Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold62
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: 1452230
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.24
Warning! 388291 characters in sequence are not A, C, G, or T
File 2 of 7
Found at i:538077 original size:27 final size:27
Alignment explanation
Indices: 538038--538224 Score: 113
Period size: 27 Copynumber: 6.2 Consensus size: 27
538028 TTCAAAGGAA
* * *
538038 AAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAGGGTGCCACAAAGTTGTGGACTT
*
538065 CAAAGGGTGCCACAAAGTTGTGGACTT
1 AAAAGGGTGCCACAAAGTTGTGGACTT
*
538092 AAAAGGAAAAAGATGCCACGAAGTTGTGGACTT
1 AAAAGG-----G-TGCCACAAAGTTGTGGACTT
* *
538125 AAAAGGGAAAAGATGCCTCAGAGTTGTGGACTT
1 AAAA-GG----G-TGCCACAAAGTTGTGGACTT
* *
538158 AAAAGGAACAAGGGTGCCACGAAGTTGTGGGCTT
1 ------AA-AAGGGTGCCACAAAGTTGTGGACTT
*
538192 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACAAAGTTGTGGACTT
538219 AAAAGG
1 AAAAGG
538225 AAAAAGAGTG
Statistics
Matches: 130, Mismatches: 16, Indels: 28
0.75 0.09 0.16
Matches are distributed among these distances:
27 56 0.43
28 2 0.02
32 1 0.01
33 46 0.35
34 18 0.14
35 1 0.01
39 4 0.03
40 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.32, T:0.20
Consensus pattern (27 bp):
AAAAGGGTGCCACAAAGTTGTGGACTT
Found at i:538097 original size:95 final size:94
Alignment explanation
Indices: 537872--538936 Score: 787
Period size: 95 Copynumber: 11.1 Consensus size: 94
537862 GGGAAAAGGG
* * * * *
537872 AAAAGGGTGCCACGGAGTTGTTGACTTAAAAAG-AAAAGGTACCACGGAGTTGTGGACTTAAAAG
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAG
* *
537936 GAATAAG-GTGCCACGGAGTTATGGACTT
66 GAAAAAGAGTGCCACGGAGTTGTGGACTT
* *
537964 CAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTATGGACT
1 AAAAGG-----G-TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACT
* * *
538029 TCAAAGGAAAAAAGAGTGCCACAGAGTTGTGGGCTT
60 TAAAAGG-AAAAAGAGTGCCACGGAGTTGTGGACTT
* **
538065 CAAAGGGTGCCACAAAGTTGTGGACTTAAAAGGAAAAAGATGCCAC-GAAGTTGTGGACTTAAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAG-AGTTGTGGACTTAAAA
* * *
538129 GGGAAAAGA-TGCCTCAGAGTTGTGGACTT
65 GGAAAAAGAGTGCCACGGAGTTGTGGACTT
* *
538158 AAAAGGAACAAGGGTGCCACGAAGTTGTGGGCTTAAAAGG-----G-TGCCACAGAGTTGTGGAC
1 ------AA-AAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGAC
* *** *
538217 TTAAAAGGAAAAAGAGTGCAATAAAGTTGTGGGCTT
59 TTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTT
* *
538253 AAAAGGAAAAACAGTGCCATGGAGTTGTGGGCTTAAAAGG-----G-TGCCA-AGGAGTTGTGGA
1 AAAAGG-------GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACA-GAGTTGTGGA
*
538311 CTTAAAAGGAAAAAGA-TGCCACAGAGTTGTGGACTT
58 CTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTT
* * * *
538347 AAAAGGAACAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGATTCCACGGAGTTGTGGG
1 ------AA-AAGGGTGCCACGGAGTTGTGGACTTAAAAGGAA-AAAGATGCCACAGAGTTGTGGA
*
538412 CTTAAAA-G-----G-GTGCCACAGAGTTGTGGACTT
58 CTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTT
* * * * *
538442 AAAAGGAAAAAGAGTGCCATGAAGTTGTGGGCTTAAAAGGAAAAATGGTGCCACAGAGTTGTGGG
1 AAAA-G-----G-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAA-GATGCCACAGAGTTGTGGA
*
538507 CTTAAAA-G-----G-GTGCCACGGAGTTATGGACTT
58 CTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTT
* * * *
538537 AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT-AAAGAGATCAAGGGTACCACAGAGTTGTGGA
1 AAAAGG-----G-TGCCACGGAGTTGTGGACTTAAAAG-GA-AAAAGATGCCACAGAGTTGTGGA
* * * *
538601 CTTAAAAGGGAAAATG-GTGCCATGGAGTCGTTGACTT
58 CTTAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGACTT
* * * * *
538638 AAAAAGAAAAGGTACCACAGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTATGGACTT
1 -AAAAG----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTT
*
538703 AAAAGGAAAAAG-GTGCCACGGAGTTATGGACTT
61 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTT
* * *
538736 AAAAGGAAAAAGATGCCACGGAGTTGTAGACTTAAAAGGAAAAAGATGCCATAGAGTTATGGACT
1 AAAAGG-----G-TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACT
* *
538801 TCAAAGGAAAAAAGAGTGCCACGGAGTTGTGGGCTT
60 TAAAAGG-AAAAAGAGTGCCACGGAGTTGTGGACTT
* * *
538837 CAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAG
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAG
*
538902 GAAAAAGAGTGCCACGGAGTTGTGGGCTT
66 GAAAAAGAGTGCCACGGAGTTGTGGACTT
538931 AAAAGG
1 AAAAGG
538937 AAAAAAGGTG
Statistics
Matches: 806, Mismatches: 88, Indels: 156
0.77 0.08 0.15
Matches are distributed among these distances:
88 6 0.01
89 6 0.01
92 5 0.01
93 25 0.03
94 159 0.20
95 277 0.34
96 3 0.00
97 6 0.01
98 49 0.06
99 105 0.13
100 64 0.08
101 95 0.12
102 5 0.01
106 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.31, T:0.20
Consensus pattern (94 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAG
GAAAAAGAGTGCCACGGAGTTGTGGACTT
Found at i:538104 original size:128 final size:127
Alignment explanation
Indices: 537796--539208 Score: 1104
Period size: 128 Copynumber: 11.0 Consensus size: 127
537786 CTTACAGGAA
* * * * * *
537796 AAAAGGATGCCACGGAGGTGTGGGCTTAAAAGGAAAAAGGGATGCCACGGAGGTGTGGGCTTAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAA--GATGCCACGGAGTTGTGGACTTAAA
* * * * * *
537861 AGGGAAAAGGGAAAAGGGTGCCACGGAGTTGTTGACTTAAAAAG-AAAAG-GTACCACGGAGTTG
64 A-GG---A---AAAA-GATGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTG
537924 TGGACTT
121 TGGACTT
* * *
537931 AAAAGGAATAAGGTGCCACGGAGTTATGGACTTCAAAGGAAAAAGATGCCACGGAGTTGTGGACT
1 AAAA-G-----GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACT
* *
537996 TAAAAGGAAAAAGATGCCACAGAGTTATGGACTTCAAAGGAAAAAAGAGTGCCACAGAGTTGTGG
60 TAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAGG-AAAAAGAGTGCCACAGAGTTGTGG
*
538061 GCTT
124 ACTT
* * *
538065 CAAAGGGTGCCACAAAGTTGTGGACTTAAAAGGAAAAAGATGCCACGAAGTTGTGGACTTAAAAG
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAG
* * * * *
538130 GGAAAAGATGCCTCAGAGTTGTGGACTTAAAAGGAACAAGGGTGCCAC-GAAGTTGTGGGCTT
66 GAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAG-AGTTGTGGACTT
* *** *
538192 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCAATAAAGTTGTGGGCTTAAAA
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGGAGTTGTGGACTTAAAA
* ** *
538257 GGAAAAACAGTGCCATGGAGTTGTGGGCTTAAAA-G-----G-GTGCCA-AGGAGTTGTGGACTT
65 GGAAAAAGA-TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACA-GAGTTGTGGACTT
* *
538314 AAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGAACAAGGGTGCCACGGAGTTGTGGAC
1 AAAAGG-----G-TGCCACAGAGTTGTGGACTTAAAAGGAA-AAAGATGCCACGGAGTTGTGGAC
* * * *
538379 TTAAAAGGAACAAGGATTCCACGGAGTTGTGGGCTTAAAA-G-----G-GTGCCACAGAGTTGTG
59 TTAAAAGGAA-AAAGATGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTG
538437 GACTT
123 GACTT
* * * *
538442 AAAAGGAAAAAGAGTGCCA-TGAAGTTGTGGGCTTAAAAGGAAAAATGGTGCCACAGAGTTGTGG
1 AAAA-G-----G-GTGCCACAG-AGTTGTGGACTTAAAAGGAAAAA-GATGCCACGGAGTTGTGG
* * * *
538506 GCTTAAAAGG-----G-TGCCACGGAGTTATGGACTTAAAAGGAAAAAGA-TGCCACGGAGTTGT
57 ACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGT
538564 GGACTT
122 GGACTT
* * * * * *
538570 AAAGAGATCAAGGGTACCACAGAGTTGTGGACTTAAAAGGGAAAATGGTGCCATGGAGTCGTTGA
1 ----A-A--AAGGGTGCCACAGAGTTGTGGACTTAAAA-GGAAAAAGATGCCACGGAGTTGTGGA
* * * * *
538635 CTTAAAAAG-AAAAGGTACCACAGAGTTGTGGACTTAAAAGGAAAAAG-GTGCCACGGAGTTATG
58 CTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTG
538698 GACTT
123 GACTT
* * *
538703 AAAAGGAAAAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTAGACT
1 AAAA-G-----GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACT
* * * *
538768 TAAAAGGAAAAAGATGCCATAGAGTTATGGACTTCAAAGGAAAAAAGAGTGCCACGGAGTTGTGG
60 TAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAGG-AAAAAGAGTGCCACAGAGTTGTGG
*
538833 GCTT
124 ACTT
*
538837 CAAAGGGTGCCAC-GAAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAA
1 AAAAGGGTGCCACAG-AGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAA
* * *
538901 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAA-AGGTGCCAC-GAAGTTGTGGGCT
65 GGAAAAAGA-TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGA-GTGCCACAG-AGTTGTGGACT
538964 T
127 T
* *
538965 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG-----G-TGCCACGGGGTTGTGGACTTAAAAG
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAG
* * *
539024 GAAAAAGAGTGCCACAGAGTTATGGGCTTTAAAA-G-----G-GTGCCACA-AATCTGTGGACTT
66 GAAAAAGA-TGCCACAGAGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCACAGAGT-TGTGGACTT
* * * * *
539081 AAAAGGGTGCTACAAAGTTATGGACTTTGAAAA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTGA
1 AAAAGGGTGCCACAGAGTTGTGGAC-TT-AAAAGGAAAAAGATGCCACGGAGTTGTGGAC-TT-A
* * * ** * * *
539145 AAA-GAAAAAGGTGCCACCGAGTCGTGGACTTTGAAGAAAAAAGA-TGCCACTGAGTCGTGGACT
62 AAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACT
539208 T
127 T
539209 TGGGACAAGA
Statistics
Matches: 1067, Mismatches: 122, Indels: 185
0.78 0.09 0.13
Matches are distributed among these distances:
115 2 0.00
116 36 0.03
117 3 0.00
118 4 0.00
122 99 0.09
123 41 0.04
124 9 0.01
125 4 0.00
126 3 0.00
127 67 0.06
128 410 0.38
129 111 0.10
130 2 0.00
131 51 0.05
132 56 0.05
133 62 0.06
134 45 0.04
135 7 0.01
136 1 0.00
138 2 0.00
139 24 0.02
141 28 0.03
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (127 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAG
GAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGACTT
Found at i:538298 original size:27 final size:27
Alignment explanation
Indices: 538266--538447 Score: 98
Period size: 27 Copynumber: 6.0 Consensus size: 27
538256 AGGAAAAACA
* *
538266 GTGCCATGGAGTTGTGGGCTTAAAAGG
1 GTGCCAAGGAGTTGTGGACTTAAAAGG
538293 GTGCCAAGGAGTTGTGGACTTAAAAGG
1 GTGCCAAGGAGTTGTGGACTTAAAAGG
538320 AAAAAGATGCCACA-GAGTTGTGGACTTAAAAGGAACAAGG
1 -----G-TGCCA-AGGAGTTGTGGACTT------AA-AAGG
*
538360 GTGCCACGGAGTTGTGGACTTAAAAGGAACAAG
1 GTGCCAAGGAGTTGTGGACTTAAAA-G-----G
* * *
538393 GATTCCACGGAGTTGTGGGCTTAAAAGG
1 G-TGCCAAGGAGTTGTGGACTTAAAAGG
538421 GTGCCACA-GAGTTGTGGACTTAAAAGG
1 GTGCCA-AGGAGTTGTGGACTTAAAAGG
538448 AAAAAGAGTG
Statistics
Matches: 124, Mismatches: 8, Indels: 46
0.70 0.04 0.26
Matches are distributed among these distances:
27 49 0.40
28 5 0.04
32 1 0.01
33 21 0.17
34 41 0.33
35 1 0.01
39 2 0.02
40 4 0.03
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (27 bp):
GTGCCAAGGAGTTGTGGACTTAAAAGG
Found at i:538521 original size:27 final size:27
Alignment explanation
Indices: 538483--538542 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
538473 CTTAAAAGGA
* * *
538483 AAAATGGTGCCACAGAGTTGTGGGCTT
1 AAAAGGGTGCCACAGAGTTATGGACTT
*
538510 AAAAGGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACAGAGTTATGGACTT
538537 AAAAGG
1 AAAAGG
538543 AAAAAGATGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.22
Consensus pattern (27 bp):
AAAAGGGTGCCACAGAGTTATGGACTT
Found at i:538849 original size:27 final size:27
Alignment explanation
Indices: 538810--539024 Score: 178
Period size: 27 Copynumber: 7.2 Consensus size: 27
538800 TTCAAAGGAA
* *
538810 AAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
538837 CAAAGGGTGCCACGAAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
538864 AAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
1 AAAAGG-----G-TGCCACGGAGTTGTGGACTT
*
538897 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAA-G-----G-GTGCCACGGAGTTGTGGACTT
* *
538931 AAAAGGAAAAAAGGTGCCACGAAGTTGTGGGCTT
1 AAAA-G------GGTGCCACGGAGTTGTGGACTT
538965 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
538992 AAAAGGGTGCCACGGGGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
539019 AAAAGG
1 AAAAGG
539025 AAAAAGAGTG
Statistics
Matches: 164, Mismatches: 11, Indels: 26
0.82 0.05 0.13
Matches are distributed among these distances:
27 80 0.49
32 1 0.01
33 24 0.15
34 50 0.30
35 8 0.05
39 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:538968 original size:34 final size:33
Alignment explanation
Indices: 538510--539208 Score: 472
Period size: 33 Copynumber: 21.8 Consensus size: 33
538500 TTGTGGGCTT
* * *
538510 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGG
1 AAAAAGGTGCCACGAAGTTGTGGACTTAAAAGG
* *
538543 AAAAAGATGCCACGGAGTTGTGGACTT-AAAGAG
1 AAAAAGGTGCCACGAAGTTGTGGACTTAAAAG-G
* * *
538576 ATCAAGGGTACCAC-AGAGTTGTGGACTTAAAAGGG
1 A-AAAAGGTGCCACGA-AGTTGTGGACTTAAAA-GG
* * * * * *
538611 AAAATGGTGCCATGGAGTCGTTGACTTAAAAAG
1 AAAAAGGTGCCACGAAGTTGTGGACTTAAAAGG
*
538644 -AAAAGGTACCAC-AGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACGA-AGTTGTGGACTTAAAAGG
* *
538676 AAAAAGGTGCCACGGAGTTATGGACTTAAAAGG
1 AAAAAGGTGCCACGAAGTTGTGGACTTAAAAGG
* *
538709 AAAAAGGTGCCACGGAGTTATGGACTTAAAAGG
1 AAAAAGGTGCCACGAAGTTGTGGACTTAAAAGG
* * *
538742 AAAAAGATGCCACGGAGTTGTAGACTTAAAAGG
1 AAAAAGGTGCCACGAAGTTGTGGACTTAAAAGG
* * * *
538775 AAAAAGATGCCA-TAGAGTTATGGACTTCAAAGG
1 AAAAAGGTGCCACGA-AGTTGTGGACTTAAAAGG
* * *
538808 AAAAAAGAGTGCCACGGAGTTGTGGGCTTCAAA-G
1 -AAAAAG-GTGCCACGAAGTTGTGGACTTAAAAGG
538842 -----GGTGCCACGAAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACGAAGTTGTGGACTTAAAAGG
* *
538870 AAAAAGATGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACGAAGTTGTGGACTTAAAAGG
* *
538903 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGG
1 AAAAAG-GTGCCACGAAGTTGTGGACTTAAAAGG
*
538937 AAAAAAGGTGCCACGAAGTTGTGGGCTTAAAA-G
1 -AAAAAGGTGCCACGAAGTTGTGGACTTAAAAGG
*
538970 -----GGTGCCACGGAGTTGTGGACTTAAAA-G
1 AAAAAGGTGCCACGAAGTTGTGGACTTAAAAGG
**
538997 -----GGTGCCACGGGGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACGAAGTTGTGGACTTAAAAGG
* *
539025 AAAAAGAGTGCCAC-AGAGTTATGGGCTTTAAAA-G
1 AAAAAG-GTGCCACGA-AGTTGTGGAC-TTAAAAGG
*
539059 -----GGTGCCAC-AAATCTGTGGACTTAAAA-G
1 AAAAAGGTGCCACGAAGT-TGTGGACTTAAAAGG
* * *
539086 -----GGTGCTACAAAGTTATGGACTTTGAAAA-G
1 AAAAAGGTGCCACGAAGTTGTGGAC-TT-AAAAGG
* *
539115 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-G
1 AAAAAGGTGCCACGAAGTTGTGGAC-TT-AAAAGG
* ** *
539149 AAAAAGGTGCCACCG-AGTCGTGGACTTTGAAGA
1 AAAAAGGTGCCA-CGAAGTTGTGGACTTAAAAGG
* *
539182 AAAAAGATGCCACTG-AGTCGTGGACTT
1 AAAAAGGTGCCAC-GAAGTTGTGGACTT
539209 TGGGACAAGA
Statistics
Matches: 553, Mismatches: 71, Indels: 84
0.78 0.10 0.12
Matches are distributed among these distances:
27 94 0.17
28 21 0.04
29 6 0.01
32 31 0.06
33 205 0.37
34 157 0.28
35 38 0.07
36 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (33 bp):
AAAAAGGTGCCACGAAGTTGTGGACTTAAAAGG
Found at i:539076 original size:62 final size:61
Alignment explanation
Indices: 538965--539086 Score: 156
Period size: 62 Copynumber: 2.0 Consensus size: 61
538955 TTGTGGGCTT
* * * ***
538965 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGGGTTGTGGACTTAAAAGGA
1 AAAAGAGTGCCACAGAGTTATGGACTTAAAAGGGTGCCACGAAATTGTGGACTTAAAAGGA
*
539026 AAAAGAGTGCCACAGAGTTATGGGCTTTAAAAGGGTGCCAC-AAATCTGTGGACTTAAAAGG
1 AAAAGAGTGCCACAGAGTTATGGAC-TTAAAAGGGTGCCACGAAAT-TGTGGACTTAAAAGG
539087 GTGCTACAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
61 22 0.42
62 30 0.58
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.20
Consensus pattern (61 bp):
AAAAGAGTGCCACAGAGTTATGGACTTAAAAGGGTGCCACGAAATTGTGGACTTAAAAGGA
Found at i:539104 original size:27 final size:27
Alignment explanation
Indices: 539026--539107 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
539016 CTTAAAAGGA
* * *
539026 AAAAGAGTGCCACAGAGTTATGGGCTTT
1 AAAAGGGTGCCACAAAGTTATGGAC-TT
*
539054 AAAAGGGTGCCACAAA-TCTGTGGACTT
1 AAAAGGGTGCCACAAAGT-TATGGACTT
*
539081 AAAAGGGTGCTACAAAGTTATGGACTT
1 AAAAGGGTGCCACAAAGTTATGGACTT
539108 TGAAAAGAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 26 0.57
28 20 0.43
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (27 bp):
AAAAGGGTGCCACAAAGTTATGGACTT
Found at i:539105 original size:89 final size:88
Alignment explanation
Indices: 538904--539148 Score: 275
Period size: 89 Copynumber: 2.8 Consensus size: 88
538894 CTTAAAAGGA
* ** *
538904 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAA-AGGTGCCACGAAGTTGTGGGC-TTAA
1 AAAAGGGTGCCACAAAGTTGTGGACTTAAAAGGAAAAAGA-GTGCCACG-AGTTGTGGGCTTTAA
* *
538967 AAGGGTGCCACGGAGTTGTGGACTT
64 AAGGGTGCCACGAAATTGTGGACTT
*** *
538992 AAAAGGGTGCCACGGGGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTATGGGCTTTAAA
1 AAAAGGGTGCCACAAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCAC-GAGTTGTGGGCTTTAAA
539057 AGGGTGCCAC-AAATCTGTGGACTT
65 AGGGTGCCACGAAAT-TGTGGACTT
* *
539081 AAAAGGGTGCTACAAAGTTATGGACTTTGAAAA-GAAAAAG-GTGCCACGGAGTTGTGGGCTTTG
1 AAAAGGGTGCCACAAAGTTGTGGAC-TT-AAAAGGAAAAAGAGTGCCAC-GAGTTGTGGGCTTT-
539144 AAAAG
62 AAAAG
539149 AAAAAGGTGC
Statistics
Matches: 137, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
88 53 0.39
89 66 0.48
90 14 0.10
91 4 0.03
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (88 bp):
AAAAGGGTGCCACAAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAGTTGTGGGCTTTAAAA
GGGTGCCACGAAATTGTGGACTT
Found at i:539193 original size:33 final size:33
Alignment explanation
Indices: 539101--539283 Score: 169
Period size: 34 Copynumber: 5.6 Consensus size: 33
539091 TACAAAGTTA
* * * *
539101 TGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTG
1 TGGACTTTGAAGA-AAAAAGATGCCACTGAGTCG
* * * *
539135 TGGGCTTTGAAAAGAAAAAGGTGCCACCGAGTCG
1 TGGACTTTGAAGA-AAAAAGATGCCACTGAGTCG
539169 TGGACTTTGAAGAAAAAAGATGCCACTGAGTCG
1 TGGACTTTGAAGAAAAAAGATGCCACTGAGTCG
* * *
539202 TGGACTTTG--G-GACAAGATGCCACTGAGTCA
1 TGGACTTTGAAGAAAAAAGATGCCACTGAGTCG
* * * * *
539232 TGGGCTTTG-AGAAGATA-TTGCCACTAAGTCG
1 TGGACTTTGAAGAAAAAAGATGCCACTGAGTCG
539263 TGGACTTTGAAGAAAAAAGAT
1 TGGACTTTGAAGAAAAAAGAT
539284 TTGAAGAATT
Statistics
Matches: 123, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
30 25 0.20
31 21 0.17
32 7 0.06
33 28 0.23
34 42 0.34
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (33 bp):
TGGACTTTGAAGAAAAAAGATGCCACTGAGTCG
Found at i:539271 original size:31 final size:29
Alignment explanation
Indices: 539147--539279 Score: 113
Period size: 30 Copynumber: 4.2 Consensus size: 29
539137 GGCTTTGAAA
*
539147 AGAAAAAGGTGCCACCGAGTCGTGGACTTTG
1 AGAAAAA--TGCCACTGAGTCGTGGACTTTG
539178 AAGAAAAAAGATGCCACTGAGTCGTGGACTTTG
1 -AG--AAAA-ATGCCACTGAGTCGTGGACTTTG
* * * *
539211 GGACAAGATGCCACTGAGTCATGGGCTTTG
1 AGA-AAAATGCCACTGAGTCGTGGACTTTG
* *
539241 AGAAGATATTGCCACTAAGTCGTGGACTTTG
1 AGAA-A-AATGCCACTGAGTCGTGGACTTTG
539272 AAGAAAAA
1 -AGAAAAA
539280 AGATTTGAAG
Statistics
Matches: 82, Mismatches: 12, Indels: 16
0.75 0.11 0.15
Matches are distributed among these distances:
29 1 0.01
30 26 0.32
31 22 0.27
32 7 0.09
33 21 0.26
34 4 0.05
35 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.22
Consensus pattern (29 bp):
AGAAAAATGCCACTGAGTCGTGGACTTTG
Found at i:539974 original size:31 final size:28
Alignment explanation
Indices: 539931--539987 Score: 78
Period size: 31 Copynumber: 1.9 Consensus size: 28
539921 AAAGGCTTGC
*
539931 TTGACAATAAAGATGATATGGTTTGATTTAT
1 TTGACAAGAAAGAT-A-ATGGTTT-ATTTAT
539962 TTGACAAGAAAGATAATGGTTTATTT
1 TTGACAAGAAAGATAATGGTTTATTT
539988 CCAACAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 4 0.16
29 7 0.28
30 1 0.04
31 13 0.52
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (28 bp):
TTGACAAGAAAGATAATGGTTTATTTAT
Found at i:540259 original size:15 final size:16
Alignment explanation
Indices: 540239--540279 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
540229 TTCACCGAGA
540239 TTTTTTGTTTT-GTTT
1 TTTTTTGTTTTCGTTT
* *
540254 TTTTTTCTTTTCTTTT
1 TTTTTTGTTTTCGTTT
540270 TTTTTTGTTT
1 TTTTTTGTTT
540280 GGTGTTGGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (16 bp):
TTTTTTGTTTTCGTTT
Found at i:540545 original size:13 final size:11
Alignment explanation
Indices: 540527--540608 Score: 74
Period size: 13 Copynumber: 6.7 Consensus size: 11
540517 CTTTGCACTA
* *
540527 TTTTTTATGTG
1 TTTTTTTTGTT
540538 TTTTTTTTGTT
1 TTTTTTTTGTT
540549 TTGTTTTTTGTTT
1 TT-TTTTTTG-TT
540562 TGTTTTTTTGTTT
1 T-TTTTTTTG-TT
540575 TGTTTTTTTGTTT
1 T-TTTTTTTG-TT
540588 GTTTTTTTTGTT
1 -TTTTTTTTGTT
540600 TTTGTTTTT
1 TTT-TTTTT
540609 TGTGTGTTTT
Statistics
Matches: 64, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
11 14 0.22
12 14 0.22
13 34 0.53
14 2 0.03
ACGTcount: A:0.01, C:0.00, G:0.15, T:0.84
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:540555 original size:25 final size:25
Alignment explanation
Indices: 540527--540619 Score: 125
Period size: 26 Copynumber: 3.6 Consensus size: 25
540517 CTTTGCACTA
*
540527 TTTTTTATGTGTTTTTTTTGTTTTG
1 TTTTTTGTGTGTTTTTTTTGTTTTG
*
540552 TTTTTTGT-TTTGTTTTTTTGTTTTG
1 TTTTTTGTGTGT-TTTTTTTGTTTTG
*
540577 TTTTTTTGTTTGTTTTTTTTGTTTTTG
1 -TTTTTTGTGTGTTTTTTTTG-TTTTG
540604 TTTTTTGTGTGTTTTT
1 TTTTTTGTGTGTTTTT
540620 ACTTTTGACT
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
24 2 0.03
25 20 0.33
26 31 0.52
27 7 0.12
ACGTcount: A:0.01, C:0.00, G:0.16, T:0.83
Consensus pattern (25 bp):
TTTTTTGTGTGTTTTTTTTGTTTTG
Found at i:540609 original size:13 final size:13
Alignment explanation
Indices: 540540--540611 Score: 89
Period size: 13 Copynumber: 5.6 Consensus size: 13
540530 TTTATGTGTT
540540 TTTTTTG-TTTTG
1 TTTTTTGTTTTTG
540552 TTTTTTG-TTTTG
1 TTTTTTGTTTTTG
540564 TTTTTT-TGTTTTG
1 TTTTTTGT-TTTTG
540577 TTTTTTTGTTTGTT-
1 -TTTTTTGTTT-TTG
540591 TTTTTTGTTTTTG
1 TTTTTTGTTTTTG
540604 TTTTTTGT
1 TTTTTTGT
540612 GTGTTTTTAC
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
12 20 0.37
13 23 0.43
14 8 0.15
15 3 0.06
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (13 bp):
TTTTTTGTTTTTG
Found at i:540619 original size:1 final size:1
Alignment explanation
Indices: 540538--540609 Score: 54
Period size: 1 Copynumber: 72.0 Consensus size: 1
540528 TTTTTATGTG
* * * * * * * * *
540538 TTTTTTTTGTTTTGTTTTTTGTTTTGTTTTTTTGTTTTGTTTTTTTGTTTGTTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
540603 GTTTTTT
1 TTTTTTT
540610 GTGTGTTTTT
Statistics
Matches: 51, Mismatches: 20, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (1 bp):
T
Found at i:540633 original size:39 final size:40
Alignment explanation
Indices: 540527--540633 Score: 77
Period size: 38 Copynumber: 2.8 Consensus size: 40
540517 CTTTGCACTA
*
540527 TTTTTTATGTGT-TTTTTTTGTTT--TGTTTTTTG--TTTTG
1 TTTTTT-TGTGTGTTTTTCTGTTTGCT-TTTTTTGTTTTTTG
* * *
540564 TTTTTTTGTTTTGTTTTTTTGTTTGTTTTTTTTG-TTTTTG
1 TTTTTTTG-TGTGTTTTTCTGTTTGCTTTTTTTGTTTTTTG
540604 -TTTTTTGTGTGTTTTTACT-TTTGACTTTTT
1 TTTTTTTGTGTGTTTTT-CTGTTTG-CTTTTT
540634 CATCATTTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
36 2 0.03
37 8 0.14
38 23 0.39
39 20 0.34
40 6 0.10
ACGTcount: A:0.03, C:0.02, G:0.15, T:0.80
Consensus pattern (40 bp):
TTTTTTTGTGTGTTTTTCTGTTTGCTTTTTTTGTTTTTTG
Found at i:547643 original size:20 final size:20
Alignment explanation
Indices: 547601--547655 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
547591 AAATTCCCAG
**
547601 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
547621 ATGTATCGATACATTGAAT-A
1 ATGTATCGATACATTG-ATCA
*
547641 ATGTACCGATACATT
1 ATGTATCGATACATT
547656 TCCTTGGCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:547747 original size:34 final size:32
Alignment explanation
Indices: 547669--547749 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
547659 TTGGCAATAG
*
547669 TTTTGTAGCGATACATTATATCGATACAACAC
1 TTTTGTATCGATACATTATATCGATACAACAC
* * *
547701 TTATGTATCGATACATTGTATCGATATAGTA-AC
1 TTTTGTATCGATACATTATATCGATACA--ACAC
547734 TGTTTGTATCGATACA
1 T-TTTGTATCGATACA
547750 CATTGTTGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
32 24 0.59
33 3 0.07
34 14 0.34
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (32 bp):
TTTTGTATCGATACATTATATCGATACAACAC
Found at i:552424 original size:21 final size:21
Alignment explanation
Indices: 552400--552493 Score: 84
Period size: 21 Copynumber: 4.4 Consensus size: 21
552390 CTCCTCCGTA
* *
552400 AAAAAAAAGAGACAAAAAAAC
1 AAAAAAAACAAACAAAAAAAC
552421 AAAACAAAACAAACAAAAAAA-
1 AAAA-AAAACAAACAAAAAAAC
*
552442 ATAACAAAACAAACAAAAAAAAC
1 A-AAAAAAACAAAC-AAAAAAAC
* *
552465 TAAAAAAA-AAACAACAATAAC
1 AAAAAAAACAAACAA-AAAAAC
*
552486 AACAAAAA
1 AAAAAAAA
552494 GGTTCCGGAT
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
20 2 0.03
21 29 0.48
22 29 0.48
ACGTcount: A:0.81, C:0.14, G:0.02, T:0.03
Consensus pattern (21 bp):
AAAAAAAACAAACAAAAAAAC
Found at i:552434 original size:9 final size:9
Alignment explanation
Indices: 552411--552492 Score: 63
Period size: 9 Copynumber: 9.7 Consensus size: 9
552401 AAAAAAAGAG
552411 ACAAAA-AA
1 ACAAAACAA
552419 ACAAAACAA
1 ACAAAACAA
552428 A-ACAAACAA
1 ACA-AAACAA
552437 A-AAAA-ATA
1 ACAAAACA-A
552445 ACAAAACAA
1 ACAAAACAA
*
552454 ACAAAAAAA
1 ACAAAACAA
*
552463 ACTAAA-AA
1 ACAAAACAA
552471 A-AAAAC-A
1 ACAAAACAA
552478 ACAATAAC-A
1 ACAA-AACAA
552487 ACAAAA
1 ACAAAA
552493 AGGTTCCGGA
Statistics
Matches: 63, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
7 6 0.10
8 19 0.30
9 37 0.59
10 1 0.02
ACGTcount: A:0.80, C:0.16, G:0.00, T:0.04
Consensus pattern (9 bp):
ACAAAACAA
Found at i:552458 original size:30 final size:31
Alignment explanation
Indices: 552416--552493 Score: 97
Period size: 30 Copynumber: 2.5 Consensus size: 31
552406 AAGAGACAAA
*
552416 AAAACAAAACAAAACAAAC-AAAAAAAATAAC
1 AAAACAAAACAAAAAAAACTAAAAAAAA-AAC
552447 AAAAC-AAACAAAAAAAACTAAAAAAAAAAC
1 AAAACAAAACAAAAAAAACTAAAAAAAAAAC
*
552477 AACAATAACAACAAAAA
1 AA-AACAA-AACAAAAA
552494 GGTTCCGGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
30 17 0.41
31 15 0.37
32 1 0.02
33 8 0.20
ACGTcount: A:0.81, C:0.15, G:0.00, T:0.04
Consensus pattern (31 bp):
AAAACAAAACAAAAAAAACTAAAAAAAAAAC
Found at i:553970 original size:28 final size:28
Alignment explanation
Indices: 553930--554097 Score: 248
Period size: 28 Copynumber: 6.0 Consensus size: 28
553920 CATTCCTTAC
553930 CCTTCAAAAGCCCACAAGTCAGTGGCAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
* *
553958 CCTTCAAAAGCCCACAGGTCAGTGGCAT
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
*
553986 CTTTTTC-AAAGCCCACAAGTCAGTGGCAA
1 C--CTTCAAAAGCCCACAAGTCAGTGGCAA
554015 CCTTCAAAAGCCCACAAGTCAGTGGCAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
* *
554043 CCTTCAAAAGCCCACAAGTTAGTAGCAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
* *
554071 CCTTTAAAAGCCCACAAGTCCGTGGCA
1 CCTTCAAAAGCCCACAAGTCAGTGGCA
554098 TCTTTTTCCT
Statistics
Matches: 125, Mismatches: 12, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
27 3 0.02
28 98 0.78
29 21 0.17
30 3 0.02
ACGTcount: A:0.33, C:0.31, G:0.18, T:0.18
Consensus pattern (28 bp):
CCTTCAAAAGCCCACAAGTCAGTGGCAA
Found at i:554021 original size:57 final size:58
Alignment explanation
Indices: 553932--554105 Score: 264
Period size: 57 Copynumber: 3.1 Consensus size: 58
553922 TTCCTTACCC
*
553932 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAGGTCAGTGGCATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCTTT
* *
553990 TTC-AAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCAAC--C
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCTTT
* * * *
554045 TTCAAAAGCCCACAAGTTAGTAGCAACCTTTAAAAGCCCACAAGTCCGTGGCATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCTTT
554103 TTC
1 TTC
554106 CTTTTAAGTC
Statistics
Matches: 104, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
55 3 0.03
56 46 0.44
57 49 0.47
58 6 0.06
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (58 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCATCTTT
Found at i:554042 original size:85 final size:84
Alignment explanation
Indices: 553930--554097 Score: 264
Period size: 85 Copynumber: 2.0 Consensus size: 84
553920 CATTCCTTAC
* * * * *
553930 CCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAGGTCAGTGGCATCTTTTTCAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTAGCAAC-CTTTAAA
553995 AGCCCACAAGTCAGTGGCAA
65 AGCCCACAAGTCAGTGGCAA
*
554015 CCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTTAGTAGCAACCTTTAAAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTAGCAACCTTTAAAA
*
554080 GCCCACAAGTCCGTGGCA
66 GCCCACAAGTCAGTGGCA
554098 TCTTTTTCCT
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
84 23 0.30
85 53 0.70
ACGTcount: A:0.33, C:0.31, G:0.18, T:0.18
Consensus pattern (84 bp):
CCTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTAGCAACCTTTAAAA
GCCCACAAGTCAGTGGCAA
Found at i:554136 original size:34 final size:34
Alignment explanation
Indices: 554082--554207 Score: 152
Period size: 34 Copynumber: 3.8 Consensus size: 34
554072 CTTTAAAAGC
*
554082 CCACAAGTCCGTGGCA-TCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
554115 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
* *
554149 CCACAACTCTGTGGCAC-C--TTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
* * * *
554180 CCACACCTTCATGGCATCCCTTTTTCCT
1 CCACAACTCCGTGGCA-CTCTTTTTCCT
554208 ATAAGCTCAC
Statistics
Matches: 81, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
31 24 0.30
32 1 0.01
33 17 0.21
34 33 0.41
35 6 0.07
ACGTcount: A:0.17, C:0.34, G:0.12, T:0.37
Consensus pattern (34 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
Found at i:554219 original size:65 final size:65
Alignment explanation
Indices: 554102--554231 Score: 156
Period size: 65 Copynumber: 2.0 Consensus size: 65
554092 GTGGCATCTT
* * * * *
554102 TTTCCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACC
1 TTTCCTTTTAAGCCCACAACTCCATGGCACCCTTTTTCCTTATAAGTCCACAACTCGGTGGCACC
* * *
554167 TTTCCTTTTAAGCCCACACCTTCATGGCATCCCTTTTTCC-TATAAG-CTCACAAGTCGGTGGCA
1 TTTCCTTTTAAGCCCACAACTCCATGGCA-CCCTTTTTCCTTATAAGTC-CACAACTCGGTGGCA
554230 CC
64 CC
554232 CCTTTCAAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
64 1 0.02
65 45 0.82
66 9 0.16
ACGTcount: A:0.19, C:0.33, G:0.13, T:0.35
Consensus pattern (65 bp):
TTTCCTTTTAAGCCCACAACTCCATGGCACCCTTTTTCCTTATAAGTCCACAACTCGGTGGCACC
Found at i:554434 original size:39 final size:39
Alignment explanation
Indices: 554380--554540 Score: 133
Period size: 39 Copynumber: 3.9 Consensus size: 39
554370 ATCTTTAAGA
* * *
554380 CCAATGTCACTGGCCTTGAATTAGTACATTGGCACAAGC
1 CCAATATCACTGGCCTTGAATCAGCACATTGGCACAAGC
* *
554419 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
1 CCAATATCACTGGCCTTGAATCAGCACATTGGCA------C---AAGC
* * * *
554467 CTAATGTCACTGGCCTTGAATCAGTACATTGGCATAAGC
1 CCAATATCACTGGCCTTGAATCAGCACATTGGCACAAGC
* * *
554506 CCAATATCGCTGGCTTTGAATCAGCATATTGGCAC
1 CCAATATCACTGGCCTTGAATCAGCACATTGGCAC
554541 CTTTATCTTT
Statistics
Matches: 95, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
39 61 0.64
45 1 0.01
48 33 0.35
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (39 bp):
CCAATATCACTGGCCTTGAATCAGCACATTGGCACAAGC
Found at i:554495 original size:87 final size:88
Alignment explanation
Indices: 554331--554578 Score: 372
Period size: 87 Copynumber: 2.8 Consensus size: 88
554321 TCTTCTAAGT
* * *
554331 CCAATATCACTAGCCTTGAATCAGCATATTGACACCTTTATCTTTAAGACCAATGTCACTGGCCT
1 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACTAATGTCACTGGCCT
*
554396 TGAATTAGTACATTGGCACAAGC
66 TGAATCAGTACATTGGCACAAGC
*
554419 CCAATATCACTGGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGACTAATGTCACTGGCCT
1 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACTAATGTCACTGGCCT
*
554483 TGAATCAGTACATTGGCATAAGC
66 TGAATCAGTACATTGGCACAAGC
* * * * * **
554506 CCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCTGATATCGTTGGCCT
1 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACTAATGTCACTGGCCT
554571 TGAATCAG
66 TGAATCAG
554579 CATATTAGCA
Statistics
Matches: 145, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
87 81 0.56
88 64 0.44
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (88 bp):
CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACTAATGTCACTGGCCT
TGAATCAGTACATTGGCACAAGC
Found at i:554581 original size:49 final size:49
Alignment explanation
Indices: 554501--555253 Score: 647
Period size: 49 Copynumber: 15.9 Consensus size: 49
554491 TACATTGGCA
* * *
554501 TAAGCCCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTT
** * * * *
554550 TAAGTCTGATATCGTTGGCCTTGAATCAGCATATTAGCACCTTTATTTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTT
* * * * * **
554599 TATGACCAATGTCGCTGGCCTTGAATCAGCACA-TGAACGCCTTTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG-GCATCTTTATCTT
* * *
554648 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTGTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTT
* *
554696 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGG---C---A----
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTT
* * * *
554735 TAAG-CCTAATATTGTTGGCCTTGAATCAGCATATTGGCA-CCTTGTCTT
1 TAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTT
* * * * *
554783 TAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCATCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTT
* * * *
554832 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTT
* **
554881 TAAATCCAATATCGCCAGCCTTGAATCAGCATATTGGCA-C-----CTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTT
* * *
554924 TAAGTCCAATGTCG-TCAGCCTTGAATCAGCACATTGGCATCTTTATCTT
1 TAAGTCCAATATCGCT-GGCCTTGAATCAGCATATTGGCATCTTTATCTT
* *
554973 TAAATCCAATATCGCTGGCCTTGAATTAGCATATTGGCA-C-----CTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTT
* * * *
555016 TAAGTCCAATGTCG-TCAGCCTTGAATCAGCACATTGGCATCTTCATCTT
1 TAAGTCCAATATCGCT-GGCCTTGAATCAGCATATTGGCATCTTTATCTT
*
555065 TAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGG---C---ATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTT
* * * * *
555108 TAAGTCCAATGTCGCCGGCCTTGAATCAGCACATTGGTATCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTT
* * * *
555157 TAAGTCTAATATCGTTGGCCTTGAATTAGCATATTGGCATCTTTAACATT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATC-TT
* * ** *
555207 CCTAAGCCCAATGTCGCTGGCCTTGTCTCAGCACATTGGCATTCTTT
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-TCTTT
555254 TTCAAGTCTA
Statistics
Matches: 577, Mismatches: 87, Indels: 76
0.78 0.12 0.10
Matches are distributed among these distances:
38 2 0.00
39 31 0.05
41 1 0.00
42 1 0.00
43 110 0.19
44 2 0.00
46 3 0.01
48 76 0.13
49 309 0.54
50 6 0.01
52 31 0.05
53 5 0.01
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (49 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTT
Found at i:554675 original size:98 final size:97
Alignment explanation
Indices: 554501--555291 Score: 563
Period size: 92 Copynumber: 8.4 Consensus size: 97
554491 TACATTGGCA
* * * * * ** *
554501 TAAGCCCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCTGATATCGTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGCCCAATATCGCT
* *
554566 GGCCTTGAATCAGCATATTAGCACCTTTATTTT
66 GGCCTTGAATCAGCATATTGGCACC-TTATCTT
* * *
554599 TATGACCAATGTCGCTGGCCTTGAATCAGCACA-TGAACGCCTTTATCTTTAAGCCCAATATCGC
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG-GCACCTTTATCTTTAAGCCCAATATCGC
*
554663 TGGCCTTGAATCAGCATATTGGCACCTTGTCTT
65 TGGCCTTGAATCAGCATATTGGCACCTTATCTT
* * * *
554696 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGG---C---A----TAAGCCTAATATTGTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGCCCAATATCGCT
*
554751 GGCCTTGAATCAGCATATTGGCACCTTGTCTT
66 GGCCTTGAATCAGCATATTGGCACCTTATCTT
* * * * *
554783 TAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCATCTTCATCTTTAAGACCAATGTCGCT
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGCCCAATATCGCT
* *
554848 GGCCTTGAATCAGCACATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCACCTT-ATCTT
* ** * * *
554881 TAA-ATCCAATATCGCCAGCCTTGAATCAGCATATTGGCA-C-----CTTTAAGTCCAATGTCG-
1 TAAGA-CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGCCCAATATCGC
* * *
554938 TCAGCCTTGAATCAGCACATTGGCATCTTTATCTT
65 T-GGCCTTGAATCAGCATATTGGCA-CCTTATCTT
* * * * *
554973 TAA-ATCCAATATCGCTGGCCTTGAATTAGCATATTGGCA-C-----CTTTAAGTCCAATGTCG-
1 TAAGA-CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGCCCAATATCGC
* * *
555030 TCAGCCTTGAATCAGCACATTGGCATCTTCATCTT
65 T-GGCCTTGAATCAGCATATTGGCACCTT-ATCTT
* * * * * * *
555065 TAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGG---C---ATCTTTAAGTCCAATGTCGCC
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGCCCAATATCGCT
* * *
555124 GGCCTTGAATCAGCACATTGGTATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCACCTT-ATCTT
* * * * * * * * *
555157 TAAGTCTAATATCGTTGGCCTTGAATTAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTC
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATC-TT--TAAGCCCAATATC
** * *
555222 GCTGGCCTTGTCTCAGCACATTGGCATTCTT-T-TT
63 GCTGGCCTTGAATCAGCATATTGGCA-CCTTATCTT
* * * * * *
555256 CAAGTCTAATGGCGCTAGCCATGAATCAGCACATTG
1 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG
555292 TAATTCTTTG
Statistics
Matches: 598, Mismatches: 64, Indels: 61
0.83 0.09 0.08
Matches are distributed among these distances:
87 80 0.13
90 2 0.00
91 4 0.01
92 245 0.41
93 3 0.01
94 1 0.00
95 1 0.00
97 76 0.13
98 115 0.19
99 32 0.05
100 1 0.00
101 34 0.06
102 4 0.01
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (97 bp):
TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGCCCAATATCGCT
GGCCTTGAATCAGCATATTGGCACCTTATCTT
Found at i:554761 original size:234 final size:233
Alignment explanation
Indices: 554321--555196 Score: 768
Period size: 233 Copynumber: 3.8 Consensus size: 233
554311 GGTGGCGTCT
* * * * * *
554321 TCTTCTAAGTCCAATATCACTAGCCTTGAATCAGCATATT-GACACCTTTATCTTTAAGACCAAT
1 TCTT-TAAGACCAATATCGCTGGCCTTAAATCAGCACATTAG-CACCTTCATCTTTAAGACCAAT
* * * * *
554385 GTCACTGGCCTTGAATTAGTACATTG------GCA-C---AAGCCCAATATCACTGGCCTTGAAT
64 GTCGCTGGCCTTGAATCAGCACATTGACACCTTCATCTTTAAGCCCAATATCGCTGGCCTTGAAT
* * *
554440 CAGCATATTGGCACCTTGTCTTTAAGACTAATGTCACTGGCCTTGAATCAGTACATTGGCATAAG
129 CAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAG
*
554505 CCCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTTA
194 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTA
* ** * * * * * *
554546 TCTTTAAGTCTGATATCGTTGGCCTTGAATCAGCATATTAGCACCTTTATTTTTATGACCAATGT
1 TCTTTAAGACCAATATCGCTGGCCTTAAATCAGCACATTAGCACCTTCATCTTTAAGACCAATGT
* *
554611 CGCTGGCCTTGAATCAGCACA-TGAACGCCTTTATCTTTAAGCCCAATATCGCTGGCCTTGAATC
66 CGCTGGCCTTGAATCAGCACATTG-ACACCTTCATCTTTAAGCCCAATATCGCTGGCCTTGAATC
*
554675 AGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCATAAGC
130 AGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGC
* * * *
554740 CTAATATTGTTGGCCTTGAATCAGCATATTGGCACCTTG
195 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTA
* * *
554779 TCTTTAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCATCTTCATCTTTAAGACCAATGT
1 TCTTTAAGACCAATATCGCTGGCCTTAAATCAGCACATTAGCACCTTCATCTTTAAGACCAATGT
* * ** **
554844 CGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAATCCAATATCGCCAGCCTTGAATCA
66 CGCTGGCCTTGAATCAGCACATTGACACCTTCATCTTTAAGCCCAATATCGCTGGCCTTGAATCA
* *
554909 GCATATTGGCA-C----CTTTAAGTCCAATGTCG-TCAGCCTTGAATCAGCACATTGGCATCTTT
131 GCATATTGGCACCTTGTCTTTAAGACCAATGTCGCT-GGCCTTGAATCAGCACATTGG---C---
** *
554968 ATCTTTAAATCCAATATCGCTGGCCTTGAATTAGCATATTGGCA-C---
189 A----TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTA
* * * * * * * *
555013 -CTTTAAGTCCAATGTCG-TCAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATA
1 TCTTTAAGACCAATATCGCT-GGCCTTAAATCAGCACATTAGCACCTTCATCTTTAAGACCAATG
* * * * * *
555076 TCGCTGGCCTTGAATTAGCATATTG------GCATCTTTAAGTCCAATGTCGCCGGCCTTGAATC
65 TCGCTGGCCTTGAATCAGCACATTGACACCTTCATCTTTAAGCCCAATATCGCTGGCCTTGAATC
* * * * * * * * * *
555135 AGCACATTGGTATCTTCATCTTTAAGTCTAATATCGTTGGCCTTGAATTAGCATATTGGCAT
130 AGCATATTGGCACCTT-GTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAT
555197 CTTTAACATT
Statistics
Matches: 550, Mismatches: 69, Indels: 66
0.80 0.10 0.10
Matches are distributed among these distances:
223 3 0.01
224 70 0.13
225 5 0.01
227 42 0.08
228 36 0.07
230 2 0.00
231 2 0.00
232 2 0.00
233 232 0.42
234 122 0.22
237 1 0.00
238 33 0.06
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (233 bp):
TCTTTAAGACCAATATCGCTGGCCTTAAATCAGCACATTAGCACCTTCATCTTTAAGACCAATGT
CGCTGGCCTTGAATCAGCACATTGACACCTTCATCTTTAAGCCCAATATCGCTGGCCTTGAATCA
GCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCC
CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTA
Found at i:554943 original size:43 final size:42
Alignment explanation
Indices: 554829--555144 Score: 254
Period size: 43 Copynumber: 6.9 Consensus size: 42
554819 GCATCTTCAT
* * *
554829 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTC
1 CTTTAAGTCCAATATCGC-AGCCTTGAATCAGCACATTGGCA----C
* *
554876 ATCTTTAAATCCAATATCGCCAGCCTTGAATCAGCATATTGGCAC
1 --CTTTAAGTCCAATATCG-CAGCCTTGAATCAGCACATTGGCAC
*
554921 CTTTAAGTCCAATGTCGTCAGCCTTGAATCAGCACATTGGCATC
1 CTTTAAGTCCAATATCG-CAGCCTTGAATCAGCACATTGGCA-C
* * * *
554965 TTTATCTTTAAATCCAATATCGCTGGCCTTGAATTAGCATATTGGCAC
1 -----CTTTAAGTCCAATATCGC-AGCCTTGAATCAGCACATTGGCAC
*
555013 CTTTAAGTCCAATGTCGTCAGCCTTGAATCAGCACATTGGCATCTTC
1 CTTTAAGTCCAATATCG-CAGCCTTGAATCAGCACATTGGCA----C
* * * *
555060 ATCTTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCAT
1 --CTTTAAGTCCAATATCGC-AGCCTTGAATCAGCACATTGGCAC
* *
555105 CTTTAAGTCCAATGTCGCCGGCCTTGAATCAGCACATTGG
1 CTTTAAGTCCAATATCG-CAGCCTTGAATCAGCACATTGG
555145 TATCTTCATC
Statistics
Matches: 223, Mismatches: 27, Indels: 40
0.77 0.09 0.14
Matches are distributed among these distances:
43 108 0.48
44 3 0.01
45 1 0.00
47 1 0.00
48 3 0.01
49 106 0.48
50 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (42 bp):
CTTTAAGTCCAATATCGCAGCCTTGAATCAGCACATTGGCAC
Found at i:554947 original size:92 final size:92
Alignment explanation
Indices: 554829--555202 Score: 597
Period size: 92 Copynumber: 4.1 Consensus size: 92
554819 GCATCTTCAT
* *
554829 CTTTAAGACCAATGTCG-CTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAATCCAATAT
1 CTTTAAGTCCAATGTCGTC-AGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAATCCAATAT
** *
554893 CGCCAGCCTTGAATCAGCATATTGGCAC
65 CGCTGGCCTTGAATTAGCATATTGGCAC
*
554921 CTTTAAGTCCAATGTCGTCAGCCTTGAATCAGCACATTGGCATCTTTATCTTTAAATCCAATATC
1 CTTTAAGTCCAATGTCGTCAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAATCCAATATC
554986 GCTGGCCTTGAATTAGCATATTGGCAC
66 GCTGGCCTTGAATTAGCATATTGGCAC
*
555013 CTTTAAGTCCAATGTCGTCAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATC
1 CTTTAAGTCCAATGTCGTCAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAATCCAATATC
*
555078 GCTGGCCTTGAATTAGCATATTGGCAT
66 GCTGGCCTTGAATTAGCATATTGGCAC
* * * * *
555105 CTTTAAGTCCAATGTCGCCGGCCTTGAATCAGCACATTGGTATCTTCATCTTTAAGTCTAATATC
1 CTTTAAGTCCAATGTCGTCAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAATCCAATATC
* *
555170 GTTGGCCTTGAATTAGCATATTGGCAT
66 GCTGGCCTTGAATTAGCATATTGGCAC
555197 CTTTAA
1 CTTTAA
555203 CATTCCTAAG
Statistics
Matches: 267, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
92 266 1.00
93 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (92 bp):
CTTTAAGTCCAATGTCGTCAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAATCCAATATC
GCTGGCCTTGAATTAGCATATTGGCAC
Found at i:555111 original size:184 final size:183
Alignment explanation
Indices: 554501--555202 Score: 677
Period size: 184 Copynumber: 3.7 Consensus size: 183
554491 TACATTGGCA
* * ** * *
554501 TAAGCCCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCTGATATCGTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG---C---A-CTTTAAGTCCAATGTCGTC
* * * * * * *
554566 GGCCTTGAATCAGCATATTAGCACCTTTATTTTTATGA-CCAATGTCGCTGGCCTTGAATCAGCA
59 GGCCTTGAATCAGCACATTGGCATCTTTATCTTTA-AATCCAATATCGCTGGCCTTGAATTAGCA
* * * * * * * *
554630 CA-TGAACGCCTTTATCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GT
123 TATTG---G-C---ACCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCATCTTCAT
554693 CTT
181 CTT
* * * * *
554696 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCA---TAAG-CCTAATATTGTTGGCCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTAAGTCC-AATGTCGTCGGCCTT
* * * * * * *
554757 GAATCAGCATATTGGCA-CCTTGTCTTTAAGA-CCAATGTCGCTGGCCTTAAATCAGCACATTGG
65 GAATCAGCACATTGGCATCTTTATCTTTAA-ATCCAATATCGCTGGCCTTGAATTAGCATATTGG
*
554820 CATCTTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
129 CA----C--CTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCATCTTCATCTT
* ** *
554881 TAAATCCAATATCGCCAGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCGTCAGCCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTAAGTCCAATGTCGTCGGCCTT
554946 GAATCAGCACATTGGCATCTTTATCTTTAAATCCAATATCGCTGGCCTTGAATTAGCATATTGGC
65 GAATCAGCACATTGGCATCTTTATCTTTAAATCCAATATCGCTGGCCTTGAATTAGCATATTGGC
*
555011 ACCTTTAAGTCCAATGTCG-TCAGCCTTGAATCAGCACATTGGCATCTTCATCTT
130 ACCTTTAAGACCAATGTCGCT-AGCCTTGAATCAGCACATTGGCATCTTCATCTT
* *
555065 TAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCATCTTTAAGTCCAATGTCGCCGGCCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTAAGTCCAATGTCGTCGGCCTT
* * * * *
555130 GAATCAGCACATTGGTATCTTCATCTTTAAGTCTAATATCGTTGGCCTTGAATTAGCATATTGGC
65 GAATCAGCACATTGGCATCTTTATCTTTAAATCCAATATCGCTGGCCTTGAATTAGCATATTGGC
*
555195 ATCTTTAA
130 ACCTTTAA
555203 CATTCCTAAG
Statistics
Matches: 440, Mismatches: 49, Indels: 47
0.82 0.09 0.09
Matches are distributed among these distances:
178 1 0.00
181 1 0.00
182 1 0.00
183 1 0.00
184 252 0.57
185 73 0.17
186 1 0.00
189 33 0.08
190 42 0.10
192 1 0.00
195 34 0.08
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (183 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTAAGTCCAATGTCGTCGGCCTTG
AATCAGCACATTGGCATCTTTATCTTTAAATCCAATATCGCTGGCCTTGAATTAGCATATTGGCA
CCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCATCTTCATCTT
Found at i:561853 original size:52 final size:52
Alignment explanation
Indices: 561775--561923 Score: 194
Period size: 52 Copynumber: 2.9 Consensus size: 52
561765 CGAAATATGA
* * *
561775 AAATTTGCCTGCATGTAGCGATACATTTCATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTGCATAGTGTATCGATACATCTGGGC
*
561827 AAATTTGCCT-CTATGTATCGATACATTGCATTGTGTATCGATACATCTGGGC
1 AAATTTGCCTGC-ATGTATCGATACATTGCATAGTGTATCGATACATCTGGGC
* * **
561879 AAATTTACCTGCACGTATCGATACAAAG-ATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGCAT-AGTGTATCGATACA
561924 ATGTATCAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
51 3 0.04
52 81 0.95
53 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGCATAGTGTATCGATACATCTGGGC
Found at i:562013 original size:19 final size:19
Alignment explanation
Indices: 561989--562038 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
561979 AGCGATACAT
561989 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
562008 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
562027 TGTATCGATACA
1 TGTATCGATACA
562039 TTGTATCGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:562045 original size:13 final size:13
Alignment explanation
Indices: 562027--562051 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
562017 ACAACACTTA
562027 TGTATCGATACAT
1 TGTATCGATACAT
562040 TGTATCGATACA
1 TGTATCGATACA
562052 AATCGTTGAA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:566235 original size:23 final size:22
Alignment explanation
Indices: 566183--566246 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
566173 ATTAAATCCA
566183 AATAAATTTTAAAATAAAAAGC
1 AATAAATTTTAAAATAAAAAGC
* *
566205 AATAAAATTTTGAATAATGAAAATC
1 AAT-AAATTTT-AA-AATAAAAAGC
*
566230 -ATAAATTATTCAAATAA
1 AATAAATT-TTAAAATAA
566247 GATATCAGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
22 7 0.21
23 13 0.38
24 6 0.18
25 8 0.24
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (22 bp):
AATAAATTTTAAAATAAAAAGC
Found at i:570103 original size:14 final size:14
Alignment explanation
Indices: 570084--570114 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
570074 GAAAGAAAAG
*
570084 AATAAAATTAATTA
1 AATAAAATTAATGA
570098 AATAAAATTAATGA
1 AATAAAATTAATGA
570112 AAT
1 AAT
570115 TTATAAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (14 bp):
AATAAAATTAATGA
Found at i:573166 original size:14 final size:14
Alignment explanation
Indices: 573142--573179 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
573132 TTTCGTGTGG
573142 ATATA-TATATATAT
1 ATATATTATATAT-T
573156 ATATCATTATATATT
1 ATAT-ATTATATATT
573171 ATATATTAT
1 ATATATTAT
573180 TTAAATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.41
15 6 0.27
16 7 0.32
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATATTATATATT
Found at i:573964 original size:34 final size:33
Alignment explanation
Indices: 573916--574136 Score: 248
Period size: 34 Copynumber: 6.5 Consensus size: 33
573906 TGGTAAAAAC
*
573916 CACCATTTAATCAACAATGGCAACCTACCAAAT
1 CACCATTTAATCAACAATGGTAACCTACCAAAT
*
573949 CTACCATTTAGTCAACAATGGTAAGCC-ACCAAAT
1 C-ACCATTTAATCAACAATGGTAA-CCTACCAAAT
* *
573983 CACCCATTTAATCAATAATGGTAAGCTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
** *
574017 TTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CAC-CATTTAATCAACAATGGTAACCTACCAAAT
* * * *
574051 CTCCCATTTAGTCAATAATGGAAAACC-ACCAAAT
1 C-ACCATTTAATCAACAATGG-TAACCTACCAAAT
*
574085 CACCCATTTAATCAACAATGGTAAACTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
*
574119 CACTATTTAATCAACAAT
1 CACCATTTAATCAACAAT
574137 TCTCCCACTT
Statistics
Matches: 159, Mismatches: 20, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
33 22 0.14
34 131 0.82
35 6 0.04
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.26
Consensus pattern (33 bp):
CACCATTTAATCAACAATGGTAACCTACCAAAT
Found at i:574095 original size:102 final size:102
Alignment explanation
Indices: 573919--574136 Score: 339
Period size: 102 Copynumber: 2.1 Consensus size: 102
573909 TAAAAACCAC
* *
573919 CATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAAATC
1 CATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGAAAACCACCAAATC
* * **
573984 ACCCATTTAATCAATAATGGTAAGCTACCAAATTTCT
66 ACCCATTTAATCAACAATGGTAAACTACCAAATCACT
* * * *
574021 CATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAGTCAATAATGGAAAACCACCAAATC
1 CATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGAAAACCACCAAATC
574086 ACCCATTTAATCAACAATGGTAAACTACCAAATCACT
66 ACCCATTTAATCAACAATGGTAAACTACCAAATCACT
574123 -ATTTAATCAACAAT
1 CATTTAATCAACAAT
574137 TCTCCCACTT
Statistics
Matches: 106, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
101 14 0.13
102 92 0.87
ACGTcount: A:0.41, C:0.25, G:0.08, T:0.26
Consensus pattern (102 bp):
CATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGAAAACCACCAAATC
ACCCATTTAATCAACAATGGTAAACTACCAAATCACT
Found at i:578592 original size:34 final size:33
Alignment explanation
Indices: 578544--578763 Score: 264
Period size: 34 Copynumber: 6.5 Consensus size: 33
578534 TGGTAAAAAC
*
578544 CACCATTTAATCAACAATGGCAACCTACCAAAT
1 CACCATTTAATCAACAATGGTAACCTACCAAAT
*
578577 CTACCATTTAGTCAACAATGGTAAGCC-ACCAAAT
1 C-ACCATTTAATCAACAATGGTAA-CCTACCAAAT
* *
578611 CACCCATTTAATCAATAATGGTAAACTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
** *
578645 TTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CAC-CATTTAATCAACAATGGTAACCTACCAAAT
* * *
578679 CTCCCATTTAGTCAACAATGGCAAACC-ACCAAAT
1 C-ACCATTTAATCAACAATGG-TAACCTACCAAAT
*
578713 CACCCATTTAATCAACAATGGTAAACTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
578747 CACCATTTAATCAACAA
1 CACCATTTAATCAACAA
578764 ATATTGTGAT
Statistics
Matches: 160, Mismatches: 18, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
33 22 0.14
34 132 0.82
35 6 0.04
ACGTcount: A:0.41, C:0.27, G:0.07, T:0.25
Consensus pattern (33 bp):
CACCATTTAATCAACAATGGTAACCTACCAAAT
Found at i:578660 original size:68 final size:67
Alignment explanation
Indices: 578546--578763 Score: 303
Period size: 68 Copynumber: 3.2 Consensus size: 67
578536 GTAAAAACCA
* * *
578546 CCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAAT-TACCATTTAATCAACAATGGTAAGCTACCAAAT
578611 CAC
65 CAC
* * *
578614 CCATTTAATCAATAATGGTAAACTACCAAATTTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTAC-CATTTAATCAACAATGGTAAGCTACCAAAT
*
578679 CTC
65 CAC
* * * *
578682 CCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTA-CCATTTAATCAACAATGGTAAGCTACCAAAT
578747 CA-
65 CAC
578749 CCATTTAATCAACAA
1 CCATTTAATCAACAA
578764 ATATTGTGAT
Statistics
Matches: 132, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
67 16 0.12
68 115 0.87
69 1 0.01
ACGTcount: A:0.41, C:0.27, G:0.07, T:0.25
Consensus pattern (67 bp):
CCATTTAATCAACAATGGCAAACTACCAAATTACCATTTAATCAACAATGGTAAGCTACCAAATC
AC
Found at i:578688 original size:102 final size:101
Alignment explanation
Indices: 578544--578763 Score: 359
Period size: 102 Copynumber: 2.2 Consensus size: 101
578534 TGGTAAAAAC
* *
578544 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
*
578609 ATCACCCATTTAATCAATAATGGTAAACTACCAAAT
66 ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
** * * *
578645 TTCTCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCA
1 CAC-CATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCA
578710 AATCACCCATTTAATCAACAATGGTAAACTACCAAAT
65 AATCACCCATTTAATCAACAATGGTAAACTACCAAAT
578747 CACCATTTAATCAACAA
1 CACCATTTAATCAACAA
578764 ATATTGTGAT
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
101 15 0.14
102 93 0.86
ACGTcount: A:0.41, C:0.27, G:0.07, T:0.25
Consensus pattern (101 bp):
CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
Found at i:581332 original size:17 final size:17
Alignment explanation
Indices: 581310--581358 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
581300 TGAGTAAAAA
581310 TTTATTTTTAAAATAAT
1 TTTATTTTTAAAATAAT
581327 TTTA--TTTAATAATTAAT
1 TTTATTTTTAA-AA-TAAT
581344 TTTACTTTTTAAAAT
1 TTTA-TTTTTAAAAT
581359 TAAAAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
15 5 0.19
16 2 0.07
17 12 0.44
18 1 0.04
19 2 0.07
20 5 0.19
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTATTTTTAAAATAAT
Found at i:583837 original size:31 final size:31
Alignment explanation
Indices: 583789--583888 Score: 105
Period size: 31 Copynumber: 3.2 Consensus size: 31
583779 TTTATGCTAA
* * * *
583789 TGCTTAAGAGTAGCATAACATTTTATACTCT
1 TGCTTAAGAGCATCATAATAGTTTATACTCT
* *
583820 TGCTTAAGAGCATCATAATAGCTTA-AGCTTT
1 TGCTTAAGAGCATCATAATAGTTTATA-CTCT
*
583851 TGCTTAAAAGCATCATAATAGTTTAGT-CTCT
1 TGCTTAAGAGCATCATAATAGTTTA-TACTCT
583882 TGCTTAA
1 TGCTTAA
583889 AGGCAAGTGT
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
30 1 0.02
31 56 0.98
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (31 bp):
TGCTTAAGAGCATCATAATAGTTTATACTCT
Found at i:589946 original size:19 final size:20
Alignment explanation
Indices: 589902--589953 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
589892 TTACAAGCCA
589902 ATGTATCGATACATTTGGTC
1 ATGTATCGATACATTTGGTC
589922 ATGTATCGATACATCTT-GT-
1 ATGTATCGATACAT-TTGGTC
589941 ATGTATCGATACA
1 ATGTATCGATACA
589954 AACAGTTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.42
20 16 0.52
21 2 0.06
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTGGTC
Found at i:594627 original size:51 final size:51
Alignment explanation
Indices: 594570--594701 Score: 158
Period size: 51 Copynumber: 2.6 Consensus size: 51
594560 TTTCATCTCG
* ** **
594570 GGGATACTCCAA-TCCCGATTCTATTTCCAAAACATCAATTTTTCTTAATCA
1 GGGATACTCCAACT-CCGATTTTATTTCCAAAACATCAATTTACCGCAATCA
* * * *
594621 GGGATACTCCAACTCCGATTTTATTTCTAAAGCATCGATTTACCGCAATCG
1 GGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTACCGCAATCA
*
594672 GGGATACTTCAACTCCGATTTTATTTCCAA
1 GGGATACTCCAACTCCGATTTTATTTCCAA
594702 CTCCGTTATT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
51 68 0.99
52 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (51 bp):
GGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTACCGCAATCA
Found at i:594833 original size:28 final size:28
Alignment explanation
Indices: 594793--594868 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
594783 ATTTTTCATA
*
594793 ATCGGGGGTACTCCAACCCCGTTATGTC
1 ATCGGGGATACTCCAACCCCGTTATGTC
* *
594821 ATCGGGGATACTCCAATCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATGTC
***
594849 CGAGGGGATACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
594869 AATTTTATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.21, C:0.33, G:0.22, T:0.24
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATGTC
Found at i:594894 original size:107 final size:107
Alignment explanation
Indices: 594697--594912 Score: 288
Period size: 107 Copynumber: 2.0 Consensus size: 107
594687 CGATTTTATT
* * ** *
594697 TCCAACTCCGTTATTTCATCGGGGATACTTTAACCCCGTTATTTCCAAGTGGATACTCCAACCCC
1 TCCAACCCCGTTATGTCATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCC
* *** * * *
594762 GACTTTATATCTAAAATATTGATTTTTCATAATCGGGGGTAC
66 AACTTTATATCTAAAATACCAATTTTTCACAATCGAGGATAC
* *
594804 TCCAACCCCGTTATGTCATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCCC
1 TCCAACCCCGTTATGTCATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCC
* *
594869 AATTTTATTTCTAAAATACCAATTTTTCACAATCGAGGATAC
66 AACTTTATATCTAAAATACCAATTTTTCACAATCGAGGATAC
594911 TC
1 TC
594913 TAACTCTGAT
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
107 93 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.32
Consensus pattern (107 bp):
TCCAACCCCGTTATGTCATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCC
AACTTTATATCTAAAATACCAATTTTTCACAATCGAGGATAC
Found at i:595045 original size:51 final size:51
Alignment explanation
Indices: 594982--595101 Score: 188
Period size: 51 Copynumber: 2.4 Consensus size: 51
594972 TTATTTTTAT
594982 GGGGATACTCCAACCCCGG-CTGTAGTTCTAAAGCATCGATTTTCCACAATC
1 GGGGATACTCCAACCCCGGTCT-TAGTTCTAAAGCATCGATTTTCCACAATC
* * *
595033 GGGGATACTCCAACCCTGGTCTTATTTCTAAAGCATCGATTTTCCATAATC
1 GGGGATACTCCAACCCCGGTCTTAGTTCTAAAGCATCGATTTTCCACAATC
*
595084 GGGGATACTCCAGCCCCG
1 GGGGATACTCCAACCCCG
595102 TGGTTATCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 61 0.97
52 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTCTTAGTTCTAAAGCATCGATTTTCCACAATC
Found at i:595058 original size:130 final size:130
Alignment explanation
Indices: 594821--595095 Score: 297
Period size: 130 Copynumber: 2.1 Consensus size: 130
594811 CCGTTATGTC
* * * *
594821 ATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCCCAATTTTATTTCTAAAAT
1 ATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCCCAACTGTAGTTCTAAAAC
* * * *
594886 ACCAATTTTTCACAATCGAGGATACTCTAACTCTGATTTTATTTCCGAAA-CACCAA-TTTCTCA
66 ACCAATTTTCCACAATCGAGGATACTCCAACCCTGATCTTATTT-CGAAAGCACCAATTTTC-CA
594949 CA
129 CA
** **
594951 ATCGGGGATACTCCAA-CCCTGTTATTT-TTATGGGGATACTCCAACCCCGGCTGTAGTTCTAAA
1 ATCGGGGATACTCCAATCCC-GTTATTTCCGA-GGGGATACTCCAACCCCAACTGTAGTTCTAAA
* * * * * * * *
595014 GCATCGATTTTCCACAATCGGGGATACTCCAACCCTGGTCTTATTTCTAAAGCATCGATTTTCCA
64 ACACCAATTTTCCACAATCGAGGATACTCCAACCCTGATCTTATTTCGAAAGCACCAATTTTCCA
*
595079 TA
129 CA
595081 ATCGGGGATACTCCA
1 ATCGGGGATACTCCA
595096 GCCCCGTGGT
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
129 8 0.07
130 108 0.90
131 4 0.03
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.31
Consensus pattern (130 bp):
ATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCCCAACTGTAGTTCTAAAAC
ACCAATTTTCCACAATCGAGGATACTCCAACCCTGATCTTATTTCGAAAGCACCAATTTTCCACA
Found at i:598955 original size:52 final size:52
Alignment explanation
Indices: 598885--599005 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
598875 GAAAATTTAT
*
598885 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
598937 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
598989 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
599006 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:599096 original size:33 final size:33
Alignment explanation
Indices: 599059--599125 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
599049 AGTAGCTTAA
599059 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
599092 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
599125 A
1 A
599126 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:599099 original size:13 final size:13
Alignment explanation
Indices: 599081--599105 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
599071 CAAAAAAATA
599081 TGTATCGATACAT
1 TGTATCGATACAT
599094 TGTATCGATACA
1 TGTATCGATACA
599106 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:600084 original size:49 final size:48
Alignment explanation
Indices: 600004--600697 Score: 874
Period size: 49 Copynumber: 14.7 Consensus size: 48
599994 GGATGTCAAC
* *
600004 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAAT
* *
600053 ATGCTGATTCAAGGCCAGCTATATTGGACTT--A-A--AGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAAT
* * * *
600096 GTGCTGATTCAAAGCTAGCTACATTGGACTTAATGGTGAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAAT
*
600144 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAGGTGCCAAT
* *
600193 ATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT--GGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAAT
*
600236 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA-AGTGAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-TGAGGTGCCAAT
*
600284 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAAT
* *
600333 ATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT--GGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAAT
*
600376 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA-AGTGAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-TGAGGTGCCAAT
*
600424 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAAT
* *
600473 ATGCTGATTCAAGGCCAGCTATATTGGACTT--A-AT--GGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAAT
* *
600516 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAAT
* * *
600565 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGCCAAT
*
600614 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G---AGGTGCCAAT
* * *
600666 ATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTA
600698 GAGGGGTTGC
Statistics
Matches: 570, Mismatches: 46, Indels: 55
0.85 0.07 0.08
Matches are distributed among these distances:
43 147 0.26
45 5 0.01
46 11 0.02
47 4 0.01
48 133 0.23
49 230 0.40
50 1 0.00
52 39 0.07
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (48 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAGGTGCCAAT
Found at i:600195 original size:140 final size:140
Alignment explanation
Indices: 600004--600646 Score: 1099
Period size: 140 Copynumber: 4.6 Consensus size: 140
599994 GGATGTCAAC
* *
600004 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
* * * * **
600069 AGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAAGCTAGCTACATTGGACTTAATGGTG
66 AGCTATATTGGACTTAATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAAGTG
600134 AGGTGCCAAT
131 AGGTGCCAAT
*
600144 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
600209 AGCTATATTGGACTTAATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAAGTG
66 AGCTATATTGGACTTAATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAAGTG
600274 AGGTGCCAAT
131 AGGTGCCAAT
*
600284 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
600349 AGCTATATTGGACTTAATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAAGTG
66 AGCTATATTGGACTTAATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAAGTG
600414 AGGTGCCAAT
131 AGGTGCCAAT
*
600424 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
600489 AGCTATATTGGACTTAATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT-AAAGAT
66 AGCTATATTGGACTTAATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAAG-T
*
600553 GAAGATGCCAAT
130 G-AGGTGCCAAT
* * * * *
600565 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
*
600630 AGCTACATTGGACTTAA
66 AGCTATATTGGACTTAA
600647 AGATGGAAAA
Statistics
Matches: 482, Mismatches: 19, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
139 4 0.01
140 394 0.82
141 84 0.17
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (140 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
AGCTATATTGGACTTAATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAAGTG
AGGTGCCAAT
Found at i:600798 original size:32 final size:33
Alignment explanation
Indices: 600702--600794 Score: 163
Period size: 33 Copynumber: 2.8 Consensus size: 33
600692 GGCTTAGAGG
600702 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
600735 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG-A
1 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
600768 -GTTGCCACCGACTTGTGTGGGCTTTGG
1 GGTTGCCACCGACTTGTGTGGGCTTTGG
600795 GAAGGGAAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.03
32 25 0.42
33 27 0.46
34 5 0.08
ACGTcount: A:0.15, C:0.19, G:0.37, T:0.29
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
Found at i:600936 original size:27 final size:27
Alignment explanation
Indices: 600906--600960 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
600896 TGAAAAGGGA
600906 AAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTT
*
600933 AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTT
600960 A
1 A
600961 GACGGAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.15, G:0.38, T:0.22
Consensus pattern (27 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTT
Found at i:600977 original size:34 final size:33
Alignment explanation
Indices: 600800--601829 Score: 586
Period size: 34 Copynumber: 31.9 Consensus size: 33
600790 TTTGGGAAGG
* * * *
600800 GAAAAAGA-TGCCATGGAGTTATGGACTTAAAA
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
* *
600832 GGGAAACAGAGTGCCACGGAGTTGTGGGCTTAAAAA
1 --GAAAAAGAGTGCCACGGAGTTGTGGGCTT-AGAA
*
600868 GAAAAA-AGTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AGAA
600902 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTT----
1 --GAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
* *
600933 --AAAAGGGTGCCACGGAGTTGTGGGCTTAGACG
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAGA-A
*
600965 GAAAAAGAGTGCCACAGAGTTGTGGGCTTAGAA
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
* * * ** *
600998 GGAAAA-A-TGCCACTGAGTCGTGGATTTTG-A
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
* * * *
601028 GACAAA-A-TGCCACTGAGTCGTGGACTTTA-AA
1 GAAAAAGAGTGCCACGGAGTTGTGGGC-TTAGAA
* * *
601059 GAAAAAGA-TGCCACTGAGTCGTGGACTTTA-AA
1 GAAAAAGAGTGCCACGGAGTTGTGGGC-TTAGAA
* * * *
601091 GAAAAAGA-TGCCACTGAGTCGTGGACTTTGAA
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
* * * *
601123 GAAAAAGA-TGCCACTGAGTCGTGGACTTAAAA
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
*
601155 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
1 --GAAAAAGAGTGCCACGGAGTTGTGGGC-TTAGAA
* *
601191 GAAAAA-AGTGCCACAGAGTTGTGGGCTTTGAAAA
1 GAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AGAA
*
601225 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACA
1 --GAAAAAGAGTGCCACGGAGTTGTGGGC-TTAGA-A
*
601262 GAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AGAA
* *
601296 GAAGAAAGAGTGCCACGAAGTTGTGGGCTTTAAAA
1 GAA-AAAGAGTGCCACGGAGTTGTGGGC-TTAGAA
* *
601331 GAAGAAG-GTGCCACGGAGTTGTGGGCTTTGAA
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
*
601363 -AAGAAGAAGGTGCCACGGAGTTGTGGGCTTTA-AA
1 GAAAAAG-A-GTGCCACGGAGTTGTGGGC-TTAGAA
*
601397 -AAAGAAG-GTGCCACGGAGTTGTGGGCTTTGGAAA
1 GAAA-AAGAGTGCCACGGAGTTGTGGGC-TTAG-AA
*
601431 GAAGAAG-GTGCCACGGAGTTGTGGGCTTA-AA
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
*
601462 CG-----G-GTGCCACGGAGTTGTGGACTTA-AA
1 -GAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
* *
601489 GATGAAAAAAGTGCCACGGAATTGTGGGCTT----
1 GA--AAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
* * *
601520 -TAAAAGGGTGCCACGGAATTGTGGGCTT----
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
* * *
601548 -TAAAAGGGTGCCACGGAGTTGTGGACTTA-AA
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
* *
601579 GATGAAAAAAGTGCCACGGAATTGTGGGCTT----
1 GA--AAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
* * *
601610 -TAAAAGGGTGCCACGGAGTTGTGGACTTA-AA
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
* *
601641 GATGAAAAAAGTGCCACGGAATTGTGGGCTT----
1 GA--AAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
* * *
601672 -TAAAAGGGTGCCACGGAGTTGTGGACTTA-AA
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
* *
601703 GATGAAAAAAGTGCCACGGAATTGTGGGCTT----
1 GA--AAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
* * * *
601734 -TAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
* *
601766 GAAGAAG-GTGCCACGGAGTTGTGGGCTTTGAA
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
* * *
601798 -AAGAAGAAGGTTGCCACCGACTTGTGGGCTTA
1 GAAAAAG-A-G-TGCCACGGAGTTGTGGGCTTA
601830 AACGGGTGCC
Statistics
Matches: 837, Mismatches: 86, Indels: 145
0.78 0.08 0.14
Matches are distributed among these distances:
26 1 0.00
27 50 0.06
28 120 0.14
30 23 0.03
31 41 0.05
32 133 0.16
33 71 0.08
34 229 0.27
35 78 0.09
36 48 0.06
37 43 0.05
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.21
Consensus pattern (33 bp):
GAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
Found at i:601075 original size:32 final size:33
Alignment explanation
Indices: 600940--601828 Score: 613
Period size: 34 Copynumber: 27.6 Consensus size: 33
600930 CTTAAAAGGG
**
600940 TGCCACGGAGTTGTGGGC-TTAGACGGAAAAAGA
1 TGCCACGGAGTTGTGGGCTTTA-AAAGAAAAAGA
* * *
600973 GTGCCACAGAGTTGTGGGC-TTAGAAGGAAAA-A
1 -TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGA
* * * ** *
601005 TGCCACTGAGTCGT-GGATTT-TGAGACAAA-A
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGA
* * *
601035 TGCCACTGAGTCGTGGACTTT-AAAGAAAAAGA
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGA
* * *
601067 TGCCACTGAGTCGTGGACTTT-AAAGAAAAAGA
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGA
* * * *
601099 TGCCACTGAGTCGTGGACTTT-GAAGAAAAAGA
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGA
* * *
601131 TGCCACTGAGTCGTGGAC-TTAAAAGGGAAAAAGA
1 TGCCACGGAGTTGTGGGCTTTAAAA--GAAAAAGA
601165 GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAA-A
1 -TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGA
*
601198 GTGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAAGA
1 -TGCCACGGAGTTGTGGGCTTT-AAAA--GAAAAAGA
*
601235 GTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGG
1 -TGCCACGGAGTTGTGGGCTTTAAA-AGAAAAAGA
601270 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAAGA
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAA-AAAGA
* * *
601305 GTGCCACGAAGTTGTGGGCTTTAAAAGAAGAAGG
1 -TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGA
* *
601339 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGA
* *
601373 TGCCACGGAGTTGTGGGCTTTAAAA-AAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGA
* * *
601405 TGCCACGGAGTTGTGGGCTTTGGAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGA
* *
601439 TGCCACGGAGTTGTGGGC-TTAAACG-----GG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGA
*
601466 TGCCACGGAGTTGTGGAC-TTAAAGATGAAAAA-A
1 TGCCACGGAGTTGTGGGCTTTAAA-A-GAAAAAGA
* *
601499 GTGCCACGGAATTGTGGGCTTTAAAAG-----GG
1 -TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGA
* *
601528 TGCCACGGAATTGTGGGCTTTAAAAG-----GG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGA
*
601556 TGCCACGGAGTTGTGGAC-TTAAAGATGAAAAA-A
1 TGCCACGGAGTTGTGGGCTTTAAA-A-GAAAAAGA
* *
601589 GTGCCACGGAATTGTGGGCTTTAAAAG-----GG
1 -TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGA
*
601618 TGCCACGGAGTTGTGGAC-TTAAAGATGAAAAA-A
1 TGCCACGGAGTTGTGGGCTTTAAA-A-GAAAAAGA
* *
601651 GTGCCACGGAATTGTGGGCTTTAAAAG-----GG
1 -TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGA
*
601680 TGCCACGGAGTTGTGGAC-TTAAAGATGAAAAA-A
1 TGCCACGGAGTTGTGGGCTTTAAA-A-GAAAAAGA
* *
601713 GTGCCACGGAATTGTGGGCTTTAAAAG-----GG
1 -TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGA
* * *
601742 TGCCACGGAGTTGTGGAC-TTAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGA
* *
601774 TGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGT
1 TGCCACGGAGTTGTGGGCTTT-AAAAGAA-AAAGA
* *
601809 TGCCACCGACTTGTGGGCTT
1 TGCCACGGAGTTGTGGGCTT
601829 AAACGGGTGC
Statistics
Matches: 723, Mismatches: 65, Indels: 133
0.79 0.07 0.14
Matches are distributed among these distances:
27 46 0.06
28 95 0.13
29 4 0.01
30 22 0.03
31 26 0.04
32 135 0.19
33 62 0.09
34 199 0.28
35 76 0.11
36 35 0.05
37 23 0.03
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.22
Consensus pattern (33 bp):
TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGA
Found at i:601102 original size:94 final size:97
Alignment explanation
Indices: 600834--601461 Score: 399
Period size: 100 Copynumber: 6.3 Consensus size: 97
600824 ACTTAAAAGG
* * * * * *
600834 GAAACAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAA-AGTGCCACGGAGTTGTGGGCTTTG
1 GAAAAAGA-TGCCACTGAGTCGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-
* * *
600898 AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT---
64 -AAA--GAAAAA-A-TGCCACTGAGTCGTGGACTTTGAA
* * * * * * *
600933 -AAAAGGGTGCCACGGAGTTGTGGGCTTAGACGGAAAAAGAGTGCCACAGAGTTGTGGGC-TTAG
1 GAAAAAGATGCCACTGAGTCGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTA-
* *
600996 AAGGAAAAATGCCACTGAGTCGTGGATTTTG-A
65 AAGAAAAAATGCCACTGAGTCGTGGACTTTGAA
* * * * *
601028 GACAAA-ATGCCACTGAGTCGTGGACTTTAAA-GAAAAAGA-TGCCACTGAGTCGTGGACTTTAA
1 GAAAAAGATGCCACTGAGTCGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
601090 AGAAAAAGATGCCACTGAGTCGTGGACTTTGAA
66 AGAAAAA-ATGCCACTGAGTCGTGGACTTTGAA
*
601123 GAAAAAGATGCCACTGAGTCGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1 GAAAAAGATGCCACTGAGTCGTGGACTTAAAA-GGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-
* * *
601188 AAAGAAAAAAGTGCCACAGAGTTGTGGGCTTTGAAAA
64 AAAGAAAAAA-TGCCACTGAGTCGTGGACTTTG--AA
* * * *
601225 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACA-GAAAAAG-GTGCCACGGAGTTGTGGGC
1 --GAAAAAGA-TGCCACTGAGTCGTGGAC-TTAAA-AGGAAAAAGAGTGCCACAGAGTTGTGGGC
* * *
601288 TTTGAAAAGAAGAAAGAGTGCCAC-GAAGTTGTGGGCTTTAAAA
61 TTT--AAAGAA-AAA-A-TGCCACTG-AGTCGTGGACTTT-GAA
* * * * * * *
601331 GAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAGAAG-GTGCCACGGAGTTGTGGGCTTT
1 GAAAAAGATGCCACTGAGTCGTGGAC-TT-AAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
* * * *
601394 AAA-AAAGAAGGTGCCACGGAGTTGTGGGCTTTGGAAA
64 AAAGAAA-AA-ATGCCACTGAGTCGTGGACTTT-G-AA
* * * * *
601431 GAAGAAGGTGCCACGGAGTTGTGGGCTTAAA
1 GAAAAAGATGCCACTGAGTCGTGGACTTAAA
601462 CGGGTGCCAC
Statistics
Matches: 454, Mismatches: 44, Indels: 63
0.81 0.08 0.11
Matches are distributed among these distances:
92 14 0.03
93 25 0.06
94 38 0.08
95 25 0.06
96 29 0.06
97 30 0.07
98 34 0.07
99 41 0.09
100 62 0.14
101 3 0.01
102 2 0.00
103 50 0.11
104 39 0.09
105 29 0.06
106 11 0.02
107 22 0.05
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (97 bp):
GAAAAAGATGCCACTGAGTCGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
AGAAAAAATGCCACTGAGTCGTGGACTTTGAA
Found at i:601225 original size:62 final size:62
Alignment explanation
Indices: 600834--601801 Score: 645
Period size: 62 Copynumber: 15.1 Consensus size: 62
600824 ACTTAAAAGG
*
600834 GAAACAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTT
1 GAAA-AGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTT
*
600897 GAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAG-----GGTGCCACGGAGTTGTGG
1 -------G-AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGG
*
600956 GCTTAGACG
58 GCTT----T
* * * * * **
600965 GAAAAAGAGTGCCACAGAGTTGTGGGC-TTAGAAGGAAAAA-TGCCACTGAGTCGTGGATTTT
1 G-AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTT
* * * * * * *
601026 GAGACAA-AATGCCACTGAGTCGTGGACTTT-AAAG-AAAAAGATGCCACTGAGTCGTGGACTTT
1 GA-A-AAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAG-TGCCACGGAGTTGTGGGCTTT
* * * * * * *
601088 AAAGAAAA-AGATGCCACTGAGTCGTGGACTTT-GAAG-AAAAAGATGCCACTGAGTCGTGGACT
1 ---GAAAAGAG-TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAG-TGCCACGGAGTTGTGGGCT
*
601150 TAAAAGG
61 T-----T
*
601157 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACAGAGTTGTGGGCTTT
1 G-AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTT
*
601220 GAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTG
1 -------G-AAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-AGAAAAAAGTGCCACGGAGTTGTG
601285 GGCTTT
57 GGCTTT
* * *
601291 GAAAAGAAGAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGG
1 -----G-A-AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGG
601356 CTTT
59 CTTT
* *
601360 GAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAA-AAGAAGGTGCCACGGAGTTGTGGGCT
1 G--AA-AAG-A-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCT
601424 TT
61 TT
* * *
601426 GGAAAGAAGAAGGTGCCACGGAGTTGTGGGC-TTAAACG-----GGTGCCACGGAGTTGTGGACT
1 -G-AA-AAG-A-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCT
601485 TAAAGAT
61 T-----T
* * * *
601492 GAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAG-----GGTGCCACGGAATTGTGGGCTTT
1 GAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTT
* * *
601549 -AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
1 GAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAAAAAGTGCCACGGAGTTGTGGGCTTT
* * *
601611 -AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
1 GAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAAAAAGTGCCACGGAGTTGTGGGCTTT
* * *
601673 -AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
1 GAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAAAAAGTGCCACGGAGTTGTGGGCTTT
* * * *
601735 -AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT
1 GAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTT
601795 GAAAAGA
1 GAAAAGA
601802 AGAAGGTTGC
Statistics
Matches: 789, Mismatches: 52, Indels: 123
0.82 0.05 0.13
Matches are distributed among these distances:
55 5 0.01
56 22 0.03
57 2 0.00
60 32 0.04
61 98 0.12
62 227 0.29
63 5 0.01
64 77 0.10
65 29 0.04
66 60 0.08
67 48 0.06
68 22 0.03
69 46 0.06
70 85 0.11
71 31 0.04
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.21
Consensus pattern (62 bp):
GAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTT
Found at i:602005 original size:62 final size:63
Alignment explanation
Indices: 601910--602051 Score: 182
Period size: 62 Copynumber: 2.3 Consensus size: 63
601900 CCACGGCGTT
*
601910 GTGGACTTAAAAGA-AAAAATGCCACTAAGTCGTGGACTTTGAGACA-A-AATGCCACTGAGTC
1 GTGGACTTTAAAGAGAAAAATGCCACTAAGTCGTGGACTTTGAG-CAGAGAATGCCACTGAGTC
** ** *
601971 GTGGACTTTAAAGAGAAGGATGCCACTGCGTCGTGGACTTTGAGCAGAGATTGCCACTGAGTC
1 GTGGACTTTAAAGAGAAAAATGCCACTAAGTCGTGGACTTTGAGCAGAGAATGCCACTGAGTC
602034 GTGGACTTTGAGAAGAGA
1 GTGGACTTT-A-AAGAGA
602052 TTTGAAGAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
61 15 0.21
62 26 0.37
63 22 0.31
64 1 0.01
65 6 0.09
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.23
Consensus pattern (63 bp):
GTGGACTTTAAAGAGAAAAATGCCACTAAGTCGTGGACTTTGAGCAGAGAATGCCACTGAGTC
Found at i:602029 original size:31 final size:31
Alignment explanation
Indices: 601929--602053 Score: 141
Period size: 31 Copynumber: 4.0 Consensus size: 31
601919 AAAGAAAAAA
* *
601929 TGCCACTAAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAG-CAGAGAT
*
601959 TGCCACTGAGTCGTGGACTTTAAAG-AGAAGGA-
1 TGCCACTGAGTCGTGGACTTT-GAGCAG-A-GAT
*
601991 TGCCACTGCGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
*
602022 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
602053 T
1 T
602054 TGAAGAATTG
Statistics
Matches: 82, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
29 1 0.01
30 22 0.27
31 36 0.44
32 22 0.27
33 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
Found at i:602170 original size:8 final size:8
Alignment explanation
Indices: 602147--602176 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
602137 GATGCAAATA
602147 ATGATGTT
1 ATGATGTT
602155 ATTGATGTT
1 A-TGATGTT
602164 ATGATGTT
1 ATGATGTT
602172 ATGAT
1 ATGAT
602177 TACAGCACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (8 bp):
ATGATGTT
Found at i:610319 original size:52 final size:52
Alignment explanation
Indices: 610249--610369 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
610239 GAAAATTTAT
*
610249 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
610301 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
610353 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
610370 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:610460 original size:33 final size:33
Alignment explanation
Indices: 610423--610489 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
610413 AGTAGCTTAA
610423 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
610456 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
610489 A
1 A
610490 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:610463 original size:13 final size:13
Alignment explanation
Indices: 610445--610469 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
610435 CAAAAAAATA
610445 TGTATCGATACAT
1 TGTATCGATACAT
610458 TGTATCGATACA
1 TGTATCGATACA
610470 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:613513 original size:50 final size:50
Alignment explanation
Indices: 613420--613539 Score: 161
Period size: 52 Copynumber: 2.4 Consensus size: 50
613410 TCTAGAAAGA
** *
613420 AAATGTATCGATACATTTTTATTGTATTGATGCATTCTGGG-TTTAATCC
1 AAATGTATCGATACATTTTTATTGTATCAATACATTCTGGGTTTTAATCC
* * *
613469 AAATGTATCGTTACATTTTTCATTGTATCAATACATTCTGGGTTTTTGATCT
1 AAATGTATCGATACATTTTT-ATTGTATCAATACATTCTGGG-TTTTAATCC
613521 AAATGTATCGATACATTTT
1 AAATGTATCGATACATTTT
613540 GGCTTTTTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
49 19 0.31
50 18 0.30
52 24 0.39
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (50 bp):
AAATGTATCGATACATTTTTATTGTATCAATACATTCTGGGTTTTAATCC
Found at i:613528 original size:32 final size:32
Alignment explanation
Indices: 613492--613571 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
613482 CATTTTTCAT
* *
613492 TGTATCAATACATTCTGGGTTTTTGATCTAAA
1 TGTATCAATACATTCTGGCTTTTTGACCTAAA
* * *
613524 TGTATCGATACATTTTGGCTTTTTTACCTAAA
1 TGTATCAATACATTCTGGCTTTTTGACCTAAA
**
613556 TGTATCTTTACATTCT
1 TGTATCAATACATTCT
613572 TCAATGTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.47
Consensus pattern (32 bp):
TGTATCAATACATTCTGGCTTTTTGACCTAAA
Found at i:614937 original size:18 final size:19
Alignment explanation
Indices: 614914--614956 Score: 79
Period size: 18 Copynumber: 2.3 Consensus size: 19
614904 GGTGATAATT
614914 TTTATTGGATAA-AAAATA
1 TTTATTGGATAAGAAAATA
614932 TTTATTGGATAAGAAAATA
1 TTTATTGGATAAGAAAATA
614951 TTTATT
1 TTTATT
614957 TATTATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (19 bp):
TTTATTGGATAAGAAAATA
Found at i:616053 original size:12 final size:11
Alignment explanation
Indices: 616038--616078 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
616028 TCTACTTTTC
616038 TCTCTATTTCCT
1 TCTCT-TTTCCT
*
616050 TCTCTTTTTCT
1 TCTCTTTTCCT
616061 T-TCTTTTCCT
1 TCTCTTTTCCT
616071 TCTCTTTT
1 TCTCTTTT
616079 TTTTTTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 9 0.35
11 12 0.46
12 5 0.19
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.68
Consensus pattern (11 bp):
TCTCTTTTCCT
Found at i:616056 original size:21 final size:20
Alignment explanation
Indices: 616027--616078 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
616017 AGCTAGTGTA
616027 TTCTACTTTTCTCTCTATTTCC
1 TTCT-CTTTTCTCTCT-TTTCC
*
616049 TTCTCTTTTTCTTTCTTTTCC
1 TTCTC-TTTTCTCTCTTTTCC
616070 TTCTCTTTT
1 TTCTCTTTT
616079 TTTTTTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 4 0.14
21 11 0.39
22 13 0.46
ACGTcount: A:0.04, C:0.29, G:0.00, T:0.67
Consensus pattern (20 bp):
TTCTCTTTTCTCTCTTTTCC
Found at i:616079 original size:12 final size:12
Alignment explanation
Indices: 616038--616079 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
616028 TCTACTTTTC
*
616038 TCTCTATTTCCT
1 TCTCTTTTTCCT
616050 TCTCTTTTT-CT
1 TCTCTTTTTCCT
616061 T-TC-TTTTCCT
1 TCTCTTTTTCCT
616071 TCTCTTTTT
1 TCTCTTTTT
616080 TTTTTCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
9 4 0.15
10 5 0.19
11 5 0.19
12 12 0.46
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (12 bp):
TCTCTTTTTCCT
Found at i:616079 original size:21 final size:22
Alignment explanation
Indices: 616033--616089 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
616023 TGTATTCTAC
*
616033 TTTTCTCTCTATTTCCTTCTC-T
1 TTTTCTTTCT-TTTCCTTCTCTT
616055 TTTTCTTTCTTTTCCTTCTCTT
1 TTTTCTTTCTTTTCCTTCTCTT
*
616077 TTTTTTTTCTTTT
1 TTTTCTTTCTTTT
616090 TTCAGTTGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 10 0.31
22 22 0.69
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTCTTTCTTTTCCTTCTCTT
Found at i:616649 original size:167 final size:165
Alignment explanation
Indices: 616474--616913 Score: 399
Period size: 166 Copynumber: 2.6 Consensus size: 165
616464 GTTAAATGAC
* * * * **
616474 AATATTTGATAAATTTTAAAAGTTTTAAATCGAGAAAAATCTCCCTGAAAAT-GTTTACGGAGTA
1 AATATTTGATAAATTTTAAAAATTTTAAACCAAGAAAAATC-CCCTAAAAATAAATTACGGAGTA
* * * * *
616538 GGAAACTCGATTTTTCAAGGAAAAAGGAAGTTCAAAGACAAAAATTCAAAACTCCTA-AAAATGA
65 GAAAACTCCATATTTCAA-GAAAAAGGAAGTTCAAAGA-AAAAATTCAAAAAT-CTAGAAAATAA
* *
616602 ATTAATTTTTC-AAGATTGATTTAACATGAATCAAATAAT
127 ATGAATTTTTCAAAG-CTGATTTAACATGAATCAAATAAT
** *
616641 AATATTTGATAAATTTTAAAAATTGAAAACCAAGAAAAATCCTCTAAAAATAAATTACGGAGTAG
1 AATATTTGATAAATTTTAAAAATTTTAAACCAAGAAAAATCCCCTAAAAATAAATTACGGAGTAG
* * * ** * * *
616706 AAAACTCCATATTTCGAGAATAGGGATTTTCAAGGAAAAAATTGAAAAATTTATGAAAATAAATG
66 AAAACTCCATATTTCAAGAAAAAGGAAGTTCAAAGAAAAAATTCAAAAATCTA-GAAAATAAATG
* *
616771 AATTTTTGAAAGCTGATTTAACATGAATTAAATAAT
130 AATTTTTCAAAGCTGATTTAACATGAATCAAATAAT
* ** * * * *
616807 AATATTTGACT-TATTTTAAAAATTTTGGATCAATG-AAAATCCTCCCAAAAA-AATTTACGAAG
1 AATATTTGA-TAAATTTTAAAAATTTTAAACCAA-GAAAAATCC-CCTAAAAATAAATTACGGAG
* *
616869 TAGAAAACTCCGTATTTTGAA-AAAAAGGAAGAATTCTAAAGAAAA
63 TAGAAAACTCCATA-TTTCAAGAAAAAGGAAG--TTC-AAAGAAAA
616914 TTAACAAGTC
Statistics
Matches: 218, Mismatches: 44, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
164 2 0.01
165 12 0.06
166 119 0.55
167 75 0.34
168 3 0.01
169 7 0.03
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (165 bp):
AATATTTGATAAATTTTAAAAATTTTAAACCAAGAAAAATCCCCTAAAAATAAATTACGGAGTAG
AAAACTCCATATTTCAAGAAAAAGGAAGTTCAAAGAAAAAATTCAAAAATCTAGAAAATAAATGA
ATTTTTCAAAGCTGATTTAACATGAATCAAATAAT
Found at i:617175 original size:11 final size:11
Alignment explanation
Indices: 617159--617195 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
617149 TGAAATTTTC
617159 AAATTTAAAAT
1 AAATTTAAAAT
617170 AAATTTAAAAT
1 AAATTTAAAAT
*
617181 AAATTTAAAAG
1 AAATTTAAAAT
617192 AAAT
1 AAAT
617196 AAAATTGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (11 bp):
AAATTTAAAAT
Found at i:617991 original size:83 final size:82
Alignment explanation
Indices: 617899--618187 Score: 305
Period size: 83 Copynumber: 3.5 Consensus size: 82
617889 TAAAATTGTC
617899 AAGTCAACAAAGGGTAAGGGAGTTTACTAGGGACTGAGCTGACAAGTAAACAAAGATGAAAAGTT
1 AAGTCAACAAAGGGTAAGGGAGTTTACTAGGGACTGAGCTGACAAGTAAACAAAGATGAAAAGTT
*
617964 GATCAAGGCTAAACCAAT
66 GA-CAAGGCTAAACCGAT
* * * ** * * * ** *
617982 AAGTTAACAAAGGGCAACGGAGTTTACCGGGGAATAAACCAACAAGTAAACAGAGATGAAAAGTT
1 AAGTCAACAAAGGGTAAGGGAGTTTACTAGGGACTGAGCTGACAAGTAAACAAAGATGAAAAGTT
618047 GACCAAGGCTAAACCGAT
66 GA-CAAGGCTAAACCGAT
* * * *
618065 AAGTCAACAAAGGATTAA-AGAGTTCACTAGGGACTGAGCTGACAAGTAAGCAAGAGAT-AAAAG
1 AAGTCAACAAAGG-GTAAGGGAGTTTACTAGGGACTGAGCTGACAAGTAAACAA-AGATGAAAA-
* * *
618128 GTTGACTAAGGTTGAACTGAT
63 GTTGAC-AAGGCTAAACCGAT
* *
618149 AAGTCAACAAAAGGT-AGAGGAGTTTACTAGGGATTGAGC
1 AAGTCAACAAAGGGTAAG-GGAGTTTACTAGGGACTGAGC
618188 CGATAGGCAA
Statistics
Matches: 165, Mismatches: 35, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
82 1 0.01
83 112 0.68
84 52 0.32
ACGTcount: A:0.43, C:0.13, G:0.26, T:0.18
Consensus pattern (82 bp):
AAGTCAACAAAGGGTAAGGGAGTTTACTAGGGACTGAGCTGACAAGTAAACAAAGATGAAAAGTT
GACAAGGCTAAACCGAT
Found at i:617993 original size:40 final size:40
Alignment explanation
Indices: 617942--618076 Score: 119
Period size: 40 Copynumber: 3.3 Consensus size: 40
617932 CTGAGCTGAC
*
617942 AAGTAAACAAAGATGAAAAGTTGATCAAGGCTAAACCAAT
1 AAGTAAACAAAGATGAAAAGTTGACCAAGGCTAAACCAAT
* * * * ** * *
617982 AAGTTAACAAAG-GGCAACGGAGTTTACCGGGGAATAAACCAAC
1 AAGTAAACAAAGATG-AA--AAGTTGACCAAGG-CTAAACCAAT
* *
618025 AAGTAAACAGAGATGAAAAGTTGACCAAGGCTAAACCGAT
1 AAGTAAACAAAGATGAAAAGTTGACCAAGGCTAAACCAAT
*
618065 AAGTCAACAAAG
1 AAGTAAACAAAG
618077 GATTAAAGAG
Statistics
Matches: 69, Mismatches: 21, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
39 1 0.01
40 30 0.43
41 9 0.13
42 8 0.12
43 20 0.29
44 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.21, T:0.15
Consensus pattern (40 bp):
AAGTAAACAAAGATGAAAAGTTGACCAAGGCTAAACCAAT
Found at i:619495 original size:13 final size:13
Alignment explanation
Indices: 619477--619502 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
619467 TACAGCAAGT
619477 ATGTATCGATACA
1 ATGTATCGATACA
619490 ATGTATCGATACA
1 ATGTATCGATACA
619503 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:623587 original size:15 final size:15
Alignment explanation
Indices: 623567--623597 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
623557 TAAAAATGTC
*
623567 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
623582 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
623597 C
1 C
623598 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:625694 original size:13 final size:13
Alignment explanation
Indices: 625676--625714 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
625666 ACATTTTTCT
625676 TTGTATCGATACA
1 TTGTATCGATACA
625689 TTGTATCGATACA
1 TTGTATCGATACA
625702 TTGTATCGATACA
1 TTGTATCGATACA
625715 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:627535 original size:21 final size:19
Alignment explanation
Indices: 627484--627524 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
627474 AGGGGCAGAG
627484 AAAATAGATATGTGCAAAT
1 AAAATAGATATGTGCAAAT
627503 AAAATAGATATGTGCAAAT
1 AAAATAGATATGTGCAAAT
627522 AAA
1 AAA
627525 TTTTTGATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.56, C:0.05, G:0.15, T:0.24
Consensus pattern (19 bp):
AAAATAGATATGTGCAAAT
Found at i:628295 original size:13 final size:13
Alignment explanation
Indices: 628277--628302 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
628267 TACAGCAAGT
628277 ATGTATCGATACA
1 ATGTATCGATACA
628290 ATGTATCGATACA
1 ATGTATCGATACA
628303 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:632085 original size:48 final size:48
Alignment explanation
Indices: 632019--632150 Score: 165
Period size: 48 Copynumber: 2.8 Consensus size: 48
632009 AGAGGAGTGC
** * * * *
632019 CAATGTGCCAATTGAAGGCCAACAACATCGAGCTAAGGGAAAAGTAGA
1 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAAGGAAAAAGTAGA
* * * * *
632067 GAATGTGCTGATTCAAGGCTAGCGACATTAAGCTAAGGAAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAAGGAAAAAGTAGA
632115 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAA
1 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAA
632151 TAAAGGTGCC
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAAGGAAAAAGTAGA
Found at i:632587 original size:32 final size:32
Alignment explanation
Indices: 632261--633181 Score: 731
Period size: 32 Copynumber: 30.5 Consensus size: 32
632251 ATAAAAAAGG
* * ***
632261 TGCCACTAACTTGTGTGAGCTTTG-AA-GAAA
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
*
632291 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
* *
632319 TGCCACTGAC-T-TGTGGGCTTTGGAA--GGA
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
* *
632347 TGCCACTGAC-T-CGTGGGCTTTGAAA--AGT
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
* *
632375 TGCCACTGAC-TCT-TGGGCTTTGAAA--AGT
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
* *
632403 TGCCACTGAC-T-TGTGGGC-TTGTAAA--AGA
1 TGCCACTGACTTGTGTGGGCTTTG-AAATGGGT
* * *
632431 TGCCATTGAC-T-TGTGGGCTTTGAAA--AGA
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
* * * * *
632459 TGCCACCGAC-T-TGCGGACATTGAAA--GGA
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
632487 TGCCACTGAC-T-TGTGGGCTTTGAAA-GGG-
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
* *
632515 TGCCACTGAC-T-TGTGGGCTTTGAAA--AGA
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
632543 TGCCA-TCGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACT-GACTTGTGTGGGCTTTGAAATGGGT
* *
632575 TGCCACTAACTTGTGTGGGCTTTGAAATGAGT
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
* *
632607 TGCCACCGACTTGTGTGGGCTTTGAAATAGGT
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
* *
632639 TGCCACTAACTTGTGTGGGCTTTGAAATAGGT
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
** *
632671 TGCCACCAACTTGTGTGGGCTTTGAAATGAGT
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
* *
632703 TACCA-TCGACTTGTGTGGGCTTTGGAATGGGT
1 TGCCACT-GACTTGTGTGGGCTTTGAAATGGGT
** *
632735 TGCCACCAACTTGTGTGGGCTTTGAAATGAGT
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
* * *
632767 TACCA-TCGACTTGTGTGGGCTTTGGAAT--GA
1 TGCCACT-GACTTGTGTGGGCTTTGAAATGGGT
632797 TGCCACTGAC-T-TGTGGGCTTTGAAATGGGT
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
*
632827 TGCCACAGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
** * *
632859 TGCCACCAACTTGTGTGGGCTTTCAAATGAGT
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
* * * *
632891 TGCTACCGACTTATGTGGGCTTTGGAATGGGT
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
*
632923 TGCCA-TAAACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACT-GACTTGTGTGGGCTTTGAAATGGGT
* ** *
632955 TGCCTCCAACTTGTGTGGGCTTTGAAATGAGT
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
* * *
632987 TGCCACCGACTTGTGTGGGCTTTCAAATGAGT
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
*
633019 TGCCACCGACTTGTGTGGGCTTTGAAA-GGG-
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
* * *
633049 TGCCACCGACTTGTGTGGGCTTTGAAA--AGA
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
* *
633079 TGCCACCGA-GT-TGTGGGCTTTGAAATGGGT
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
* *
633109 TGCCA-TCGACTTGTGTGAGCTTTGGAAA---GA
1 TGCCACT-GACTTGTGTGGGCTTT-GAAATGGGT
* *
633139 TGCCACTAAC-T-TGTGGGCTTTGAAAT--GA
1 TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
*
633167 TGCCACTAACTTGTG
1 TGCCACTGACTTGTG
633182 GATTTGACAT
Statistics
Matches: 769, Mismatches: 88, Indels: 68
0.83 0.10 0.07
Matches are distributed among these distances:
27 10 0.01
28 257 0.33
29 14 0.02
30 95 0.12
31 6 0.01
32 382 0.50
33 5 0.01
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (32 bp):
TGCCACTGACTTGTGTGGGCTTTGAAATGGGT
Found at i:632656 original size:96 final size:95
Alignment explanation
Indices: 632498--633166 Score: 806
Period size: 96 Copynumber: 7.2 Consensus size: 95
632488 GCCACTGACT
* * * * *
632498 TGTGGGCTTTGAAA-G-GGTGCCACTGAC-TTGTGGGCTTTGAAA--AGATGCCA-TCGACTTGT
1 TGTGGGCTTTGAAATGAGTTGCCACCGACTTTGTGGGCTTTGAAATGGGTTGCCACT-AACTTGT
*
632557 GTGGGCTTTGAAATGGGTTGCCACTAACTTG
65 GTGGGCTTTGAAATGGGTTGCCACCAACTTG
*
632588 TGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATAGGTTGCCACTAACTTGT
1 TGTGGGCTTTGAAATGAGTTGCCACCGACTT-TGTGGGCTTTGAAATGGGTTGCCACTAACTTGT
*
632653 GTGGGCTTTGAAATAGGTTGCCACCAACTTG
65 GTGGGCTTTGAAATGGGTTGCCACCAACTTG
* * * *
632684 TGTGGGCTTTGAAATGAGTTACCATCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCAACTTGT
1 TGTGGGCTTTGAAATGAGTTGCCACCGACTT-TGTGGGCTTTGAAATGGGTTGCCACTAACTTGT
* * * *
632749 GTGGGCTTTGAAATGAGTTACCATCGACTTG
65 GTGGGCTTTGAAATGGGTTGCCACCAACTTG
* *
632780 TGTGGGCTTTGGAATGA--TGCCACTGAC-TTGTGGGCTTTGAAATGGGTTGCCAC-AGACTTGT
1 TGTGGGCTTTGAAATGAGTTGCCACCGACTTTGTGGGCTTTGAAATGGGTTGCCACTA-ACTTGT
632841 GTGGGCTTTGAAATGGGTTGCCACCAACTTG
65 GTGGGCTTTGAAATGGGTTGCCACCAACTTG
* * *
632872 TGTGGGCTTTCAAATGAGTTGCTACCGACTTATGTGGGCTTTGGAATGGGTTGCCA-TAAACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCGACTT-TGTGGGCTTTGAAATGGGTTGCCACT-AACTTG
*
632936 TGTGGGCTTTGAAATGGGTTGCCTCCAACTTG
64 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
* * **
632968 TGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGT
1 TGTGGGCTTTGAAATGAGTTGCCACCGACTT-TGTGGGCTTTGAAATGGGTTGCCACTAACTTGT
*
633033 GTGGGCTTTGAAA-GGG-TGCCACCGACTTG
65 GTGGGCTTTGAAATGGGTTGCCACCAACTTG
* * *
633062 TGTGGGCTTTGAAA--AGATGCCACCGA-GTTGTGGGCTTTGAAATGGGTTGCCA-TCGACTTGT
1 TGTGGGCTTTGAAATGAGTTGCCACCGACTTTGTGGGCTTTGAAATGGGTTGCCACT-AACTTGT
* * *
633123 GTGAGCTTTGGAAA---GATGCCACTAAC-T-
65 GTGGGCTTT-GAAATGGGTTGCCACCAACTTG
633150 TGTGGGCTTTGAAATGA
1 TGTGGGCTTTGAAATGA
633167 TGCCACTAAC
Statistics
Matches: 509, Mismatches: 50, Indels: 40
0.85 0.08 0.07
Matches are distributed among these distances:
88 14 0.03
89 2 0.00
90 60 0.12
91 7 0.01
92 93 0.18
93 2 0.00
94 54 0.11
95 4 0.01
96 271 0.53
97 2 0.00
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32
Consensus pattern (95 bp):
TGTGGGCTTTGAAATGAGTTGCCACCGACTTTGTGGGCTTTGAAATGGGTTGCCACTAACTTGTG
TGGGCTTTGAAATGGGTTGCCACCAACTTG
Found at i:633187 original size:27 final size:27
Alignment explanation
Indices: 633133--633188 Score: 87
Period size: 28 Copynumber: 2.1 Consensus size: 27
633123 GTGAGCTTTG
*
633133 GAAAGATGCCACTAACTTGTGGGCTTT
1 GAAAGATGCCACTAACTTGTGGGATTT
633160 GAAATGATGCCACTAACTTGT-GGATTT
1 GAAA-GATGCCACTAACTTGTGGGATTT
633187 GA
1 GA
633189 CATAACTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 11 0.41
28 16 0.59
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (27 bp):
GAAAGATGCCACTAACTTGTGGGATTT
Found at i:633887 original size:10 final size:10
Alignment explanation
Indices: 633850--633891 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
633840 TAAATCAAGG
633850 TGGTACAATT
1 TGGTACAATT
* *
633860 TGGTTCATTT
1 TGGTACAATT
*
633870 TTGTACAATT
1 TGGTACAATT
633880 TGGTACAATT
1 TGGTACAATT
633890 TG
1 TG
633892 CCCGAATAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.24, C:0.10, G:0.19, T:0.48
Consensus pattern (10 bp):
TGGTACAATT
Found at i:634289 original size:21 final size:22
Alignment explanation
Indices: 634259--634318 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
634249 TGTTGTTCCC
634259 TTTTTATTTTGCTTTTGCAT-T
1 TTTTTATTTTGCTTTTGCATAT
* *
634280 TTTTTGTTTTTCTTTT-CATAT
1 TTTTTATTTTGCTTTTGCATAT
*
634301 TTTGTACTTTTGCTTTTG
1 TTTTTA-TTTTGCTTTTG
634319 ACCTTTTCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
20 3 0.10
21 19 0.61
22 9 0.29
ACGTcount: A:0.08, C:0.10, G:0.10, T:0.72
Consensus pattern (22 bp):
TTTTTATTTTGCTTTTGCATAT
Found at i:638551 original size:13 final size:13
Alignment explanation
Indices: 638533--638557 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
638523 CATAAAGTGT
638533 TGTATCGATACAA
1 TGTATCGATACAA
638546 TGTATCGATACA
1 TGTATCGATACA
638558 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:638555 original size:33 final size:33
Alignment explanation
Indices: 638513--638579 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
638503 TTCAACGATT
638513 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
638546 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
638579 T
1 T
638580 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:638638 original size:13 final size:13
Alignment explanation
Indices: 638620--638644 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
638610 ATCACTTAAA
638620 TGTATCGATACAT
1 TGTATCGATACAT
638633 TGTATCGATACA
1 TGTATCGATACA
638645 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:638709 original size:52 final size:52
Alignment explanation
Indices: 638653--638833 Score: 335
Period size: 52 Copynumber: 3.5 Consensus size: 52
638643 CACTGATCTT
*
638653 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
638705 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
638757 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
638809 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
638834 TCATATTTCG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 126 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:642902 original size:10 final size:10
Alignment explanation
Indices: 642887--642913 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
642877 TGCTAACTAA
642887 GTTTTTGTTT
1 GTTTTTGTTT
642897 GTTTTTGTTT
1 GTTTTTGTTT
642907 GTTTTTG
1 GTTTTTG
642914 CTTGATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (10 bp):
GTTTTTGTTT
Found at i:646016 original size:20 final size:20
Alignment explanation
Indices: 645993--646065 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
645983 ACAATTCAAA
645993 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
646013 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
646034 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
646054 GTATCGATACAT
1 GTATCGATACAT
646066 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:646037 original size:21 final size:21
Alignment explanation
Indices: 646011--646086 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
646001 ACATGTTGCA
646011 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
646032 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
646052 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
646073 TTGTATCGATACAT
1 ATGTATCGATACAT
646087 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:646044 original size:41 final size:41
Alignment explanation
Indices: 645993--646086 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
645983 ACAATTCAAA
*
645993 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
646034 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
646075 GTATCGATACAT
1 GTATCGATACAT
646087 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:646143 original size:13 final size:13
Alignment explanation
Indices: 646125--646150 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
646115 TACAGCAACT
646125 ATGTATCGATACA
1 ATGTATCGATACA
646138 ATGTATCGATACA
1 ATGTATCGATACA
646151 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:652050 original size:20 final size:20
Alignment explanation
Indices: 652024--652101 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 20
652014 AATGTCCAAA
652024 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATGTTTCT
* *
652044 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACA--T-G--TTTCT
*
652069 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATGTTTCT
*
652089 TTGTATCGATACA
1 ATGTATCGATACA
652102 ATGTATCGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 28 0.60
22 1 0.02
23 2 0.04
25 16 0.34
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATGTTTCT
Found at i:652108 original size:13 final size:13
Alignment explanation
Indices: 652090--652153 Score: 110
Period size: 13 Copynumber: 4.9 Consensus size: 13
652080 CATTTTTCTT
652090 TGTATCGATACAA
1 TGTATCGATACAA
*
652103 TGTATCGATACAC
1 TGTATCGATACAA
652116 TGTATCGATACAA
1 TGTATCGATACAA
*
652129 TGTATCGATACAC
1 TGTATCGATACAA
652142 TGTATCGATACA
1 TGTATCGATACA
652154 GGGTGATTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 48 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:652126 original size:26 final size:26
Alignment explanation
Indices: 652090--652153 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
652080 CATTTTTCTT
652090 TGTATCGATACAATGTATCGATACAC
1 TGTATCGATACAATGTATCGATACAC
652116 TGTATCGATACAATGTATCGATACAC
1 TGTATCGATACAATGTATCGATACAC
652142 TGTATCGATACA
1 TGTATCGATACA
652154 GGGTGATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (26 bp):
TGTATCGATACAATGTATCGATACAC
Found at i:654619 original size:20 final size:20
Alignment explanation
Indices: 654596--654668 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
654586 ACAATTCAAA
654596 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
654616 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
654637 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
654657 GTATCGATACAT
1 GTATCGATACAT
654669 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:654640 original size:21 final size:21
Alignment explanation
Indices: 654614--654689 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
654604 ACATGTTGCA
654614 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
654635 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
654655 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
654676 TTGTATCGATACAT
1 ATGTATCGATACAT
654690 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:654647 original size:41 final size:41
Alignment explanation
Indices: 654596--654689 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
654586 ACAATTCAAA
*
654596 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
654637 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
654678 GTATCGATACAT
1 GTATCGATACAT
654690 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:654746 original size:13 final size:13
Alignment explanation
Indices: 654728--654753 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
654718 TACAGCAAGT
654728 ATGTATCGATACA
1 ATGTATCGATACA
654741 ATGTATCGATACA
1 ATGTATCGATACA
654754 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:662413 original size:1 final size:1
Alignment explanation
Indices: 662407--662495 Score: 61
Period size: 1 Copynumber: 89.0 Consensus size: 1
662397 GGCGTCCTCC
** ** * * * * * *
662407 AAAAAAAAAAAACGAAAAAAATGAAAAAAAAAACAAAAAAACAAAACAAAAAAAACAAAAACAAT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
662472 AAAAAAACAAACAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAA
662496 GGGGGTCCGG
Statistics
Matches: 64, Mismatches: 24, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.85, C:0.10, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:662477 original size:43 final size:42
Alignment explanation
Indices: 662406--662495 Score: 123
Period size: 43 Copynumber: 2.2 Consensus size: 42
662396 CGGCGTCCTC
*
662406 CAAAAAAAAAAAACGAAAAAAATGAAAAAAAAAACAAAAAAA
1 CAAAAAAAAAAAACGAAAAAAATAAAAAAAAAAACAAAAAAA
*
662448 CAAAACAAAAAAAAC-AAAAACAATAAAAAAACAAAC--AAAAA
1 CAAAA-AAAAAAAACGAAAAA-AATAAAAAAAAAAACAAAAAAA
662489 CAAAAAA
1 CAAAAAA
662496 GGGGGTCCGG
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
40 2 0.05
41 10 0.23
42 10 0.23
43 22 0.50
ACGTcount: A:0.84, C:0.11, G:0.02, T:0.02
Consensus pattern (42 bp):
CAAAAAAAAAAAACGAAAAAAATAAAAAAAAAAACAAAAAAA
Found at i:662489 original size:21 final size:20
Alignment explanation
Indices: 662406--662495 Score: 96
Period size: 21 Copynumber: 4.3 Consensus size: 20
662396 CGGCGTCCTC
662406 CAAAAAAAAAAAACGAAAAAA
1 CAAAAAAAAAAAAC-AAAAAA
*
662427 -ATGAAAAAAAAAACAAAAAAA
1 CA-AAAAAAAAAAAC-AAAAAA
662448 CAAAACAAAAAAAAC-AAAAA
1 CAAAA-AAAAAAAACAAAAAA
662468 CAATAAAAAAACAAAC-AAAAA
1 CAA-AAAAAAA-AAACAAAAAA
662489 CAAAAAA
1 CAAAAAA
662496 GGGGGTCCGG
Statistics
Matches: 61, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
20 18 0.30
21 33 0.54
22 10 0.16
ACGTcount: A:0.84, C:0.11, G:0.02, T:0.02
Consensus pattern (20 bp):
CAAAAAAAAAAAACAAAAAA
Found at i:663973 original size:27 final size:27
Alignment explanation
Indices: 663932--664072 Score: 138
Period size: 27 Copynumber: 5.0 Consensus size: 27
663922 CAGTCATCAC
*
663932 CCTTCAAAAGTCCACAAGTCAGTGGCAA
1 CCTTC-AAAGCCCACAAGTCAGTGGCAA
* *
663960 CCTTCAAAGCCCACAAATCAGTGGCAC
1 CCTTCAAAGCCCACAAGTCAGTGGCAA
* *
663987 CCTTTTCCGAAGTCCACAAGTCAGTGGCAA
1 CC--TT-CAAAGCCCACAAGTCAGTGGCAA
* *
664017 CCTTCAAAGCCCACAAATCAGTGGCAC
1 CCTTCAAAGCCCACAAGTCAGTGGCAA
* *
664044 CCTTTTCCGAAGCCCACAAGTCGGTGGCA
1 CC--TT-CAAAGCCCACAAGTCAGTGGCA
664073 TCTTTTCCAA
Statistics
Matches: 93, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
27 42 0.45
28 7 0.08
29 4 0.04
30 40 0.43
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.18
Consensus pattern (27 bp):
CCTTCAAAGCCCACAAGTCAGTGGCAA
Found at i:664011 original size:30 final size:30
Alignment explanation
Indices: 663938--664381 Score: 353
Period size: 30 Copynumber: 15.0 Consensus size: 30
663928 TCACCCTTCA
* *
663938 AAAGTCCACAAGTCAGTGGCAACC--TT-C
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
*
663965 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* * *
663995 GAAGTCCACAAGTCAGTGGCAACC--TT-C
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
*
664022 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* * *
664052 GAAGCCCACAAGTCGGTGGCA-TCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* * * * *
664081 AAAGTCCACACCACAACTCCGTAGCACTCTTTTTCTTTT
1 AAAG----C-CCACAAGTCAGTGGCAC-CCTTTTC---C
** * *
664120 TCAGCCCACAAGTTAGTGGCACCCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
*** *
664150 AAAGCCCACAAGTCAGTGGCATATTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* * *
664180 AAAGCCTACAAGTCAGTGGCAACC-TTT-A
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* *
664208 AAAGCCCACAAGTTAGTGGCACCCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
** *
664238 AAAGCCCACAAGTCAGTGGCA-TATTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* *
664267 AAAGCCCACAAGTCAGTGGCAACC-TTT-A
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
*
664295 AAAGCCCACAAGTCAGTGGCAACC--TT-C
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* *
664322 AAAGCCCACAAATCAGTGGCACCTTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
* *
664352 GAAGCCCACAAGTCGGTGGCA-CCTTTTCC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
664381 A
1 A
664382 TCTTTAAGTC
Statistics
Matches: 335, Mismatches: 60, Indels: 42
0.77 0.14 0.10
Matches are distributed among these distances:
27 65 0.19
28 48 0.14
29 57 0.17
30 124 0.37
33 7 0.02
34 26 0.08
35 1 0.00
36 5 0.01
39 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.23
Consensus pattern (30 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTTCC
Found at i:664015 original size:57 final size:57
Alignment explanation
Indices: 663934--664376 Score: 415
Period size: 57 Copynumber: 7.5 Consensus size: 57
663924 GTCATCACCC
*
663934 TTCAAAAGTCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTT
** *
663991 TTCCGAAGTCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTT
** * * * * * *
664048 TTCCGAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCCACACCACAACTCCGTAGCACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC-CTT-CAAAG-CC-CA-CA-AA-TCAGTGGCAC-CCTT
*** * * * ***
664113 TTCTTTTTCAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTC---AAAAGCCCACAAGTCAGTGGCAACC--TTC-AAAGCCCACAAATCAGTGGCACCCTT
* * * *
664176 TTCAAAAGCCTACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACC-TTCAAAGCCCACAAATCAGTGGCACCCTT
** * *
664234 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCA-A-CCTTCAAAGCCCACAAATCAGTGGCACCCTT
*
664292 TT-AAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTT
** *
664348 TTCCGAAGCCCACAAGTCGGTGGC-ACCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
664377 TTCCATCTTT
Statistics
Matches: 322, Mismatches: 46, Indels: 37
0.80 0.11 0.09
Matches are distributed among these distances:
55 24 0.07
56 9 0.03
57 119 0.37
58 51 0.16
59 33 0.10
60 21 0.07
61 2 0.01
62 2 0.01
63 8 0.02
64 15 0.05
65 7 0.02
66 2 0.01
67 2 0.01
68 21 0.07
69 6 0.02
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.23
Consensus pattern (57 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTT
Found at i:664425 original size:52 final size:52
Alignment explanation
Indices: 664368--664545 Score: 194
Period size: 52 Copynumber: 3.5 Consensus size: 52
664358 CACAAGTCGG
* *
664368 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCCGACCTTGAATCAGCACAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* *
664420 TGGCA-------C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
*
664463 TGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACAT
1 TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
* * *
664515 TGACATCCTTTTTCTCAACTTTAAGCCCAAT
1 TGGCA-CC-TTTTC-CATCTTTAAGTCCAAT
664546 ATCATTGGCC
Statistics
Matches: 103, Mismatches: 11, Indels: 21
0.76 0.08 0.16
Matches are distributed among these distances:
43 38 0.37
45 1 0.01
50 1 0.01
52 43 0.42
53 2 0.02
54 5 0.05
55 13 0.13
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.33
Consensus pattern (52 bp):
TGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAT
Found at i:664451 original size:43 final size:43
Alignment explanation
Indices: 664383--664472 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
664373 CCTTTTCCAT
*
664383 CTTTAAGTCCAATGTAGCCGACCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
* * *
664426 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
664469 CTTT
1 CTTT
664473 TCCATCTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
Found at i:665433 original size:20 final size:20
Alignment explanation
Indices: 665389--665446 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
665379 ATTTCAACGA
***
665389 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATATTTT
*
665409 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATATTTT
*
665429 TTTGTGTCGATACA-ATTT
1 TTTGTATCGATACATATTT
665447 AAGCTACTAC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 4 0.12
20 28 0.88
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.47
Consensus pattern (20 bp):
TTTGTATCGATACATATTTT
Done.