Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 51 of 343
Found at i:16913844 original size:37 final size:37
Alignment explanation
Indices: 16913725--16913966 Score: 200
Period size: 37 Copynumber: 6.5 Consensus size: 37
16913715 TGGGATGATG
* * * *
16913725 AGGGTTGAAGGAAGAGGGAAGAAAATAAGGAGATTGA
1 AGGGTTGAAGGAAGAGGGAAGAAAGTAGGGAGCTTCA
* * * *
16913762 AGGGCTGAAGGAAGAAGGAAGAAAGTAGGGAGTTTGA
1 AGGGTTGAAGGAAGAGGGAAGAAAGTAGGGAGCTTCA
* * * * *
16913799 AAGCTTGAAGCAAGAGGGAAGAATGTAGGGATCTTCA
1 AGGGTTGAAGGAAGAGGGAAGAAAGTAGGGAGCTTCA
* ** *
16913836 AGGGTTGAATGAATCGAGAAGAAAGTAGGGAGCTTCA
1 AGGGTTGAAGGAAGAGGGAAGAAAGTAGGGAGCTTCA
* * * **
16913873 AGGGTTGAAGAAAAAGGAAAGATTGTAGGGAGCTTGC-
1 AGGGTTGAAGGAAGAGGGAAGAAAGTAGGGAGCTT-CA
* * *
16913910 AGGGTTGAAGGAATCA-AGAAGAAAGTAGGGAGCTTGA
1 AGGGTTGAAGGAA-GAGGGAAGAAAGTAGGGAGCTTCA
* * *
16913947 GGGGTTGATGGAAAAGGGAA
1 AGGGTTGAAGGAAGAGGGAA
16913967 AATTGTAAAG
Statistics
Matches: 159, Mismatches: 42, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
36 1 0.01
37 156 0.98
38 2 0.01
ACGTcount: A:0.40, C:0.05, G:0.39, T:0.17
Consensus pattern (37 bp):
AGGGTTGAAGGAAGAGGGAAGAAAGTAGGGAGCTTCA
Found at i:16913952 original size:74 final size:74
Alignment explanation
Indices: 16913753--16913996 Score: 258
Period size: 74 Copynumber: 3.3 Consensus size: 74
16913743 AAGAAAATAA
* * * * * * * * *
16913753 GGAGATTGAAGGGCTGAAGGAA-GAAGGAAGAAAGTAGGGAGTTTGAAAGCTTGAAGCAAGAGGG
1 GGAGCTTGAAGGGTTGAAGGAATCAA-GAAGAAAGTAGGGAGCTTGAAGGGTTGAAGAAAAAGGA
*
16913817 AAGAATGTAG
65 AAGATTGTAG
* * * * *
16913827 GGATCTTCAAGGGTTGAATGAATCGAGAAGAAAGTAGGGAGCTTCAAGGGTTGAAGAAAAAGGAA
1 GGAGCTTGAAGGGTTGAAGGAATCAAGAAGAAAGTAGGGAGCTTGAAGGGTTGAAGAAAAAGGAA
16913892 AGATTGTAG
66 AGATTGTAG
* * * *
16913901 GGAGCTTGCAGGGTTGAAGGAATCAAGAAGAAAGTAGGGAGCTTGAGGGGTTGATGGAAAAGGGA
1 GGAGCTTGAAGGGTTGAAGGAATCAAGAAGAAAGTAGGGAGCTTGAAGGGTTGA-AGAAAAAGGA
*
16913966 AA-ATTGTAA
65 AAGATTGTAG
* *
16913975 AGAGCTTGAAGGGTTAAAGGAA
1 GGAGCTTGAAGGGTTGAAGGAA
16913997 CGCGTGTAAT
Statistics
Matches: 140, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
74 129 0.92
75 11 0.08
ACGTcount: A:0.39, C:0.05, G:0.38, T:0.18
Consensus pattern (74 bp):
GGAGCTTGAAGGGTTGAAGGAATCAAGAAGAAAGTAGGGAGCTTGAAGGGTTGAAGAAAAAGGAA
AGATTGTAG
Found at i:16916181 original size:27 final size:27
Alignment explanation
Indices: 16916134--16916291 Score: 146
Period size: 27 Copynumber: 5.9 Consensus size: 27
16916124 CGAGGCTGCC
* *
16916134 AGATATTGTGAC-GAAGTCACCAGATAG
1 AGATATTGTGGCAG-AGCCACCAGATAG
* *
16916161 AAATATTGTGGCAGAGCCACCAGA-AC
1 AGATATTGTGGCAGAGCCACCAGATAG
*
16916187 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATAT-TGTGGCAGAGCCACCAGATAG
* * *
16916214 AGATAATCGTGGCATAGCCACCAGA-AC
1 AGAT-ATTGTGGCAGAGCCACCAGATAG
*
16916241 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATAT-TGTGGCAGAGCCACCAGATAG
*
16916268 AGATAATTGTGGCATAGCCACCAG
1 AGAT-ATTGTGGCAGAGCCACCAG
16916292 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
26 8 0.07
27 100 0.88
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (27 bp):
AGATATTGTGGCAGAGCCACCAGATAG
Found at i:16916226 original size:54 final size:54
Alignment explanation
Indices: 16916151--16916291 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
16916141 GTGACGAAGT
* *
16916151 CACCAGAT-AGAAATATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATA-ATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
16916205 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
16916259 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
16916292 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
54 78 0.95
55 4 0.05
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:16916459 original size:28 final size:26
Alignment explanation
Indices: 16916397--16916470 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 26
16916387 AAATTAATCC
** * *
16916397 TAGGGGTATAACGGTAATTTTGCACC
1 TAGGGGTATAATAGTAATTTTCCACA
16916423 TAGGGGTATAATAGTAATTTTCCATACA
1 TAGGGGTATAATAGTAATTTTCC--ACA
*
16916451 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
16916471 AGCTACTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 20 0.49
28 21 0.51
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.36
Consensus pattern (26 bp):
TAGGGGTATAATAGTAATTTTCCACA
Found at i:16917944 original size:26 final size:26
Alignment explanation
Indices: 16917913--16918020 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
16917903 TGAAATGCCC
*
16917913 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
16917939 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
16917965 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
16917991 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16918017 ATCA
1 ATCA
16918021 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:16919564 original size:18 final size:19
Alignment explanation
Indices: 16919541--16919584 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
16919531 ATAATCAATA
16919541 TTTTTTTATCTT-TTTATC
1 TTTTTTTATCTTATTTATC
*
16919559 TTTTTTT-TCTTATTTTTC
1 TTTTTTTATCTTATTTATC
16919577 TTTTTTTA
1 TTTTTTTA
16919585 ATCTAGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTTTATCTTATTTATC
Found at i:16919583 original size:9 final size:9
Alignment explanation
Indices: 16919541--16919583 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
16919531 ATAATCAATA
16919541 TTTTTTTATC
1 TTTTTTT-TC
*
16919551 -TTTTTATC
1 TTTTTTTTC
16919559 TTTTTTTTC
1 TTTTTTTTC
*
16919568 TTATTTTTC
1 TTTTTTTTC
16919577 TTTTTTT
1 TTTTTTT
16919584 AATCTAGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
8 2 0.07
9 26 0.93
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:16921231 original size:50 final size:49
Alignment explanation
Indices: 16921119--16921248 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 49
16921109 CTGGTACGCA
* * * **
16921119 TAGTAACCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
*
16921168 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
16921218 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
16921249 TCACAGTTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
49 28 0.38
50 41 0.56
51 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:16921292 original size:101 final size:99
Alignment explanation
Indices: 16921119--16921305 Score: 250
Period size: 101 Copynumber: 1.9 Consensus size: 99
16921109 CTGGTACGCA
* * * *
16921119 TAGTAACCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAACCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGACTGCACTTA
*
16921184 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * * *
16921218 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGACTGCAC
1 TAGTAACCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGACTGCAC
*
16921282 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
16921306 AATAGATCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
98 4 0.05
99 29 0.39
101 42 0.56
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAACCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGACTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:16923545 original size:6 final size:6
Alignment explanation
Indices: 16923528--16923557 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
16923518 ACTCAATTAG
*
16923528 AAATAA ACATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA
16923558 TAACATAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:16923838 original size:16 final size:16
Alignment explanation
Indices: 16923813--16923855 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
16923803 AATTAGTACA
16923813 ATAAAAATAAATAAT-
1 ATAAAAATAAATAATG
16923828 ATAACAAAT-AATAATG
1 ATAA-AAATAAATAATG
16923844 ATAATAAATAAA
1 ATAA-AAATAAA
16923856 ATAAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 10 0.42
16 12 0.50
17 2 0.08
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (16 bp):
ATAAAAATAAATAATG
Found at i:16929191 original size:37 final size:36
Alignment explanation
Indices: 16929140--16929232 Score: 96
Period size: 37 Copynumber: 2.5 Consensus size: 36
16929130 GAAAGTACGG
* * * *
16929140 AGCTTAAAGAGTTAAAGGATTCAAGAATAGACTAGTA
1 AGCTTGAAGGGTTAAAGGA-TCAAGAAGAAACTAGTA
** *
16929177 AGCTTGAAGGGTTAAAGGGATCGGGAAGAAAGTAGTA
1 AGCTTGAAGGGTTAAA-GGATCAAGAAGAAACTAGTA
*
16929214 AGCTTGAAGGGTTGAAGGA
1 AGCTTGAAGGGTTAAAGGA
16929233 AAAGGGAACA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
36 3 0.06
37 41 0.87
38 3 0.06
ACGTcount: A:0.40, C:0.06, G:0.32, T:0.22
Consensus pattern (36 bp):
AGCTTGAAGGGTTAAAGGATCAAGAAGAAACTAGTA
Found at i:16929240 original size:37 final size:37
Alignment explanation
Indices: 16929172--16929248 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
16929162 AAGAATAGAC
* ** *
16929172 TAGTAAGCTTGAAGGGTTAAAGGGATCGGGAAGAAAG
1 TAGTAAGCTTGAAGGGTTAAAGGAAAAGGGAACAAAG
*
16929209 TAGTAAGCTTGAAGGGTTGAAGGAAAAGGGAACAAAG
1 TAGTAAGCTTGAAGGGTTAAAGGAAAAGGGAACAAAG
16929246 TAG
1 TAG
16929249 AGAATTTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.40, C:0.05, G:0.36, T:0.18
Consensus pattern (37 bp):
TAGTAAGCTTGAAGGGTTAAAGGAAAAGGGAACAAAG
Found at i:16932147 original size:16 final size:16
Alignment explanation
Indices: 16932126--16932170 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
16932116 ACCCCTAAAT
*
16932126 ACCTAAGAGGAATGAA
1 ACCTAAGACGAATGAA
16932142 ACCTAAGACGAATGAA
1 ACCTAAGACGAATGAA
16932158 ACCTAAGACGAAT
1 ACCTAAGACGAAT
16932171 CTTGTTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.49, C:0.18, G:0.20, T:0.13
Consensus pattern (16 bp):
ACCTAAGACGAATGAA
Found at i:16936493 original size:20 final size:20
Alignment explanation
Indices: 16936450--16936495 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
16936440 AAAATAATCT
* *
16936450 TCATTTTTCTCATTTTACTT
1 TCATTTTGCTCATTTTACTA
16936470 TCATTTTGCTCATTATT-CTA
1 TCATTTTGCTCATT-TTACTA
16936490 TCATTT
1 TCATTT
16936496 ACTTTGCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.17, C:0.20, G:0.02, T:0.61
Consensus pattern (20 bp):
TCATTTTGCTCATTTTACTA
Found at i:16941322 original size:37 final size:36
Alignment explanation
Indices: 16941280--16941448 Score: 135
Period size: 37 Copynumber: 4.6 Consensus size: 36
16941270 ATATGATGAG
* *
16941280 AGTTGAAGCAAGAAGGAAGAAAGTATGGAGCTTAAAA
1 AGTTGAAGCAAGAGGGAAGAAAGTA-GGAGCTTGAAA
* * * *
16941317 AGTTGAAAG-AATCA-GGAATAAACTAGGAAGCTCGAAA
1 AGTTG-AAGCAA-GAGGGAAGAAAGTAGG-AGCTTGAAA
* * * *
16941354 AGTTGAAGGAATAGGGAAGAAAGTCAGAAGCTTGAAG
1 AGTTGAAGCAAGAGGGAAGAAAGT-AGGAGCTTGAAA
* * ** *
16941391 GGTTGAAGGAAGAGGGAAGAAAGTAGGGAATTTGAAG
1 AGTTGAAGCAAGAGGGAAGAAAGTA-GGAGCTTGAAA
16941428 AGTTGAAGCAAGAGGGAAGAA
1 AGTTGAAGCAAGAGGGAAGAA
16941449 CATAGGGATC
Statistics
Matches: 107, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
36 7 0.07
37 94 0.88
38 6 0.06
ACGTcount: A:0.46, C:0.05, G:0.34, T:0.15
Consensus pattern (36 bp):
AGTTGAAGCAAGAGGGAAGAAAGTAGGAGCTTGAAA
Found at i:16941470 original size:37 final size:34
Alignment explanation
Indices: 16941385--16941493 Score: 94
Period size: 37 Copynumber: 3.0 Consensus size: 34
16941375 AGTCAGAAGC
*
16941385 TTGAAGGGTTGAAGGAAGAGGGAAGAAAGTAGGGAAT
1 TTGAA-GGTTGAAGCAAGAGGGAAGAAA-TAGGG-AT
16941422 TTGAAGAGTTGAAGCAAGAGGGAAGAACATAGGGAT
1 TTGAAG-GTTGAAGCAAGAGGGAAGAA-ATAGGGAT
* **
16941458 CTTTAATGGTTGAATTAA-ATGGGAAGAAAATAGGGA
1 -TTGAA-GGTTGAAGCAAGA-GGGAAG-AAATAGGGA
16941494 GCTTCAAGGG
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
36 4 0.06
37 54 0.87
38 4 0.06
ACGTcount: A:0.41, C:0.03, G:0.36, T:0.20
Consensus pattern (34 bp):
TTGAAGGTTGAAGCAAGAGGGAAGAAATAGGGAT
Found at i:16942671 original size:37 final size:36
Alignment explanation
Indices: 16942627--16942974 Score: 310
Period size: 37 Copynumber: 9.4 Consensus size: 36
16942617 ATGGGATGAT
*
16942627 AAGGGTTGAAGGAAGAGGTAAGAAAGTAGGGACCTTG
1 AAGGGTTGAAGGAAGAGG-AAGAAAGTAGGGAGCTTG
* * * * * *
16942664 AAAGGTTGAAGGAACCGA-GAATAAATTAGGAAGATCG
1 AAGGGTTGAAGGAA--GAGGAAGAAAGTAGGGAGCTTG
*
16942701 AAGGGTTGAAGGAAGTAGGAAGAAAGTAGGGAGTTTG
1 AAGGGTTGAAGGAAG-AGGAAGAAAGTAGGGAGCTTG
* * * *
16942738 AAGGGTTGAAGCAAGAGGGAAGAATGTAGGGATCTTC
1 AAGGGTTGAAGGAAGA-GGAAGAAAGTAGGGAGCTTG
* * *
16942775 AAGGGTTGAATGAATTG-GGAAGAAAGTAGAGAGCTTC
1 AAGGGTTGAAGGAA--GAGGAAGAAAGTAGGGAGCTTG
* * * **
16942812 AAGGATTGAAGGAAAATGAAAGATTGTAGGGAGCTTG
1 AAGGGTTGAAGGAAGA-GGAAGAAAGTAGGGAGCTTG
* *
16942849 AAGGGTTGAAGGAAAAGGAAAGATTA-TAGGGAGCTTG
1 AAGGGTTGAAGGAAGAGG-AAGA-AAGTAGGGAGCTTG
* *
16942886 AAGTGTTGAAGGAATTGA-GAAGAAAATAGGGAGCTTG
1 AAGGGTTGAAGGAA--GAGGAAGAAAGTAGGGAGCTTG
16942923 AAGGGTTGAAGGAAGAGGGAA-AAACGTAGGGAGCTTG
1 AAGGGTTGAAGGAAGA-GGAAGAAA-GTAGGGAGCTTG
*
16942960 AAGGGCTGAAGGAAG
1 AAGGGTTGAAGGAAG
16942975 GCGTGCGATT
Statistics
Matches: 254, Mismatches: 40, Indels: 34
0.77 0.12 0.10
Matches are distributed among these distances:
35 3 0.01
36 7 0.03
37 237 0.93
38 3 0.01
39 4 0.02
ACGTcount: A:0.39, C:0.05, G:0.38, T:0.18
Consensus pattern (36 bp):
AAGGGTTGAAGGAAGAGGAAGAAAGTAGGGAGCTTG
Found at i:16942971 original size:111 final size:107
Alignment explanation
Indices: 16942627--16942974 Score: 345
Period size: 111 Copynumber: 3.1 Consensus size: 107
16942617 ATGGGATGAT
* * ** * *
16942627 AAGGGTTGAAGGAAGAGGTAAGAAAGTAGGGACCTTGAAAGGTTGAAGGAACCGAGAATAAATTA
1 AAGGGTTGAAGGAAGAGGAAAGATA-TAGGGACCTTG-AAGGTTGAAGGAATTGAGAAGAAAATA
* * * *
16942692 GGAAGATCGAAGGGTTGAAGGAAGTAGGAAGAAAGTAGGGAGTTTG
64 GGGAGCTTGAAGGGTTGAAGGAAG-AGGAA-AAAGTAGGGAGCTTG
* * * * * * * *
16942738 AAGGGTTGAAGCAAGAGGGAAGAATGTAGGGATCTTCAAGGGTTGAATGAATTGGGAAGAAAGTA
1 AAGGGTTGAAGGAAGAGGAAAG-ATATAGGGACCTTGAA-GGTTGAAGGAATTGAGAAGAAAATA
* * * * * *
16942803 GAGAGCTTCAAGGATTGAAGGAAAATGAAAGATTGTAGGGAGCTTG
64 GGGAGCTTGAAGGGTTGAAGGAAGAGGAAA-A-AGTAGGGAGCTTG
* *
16942849 AAGGGTTGAAGGAAAAGGAAAGATTATAGGGAGCTTGAAGTGTTGAAGGAATTGAGAAGAAAATA
1 AAGGGTTGAAGGAAGAGGAAAGA-TATAGGGACCTTGAAG-GTTGAAGGAATTGAGAAGAAAATA
16942914 GGGAGCTTGAAGGGTTGAAGGAAGAGGGAAAAACGTAGGGAGCTTG
64 GGGAGCTTGAAGGGTTGAAGGAAGA-GGAAAAA-GTAGGGAGCTTG
*
16942960 AAGGGCTGAAGGAAG
1 AAGGGTTGAAGGAAG
16942975 GCGTGCGATT
Statistics
Matches: 190, Mismatches: 39, Indels: 16
0.78 0.16 0.07
Matches are distributed among these distances:
109 1 0.01
110 9 0.05
111 175 0.92
112 5 0.03
ACGTcount: A:0.39, C:0.05, G:0.38, T:0.18
Consensus pattern (107 bp):
AAGGGTTGAAGGAAGAGGAAAGATATAGGGACCTTGAAGGTTGAAGGAATTGAGAAGAAAATAGG
GAGCTTGAAGGGTTGAAGGAAGAGGAAAAAGTAGGGAGCTTG
Found at i:16944162 original size:37 final size:37
Alignment explanation
Indices: 16944002--16944268 Score: 152
Period size: 37 Copynumber: 7.2 Consensus size: 37
16943992 GATGATGAGC
* * * **
16944002 GTTGAAGGAAAAGGGAAGAAAATAG-GAAGATTGAAAA
1 GTTGAAGGAAGAGGGAAGAAAGTAGAG-AGTTTGAAGG
** * * * *
16944039 GTTGAAGGAATCGGGAATAAACTA-AGAAGCTCGAAGG
1 GTTGAAGGAAGAGGGAAGAAAGTAGAG-AGTTTGAAGG
* * *
16944076 GTTGATGG-AGTTA-GGAAGAAAGTAGAAAGCTTGAAGG
1 GTTGAAGGAAG--AGGGAAGAAAGTAGAGAGTTTGAAGG
16944113 GTTGAAGGAAGAGGGAAGAAAGTAGAGAGTTTGAAGG
1 GTTGAAGGAAGAGGGAAGAAAGTAGAGAGTTTGAAGG
* * * * *
16944150 GTTGAAGCAAGAGGAAAGAACA-TAGGGA-TCTTAAAGA
1 GTTGAAGGAAGAGGGAAGAA-AGTAGAGAGT-TTGAAGG
* ** * * *
16944187 GTTGAATGAATTGGAAAGAAAGTAGGGAGCTTGAAGG
1 GTTGAAGGAAGAGGGAAGAAAGTAGAGAGTTTGAAGG
* ****
16944224 GTTAAAGGAATTTAGAAGAAAGTA-AGGAGTTTGAAGG
1 GTTGAAGGAAGAGGGAAGAAAGTAGA-GAGTTTGAAGG
16944261 GTTGAAGG
1 GTTGAAGG
16944269 GTTGAAGAAA
Statistics
Matches: 181, Mismatches: 38, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
36 4 0.02
37 173 0.96
38 4 0.02
ACGTcount: A:0.42, C:0.03, G:0.36, T:0.19
Consensus pattern (37 bp):
GTTGAAGGAAGAGGGAAGAAAGTAGAGAGTTTGAAGG
Found at i:16954715 original size:24 final size:24
Alignment explanation
Indices: 16954683--16954773 Score: 155
Period size: 24 Copynumber: 3.8 Consensus size: 24
16954673 CAAGCCCATT
*
16954683 TTCACAACTCGTGTGAGCATTATA
1 TTCACAACTCATGTGAGCATTATA
16954707 TTCACAACTCATGTGAGCATTATA
1 TTCACAACTCATGTGAGCATTATA
16954731 TTCACAACTCATGTGAGCATTATA
1 TTCACAACTCATGTGAGCATTATA
* *
16954755 TTCACATCTCGTGTGAGCA
1 TTCACAACTCATGTGAGCA
16954774 CTTCTATCCC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (24 bp):
TTCACAACTCATGTGAGCATTATA
Found at i:16955630 original size:24 final size:24
Alignment explanation
Indices: 16955602--16955652 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
16955592 CATACATTAC
16955602 TAAACCTTATCTACATGCCACTTA
1 TAAACCTTATCTACATGCCACTTA
16955626 TAAACCTTATCTACATGCCACTTA
1 TAAACCTTATCTACATGCCACTTA
16955650 TAA
1 TAA
16955653 CTGAGCCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.33
Consensus pattern (24 bp):
TAAACCTTATCTACATGCCACTTA
Found at i:16956092 original size:13 final size:13
Alignment explanation
Indices: 16956051--16956173 Score: 65
Period size: 13 Copynumber: 9.2 Consensus size: 13
16956041 ATCCAATATT
* *
16956051 CCATTTCATGTAT
1 CCATTTCATATAA
* *
16956064 CTATTTCCACATAA
1 CCATTT-CATATAA
16956078 CCGATTT-ATATAA
1 CC-ATTTCATATAA
*
16956091 CCATTTCATATAT
1 CCATTTCATATAA
*
16956104 CTATTTCCATATAA
1 CCATTT-CATATAA
16956118 --ATGATTCATATAA
1 CCAT--TTCATATAA
**
16956131 CCATTTCATATGT
1 CCATTTCATATAA
*
16956144 CTATTTCCATATAA
1 CCATTT-CATATAA
*
16956158 TC-TATTCATATAA
1 CCAT-TTCATATAA
16956171 CCA
1 CCA
16956174 AGATATATTC
Statistics
Matches: 82, Mismatches: 17, Indels: 21
0.68 0.14 0.17
Matches are distributed among these distances:
12 6 0.07
13 50 0.61
14 20 0.24
15 6 0.07
ACGTcount: A:0.34, C:0.21, G:0.03, T:0.41
Consensus pattern (13 bp):
CCATTTCATATAA
Found at i:16956095 original size:40 final size:40
Alignment explanation
Indices: 16956051--16956173 Score: 174
Period size: 40 Copynumber: 3.1 Consensus size: 40
16956041 ATCCAATATT
* * * *
16956051 CCATTTCATGTATCTATTTCCACATAACCGATTTATATAA
1 CCATTTCATATATCTATTTCCATATAAACGATTCATATAA
*
16956091 CCATTTCATATATCTATTTCCATATAAATGATTCATATAA
1 CCATTTCATATATCTATTTCCATATAAACGATTCATATAA
* * *
16956131 CCATTTCATATGTCTATTTCCATATAATCTATTCATATAA
1 CCATTTCATATATCTATTTCCATATAAACGATTCATATAA
16956171 CCA
1 CCA
16956174 AGATATATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.34, C:0.21, G:0.03, T:0.41
Consensus pattern (40 bp):
CCATTTCATATATCTATTTCCATATAAACGATTCATATAA
Found at i:16956669 original size:21 final size:21
Alignment explanation
Indices: 16956614--16956656 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
16956604 TTCCATGCTT
16956614 AAATTTACCTTTCAAACCATA
1 AAATTTACCTTTCAAACCATA
16956635 AAATTTACCTTTCAAACCATA
1 AAATTTACCTTTCAAACCATA
16956656 A
1 A
16956657 TTTTTCCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATTTACCTTTCAAACCATA
Found at i:16961307 original size:22 final size:21
Alignment explanation
Indices: 16961277--16961335 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 21
16961267 ATGAATTCAC
16961277 AAATATAGGAGCACATAAATGCT
1 AAAT-TAGGAGCACA-AAATGCT
* *
16961300 AAATTAGGAGAACCAAAGTGCT
1 AAATTAGGAGCA-CAAAATGCT
*
16961322 AAATTCTGGAGCAC
1 AAATT-AGGAGCAC
16961336 CAAAGTGTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
22 19 0.63
23 11 0.37
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.20
Consensus pattern (21 bp):
AAATTAGGAGCACAAAATGCT
Found at i:16961337 original size:23 final size:23
Alignment explanation
Indices: 16961283--16961381 Score: 94
Period size: 23 Copynumber: 4.3 Consensus size: 23
16961273 TCACAAATAT
*
16961283 AGGAGCA-CATAAATGCTAAATT-
1 AGGAGCACCA-AAGTGCTAAATTC
*
16961305 AGGAGAACCAAAGTGCTAAATTC
1 AGGAGCACCAAAGTGCTAAATTC
* * **
16961328 TGGAGCACCAAAGTGTTAGTTTC
1 AGGAGCACCAAAGTGCTAAATTC
* *
16961351 AGGAACACCGAAGTGCTAAATTC
1 AGGAGCACCAAAGTGCTAAATTC
*
16961374 ACGAGCAC
1 AGGAGCAC
16961382 GCTAAGATAT
Statistics
Matches: 60, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
22 17 0.28
23 43 0.72
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.20
Consensus pattern (23 bp):
AGGAGCACCAAAGTGCTAAATTC
Found at i:16961797 original size:32 final size:32
Alignment explanation
Indices: 16961761--16961827 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
16961751 CTTATTTTCC
*
16961761 CTTATCTAGACCCCTTCTATCTTCTTCCTTCT
1 CTTATCTACACCCCTTCTATCTTCTTCCTTCT
*
16961793 CTTATCTACACCCCTTCTGTCTTCTTCCTTCT
1 CTTATCTACACCCCTTCTATCTTCTTCCTTCT
16961825 CTT
1 CTT
16961828 TCTCTTCCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.10, C:0.39, G:0.03, T:0.48
Consensus pattern (32 bp):
CTTATCTACACCCCTTCTATCTTCTTCCTTCT
Found at i:16962936 original size:8 final size:8
Alignment explanation
Indices: 16962858--16962940 Score: 55
Period size: 8 Copynumber: 10.0 Consensus size: 8
16962848 TTAAATTTAT
*
16962858 TAAAAATT
1 TAAAAATA
16962866 TAAAAA-A
1 TAAAAATA
16962873 TAAAAATA
1 TAAAAATA
16962881 -AAAAA-A
1 TAAAAATA
*
16962887 TGAAAACTTAA
1 T-AAAA-AT-A
16962898 TAAGAAATA
1 TAA-AAATA
*
16962907 TTAAAATTA
1 -TAAAAATA
*
16962916 TATAAATTA
1 TA-AAAATA
16962925 TAAAAATA
1 TAAAAATA
16962933 TAAAAATA
1 TAAAAATA
16962941 CATTTTTCAA
Statistics
Matches: 61, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
6 1 0.02
7 11 0.18
8 26 0.43
9 13 0.21
10 6 0.10
11 4 0.07
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.28
Consensus pattern (8 bp):
TAAAAATA
Found at i:16963652 original size:12 final size:12
Alignment explanation
Indices: 16963635--16963659 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16963625 AACATGTTAA
16963635 AATATAATTATT
1 AATATAATTATT
16963647 AATATAATTATT
1 AATATAATTATT
16963659 A
1 A
16963660 TTTAGTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AATATAATTATT
Found at i:16963716 original size:11 final size:11
Alignment explanation
Indices: 16963631--16963716 Score: 50
Period size: 11 Copynumber: 7.6 Consensus size: 11
16963621 CTAAAACATG
*
16963631 TTAAAATATAA
1 TTAATATATAA
*
16963642 TTATTAATATAA
1 TTAAT-ATATAA
* * *
16963654 TTATTATTTAG
1 TTAATATATAA
*
16963665 TTAATAATTTAA
1 TTAAT-ATATAA
16963677 TATAAATATATAA
1 T-T-AATATATAA
*
16963690 TTAATATTTAA
1 TTAATATATAA
*
16963701 --CATATATAA
1 TTAATATATAA
16963710 TTAATAT
1 TTAATAT
16963717 TTTTTTATAA
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
9 7 0.12
11 23 0.40
12 18 0.31
13 7 0.12
14 3 0.05
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (11 bp):
TTAATATATAA
Found at i:16963872 original size:35 final size:35
Alignment explanation
Indices: 16963803--16963873 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
16963793 AAAAATGTAC
***
16963803 CTTAAATTTTATTTAAACTCATTTTTCGGGTTTTA
1 CTTAAATTTTATTTAAACTCATTTTTCAAATTTTA
*
16963838 CTTAAATTTTATTTAAACTCATTTTTTAAATTTTA
1 CTTAAATTTTATTTAAACTCATTTTTCAAATTTTA
16963873 C
1 C
16963874 ATTTTGTCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.55
Consensus pattern (35 bp):
CTTAAATTTTATTTAAACTCATTTTTCAAATTTTA
Found at i:16964056 original size:21 final size:21
Alignment explanation
Indices: 16964031--16964071 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16964021 GTAAAATAAA
16964031 AAGAAATAATCATA-ATTTTTT
1 AAGAAA-AATCATATATTTTTT
*
16964052 AAGAAAAATTATATATTTTT
1 AAGAAAAATCATATATTTTT
16964072 ATAAATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (21 bp):
AAGAAAAATCATATATTTTTT
Found at i:16964119 original size:25 final size:26
Alignment explanation
Indices: 16964060--16964119 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 26
16964050 TTAAGAAAAA
16964060 TTATATATTTTTATAAATTTTCCTTTT
1 TTATAT-TTTTTATAAATTTTCCTTTT
* *
16964087 TGAT-TTTTTTGTAAA-TTT-CTATTT
1 TTATATTTTTTATAAATTTTCCT-TTT
16964111 TTATATTTT
1 TTATATTTT
16964120 AAATTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 2 0.07
24 9 0.32
25 13 0.46
26 1 0.04
27 3 0.11
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.68
Consensus pattern (26 bp):
TTATATTTTTTATAAATTTTCCTTTT
Found at i:16978185 original size:15 final size:15
Alignment explanation
Indices: 16978148--16978206 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
16978138 TTTTAAGGTT
*
16978148 AGAGAAAAAGAAAAA
1 AGAGGAAAAGAAAAA
*
16978163 AGA--AAAAAAAAAGA
1 AGAGGAAAAGAAAA-A
16978177 AGAGGAAAAGAAAAA
1 AGAGGAAAAGAAAAA
* *
16978192 GGAGGAAAGGAAAAA
1 AGAGGAAAAGAAAAA
16978207 TGGAGATGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
13 8 0.22
14 4 0.11
15 17 0.46
16 8 0.22
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (15 bp):
AGAGGAAAAGAAAAA
Found at i:16978605 original size:36 final size:36
Alignment explanation
Indices: 16978565--16978640 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
16978555 AATATTGTTG
*
16978565 CTGGTATATTGTTGCTTATGTTGTTATACATGGCTA
1 CTGGTATATTATTGCTTATGTTGTTATACATGGCTA
16978601 CTGGTATATTATTGCTTATGTTGTTATACATGGCTA
1 CTGGTATATTATTGCTTATGTTGTTATACATGGCTA
16978637 CTGG
1 CTGG
16978641 CATACATGGC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.20, C:0.12, G:0.22, T:0.46
Consensus pattern (36 bp):
CTGGTATATTATTGCTTATGTTGTTATACATGGCTA
Found at i:16980263 original size:25 final size:26
Alignment explanation
Indices: 16980229--16980289 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
16980219 GCATGCATAT
*
16980229 TATTAAAAAATACTCACT-GCATGTA
1 TATTAAAAAATACTCAATAGCATGTA
*
16980254 TATTAAAAAATAGTCAATAGCATGTA
1 TATTAAAAAATACTCAATAGCATGTA
16980280 TATTAAAAAA
1 TATTAAAAAA
16980290 AAAGCCATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
25 16 0.48
26 17 0.52
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (26 bp):
TATTAAAAAATACTCAATAGCATGTA
Found at i:16980276 original size:26 final size:25
Alignment explanation
Indices: 16980221--16980289 Score: 95
Period size: 26 Copynumber: 2.8 Consensus size: 25
16980211 CAATCATTGC
*
16980221 ATGCATAT-TATTAAAAAATACTCA
1 ATGCATGTATATTAAAAAATACTCA
* *
16980245 CTGCATGTATATTAAAAAATAGTCA
1 ATGCATGTATATTAAAAAATACTCA
16980270 ATAGCATGTATATTAAAAAA
1 AT-GCATGTATATTAAAAAA
16980290 AAAGCCATAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.15
25 16 0.41
26 17 0.44
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.32
Consensus pattern (25 bp):
ATGCATGTATATTAAAAAATACTCA
Found at i:16980325 original size:96 final size:95
Alignment explanation
Indices: 16980117--16980413 Score: 459
Period size: 96 Copynumber: 3.1 Consensus size: 95
16980107 TAAAAAGCAG
*
16980117 TCACTACATGCATATTATTAAAAAAAATACTTACTGCATGCATATTAAAAAATAGTCAACAACAT
1 TCACTACATGCATATTATT--AAAAAATACTCACTGCATGCATATTAAAAAATAGTCAACAACAT
**
16980182 GTATATTAAAAAACAGTCATACACACTGACAA
64 GTATATTAAAAAACAGTCATACACACCAACAA
* * * * *
16980214 TCATTGCATGCATATTATTAAAAAATACTCACTGCATGTATATTAAAAAATAGTCAATAGCATGT
1 TCACTACATGCATATTATTAAAAAATACTCACTGCATGCATATTAAAAAATAGTCAACAACATGT
* *
16980279 ATATTAAAAAAAAAGCCATACACACCAACAA
66 ATATT-AAAAAACAGTCATACACACCAACAA
*
16980310 TCACTACATGTATATTATTAAAAAATACTCACTGCATGCATATTAAAAAATAGTCAACAACATGT
1 TCACTACATGCATATTATTAAAAAATACTCACTGCATGCATATTAAAAAATAGTCAACAACATGT
16980375 ATATTAAAAAACAGTCATACACACCAACAA
66 ATATTAAAAAACAGTCATACACACCAACAA
*
16980405 TCAATACAT
1 TCACTACAT
16980414 ATTAAAAAAA
Statistics
Matches: 180, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
95 78 0.43
96 85 0.47
97 17 0.09
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.27
Consensus pattern (95 bp):
TCACTACATGCATATTATTAAAAAATACTCACTGCATGCATATTAAAAAATAGTCAACAACATGT
ATATTAAAAAACAGTCATACACACCAACAA
Found at i:16980373 original size:26 final size:26
Alignment explanation
Indices: 16980325--16980391 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
16980315 ACATGTATAT
* **
16980325 TATTAAAAAATACTC-ACTGCATGCA
1 TATTAAAAAATAGTCAACAACATGCA
*
16980350 TATTAAAAAATAGTCAACAACATGTA
1 TATTAAAAAATAGTCAACAACATGCA
*
16980376 TATTAAAAAACAGTCA
1 TATTAAAAAATAGTCA
16980392 TACACACCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 14 0.39
26 22 0.61
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.27
Consensus pattern (26 bp):
TATTAAAAAATAGTCAACAACATGCA
Found at i:16985293 original size:15 final size:15
Alignment explanation
Indices: 16985275--16985304 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16985265 CTTTCAGCTG
16985275 CATCACTACCAGACA
1 CATCACTACCAGACA
16985290 CATCACTACCAGACA
1 CATCACTACCAGACA
16985305 TTTCTTCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.40, G:0.07, T:0.13
Consensus pattern (15 bp):
CATCACTACCAGACA
Found at i:16985485 original size:61 final size:62
Alignment explanation
Indices: 16985407--16985528 Score: 192
Period size: 62 Copynumber: 2.0 Consensus size: 62
16985397 GCATTTTTGT
* * * *
16985407 CAGATAATAACCGATAC-AAAATAATTTAATACAAACGCAACCATTTCTGTTATGCACATGA
1 CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATGA
*
16985468 CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTTTGTCATGCACATG
1 CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATG
16985529 GAAGGAAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
61 15 0.27
62 40 0.73
ACGTcount: A:0.46, C:0.20, G:0.08, T:0.25
Consensus pattern (62 bp):
CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTCTGTCATGCACATGA
Found at i:16985874 original size:6 final size:6
Alignment explanation
Indices: 16985865--16985922 Score: 80
Period size: 6 Copynumber: 9.7 Consensus size: 6
16985855 ATCAGAATAG
* * **
16985865 AAATCA AAATTA AAACCA AAATCA AAATCA AAATCA AAATCA AAATTG
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
16985913 AAATCA AAAT
1 AAATCA AAAT
16985923 TGAAATCGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.66, C:0.14, G:0.02, T:0.19
Consensus pattern (6 bp):
AAATCA
Found at i:16985884 original size:12 final size:12
Alignment explanation
Indices: 16985865--16985934 Score: 86
Period size: 12 Copynumber: 5.8 Consensus size: 12
16985855 ATCAGAATAG
16985865 AAATCAAAATTA
1 AAATCAAAATTA
* *
16985877 AAACCAAAATCA
1 AAATCAAAATTA
*
16985889 AAATCAAAATCA
1 AAATCAAAATTA
*
16985901 AAATCAAAATTG
1 AAATCAAAATTA
*
16985913 AAATCAAAATTG
1 AAATCAAAATTA
*
16985925 AAATCGAAAT
1 AAATCAAAAT
16985935 AACCCAAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 52 1.00
ACGTcount: A:0.63, C:0.13, G:0.04, T:0.20
Consensus pattern (12 bp):
AAATCAAAATTA
Found at i:16985886 original size:18 final size:18
Alignment explanation
Indices: 16985865--16985922 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
16985855 ATCAGAATAG
*
16985865 AAATCAAAATTAAAACCA
1 AAATCAAAATTAAAATCA
*
16985883 AAATCAAAATCAAAATCA
1 AAATCAAAATTAAAATCA
*
16985901 AAATCAAAATTGAAATCA
1 AAATCAAAATTAAAATCA
16985919 AAAT
1 AAAT
16985923 TGAAATCGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.66, C:0.14, G:0.02, T:0.19
Consensus pattern (18 bp):
AAATCAAAATTAAAATCA
Found at i:16985928 original size:18 final size:18
Alignment explanation
Indices: 16985865--16985934 Score: 77
Period size: 18 Copynumber: 3.9 Consensus size: 18
16985855 ATCAGAATAG
** *
16985865 AAATCAAAATTAAAACCA
1 AAATCAAAATCGAAATCA
*
16985883 AAATCAAAATCAAAATCA
1 AAATCAAAATCGAAATCA
*
16985901 AAATCAAAATTGAAATCA
1 AAATCAAAATCGAAATCA
**
16985919 AAATTGAAATCGAAAT
1 AAATCAAAATCGAAAT
16985935 AACCCAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.63, C:0.13, G:0.04, T:0.20
Consensus pattern (18 bp):
AAATCAAAATCGAAATCA
Found at i:16985958 original size:16 final size:16
Alignment explanation
Indices: 16985939--16985976 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
16985929 CGAAATAACC
16985939 CAAAATAACCCTAAAT
1 CAAAATAACCCTAAAT
16985955 CAAAATAACCCTAAAT
1 CAAAATAACCCTAAAT
16985971 CTAAAA
1 C-AAAA
16985977 AATAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.58, C:0.24, G:0.00, T:0.18
Consensus pattern (16 bp):
CAAAATAACCCTAAAT
Found at i:16989563 original size:19 final size:20
Alignment explanation
Indices: 16989539--16989576 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
16989529 CTAATTGTGG
*
16989539 AATTAAAAATTAAA-AAAAT
1 AATTAAAAAATAAACAAAAT
16989558 AATTAAAAAATAAACAAAA
1 AATTAAAAAATAAACAAAA
16989577 CTCATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (20 bp):
AATTAAAAAATAAACAAAAT
Found at i:16990465 original size:39 final size:39
Alignment explanation
Indices: 16990411--16990493 Score: 166
Period size: 39 Copynumber: 2.1 Consensus size: 39
16990401 ATCTTAATTG
16990411 ATAAATTTATTAAAATAAACAAATGAAAGTTATTATAAC
1 ATAAATTTATTAAAATAAACAAATGAAAGTTATTATAAC
16990450 ATAAATTTATTAAAATAAACAAATGAAAGTTATTATAAC
1 ATAAATTTATTAAAATAAACAAATGAAAGTTATTATAAC
16990489 ATAAA
1 ATAAA
16990494 AAAGTGAGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (39 bp):
ATAAATTTATTAAAATAAACAAATGAAAGTTATTATAAC
Found at i:16990487 original size:20 final size:20
Alignment explanation
Indices: 16990425--16990487 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
16990415 ATTTATTAAA
16990425 ATAAACAAATGAAAGTTATT
1 ATAAACAAATGAAAGTTATT
*
16990445 AT-AAC--AT-AAATTTATT
1 ATAAACAAATGAAAGTTATT
16990461 AAAATAAACAAATGAAAGTTATT
1 ---ATAAACAAATGAAAGTTATT
16990484 ATAA
1 ATAA
16990488 CATAAAAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 14
0.68 0.04 0.28
Matches are distributed among these distances:
16 8 0.24
17 2 0.06
19 5 0.15
20 9 0.26
22 2 0.06
23 8 0.24
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (20 bp):
ATAAACAAATGAAAGTTATT
Found at i:16990996 original size:16 final size:16
Alignment explanation
Indices: 16990949--16991003 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 16
16990939 AGACTAGAAC
16990949 AATAATAAATATATTAA
1 AATAATAAATAT-TTAA
* *
16990966 ATTATTAAATA-TTAA
1 AATAATAAATATTTAA
*
16990981 AATAATATATATTTAA
1 AATAATAAATATTTAA
16990997 AA-AATAA
1 AATAATAA
16991004 TATGAACAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
15 16 0.52
16 6 0.19
17 9 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATAATAAATATTTAA
Found at i:17009559 original size:16 final size:16
Alignment explanation
Indices: 17009540--17009570 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17009530 CTTCTTCACT
17009540 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
17009556 TACTTACTTACTTAA
1 TACTCACTTACTTAA
17009571 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:17009576 original size:20 final size:20
Alignment explanation
Indices: 17009537--17009576 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
17009527 AAACTTCTTC
* *
17009537 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
17009557 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
17009577 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:17009891 original size:53 final size:54
Alignment explanation
Indices: 17009762--17010013 Score: 275
Period size: 55 Copynumber: 4.7 Consensus size: 54
17009752 ACACATGTAC
* * * * *
17009762 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA----T-CCTTTTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAAA
* * *
17009811 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCTTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAAA
* * * * *
17009864 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTAT-GAAA
* * *
17009919 CTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAAA
*
17009972 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATC
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATC
17010014 CTTAAACCCT
Statistics
Matches: 171, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
49 34 0.20
53 49 0.29
54 14 0.08
55 74 0.43
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAAA
Found at i:17009953 original size:108 final size:110
Alignment explanation
Indices: 17009809--17010009 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
17009799 ATCCTTTTGA
* *
17009809 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCTTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTCACCAA
17009872 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
17009917 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
17009982 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
17010010 TATCCTTAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:17014390 original size:24 final size:24
Alignment explanation
Indices: 17014363--17014478 Score: 133
Period size: 24 Copynumber: 4.8 Consensus size: 24
17014353 GTTCCGACCC
* *
17014363 ACAGCTCTTAAGAGCATACCGATT
1 ACAGCTCGTGAGAGCATACCGATT
*
17014387 ACAGCTCGTGAGAGCATATCGATT
1 ACAGCTCGTGAGAGCATACCGATT
* * *
17014411 ATAGCTCGTGAGAGTATACCAATT
1 ACAGCTCGTGAGAGCATACCGATT
* *
17014435 ATAGCTCGTGAGAGCATACTGATTT
1 ACAGCTCGTGAGAGCATACCGA-TT
* *
17014460 ACAACTCGTGTGAGCATAC
1 ACAGCTCGTGAGAGCATAC
17014479 ATGTACAGGA
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
24 60 0.77
25 18 0.23
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (24 bp):
ACAGCTCGTGAGAGCATACCGATT
Found at i:17014832 original size:23 final size:23
Alignment explanation
Indices: 17014806--17014851 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
17014796 TATTATTTGC
17014806 CTAAAGAGTAAGCTATATTCTAT
1 CTAAAGAGTAAGCTATATTCTAT
17014829 CTAAAGAGTAAGCTATATTCTAT
1 CTAAAGAGTAAGCTATATTCTAT
17014852 GTTATATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (23 bp):
CTAAAGAGTAAGCTATATTCTAT
Found at i:17019096 original size:21 final size:22
Alignment explanation
Indices: 17019070--17019136 Score: 79
Period size: 21 Copynumber: 3.2 Consensus size: 22
17019060 CATGTGGAGG
17019070 GAGGCACACGGCCGTGTGGAA-
1 GAGGCACACGGCCGTGTGGAAC
*
17019091 GAGGCACACGCCCGTGT-GAAC
1 GAGGCACACGGCCGTGTGGAAC
* *
17019112 TAGGGACACGGCCGTGT-GAAC
1 GAGGCACACGGCCGTGTGGAAC
17019133 -AGGC
1 GAGGC
17019137 CGTGTAACTC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
20 6 0.15
21 34 0.85
ACGTcount: A:0.24, C:0.27, G:0.39, T:0.10
Consensus pattern (22 bp):
GAGGCACACGGCCGTGTGGAAC
Found at i:17020877 original size:34 final size:34
Alignment explanation
Indices: 17020834--17020902 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
17020824 TTTAGAAAAC
17020834 GAACACAAAATAAATACAAAAATCTACATTTCTA
1 GAACACAAAATAAATACAAAAATCTACATTTCTA
17020868 GAACACAAAATAAATACAAAAATCTACATTTCTA
1 GAACACAAAATAAATACAAAAATCTACATTTCTA
17020902 G
1 G
17020903 TATCACAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.55, C:0.17, G:0.04, T:0.23
Consensus pattern (34 bp):
GAACACAAAATAAATACAAAAATCTACATTTCTA
Found at i:17023204 original size:18 final size:19
Alignment explanation
Indices: 17023181--17023216 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
17023171 GAACATAAGG
*
17023181 AAAAGAAGCAGA-GAGAAA
1 AAAAGAAGAAGAGGAGAAA
17023199 AAAAGAAGAAGAGGAGAA
1 AAAAGAAGAAGAGGAGAA
17023217 TGTCTAAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.67, C:0.03, G:0.31, T:0.00
Consensus pattern (19 bp):
AAAAGAAGAAGAGGAGAAA
Found at i:17027400 original size:2 final size:2
Alignment explanation
Indices: 17027393--17027421 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17027383 TTCAGGTTCT
17027393 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
17027422 ACATGTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:17032444 original size:21 final size:21
Alignment explanation
Indices: 17032420--17032463 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
17032410 TATATAATTA
17032420 TATGATGAAAATATATTTAAT
1 TATGATGAAAATATATTTAAT
* * *
17032441 TATGTTTAAAATATTTTTAAT
1 TATGATGAAAATATATTTAAT
17032462 TA
1 TA
17032464 ATAACTCCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (21 bp):
TATGATGAAAATATATTTAAT
Found at i:17032724 original size:35 final size:32
Alignment explanation
Indices: 17032681--17032755 Score: 96
Period size: 35 Copynumber: 2.2 Consensus size: 32
17032671 ATTAAATAAT
*
17032681 TATTTCAAACATCATTATTATTTTTATATGTAAAA
1 TATTTCAAACATCATTATT-TTTATATATG--AAA
**
17032716 TATTTCAAATGTCATTATTTTTATATATGAAA
1 TATTTCAAACATCATTATTTTTATATATGAAA
17032748 TATTTCAA
1 TATTTCAA
17032756 TTAATTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 11 0.30
34 9 0.24
35 17 0.46
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (32 bp):
TATTTCAAACATCATTATTTTTATATATGAAA
Found at i:17032765 original size:30 final size:32
Alignment explanation
Indices: 17032697--17032765 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
17032687 AAACATCATT
* *
17032697 ATTATTTTTATATGTAAAATATTTCAAATGTC
1 ATTATTTTTATATATAAAATATTTCAAATGTA
*
17032729 ATTATTTTTATATATGAAATATTTC-AAT-TA
1 ATTATTTTTATATATAAAATATTTCAAATGTA
17032759 ATTATTT
1 ATTATTT
17032766 CAAATACCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 8 0.24
31 3 0.09
32 23 0.68
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (32 bp):
ATTATTTTTATATATAAAATATTTCAAATGTA
Found at i:17032767 original size:45 final size:45
Alignment explanation
Indices: 17032716--17032817 Score: 150
Period size: 45 Copynumber: 2.3 Consensus size: 45
17032706 ATATGTAAAA
** * *
17032716 TATTTCAAATGTCATTATTTTTATATATGAAATATTTCAATTAAT
1 TATTTCAAATACCATTATGTTTATATATGAAATATTTCAAATAAT
* *
17032761 TATTTCAAATACCATTATGTTTATATGTTAAATATTTCAAATAAT
1 TATTTCAAATACCATTATGTTTATATATGAAATATTTCAAATAAT
17032806 TATTTCAAATAC
1 TATTTCAAATAC
17032818 ACATACAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (45 bp):
TATTTCAAATACCATTATGTTTATATATGAAATATTTCAAATAAT
Found at i:17033306 original size:93 final size:92
Alignment explanation
Indices: 17033157--17033330 Score: 235
Period size: 93 Copynumber: 1.9 Consensus size: 92
17033147 TATTTAACAC
* *
17033157 AATGATAAATATAAAAAATATTTTTATTATATAATTATAATTATTAATTTATTTATATAAATAAA
1 AATGATAAATATAAAAAATATATTTATTATATAATTATAATTATTAATTTATTTATATAAAGAAA
* *
17033222 GGATTTATTAATTAAAAATATTTTTAT
66 AGAGTTATTAATTAAAAATATTTTTAT
* * * *
17033249 AATGATATATATAAAATATATATTT-TTATATAATTACATATTTATT-ATATTGTTTATATAAAG
1 AATGATAAATATAAAAAATATATTTATTATATAATT--ATAATTATTAAT-TTATTTATATAAAG
17033312 AAAAGAGTTATTAATTAAA
63 AAAAGAGTTATTAATTAAA
17033331 GAGATGATTA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
91 10 0.14
92 24 0.34
93 37 0.52
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.47
Consensus pattern (92 bp):
AATGATAAATATAAAAAATATATTTATTATATAATTATAATTATTAATTTATTTATATAAAGAAA
AGAGTTATTAATTAAAAATATTTTTAT
Found at i:17033383 original size:13 final size:13
Alignment explanation
Indices: 17033365--17033389 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17033355 ATAATATATT
17033365 TATTAATTAAAAA
1 TATTAATTAAAAA
17033378 TATTAATTAAAA
1 TATTAATTAAAA
17033390 TTTTTTAAAA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:17037598 original size:5 final size:5
Alignment explanation
Indices: 17037584--17037631 Score: 62
Period size: 5 Copynumber: 9.6 Consensus size: 5
17037574 AAATAGAAAG
* *
17037584 ATTTT ATTTT GTTTT ATTTT ATTTTT ATTTT -TATT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT A-TTTT ATTTT ATTTT ATTTT ATTTT ATT
17037632 AATTTAGGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 3 0.08
5 29 0.78
6 5 0.14
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:17037620 original size:20 final size:21
Alignment explanation
Indices: 17037585--17037628 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
17037575 AATAGAAAGA
*
17037585 TTTTATTTTGTTTTATTTTAT
1 TTTTATTTTGTATTATTTTAT
17037606 TTTTATTTT-TATTATTTTAT
1 TTTTATTTTGTATTATTTTAT
17037626 TTT
1 TTT
17037629 ATTAATTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (21 bp):
TTTTATTTTGTATTATTTTAT
Found at i:17037630 original size:13 final size:13
Alignment explanation
Indices: 17037595--17037637 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
17037585 TTTTATTTTG
17037595 TTTTATTTTA-T-
1 TTTTATTTTATTA
17037606 TTTTATTTTTATTA
1 TTTTA-TTTTATTA
17037620 TTTTATTTTATTA
1 TTTTATTTTATTA
*
17037633 ATTTA
1 TTTTA
17037638 GGTTAGGCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 5 0.18
12 5 0.18
13 13 0.46
14 5 0.18
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTATTTTATTA
Found at i:17038148 original size:12 final size:12
Alignment explanation
Indices: 17038131--17038172 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
17038121 CCACTCTAGC
17038131 CACGACCCTTGA
1 CACGACCCTTGA
* * *
17038143 CACGACTCTAGC
1 CACGACCCTTGA
17038155 CACGACCCTTGA
1 CACGACCCTTGA
17038167 CACGAC
1 CACGAC
17038173 ATTCTGTTCA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.26, C:0.43, G:0.17, T:0.14
Consensus pattern (12 bp):
CACGACCCTTGA
Found at i:17038153 original size:24 final size:24
Alignment explanation
Indices: 17038123--17038172 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
17038113 CCCTACTACC
17038123 ACTCTAGCCACGACCCTTGACACG
1 ACTCTAGCCACGACCCTTGACACG
17038147 ACTCTAGCCACGACCCTTGACACG
1 ACTCTAGCCACGACCCTTGACACG
17038171 AC
1 AC
17038173 ATTCTGTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.42, G:0.16, T:0.16
Consensus pattern (24 bp):
ACTCTAGCCACGACCCTTGACACG
Found at i:17042230 original size:5 final size:5
Alignment explanation
Indices: 17042220--17042277 Score: 82
Period size: 5 Copynumber: 11.6 Consensus size: 5
17042210 AAATAGCAAG
* *
17042220 ATTTT ATTTT ATTTT GTTTT ATTTT ATTTTT ATTTT -TATT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT A-TTTT ATTTT ATTTT ATTTT ATTTT
17042270 ATTTT ATT
1 ATTTT ATT
17042278 AATTTAGGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
4 3 0.06
5 39 0.83
6 5 0.11
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:17046872 original size:26 final size:25
Alignment explanation
Indices: 17046785--17046872 Score: 65
Period size: 26 Copynumber: 3.5 Consensus size: 25
17046775 ATAGGATTAT
*
17046785 TATTAAATATAATTTAAT-AAAA-AA
1 TATT-AATTTAATTTAATAAAAATAA
* * * *
17046809 -ATTAATTATATTTTAATATAATTAT
1 TATTAATT-TAATTTAATAAAAATAA
*
17046834 TATTAAATATAATTTAATAAAAATAA
1 TATT-AATTTAATTTAATAAAAATAA
17046860 TATATAATTTAAT
1 TAT-TAATTTAAT
17046873 AACATTCTTA
Statistics
Matches: 47, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
22 3 0.06
23 11 0.23
24 2 0.04
25 1 0.02
26 26 0.55
27 4 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TATTAATTTAATTTAATAAAAATAA
Found at i:17049679 original size:11 final size:11
Alignment explanation
Indices: 17049631--17049679 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
17049621 TGTTTTCTCC
17049631 TTATTTTGCTA
1 TTATTTTGCTA
** *
17049642 CCATTTTACTA
1 TTATTTTGCTA
*
17049653 TTATGTTGCTA
1 TTATTTTGCTA
*
17049664 TTATTTTGCTG
1 TTATTTTGCTA
17049675 TTATT
1 TTATT
17049680 GTTTGGATAT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.18, C:0.12, G:0.10, T:0.59
Consensus pattern (11 bp):
TTATTTTGCTA
Found at i:17056279 original size:45 final size:45
Alignment explanation
Indices: 17056228--17056365 Score: 172
Period size: 45 Copynumber: 3.1 Consensus size: 45
17056218 ATGAGGAAGA
* * * * *
17056228 ATTGGTGGCTTCGTCTACAACCTACATGGCAGCTTGTCTGCGAAT
1 ATTGGTGGCTTCATCCACAACCTACATGGAAGCTTGTCTACAAAT
*
17056273 ATTGGTGGCTTCATCCACAACCTACATGAAAGCTTGTCTACAAAT
1 ATTGGTGGCTTCATCCACAACCTACATGGAAGCTTGTCTACAAAT
* * * *
17056318 ATTGGTAG-TTTATCCACAACTTACATGGTAGCTTGTCTACAAAT
1 ATTGGTGGCTTCATCCACAACCTACATGGAAGCTTGTCTACAAAT
17056362 -TTGG
1 ATTGG
17056366 AGTGTCTGGA
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 4 0.05
44 32 0.39
45 46 0.56
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (45 bp):
ATTGGTGGCTTCATCCACAACCTACATGGAAGCTTGTCTACAAAT
Found at i:17056359 original size:23 final size:23
Alignment explanation
Indices: 17056230--17056359 Score: 61
Period size: 23 Copynumber: 5.7 Consensus size: 23
17056220 GAGGAAGAAT
* *
17056230 TGGTGGCTTCGTCTACAACCTACA
1 TGGTAGCTT-GTCTACAACATACA
* * * *
17056254 TGGCAGCTTGTCTGCGA-ATA-T
1 TGGTAGCTTGTCTACAACATACA
* * * *
17056275 TGGTGGCTTCATCCACAACCTACA
1 TGGTAGCTT-GTCTACAACATACA
** *
17056299 TGAAAGCTTGTCTACAA-ATA-T
1 TGGTAGCTTGTCTACAACATACA
* * * *
17056320 TGGTAGTTTATCCACAACTTACA
1 TGGTAGCTTGTCTACAACATACA
17056343 TGGTAGCTTGTCTACAA
1 TGGTAGCTTGTCTACAA
17056360 ATTTGGAGTG
Statistics
Matches: 70, Mismatches: 31, Indels: 11
0.62 0.28 0.10
Matches are distributed among these distances:
21 19 0.27
22 10 0.14
23 28 0.40
24 13 0.19
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (23 bp):
TGGTAGCTTGTCTACAACATACA
Found at i:17058540 original size:16 final size:15
Alignment explanation
Indices: 17058515--17058544 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
17058505 CAATTTGATT
17058515 AAAAAAAAGAAGAAG
1 AAAAAAAAGAAGAAG
17058530 AAAAGAAAAGAAGAA
1 AAAA-AAAAGAAGAA
17058545 TTTAAAGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAGAAG
Found at i:17059092 original size:21 final size:20
Alignment explanation
Indices: 17059034--17059093 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
17059024 TTATCAAATG
* *
17059034 TATATAAATAT-TAAATATA
1 TATATAAATATAAAAATAAA
* *
17059053 TATATAAAAATAGAAATAAA
1 TATATAAATATAAAAATAAA
17059073 TATATAAATTATAAAAATAAA
1 TATATAAA-TATAAAAATAAA
17059094 AATTACATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 10 0.29
20 14 0.41
21 10 0.29
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
TATATAAATATAAAAATAAA
Found at i:17059833 original size:22 final size:23
Alignment explanation
Indices: 17059808--17059857 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
17059798 ACAATTTTTT
*
17059808 ATTTTTTTTTAA-AAATTTACAA
1 ATTTTTTTTTAACAAATTTAAAA
*
17059830 A-TTTTTTTTAACAATTTTAAAA
1 ATTTTTTTTTAACAAATTTAAAA
17059852 ATTTTT
1 ATTTTT
17059858 AATATATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.42
22 10 0.42
23 4 0.17
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTTTTTTTTAACAAATTTAAAA
Found at i:17059834 original size:21 final size:22
Alignment explanation
Indices: 17059810--17059857 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
17059800 AATTTTTTAT
*
17059810 TTTTTTTTAA-AAATTTACAAA
1 TTTTTTTTAACAAATTTAAAAA
*
17059831 TTTTTTTTAACAATTTTAAAAA
1 TTTTTTTTAACAAATTTAAAAA
17059853 TTTTT
1 TTTTT
17059858 AATATATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTTTTTTAACAAATTTAAAAA
Found at i:17065383 original size:35 final size:35
Alignment explanation
Indices: 17065344--17065509 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
17065334 CATGGAAAAG
*
17065344 TGTGAAATGTAGGTATGGTATCATCCGTACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
* *
17065379 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
17065414 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * * **
17065454 TAAGAAATGTAGGTATGATAT-TTCCCATACCAAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGT
**
17065489 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
17065510 TTCAATGAGG
Statistics
Matches: 111, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
34 1 0.01
35 77 0.69
37 3 0.03
38 3 0.03
40 27 0.24
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:17065468 original size:75 final size:75
Alignment explanation
Indices: 17065344--17065514 Score: 203
Period size: 75 Copynumber: 2.4 Consensus size: 75
17065334 CATGGAAAAG
* ** *
17065344 TGTGAAATGTAGGTATGG---TATC--ATCCGTACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGATATT-TC
**
17065403 CCATACTGAGC
65 CCATACCAAGC
17065414 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGATATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGATATTTCC
*
17065479 CATACCAAGT
66 CATACCAAGC
**
17065489 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
17065515 TGAGGAAAAC
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 59 0.69
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGATATTTCC
CATACCAAGC
Found at i:17072803 original size:93 final size:93
Alignment explanation
Indices: 17072695--17072867 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
17072685 CGCCCATAAG
* * * * *
17072695 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACGCTCGCATCCATAAATGAACTCGGACTCAACTCA
17072760 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
17072788 CGAACTCGGGCTCAACTCAACAAGTTCGGACGCTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACGCTCGCATCCATAAATGAACTCGGACTCAACTCA
*
17072853 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
17072868 CAAATATCCT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACGCTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:17072863 original size:46 final size:46
Alignment explanation
Indices: 17072696--17072863 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 46
17072686 GCCCATAAGC
* * * *
17072696 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCATCCATAAAT
* * * ** *
17072742 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACG-CTAGCATCCAT-AAAT
* * * *
17072789 GAACTCGGGCTCAACTCAACAAGTTCGGACGCTCGCATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCATCCATAAAT
*
17072835 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
17072864 TGCCCAAATA
Statistics
Matches: 97, Mismatches: 22, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
46 64 0.66
47 33 0.34
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCATCCATAAAT
Found at i:17074672 original size:53 final size:53
Alignment explanation
Indices: 17074609--17074716 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
17074599 CTACTTTTTG
*
17074609 TAAGTATTTGTAGGACAAATTTATGAGATTATAATTGCACTTTCCTTGACAAT
1 TAAGTATTTGTAGGACAAATTTATGAGATTATAATTGCACTGTCCTTGACAAT
* *
17074662 TAAGTATTTGTAGGACAAATTTGTGAGATTATAATTGCACTGTCCTTGGCAAT
1 TAAGTATTTGTAGGACAAATTTATGAGATTATAATTGCACTGTCCTTGACAAT
17074715 TA
1 TA
17074717 TAATTCAAAC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (53 bp):
TAAGTATTTGTAGGACAAATTTATGAGATTATAATTGCACTGTCCTTGACAAT
Found at i:17075336 original size:18 final size:19
Alignment explanation
Indices: 17075301--17075335 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
17075291 AAATGAAAAT
17075301 AAATATAAAAATAATTTTA
1 AAATATAAAAATAATTTTA
17075320 AAATA-AAAAAT-ATTTT
1 AAATATAAAAATAATTTT
17075336 TTTTCAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 6 0.38
19 5 0.31
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATATAAAAATAATTTTA
Found at i:17079409 original size:6 final size:7
Alignment explanation
Indices: 17079392--17079418 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17079382 TGAGAGAAGT
17079392 TTTTTTC
1 TTTTTTC
17079399 TTTTTTC
1 TTTTTTC
17079406 TTTTTTC
1 TTTTTTC
17079413 TTTTTT
1 TTTTTT
17079419 GGGTTTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:17081321 original size:61 final size:61
Alignment explanation
Indices: 17081226--17081352 Score: 236
Period size: 61 Copynumber: 2.1 Consensus size: 61
17081216 GAATATTGAC
*
17081226 TTCAAGGGTATCAATAACCCTGAGCTAGGTATTGGTACCTAAGTGCAGGACAGACTAAAAA
1 TTCAAGGGTATCAATAACCCTGAGCTAGGTATTGGTACCTAAATGCAGGACAGACTAAAAA
*
17081287 TTCAAGGGTATCAATAACCCTGAGCTAGGTATTGGTACCTAAATGTAGGACAGACTAAAAA
1 TTCAAGGGTATCAATAACCCTGAGCTAGGTATTGGTACCTAAATGCAGGACAGACTAAAAA
17081348 TTCAA
1 TTCAA
17081353 CTCAAACACT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.24
Consensus pattern (61 bp):
TTCAAGGGTATCAATAACCCTGAGCTAGGTATTGGTACCTAAATGCAGGACAGACTAAAAA
Found at i:17083403 original size:8 final size:8
Alignment explanation
Indices: 17083390--17083436 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
17083380 TATAATATTG
17083390 TTATAAAA
1 TTATAAAA
17083398 TTATAAAA
1 TTATAAAA
*
17083406 -TATATAA
1 TTATAAAA
17083413 TTAT-AAA
1 TTATAAAA
*
17083420 TTTTAAAA
1 TTATAAAA
*
17083428 TTTTAAAA
1 TTATAAAA
17083436 T
1 T
17083437 AATATATAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
7 11 0.32
8 23 0.68
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TTATAAAA
Found at i:17083414 original size:15 final size:15
Alignment explanation
Indices: 17083391--17083437 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
17083381 ATAATATTGT
17083391 TATAAAATTATAAAA
1 TATAAAATTATAAAA
* *
17083406 TATATAATTATAAAT
1 TATAAAATTATAAAA
* *
17083421 TTTAAAATTTTAAAA
1 TATAAAATTATAAAA
17083436 TA
1 TA
17083438 ATATATAAGA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TATAAAATTATAAAA
Found at i:17083450 original size:21 final size:21
Alignment explanation
Indices: 17083424--17083475 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 21
17083414 TATAAATTTT
17083424 AAAATTTTAAAATAATATATA
1 AAAATTTTAAAATAATATATA
* ** *
17083445 AGAA--TTAAAATTTTTTATA
1 AAAATTTTAAAATAATATATA
17083464 AAAATTTTAAAA
1 AAAATTTTAAAA
17083476 AAAGTATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
19 15 0.62
21 9 0.38
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
AAAATTTTAAAATAATATATA
Found at i:17083569 original size:23 final size:23
Alignment explanation
Indices: 17083523--17083574 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
17083513 TTTAAAAACT
** *
17083523 TTTTAGAATTTTATAATTATATA
1 TTTTAGAATTTTATAAAAAAATA
17083546 TTTTAGAATTTTATAAAAAAATA
1 TTTTAGAATTTTATAAAAAAATA
17083569 TATTTA
1 T-TTTA
17083575 AACCTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
TTTTAGAATTTTATAAAAAAATA
Found at i:17083686 original size:16 final size:15
Alignment explanation
Indices: 17083668--17083735 Score: 50
Period size: 15 Copynumber: 4.4 Consensus size: 15
17083658 AATTATCCTT
*
17083668 TTTTTGTAAATTTTA
1 TTTTTATAAATTTTA
17083683 TTTTTATAAATTTTTTA
1 TTTTTATAAA--TTTTA
* *
17083700 TAATTTATATA-TTTA
1 T-TTTTATAAATTTTA
*
17083715 TTTTTAT-ATTTTATA
1 TTTTTATAAATTT-TA
17083730 TTTTTA
1 TTTTTA
17083736 ATGTATATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
14 7 0.17
15 22 0.52
17 6 0.14
18 7 0.17
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.69
Consensus pattern (15 bp):
TTTTTATAAATTTTA
Found at i:17083715 original size:8 final size:7
Alignment explanation
Indices: 17083695--17083733 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
17083685 TTTATAAATT
17083695 TTTTATA
1 TTTTATA
*
17083702 ATTTATA
1 TTTTATA
17083709 TATTTAT-
1 T-TTTATA
17083716 TTTTATA
1 TTTTATA
17083723 TTTTATA
1 TTTTATA
17083730 TTTT
1 TTTT
17083734 TAATGTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 5 0.18
7 18 0.64
8 5 0.18
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTATA
Found at i:17083731 original size:19 final size:21
Alignment explanation
Indices: 17083694--17083735 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
17083684 TTTTATAAAT
17083694 TTTTTATAATTTATATATTTA
1 TTTTTATAATTTATATATTTA
* *
17083715 TTTTTATATTTTATATTTTTA
1 TTTTTATAATTTATATATTTA
17083736 ATGTATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTTATAATTTATATATTTA
Found at i:17084683 original size:20 final size:21
Alignment explanation
Indices: 17084650--17084690 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
17084640 AAAAAAATAA
17084650 AAAGATAATTTGTA-TCATAT
1 AAAGATAATTTGTATTCATAT
17084670 AAAGA-AATTATGTATTCATAT
1 AAAGATAATT-TGTATTCATAT
17084691 GGAGATGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (21 bp):
AAAGATAATTTGTATTCATAT
Found at i:17093078 original size:16 final size:17
Alignment explanation
Indices: 17093043--17093081 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
17093033 CGTATCAACA
*
17093043 ATAAAATATTTAATTAT
1 ATAAAATATTAAATTAT
*
17093060 ATAAAATA-TAAATTGT
1 ATAAAATATTAAATTAT
17093076 ATAAAA
1 ATAAAA
17093082 AAACATAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
ATAAAATATTAAATTAT
Found at i:17100082 original size:17 final size:18
Alignment explanation
Indices: 17100058--17100093 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
17100048 GTTATACATA
*
17100058 TATATATATATGTTATTTT
1 TATATAT-TATGTAATTTT
17100077 TATATATTATGTAATTT
1 TATATATTATGTAATTT
17100094 ATAACACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (18 bp):
TATATATTATGTAATTTT
Found at i:17102448 original size:38 final size:38
Alignment explanation
Indices: 17102397--17102543 Score: 171
Period size: 38 Copynumber: 4.0 Consensus size: 38
17102387 ACCATGTGCA
17102397 TGATGTTGTGTATGTCATGTTTATTGTTTGTATCAAAC
1 TGATGTTGTGTATGTCATGTTTATTGTTTGTATCAAAC
*
17102435 TGATGTTGTGTATGTCAAGTTTATTGTTTGTATCAAAC
1 TGATGTTGTGTATGTCATGTTTATTGTTTGTATCAAAC
* * ** ** *
17102473 TAATGTTGTGTATGTCGTGTGCATGTGCATGT-GC--A-
1 TGATGTTGTGTATGTCATGTTTAT-TGTTTGTATCAAAC
17102508 TGATGTTGTG--TGTCATGTTTATTGTTTGTATCAAAC
1 TGATGTTGTGTATGTCATGTTTATTGTTTGTATCAAAC
17102544 AATATCAAGT
Statistics
Matches: 88, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
32 5 0.06
33 10 0.11
35 10 0.11
36 1 0.01
38 57 0.65
39 5 0.06
ACGTcount: A:0.20, C:0.09, G:0.24, T:0.47
Consensus pattern (38 bp):
TGATGTTGTGTATGTCATGTTTATTGTTTGTATCAAAC
Found at i:17102452 original size:20 final size:20
Alignment explanation
Indices: 17102429--17102488 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
17102419 ATTGTTTGTA
*
17102429 TCAAACTGATGTTGTGTATG
1 TCAAACTAATGTTGTGTATG
** *
17102449 TCAAGTTTATTGTT-TGTA--
1 TCAA-ACTAATGTTGTGTATG
17102467 TCAAACTAATGTTGTGTATG
1 TCAAACTAATGTTGTGTATG
17102487 TC
1 TC
17102489 GTGTGCATGT
Statistics
Matches: 29, Mismatches: 7, Indels: 8
0.66 0.16 0.18
Matches are distributed among these distances:
17 6 0.21
18 8 0.28
20 10 0.34
21 5 0.17
ACGTcount: A:0.25, C:0.10, G:0.20, T:0.45
Consensus pattern (20 bp):
TCAAACTAATGTTGTGTATG
Found at i:17102470 original size:18 final size:18
Alignment explanation
Indices: 17102415--17102470 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
17102405 TGTATGTCAT
17102415 GTTTATTGTTTGTATCAA
1 GTTTATTGTTTGTATCAA
** *
17102433 ACTGA-TGTTGTGTATGTCAA
1 GTTTATTGTT-TGTA--TCAA
17102453 GTTTATTGTTTGTATCAA
1 GTTTATTGTTTGTATCAA
17102471 ACTAATGTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
17 4 0.14
18 10 0.36
20 10 0.36
21 4 0.14
ACGTcount: A:0.23, C:0.07, G:0.20, T:0.50
Consensus pattern (18 bp):
GTTTATTGTTTGTATCAA
Found at i:17102890 original size:15 final size:15
Alignment explanation
Indices: 17102871--17102930 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
17102861 TGTTTGATTT
17102871 TGATGTGTCTGATAG
1 TGATGTGTCTGATAG
* * * *
17102886 CGATGTGTTTGTTAA
1 TGATGTGTCTGATAG
*
17102901 TGATGTATCTGATAG
1 TGATGTGTCTGATAG
*
17102916 TGATGTGTCTAATAG
1 TGATGTGTCTGATAG
17102931 GATAATGGTT
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (15 bp):
TGATGTGTCTGATAG
Found at i:17110312 original size:17 final size:17
Alignment explanation
Indices: 17110287--17110321 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17110277 AATTAAAAAT
*
17110287 ATATATTATTGTTATAA
1 ATATATTATTATTATAA
*
17110304 ATATTTTATTATTATAA
1 ATATATTATTATTATAA
17110321 A
1 A
17110322 AATGAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
ATATATTATTATTATAA
Found at i:17110324 original size:19 final size:21
Alignment explanation
Indices: 17110280--17110324 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
17110270 AATGCTTAAT
*
17110280 TAAAAATATATATTATTGTTA
1 TAAAAATATATATTATTATTA
17110301 T--AAATAT-T-TTATTATTA
1 TAAAAATATATATTATTATTA
17110318 TAAAAAT
1 TAAAAAT
17110325 GAATTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
17 9 0.43
18 1 0.05
19 10 0.48
21 1 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TAAAAATATATATTATTATTA
Found at i:17112531 original size:51 final size:51
Alignment explanation
Indices: 17112443--17112564 Score: 172
Period size: 51 Copynumber: 2.4 Consensus size: 51
17112433 CGGATCACAT
* * *
17112443 TTATCACTTGTCACCTATCACTGATCAAATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTATCACTAATCAAATAAATGTAGCTAAAGCTACCAC
* * * *
17112494 TTATCACTTGTCACTTGTCACTAATCAGATAAATGTAGCTGAGGCTACCAC
1 TTATCACTTGTCACTTATCACTAATCAAATAAATGTAGCTAAAGCTACCAC
*
17112545 TTATCACTTGTCACTGATCA
1 TTATCACTTGTCACTTATCA
17112565 GAAGTACTCA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTTATCACTAATCAAATAAATGTAGCTAAAGCTACCAC
Found at i:17122174 original size:14 final size:16
Alignment explanation
Indices: 17122134--17122177 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
17122124 TTTTCAACAT
*
17122134 AAATTAAACTTAATTCA
1 AAATTAAA-TAAATTCA
17122151 AAATTAAATAAATT-A
1 AAATTAAATAAATTCA
17122166 AAA-TAAATAAAT
1 AAATTAAATAAAT
17122178 ATAGGTTGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.35
15 4 0.15
16 5 0.19
17 8 0.31
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTAAATAAATTCA
Found at i:17126134 original size:22 final size:22
Alignment explanation
Indices: 17126101--17126151 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
17126091 TCTCTCCAGG
17126101 ATGTCTTCACAAAAGAAGTAG-A
1 ATGT-TTCACAAAAGAAGTAGCA
17126123 AGTGTTTCACAAAAGAAGTAGCA
1 A-TGTTTCACAAAAGAAGTAGCA
17126146 ATGTTT
1 ATGTTT
17126152 TCATAGATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (22 bp):
ATGTTTCACAAAAGAAGTAGCA
Found at i:17131711 original size:109 final size:110
Alignment explanation
Indices: 17131580--17131798 Score: 386
Period size: 110 Copynumber: 2.0 Consensus size: 110
17131570 AAAATATAAA
17131580 AATTTATATTAATATTAATTTCTAAAATTAAAATTAAATATAAAAT-ATTTTTTAATTATTTTTA
1 AATTTATATTAATATTAATTTCTAAAATTAAAATTAAATATAAAATGATTTTTTAATTATTTTTA
*
17131644 AATAGGAATGGTCTAGTCGAGCGAAACCAACTCAAAGAAATTTTT
66 AATAGAAATGGTCTAGTCGAGCGAAACCAACTCAAAGAAATTTTT
*
17131689 AATTTATATTAATATTAATTTCTAAAATTAAAATTAAATATAAAATGTTTTTTTAATTATTTTTA
1 AATTTATATTAATATTAATTTCTAAAATTAAAATTAAATATAAAATGATTTTTTAATTATTTTTA
* * *
17131754 AATAGAAATGGTCTATTCTAGCGAAACCAACTCAAAGAATTTTTT
66 AATAGAAATGGTCTAGTCGAGCGAAACCAACTCAAAGAAATTTTT
17131799 TAAATTGGAC
Statistics
Matches: 104, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
109 46 0.44
110 58 0.56
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.42
Consensus pattern (110 bp):
AATTTATATTAATATTAATTTCTAAAATTAAAATTAAATATAAAATGATTTTTTAATTATTTTTA
AATAGAAATGGTCTAGTCGAGCGAAACCAACTCAAAGAAATTTTT
Found at i:17133298 original size:16 final size:15
Alignment explanation
Indices: 17133272--17133306 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
17133262 TGATGTGAAT
17133272 AATATAAAATATTAA
1 AATATAAAATATTAA
*
17133287 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
17133303 AATA
1 AATA
17133307 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:17133478 original size:20 final size:20
Alignment explanation
Indices: 17133421--17133480 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
17133411 AATACTACAT
17133421 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
17133440 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
17133463 AAATATGTACATAATATA
1 AAATATGTACATAATATA
17133481 GTGTAAAAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:17133489 original size:25 final size:25
Alignment explanation
Indices: 17133434--17133606 Score: 113
Period size: 25 Copynumber: 7.0 Consensus size: 25
17133424 TATGTACATA
* * *
17133434 TATAAAAAATAAATACGTGATA-A-
1 TATAAAAAATATATACATAATATAG
* *
17133457 TATTAAAAATATGTACATAATATAG
1 TATAAAAAATATATACATAATATAG
* * *
17133482 TGTAAAAAGTACATACATAATATA-
1 TATAAAAAATATATACATAATATAG
* * *
17133506 -AT-TAAAATATATACATAAGATAACA
1 TATAAAAAATATATACATAATAT-A-G
* *
17133531 TGTAAAAATATATATAAATAATATAG
1 TATAAAAA-ATATATACATAATATAG
* * *
17133557 TATTAAAGATATATACATAAAATAG
1 TATAAAAAATATATACATAATATAG
* * *
17133582 TATAATATATATATACGTAATATAG
1 TATAAAAAATATATACATAATATAG
17133607 AATTTAGAAT
Statistics
Matches: 112, Mismatches: 30, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
22 15 0.13
23 19 0.17
24 1 0.01
25 54 0.48
26 6 0.05
27 4 0.04
28 13 0.12
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (25 bp):
TATAAAAAATATATACATAATATAG
Found at i:17133669 original size:23 final size:25
Alignment explanation
Indices: 17133626--17133671 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17133616 TATACCTAAT
17133626 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
17133651 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
17133672 ACAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:17142170 original size:24 final size:25
Alignment explanation
Indices: 17142141--17142233 Score: 82
Period size: 29 Copynumber: 3.6 Consensus size: 25
17142131 TATTTAAAAA
17142141 ATACATA-ATAATATTAAAGAATAC
1 ATACATATATAATATTAAAGAATAC
* *
17142165 GTACATACTATAATATAATAAGAAAATAC
1 ATACATA-TATAATAT--TAA-AGAATAC
*
17142194 ATACAATATATAATATT-AAGAATAT
1 ATAC-ATATATAATATTAAAGAATAC
*
17142219 ATATATATATGAATA
1 ATACATATAT-AATA
17142234 GTAATAGTGT
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
24 12 0.21
25 12 0.21
26 8 0.14
27 1 0.02
28 3 0.05
29 17 0.30
30 3 0.05
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.32
Consensus pattern (25 bp):
ATACATATATAATATTAAAGAATAC
Found at i:17142177 original size:29 final size:26
Alignment explanation
Indices: 17142141--17142217 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 26
17142131 TATTTAAAAA
*
17142141 ATACATAATAATATTAAAGAATACGTAC
1 ATACATAATAATATT-AAGAATA-ATAC
*
17142169 ATACTATAAT-ATAATAAGAA-AATAC
1 ATAC-ATAATAATATTAAGAATAATAC
17142194 ATACAATATATAATATTAAGAATA
1 ATAC-ATA-ATAATATTAAGAATA
17142218 TATATATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
25 10 0.24
26 3 0.07
27 14 0.34
28 9 0.22
29 5 0.12
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (26 bp):
ATACATAATAATATTAAGAATAATAC
Found at i:17142392 original size:27 final size:23
Alignment explanation
Indices: 17142343--17142405 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
17142333 ATATATATAA
17142343 AATAAATATTGAAAAATACATGT
1 AATAAATATTGAAAAATACATGT
*
17142366 ACATAACATATATGAAAATATATATGT
1 A-ATAA-ATAT-TGAAAA-ATACATGT
17142393 AAT-AATATT-AAAA
1 AATAAATATTGAAAA
17142406 TAAAATGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 4 0.11
23 2 0.06
24 8 0.23
25 5 0.14
26 8 0.23
27 8 0.23
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (23 bp):
AATAAATATTGAAAAATACATGT
Found at i:17143501 original size:14 final size:14
Alignment explanation
Indices: 17143482--17143533 Score: 70
Period size: 14 Copynumber: 3.6 Consensus size: 14
17143472 CGGCGCCGTC
17143482 TATTTTTTTGTTTT
1 TATTTTTTTGTTTT
17143496 TATTTTTATT-TTTT
1 TATTTTT-TTGTTTT
17143510 TATTTTTTTTGCTTTT
1 TA-TTTTTTTG-TTTT
17143526 TATTTTTT
1 TATTTTTT
17143534 GGTATTTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
14 15 0.44
15 13 0.38
16 6 0.18
ACGTcount: A:0.10, C:0.02, G:0.04, T:0.85
Consensus pattern (14 bp):
TATTTTTTTGTTTT
Found at i:17145051 original size:19 final size:20
Alignment explanation
Indices: 17145027--17145066 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
17145017 AGGGGAAAAG
* *
17145027 TAGGAGAGAGTAAAAA-TTT
1 TAGGAGAAAATAAAAAGTTT
17145046 TAGGAGAAAATAAAAAGTTT
1 TAGGAGAAAATAAAAAGTTT
17145066 T
1 T
17145067 GAGGGTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.28
Consensus pattern (20 bp):
TAGGAGAAAATAAAAAGTTT
Found at i:17145287 original size:9 final size:9
Alignment explanation
Indices: 17145269--17145305 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
17145259 TATAGTTTGA
*
17145269 TATTCAAAT
1 TATTCGAAT
17145278 TATTCGAAT
1 TATTCGAAT
*
17145287 TATTCGAGT
1 TATTCGAAT
17145296 TATTCGAAT
1 TATTCGAAT
17145305 T
1 T
17145306 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Done.