA
*
54639094 TATTATTACTAT-
1 TATTATTATTATC
54639106 TATTATT-TTATC
1 TATTATTATTATC
54639118 TATTATTATTATC
1 TATTATTATTATC
*
54639131 TTTTATT
1 TATTATT
54639138 TATATATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 3 0.11
12 14 0.50
13 11 0.39
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (13 bp):
TATTATTATTATC
Found at i:54639139 original size:24 final size:24
Alignment explanation
Indices: 54639093--54639145 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
54639083 TATATTGTTC
54639093 ATATTATTACTATTATTATTTTAT
1 ATATTATTACTATTATTATTTTAT
* * *
54639117 CTATTATTATTATCTTTTA-TTTAT
1 ATATTATTACTAT-TATTATTTTAT
54639141 ATATT
1 ATATT
54639146 TCACTACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (24 bp):
ATATTATTACTATTATTATTTTAT
Found at i:54639537 original size:19 final size:17
Alignment explanation
Indices: 54639504--54639538 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
54639494 TGATATTATT
54639504 CAAAAAAGGAAGGTTTC
1 CAAAAAAGGAAGGTTTC
54639521 CAAAATAAGGCAAGGTTT
1 CAAAA-AAGG-AAGGTTT
54639539 TGAACTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 4 0.25
19 7 0.44
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (17 bp):
CAAAAAAGGAAGGTTTC
Found at i:54642481 original size:27 final size:27
Alignment explanation
Indices: 54642451--54642538 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
54642441 AGGTTATCCC
*
54642451 TTCATATTTCGCCACAAAGGCTACTCT
1 TTCATATTTCGCCACAAAGGATACTCT
* *
54642478 TTCATATTTTGCAACAAAGGATACTCT
1 TTCATATTTCGCCACAAAGGATACTCT
* * * *
54642505 TACATATTGCACCACAAAGGAGTTC-CT
1 TTCATATTTCGCCACAAAGGA-TACTCT
54642532 TTCATAT
1 TTCATAT
54642539 CGCACTACAA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
27 48 0.96
28 2 0.04
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (27 bp):
TTCATATTTCGCCACAAAGGATACTCT
Found at i:54643825 original size:39 final size:39
Alignment explanation
Indices: 54643771--54643848 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
54643761 ATTTCATTTG
*
54643771 AAACTAGACTCATTAAGGAGTCTAAGCATATCAATTTTA
1 AAACTAGACTCATTAAGGAGTCTAAGCATATAAATTTTA
54643810 AAACTAGACTCATTAAGGAGTCTAAGCATATAAATTTTA
1 AAACTAGACTCATTAAGGAGTCTAAGCATATAAATTTTA
54643849 TCTTATAACC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (39 bp):
AAACTAGACTCATTAAGGAGTCTAAGCATATAAATTTTA
Found at i:54644710 original size:26 final size:26
Alignment explanation
Indices: 54644681--54644740 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
54644671 TTCCTTTGAA
* * *
54644681 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
54644707 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
54644735 ACATTC
1 TCATTC
54644741 TCAATATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:54644756 original size:28 final size:28
Alignment explanation
Indices: 54644688--54644757 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
54644678 GAATCATTCG
*
54644688 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTTGCACACTAAGTGACATTCTCA
* *
54644716 ATATCTCGCACACTAAGTGACATTCTCA
1 ATATTTTGCACACTAAGTGACATTCTCA
*
54644744 ATATTTTGTACACT
1 ATATTTTGCACACT
54644758 GAGTACCATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (28 bp):
ATATTTTGCACACTAAGTGACATTCTCA
Found at i:54649792 original size:14 final size:15
Alignment explanation
Indices: 54649739--54649800 Score: 60
Period size: 14 Copynumber: 4.3 Consensus size: 15
54649729 GGTTACGAAA
54649739 CTCGCACACACAGTG
1 CTCGCACACACAGTG
* *
54649754 C-CTCA-ACAACCGAT-
1 CTCGCACAC-ACAG-TG
54649768 CTCGCACACACAGTG
1 CTCGCACACACAGTG
54649783 CTCG-ACACACAGTG
1 CTCGCACACACAGTG
54649797 CTCG
1 CTCG
54649801 GTTACGGGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
13 2 0.05
14 22 0.58
15 12 0.32
16 2 0.05
ACGTcount: A:0.27, C:0.40, G:0.18, T:0.15
Consensus pattern (15 bp):
CTCGCACACACAGTG
Found at i:54649820 original size:28 final size:28
Alignment explanation
Indices: 54649783--54649939 Score: 120
Period size: 28 Copynumber: 5.6 Consensus size: 28
54649773 ACACACAGTG
*
54649783 CTCG-ACACACAGTGCTCGGTTACGGGA
1 CTCGCACACACAGTGCTCGGTTACGGAA
* **** *
54649810 CTCGCACACACAGATCCTCAACAAC-CAA
1 CTCGCACACACAG-TGCTCGGTTACGGAA
*
54649838 TCTCGCACACACAGTGCTTGGTTACGGAA
1 -CTCGCACACACAGTGCTCGGTTACGGAA
* **** * *
54649867 CTCGCACGCACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTG-CTCGGTTACGGAA
*
54649896 CTCGCACACACAATGCTCGGTTACGGAA
1 CTCGCACACACAGTGCTCGGTTACGGAA
*
54649924 CTCACACACACAGTGC
1 CTCGCACACACAGTGC
54649940 CTATGTTCAC
Statistics
Matches: 93, Mismatches: 32, Indels: 9
0.69 0.24 0.07
Matches are distributed among these distances:
27 4 0.04
28 49 0.53
29 40 0.43
ACGTcount: A:0.29, C:0.36, G:0.19, T:0.17
Consensus pattern (28 bp):
CTCGCACACACAGTGCTCGGTTACGGAA
Found at i:54649832 original size:71 final size:71
Alignment explanation
Indices: 54649716--54649855 Score: 228
Period size: 71 Copynumber: 2.0 Consensus size: 71
54649706 CTGATCTTGC
* *
54649716 ACACACAGTGCTTGGTTACGAAACTCGCACACACAGTGCCTCAACAACCGATCTCGCACACACAG
1 ACACACAGTGCTCGGTTACGAAACTCGCACACACAGTGCCTCAACAACCAATCTCGCACACACAG
54649781 TGCTCG
66 TGCTCG
**
54649787 ACACACAGTGCTCGGTTACGGGACTCGCACACACAGAT-CCTCAACAACCAATCTCGCACACACA
1 ACACACAGTGCTCGGTTACGAAACTCGCACACACAG-TGCCTCAACAACCAATCTCGCACACACA
54649851 GTGCT
65 GTGCT
54649856 TGGTTACGGA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 63 0.98
72 1 0.02
ACGTcount: A:0.30, C:0.36, G:0.18, T:0.16
Consensus pattern (71 bp):
ACACACAGTGCTCGGTTACGAAACTCGCACACACAGTGCCTCAACAACCAATCTCGCACACACAG
TGCTCG
Found at i:54649879 original size:57 final size:57
Alignment explanation
Indices: 54649783--54649941 Score: 241
Period size: 57 Copynumber: 2.8 Consensus size: 57
54649773 ACACACAGTG
*
54649783 CTCG-ACACACAGTGCTCGGTTACGGGACTCGCACACACAGAT-CCTCAACAACCAAT
1 CTCGCACACACAGTGCTCGGTTACGGAACTCGCACACACAG-TGCCTCAACAACCAAT
* * *
54649839 CTCGCACACACAGTGCTTGGTTACGGAACTCGCACGCACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCTCGGTTACGGAACTCGCACACACAGTGCCTCAACAACCAAT
* *
54649896 CTCGCACACACAATGCTCGGTTACGGAACTCACACACACAGTGCCT
1 CTCGCACACACAGTGCTCGGTTACGGAACTCGCACACACAGTGCCT
54649942 ATGTTCACTT
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
56 5 0.05
57 88 0.95
ACGTcount: A:0.28, C:0.36, G:0.19, T:0.17
Consensus pattern (57 bp):
CTCGCACACACAGTGCTCGGTTACGGAACTCGCACACACAGTGCCTCAACAACCAAT
Found at i:54649907 original size:29 final size:29
Alignment explanation
Indices: 54649810--54649907 Score: 92
Period size: 29 Copynumber: 3.4 Consensus size: 29
54649800 GGTTACGGGA
*
54649810 CTCGCACACACAGAT-CCTCAACAACCAAT
1 CTCGCACACACAG-TGCCTCAACAACCGAT
***** * *
54649839 CTCGCACACACAGTG-CTTGGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
54649867 CTCGCACGCACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
54649896 CTCGCACACACA
1 CTCGCACACACA
54649908 ATGCTCGGTT
Statistics
Matches: 50, Mismatches: 17, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
28 20 0.40
29 30 0.60
ACGTcount: A:0.31, C:0.39, G:0.15, T:0.15
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAACAACCGAT
Found at i:54650698 original size:12 final size:12
Alignment explanation
Indices: 54650681--54650706 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
54650671 AAGGGGGGTA
54650681 AGCTTTACGCTT
1 AGCTTTACGCTT
54650693 AGCTTTACGCTT
1 AGCTTTACGCTT
54650705 AG
1 AG
54650707 TAAGTTCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (12 bp):
AGCTTTACGCTT
Found at i:54651878 original size:26 final size:26
Alignment explanation
Indices: 54651849--54651908 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
54651839 TCCCTTTGAA
* * *
54651849 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
54651875 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
54651903 CCATTC
1 TCATTC
54651909 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:54651894 original size:28 final size:28
Alignment explanation
Indices: 54651863--54651924 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
54651853 TCGATATTTT
*
54651863 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
54651891 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
54651919 GTACAC
1 GCACAC
54651925 AGTACCATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:54663387 original size:42 final size:42
Alignment explanation
Indices: 54663328--54663432 Score: 151
Period size: 42 Copynumber: 2.5 Consensus size: 42
54663318 TAGGGTTACA
*
54663328 GAGACTATGTGTAAGACCATATCTGGG-ATATGGCATCAATGT
1 GAGACTATGTGTAAGACCATATC-GGGAATATGGCATCAATAT
*
54663370 GAGACTATGTGTAAGACCATATCGGGAATATGGCATCGATAT
1 GAGACTATGTGTAAGACCATATCGGGAATATGGCATCAATAT
*
54663412 GAGACT-TCATGTAAGACCATA
1 GAGACTAT-GTGTAAGACCATA
54663433 CTTGGGCTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
41 4 0.07
42 54 0.93
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (42 bp):
GAGACTATGTGTAAGACCATATCGGGAATATGGCATCAATAT
Found at i:54663490 original size:43 final size:42
Alignment explanation
Indices: 54663338--54663491 Score: 111
Period size: 42 Copynumber: 3.6 Consensus size: 42
54663328 GAGACTATGT
* ***
54663338 GTAAGACCATATCTGGGATATGGCATCA-ATGTGAGAC-T-ATG
1 GTAAGACCATATCTGGAATATGGCAT-AGATACAAGACTTCA-G
* * ** *
54663379 TGTAAGACCATATCGGGAATATGGCATCGATATGAGACTTCAT
1 -GTAAGACCATATCTGGAATATGGCATAGATACAAGACTTCAG
**
54663422 GTAAGACCATA-CTTGGGCTATTGGCATAGATTACAAGA-TTACAG
1 GTAAGACCATATC-TGGAATA-TGGCATAGA-TACAAGACTT-CAG
54663466 GTAAGACCATATCTGGAATATGGCAT
1 GTAAGACCATATCTGGAATATGGCAT
54663492 TGGTACGGTA
Statistics
Matches: 90, Mismatches: 14, Indels: 15
0.76 0.12 0.13
Matches are distributed among these distances:
41 1 0.01
42 47 0.52
43 17 0.19
44 24 0.27
45 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (42 bp):
GTAAGACCATATCTGGAATATGGCATAGATACAAGACTTCAG
Found at i:54665924 original size:24 final size:24
Alignment explanation
Indices: 54665875--54665925 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
54665865 TGCTTTGTTT
**
54665875 TAATTTAATTAAACTTTTATTTTA
1 TAATTTAATTAAACTTTTATAATA
**
54665899 TAATTTAATTAATGTTTTATAATA
1 TAATTTAATTAAACTTTTATAATA
54665923 TAA
1 TAA
54665926 AAACATATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
TAATTTAATTAAACTTTTATAATA
Found at i:54672495 original size:41 final size:41
Alignment explanation
Indices: 54672433--54672633 Score: 215
Period size: 41 Copynumber: 4.9 Consensus size: 41
54672423 GATTCAGAAT
* * *
54672433 TACCAAAGT-CTAAACAAGGGCACGTATGTGCAATTTAGGCG
1 TACCAAAGTAC-AAACAGGGGCACGTATGTGCAATTCAGGGG
* * * * * *
54672474 TATCAAAGTATAAATAGGGGCATGCATGTGCAATTAAGGGG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCAATTCAGGGG
* *
54672515 TACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGGGG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCAATTCAGGGG
** * * * *
54672556 TACTGAAGTACAAATAGAGGCATGTATGTGTAATTCAGGGG
1 TACCAAAGTACAAACAGGGGCACGTATGTGCAATTCAGGGG
* *
54672597 TACCAAAGTACAAACATGGGCACGTACGTGCAATTCA
1 TACCAAAGTACAAACAGGGGCACGTATGTGCAATTCA
54672634 ACAATATTCT
Statistics
Matches: 129, Mismatches: 30, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
41 129 1.00
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.22
Consensus pattern (41 bp):
TACCAAAGTACAAACAGGGGCACGTATGTGCAATTCAGGGG
Found at i:54672546 original size:82 final size:82
Alignment explanation
Indices: 54672433--54672633 Score: 253
Period size: 82 Copynumber: 2.5 Consensus size: 82
54672423 GATTCAGAAT
* * *
54672433 TACCAAAGT-CTAAACAAGGGCACGTATGTGCAATTTAGGCGTA-TCAAAGTATAAATAGGGGCA
1 TACCAAAGTAC-AAACAAGGGCACGTATGTGCAATTCAGGCGTACT-AAAGTACAAATAGAGGCA
54672496 TGCATGTGCAATTAAGGGG
64 TGCATGTGCAATTAAGGGG
* * * * *
54672515 TACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGGGGTACTGAAGTACAAATAGAGGCATG
1 TACCAAAGTACAAACAAGGGCACGTATGTGCAATTCAGGCGTACTAAAGTACAAATAGAGGCATG
* * *
54672580 TATGTGTAATTCAGGGG
66 CATGTGCAATTAAGGGG
* *
54672597 TACCAAAGTACAAACATGGGCACGTACGTGCAATTCA
1 TACCAAAGTACAAACAAGGGCACGTATGTGCAATTCA
54672634 ACAATATTCT
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
82 100 0.98
83 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.22
Consensus pattern (82 bp):
TACCAAAGTACAAACAAGGGCACGTATGTGCAATTCAGGCGTACTAAAGTACAAATAGAGGCATG
CATGTGCAATTAAGGGG
Found at i:54675278 original size:16 final size:16
Alignment explanation
Indices: 54675257--54675290 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
54675247 GGTTCTTCAC
*
54675257 TTATTTGTTCACTTAT
1 TTATTTATTCACTTAT
54675273 TTATTTATTCACTTAT
1 TTATTTATTCACTTAT
54675289 TT
1 TT
54675291 GTTATTCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.12, G:0.03, T:0.65
Consensus pattern (16 bp):
TTATTTATTCACTTAT
Found at i:54677515 original size:23 final size:23
Alignment explanation
Indices: 54677485--54677533 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
54677475 AAATTATATA
*
54677485 AATAAAGGGTCAGTAGGCACTCT
1 AATAAAGGGACAGTAGGCACTCT
54677508 AATAAAGGGACAGTAGGCACTCT
1 AATAAAGGGACAGTAGGCACTCT
54677531 AAT
1 AAT
54677534 GCTAAGAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.20
Consensus pattern (23 bp):
AATAAAGGGACAGTAGGCACTCT
Found at i:54678752 original size:104 final size:104
Alignment explanation
Indices: 54678572--54678780 Score: 391
Period size: 104 Copynumber: 2.0 Consensus size: 104
54678562 GTTAGATAAA
* *
54678572 CAACTATTGTAAAGAGATTTTTGATGAAATTGTCAATTAGGGACTTAATTGAAAAATAAAAAAAT
1 CAACTATTATAAAGAGATTTTTGATGAAATTGTCAATTAGGGACTAAATTGAAAAATAAAAAAAT
54678637 ACATGGTGAAATTGTGAAATAAATGAAACATAGGCCATG
66 ACATGGTGAAATTGTGAAATAAATGAAACATAGGCCATG
*
54678676 CAACTATTATAAAGAGATTTTTGATGAAATTGTCAATTAGGGACTAAATTGAAAAATAAAAAATT
1 CAACTATTATAAAGAGATTTTTGATGAAATTGTCAATTAGGGACTAAATTGAAAAATAAAAAAAT
54678741 ACATGGTGAAATTGTGAAATAAATGAAACATAGGCCATG
66 ACATGGTGAAATTGTGAAATAAATGAAACATAGGCCATG
54678780 C
1 C
54678781 TAGGGACCTA
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 102 1.00
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (104 bp):
CAACTATTATAAAGAGATTTTTGATGAAATTGTCAATTAGGGACTAAATTGAAAAATAAAAAAAT
ACATGGTGAAATTGTGAAATAAATGAAACATAGGCCATG
Found at i:54679336 original size:25 final size:25
Alignment explanation
Indices: 54679263--54679328 Score: 105
Period size: 25 Copynumber: 2.6 Consensus size: 25
54679253 TCCACCACTC
* *
54679263 GTGAGAGCATACTAATTTATAGATT
1 GTGAGAGCATACTGATTTATAGCTT
*
54679288 GTGAAAGCATACTGATTTATAGCTT
1 GTGAGAGCATACTGATTTATAGCTT
54679313 GTGAGAGCATACTGAT
1 GTGAGAGCATACTGAT
54679329 CTGCAGCTCG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (25 bp):
GTGAGAGCATACTGATTTATAGCTT
Found at i:54684651 original size:43 final size:43
Alignment explanation
Indices: 54684590--54684707 Score: 200
Period size: 43 Copynumber: 2.7 Consensus size: 43
54684580 ACCGTGTGTT
* *
54684590 CCTACTTCAAATTCCCACATGGCTTGAGACACGACTGTTTGTC
1 CCTACTTCAAATGCCCACATGGCCTGAGACACGACTGTTTGTC
54684633 CCTACTTCAAATGCCCACATGGCCTGAGACACGACTGTTTGTC
1 CCTACTTCAAATGCCCACATGGCCTGAGACACGACTGTTTGTC
* *
54684676 CCTACTTCAAATGCCCACACGACCTGAGACAC
1 CCTACTTCAAATGCCCACATGGCCTGAGACAC
54684708 AGGCGTGTCT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (43 bp):
CCTACTTCAAATGCCCACATGGCCTGAGACACGACTGTTTGTC
Found at i:54710443 original size:38 final size:37
Alignment explanation
Indices: 54710378--54710455 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 37
54710368 ATATTTGATG
* * *
54710378 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCAGGTTAAATCCAGCAAGCTTCGTGCTGGT-T
**
54710416 TATATCCAGGTTTTATCCAGCAAGCTTCGTGCTGGTT
1 TATATCCAGGTTAAATCCAGCAAGCTTCGTGCTGGTT
54710453 TAT
1 TAT
54710456 CCCGCAGGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
37 4 0.11
38 31 0.89
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (37 bp):
TATATCCAGGTTAAATCCAGCAAGCTTCGTGCTGGTT
Found at i:54710457 original size:24 final size:24
Alignment explanation
Indices: 54710427--54710480 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
54710417 ATATCCAGGT
*
54710427 TTTATCCAGCAAGCTTCGTGCTGG
1 TTTATCCAGCAAGCTTCATGCTGG
* *
54710451 TTTATCCCGCAGGCTTCATGCTGG
1 TTTATCCAGCAAGCTTCATGCTGG
54710475 TATTAT
1 T-TTAT
54710481 ATCCGGGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (24 bp):
TTTATCCAGCAAGCTTCATGCTGG
Found at i:54710510 original size:62 final size:63
Alignment explanation
Indices: 54710392--54710518 Score: 184
Period size: 62 Copynumber: 2.0 Consensus size: 63
54710382 TCCGGGTTAA
* ** *
54710392 ATCCCGCAGGCTTCGTGCTGGTATTATATCCAGGTTTTATCCAGCAAGCTTCGTGCTGGT-TT
1 ATCCCGCAGGCTTCATGCTGGTATTATATCCAGGTTAAATCCAGCAAGCTTAGTGCTGGTATT
* * *
54710454 ATCCCGCAGGCTTCATGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATT
1 ATCCCGCAGGCTTCATGCTGGTATTATATCCAGGTTAAATCCAGCAAGCTTAGTGCTGGTATT
54710517 AT
1 AT
54710519 ATCCGGGTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
62 53 0.93
63 4 0.07
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (63 bp):
ATCCCGCAGGCTTCATGCTGGTATTATATCCAGGTTAAATCCAGCAAGCTTAGTGCTGGTATT
Found at i:54710511 original size:38 final size:38
Alignment explanation
Indices: 54710454--54710558 Score: 194
Period size: 38 Copynumber: 2.8 Consensus size: 38
54710444 GTGCTGGTTT
54710454 ATCCCGCAGGCTTCA-TGCTGGTATTATATCCGGGTTAA
1 ATCCCGCAGGCTT-AGTGCTGGTATTATATCCGGGTTAA
54710492 ATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAA
1 ATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAA
54710530 ATCCCGCAGGCTTAGTGCTGGTATTATAT
1 ATCCCGCAGGCTTAGTGCTGGTATTATAT
54710559 TCGAGCTTAA
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
37 1 0.02
38 65 0.98
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (38 bp):
ATCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAA
Found at i:54715288 original size:24 final size:24
Alignment explanation
Indices: 54715256--54715311 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
54715246 GTCGAGAATC
54715256 AACAGGTGTTGTCCCTTGCGCGGG
1 AACAGGTGTTGTCCCTTGCGCGGG
54715280 AACAGGTGTTGTCCCTTGCGCGGG
1 AACAGGTGTTGTCCCTTGCGCGGG
*
54715304 AGCAGGTG
1 AACAGGTG
54715312 CTATACCCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.14, C:0.23, G:0.39, T:0.23
Consensus pattern (24 bp):
AACAGGTGTTGTCCCTTGCGCGGG
Found at i:54715564 original size:18 final size:18
Alignment explanation
Indices: 54715543--54715577 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
54715533 GAGGCATTAT
54715543 CAAACAAAAACACATTTC
1 CAAACAAAAACACATTTC
**
54715561 CAAACAACCACACATTT
1 CAAACAAAAACACATTT
54715578 ATACAAGTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.17
Consensus pattern (18 bp):
CAAACAAAAACACATTTC
Found at i:54717209 original size:56 final size:56
Alignment explanation
Indices: 54717146--54717278 Score: 239
Period size: 56 Copynumber: 2.4 Consensus size: 56
54717136 TCCCAGACAG
*
54717146 GGTCTTACTCACACACATATATCGGAGTCACATATCAATGCCAACGTATAAAACAT
1 GGTCTTACTCACACACATATATCGAAGTCACATATCAATGCCAACGTATAAAACAT
*
54717202 GGTCTTACTCACACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACAT
1 GGTCTTACTCACACACATATATCGAAGTCACATATCAATGCCAACGTATAAAACAT
*
54717258 GGTCTTACTCGCACACATATA
1 GGTCTTACTCACACACATATA
54717279 ACGATGCCAT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 74 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.26
Consensus pattern (56 bp):
GGTCTTACTCACACACATATATCGAAGTCACATATCAATGCCAACGTATAAAACAT
Found at i:54719493 original size:22 final size:21
Alignment explanation
Indices: 54719468--54719508 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
54719458 CCGAATTGGT
54719468 CACACGAGCATGTTGCCCCTCC
1 CACACGAGCATG-TGCCCCTCC
* *
54719490 CACACGGGCGTGTGCCCCT
1 CACACGAGCATGTGCCCCT
54719509 ATGTCTAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.15, C:0.44, G:0.24, T:0.17
Consensus pattern (21 bp):
CACACGAGCATGTGCCCCTCC
Found at i:54732329 original size:27 final size:27
Alignment explanation
Indices: 54732298--54732475 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
54732288 TAAATTGTAC
54732298 AGCACTAAGTGTGCGATTTGACTATAT
1 AGCACTAAGTGTGCGATTTGACTATAT
* ** *
54732325 TGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTAT-AT
* * **
54732353 -GCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGATTTGACTATAT
* *
54732379 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATAT
* **
54732407 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATAT
* *
54732434 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATAT
*
54732461 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
54732476 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATAT
Found at i:54732413 original size:82 final size:81
Alignment explanation
Indices: 54732299--54732454 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
54732289 AAATTGTACA
* *
54732299 GCACTAAGTGTGCGATTTGACTATATTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATATAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
54732363 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
54732380 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATATAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
54732445 TGCGAGTTGA
65 TGCGAATTGA
54732455 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATATAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:54732466 original size:82 final size:81
Alignment explanation
Indices: 54732295--54732475 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
54732285 GATTAAATTG
* *
54732295 TACAGCACTAAGTGTGCGATTTGACTATATTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATATAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
54732360 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
54732376 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATATAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
54732440 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
54732458 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
54732476 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATATAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:54738043 original size:18 final size:18
Alignment explanation
Indices: 54737971--54738043 Score: 92
Period size: 18 Copynumber: 4.1 Consensus size: 18
54737961 CTTGGTCCAT
*
54737971 TGCAGTAACAGTAAACAG
1 TGCAGTAACAGTAAATAG
* *
54737989 TGCAGTAACAATAACTAG
1 TGCAGTAACAGTAAATAG
* * *
54738007 TGTAGTAATAGTAATTAG
1 TGCAGTAACAGTAAATAG
54738025 TGCAGTAACAGTAAATAG
1 TGCAGTAACAGTAAATAG
54738043 T
1 T
54738044 ATGCAAATCC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (18 bp):
TGCAGTAACAGTAAATAG
Found at i:54738417 original size:27 final size:27
Alignment explanation
Indices: 54738363--54738566 Score: 163
Period size: 27 Copynumber: 7.5 Consensus size: 27
54738353 AATATACACA
*
54738363 TACATCATATATGGGCAAAA-TAATCATTT
1 TACATCATA-A-GGGCAAAACT-TTCATTT
*
54738392 TACATCATAAGGGAAAAACTTTCATTT
1 TACATCATAAGGGCAAAACTTTCATTT
* * *
54738419 TACCTCATAAGGG-AAAAATCGTCATTT
1 TACATCATAAGGGCAAAACT-TTCATTT
*
54738446 TATCA-CATAAGGGCAAAACAGTT-ATTTT
1 TA-CATCATAAGGGCAAAAC-TTTCA-TTT
* **
54738474 TCCAT-ATAAGGGCAAAACCGTCATTT
1 TACATCATAAGGGCAAAACTTTCATTT
*
54738500 TACCTCATAAGGGCAAAA-TCTTCATTT
1 TACATCATAAGGGCAAAACT-TTCATTT
*
54738527 TATCA-CATAAGGGCAAAACTATCATTT
1 TA-CATCATAAGGGCAAAACTTTCATTT
54738554 TATC-TCATAAGGG
1 TA-CATCATAAGGG
54738567 TTCAGGTACG
Statistics
Matches: 144, Mismatches: 18, Indels: 28
0.76 0.09 0.15
Matches are distributed among these distances:
26 12 0.08
27 109 0.76
28 14 0.10
29 9 0.06
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (27 bp):
TACATCATAAGGGCAAAACTTTCATTT
Found at i:54738445 original size:54 final size:54
Alignment explanation
Indices: 54738386--54738566 Score: 187
Period size: 54 Copynumber: 3.4 Consensus size: 54
54738376 GGCAAAATAA
* *
54738386 TCATTTTA-CATCATAAGGGAAAAACTTTCATTTTACCTCATAAGGGAAAAATCG
1 TCATTTTATCATCATAAGGGCAAAACTTTCATTTTACCTCATAAGGGCAAAA-CG
* *
54738440 TCATTTTATCA-CATAAGGGCAAAACAGTT-ATTTTTCCAT-ATAAGGGCAAAACCG
1 TCATTTTATCATCATAAGGGCAAAAC-TTTCATTTTACC-TCATAAGGGCAAAA-CG
* * * *
54738494 TCATTTTA-CCTCATAAGGGCAAAA-TCTTCATTTTATCACATAAGGGCAAAACTA
1 TCATTTTATCATCATAAGGGCAAAACT-TTCATTTTACCTCATAAGGGCAAAAC-G
54738548 TCATTTTATC-TCATAAGGG
1 TCATTTTATCATCATAAGGG
54738567 TTCAGGTACG
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
53 4 0.04
54 97 0.91
55 6 0.06
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.32
Consensus pattern (54 bp):
TCATTTTATCATCATAAGGGCAAAACTTTCATTTTACCTCATAAGGGCAAAACG
Found at i:54738510 original size:81 final size:82
Alignment explanation
Indices: 54738389--54738545 Score: 253
Period size: 81 Copynumber: 1.9 Consensus size: 82
54738379 AAAATAATCA
**
54738389 TTTTACATCATAAGGGAAAAACTTTCATTTTACCTCATAAGGGAAAAATCGTCATTTTATCACAT
1 TTTTACATCATAAGGGAAAAACCGTCATTTTACCTCATAAGGGAAAAATCGTCATTTTATCACAT
54738454 AAGGGCAAAACAGTTAT
66 AAGGGCAAAACAGTTAT
* * * *
54738471 TTTTCCAT-ATAAGGGCAAAACCGTCATTTTACCTCATAAGGGCAAAATCTTCATTTTATCACAT
1 TTTTACATCATAAGGGAAAAACCGTCATTTTACCTCATAAGGGAAAAATCGTCATTTTATCACAT
54738535 AAGGGCAAAAC
66 AAGGGCAAAAC
54738546 TATCATTTTA
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
81 62 0.90
82 7 0.10
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (82 bp):
TTTTACATCATAAGGGAAAAACCGTCATTTTACCTCATAAGGGAAAAATCGTCATTTTATCACAT
AAGGGCAAAACAGTTAT
Found at i:54738554 original size:81 final size:82
Alignment explanation
Indices: 54738366--54738566 Score: 252
Period size: 81 Copynumber: 2.5 Consensus size: 82
54738356 ATACACATAC
* * **
54738366 ATCATATATGGGCAAAA-TAATCA-TTTTACATCATAAGGGAAAAACTTTCATTTTACCTCATAA
1 ATCACATAAGGGCAAAACT-ATCATTTTTACATCATAAGGGAAAAACCGTCATTTTACCTCATAA
54738429 GGGAAAAATCGTCATTTT
65 GGGAAAAATCGTCATTTT
* * *
54738447 ATCACATAAGGGCAAAAC-AGTTATTTTTCCAT-ATAAGGGCAAAACCGTCATTTTACCTCATAA
1 ATCACATAAGGGCAAAACTA-TCATTTTTACATCATAAGGGAAAAACCGTCATTTTACCTCATAA
* *
54738510 GGGCAAAATCTTCATTTT
65 GGGAAAAATCGTCATTTT
54738528 ATCACATAAGGGCAAAACTATCA-TTTTATC-TCATAAGGG
1 ATCACATAAGGGCAAAACTATCATTTTTA-CATCATAAGGG
54738567 TTCAGGTACG
Statistics
Matches: 103, Mismatches: 11, Indels: 12
0.82 0.09 0.10
Matches are distributed among these distances:
80 6 0.06
81 89 0.86
82 8 0.08
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.31
Consensus pattern (82 bp):
ATCACATAAGGGCAAAACTATCATTTTTACATCATAAGGGAAAAACCGTCATTTTACCTCATAAG
GGAAAAATCGTCATTTT
Found at i:54741922 original size:27 final size:27
Alignment explanation
Indices: 54741890--54742083 Score: 230
Period size: 27 Copynumber: 7.2 Consensus size: 27
54741880 ACATACATCA
54741890 CATAAGGGCAAAATAGTCATTTTACCT
1 CATAAGGGCAAAATAGTCATTTTACCT
* *
54741917 CATAAGGGAAAAATCGTCATTTTACCT
1 CATAAGGGCAAAATAGTCATTTTACCT
* *
54741944 CATAAGGGCAAAATTA-TCATTTTATCA
1 CATAAGGGCAAAA-TAGTCATTTTACCT
* * *
54741971 CATAAGGGCAAAACAATCATTTTTCCAT
1 CATAAGGGCAAAATAGTCATTTTACC-T
**
54741999 -ATAAGGGCAAAACCGTCATTTTACCT
1 CATAAGGGCAAAATAGTCATTTTACCT
* * *
54742025 CATAAGGGCAAAATCGTCATTTTATCA
1 CATAAGGGCAAAATAGTCATTTTACCT
* *
54742052 CATAAGGGCAAAACAGTCATTTTATCT
1 CATAAGGGCAAAATAGTCATTTTACCT
54742079 CATAA
1 CATAA
54742084 AGGTTCAGGT
Statistics
Matches: 144, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.01
27 141 0.98
28 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (27 bp):
CATAAGGGCAAAATAGTCATTTTACCT
Found at i:54741980 original size:81 final size:81
Alignment explanation
Indices: 54741886--54742083 Score: 308
Period size: 81 Copynumber: 2.4 Consensus size: 81
54741876 ATATACATAC
* *
54741886 ATCACATAAGGGCAAAATAGTCATTTTACCTCATAAGGGAAAAATCGTCATTTTACCTCATAAGG
1 ATCACATAAGGGCAAAACAGTCATTTTACCTCATAAGGGAAAAACCGTCATTTTACCTCATAAGG
*
54741951 GCAAAATTATCATTTT
66 GCAAAATCATCATTTT
* * *
54741967 ATCACATAAGGGCAAAACAATCATTTTTCCAT-ATAAGGGCAAAACCGTCATTTTACCTCATAAG
1 ATCACATAAGGGCAAAACAGTCATTTTACC-TCATAAGGGAAAAACCGTCATTTTACCTCATAAG
*
54742031 GGCAAAATCGTCATTTT
65 GGCAAAATCATCATTTT
*
54742048 ATCACATAAGGGCAAAACAGTCATTTTATCTCATAA
1 ATCACATAAGGGCAAAACAGTCATTTTACCTCATAA
54742084 AGGTTCAGGT
Statistics
Matches: 105, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
80 1 0.01
81 103 0.98
82 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (81 bp):
ATCACATAAGGGCAAAACAGTCATTTTACCTCATAAGGGAAAAACCGTCATTTTACCTCATAAGG
GCAAAATCATCATTTT
Found at i:54746482 original size:3 final size:3
Alignment explanation
Indices: 54746474--54746500 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
54746464 GGCATTCGGC
54746474 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
54746501 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:54747871 original size:40 final size:40
Alignment explanation
Indices: 54747813--54747951 Score: 242
Period size: 40 Copynumber: 3.5 Consensus size: 40
54747803 GATAGATAAT
* *
54747813 GTAAAATATATCCAGGTTAAATCCCGTAGGCTTTGTGCTG
1 GTAAAATATATCCGGGTTAAATCCCGCAGGCTTTGTGCTG
54747853 GTAAAATATATCCGGGTTAAATCCCGCAGGCTTTGTGCTG
1 GTAAAATATATCCGGGTTAAATCCCGCAGGCTTTGTGCTG
*
54747893 GTAAAATATATCCGGGTTAAATCCCGCAAGCTTTGTGCTG
1 GTAAAATATATCCGGGTTAAATCCCGCAGGCTTTGTGCTG
*
54747933 GTAAAATATATCTGGGTTA
1 GTAAAATATATCCGGGTTA
54747952 TAAACCTAGC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 95 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (40 bp):
GTAAAATATATCCGGGTTAAATCCCGCAGGCTTTGTGCTG
Found at i:54748975 original size:27 final size:27
Alignment explanation
Indices: 54748945--54749141 Score: 191
Period size: 27 Copynumber: 7.3 Consensus size: 27
54748935 ACATACATCA
* * *
54748945 CATAGGGGCAAAACAGACATTTTAACT
1 CATAAGGGCAAAACAGTCATTTTACCT
*
54748972 CATAAGGGCAAAACTA-TCATTTTGCCT
1 CATAAGGGCAAAAC-AGTCATTTTACCT
** * *
54748999 CATAAGGGCAAAATTGTTATTTTATCAT
1 CATAAGGGCAAAACAGTCATTTTA-CCT
* *
54749027 -ATAAGGGCAAAACAGTCATTTTGCCA
1 CATAAGGGCAAAACAGTCATTTTACCT
* *
54749053 CATAAGGGTAAAACCGTCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
* ** * *
54749080 CGTAAGGGCAAAACCTTCATTTTATCA
1 CATAAGGGCAAAACAGTCATTTTACCT
* *
54749107 CATAAGGGCAAAACAATCATTTTATCT
1 CATAAGGGCAAAACAGTCATTTTACCT
54749134 CATAAGGG
1 CATAAGGG
54749142 TTCAGGTATG
Statistics
Matches: 138, Mismatches: 28, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
26 1 0.01
27 134 0.97
28 3 0.02
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (27 bp):
CATAAGGGCAAAACAGTCATTTTACCT
Found at i:54749142 original size:81 final size:81
Alignment explanation
Indices: 54748941--54749142 Score: 246
Period size: 81 Copynumber: 2.5 Consensus size: 81
54748931 ATACACATAC
* * * *
54748941 ATCACATAGGGGCAAAACAGA-CATTTTAACTCATAAGGGCAAAACTATCATTTTGCCTCATAAG
1 ATCACATAAGGGCAAAACA-ATCATTTTAACTCATAAGGGTAAAACCATCATTTTACCTCATAAG
* *
54749005 GGCAAAATTGTTATTTT
65 GGCAAAACTGTCATTTT
* * ** * * *
54749022 ATCATATAAGGGCAAAACAGTCATTTTGCCACATAAGGGTAAAACCGTCATTTTACCTCGTAAGG
1 ATCACATAAGGGCAAAACAATCATTTTAACTCATAAGGGTAAAACCATCATTTTACCTCATAAGG
54749087 GCAAAACCT-TCATTTT
66 GCAAAA-CTGTCATTTT
*
54749103 ATCACATAAGGGCAAAACAATCATTTTATCTCATAAGGGT
1 ATCACATAAGGGCAAAACAATCATTTTAACTCATAAGGGT
54749143 TCAGGTATGC
Statistics
Matches: 101, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
81 100 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (81 bp):
ATCACATAAGGGCAAAACAATCATTTTAACTCATAAGGGTAAAACCATCATTTTACCTCATAAGG
GCAAAACTGTCATTTT
Found at i:54751103 original size:77 final size:77
Alignment explanation
Indices: 54750972--54751153 Score: 258
Period size: 77 Copynumber: 2.4 Consensus size: 77
54750962 GTAAGTTATA
* * * *
54750972 CGAAGGACTATTATCATGGCCTGAAGCCAAACAATCCAATATGCATGTCCCGAAGCCAAATCGGT
1 CGAAGTACTATTATCATGGCCCGAAGCCAAACAATCCAATATGCATGGCCCGAAGCCAAATCAGT
54751037 ATAATACACA-C
66 ATAATACACAGC
* * * * *
54751048 TCGAAGTGCTATTATCATGGCCCAAAGCCAAACCATCCGATATGCATGGCTCGAAGCCAAATCAG
1 -CGAAGTACTATTATCATGGCCCGAAGCCAAACAATCCAATATGCATGGCCCGAAGCCAAATCAG
54751113 TATAATACACAGC
65 TATAATACACAGC
*
54751126 CGAAGTACTAATATCATGGCCCGAAGCC
1 CGAAGTACTATTATCATGGCCCGAAGCC
54751154 TAATCAACAT
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
77 91 0.99
78 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (77 bp):
CGAAGTACTATTATCATGGCCCGAAGCCAAACAATCCAATATGCATGGCCCGAAGCCAAATCAGT
ATAATACACAGC
Found at i:54757280 original size:43 final size:42
Alignment explanation
Indices: 54757230--54757323 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
54757220 TCCCGGACGT
* * *
54757230 GGTCTTACATGTAGTCAAATATCGATACCACTGTCCCAGACAG
1 GGTCTTACATGAAATCAAATA-CGATACCAATGTCCCAGACAG
* * * *
54757273 GGTCTTACATGAAATCATATACGATGCCAATGTCCCAGTCAT
1 GGTCTTACATGAAATCAAATACGATACCAATGTCCCAGACAG
54757315 GGTCTTACA
1 GGTCTTACA
54757324 CATAAGTCAT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 26 0.59
43 18 0.41
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (42 bp):
GGTCTTACATGAAATCAAATACGATACCAATGTCCCAGACAG
Found at i:54757319 original size:42 final size:43
Alignment explanation
Indices: 54757211--54757367 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 43
54757201 AGCTCGTTCA
* * * * *
54757211 ATGCCAACGTCCCGGACGTGGTCTTACATGTAGTCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATATCG
* * * *
54757254 ATACCACTGTCCCAGACAGGGTCTTACATGAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATATCG
* * *
54757296 ATGCCAATGTCCCAGTCATGGTCTTACACAT-AAGTCATAA-ATTG
1 ATGCCAATGTCCCAGACATGGTCTT--ACATGAAATCA-AATATCG
* **
54757340 ATGCCAATGTCCCAAATGTGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
54757368 CGATAACACA
Statistics
Matches: 90, Mismatches: 20, Indels: 9
0.76 0.17 0.08
Matches are distributed among these distances:
42 26 0.29
43 37 0.41
44 27 0.30
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATATCG
Found at i:54759094 original size:12 final size:12
Alignment explanation
Indices: 54759074--54759103 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
54759064 TTAAGCTATT
*
54759074 ACACGGCCTAGC
1 ACACAGCCTAGC
54759086 ACACAGCCTAGC
1 ACACAGCCTAGC
54759098 ACACAG
1 ACACAG
54759104 GTGTGTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.40, G:0.20, T:0.07
Consensus pattern (12 bp):
ACACAGCCTAGC
Found at i:54766299 original size:29 final size:29
Alignment explanation
Indices: 54766257--54766338 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
54766247 TATATATGTG
*
54766257 AATTATCGAGCACTAAGTGTGTGAAGTAA
1 AATTATCGAGCACTAAGTGTGCGAAGTAA
54766286 AATTATCGAGCACTAAGTGTGCGAAGTAA
1 AATTATCGAGCACTAAGTGTGCGAAGTAA
* *
54766315 AACTATCGAGCACTAAGCGTGCGA
1 AATTATCGAGCACTAAGTGTGCGA
54766339 TCTCATTGCA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (29 bp):
AATTATCGAGCACTAAGTGTGCGAAGTAA
Found at i:54779702 original size:18 final size:18
Alignment explanation
Indices: 54779679--54779716 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
54779669 AATATATATT
54779679 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
54779697 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
54779715 AA
1 AA
54779717 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:54779709 original size:13 final size:13
Alignment explanation
Indices: 54779693--54779717 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54779683 CAAGTACCCA
54779693 ACCCAACCCAATT
1 ACCCAACCCAATT
54779706 ACCCAACCCAAT
1 ACCCAACCCAAT
54779718 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:54779753 original size:6 final size:6
Alignment explanation
Indices: 54779742--54779768 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
54779732 ATAACTTAAT
54779742 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
54779769 AGATATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:54779845 original size:18 final size:18
Alignment explanation
Indices: 54779824--54779864 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
54779814 GTAATTCGAG
54779824 TAATTCAGTTAATTTGAT
1 TAATTCAGTTAATTTGAT
* * *
54779842 TAATGCGGTTAATTTGGT
1 TAATTCAGTTAATTTGAT
54779860 TAATT
1 TAATT
54779865 TTATACTTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.05, G:0.17, T:0.49
Consensus pattern (18 bp):
TAATTCAGTTAATTTGAT
Found at i:54779845 original size:27 final size:27
Alignment explanation
Indices: 54779788--54779855 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
54779778 TTTATACAAA
* *
54779788 TAATTCGGTTAATTTAGTTAACTTGGG
1 TAATTCGGTTAATTCAGTTAACTTGAG
* *
54779815 TAATTCGAG-TAATTCAGTTAATTTGAT
1 TAATTCG-GTTAATTCAGTTAACTTGAG
*
54779842 TAATGCGGTTAATT
1 TAATTCGGTTAATT
54779856 TGGTTAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.03
27 32 0.94
28 1 0.03
ACGTcount: A:0.29, C:0.07, G:0.19, T:0.44
Consensus pattern (27 bp):
TAATTCGGTTAATTCAGTTAACTTGAG
Found at i:54783884 original size:28 final size:28
Alignment explanation
Indices: 54783821--54783971 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
54783811 ACATTAAGTC
*
54783821 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
54783848 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
54783876 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
*
54783904 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
54783932 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
54783961 CGCACACTTAG
1 CGCACACTTAG
54783972 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 75 0.66
29 16 0.14
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:54788212 original size:27 final size:26
Alignment explanation
Indices: 54788166--54788217 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
54788156 GCGAGACTGC
54788166 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGTCACCAGAA
* *
54788192 CAGATATTTGTGGCGAGGTCACCAGA
1 CAGATA-TTGTGACGAAGTCACCAGA
54788218 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGACGAAGTCACCAGAA
Found at i:54795607 original size:33 final size:32
Alignment explanation
Indices: 54795556--54795619 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
54795546 ACGAAGTCAC
* *
54795556 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCAAAGCCACCAGAA
* *
54795588 CAGATATATATATATGTGGCAAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCAAAGCCACCAGA
54795620 TTGCAGCGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCAAAGCCACCAGAA
Found at i:54795683 original size:27 final size:26
Alignment explanation
Indices: 54795635--54795686 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
54795625 GCGACGCTGC
*
54795635 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
54795661 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
54795687 TTGCAATGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:54801180 original size:18 final size:19
Alignment explanation
Indices: 54801132--54801174 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
54801122 CATTTGAATT
54801132 GTTATCAGAAAAATTTAGA
1 GTTATCAGAAAAATTTAGA
54801151 GTTATCAGAAAAATTTAGA
1 GTTATCAGAAAAATTTAGA
54801170 GTTAT
1 GTTAT
54801175 TAAAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.35
Consensus pattern (19 bp):
GTTATCAGAAAAATTTAGA
Found at i:54801885 original size:11 final size:11
Alignment explanation
Indices: 54801854--54801899 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
54801844 ATGAATATAA
54801854 CATGTGCATAT
1 CATGTGCATAT
*
54801865 CA--TACATAT
1 CATGTGCATAT
54801874 CATGTGCATAT
1 CATGTGCATAT
*
54801885 CATGT-CAAAT
1 CATGTGCATAT
54801895 CATGT
1 CATGT
54801900 ATATCAAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 8 0.27
10 9 0.30
11 13 0.43
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:54805480 original size:40 final size:39
Alignment explanation
Indices: 54805418--54805532 Score: 140
Period size: 40 Copynumber: 2.9 Consensus size: 39
54805408 GATTTAGATT
* * *
54805418 TACCGGAGTATAAATAGGGCACATATGTGCAATCAGGGG
1 TACCGAAGTATAAAAAGGGCACATATGTGCAATCAAGGG
* * *
54805457 TACTGAAGTATAAAGAAGGGCACATATGTGCACTTAAGGG
1 TACCGAAGTATAAA-AAGGGCACATATGTGCAATCAAGGG
* *
54805497 TACCGAAGTACAAACAGGGGCACATATGTGCAATCA
1 TACCGAAGTATAAA-AAGGGCACATATGTGCAATCA
54805533 TAAAATAATT
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 12 0.19
40 51 0.81
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.20
Consensus pattern (39 bp):
TACCGAAGTATAAAAAGGGCACATATGTGCAATCAAGGG
Found at i:54810032 original size:50 final size:49
Alignment explanation
Indices: 54809926--54810055 Score: 179
Period size: 50 Copynumber: 2.6 Consensus size: 49
54809916 CTCGTACGCA
* * * * ** *
54809926 TAGTAGCCTACACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
*
54809975 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCGATACACG
54810025 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
54810056 TCGAAGTTAT
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
49 29 0.40
50 43 0.60
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
Found at i:54811041 original size:11 final size:11
Alignment explanation
Indices: 54811025--54811057 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
54811015 CATAGACCTC
54811025 AAAATAATTAT
1 AAAATAATTAT
54811036 AAAATAATTAT
1 AAAATAATTAT
54811047 AAAATAATTAT
1 AAAATAATTAT
54811058 TTCTATCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATAATTAT
Found at i:54811790 original size:15 final size:15
Alignment explanation
Indices: 54811738--54811791 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
54811728 TAAAGATAAC
*
54811738 AAGAAAGCC-GAATA
1 AAGAAACCCAGAATA
*
54811752 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
54811767 GAA-AAACCCAGAATA
1 -AAGAAACCCAGAATA
54811782 AAGAAACCCA
1 AAGAAACCCA
54811792 AGATACGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
14 11 0.33
15 19 0.58
16 3 0.09
ACGTcount: A:0.59, C:0.19, G:0.15, T:0.07
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:54814855 original size:49 final size:49
Alignment explanation
Indices: 54814791--54814986 Score: 212
Period size: 50 Copynumber: 3.9 Consensus size: 49
54814781 TAGCTAAAGC
* * *
54814791 TATCTGGTACGCATAGTAGCTTGCACATAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* ** *
54814840 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATATGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
* ** * * * *
54814890 CATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
* * *
54814941 TATCGGGTACGCATTGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
54814987 TCACAATAGA
Statistics
Matches: 118, Mismatches: 26, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
49 40 0.34
50 42 0.36
51 36 0.31
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:54814879 original size:26 final size:26
Alignment explanation
Indices: 54814847--54814928 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
54814837 AATTATCCGG
54814847 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
* * * *
54814873 TACACATA-T-GACCT-AAC-CATCTAA
1 TACACATAGTAG-CCTGCACTTA-GTAC
*
54814897 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
54814923 TACACA
1 TACACA
54814929 CGTGATCGAA
Statistics
Matches: 40, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
23 1 0.03
24 12 0.30
25 8 0.20
26 18 0.45
27 1 0.03
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACTTAGTAC
Found at i:54814987 original size:101 final size:99
Alignment explanation
Indices: 54814804--54814987 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 99
54814794 CTGGTACGCA
* *
54814804 TAGTAGCTTGCACATAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
1 TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
*
54814869 GTACTACACATATGACCTAACCATCTAATACACG
66 GTACTACACATACGACCTAACCATCTAATACACG
* * * * * *
54814903 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATTGTAGCCTGCACT
1 TAGTAGCCTGCACATAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
*
54814968 TAGTACTACACATGCGACCT
64 TAGTACTACACATACGACCT
54814988 CACAATAGAT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 27 0.37
100 3 0.04
101 43 0.59
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACATACGACCTAACCATCTAATACACG
Found at i:54820076 original size:19 final size:20
Alignment explanation
Indices: 54820038--54820076 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
54820028 ATAATATTTG
*
54820038 AAATATACATAAAGTAGTAA
1 AAATATACATAAACTAGTAA
*
54820058 AAATATATAT-AACTAGTAA
1 AAATATACATAAACTAGTAA
54820077 TGTTAAAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (20 bp):
AAATATACATAAACTAGTAA
Found at i:54820375 original size:19 final size:18
Alignment explanation
Indices: 54820351--54820391 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
54820341 AATATATACC
*
54820351 TATATATATATTAAAGACA
1 TATATATATAATAAA-ACA
54820370 TATATATATAATAAAACA
1 TATATATATAATAAAACA
54820388 TATA
1 TATA
54820392 CTTAAGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (18 bp):
TATATATATAATAAAACA
Found at i:54820810 original size:21 final size:22
Alignment explanation
Indices: 54820762--54820826 Score: 78
Period size: 21 Copynumber: 2.9 Consensus size: 22
54820752 TAAATACTAT
54820762 TAATATTAAAAAAATAACTTATTAA
1 TAATATTAAAAAAAT-A--TATTAA
* *
54820787 TAATATTACATAAATATATT-A
1 TAATATTAAAAAAATATATTAA
54820808 TAATATTAAAAAAATATAT
1 TAATATTAAAAAAATATAT
54820827 ACGTCATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 18 0.50
22 4 0.11
24 1 0.03
25 13 0.36
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (22 bp):
TAATATTAAAAAAATATATTAA
Found at i:54820918 original size:15 final size:16
Alignment explanation
Indices: 54820883--54820924 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
54820873 AATATATTGA
*
54820883 TAATAAATAATAAGAG
1 TAATAAATAATAACAG
*
54820899 GAATAAA-AATAACAG
1 TAATAAATAATAACAG
54820914 TAATAATATAA
1 TAATAA-ATAA
54820925 ATAATAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 12 0.57
16 7 0.33
17 2 0.10
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (16 bp):
TAATAAATAATAACAG
Found at i:54822843 original size:89 final size:85
Alignment explanation
Indices: 54822561--54822855 Score: 258
Period size: 86 Copynumber: 3.4 Consensus size: 85
54822551 TGATCTTGAA
** * * * * * * *
54822561 CTCAACTCATTTCTCGCAACATGAATTGACTCTTT-AAAACAGACATTAAAACAGAAATTTAAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGATATGAAAAAAGAAATTGAAAA
* * * *
54822625 TAGCTCAGTGCA-TGAGCCAAGG
65 AACCTC-G-ACAGTGACCCAAGG
* * *
54822647 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGATATGATAATAGAATTTGAAAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGATATGAAAAAAGAAATTGAAAAA
54822712 ACCTCGACATGTGACCCAAGG
66 ACCTCGACA-GTGACCCAAGG
* *
54822733 CTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAA-ATATAAATTGAAAAAAAAAGAAATT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAT--A-TG---AAAAAAGAAATT
* * **
54822797 GAAAATACCTC-AGC-GTGTCCTGAGG
60 GAAAAAACCTCGA-CAGTGACCCAAGG
54822822 CTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTT
54822856 TTGATGAACA
Statistics
Matches: 174, Mismatches: 25, Indels: 17
0.81 0.12 0.08
Matches are distributed among these distances:
84 2 0.01
85 8 0.05
86 99 0.57
87 1 0.01
88 2 0.01
89 41 0.24
90 1 0.01
91 20 0.11
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (85 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGATATGAAAAAAGAAATTGAAAAA
ACCTCGACAGTGACCCAAGG
Found at i:54822913 original size:75 final size:75
Alignment explanation
Indices: 54822790--54822951 Score: 274
Period size: 75 Copynumber: 2.2 Consensus size: 75
54822780 TGAAAAAAAA
54822790 AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
54822855 TTTGATGAAC
66 TTTGATGAAC
54822865 AGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AGAAATTGAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
*
54822929 TTTTGA-AACAC
65 TTTTGATGA-AC
*
54822940 ATAAATTGAAAA
1 AGAAATTGAAAA
54822952 GCAGAAATTG
Statistics
Matches: 82, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
74 5 0.06
75 73 0.89
76 4 0.05
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (75 bp):
AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTTGATGAAC
Found at i:54823015 original size:89 final size:86
Alignment explanation
Indices: 54822862--54823128 Score: 315
Period size: 89 Copynumber: 3.0 Consensus size: 86
54822852 TTTTTTGATG
*
54822862 AACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AACAGAAATTGAAAA-TACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
54822926 TTTTTTTGAAACACATAAATTGAAA
65 --TTTTTGAAA-ACATAAATTGAAA
* *
54822951 AGCAGAAATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* *
54823016 TTTTGACAAACAGAGATTTGAAAAA
66 TTTTGA-AAACATA-AATTG--AAA
* ** * *
54823041 AATAGATTTTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTT
1 AACAGAAATTGAAAATACCTCAG-CATGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
54823105 GATATTTG-AAACATAAATTGAAA
63 GATTTTTGAAAACATAAATTGAAA
54823128 A
1 A
54823129 TACCTCGCGT
Statistics
Matches: 155, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
87 15 0.10
88 6 0.04
89 61 0.39
90 35 0.23
92 38 0.25
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (86 bp):
AACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGAAAACATAAATTGAAA
Found at i:54823165 original size:70 final size:69
Alignment explanation
Indices: 54823049--54823292 Score: 276
Period size: 74 Copynumber: 3.4 Consensus size: 69
54823039 AAAATAGATT
*
54823049 TTGAAAATACCTCGACATGTGACCCGAGGCTCAACTCA-CTTCTCGCAATATGAGTTGATATTTG
1 TTGAAAATACCTCG-C--GTGACCTGAGGCTCAACTCACCTT-TCGCAATATGAGTTGAT-TTTG
*
54823113 AAACATAAA
61 AAACAGAAA
*
54823122 TTGAAAATACCTCGCGTGACCTGAGGCTCAAGTCACCTTTCGCAATATGAGTTGATTTTTTGAAA
1 TTGAAAATACCTCGCGTGACCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGA--TTTTG--A
*
54823187 AACAGGAA
62 AACAGAAA
* *
54823195 TTAAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAA
1 TTGAAAATACCTC-GCGTGACCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTG--AA
*
54823260 ACAGGAA
63 ACAGAAA
*
54823267 TT-AAAAGTACCTCAGCATGACCTGAG
1 TTGAAAA-TACCTC-GCGTGACCTGAG
54823293 TGTAACACCC
Statistics
Matches: 156, Mismatches: 8, Indels: 15
0.87 0.04 0.08
Matches are distributed among these distances:
70 34 0.22
71 11 0.07
72 38 0.24
73 33 0.21
74 40 0.26
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (69 bp):
TTGAAAATACCTCGCGTGACCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTGAAACA
GAAA
Found at i:54823225 original size:74 final size:73
Alignment explanation
Indices: 54823067--54823292 Score: 318
Period size: 72 Copynumber: 3.1 Consensus size: 73
54823057 ACCTCGACAT
* * ** *
54823067 GTGACCCGAGGCTCAACTCA-CTTCTCGCAATATGAGTTGATATTTG--AAACATAAATTGAAAA
1 GTGACCTGAGGCTCAACTCACCTT-TCGCAATATGAGTTGATTTTTGAAAAACAGGAATTAAAAA
54823129 TACCTC-GC
65 TACCTCAGC
*
54823137 GTGACCTGAGGCTCAAGTCACCTTTCGCAATATGAGTTGATTTTTTGAAAAACAGGAATTAAAAA
1 GTGACCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGA-TTTTTGAAAAACAGGAATTAAAAA
54823202 TACCTCAGC
65 TACCTCAGC
* *
54823211 GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACAGGAATTAAAAGT
1 GTGACCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTGAAAAACAGGAATTAAAAAT
54823275 ACCTCAGC
66 ACCTCAGC
*
54823283 ATGACCTGAG
1 GTGACCTGAG
54823293 TGTAACACCC
Statistics
Matches: 141, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
70 34 0.24
71 8 0.06
72 40 0.28
73 19 0.13
74 40 0.28
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (73 bp):
GTGACCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTGAAAAACAGGAATTAAAAAT
ACCTCAGC
Found at i:54824238 original size:27 final size:27
Alignment explanation
Indices: 54824180--54824637 Score: 543
Period size: 27 Copynumber: 17.0 Consensus size: 27
54824170 AAAGTACTCC
*
54824180 CGATTTACAGAATTACCATTTT-CCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
54824206 CGATTTATAGATTTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
54824233 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
54824260 CGGTTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
54824287 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
54824314 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* * *
54824341 CAATTTATAGAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
** *
54824368 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
54824395 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
54824422 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
54824449 CGATTTACAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* **
54824475 CCAGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
54824503 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
54824530 CGATTAGTA-A-AATTACCGTTTTACCCT
1 CGATT--TACAGAATTACCGTTTTACCCT
* * *
54824557 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
54824584 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
54824611 CGATTTACAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
54824638 TAATTGTGAA
Statistics
Matches: 377, Mismatches: 42, Indels: 25
0.85 0.09 0.06
Matches are distributed among these distances:
25 2 0.01
26 25 0.07
27 342 0.91
28 6 0.02
29 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:54824677 original size:27 final size:27
Alignment explanation
Indices: 54824647--54824841 Score: 248
Period size: 27 Copynumber: 7.2 Consensus size: 27
54824637 TTAATTGTGA
*
54824647 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
54824674 AATTTCTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
54824701 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
54824728 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
54824755 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
54824782 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
54824809 AATTACTGAGATACCCTTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
54824836 AATTAC
1 AATTAC
54824842 CATTTTGCCC
Statistics
Matches: 144, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:54824713 original size:54 final size:54
Alignment explanation
Indices: 54824647--54824842 Score: 277
Period size: 54 Copynumber: 3.6 Consensus size: 54
54824637 TTAATTGTGA
* * * * *
54824647 AATTACTAAAATACCCCTGTAGGGTAGAATTTCTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
54824701 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
54824755 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
54824809 AATTACTGAGATACCCTTGTAGGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACC
54824843 ATTTTGCCCC
Statistics
Matches: 125, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 123 0.98
55 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:54825079 original size:27 final size:26
Alignment explanation
Indices: 54825041--54825123 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 26
54825031 CGGAGGAAGC
*
54825041 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTAGTGGCTATGCCAC-AATATCT
*
54825068 GTTCTAGTGGCTCTGCCACAATATCT
1 GTTCTAGTGGCTATGCCACAATATCT
* * * * *
54825094 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTAGTGGCTATGCCACAATATCT
54825121 GTT
1 GTT
54825124 GACCGATCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 10 0.20
27 39 0.80
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
GTTCTAGTGGCTATGCCACAATATCT
Found at i:54825243 original size:22 final size:22
Alignment explanation
Indices: 54825211--54825269 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
54825201 CCCGTTATTA
*
54825211 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
54825233 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
54825255 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
54825270 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:54825456 original size:27 final size:27
Alignment explanation
Indices: 54825434--54825507 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
54825424 TAGGTGGGTT
*
54825434 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
54825461 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
54825488 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
54825508 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:54825634 original size:6 final size:6
Alignment explanation
Indices: 54825625--54825780 Score: 153
Period size: 6 Copynumber: 25.8 Consensus size: 6
54825615 TTGCATTCAC
* *
54825625 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
54825674 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
*
54825722 ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG
1 ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
*
54825770 ATTCTG GTTCT
1 ATTCTG ATTCT
54825781 CATTTTGGTT
Statistics
Matches: 126, Mismatches: 11, Indels: 26
0.77 0.07 0.16
Matches are distributed among these distances:
5 10 0.08
6 106 0.84
7 8 0.06
8 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:54825687 original size:30 final size:30
Alignment explanation
Indices: 54825625--54825780 Score: 207
Period size: 30 Copynumber: 5.4 Consensus size: 30
54825615 TTGCATTCAC
* *
54825625 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
54825656 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
54825686 ATTCTGATTCTGATTCTG----T--TACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
*
54825710 ATTCTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
54825740 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
*
54825770 ATTCTGGTTCT
1 ATTCTGATTCT
54825781 CATTTTGGTT
Statistics
Matches: 112, Mismatches: 7, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
24 23 0.21
26 1 0.01
28 1 0.01
30 67 0.60
31 20 0.18
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:54834550 original size:42 final size:42
Alignment explanation
Indices: 54834475--54834751 Score: 254
Period size: 42 Copynumber: 6.7 Consensus size: 42
54834465 GCCACAAAAA
* *
54834475 TTAGCGGCGTTTTTTAGAAAAAC-CTCGCTAAAGACCAGGACCT
1 TTAGCGGCG-CTTTTATAAAAACGC-CGCTAAAGACCAGGACCT
* * *
54834518 TTAGCGGCGCTCTTATAAAAATGCCGCCAAAGACCAGGACC-
1 TTAGCGGCGCTTTTATAAAAACGCCGCTAAAGACCAGGACCT
*
54834559 TT--------TTTTA-AAAAATGCCGCTAGAA-ACCAGGACCT
1 TTAGCGGCGCTTTTATAAAAACGCCGCTA-AAGACCAGGACCT
* * * *
54834592 TTAGCGGCGCTTTTATAAAAACGCCGCTATAGACCTGTACTT
1 TTAGCGGCGCTTTTATAAAAACGCCGCTAAAGACCAGGACCT
*
54834634 TTAGCGGCGCTTTTATAAAAAAACGCTGCTAAAGACCAGGACCT
1 TTAGCGGCGCTTTTAT--AAAAACGCCGCTAAAGACCAGGACCT
* * * * *
54834678 TTAGCGGCACTTTTATAAAAAACGCCGCTATAGACCTGTACTT
1 TTAGCGGCGCTTTTAT-AAAAACGCCGCTAAAGACCAGGACCT
*
54834721 TTAGCGGCGCTTTTTTAAAAAACGCCGCTAA
1 TTAGCGGCGCTTTTAT-AAAAACGCCGCTAA
54834752 TTTTCCTAGT
Statistics
Matches: 193, Mismatches: 26, Indels: 30
0.78 0.10 0.12
Matches are distributed among these distances:
32 21 0.11
33 8 0.04
41 8 0.04
42 60 0.31
43 60 0.31
44 36 0.19
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (42 bp):
TTAGCGGCGCTTTTATAAAAACGCCGCTAAAGACCAGGACCT
Found at i:54834713 original size:43 final size:43
Alignment explanation
Indices: 54834558--54834750 Score: 244
Period size: 43 Copynumber: 4.5 Consensus size: 43
54834548 AGACCAGGAC
* * * *
54834558 CTTTTTTAAAAAATGCCGCTAGAAACCAGGACCTTTAGCGGCG
1 CTTTTATAAAAAACGCCGCTATAGACCAGGACCTTTAGCGGCG
* * *
54834601 CTTTTAT-AAAAACGCCGCTATAGACCTGTACTTTTAGCGGCG
1 CTTTTATAAAAAACGCCGCTATAGACCAGGACCTTTAGCGGCG
* * *
54834643 CTTTTATAAAAAAACGCTGCTAAAGACCAGGACCTTTAGCGGCA
1 CTTTTAT-AAAAAACGCCGCTATAGACCAGGACCTTTAGCGGCG
* * *
54834687 CTTTTATAAAAAACGCCGCTATAGACCTGTACTTTTAGCGGCG
1 CTTTTATAAAAAACGCCGCTATAGACCAGGACCTTTAGCGGCG
*
54834730 CTTTTTTAAAAAACGCCGCTA
1 CTTTTATAAAAAACGCCGCTA
54834751 ATTTTCCTAG
Statistics
Matches: 128, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
42 36 0.28
43 56 0.44
44 36 0.28
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (43 bp):
CTTTTATAAAAAACGCCGCTATAGACCAGGACCTTTAGCGGCG
Found at i:54834741 original size:86 final size:84
Alignment explanation
Indices: 54834558--54834751 Score: 316
Period size: 86 Copynumber: 2.3 Consensus size: 84
54834548 AGACCAGGAC
* *
54834558 CTTTTTTAAAAAATGCCGCTAGAAACCAGGACCTTTAGCGGCGCTTTTATAAAAACGCCGCTATA
1 CTTTTTTAAAAAACGCCGCTA-AAACCAGGACCTTTAGCGGCACTTTTATAAAAACGCCGCTATA
54834623 GACCTGTACTTTTAGCGGCG
65 GACCTGTACTTTTAGCGGCG
* *
54834643 CTTTTATAAAAAAACGCTGCTAAAGACCAGGACCTTTAGCGGCACTTTTATAAAAAACGCCGCTA
1 CTTTT-TTAAAAAACGCCGCTAAA-ACCAGGACCTTTAGCGGCACTTTTAT-AAAAACGCCGCTA
54834708 TAGACCTGTACTTTTAGCGGCG
63 TAGACCTGTACTTTTAGCGGCG
54834730 CTTTTTTAAAAAACGCCGCTAA
1 CTTTTTTAAAAAACGCCGCTAA
54834752 TTTTCCTAGT
Statistics
Matches: 100, Mismatches: 6, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
85 7 0.07
86 53 0.53
87 40 0.40
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (84 bp):
CTTTTTTAAAAAACGCCGCTAAAACCAGGACCTTTAGCGGCACTTTTATAAAAACGCCGCTATAG
ACCTGTACTTTTAGCGGCG
Found at i:54835663 original size:18 final size:18
Alignment explanation
Indices: 54835631--54835668 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
54835621 TACAATATAG
54835631 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
54835650 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
54835667 TA
1 TA
54835669 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:54835832 original size:41 final size:41
Alignment explanation
Indices: 54835787--54835888 Score: 141
Period size: 41 Copynumber: 2.5 Consensus size: 41
54835777 GCAAAAAATA
* *
54835787 GAGCAATAGCGGCGTTTTTGATCCAAACGCTACTAAAAACT
1 GAGCAATAGCGGCGTTTTTGACCCAAACGCCACTAAAAACT
* * *
54835828 GAGCAATAGTGGCGTTTTTGGCCCAAACGCCGCTAAAAACT
1 GAGCAATAGCGGCGTTTTTGACCCAAACGCCACTAAAAACT
* *
54835869 GAACAATAGCGGCGCTTTTG
1 GAGCAATAGCGGCGTTTTTG
54835889 GAAAAACGCC
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.24
Consensus pattern (41 bp):
GAGCAATAGCGGCGTTTTTGACCCAAACGCCACTAAAAACT
Found at i:54835889 original size:41 final size:40
Alignment explanation
Indices: 54835790--54835902 Score: 136
Period size: 41 Copynumber: 2.8 Consensus size: 40
54835780 AAAAATAGAG
* ** *
54835790 CAATAGCGGCGTTTTTGATCCAAACGCTACTAAAAACTGAG
1 CAATAGCGGCGTTTTTG-GCCAAACGCCGCTAAAAACTGAA
*
54835831 CAATAGTGGCGTTTTTGGCCCAAACGCCGCTAAAAACTGAA
1 CAATAGCGGCGTTTTTGG-CCAAACGCCGCTAAAAACTGAA
* **
54835872 CAATAGCGGCGCTTTTGGAAAAACGCCGCTA
1 CAATAGCGGCGTTTTTGGCCAAACGCCGCTA
54835903 TAGGTCGAGG
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
40 11 0.18
41 51 0.82
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (40 bp):
CAATAGCGGCGTTTTTGGCCAAACGCCGCTAAAAACTGAA
Found at i:54835920 original size:41 final size:41
Alignment explanation
Indices: 54835875--54836023 Score: 253
Period size: 41 Copynumber: 3.6 Consensus size: 41
54835865 AACTGAACAA
*
54835875 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTT
* *
54835916 TAGCGGCGCTTCTGGAAAAACGCTGCTATAGGCCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTT
*
54835957 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGATGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTT
*
54835998 TAGCGGCGCTTTTGGAAAAATGCCGC
1 TAGCGGCGCTTTTGGAAAAACGCCGC
54836024 AAAAAAGTAA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 101 1.00
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGCCGAGGTTT
Found at i:54836354 original size:18 final size:18
Alignment explanation
Indices: 54836327--54836375 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
54836317 TTGTCCCTTG
54836327 TTAT-ATATATATTAA-A
1 TTATAATATATATTAAGA
*
54836343 CTTCTAATATATATTAAGA
1 -TTATAATATATATTAAGA
54836362 TTATAATATATATT
1 TTATAATATATATT
54836376 TAGGGTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 3 0.11
18 24 0.86
19 1 0.04
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (18 bp):
TTATAATATATATTAAGA
Found at i:54836818 original size:15 final size:15
Alignment explanation
Indices: 54836798--54836829 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
54836788 TTTAATGTAG
*
54836798 AAGATAAATGTATAT
1 AAGATAAATATATAT
54836813 AAGATAAATATATAT
1 AAGATAAATATATAT
54836828 AA
1 AA
54836830 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:54836868 original size:24 final size:23
Alignment explanation
Indices: 54836801--54836868 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 23
54836791 AATGTAGAAG
*
54836801 ATAAATGTATATAAGATAAATATAT
1 ATAAAT-TATATATGA-AAATATAT
* *
54836826 ATAAATTATTATTTTAAAATATAT
1 ATAAATTA-TATATGAAAATATAT
54836850 ATAAATATATATATGAAAA
1 ATAAAT-TATATATGAAAA
54836869 GTGGTTTAGT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 24 0.67
25 12 0.33
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (23 bp):
ATAAATTATATATGAAAATATAT
Found at i:54841855 original size:371 final size:371
Alignment explanation
Indices: 54841053--54842327 Score: 2471
Period size: 371 Copynumber: 3.4 Consensus size: 371
54841043 CTTGTCCATT
54841053 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
54841118 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
54841183 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
*
54841248 TCATTTACTATTGAATGTTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
54841313 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
261 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
*
54841378 TATTTAATATTTTTAAATTTCTTTAAAAGTTATTACTACTTTTATC
326 TATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTATC
54841424 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
*
54841489 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCGGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
54841554 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
54841619 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
54841684 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTTATTTTA
261 CGATTCTTTTTTGATATTATTATATTCAAATTACTA-TTTTTTATATTAATAATGTTTTATTTTA
54841749 ATATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTATC
325 ATATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTATC
54841796 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAA-ATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
* *
54841860 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTACAAGATATAATGGATCCTGCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
54841925 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
54841990 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
* *
54842055 TGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAAAAATGTTTTATTTTAA
261 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
54842120 TATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTATC
326 TATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTATC
54842166 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
54842231 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
54842296 GTAACAACGCCACGTATGATGAATCTTAAAAA
131 GTAACAACGCCACGTATGATGAATCTTAAAAA
54842328 TTTGTATGTT
Statistics
Matches: 892, Mismatches: 10, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
370 127 0.14
371 638 0.72
372 127 0.14
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (371 bp):
AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
TATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTATC
Found at i:54842448 original size:24 final size:24
Alignment explanation
Indices: 54842421--54842488 Score: 111
Period size: 24 Copynumber: 2.8 Consensus size: 24
54842411 ATTATTATTG
*
54842421 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
54842445 AAATATTATTC-TCCGTTTTATCAC
1 AAATATTA-TCGTCCGTTTTATCAC
54842469 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
54842489 CCATTTAAGT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
23 2 0.05
24 37 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:54842709 original size:15 final size:15
Alignment explanation
Indices: 54842665--54842720 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
54842655 AACGACATGT
54842665 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
54842681 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
54842694 ATATTATTTAATTAA
1 ATATTATTTAATTAA
54842709 ATATTATTTAAT
1 ATATTATTTAAT
54842721 CTTGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:54842837 original size:9 final size:9
Alignment explanation
Indices: 54842825--54843050 Score: 142
Period size: 9 Copynumber: 25.6 Consensus size: 9
54842815 TATTTGATAT
*
54842825 CATAATTTA
1 CATAACTTA
54842834 CATAACTTA
1 CATAACTTA
* *
54842843 TATAACATA
1 CATAACTTA
*
54842852 TATAACTTA
1 CATAACTTA
54842861 CATAACTTA
1 CATAACTTA
* *
54842870 TATAACATA
1 CATAACTTA
54842879 CATAACTTA
1 CATAACTTA
*
54842888 TATAACTTA
1 CATAACTTA
*
54842897 TATAACTTA
1 CATAACTTA
* *
54842906 GATAA-ATA
1 CATAACTTA
*
54842914 TATAACTTA
1 CATAACTTA
54842923 CATAACTTA
1 CATAACTTA
54842932 CATAA--TA
1 CATAACTTA
*
54842939 CATAA-ATA
1 CATAACTTA
* **
54842947 TAT-TTTATA
1 CATAACT-TA
*
54842956 TCATAATTTA
1 -CATAACTTA
54842966 CATAACTTA
1 CATAACTTA
54842975 CATAACTTA
1 CATAACTTA
*
54842984 TATAACTTA
1 CATAACTTA
* *
54842993 GATAA-ATA
1 CATAACTTA
* *
54843001 TATAATTTA
1 CATAACTTA
*
54843010 CATAA-ATA
1 CATAACTTA
* * *
54843018 TATATCATA
1 CATAACTTA
*
54843027 TCATAAATTA
1 -CATAACTTA
54843037 CATAACTTA
1 CATAACTTA
54843046 CATAA
1 CATAA
54843051 TACTTAAATA
Statistics
Matches: 173, Mismatches: 35, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
7 7 0.04
8 21 0.12
9 134 0.77
10 9 0.05
11 2 0.01
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Done.