Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 144 of 444
Found at i:38559769 original size:54 final size:55
Alignment explanation
Indices: 38559679--38559818 Score: 171
Period size: 54 Copynumber: 2.6 Consensus size: 55
38559669 GGTTTCTCGG
**
38559679 TAATTCTACCCTACAGGGGTATTTCAGT-ATTCCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTTGGTAATTCCTACCCTACAAGGGTATTTCGA
* * *
38559733 TAATTCTACCCTACAGGGGTATTTTGGTAATT-CTACCTTACAAGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTTGGTAATTCCTACCCTACAAGGGTATTTCGA
**
38559787 TAATT-T-CACAAACCAGGGGTATTTTGGTAATT
1 TAATTCTAC-CCTA-CAGGGGTATTTTGGTAATT
38559819 TTACAAACCA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
52 1 0.01
53 3 0.04
54 69 0.91
55 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (55 bp):
TAATTCTACCCTACAGGGGTATTTTGGTAATTCCTACCCTACAAGGGTATTTCGA
Found at i:38559847 original size:27 final size:27
Alignment explanation
Indices: 38559746--38559848 Score: 136
Period size: 27 Copynumber: 3.8 Consensus size: 27
38559736 TTCTACCCTA
* **
38559746 CAGGGGTATTTTGGTAATTCTACCTTA-
1 CAGGGGTATTTTGGTAATTTTA-CAAAC
* *
38559773 CAAGGGTATTTTGGTAATTTCACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
38559800 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
38559827 CAGGGATATTTTGGTAATTTTA
1 CAGGGGTATTTTGGTAATTTTA
38559849 TTGATCGAAG
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.03
27 65 0.97
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:38559915 original size:27 final size:27
Alignment explanation
Indices: 38559852--38559915 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
38559842 AATTTTATTG
* **
38559852 ATCGAAGATATTTTGGTAATTTTGTAA
1 ATCGAAGGTATTTCAGTAATTTTGTAA
*
38559879 AGC-AATGGTATTTCAGTAATTTTGTAA
1 ATCGAA-GGTATTTCAGTAATTTTGTAA
38559906 ATCGAAGGTA
1 ATCGAAGGTA
38559916 AAATGGTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 2 0.07
27 26 0.87
28 2 0.07
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.39
Consensus pattern (27 bp):
ATCGAAGGTATTTCAGTAATTTTGTAA
Found at i:38559923 original size:54 final size:54
Alignment explanation
Indices: 38559865--38560063 Score: 184
Period size: 54 Copynumber: 3.7 Consensus size: 54
38559855 GAAGATATTT
* * ** *
38559865 TGGTAATTTTGTAAAGCAATGGT-ATTTCAGTAATTTTGTAAATCGAAGGTAAAA
1 TGGTAATTCTGTAAAGCAAGGGTAAAAT-AGTAATTCTGTAAATCGAAGGTAAAA
* * * *
38559919 TGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAAGCAAGGGTAAAATAGTAATTCTGTAAATCGAAGGTAAAA
* * * * * * *
38559973 TGGTAATTCTATAAATCGAGTGTAAAATGGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAAGCAAGGGTAAAATAGTAATTCTGTAAATCGAAGGTAAAA
* * * * * *
38560027 CGATAATTTTGTAAATCGAGGGTAAAATGGTAATTCT
1 TGGTAATTCTGTAAAGCAAGGGTAAAATAGTAATTCT
38560064 ATCTTATAGG
Statistics
Matches: 127, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
54 125 0.98
55 2 0.02
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (54 bp):
TGGTAATTCTGTAAAGCAAGGGTAAAATAGTAATTCTGTAAATCGAAGGTAAAA
Found at i:38559924 original size:27 final size:27
Alignment explanation
Indices: 38559894--38560063 Score: 268
Period size: 27 Copynumber: 6.3 Consensus size: 27
38559884 TGGTATTTCA
* *
38559894 GTAATTTTGTAAATCGAAGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
38559921 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
38559948 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
38559975 GTAATTCTATAAATCGAGTGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
38560002 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
38560029 ATAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
38560056 GTAATTCT
1 GTAATTCT
38560064 ATCTTATAGG
Statistics
Matches: 131, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 131 1.00
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:38559950 original size:81 final size:81
Alignment explanation
Indices: 38559865--38560065 Score: 235
Period size: 81 Copynumber: 2.5 Consensus size: 81
38559855 GAAGATATTT
* ** * *
38559865 TGGTAATTTTGTAAAGCAATGGT-ATTTCAGTAATTTTGTAAATCGAAG-GTAAAATGGTAATTC
1 TGGTAATTTTGTAAAGCAAGGGTAAAAT-AGTAATTCTATAAATCG-AGTGTAAAATGGTAATTC
*
38559928 TGTAAATCGAGGGTAAAA
64 TATAAATCGAGGGTAAAA
* * * *
38559946 TGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGTGTAAAATGGTAATTCTA
1 TGGTAATTTTGTAAAGCAAGGGTAAAATAGTAATTCTATAAATCGAGTGTAAAATGGTAATTCTA
38560011 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * * *
38560027 CGATAATTTTGTAAATCGAGGGTAAAATGGTAATTCTAT
1 TGGTAATTTTGTAAAGCAAGGGTAAAATAGTAATTCTAT
38560066 CTTATAGGAG
Statistics
Matches: 105, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
80 2 0.02
81 101 0.96
82 2 0.02
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (81 bp):
TGGTAATTTTGTAAAGCAAGGGTAAAATAGTAATTCTATAAATCGAGTGTAAAATGGTAATTCTA
TAAATCGAGGGTAAAA
Found at i:38560097 original size:81 final size:81
Alignment explanation
Indices: 38559913--38560104 Score: 217
Period size: 81 Copynumber: 2.4 Consensus size: 81
38559903 TAAATCGAAG
* ** * *
38559913 GTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTA
1 GTAAAATAGTAATTCTACAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTA
* *
38559978 ATTCTATAAATCGAGT
66 ATTCTATAAATAGAGA
* * *
38559994 GTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGGTA
1 GTAAAATAGTAATTCTACAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTA
**
38560059 ATTCTATCTTATAG-GA
66 ATTCTAT-AAATAGAGA
** *
38560075 GT-ATTTCAGTAATTTTACAAATCGAGGGTA
1 GTAAAAT-AGTAATTCTACAAATCGAGGGTA
38560105 TTTCAATAAT
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
80 2 0.02
81 91 0.95
82 3 0.03
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (81 bp):
GTAAAATAGTAATTCTACAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTA
ATTCTATAAATAGAGA
Found at i:38560105 original size:27 final size:27
Alignment explanation
Indices: 38560075--38560330 Score: 272
Period size: 27 Copynumber: 9.6 Consensus size: 27
38560065 TCTTATAGGA
38560075 GTATTTCAGTAATTTTACAAATCGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
*
38560102 GTATTTCAATAATTTTACAAATCGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* *
38560129 ATATTTCAGTAATTTTACAAATTGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
*
38560156 GTATTTC-GATAATTTTACAAATTGAGG
1 GTATTTCAG-TAATTTTACAAATCGAGG
* ** *
38560183 ATATTTGGGTAATTTTATAAATCGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* *
38560210 GTACTTT-GGTAATTTTACAAGTCGAGG
1 GTA-TTTCAGTAATTTTACAAATCGAGG
* *
38560237 GTATTTCAGTAATTTTA-GAATCGACG
1 GTATTTCAGTAATTTTACAAATCGAGG
* * *
38560263 GTATTTTAGTAATTTTATAAACCG-GAG
1 GTATTTCAGTAATTTTACAAATCGAG-G
* * *
38560290 GTACTTT-GGTAATTTTACAACT-GGGG
1 GTA-TTTCAGTAATTTTACAAATCGAGG
38560316 GTATTTCAGTAATTT
1 GTATTTCAGTAATTT
38560331 GGTAAACTAA
Statistics
Matches: 195, Mismatches: 25, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
25 3 0.02
26 38 0.19
27 147 0.75
28 7 0.04
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAATCGAGG
Found at i:38560114 original size:81 final size:81
Alignment explanation
Indices: 38559913--38560128 Score: 202
Period size: 81 Copynumber: 2.7 Consensus size: 81
38559903 TAAATCGAAG
* ** *** *
38559913 GTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTA
1 GTAAAATAGTAATTCTACAAATCGAGGGTAAAACAATAATTTTGTAAATCGAGGGTAAAATGGTA
* *
38559978 ATTCTATAAATCGAGT
66 ATTCTATAAATAGAGA
* * *
38559994 GTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGGTA
1 GTAAAATAGTAATTCTACAAATCGAGGGTAAAACAATAATTTTGTAAATCGAGGGTAAAATGGTA
**
38560059 ATTCTATCTTATAG-GA
66 ATTCTAT-AAATAGAGA
** * *** **
38560075 GT-ATTTCAGTAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATCGAGG
1 GTAAAAT-AGTAATTCTACAAATCGAGGGTAAAACAATAATTTTGTAAATCGAGG
38560129 ATATTTCAGT
Statistics
Matches: 114, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
80 2 0.02
81 109 0.96
82 3 0.03
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (81 bp):
GTAAAATAGTAATTCTACAAATCGAGGGTAAAACAATAATTTTGTAAATCGAGGGTAAAATGGTA
ATTCTATAAATAGAGA
Found at i:38562399 original size:29 final size:29
Alignment explanation
Indices: 38562332--38562456 Score: 189
Period size: 29 Copynumber: 4.3 Consensus size: 29
38562322 AAGTCTGCAT
* **
38562332 ACATGCATATGGCCCCCTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
38562360 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
38562389 ACATTCTTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
38562418 ACATTCATATGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
38562447 ACATTCATAT
1 ACATTCATAT
38562457 ACATGCTTCC
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 20 0.23
29 68 0.77
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:38562690 original size:16 final size:16
Alignment explanation
Indices: 38562666--38562708 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
38562656 GTAGCTAAAC
* *
38562666 TTTCAGCTTTTTGACA
1 TTTCGGCTTTTCGACA
*
38562682 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCGACA
*
38562698 TTTTGGCTTTT
1 TTTCGGCTTTT
38562709 GCCGATCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (16 bp):
TTTCGGCTTTTCGACA
Found at i:38567804 original size:56 final size:56
Alignment explanation
Indices: 38567718--38567835 Score: 200
Period size: 56 Copynumber: 2.1 Consensus size: 56
38567708 CCAGACAGGG
*
38567718 TATCGGAGTCAAATATCAATGCCAATGTATAAAACGTGGTCTTACTCGCACACATA
1 TATCGAAGTCAAATATCAATGCCAATGTATAAAACGTGGTCTTACTCGCACACATA
* * *
38567774 TATCGAAGTCACATATCGATGCCAATGTATAAAACGTGGTCTTACTCGCATACATA
1 TATCGAAGTCAAATATCAATGCCAATGTATAAAACGTGGTCTTACTCGCACACATA
38567830 TATCGA
1 TATCGA
38567836 TGCCATGGTC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (56 bp):
TATCGAAGTCAAATATCAATGCCAATGTATAAAACGTGGTCTTACTCGCACACATA
Found at i:38568468 original size:15 final size:15
Alignment explanation
Indices: 38568445--38568475 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
38568435 GCAAAAATTC
38568445 CAATACAAAACATAT
1 CAATACAAAACATAT
*
38568460 CAATCCAAAACATAT
1 CAATACAAAACATAT
38568475 C
1 C
38568476 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:38570631 original size:25 final size:25
Alignment explanation
Indices: 38570602--38570649 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
38570592 TTATAATATG
* *
38570602 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
38570627 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
38570650 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:38570718 original size:20 final size:20
Alignment explanation
Indices: 38570693--38570731 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
38570683 TAAATATGGT
38570693 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
38570713 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
38570732 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:38570840 original size:24 final size:24
Alignment explanation
Indices: 38570781--38570901 Score: 165
Period size: 24 Copynumber: 5.0 Consensus size: 24
38570771 GGAGGAAGTG
*
38570781 TAAAAGGGCTTATGCCCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
38570805 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
38570830 TAAAAGGGCTTATGCCCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
38570854 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
38570877 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
38570902 ATGATAAAGT
Statistics
Matches: 87, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
23 18 0.21
24 39 0.45
25 30 0.34
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:38570853 original size:49 final size:47
Alignment explanation
Indices: 38570781--38570887 Score: 178
Period size: 49 Copynumber: 2.2 Consensus size: 47
38570771 GGAGGAAGTG
38570781 TAAAAGGGCTTATGCCCTAGTTATGATAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCTAGTTATGA-AAAGGGCTT-TGCCCCAGTTAT
*
38570830 TAAAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCTAGTTATGAAAAGGGCTTTGCCCCAGTTAT
38570877 TAAAAGAGGCT
1 TAAAAG-GGCT
38570888 AGGCCTCCAG
Statistics
Matches: 56, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
47 18 0.32
48 13 0.23
49 25 0.45
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (47 bp):
TAAAAGGGCTTATGCCCTAGTTATGAAAAGGGCTTTGCCCCAGTTAT
Found at i:38571137 original size:31 final size:31
Alignment explanation
Indices: 38571099--38571158 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
38571089 TATAGTAAAG
*
38571099 GCTTCGGCCTAGT-TCTATGAAATATGAAAAT
1 GCTTCGGCCCAGTGT-TATGAAATATGAAAAT
38571130 GCTTCGGCCCAGTGTTATGAAATATGAAA
1 GCTTCGGCCCAGTGTTATGAAATATGAAA
38571159 TATGAAAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (31 bp):
GCTTCGGCCCAGTGTTATGAAATATGAAAAT
Found at i:38576272 original size:17 final size:18
Alignment explanation
Indices: 38576230--38576278 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
38576220 AGTTGAAAAG
38576230 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
38576249 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
38576266 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
38576279 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:38577165 original size:40 final size:40
Alignment explanation
Indices: 38577099--38577265 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
38577089 AAATTGAATG
* * *
38577099 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
38577138 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
38577178 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
38577218 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
38577258 ATATCCGG
1 ATATCCGG
38577266 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:38584274 original size:17 final size:18
Alignment explanation
Indices: 38584232--38584280 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
38584222 AGTTGAAAAG
38584232 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
38584251 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
38584268 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
38584281 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:38585162 original size:40 final size:40
Alignment explanation
Indices: 38585096--38585262 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
38585086 AAATTGAATG
* * *
38585096 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
38585135 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
38585175 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
38585215 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
38585255 ATATCCGG
1 ATATCCGG
38585263 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:38590767 original size:40 final size:40
Alignment explanation
Indices: 38590655--38590807 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
38590645 GGATATAGCG
* * * * ***
38590655 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
38590695 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
38590735 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
38590775 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
38590808 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:38593854 original size:55 final size:53
Alignment explanation
Indices: 38593727--38593912 Score: 216
Period size: 55 Copynumber: 3.5 Consensus size: 53
38593717 AACTTACCAT
* * *
38593727 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGG-ATCCTTGCCTTATAGAACTCATCAA
*
38593780 TGCCATGCCTTGGCATGGTCTTACATTGGA-CCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACA-TGGATCC-TTGCCTTATAG-AACTCATCAA
* * * *
38593835 TGCCATGTCTTGACGTGGTCTTACAT-GATTTCCTTGCCTTATAGAACTTATAAA
1 TGCCATGCCTTGACATGGTCTTACATGGA--TCCTTGCCTTATAGAACTCATCAA
*
38593889 TGCCATGCCTTGGCATGGTCTTAC
1 TGCCATGCCTTGACATGGTCTTAC
38593913 GTGATATCCT
Statistics
Matches: 114, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
52 2 0.02
53 34 0.30
54 34 0.30
55 42 0.37
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGATCCTTGCCTTATAGAACTCATCAA
Found at i:38593958 original size:47 final size:47
Alignment explanation
Indices: 38593902--38594023 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
38593892 CATGCCTTGG
* * *
38593902 CATGGTCTTACGTGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
38593949 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
38593996 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
38594024 GTGACAATGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:38594100 original size:47 final size:45
Alignment explanation
Indices: 38594069--38594158 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
38594059 AGTCCTTAAT
*
38594069 CAATGCCGATGCCATGTCTTGACATGGTCTTACATGGGATCCTTG
1 CAATACCGATGCCATGTCTTGACATGGTCTTACATGGGATCCTTG
** *
38594114 CCTTACCGATGCCATGTCTTGACATGGTCTTACATGGTATCCTTG
1 CAATACCGATGCCATGTCTTGACATGGTCTTACATGGGATCCTTG
38594159 ACCGTCAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (45 bp):
CAATACCGATGCCATGTCTTGACATGGTCTTACATGGGATCCTTG
Found at i:38594229 original size:44 final size:44
Alignment explanation
Indices: 38594163--38594246 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
38594153 TCCTTGACCG
* *
38594163 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCCA
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCCA
* * *
38594207 TCAATTCTTCCTTAATTTCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
38594247 GAGATATCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.38
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCCA
Found at i:38596888 original size:68 final size:68
Alignment explanation
Indices: 38596774--38596967 Score: 177
Period size: 68 Copynumber: 2.9 Consensus size: 68
38596764 CAGATGGTAT
* * * * *
38596774 GTAGCTAGGTCACATGTGTAATA-C-GGGATGTATACCATGT-GTACAAGAGAGCTACGAGACAT
1 GTAGCTAGGTCGCATGCGTGATACCAGTGATGTACACCATGTAG-ACAAGAGAGCTACGAGACA-
38596836 TATGAG
64 TAT-AG
* * * *
38596842 GTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCATGTAGACAAGAGAGCTATG-G-GATA
1 GTAGCTAGGTCGCATGCGTGATACCAGTGATGTACACCATGTAGACAAGAGAGCTACGAGACATA
*
38596903 TAT
66 TAG
* * * *
38596906 GTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 GTAGCTAGGTCGCATGCGTGATACCA-GTGATGTACACCATGTAGACAAGAGAGCTACGAGA
38596968 TAAATTGGCT
Statistics
Matches: 102, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
64 23 0.23
65 3 0.03
66 3 0.03
67 26 0.25
68 45 0.44
69 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.23
Consensus pattern (68 bp):
GTAGCTAGGTCGCATGCGTGATACCAGTGATGTACACCATGTAGACAAGAGAGCTACGAGACATA
TAG
Found at i:38599589 original size:39 final size:39
Alignment explanation
Indices: 38599508--38599670 Score: 272
Period size: 39 Copynumber: 4.2 Consensus size: 39
38599498 TATGGTAACC
* *
38599508 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
38599548 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
38599587 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
38599626 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
38599665 CGCACA
1 CGCACA
38599671 TTCATACACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:38607576 original size:38 final size:39
Alignment explanation
Indices: 38607479--38607640 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
38607469 TATGGTAACC
* *
38607479 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
38607519 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
38607558 CGCAC-ATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
38607596 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
38607635 CGCACA
1 CGCACA
38607641 TTCATACACA
Statistics
Matches: 114, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 36 0.32
39 61 0.54
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:38607638 original size:77 final size:78
Alignment explanation
Indices: 38607487--38607642 Score: 269
Period size: 77 Copynumber: 2.0 Consensus size: 78
38607477 CCCGCACAAA
38607487 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
* *
38607552 ATAGCTCGCACAT
66 ACAACTCGCACAT
*
38607565 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
1 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
*
38607629 ACAATTCGCACAT
66 ACAACTCGCACAT
38607642 T
1 T
38607643 CATACACATC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
77 64 0.86
78 10 0.14
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (78 bp):
TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
ACAACTCGCACAT
Found at i:38611946 original size:28 final size:28
Alignment explanation
Indices: 38611914--38611978 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
38611904 ATTTACTAGA
*
38611914 ATACCCCTATGTATGCAAAATTACCATC
1 ATACCCCTATGTATGCAAAATGACCATC
* * *
38611942 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATC
38611970 ATACCCCTA
1 ATACCCCTA
38611979 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.32, C:0.29, G:0.09, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATC
Found at i:38612184 original size:29 final size:28
Alignment explanation
Indices: 38612094--38612171 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 28
38612084 CTAGTGGCTA
* * * *
38612094 TGCCACAAATTATCTATTTTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGGCAC
**
38612122 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGGCAC
38612149 TGCCACAAAATATCTGTATCTGG
1 TGCCACAAAATATCTGT-TCTGG
38612172 GGACTCTGTC
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
27 21 0.52
28 14 0.35
29 5 0.12
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGGCAC
Found at i:38619799 original size:28 final size:28
Alignment explanation
Indices: 38619767--38619831 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
38619757 ATTTACTAGA
*
38619767 ATACCCCTATGTATGCAAAATTACCATC
1 ATACCCCTATGTATGCAAAATGACCATC
* * *
38619795 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATC
38619823 ATACCCCTA
1 ATACCCCTA
38619832 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.32, C:0.29, G:0.09, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATC
Found at i:38619995 original size:27 final size:28
Alignment explanation
Indices: 38619937--38620026 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
38619927 AGGAAGCATC
*
38619937 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
38619965 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
38619992 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
38620021 CTGGTG
1 CTGGTG
38620027 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:38620037 original size:29 final size:28
Alignment explanation
Indices: 38619947--38620037 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
38619937 CTGGTGGCTA
* * *
38619947 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
38619975 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
38620002 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
38620031 TGTCACA
1 TGCCACA
38620038 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:38620045 original size:55 final size:56
Alignment explanation
Indices: 38619937--38620051 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
38619927 AGGAAGCATC
* * *
38619937 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
38619992 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
38620048 CTGG
1 CTGG
38620052 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:38630377 original size:42 final size:43
Alignment explanation
Indices: 38630277--38630432 Score: 178
Period size: 43 Copynumber: 3.7 Consensus size: 43
38630267 TGTGTTTTTG
* * *
38630277 TGTAAGACCACGTCTAGGACGTTGGCATCGACT-TATGACTTAC-
1 TGTAAGACCACGTCTGGGATGTTGGCATCGA-TATTTGA-TTACA
* *
38630320 GGTAAGACCACGTCTGGGATGTTGGCATCG-TATTTGATTTCA
1 TGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTACA
38630362 TGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAT-GTTGGCATCGATATTTGATTACA
* *
38630405 TGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGATGTTGGCAT
38630433 TGTACAAGCT
Statistics
Matches: 97, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
41 5 0.05
42 30 0.31
43 61 0.63
44 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTACA
Found at i:38632380 original size:40 final size:39
Alignment explanation
Indices: 38632268--38632372 Score: 156
Period size: 39 Copynumber: 2.7 Consensus size: 39
38632258 GAATGTTCGA
* * *
38632268 GTGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
38632307 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
38632346 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
38632373 CTTTGTGCGG
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 50 0.85
40 9 0.15
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:38639762 original size:40 final size:39
Alignment explanation
Indices: 38639650--38639754 Score: 156
Period size: 39 Copynumber: 2.7 Consensus size: 39
38639640 AATGTTGCGA
* * *
38639650 GTGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
38639689 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
38639728 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
38639755 CTTTGTGCGG
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 50 0.85
40 9 0.15
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:38650446 original size:40 final size:39
Alignment explanation
Indices: 38650334--38650438 Score: 156
Period size: 39 Copynumber: 2.7 Consensus size: 39
38650324 GAATGTTCGA
* * *
38650334 GTGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
38650373 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
38650412 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
38650439 CTTTGTGCGG
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 50 0.85
40 9 0.15
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:38657815 original size:40 final size:39
Alignment explanation
Indices: 38657703--38657807 Score: 156
Period size: 39 Copynumber: 2.7 Consensus size: 39
38657693 GAATGTTCGA
* * *
38657703 GTGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
38657742 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
38657781 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
38657808 CTTTGTGCGG
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 50 0.85
40 9 0.15
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:38664758 original size:44 final size:44
Alignment explanation
Indices: 38664675--38664758 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
38664665 CATGTATCGT
* * * * *
38664675 ATCCATTATGAACTCGGACCAATTCAATGAGTTCGGATGCTCGC
1 ATCCATAATGAACTCGGACCAACTCAACGAGCTCAGATGCTCGC
*
38664719 ATCCATAATGAACTCTGACCAACTCAACGAGCTCAGATGC
1 ATCCATAATGAACTCGGACCAACTCAACGAGCTCAGATGC
38664759 CTCATATATA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (44 bp):
ATCCATAATGAACTCGGACCAACTCAACGAGCTCAGATGCTCGC
Found at i:38667358 original size:28 final size:28
Alignment explanation
Indices: 38667295--38667394 Score: 139
Period size: 27 Copynumber: 3.5 Consensus size: 28
38667285 ATAGTGAGTC
38667295 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
38667322 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
38667350 CGCACACTTAGTGCTGTACAAATTTCAAACC
1 CGCACACTTAGTGCTATA-TAA--TCAAACT
38667381 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38667395 CAATCTCATG
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
27 23 0.35
28 21 0.32
29 2 0.03
31 20 0.30
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:38676729 original size:27 final size:27
Alignment explanation
Indices: 38676390--38676728 Score: 396
Period size: 27 Copynumber: 12.6 Consensus size: 27
38676380 AAAGTACTAC
38676390 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
38676417 C-AGGTTATAGAATTACCGTTTTACCTT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
38676444 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
38676471 CGATTTATAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
38676498 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
38676525 CGATTTACAGAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
38676552 CAATTTACATAATTACCATTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* *
38676578 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
38676605 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
38676632 CAATTTACAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
38676659 CGATTTATAGAATTACTGTTTCACCAT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
38676686 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
38676713 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
38676729 TAAAATACCC
Statistics
Matches: 267, Mismatches: 40, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
26 25 0.09
27 240 0.90
28 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:38678068 original size:9 final size:9
Alignment explanation
Indices: 38678056--38678112 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
38678046 TTTGATAAAC
38678056 ATGATATGT
1 ATGATATGT
*
38678065 ATGATATGCAC
1 ATGATATG--T
*
38678076 ATGACATGT
1 ATGATATGT
*
38678085 ATGATATGCAC
1 ATGATATG--T
38678096 ATGATATGT
1 ATGATATGT
38678105 ATGATATG
1 ATGATATG
38678113 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:38678079 original size:20 final size:20
Alignment explanation
Indices: 38678054--38678116 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
38678044 ATTTTGATAA
38678054 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
38678074 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
38678094 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
38678114 ACA
1 ACA
38678117 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:38678227 original size:24 final size:24
Alignment explanation
Indices: 38678171--38678359 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
38678161 GAGGAAGTGA
38678171 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
38678194 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
38678218 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
38678242 AAAAGGGCTTATGCCCCAG-TATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
38678265 AAAAGGGCTTACGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
* *
38678289 -AAAGGGCTTATGCCCCAGCTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
38678312 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
38678336 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
38678360 ATGATAAAGC
Statistics
Matches: 150, Mismatches: 11, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
23 64 0.43
24 75 0.50
25 11 0.07
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:38678240 original size:47 final size:46
Alignment explanation
Indices: 38678171--38678338 Score: 264
Period size: 47 Copynumber: 3.6 Consensus size: 46
38678161 GAGGAAGTGA
38678171 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAG-TATC
*
38678218 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTATC
* * *
38678265 AAAAGGGCTTACGCCCCAGTTATCAAAGGGCTTATGCCCCAGCTATA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAG-TATC
*
38678312 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
38678339 AGAGGCTAGG
Statistics
Matches: 112, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
46 18 0.16
47 76 0.68
48 18 0.16
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTATC
Found at i:38678615 original size:31 final size:31
Alignment explanation
Indices: 38678552--38678615 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
38678542 CGTTTACCGT
* * *
38678552 AAAGGTTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATAAAATATGA
**
38678583 AAAGGCTTCGGCCCAGTGTTATAAAATATGA
1 AAAGGCTTCGGCCCAGTAATATAAAATATGA
38678614 AA
1 AA
38678616 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATAAAATATGA
Found at i:38686637 original size:26 final size:28
Alignment explanation
Indices: 38686583--38686639 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
38686573 GAAAAAAGGT
38686583 CACACGCACGTGTGAGCACAGGGGCACA
1 CACACGCACGTGTGAGCACAGGGGCACA
*
38686611 CACACGCACGTGTGAGCACAGGGACACA
1 CACACGCACGTGTGAGCACAGGGGCACA
38686639 C
1 C
38686640 TTGTGTGCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.33, G:0.30, T:0.07
Consensus pattern (28 bp):
CACACGCACGTGTGAGCACAGGGGCACA
Found at i:38695462 original size:40 final size:40
Alignment explanation
Indices: 38695375--38695588 Score: 257
Period size: 40 Copynumber: 5.3 Consensus size: 40
38695365 GTATCTGGGC
* * *
38695375 TAAGTCCCGAAGGCTTTTGTGCTAAGTGACCAAAACCGGGT
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAACCGGGT
38695416 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
*
38695456 TGAGTCCCGAAGGCATTTTGTGCGAGTTACCAAAACCGGGT
1 TAAGTCCCGAAGGCA-TTTGTGCGAGTTACCAAAACCGGGT
* * * * *
38695497 TAAGTCCGGAAGGCATTCGTGCGAGTTACTAAATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
* * * * * * *
38695537 TAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
*
38695577 TATGTCCCGAAG
1 TAAGTCCCGAAG
38695589 ACAATCGAGC
Statistics
Matches: 152, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
40 93 0.61
41 59 0.39
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
Found at i:38695512 original size:81 final size:81
Alignment explanation
Indices: 38695371--38695602 Score: 270
Period size: 81 Copynumber: 2.9 Consensus size: 81
38695361 AATGGTATCT
* *
38695371 GGGCTAAGTCCCGAAGGC-TTTTGTGCTAAGTGACCAAAACCGGGTTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTTGTGC-GAGTGACCAAAACCGGGTTAAGTCCCGAAGGCATTCG
38695435 TGCGAGTTACCAAAACC
65 TGCGAGTTACCAAAACC
* * * *
38695452 GGGTTGAGTCCCGAAGGCATTTTGTGCGAGTTACCAAAACCGGGTTAAGTCCGGAAGGCATTCGT
1 GGGCTAAGTCCCGAAGGCATTTTGTGCGAGTGACCAAAACCGGGTTAAGTCCCGAAGGCATTCGT
* *
38695517 GCGAGTTACTAAATCC
66 GCGAGTTACCAAAACC
* * * * * * * * * * *
38695533 GGGCTAATTCCCGAAGGCA-ATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAGACAATCGA
1 GGGCTAAGTCCCGAAGGCATTTTGTGCGAGTGACCAAAACCGGGTTAAGTCCCGAAGGCATTCGT
38695597 GCGAGT
66 GCGAGT
38695603 CGCTATATCC
Statistics
Matches: 128, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
80 40 0.31
81 80 0.62
82 8 0.06
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (81 bp):
GGGCTAAGTCCCGAAGGCATTTTGTGCGAGTGACCAAAACCGGGTTAAGTCCCGAAGGCATTCGT
GCGAGTTACCAAAACC
Found at i:38695609 original size:40 final size:40
Alignment explanation
Indices: 38695531--38695614 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
38695521 GTTACTAAAT
* * *
38695531 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
38695571 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
38695611 CCGG
1 CCGG
38695615 ATAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:38701187 original size:48 final size:48
Alignment explanation
Indices: 38701113--38701223 Score: 120
Period size: 48 Copynumber: 2.3 Consensus size: 48
38701103 TTAATGAGAT
* * *
38701113 CCAGTATAAGACCAGGTCTAGGACATGGCATCGACATTGAT-A-TGATAG
1 CCAGTGTAAGACCATGTCTAGGACATGACATCGACATTGATAAGTG-T-G
* * *
38701161 CCAGTGTAAGACCATGT-TTGGAACATGACATTGGCATTGATAAGTGTG
1 CCAGTGTAAGACCATGTCTAGG-ACATGACATCGACATTGATAAGTGTG
38701209 CCAGTGTAAGACCAT
1 CCAGTGTAAGACCAT
38701224 ACCTAGGATA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
47 3 0.06
48 47 0.87
49 2 0.04
50 2 0.04
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (48 bp):
CCAGTGTAAGACCATGTCTAGGACATGACATCGACATTGATAAGTGTG
Found at i:38701308 original size:42 final size:42
Alignment explanation
Indices: 38701249--38701355 Score: 178
Period size: 42 Copynumber: 2.5 Consensus size: 42
38701239 TCGGCCTCGG
38701249 TATGTGATTTCATGTAAGACCATATCTAGGATATGGCATTGA
1 TATGTGATTTCATGTAAGACCATATCTAGGATATGGCATTGA
* *
38701291 TATGTGATTTCATGTAAGACTATATCTGGGATATGGCATTGA
1 TATGTGATTTCATGTAAGACCATATCTAGGATATGGCATTGA
* *
38701333 TATGAGATTTCGTGTAAGACCAT
1 TATGTGATTTCATGTAAGACCAT
38701356 GTTTGGGACA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.36
Consensus pattern (42 bp):
TATGTGATTTCATGTAAGACCATATCTAGGATATGGCATTGA
Found at i:38701363 original size:42 final size:42
Alignment explanation
Indices: 38701249--38701411 Score: 177
Period size: 42 Copynumber: 3.9 Consensus size: 42
38701239 TCGGCCTCGG
* * *
38701249 TATGTGATTTCATGTAAGACCATATCTAGGATATGGCATTGA
1 TATGAGATTTCATGTAAGACCATATCTGGGACATGGCATTGA
* * *
38701291 TATGTGATTTCATGTAAGACTATATCTGGGATATGGCATTGA
1 TATGAGATTTCATGTAAGACCATATCTGGGACATGGCATTGA
* * * *
38701333 TATGAGATTTCGTGTAAGACCATGTTTGGGACATGGCATCGA
1 TATGAGATTTCATGTAAGACCATATCTGGGACATGGCATTGA
* * *
38701375 TGTGA-AGTCTT-GTGTAAGACCATGTCTGGGACATGGC
1 TATGAGA-T-TTCATGTAAGACCATATCTGGGACATGGC
38701412 TTTGGATTTC
Statistics
Matches: 108, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
41 1 0.01
42 105 0.97
43 2 0.02
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (42 bp):
TATGAGATTTCATGTAAGACCATATCTGGGACATGGCATTGA
Found at i:38705133 original size:23 final size:24
Alignment explanation
Indices: 38705083--38705206 Score: 82
Period size: 23 Copynumber: 5.4 Consensus size: 24
38705073 CAATTCATAA
38705083 GAGCTTACTGTTTTCAGCTCATTG
1 GAGCTTACTGTTTTCAGCTCATTG
* *
38705107 GAGCTTA-TCGTTTT-AGCTCGTTT
1 GAGCTTACT-GTTTTCAGCTCATTG
* * *
38705130 GAGCTTAC--TATTCAGCTTGA-TA
1 GAGCTTACTGTTTTCAGC-TCATTG
* * *
38705152 GAGCTTACAGTTTT-AGCTCAATA
1 GAGCTTACTGTTTTCAGCTCATTG
* * *
38705175 AAGCTTACTG-TTTCAGCTCAATA
1 GAGCTTACTGTTTTCAGCTCATTG
38705198 GAGCTTACT
1 GAGCTTACT
38705207 ATTCATCAGC
Statistics
Matches: 81, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
21 3 0.04
22 17 0.21
23 46 0.57
24 15 0.19
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (24 bp):
GAGCTTACTGTTTTCAGCTCATTG
Found at i:38705193 original size:68 final size:69
Alignment explanation
Indices: 38705082--38705211 Score: 165
Period size: 68 Copynumber: 1.9 Consensus size: 69
38705072 TCAATTCATA
* * ** * ** *
38705082 AGAGCTTACTGTTTTCAGCTCATTGGAGCTTATCGTTTTAGCTCGTTTGAGCTTACTATTCAGCT
1 AGAGCTTACAGTTTTCAGCTCAATAAAGCTTATCGTTTCAGCTCAATAGAGCTTACTATTCAGCT
38705147 TGAT
66 TGAT
38705151 AGAGCTTACAGTTTT-AGCTCAATAAAGCTTA-CTGTTTCAGCTCAATAGAGCTTACTATTCA
1 AGAGCTTACAGTTTTCAGCTCAATAAAGCTTATC-GTTTCAGCTCAATAGAGCTTACTATTCA
38705212 TCAGCTCAGG
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
67 1 0.02
68 37 0.71
69 14 0.27
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (69 bp):
AGAGCTTACAGTTTTCAGCTCAATAAAGCTTATCGTTTCAGCTCAATAGAGCTTACTATTCAGCT
TGAT
Found at i:38707667 original size:25 final size:25
Alignment explanation
Indices: 38707638--38707685 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
38707628 TTATAATATG
* * *
38707638 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
38707663 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
38707686 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:38707754 original size:20 final size:20
Alignment explanation
Indices: 38707729--38707787 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
38707719 TAAATATGGT
38707729 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* * *
38707749 ATGTATGCTATGCACGTGAT
1 ATGTATGATATGCACATGAA
38707769 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
38707788 GGTAATCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:38707865 original size:24 final size:24
Alignment explanation
Indices: 38707838--38707980 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
38707828 GAGGAAGTGA
38707838 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
38707862 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
38707886 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
38707909 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
38707933 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
38707957 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
38707981 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 22 0.20
24 76 0.70
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:38707938 original size:47 final size:47
Alignment explanation
Indices: 38707838--38707966 Score: 195
Period size: 47 Copynumber: 2.7 Consensus size: 47
38707828 GAGGAAGTGA
*
38707838 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAATTATC
*
38707886 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAATTATC
* *
38707933 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCT
38707967 AGGCCTCCAG
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
47 42 0.56
48 29 0.39
49 4 0.05
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAATTATC
Found at i:38707954 original size:71 final size:72
Alignment explanation
Indices: 38707838--38707981 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
38707828 GAGGAAGTGA
* *
38707838 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAATTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
38707901 CCAGTTAT
65 CCAGTTAT
** * *
38707909 AAAAGGGCTTATGCCCCAATTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAATTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
38707974 CAGTTAT
66 CAGTTAT
38707981 A
1 A
38707982 TGATAAAGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 53 0.82
72 12 0.18
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAATTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:38708207 original size:31 final size:31
Alignment explanation
Indices: 38708172--38708235 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
38708162 CGTTTACAGT
38708172 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
38708203 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
38708234 AA
1 AA
38708236 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:38712607 original size:43 final size:43
Alignment explanation
Indices: 38712551--38712710 Score: 130
Period size: 43 Copynumber: 3.7 Consensus size: 43
38712541 ACATAGGATT
* * *
38712551 TCGATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGTCA
1 TCGATTTGTGATTTCATGTAAGACCACGTCTGGGACATTGACA
* * * * * *
38712594 TCGATTTGAGATTT-ACGTGCAGAACCATGTCTAGGACATCGACA
1 TCGATTTGTGATTTCATGT-AAG-ACCACGTCTGGGACATTGACA
* * * *
38712638 TC-ATTTTTGATTTCATGTAAGACC-CTGTCTGGGATAGTGGCA
1 TCGATTTGTGATTTCATGTAAGACCAC-GTCTGGGACATTGACA
*
38712680 TCGATATT-TGATTACATGTAAGACCACGTCT
1 TCGAT-TTGTGATTTCATGTAAGACCACGTCT
38712711 TGGATGTTGG
Statistics
Matches: 90, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
42 18 0.20
43 47 0.52
44 25 0.28
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (43 bp):
TCGATTTGTGATTTCATGTAAGACCACGTCTGGGACATTGACA
Found at i:38719470 original size:21 final size:21
Alignment explanation
Indices: 38719445--38719512 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
38719435 CACATACATC
38719445 ATGAGCTCAGACCACAACTCA
1 ATGAGCTCAGACCACAACTCA
* * *
38719466 ATGAGTTCAAATGTCACATACATC-
1 ATGAGCTCAGA--CCACA-AC-TCA
*
38719490 ATGAACTCAGACCACAACTCA
1 ATGAGCTCAGACCACAACTCA
38719511 AT
1 AT
38719513 AAGTTTAGCT
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
20 2 0.06
21 13 0.37
22 4 0.11
23 4 0.11
24 10 0.29
25 2 0.06
ACGTcount: A:0.40, C:0.28, G:0.12, T:0.21
Consensus pattern (21 bp):
ATGAGCTCAGACCACAACTCA
Found at i:38722575 original size:10 final size:10
Alignment explanation
Indices: 38722560--38722602 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 10
38722550 TTAAACTCAT
38722560 TATTCATATA
1 TATTCATATA
38722570 TATTCATATTCCA
1 TATTCATA-T--A
38722583 TTATTCATATA
1 -TATTCATATA
38722594 TATTCATAT
1 TATTCATAT
38722603 TCTCACCACA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 17 0.59
11 2 0.07
13 2 0.07
14 8 0.28
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (10 bp):
TATTCATATA
Found at i:38722589 original size:24 final size:24
Alignment explanation
Indices: 38722557--38722604 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
38722547 CTCTTAAACT
38722557 CATTATTCATATATATTCATATTC
1 CATTATTCATATATATTCATATTC
38722581 CATTATTCATATATATTCATATTC
1 CATTATTCATATATATTCATATTC
38722605 TCACCACAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (24 bp):
CATTATTCATATATATTCATATTC
Found at i:38722994 original size:21 final size:21
Alignment explanation
Indices: 38722969--38723050 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
38722959 CACATACATC
38722969 ATGAGCTCAGACCACAACTCA
1 ATGAGCTCAGACCACAACTCA
* *
38722990 ATGAGTTCAGATGTCACATACATC-
1 ATGAGCTCAGA--CCACA-AC-TCA
*
38723014 ATGAACTCAGACCACAACTCA
1 ATGAGCTCAGACCACAACTCA
* * *
38723035 ATAAGTTCAGATCACA
1 ATGAGCTCAGACCACA
38723051 TAGTTCCTAG
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
20 2 0.04
21 24 0.51
22 4 0.09
23 4 0.09
24 11 0.23
25 2 0.04
ACGTcount: A:0.39, C:0.27, G:0.13, T:0.21
Consensus pattern (21 bp):
ATGAGCTCAGACCACAACTCA
Found at i:38723010 original size:45 final size:45
Alignment explanation
Indices: 38722959--38723046 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
38722949 AAACATGTGC
* *
38722959 CACATACATCATGAGCTCAGACCACAACTCAATGAGTTCAGATGT
1 CACATACATCATGAACTCAGACCACAACTCAATAAGTTCAGATGT
38723004 CACATACATCATGAACTCAGACCACAACTCAATAAGTTCAGAT
1 CACATACATCATGAACTCAGACCACAACTCAATAAGTTCAGAT
38723047 CACATAGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.39, C:0.27, G:0.12, T:0.22
Consensus pattern (45 bp):
CACATACATCATGAACTCAGACCACAACTCAATAAGTTCAGATGT
Found at i:38726044 original size:30 final size:30
Alignment explanation
Indices: 38725986--38726046 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
38725976 TTCCCGAGCC
*
38725986 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATCCAAAAGTT
* * * *
38726016 TAGGGGCAAAATTGTAATTTTCCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATCCAAAAGTT
38726046 T
1 T
38726047 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATCCAAAAGTT
Found at i:38728995 original size:2 final size:2
Alignment explanation
Indices: 38728988--38729027 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
38728978 AGTATAGTTG
* * *
38728988 AT AT AT AT AT AT AT AT AT AT AT AG AT AT AG AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38729028 TCGGCCATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (2 bp):
AT
Found at i:38729702 original size:29 final size:29
Alignment explanation
Indices: 38729667--38729740 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
38729657 GTTGTGAGAT
* *
38729667 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
38729696 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
38729725 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38729741 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:38737067 original size:2 final size:2
Alignment explanation
Indices: 38737060--38737093 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
38737050 AGTATAGTTG
* *
38737060 AT AT AT AT AT AT AT AT AT AT AT AG AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38737094 TCGGCCATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:38737767 original size:29 final size:29
Alignment explanation
Indices: 38737732--38737805 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
38737722 GTTGTGAGAT
* *
38737732 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
38737761 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
38737790 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38737806 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:38745136 original size:2 final size:2
Alignment explanation
Indices: 38745129--38745164 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
38745119 AGTATAGTTG
* *
38745129 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38745165 TCGGCCATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:38745839 original size:29 final size:29
Alignment explanation
Indices: 38745804--38745877 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
38745794 GTTGTGAGAT
* *
38745804 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
38745833 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
38745862 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38745878 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:38753747 original size:27 final size:26
Alignment explanation
Indices: 38753703--38753754 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
38753693 CTCGCTGCAA
*
38753703 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
38753730 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
38753755 GCAACCTCGC
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:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:38753855 original size:27 final size:26
Alignment explanation
Indices: 38753803--38753862 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
38753793 ATATATATAT
*
38753803 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
38753829 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
38753856 ATATCTG
1 ATATCTG
38753863 GCAGCCTCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:38757260 original size:17 final size:17
Alignment explanation
Indices: 38757238--38757277 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
38757228 GATGGTTCGC
*
38757238 GAGATGGGGCTGGCGAT
1 GAGATGGAGCTGGCGAT
*
38757255 GAGATGTAGCTGGCGAT
1 GAGATGGAGCTGGCGAT
38757272 GAGATG
1 GAGATG
38757278 TGGAGTTGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.23, C:0.10, G:0.47, T:0.20
Consensus pattern (17 bp):
GAGATGGAGCTGGCGAT
Found at i:38757278 original size:17 final size:17
Alignment explanation
Indices: 38757246--38757278 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
38757236 GCGAGATGGG
38757246 GCTGGCGATGAGATGTA
1 GCTGGCGATGAGATGTA
38757263 GCTGGCGATGAGATGT
1 GCTGGCGATGAGATGT
38757279 GGAGTTGCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.42, T:0.24
Consensus pattern (17 bp):
GCTGGCGATGAGATGTA
Found at i:38761031 original size:40 final size:40
Alignment explanation
Indices: 38760977--38761161 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
38760967 CTTGCACAAG
* * *
38760977 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
38761017 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
38761057 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
** * *
38761097 GCCTTC-GGATCTTAGTTCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
38761138 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
38761162 CATTCGAATA
Statistics
Matches: 122, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.02
40 90 0.74
41 26 0.21
42 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:38769117 original size:40 final size:40
Alignment explanation
Indices: 38769063--38769246 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
38769053 CTTGCACAAG
* * *
38769063 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
38769103 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
38769143 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
38769183 GCCTT-TGGATCTTAGTCC-GTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
38769223 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
38769247 CATTCGAATA
Statistics
Matches: 120, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
39 10 0.08
40 103 0.86
41 7 0.06
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:38778903 original size:92 final size:93
Alignment explanation
Indices: 38778780--38778955 Score: 223
Period size: 94 Copynumber: 1.9 Consensus size: 93
38778770 ACCTCTATAC
*
38778780 ATGTCGATACCATGTCTAAGACATGGTCTTACACTAACACATC-T-CGTAGCCGATGCATGTCCT
1 ATGTCGATACCATGTCTAAGACATGGCCTTACACTAACAC-TCATACGTAGCCGATGCATGTCCT
*
38778843 AGACATGTTTTACACTAGCTCTCGTCTCA
65 AGACATGTCTTACACTAGCTCTCGTCTCA
* * * * * *
38778872 ATGTTGATGCCATGTCCT-AGACATGGCCTTACACTAGCTCTCATAATGTGGCCGATGCATGTCC
1 ATGTCGATACCATGT-CTAAGACATGGCCTTACACTAACACTCAT-ACGTAGCCGATGCATGTCC
*
38778936 TAGACATGTCTTACATTAGC
64 TAGACATGTCTTACACTAGC
38778956 ACACAAATAA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
91 2 0.03
92 33 0.46
93 2 0.03
94 34 0.48
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (93 bp):
ATGTCGATACCATGTCTAAGACATGGCCTTACACTAACACTCATACGTAGCCGATGCATGTCCTA
GACATGTCTTACACTAGCTCTCGTCTCA
Found at i:38778933 original size:47 final size:48
Alignment explanation
Indices: 38778828--38778943 Score: 134
Period size: 47 Copynumber: 2.5 Consensus size: 48
38778818 ACATCTCGTA
** *
38778828 GCCGATGCATGTCCTAGACAT-GTTTTACACTAGCTCTCGTCTCAATGT
1 GCCGATGCATGTCCTAGACATGGCCTTACACTAGCTCTCG-ATCAATGT
*
38778876 --TGATGCCATGTCCTAGACATGGCCTTACACTAGCTCTC-AT-AATGT
1 GCCGATG-CATGTCCTAGACATGGCCTTACACTAGCTCTCGATCAATGT
38778921 GGCCGATGCATGTCCTAGACATG
1 -GCCGATGCATGTCCTAGACATG
38778944 TCTTACATTA
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
45 5 0.09
46 5 0.09
47 29 0.50
48 19 0.33
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (48 bp):
GCCGATGCATGTCCTAGACATGGCCTTACACTAGCTCTCGATCAATGT
Found at i:38784597 original size:8 final size:8
Alignment explanation
Indices: 38784584--38784614 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
38784574 ATTAGGGATT
*
38784584 AAAATGTA
1 AAAATGTC
38784592 AAAATGTC
1 AAAATGTC
38784600 AAAATGTC
1 AAAATGTC
38784608 AAAATGT
1 AAAATGT
38784615 GAGGGTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.55, C:0.06, G:0.13, T:0.26
Consensus pattern (8 bp):
AAAATGTC
Found at i:38786762 original size:28 final size:28
Alignment explanation
Indices: 38786693--38786793 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
38786683 GACAAGATTG
* * * *
38786693 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
38786723 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
38786751 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
38786780 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
38786794 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:38786787 original size:29 final size:28
Alignment explanation
Indices: 38786722--38786793 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
38786712 AAAATTGTAC
*
38786722 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
38786750 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
38786779 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38786794 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:38794669 original size:43 final size:43
Alignment explanation
Indices: 38794548--38794685 Score: 149
Period size: 42 Copynumber: 3.2 Consensus size: 43
38794538 TGTGTTTCCG
* * *
38794548 TGTAAGACCAC-ATTTGGGA-TGTTGGCATCGACTA-ATGATTTACC
1 TGTAAGACC-CTATCTGGGACTG-TGGCATCGA-TATTTGATTT-CA
* * *
38794592 TGTAAGACCATGTCTGGGACTTTGGCATCG-TATTTGATTTCA
1 TGTAAGACCCTATCTGGGACTGTGGCATCGATATTTGATTTCA
*
38794634 TGTAAGACCCTATCTGGGACTGTGGCATCGATATTTGATTACA
1 TGTAAGACCCTATCTGGGACTGTGGCATCGATATTTGATTTCA
38794677 TGTAAGACC
1 TGTAAGACC
38794686 ACGTCTGGGA
Statistics
Matches: 80, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
42 30 0.38
43 26 0.32
44 23 0.29
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.33
Consensus pattern (43 bp):
TGTAAGACCCTATCTGGGACTGTGGCATCGATATTTGATTTCA
Found at i:38794693 original size:43 final size:44
Alignment explanation
Indices: 38794548--38794704 Score: 175
Period size: 43 Copynumber: 3.7 Consensus size: 44
38794538 TGTGTTTCCG
* * *
38794548 TGTAAGACCACATTTGGGA-TGTTGGCATCGACTA-ATGATTTACC
1 TGTAAGACCACATCTGGGACTGTTGGCATCGA-TATTTGA-TTACA
** *
38794592 TGTAAGACCATGTCTGGGACT-TTGGCATCG-TATTTGATTTCA
1 TGTAAGACCACATCTGGGACTGTTGGCATCGATATTTGATTACA
38794634 TGTAAGACC-CTATCTGGGACTG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-ATCTGGGACTGTTGGCATCGATATTTGATTACA
*
38794677 TGTAAGACCACGTCTGGGAC-GTTGGCAT
1 TGTAAGACCACATCTGGGACTGTTGGCAT
38794705 TGTACAAGAT
Statistics
Matches: 96, Mismatches: 10, Indels: 15
0.79 0.08 0.12
Matches are distributed among these distances:
42 32 0.33
43 37 0.39
44 26 0.27
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (44 bp):
TGTAAGACCACATCTGGGACTGTTGGCATCGATATTTGATTACA
Found at i:38794716 original size:85 final size:86
Alignment explanation
Indices: 38794548--38794716 Score: 202
Period size: 85 Copynumber: 2.0 Consensus size: 86
38794538 TGTGTTTCCG
* * * *
38794548 TGTAAGACCACATTTGGGATGTTGGCATCGACTAATGATTTACCTGTAAGACCATGTCTGGGACT
1 TGTAAGACCACATCTGGGATGTTGGCATCGACTAATGATTTACATGTAAGACCACGTCTGGGACG
***
38794613 TTGGCATCGTATTTGATTTCA
66 TTGGCATCGTACAAGATTTCA
*
38794634 TGTAAGACC-CTATCTGGGACTG-TGGCATCGA-TATTTGA-TTACATGTAAGACCACGTCTGGG
1 TGTAAGACCAC-ATCTGGGA-TGTTGGCATCGACTA-ATGATTTACATGTAAGACCACGTCTGGG
*
38794695 ACGTTGGCATTGTACAAGATTT
63 ACGTTGGCATCGTACAAGATTT
38794717 TTGAGCCATT
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
85 41 0.58
86 28 0.39
87 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (86 bp):
TGTAAGACCACATCTGGGATGTTGGCATCGACTAATGATTTACATGTAAGACCACGTCTGGGACG
TTGGCATCGTACAAGATTTCA
Found at i:38796639 original size:24 final size:24
Alignment explanation
Indices: 38796607--38796669 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
38796597 AATCTCAAAT
38796607 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
38796631 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
38796655 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
38796670 ACATAATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:38811432 original size:23 final size:24
Alignment explanation
Indices: 38811392--38811453 Score: 108
Period size: 23 Copynumber: 2.6 Consensus size: 24
38811382 AATCTCAAAT
38811392 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
38811416 GCACTATGT-TGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
38811439 GTACTATGTGTGCGA
1 GCACTATGTGTGCGA
38811454 ACATAATAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
23 22 0.61
24 14 0.39
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:38813087 original size:23 final size:24
Alignment explanation
Indices: 38813061--38813106 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
38813051 AGCCATGTGA
*
38813061 TATGGCTTGGTTCTGGT-TATGAT
1 TATGGCTTGATTCTGGTATATGAT
* *
38813084 TATGGTTTGATTTTGGTATATGA
1 TATGGCTTGATTCTGGTATATGA
38813107 AATGTGATGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.17, C:0.04, G:0.28, T:0.50
Consensus pattern (24 bp):
TATGGCTTGATTCTGGTATATGAT
Found at i:38814715 original size:58 final size:58
Alignment explanation
Indices: 38814625--38814737 Score: 190
Period size: 58 Copynumber: 1.9 Consensus size: 58
38814615 GAGACACCTG
* * *
38814625 GGATTGCTTTCAAGTTGAATTTCGAAAGAAATGCATCAATTAGAGATTTATCGATCTA
1 GGATTGCTTTCAAGATGAATTTCAAAAGAAATGCATCAATCAGAGATTTATCGATCTA
*
38814683 GGATTTCTTTCAAGATGAATTTCAAAAGAAATGCATCAATCAGAGATTTATCGAT
1 GGATTGCTTTCAAGATGAATTTCAAAAGAAATGCATCAATCAGAGATTTATCGAT
38814738 GAGAAACACA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (58 bp):
GGATTGCTTTCAAGATGAATTTCAAAAGAAATGCATCAATCAGAGATTTATCGATCTA
Found at i:38819021 original size:28 final size:28
Alignment explanation
Indices: 38818989--38819086 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 28
38818979 CAATAAGCCT
*
38818989 GCACACTTAGTGCTTAATAGTCGAACTC
1 GCACACTTAGTGCTTAATAATCGAACTC
* *
38819017 GCACACTTAGTGC-TATATAATCAAACTT
1 GCACACTTAGTGCTTA-ATAATCGAACTC
* *
38819045 GCACACTTAGTGCTGT-ATAATTTGAACCC
1 GCACACTTAGTGCT-TAATAA-TCGAACTC
38819074 GCACACTTAGTGC
1 GCACACTTAGTGC
38819087 CAATTTGTGA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
27 2 0.03
28 39 0.66
29 17 0.29
30 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (28 bp):
GCACACTTAGTGCTTAATAATCGAACTC
Found at i:38823056 original size:42 final size:43
Alignment explanation
Indices: 38822995--38823094 Score: 130
Period size: 42 Copynumber: 2.3 Consensus size: 43
38822985 GACTGATGAT
* *
38822995 TTACCTGTAAGACCATGTCTAGGAAATTGGCATC-ATATTCGA
1 TTACATGTAAGACCATGTCTAGGAAAGTGGCATCGATATTCGA
* * * * *
38823037 TTTCATGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGA
1 TTACATGTAAGACCATGTCTAGGAAAGTGGCATCGATATTCGA
38823080 TTACATGTAAGACCA
1 TTACATGTAAGACCA
38823095 CGTCCGGGAC
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
42 28 0.58
43 20 0.42
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTAGGAAAGTGGCATCGATATTCGA
Found at i:38823104 original size:43 final size:42
Alignment explanation
Indices: 38822995--38823112 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 42
38822985 GACTGATGAT
* * * * *
38822995 TTACCTGTAAGACCATGTCTAGGAAATTGGCATCATATTCGA
1 TTACATGTAAGACCACGTCTGGGACAGTGGCATCATATTCGA
* *
38823037 TTTCATGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGA
1 TTACATGTAAGACCAC-GTCTGGGACAGTGGCATC-ATATTCGA
*
38823080 TTACATGTAAGACCACGTCCGGGAC-GTTGGCAT
1 TTACATGTAAGACCACGTCTGGGACAG-TGGCAT
38823113 TGTACGAGCT
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
42 28 0.44
43 34 0.54
44 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (42 bp):
TTACATGTAAGACCACGTCTGGGACAGTGGCATCATATTCGA
Found at i:38823651 original size:23 final size:24
Alignment explanation
Indices: 38823625--38823669 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
38823615 AGCCATGTGA
*
38823625 TATGGCTTGGTTTTGGT-TATGAT
1 TATGGCTTGATTTTGGTATATGAT
*
38823648 TATGGTTTGATTTTGGTATATG
1 TATGGCTTGATTTTGGTATATG
38823670 GAATGTGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.16, C:0.02, G:0.29, T:0.53
Consensus pattern (24 bp):
TATGGCTTGATTTTGGTATATGAT
Found at i:38825528 original size:27 final size:26
Alignment explanation
Indices: 38825480--38825539 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
38825470 GCGAGGCTGC
* *
38825480 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCA-AAA
* * *
38825507 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
38825533 CAGATAT
1 CAGATAT
38825540 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:38825626 original size:27 final size:26
Alignment explanation
Indices: 38825579--38825629 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
38825569 CGAGGCTGCC
*
38825579 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
38825605 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
38825630 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:38827305 original size:40 final size:40
Alignment explanation
Indices: 38827260--38827389 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
38827250 CGGAATACAA
38827260 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
38827300 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
38827340 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
38827380 CCGGATATAA
1 CCGGATATAA
38827390 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:38829490 original size:27 final size:27
Alignment explanation
Indices: 38829460--38829577 Score: 166
Period size: 27 Copynumber: 4.4 Consensus size: 27
38829450 AGGCAAAATG
* *
38829460 GTAATTTTACCCTACAAGGGTATCTT-A
1 GTAATTCTACCCTACAGGGGTAT-TTCA
38829487 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
38829514 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
**
38829541 GTAATTCTACTTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
38829568 GTAATTCTAC
1 GTAATTCTAC
38829578 AACTTATCCA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
26 2 0.02
27 80 0.98
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:38835417 original size:27 final size:26
Alignment explanation
Indices: 38835369--38835428 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
38835359 GCGAGGCTGC
*
38835369 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
38835396 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
38835422 CAGATAT
1 CAGATAT
38835429 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:38835521 original size:27 final size:26
Alignment explanation
Indices: 38835473--38835524 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
38835463 GCGAGGCTGC
*
38835473 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
38835499 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
38835525 TTGCAGCAGG
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:38836223 original size:27 final size:27
Alignment explanation
Indices: 38836193--38836317 Score: 146
Period size: 27 Copynumber: 4.7 Consensus size: 27
38836183 ACCCCACATA
* *
38836193 GGTATCTCGATAATTTTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* *
38836220 GGTATTT-GGTAATTCTACCCTATAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* *
38836246 GGAATTTCAATAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* * *
38836273 GGTATTTC-AGTAATTCTACCTTATAAG
1 GGTATTTCGA-TAATTCTACCCTACAGG
38836300 GGTATTTCGATAATTCTA
1 GGTATTTCGATAATTCTA
38836318 TAACTTATCC
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
26 23 0.28
27 59 0.71
28 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTATTTCGATAATTCTACCCTACAGG
Found at i:38836239 original size:53 final size:53
Alignment explanation
Indices: 38836173--38836292 Score: 141
Period size: 53 Copynumber: 2.2 Consensus size: 53
38836163 AGGGGCAAAA
* * * * *
38836173 TGGTAATTTTACCCCACATAGGTATCTCGATAATTTTACCCTACAGGGGTATT
1 TGGTAATTCTACCCCACAGAGGAATCTCAATAATTCTACCCTACAGGGGTATT
* * * *
38836226 TGGTAATTCTACCCTATAGGGGAATTTCAATAATTCTACCCTACAGGGGTATT
1 TGGTAATTCTACCCCACAGAGGAATCTCAATAATTCTACCCTACAGGGGTATT
*
38836279 TCAGTAATTCTACC
1 T-GGTAATTCTACC
38836293 TTATAAGGGT
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
53 45 0.80
54 11 0.20
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35
Consensus pattern (53 bp):
TGGTAATTCTACCCCACAGAGGAATCTCAATAATTCTACCCTACAGGGGTATT
Found at i:38836313 original size:54 final size:53
Alignment explanation
Indices: 38836193--38836317 Score: 178
Period size: 54 Copynumber: 2.3 Consensus size: 53
38836183 ACCCCACATA
* * * *
38836193 GGTATCTCGATAATTTTACCCTACAGGGGTATTTGGTAATTCTACCCTATAGG
1 GGTATTTCGATAATTCTACCCTACAGGGGTATTTAGTAATTCTACCCTATAAG
* * *
38836246 GGAATTTCAATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTATAAG
1 GGTATTTCGATAATTCTACCCTACAGGGGTATTT-AGTAATTCTACCCTATAAG
38836300 GGTATTTCGATAATTCTA
1 GGTATTTCGATAATTCTA
38836318 TAACTTATCC
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
53 30 0.48
54 32 0.52
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
GGTATTTCGATAATTCTACCCTACAGGGGTATTTAGTAATTCTACCCTATAAG
Found at i:38839413 original size:56 final size:56
Alignment explanation
Indices: 38839347--38839480 Score: 232
Period size: 56 Copynumber: 2.4 Consensus size: 56
38839337 GACCATGGCA
*
38839347 TCGATATATGTGTGCGATTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
*
38839403 TCGATATATGTGTGCGAGTAAGACCACTTTTAATACGTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
* *
38839459 CCGATATATTTGTGCGAGTAAG
1 TCGATATATGTGTGCGAGTAAG
38839481 TCCCTGTCTG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 74 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
Found at i:38839501 original size:56 final size:56
Alignment explanation
Indices: 38839348--38839514 Score: 196
Period size: 56 Copynumber: 3.0 Consensus size: 56
38839338 ACCATGGCAT
* * *
38839348 CGATATATGTGTGCGATTAAGACCACGTT-TAATACGTTGGCATCGATATGTGATTT
1 CGATATATGTGTGCGAGTAAGACCAC-TTCTAAGACGTTGGCATCGATATGTGATTC
* *
38839404 CGATATATGTGTGCGAGTAAGACCACTTTTAATACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACTTCTAAGACGTTGGCATCGATATGTGATTC
* * ** *
38839460 CGATATATTTGTGCGAGTAAGTCC-CTGTCTGGGACAG-TGGCATTGATATGTGATT
1 CGATATATGTGTGCGAGTAAGACCACT-TCTAAGAC-GTTGGCATCGATATGTGATT
38839515 ACATGTAAGA
Statistics
Matches: 99, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
55 4 0.04
56 94 0.95
57 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACTTCTAAGACGTTGGCATCGATATGTGATTC
Found at i:38843158 original size:23 final size:24
Alignment explanation
Indices: 38843132--38843177 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
38843122 AGCCATGTGA
*
38843132 TATGGCTTGGTTTTGGT-TATGAT
1 TATGGCTTGATTTTGGTATATGAT
*
38843155 TATGGTTTGATTTTGGTATATGA
1 TATGGCTTGATTTTGGTATATGA
38843178 AATGTGATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.17, C:0.02, G:0.28, T:0.52
Consensus pattern (24 bp):
TATGGCTTGATTTTGGTATATGAT
Found at i:38848814 original size:45 final size:45
Alignment explanation
Indices: 38848750--38848835 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
38848740 TAGAATGAAC
* *
38848750 CTTTCGATAGGGAAGAAGACCAA-CGAACCAGAGAAGGACTGAAGA
1 CTTTCGATAGCGAAGAAGA-CAAGCGAACCAAAGAAGGACTGAAGA
*
38848795 CTTTCGATAGCGAAGAAGACAAGCGAACCAAATAAGGACTG
1 CTTTCGATAGCGAAGAAGACAAGCGAACCAAAGAAGGACTG
38848836 GAGGAATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 3 0.08
45 34 0.92
ACGTcount: A:0.42, C:0.19, G:0.27, T:0.13
Consensus pattern (45 bp):
CTTTCGATAGCGAAGAAGACAAGCGAACCAAAGAAGGACTGAAGA
Found at i:38850915 original size:37 final size:37
Alignment explanation
Indices: 38850859--38850964 Score: 185
Period size: 37 Copynumber: 2.9 Consensus size: 37
38850849 TCAGACGAAG
* *
38850859 TCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
*
38850896 TCTTCACACGTAGTCATCGGGTCTTACCCGGACAAAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
38850933 TCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGA
38850965 ATATATTTCC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
Found at i:38851229 original size:48 final size:48
Alignment explanation
Indices: 38851110--38851390 Score: 447
Period size: 48 Copynumber: 5.8 Consensus size: 48
38851100 GCACATCGCC
* * *
38851110 TACATATTTCACACTAGCCATTCGGCTTTACCACATATGCATATATCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
38851160 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
* *
38851208 TACATATCTCACATTAGCCATTCAGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
38851256 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATACCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
38851304 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
38851352 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
38851391 TGCATGTTCA
Statistics
Matches: 218, Mismatches: 11, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
48 175 0.80
49 2 0.01
50 41 0.19
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:38851434 original size:47 final size:47
Alignment explanation
Indices: 38851361--38851477 Score: 189
Period size: 47 Copynumber: 2.5 Consensus size: 47
38851351 ATACATATTT
* * *
38851361 CACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCAC
1 CACATTGGCCATTCGGCTTTATCACATATATGCATGTTCACATTCAC
*
38851408 CACATTGGCCATTCGGCTTTATCACATATATGCATGTTCACATTCAT
1 CACATTGGCCATTCGGCTTTATCACATATATGCATGTTCACATTCAC
*
38851455 CACATTGGCCATTCGGCCTTATC
1 CACATTGGCCATTCGGCTTTATC
38851478 TCATGTATAC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (47 bp):
CACATTGGCCATTCGGCTTTATCACATATATGCATGTTCACATTCAC
Found at i:38853070 original size:2 final size:2
Alignment explanation
Indices: 38853063--38853094 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
38853053 TCATGTGCAA
38853063 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38853095 GTGCAAGAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38857603 original size:29 final size:29
Alignment explanation
Indices: 38857569--38857700 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
38857559 TACTCGATTT
** * *
38857569 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
38857598 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
38857627 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
38857656 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
38857685 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
38857701 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:38865510 original size:27 final size:28
Alignment explanation
Indices: 38865453--38865521 Score: 101
Period size: 27 Copynumber: 2.6 Consensus size: 28
38865443 CCTTCGAGCT
38865453 CGCACACTTAGTG-CATATATATTCTCA
1 CGCACACTTAGTGCCATATATATTCTCA
38865480 -GCACACTTAGTGCCATATAT-TTC-CA
1 CGCACACTTAGTGCCATATATATTCTCA
38865505 GCGCACACTTAGTGCCA
1 -CGCACACTTAGTGCCA
38865522 ATCTCGTCAC
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
25 2 0.05
26 15 0.38
27 22 0.56
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATATTCTCA
Found at i:38873338 original size:29 final size:29
Alignment explanation
Indices: 38873304--38873435 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
38873294 TACTCGATTT
** * *
38873304 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
38873333 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
38873362 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
38873391 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
38873420 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
38873436 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Done.