Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 158 of 172
Found at i:46270888 original size:17 final size:16
Alignment explanation
Indices: 46270867--46270913 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 16
46270857 TTAAAATTAA
46270867 AAAAATATAAAAATATTT
1 AAAAATATAAAAATA--T
*
46270885 AAAATGTATAAAAATAT
1 AAAA-ATATAAAAATAT
46270902 AAAAAT-TAAAAA
1 AAAAATATAAAAA
46270914 ATTAATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 6 0.23
16 1 0.04
17 5 0.19
18 4 0.15
19 10 0.38
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (16 bp):
AAAAATATAAAAATAT
Found at i:46270905 original size:27 final size:26
Alignment explanation
Indices: 46270856--46270907 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
46270846 TTAATTAATT
46270856 TTTAAAATTAAAAAAATATAAAAATA
1 TTTAAAATTAAAAAAATATAAAAATA
*
46270882 TTTAAAATGTATAAAAATATAAAAAT
1 TTTAAAAT-TAAAAAAATATAAAAAT
46270908 TAAAAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (26 bp):
TTTAAAATTAAAAAAATATAAAAATA
Found at i:46276649 original size:147 final size:147
Alignment explanation
Indices: 46276382--46276656 Score: 399
Period size: 147 Copynumber: 1.9 Consensus size: 147
46276372 CCACCATCTG
* * ** * **
46276382 TCTTTCCTTTTGCTTTAGCACTCGATGCTTTCCCACCTTTATCCAAATTGTCGCCTTCATTTTTA
1 TCTTTCCTTTTGCCTCAGCACTCGATGCTTTCCCACCTTTATCCAAATTCCCACCTTCATTTGAA
* * * *
46276447 CCTGATTGCTGGTTCAAATCACTCTTACTTGTACCACTGTCAACACTTTCTTCTGATCCATCAAC
66 CCTGATTGCTGGTTCAAACCACTCTTACTTGCACCACTATCAACACCTTCTTCTGATCCATCAAC
46276512 TTCCCCAACATCATTCA
131 TTCCCCAACATCATTCA
** *
46276529 TCTTTCCTTTTGCCTCCTCACTCGATGCTTTCCCACTTTTATCCAAATTCCCACCTTCATTTGAA
1 TCTTTCCTTTTGCCTCAGCACTCGATGCTTTCCCACCTTTATCCAAATTCCCACCTTCATTTGAA
*
46276594 CCTGATTGTTGGTTCAAACCACTCTTACTTGCACCACTATCAACACCCTT-TTCTGATCCATCA
66 CCTGATTGCTGGTTCAAACCACTCTTACTTGCACCACTATCAACA-CCTTCTTCTGATCCATCA
46276657 TTTTGATTAC
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
147 109 0.97
148 3 0.03
ACGTcount: A:0.20, C:0.33, G:0.08, T:0.39
Consensus pattern (147 bp):
TCTTTCCTTTTGCCTCAGCACTCGATGCTTTCCCACCTTTATCCAAATTCCCACCTTCATTTGAA
CCTGATTGCTGGTTCAAACCACTCTTACTTGCACCACTATCAACACCTTCTTCTGATCCATCAAC
TTCCCCAACATCATTCA
Found at i:46279205 original size:82 final size:81
Alignment explanation
Indices: 46279045--46279205 Score: 184
Period size: 82 Copynumber: 2.0 Consensus size: 81
46279035 AAAGAGATTC
* * * * *
46279045 AAATATAATTTTACCATGTATTAATTTATAATCTATTATTTTTTAATGGATCAAATAAAATTTTT
1 AAATATAATTTTACCATATATTAATTTACAATCTATTATTTTTGAAAGAATCAAATAAAATTTTT
*
46279110 TCATATTTAAGGGGGA
66 ACATATTTAAGGGGGA
* *
46279126 AAATGTAATTTTTACCATATATTAATTTACAATTTTATTATTTTTAGAAAGAAT-AAACTAAAA-
1 AAATATAA-TTTTACCATATATTAATTTACAA-TCTATTATTTTT-GAAAGAATCAAA-TAAAAT
*
46279189 TTTTACAT-TTTTAGGGG
62 TTTTACATATTTAAGGGG
46279206 TAAGGCCCAT
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
81 7 0.10
82 29 0.43
83 21 0.31
84 10 0.15
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (81 bp):
AAATATAATTTTACCATATATTAATTTACAATCTATTATTTTTGAAAGAATCAAATAAAATTTTT
ACATATTTAAGGGGGA
Found at i:46285208 original size:22 final size:24
Alignment explanation
Indices: 46285183--46285231 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
46285173 TCTAGAATTA
*
46285183 AATAG-TATA-TTTTTATTATTTT
1 AATAGTTATATTTTTTATAATTTT
46285205 AATAGTTTATATTTTTTATAATTTT
1 AATAG-TTATATTTTTTATAATTTT
46285230 AA
1 AA
46285232 AAAAGTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
24 4 0.17
25 14 0.61
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (24 bp):
AATAGTTATATTTTTTATAATTTT
Found at i:46292192 original size:549 final size:548
Alignment explanation
Indices: 46291150--46292803 Score: 2432
Period size: 549 Copynumber: 3.0 Consensus size: 548
46291140 AAACTCACTA
**
46291150 TTTCCTCCCTCAATTGACCATTCTCTTTGATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTTC
1 TTTCCTCCCTCAGCTGACCATTCTCTTTGATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTTC
*
46291215 TGGTTCTTTAGAGAAATGACCTCCAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTC
66 TGGTTCTTTAGAGAAATGAACTCCAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTC
* *
46291280 CTGTAGAACTCTCTGTTGATCCTCAGTCTTGCTTACTATCTCTTCTTTTGCCTTTTCTATCTCAA
131 CTGCAGAACTCTCTGTTGATCCTCGGTCTTGCTTACTATCTCTTCTTTTGCCTTTTCTATCTCAA
* *
46291345 TCATATGATCT-GAAATAGCTTGAGTTTTTCTCTCAAGCTGAACTTCAAGTTCAGCTTTCTGGCT
196 TCACATGAT-TGGAAATAGCTTGAGTTTTTCTCTCAAGCTGAACTTCAAGTTCTGCTTTCTGGCT
* * * * * * *
46291409 ATGCATGGATTCCAGTTTCTGCTGCAATGTATTTATTTCATCCATCAAGCTCTTGACTTG-GTTC
260 ATGCAGGGACTCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATCAAGCTCTTGACTTGAGTT-
** * *
46291473 GATGCTTCATCGCCTTTAACTACAATATGTTCTTCCAACTGAGCTTTCTCAGTCCGCAGCGACTC
324 GATGCTTCATCGCCTTTAACTACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGAAGCGACTC
* * *
46291538 CATGTCTCCTAGCAGATTGTTAATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTGTCT
389 CATGTCTGCTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTCT
* * * * *
46291603 CATTATCCTCAAACTTCTTTGTGAGAGTAAAAAATTCTTCTTGTCTCGTCTTTAATACCCTCTCG
454 CATTATCCTCAAACTTCTTTGTGAGAGTCAAAAGTTCTTCTTGTCTCGT-TTTGATATCATCTCG
** *
46291668 AGTTCTGAAATTTGATATTGCAGTCCCATAT
518 AGTTCTGAAATTTGGGATTGCAGTCCTATAT
* * *
46291699 TTTCCTCCCTCAGCTGACCATTCTCTTCGATTTTAGTTATCAGGTCCTCTTCCAGTTCACCTTTC
1 TTTCCTCCCTCAGCTGACCATTCTCTTTGATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTTC
46291764 TGGTTCTTTAGAGAAATGAACTCCAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTC
66 TGGTTCTTTAGAGAAATGAACTCCAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTC
* * *
46291829 CTGCAGAACTCTCTGTTGATCTTCGGTCCTGCTTACTATCTCTTCTTTTGCCTTCTCTATCTCAA
131 CTGCAGAACTCTCTGTTGATCCTCGGTCTTGCTTACTATCTCTTCTTTTGCCTTTTCTATCTCAA
*
46291894 TCACATGATTGGAAATAGCTTGAGTTTTTCTCTCAAGCTGAACTTCCAGTTCTGCTTTCTGGCTA
196 TCACATGATTGGAAATAGCTTGAGTTTTTCTCTCAAGCTGAACTTCAAGTTCTGCTTTCTGGCTA
* * *
46291959 TGCAGGGACTCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATCAAGCCCCTGACCTGAGTTGA
261 TGCAGGGACTCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATCAAGCTCTTGACTTGAGTTGA
* *
46292024 TGCTTCATCGCCTTTCACTACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGAAGGGACTCCA
326 TGCTTCATCGCCTTTAACTACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGAAGCGACTCCA
* ** *
46292089 TGTCTGCTAGCAAATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAGCGATTCTTTCTCG
391 TGTCTGCTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTCTCA
* *
46292154 TTGTCCTCAAACTTCTTTGTGAGCGTCAAAAGTTCTTCTTGTCTCTGTTTTGATATCATCTCGAG
456 TTATCCTCAAACTTCTTTGTGAGAGTCAAAAGTTCTTCTTGTCTC-GTTTTGATATCATCTCGAG
* * *
46292219 TTCTGAAATTTGGGATCGCAGTCCTAAAC
520 TTCTGAAATTTGGGATTGCAGTCCTATAT
* * **
46292248 TTTCCTCCCTCAGCTGACCATTCTCTTTGATTTTAGTTCGCAAATCCTCTTCCAACTCACCTTTC
1 TTTCCTCCCTCAGCTGACCATTCTCTTTGATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTTC
* * * * *
46292313 TGATTCTTTAAAGAATTG-ACATCAAATTCTAGTTCCTTCATTTGTGCCAGCAAACCCTCTTTCT
66 TGGTTCTTTAGAGAAATGAAC-TCCAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCT
* * * * *
46292377 CCTGCAGAACTCTTTCTTGATCCTCGGTCTTGCTTGCTATCTCTTCTTTTGCATTTTCTATCTTA
130 CCTGCAGAACTCTCTGTTGATCCTCGGTCTTGCTTACTATCTCTTCTTTTGCCTTTTCTATCTCA
* * * * *
46292442 ATCACATGATCGGAAATAGCTCGAGTTTTACTCTCAAGTTGAACTTCAAGTTCTGCTTTCTGACT
195 ATCACATGATTGGAAATAGCTTGAGTTTTTCTCTCAAGCTGAACTTCAAGTTCTGCTTTCTGGCT
* * *
46292507 CTGCAGGGACTCCAGCTCCTGCTGCAAATTATTTATCTGATCCATCAAGCTCTTGACTTGAGTCG
260 ATGCAGGGACTCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATCAAGCTCTTGACTTGAGTTG
** * * * * *
46292572 ATGCTTCATCATCTTTTACTGCAATATGCTCTTCCAACTGAGCTTTCTGGGTGCGTAGTGACTCC
325 ATGCTTCATCGCCTTTAACTACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGAAGCGACTCC
* * *
46292637 ATGTCTGCTAGCAGATTGTTGATCTGCACTATCAGATTCTCCACTCTAGACAATGATTCTTTCTC
390 ATGTCTGCTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTCTC
* * * * * *
46292702 ATTATCCTCAAATTTCTTTGCGAGAGTCAAAAGTTCTTCTTCTCTCTTTTTTGACATCATCTCAA
455 ATTATCCTCAAACTTCTTTGTGAGAGTCAAAAGTTCTTCTTGTCTC-GTTTTGATATCATCTCGA
46292767 GTTCTGAAATTTGGGATTGCAGTCCTATAT
519 GTTCTGAAATTTGGGATTGCAGTCCTATAT
*
46292797 TTACCTC
1 TTTCCTC
46292804 TCCCAGCCGT
Statistics
Matches: 993, Mismatches: 108, Indels: 8
0.90 0.10 0.01
Matches are distributed among these distances:
548 3 0.00
549 985 0.99
550 5 0.01
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (548 bp):
TTTCCTCCCTCAGCTGACCATTCTCTTTGATTTTAGTTCTCAAGTCCTCTTCCAGTTCACCTTTC
TGGTTCTTTAGAGAAATGAACTCCAATTCTAGTTCCTTCATTTGTGCCAACAAACCCTCTTTCTC
CTGCAGAACTCTCTGTTGATCCTCGGTCTTGCTTACTATCTCTTCTTTTGCCTTTTCTATCTCAA
TCACATGATTGGAAATAGCTTGAGTTTTTCTCTCAAGCTGAACTTCAAGTTCTGCTTTCTGGCTA
TGCAGGGACTCCAGCTCCTGCTGCAAAGTATTTATCTGATCCATCAAGCTCTTGACTTGAGTTGA
TGCTTCATCGCCTTTAACTACAATATGTTCTTCCAACTGAGCTTTCTGGGTGCGAAGCGACTCCA
TGTCTGCTAGCAGATTGTTGATCTGCACTGTCAAATTCTCCACTCTAGATAATGATTCTTTCTCA
TTATCCTCAAACTTCTTTGTGAGAGTCAAAAGTTCTTCTTGTCTCGTTTTGATATCATCTCGAGT
TCTGAAATTTGGGATTGCAGTCCTATAT
Found at i:46298238 original size:117 final size:117
Alignment explanation
Indices: 46298099--46298438 Score: 380
Period size: 117 Copynumber: 2.9 Consensus size: 117
46298089 TGCTTGCATT
* * * *
46298099 CATTGAATCCCTCA-ACTCCCTCAGCTCAGCTTCACAACTGGCAAGCTTCTCTTTCAGCTCACTA
1 CATTGAATCCCT-AGACTTCCTCAGCTCAGCTTCACAAGTAGCAAGCTTCTCTTTCAGCTCTCTA
* *
46298163 TTTTCGTGTTCTAGCCTTGAAATGGATTCAGTCAATGAATTCTTGCC-TGCCTC
65 TTTTCGTGCTCTAGCCTTGAAATGGATTCAGACAATGAATT-TTGCCATGCCTC
* * * * * * *
46298216 CATTGAATCCCTAGATTTCCTCAGCTCAACTTCACAGGTAGCAAGCTTCTCTTTAAGGTGTCCAT
1 CATTGAATCCCTAGACTTCCTCAGCTCAGCTTCACAAGTAGCAAGCTTCTCTTTCAGCTCTCTAT
* * * *
46298281 TTTCGTGCTCTAGCCTTGAAATGGATTCAGCCCATGCATTTTTCCATGCCTC
66 TTTCGTGCTCTAGCCTTGAAATGGATTCAGACAATGAATTTTGCCATGCCTC
* * * * * *
46298333 CATAGTATCCCTAGACTTCCTCACCTCAGCGTCACAAGTAGCAAGCTTCTC-TCCTAGCTTTCTA
1 CATTGAATCCCTAGACTTCCTCAGCTCAGCTTCACAAGTAGCAAGCTTCTCTTTC-AGCTCTCTA
* * * * *
46298397 TTATCTTGCTCTAGCCTTGAATTCGATTCAGACAATGCATTT
65 TTTTCGTGCTCTAGCCTTGAAATGGATTCAGACAATGAATTT
46298439 CTGGCCGTCT
Statistics
Matches: 186, Mismatches: 34, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
116 6 0.03
117 180 0.97
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.34
Consensus pattern (117 bp):
CATTGAATCCCTAGACTTCCTCAGCTCAGCTTCACAAGTAGCAAGCTTCTCTTTCAGCTCTCTAT
TTTCGTGCTCTAGCCTTGAAATGGATTCAGACAATGAATTTTGCCATGCCTC
Found at i:46300784 original size:35 final size:35
Alignment explanation
Indices: 46300745--46300815 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
46300735 TCTAAGATCA
* *
46300745 CATATCTCTGAAGATAACTTTCCATATTTGCCAAG
1 CATATCTCTAAAGATAACTTTCCATATTTACCAAG
* *
46300780 CATATCTTTAAAGATTACTTTCCATATTTACCAAG
1 CATATCTCTAAAGATAACTTTCCATATTTACCAAG
46300815 C
1 C
46300816 TCTGTAGATG
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:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (35 bp):
CATATCTCTAAAGATAACTTTCCATATTTACCAAG
Found at i:46308615 original size:39 final size:37
Alignment explanation
Indices: 46308548--46308640 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
46308538 ACCAGAATGG
* *
46308548 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
46308587 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
46308624 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
46308641 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:46308837 original size:23 final size:24
Alignment explanation
Indices: 46308816--46308860 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
46308806 CACTTTCAAT
* *
46308816 TCAATCATT-TTTC-CACATTCAA
1 TCAATAATTATTTCACAAATTCAA
46308838 TCAATAATTATTTCACAAATTCA
1 TCAATAATTATTTCACAAATTCA
46308861 CACATTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 4 0.21
24 7 0.37
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.40
Consensus pattern (24 bp):
TCAATAATTATTTCACAAATTCAA
Found at i:46308854 original size:22 final size:23
Alignment explanation
Indices: 46308810--46308860 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
46308800 TTCTCACACT
*
46308810 TTCAATTCAATCATTTTTCCACA
1 TTCAATTCAATAATTTTTCCACA
*
46308833 TTCAA-TCAATAATTATTTCACAAA
1 TTCAATTCAATAATT-TTTC-CACA
46308857 TTCA
1 TTCA
46308861 CACATTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 8 0.33
23 9 0.38
24 7 0.29
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (23 bp):
TTCAATTCAATAATTTTTCCACA
Found at i:46309766 original size:17 final size:16
Alignment explanation
Indices: 46309734--46309767 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
46309724 TTGGCTATTC
*
46309734 TGTTTCTTTCTTCTTT
1 TGTTTCTTTATTCTTT
46309750 TGTTTCTTTTATTCTTT
1 TGTTTC-TTTATTCTTT
46309767 T
1 T
46309768 ATTTTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTATTCTTT
Found at i:46309815 original size:14 final size:14
Alignment explanation
Indices: 46309756--46309806 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
46309746 CTTTTGTTTC
*
46309756 TTTTA-TTCTTTTA
1 TTTTATTTCCTTTA
* *
46309769 TTTTAACTTACTTTA
1 TTTT-ATTTCCTTTA
*
46309784 CTTTATTTCCTTTA
1 TTTTATTTCCTTTA
46309798 TTTTATTTC
1 TTTTATTTC
46309807 TTTTGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 4 0.13
14 17 0.57
15 9 0.30
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTTCCTTTA
Found at i:46309975 original size:14 final size:17
Alignment explanation
Indices: 46309956--46309992 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
46309946 ATTTATTTCT
46309956 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
46309970 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
46309987 TAATAT
1 TAATAT
46309993 CATTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 4 0.20
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:46310001 original size:12 final size:11
Alignment explanation
Indices: 46309973--46310011 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
46309963 ATATTTATAA
46309973 TATAATTAATT
1 TATAATTAATT
*
46309984 TAATAATATCATT
1 T-ATAAT-TAATT
46309997 TATAATTAATT
1 TATAATTAATT
46310008 TATA
1 TATA
46310012 TATTTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:46319135 original size:23 final size:25
Alignment explanation
Indices: 46319097--46319152 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
46319087 AATTATTAAA
*
46319097 ATCAT-AAAATTATATTTTTC-ACT
1 ATCATAAAAATTATATTATTCTACT
46319120 ATCATAAAAATT-TATTATTCTACT
1 ATCATAAAAATTATATTATTCTACT
*
46319144 -TCTTAAAAA
1 ATCATAAAAA
46319153 AATTTTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 20 0.69
24 9 0.31
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (25 bp):
ATCATAAAAATTATATTATTCTACT
Found at i:46326671 original size:27 final size:27
Alignment explanation
Indices: 46326632--46326694 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 27
46326622 AAGTATTTAA
46326632 AAATA-AAATTTTATAAAAA-TCGAAAAT
1 AAATATAAATTTTA-AAAAAGT-GAAAAT
*
46326659 AAATATAAA-TTTAAAAAAGTGATAAT
1 AAATATAAATTTTAAAAAAGTGAAAAT
46326685 AATATATAAA
1 AA-ATATAAA
46326695 AATTGAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 12 0.38
27 17 0.53
28 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (27 bp):
AAATATAAATTTTAAAAAAGTGAAAAT
Found at i:46326854 original size:19 final size:20
Alignment explanation
Indices: 46326814--46326856 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
46326804 CCCAAAATTC
*
46326814 TAAAAATTCAAAACAACGAA
1 TAAAAATTCAAAACAACAAA
*
46326834 TAAAAATTCAAAA-AATAAA
1 TAAAAATTCAAAACAACAAA
46326853 TAAA
1 TAAA
46326857 GTTTAACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (20 bp):
TAAAAATTCAAAACAACAAA
Found at i:46328457 original size:10 final size:10
Alignment explanation
Indices: 46328432--46328478 Score: 62
Period size: 9 Copynumber: 4.9 Consensus size: 10
46328422 CTTTTTTAAA
46328432 ATTTAAAAA-
1 ATTTAAAAAT
46328441 ATTTAAAAAT
1 ATTTAAAAAT
* *
46328451 ATATAAAATT
1 ATTTAAAAAT
46328461 ATTT-AAAAT
1 ATTTAAAAAT
46328470 ATTTAAAAA
1 ATTTAAAAA
46328479 ATGTTTGGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 17 0.53
10 15 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATTTAAAAAT
Found at i:46329378 original size:13 final size:13
Alignment explanation
Indices: 46329362--46329394 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
46329352 ACCAAATTTT
46329362 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
46329375 TCAAAAGCACTTT
1 TCAAAAGCACTTC
46329388 TCAAAAG
1 TCAAAAG
46329395 TAATGAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.24
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:46333618 original size:58 final size:55
Alignment explanation
Indices: 46333519--46333641 Score: 140
Period size: 58 Copynumber: 2.2 Consensus size: 55
46333509 TTTCTTTTCG
* * * *
46333519 GGTCACCCAATTAAGAAGAATTACAAAATAGTTATTTAACTATTAGTAAATTTGTTTT
1 GGTCACCCAATTAAGAAGAATTACAAAATAGTCACTCAACTATT--CAAATTT-TTTT
* *
46333577 GGTCACCCAATTATGAA-AAGTTACAAAATGGTCACTCAACTATTCAAATTTTTTT
1 GGTCACCCAATTAAGAAGAA-TTACAAAATAGTCACTCAACTATTCAAATTTTTTT
*
46333632 TGTCACCCAA
1 GGTCACCCAA
46333642 CTTTCTTGAA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
55 13 0.23
56 6 0.11
57 2 0.04
58 36 0.63
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.35
Consensus pattern (55 bp):
GGTCACCCAATTAAGAAGAATTACAAAATAGTCACTCAACTATTCAAATTTTTTT
Found at i:46333784 original size:60 final size:59
Alignment explanation
Indices: 46333706--46333830 Score: 146
Period size: 60 Copynumber: 2.1 Consensus size: 59
46333696 AAGACAATCA
* * *
46333706 AATAGTTGAGTGACTATTTTGTAACTTTTCATAATTGAGTGATCAAAAAAGAAA-TTTATT
1 AATAATTGAGTAACTATTTTATAACTTTTCATAATTGAGTGA-CAAAAAA-AAACTTTATT
* * * * *
46333766 AATAATTGAGTAATTATTTTATAATTTTTTATAGTTGGGTGACAAAAAAAAACTTTATT
1 AATAATTGAGTAACTATTTTATAACTTTTCATAATTGAGTGACAAAAAAAAACTTTATT
46333825 -ATAATT
1 AATAATT
46333831 TACTTTTATT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
58 9 0.16
59 13 0.23
60 34 0.61
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.42
Consensus pattern (59 bp):
AATAATTGAGTAACTATTTTATAACTTTTCATAATTGAGTGACAAAAAAAAACTTTATT
Found at i:46336652 original size:5 final size:5
Alignment explanation
Indices: 46336635--46336664 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
46336625 GTTCTCGGTT
46336635 TTTTA TATTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA T-TTTA TTTTA TTTTA TTTTA TTTT
46336665 TTAAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:46336848 original size:29 final size:29
Alignment explanation
Indices: 46336804--46336860 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
46336794 TATTTATTTT
46336804 TATATCATAAAAAAAATTAAAAT-TAATTA
1 TATATCATAAAAAAAA-TAAAATATAATTA
46336833 TATAT-ATAAAATAAAATAAAATATAATT
1 TATATCATAAAA-AAAATAAAATATAATT
46336861 CAATTTCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (29 bp):
TATATCATAAAAAAAATAAAATATAATTA
Found at i:46340739 original size:21 final size:22
Alignment explanation
Indices: 46340699--46340750 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
46340689 TGGCCAGTAC
*
46340699 AAATAACAA-AAACAATAGCAA
1 AAATAACAACAAACAACAGCAA
*
46340720 AAATAACAACAAA-AACAGCAG
1 AAATAACAACAAACAACAGCAA
46340741 AAA-AACAACA
1 AAATAACAACA
46340751 GCACCAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 7 0.25
21 18 0.64
22 3 0.11
ACGTcount: A:0.71, C:0.17, G:0.06, T:0.06
Consensus pattern (22 bp):
AAATAACAACAAACAACAGCAA
Found at i:46341273 original size:22 final size:23
Alignment explanation
Indices: 46341234--46341285 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
46341224 CTTTTTGACC
46341234 TTTTAAAATTTTGACTCTAATTTT
1 TTTTAAAATTTT-ACTCTAATTTT
*
46341258 TTTTAAAATTTT-CTCTCATTTT
1 TTTTAAAATTTTACTCTAATTTT
46341280 TTTTAA
1 TTTTAA
46341286 CTTTATCGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 15 0.56
24 12 0.44
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTAAAATTTTACTCTAATTTT
Found at i:46353589 original size:19 final size:19
Alignment explanation
Indices: 46353561--46353598 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
46353551 ATGATTATTA
46353561 TTTAAAATAAATATGATTT
1 TTTAAAATAAATATGATTT
* *
46353580 TTTAATATAAATATTATTT
1 TTTAAAATAAATATGATTT
46353599 AATAAGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTAAAATAAATATGATTT
Found at i:46353601 original size:16 final size:18
Alignment explanation
Indices: 46353556--46353602 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
46353546 TTTTAATGAT
*
46353556 TATTATTTAAAATAAATA
1 TATTATTTAATATAAATA
*
46353574 TGATTTTTTAATAT-AA-A
1 T-ATTATTTAATATAAATA
46353591 TATTATTTAATA
1 TATTATTTAATA
46353603 AGTTTTAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 10 0.40
17 2 0.08
18 3 0.12
19 10 0.40
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TATTATTTAATATAAATA
Found at i:46353657 original size:11 final size:11
Alignment explanation
Indices: 46353642--46353674 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
46353632 ATTTTGATAT
46353642 ATATATATTTA
1 ATATATATTTA
*
46353653 TTATATATTTA
1 ATATATATTTA
46353664 ATATAT-TTTA
1 ATATATATTTA
46353674 A
1 A
46353675 AATTATACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
ATATATATTTA
Found at i:46355778 original size:15 final size:15
Alignment explanation
Indices: 46355758--46355787 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46355748 CCTCCTTCTT
*
46355758 GCCACCGCCGCCGCC
1 GCCACCACCGCCGCC
46355773 GCCACCACCGCCGCC
1 GCCACCACCGCCGCC
46355788 ACCTTCATCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.67, G:0.23, T:0.00
Consensus pattern (15 bp):
GCCACCACCGCCGCC
Found at i:46365031 original size:3 final size:3
Alignment explanation
Indices: 46365023--46365070 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
46365013 ATTCCCACTC
* * * *
46365023 ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46365071 CTTACCTCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:46365071 original size:18 final size:18
Alignment explanation
Indices: 46365024--46365072 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
46365014 TTCCCACTCA
*
46365024 TAATAATAATAATAATAC
1 TAATAATAATACTAATAC
46365042 TAATAATAATACTAATAC
1 TAATAATAATACTAATAC
*
46365060 TAATATTAATACT
1 TAATAATAATACT
46365073 TACCTCACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATAATAATACTAATAC
Found at i:46365072 original size:12 final size:12
Alignment explanation
Indices: 46365023--46365070 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
46365013 ATTCCCACTC
*
46365023 ATAATAATAATA
1 ATAATACTAATA
46365035 ATAATACTAATA
1 ATAATACTAATA
46365047 ATAATACTAATA
1 ATAATACTAATA
* *
46365059 CTAATATTAATA
1 ATAATACTAATA
46365071 CTTACCTCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATACTAATA
Found at i:46365812 original size:20 final size:20
Alignment explanation
Indices: 46365778--46365817 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
46365768 TTCTATTCTG
*
46365778 TTTCTTTTCTGTTTTGTTTC
1 TTTCTTTTCTGTTTTATTTC
46365798 TTTCTTTTTCT-TTTTATTTC
1 TTTC-TTTTCTGTTTTATTTC
46365818 CTTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTGTTTTATTTC
Found at i:46365984 original size:31 final size:28
Alignment explanation
Indices: 46365948--46366015 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
46365938 TTGTCTTTAT
**
46365948 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
* *
46365978 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
46366007 TTAATTTAT
1 TTAATTTAT
46366016 ATATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 2 0.06
31 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:46366032 original size:21 final size:20
Alignment explanation
Indices: 46365994--46366032 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
46365984 TAATTTAATA
*
46365994 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
46366014 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
46366033 AATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:46370975 original size:21 final size:21
Alignment explanation
Indices: 46370933--46370975 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
46370923 TTCACTATAC
*
46370933 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
46370954 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
46370975 A
1 A
46370976 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:46372080 original size:39 final size:37
Alignment explanation
Indices: 46372013--46372105 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
46372003 ACCAGAATGG
* *
46372013 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
46372052 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
46372089 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
46372106 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:46372469 original size:3 final size:3
Alignment explanation
Indices: 46372461--46372505 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
46372451 ATTCCCACTC
* * * *
46372461 ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46372506 CTTACCTCAC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:46372506 original size:18 final size:18
Alignment explanation
Indices: 46372461--46372507 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
46372451 ATTCCCACTC
*
46372461 ATAATAATAATAATACTA
1 ATAATAATACTAATACTA
46372479 ATAATAATACTAATACTA
1 ATAATAATACTAATACTA
*
46372497 ATATTAATACT
1 ATAATAATACT
46372508 TACCTCACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATAATACTAATACTA
Found at i:46372507 original size:12 final size:12
Alignment explanation
Indices: 46372465--46372505 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
46372455 CCACTCATAA
46372465 TAATAATAATAC
1 TAATAATAATAC
46372477 TAATAATAATAC
1 TAATAATAATAC
* *
46372489 TAATACTAATAT
1 TAATAATAATAC
46372501 TAATA
1 TAATA
46372506 CTTACCTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (12 bp):
TAATAATAATAC
Found at i:46373245 original size:19 final size:21
Alignment explanation
Indices: 46373216--46373255 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
46373206 ATTCTGTTTC
*
46373216 TTTTCTGTTTTGTTT-CTTTT
1 TTTTCTGTTTTATTTCCTTTT
46373236 TTTTCT-TTTTATTTCCTTTT
1 TTTTCTGTTTTATTTCCTTTT
46373256 ATTTAATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.03, C:0.12, G:0.05, T:0.80
Consensus pattern (21 bp):
TTTTCTGTTTTATTTCCTTTT
Found at i:46373413 original size:28 final size:28
Alignment explanation
Indices: 46373381--46373444 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
46373371 TTGTCTTTAT
**
46373381 TTAATTTATTTCTTAATATA-TTTATAA
1 TTAATTTATTTAATAATATACTTTATAA
*
46373408 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATACTTTATAA
46373437 TT-ATTTAT
1 TTAATTTAT
46373445 ATATTTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 6 0.19
28 17 0.55
29 8 0.26
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (28 bp):
TTAATTTATTTAATAATATACTTTATAA
Found at i:46378114 original size:8 final size:8
Alignment explanation
Indices: 46378101--46378125 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
46378091 TATGGATATT
46378101 CCTAAATG
1 CCTAAATG
46378109 CCTAAATG
1 CCTAAATG
46378117 CCTAAATG
1 CCTAAATG
46378125 C
1 C
46378126 AAATCTTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.24
Consensus pattern (8 bp):
CCTAAATG
Found at i:46385489 original size:28 final size:29
Alignment explanation
Indices: 46385434--46385498 Score: 91
Period size: 28 Copynumber: 2.3 Consensus size: 29
46385424 CTATATTTAA
46385434 ATAAAATTATTAATATTATTCTCAAAAT-
1 ATAAAATTATTAATATTATTCTCAAAATC
46385462 ATAAAATTATTAATATTTATT-T-ATAAATC
1 ATAAAATTATTAATA-TTATTCTCA-AAATC
46385491 ATAAAATT
1 ATAAAATT
46385499 TCTTATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
27 1 0.03
28 20 0.59
29 13 0.38
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.45
Consensus pattern (29 bp):
ATAAAATTATTAATATTATTCTCAAAATC
Found at i:46389235 original size:19 final size:19
Alignment explanation
Indices: 46389211--46389257 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
46389201 GTATATGTAG
* *
46389211 ATATATGTTATATGCATAT
1 ATATATATTATAAGCATAT
*
46389230 ATATATATTATAAGCATAC
1 ATATATATTATAAGCATAT
*
46389249 AAATATATT
1 ATATATATT
46389258 TTCATAAGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (19 bp):
ATATATATTATAAGCATAT
Found at i:46391246 original size:31 final size:29
Alignment explanation
Indices: 46391204--46391292 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 29
46391194 AATTTTAAAA
* *
46391204 TTATATTTAAATTTTGATTTAATATATTT
1 TTATATATAAATTTTGATTTAATATAATT
* *
46391233 TTTTATGCATAAATTTTGATTT-ATGTAATT
1 TTATAT--ATAAATTTTGATTTAATATAATT
*
46391263 TTATATATAAAATTTTAATTTAATATAATT
1 TTATATAT-AAATTTTGATTTAATATAATT
46391293 CTCATAAAGT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
28 2 0.04
29 16 0.33
30 18 0.37
31 13 0.27
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (29 bp):
TTATATATAAATTTTGATTTAATATAATT
Found at i:46391685 original size:29 final size:29
Alignment explanation
Indices: 46391630--46391685 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
46391620 TATGACTTTA
* * * **
46391630 TAATTTTTTTCTATTTTTCTATTATTTTG
1 TAATTTTTTACGATTTTTATAAAATTTTG
46391659 TAATTTTTTACGATTTTTATAAAATTT
1 TAATTTTTTACGATTTTTATAAAATTT
46391686 AATATTTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.25, C:0.05, G:0.04, T:0.66
Consensus pattern (29 bp):
TAATTTTTTACGATTTTTATAAAATTTTG
Found at i:46391697 original size:20 final size:21
Alignment explanation
Indices: 46391672--46391715 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
46391662 TTTTTTACGA
46391672 TTTTTATAAAATTTAAT-ATT
1 TTTTTATAAAATTTAATAATT
**
46391692 TTTTTATAATTTTTAATAATT
1 TTTTTATAAAATTTAATAATT
46391713 TTT
1 TTT
46391716 ATTCTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTATAAAATTTAATAATT
Found at i:46391710 original size:10 final size:10
Alignment explanation
Indices: 46391683--46391716 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
46391673 TTTTATAAAA
*
46391683 TTTAATATTT
1 TTTAATAATT
*
46391693 TTTTATAATT
1 TTTAATAATT
46391703 TTTAATAATT
1 TTTAATAATT
46391713 TTTA
1 TTTA
46391717 TTCTTATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTAATAATT
Found at i:46396155 original size:29 final size:29
Alignment explanation
Indices: 46396123--46396217 Score: 70
Period size: 29 Copynumber: 3.2 Consensus size: 29
46396113 TTTTTTTTTT
46396123 AATTTGGTATCTAAACATTTTTTTGACCC
1 AATTTGGTATCTAAACATTTTTTTGACCC
* * **
46396152 AATTCGGTATTTGAACTTAACATTTTTTT--CTT
1 AATTTGGTA--T---CTAAACATTTTTTTGACCC
*
46396184 AATTTGGTACCTAAAC-TTTTTTTAGACCC
1 AATTTGGTATCTAAACATTTTTTT-GACCC
46396213 AATTT
1 AATTT
46396218 AGGACCCGAA
Statistics
Matches: 49, Mismatches: 9, Indels: 16
0.66 0.12 0.22
Matches are distributed among these distances:
26 7 0.14
27 5 0.10
29 14 0.29
31 1 0.02
32 9 0.18
34 13 0.27
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.47
Consensus pattern (29 bp):
AATTTGGTATCTAAACATTTTTTTGACCC
Found at i:46396229 original size:61 final size:61
Alignment explanation
Indices: 46396113--46396269 Score: 183
Period size: 61 Copynumber: 2.6 Consensus size: 61
46396103 AATTGACGTT
* * * ***
46396113 TTTTTTTTTTAATTTGGTATCTAAACATTTTTTT-GACCCAATTCGGTATTTGAACTTAACA
1 TTTTTTTCTTAATTTGGTACCTAAAC-TTTTTTTAGACCCAATTAGGTACCCGAACTTAACA
*
46396174 TTTTTTTCTTAATTTGGTACCTAAACTTTTTTTAGACCCAATTTAGG-ACCCGAACTTGACA
1 TTTTTTTCTTAATTTGGTACCTAAACTTTTTTTAGACCCAA-TTAGGTACCCGAACTTAACA
* * **
46396235 TTTTTTTCCTAATTTGATACCTAGCCTTTTTTTAG
1 TTTTTTTCTTAATTTGGTACCTAAACTTTTTTTAG
46396270 GTTTAATTTT
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
60 7 0.08
61 72 0.87
62 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.10, T:0.49
Consensus pattern (61 bp):
TTTTTTTCTTAATTTGGTACCTAAACTTTTTTTAGACCCAATTAGGTACCCGAACTTAACA
Found at i:46396501 original size:4 final size:4
Alignment explanation
Indices: 46396481--46396514 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
46396471 CATTATTTTC
* *
46396481 AATT AATA AAAT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AATT AATT AA
46396515 AACTAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (4 bp):
AATT
Found at i:46396938 original size:19 final size:18
Alignment explanation
Indices: 46396914--46396949 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
46396904 TTTTAAAAAA
46396914 TATATTGTAAAAATATTCG
1 TATATT-TAAAAATATTCG
*
46396933 TATATTTTAAAATATTC
1 TATATTTAAAAATATTC
46396950 AAAGTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
TATATTTAAAAATATTCG
Found at i:46398442 original size:29 final size:29
Alignment explanation
Indices: 46398383--46398448 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
46398373 TTCCCAAGTT
*
46398383 GGTACCT-AA-ATTTTTTTGGTCACATAT
1 GGTACCTAAATATTTTTTTGGTCACATAC
* *
46398410 GGTACTTAAATATTTTTTTTGTCACA-AGC
1 GGTACCTAAATATTTTTTTGGTCACATA-C
46398439 GGTACCTAAA
1 GGTACCTAAA
46398449 CTATACTCCG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 6 0.19
28 3 0.09
29 23 0.72
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (29 bp):
GGTACCTAAATATTTTTTTGGTCACATAC
Found at i:46403273 original size:240 final size:241
Alignment explanation
Indices: 46402766--46403442 Score: 1167
Period size: 240 Copynumber: 2.8 Consensus size: 241
46402756 TGAGACAGTT
*
46402766 TGGGATTAAATCCCAATTTTCAACTAACAACATCATCATCTCAAGTTTATTATTATCATAATTTT
1 TGGGATTAAATCCCAATTTTTAACTAACAACATCATCATCTCAAGTTTATTATTATCATAATTTT
* * * * * * *
46402831 ATGGAAGTTTTGAGTCTTATTCCAATGTAAACTCCAGTACAACTCACGATAACGAGAAGAAATTA
66 ATGGAAATTTTGACTCTTATTCCAATGTAAACGCTAATACAACTCACGATAACGAAAAAAAATTA
*
46402896 AATTAAAGGGAAAAAAAGATCAAACAAGACACTAAAACAAGAAGATTCCAAGGCTCGCTTTTAAA
131 AATT-AA---AAAAAAA-ATCAAACAAAACACTAAAACAAGAAGATTCCAAGGCTCGCTTTTAAA
46402961 TAAACAAACACAAACAAACATATTAAAATTCTTAACAAACACGAACTACAG
191 TAAACAAACACAAACAAACATATTAAAATTCTTAACAAACACGAACTACAG
46403012 TGGGATTAAATCCCAATTTTTAACTAACAACATCATCATCTCAAGTTTATTATTATCATAATTTT
1 TGGGATTAAATCCCAATTTTTAACTAACAACATCATCATCTCAAGTTTATTATTATCATAATTTT
46403077 ATGGAAATTTTGACTCTTATTCCAATGTAAACGCTAATACAACTCACGATAACGAAAAAAAATTA
66 ATGGAAATTTTGACTCTTATTCCAATGTAAACGCTAATACAACTCACGATAACGAAAAAAAATTA
46403142 AATT-AAAAAAAAATCAAACAAAACACTAAAACAAGAAGATTCCAAGGCTCGCTTTTAAATAAAC
131 AATTAAAAAAAAAATCAAACAAAACACTAAAACAAGAAGATTCCAAGGCTCGCTTTTAAATAAAC
46403206 AAACACAAACAAACATATTAAAATTCTTAACAAACACGAACTACAG
196 AAACACAAACAAACATATTAAAATTCTTAACAAACACGAACTACAG
46403252 TGGGATTAAATCCCAATTTTTAACTAACAACATCATCATCTCAAGTTTATTATTATCATAATTTT
1 TGGGATTAAATCCCAATTTTTAACTAACAACATCATCATCTCAAGTTTATTATTATCATAATTTT
46403317 ATGGAAATTTTGACTCTTATTCCAATGTAAACGCTAATACAACTCACGATAACGAAAAAAAATTA
66 ATGGAAATTTTGACTCTTATTCCAATGTAAACGCTAATACAACTCACGATAACGAAAAAAAATTA
* *
46403382 AATTAAAAGAAAAAAAAATCAAACAAAACACTAAAATAAGAAGATTCCAAGGCTCACTTTT
131 AATT---A-AAAAAAAAATCAAACAAAACACTAAAACAAGAAGATTCCAAGGCTCGCTTTT
46403443 GACCAACTCA
Statistics
Matches: 415, Mismatches: 11, Indels: 11
0.95 0.03 0.03
Matches are distributed among these distances:
240 231 0.56
241 7 0.02
244 1 0.00
245 50 0.12
246 126 0.30
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.27
Consensus pattern (241 bp):
TGGGATTAAATCCCAATTTTTAACTAACAACATCATCATCTCAAGTTTATTATTATCATAATTTT
ATGGAAATTTTGACTCTTATTCCAATGTAAACGCTAATACAACTCACGATAACGAAAAAAAATTA
AATTAAAAAAAAAATCAAACAAAACACTAAAACAAGAAGATTCCAAGGCTCGCTTTTAAATAAAC
AAACACAAACAAACATATTAAAATTCTTAACAAACACGAACTACAG
Found at i:46410051 original size:10 final size:10
Alignment explanation
Indices: 46410024--46410192 Score: 51
Period size: 10 Copynumber: 17.1 Consensus size: 10
46410014 TTTGTAAGGC
46410024 ATTATAAAAA
1 ATTATAAAAA
46410034 ATTCATAAAAA
1 ATT-ATAAAAA
* *
46410045 CTTAT-AAAT
1 ATTATAAAAA
**
46410054 A-TATAATTA
1 ATTATAAAAA
* * *
46410063 TTTCTAATAA
1 ATTATAAAAA
*
46410073 ATTATAAATA
1 ATTATAAAAA
**
46410083 AGAAT-AAAA
1 ATTATAAAAA
*
46410092 ATTATACAAA
1 ATTATAAAAA
* * *
46410102 GTTGT-AAAC
1 ATTATAAAAA
* *
46410111 ATTATTAAAC
1 ATTATAAAAA
* *
46410121 ATAATAAAAG
1 ATTATAAAAA
*
46410131 CTTATAAAAA
1 ATTATAAAAA
*
46410141 ATTCTAAACAA
1 ATTATAAA-AA
* **
46410152 ATTCTAGTAA
1 ATTATAAAAA
* *
46410162 ACTATACAAA
1 ATTATAAAAA
46410172 A-TATATAAAA
1 ATTATA-AAAA
46410182 ATTATAAAAA
1 ATTATAAAAA
46410192 A
1 A
46410193 AATTCATTTA
Statistics
Matches: 111, Mismatches: 40, Indels: 16
0.66 0.24 0.10
Matches are distributed among these distances:
8 3 0.03
9 19 0.17
10 68 0.61
11 21 0.19
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (10 bp):
ATTATAAAAA
Found at i:46420708 original size:3 final size:3
Alignment explanation
Indices: 46420700--46420729 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
46420690 TGTTTTCGAC
*
46420700 GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
46420730 CTAGATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:46422663 original size:26 final size:28
Alignment explanation
Indices: 46422630--46422686 Score: 100
Period size: 27 Copynumber: 2.1 Consensus size: 28
46422620 AAAAATAACC
46422630 AAAATATTAT-AATTTTTTTATTTA-CA
1 AAAATATTATAAATTTTTTTATTTATCA
46422656 AAAATATTATAAATTTTTTTATTTATCA
1 AAAATATTATAAATTTTTTTATTTATCA
46422684 AAA
1 AAA
46422687 TATACCAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 10 0.34
27 14 0.48
28 5 0.17
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (28 bp):
AAAATATTATAAATTTTTTTATTTATCA
Found at i:46423135 original size:19 final size:19
Alignment explanation
Indices: 46423113--46423167 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
46423103 TAGTTTAACT
46423113 TAATAACTCTATTTTAATG
1 TAATAACTCTATTTTAATG
* * * *
46423132 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATG
*
46423150 TAATAACTTTATTTTAAT
1 TAATAACTCTATTTTAAT
46423168 CCTCTGAATT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTAATG
Found at i:46423407 original size:18 final size:19
Alignment explanation
Indices: 46423368--46423463 Score: 124
Period size: 19 Copynumber: 5.2 Consensus size: 19
46423358 ATTTTATATT
*
46423368 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGATTTA
*
46423387 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGATTTA
*
46423405 TTAAATTAAAATAGATTTA
1 TTAAATGAAAATAGATTTA
*
46423424 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGATTTA
* *
46423442 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGATTTA
46423461 TTA
1 TTA
46423464 CTTAATTAGA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
18 31 0.47
19 35 0.53
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (19 bp):
TTAAATGAAAATAGATTTA
Found at i:46423409 original size:37 final size:37
Alignment explanation
Indices: 46423368--46423463 Score: 174
Period size: 37 Copynumber: 2.6 Consensus size: 37
46423358 ATTTTATATT
*
46423368 TTAAATGAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
*
46423405 TTAAATTAAAATAGATTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
46423442 TTAAATTAAAATAGAGTTATTA
1 TTAAATTAAAATAGAGTTATTA
46423464 CTTAATTAGA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (37 bp):
TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
Found at i:46426804 original size:3 final size:3
Alignment explanation
Indices: 46426796--46426822 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
46426786 TTTACCTGTG
46426796 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
46426823 AAATTACCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:46442836 original size:19 final size:20
Alignment explanation
Indices: 46442808--46442845 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
46442798 CAATTAATTT
*
46442808 TTTTATAAAAAT-TATTAAA
1 TTTTAAAAAAATATATTAAA
46442827 TTTTAAAAAAATATATTAA
1 TTTTAAAAAAATATATTAA
46442846 TTGCTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTTAAAAAAATATATTAAA
Found at i:46442946 original size:18 final size:19
Alignment explanation
Indices: 46442923--46442968 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
46442913 TTTAAAAATG
* *
46442923 ATTTAATAAA-TAATATAA
1 ATTTAATAAAGTAAAAAAA
46442941 ATTTAA-AAAGTAAAAAAA
1 ATTTAATAAAGTAAAAAAA
*
46442959 ATTAAATAAA
1 ATTTAATAAA
46442969 ATGTTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 3 0.13
18 17 0.74
19 3 0.13
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
ATTTAATAAAGTAAAAAAA
Found at i:46443226 original size:9 final size:9
Alignment explanation
Indices: 46443212--46443260 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
46443202 TTTGGTTAAA
46443212 AATTAACCG
1 AATTAACCG
**
46443221 AATTAACTT
1 AATTAACCG
*
46443230 AATTACCCG
1 AATTAACCG
46443239 AATTAACCG
1 AATTAACCG
*
46443248 AATTACCCG
1 AATTAACCG
46443257 AATT
1 AATT
46443261 GAATCACTAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:46443239 original size:18 final size:18
Alignment explanation
Indices: 46443212--46443260 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
46443202 TTTGGTTAAA
* **
46443212 AATTAACCGAATTAACTT
1 AATTACCCGAATTAACCG
46443230 AATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
46443248 AATTACCCGAATT
1 AATTACCCGAATT
46443261 GAATCACTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:46445799 original size:37 final size:37
Alignment explanation
Indices: 46445758--46445905 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
46445748 TAGTTTTAGC
46445758 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
*
46445795 TACACTTATCTGATCAAGAAAAAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
*
46445832 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
****
46445869 TACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
46445906 AGCCTAGCTA
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:46449141 original size:41 final size:41
Alignment explanation
Indices: 46448893--46449130 Score: 381
Period size: 41 Copynumber: 5.8 Consensus size: 41
46448883 TTTATCGTTA
* * * * *
46448893 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
46448934 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
46448975 GTGACACATTTCAGGCTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
46449016 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
46449057 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
46449098 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
46449131 AAGAGCCGGT
Statistics
Matches: 186, Mismatches: 7, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 181 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:46449405 original size:33 final size:33
Alignment explanation
Indices: 46449349--46449446 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
46449339 ATATGTATAT
*
46449349 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
46449381 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
46449414 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
46449447 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:46454448 original size:36 final size:37
Alignment explanation
Indices: 46454379--46454525 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
46454369 TAGTTTTAGC
46454379 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
46454416 TACACTTATCTGATCAAGAAA-AAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
*
46454452 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
****
46454489 TACACTTATCTGATCAAGTGGTAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
46454526 AGCCTAGCTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
36 36 0.35
37 67 0.65
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
Found at i:46454498 original size:73 final size:74
Alignment explanation
Indices: 46454379--46454525 Score: 251
Period size: 73 Copynumber: 2.0 Consensus size: 74
46454369 TAGTTTTAGC
*
46454379 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTATCTGATCAAG-AAAAAAGTG
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGTAAAAAAGTG
46454443 ATAAGTGGT
66 ATAAGTGGT
***
46454452 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGTGGTAAAGTG
1 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGTAAAAAAGTG
46454517 ATAAGTGGT
66 ATAAGTGGT
46454526 AGCCTAGCTA
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
73 54 0.78
74 15 0.22
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (74 bp):
TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTATCTGATCAAGTAAAAAAGTG
ATAAGTGGT
Found at i:46459239 original size:19 final size:18
Alignment explanation
Indices: 46459195--46459244 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
46459185 TTTAATTCTA
*
46459195 ATATTTTTAAAATTTTAT
1 ATATTTTAAAAATTTTAT
*
46459213 -TATATTAAAAATATTTAT
1 ATATTTTAAAAAT-TTTAT
46459231 ATATTTTAACAAAT
1 ATATTTTAA-AAAT
46459245 CTAATCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 10 0.38
18 5 0.19
19 7 0.27
20 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATTTTAAAAATTTTAT
Found at i:46497188 original size:103 final size:101
Alignment explanation
Indices: 46497036--46497231 Score: 266
Period size: 103 Copynumber: 1.9 Consensus size: 101
46497026 TACAATTGTA
* * * *
46497036 GTGCCATAACCCAGTTATGGTCTTATCATCAGAATGTCATATCCCAGCTATGGTCTTACATATAT
1 GTGCCATAACCCAGTTATGGTCTTATCATAAAAATGTCATAGCCAAGCTATGGTCTTACAT-T-T
* *
46497101 ATATACTGCCATGGTCCAACCATGGTCTTACGTTCAAG
64 AAACACTGCCATGGTCCAACCATGGTCTTACGTTCAAG
* * *
46497139 GTGCCATAACCCAGTTATGTTCTTTTCATAAAAATGTCATAGCTAAGCTATGGTCTTACATTTAA
1 GTGCCATAACCCAGTTATGGTCTTATCATAAAAATGTCATAGCCAAGCTATGGTCTTACATTTAA
* * *
46497204 ACATTGTCATGGTCTAACCATGGTCTTA
66 ACACTGCCATGGTCCAACCATGGTCTTA
46497232 TCCGCTTATT
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
101 26 0.32
102 1 0.01
103 54 0.67
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (101 bp):
GTGCCATAACCCAGTTATGGTCTTATCATAAAAATGTCATAGCCAAGCTATGGTCTTACATTTAA
ACACTGCCATGGTCCAACCATGGTCTTACGTTCAAG
Found at i:46498962 original size:20 final size:21
Alignment explanation
Indices: 46498919--46498962 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
46498909 AGTTAACATA
*
46498919 AAAATATCAAATAATTAATTT
1 AAAATATCAAATAATTAATAT
* *
46498940 AAAATATTAAA-AATTTATAT
1 AAAATATCAAATAATTAATAT
46498960 AAA
1 AAA
46498963 TCGATATGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATATCAAATAATTAATAT
Found at i:46499422 original size:22 final size:22
Alignment explanation
Indices: 46499377--46499423 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
46499367 AGTTGTAAAA
**
46499377 TTACAAAAAAAACGTATTACTT
1 TTACAAAAAAAAAATATTACTT
46499399 TTACAAAACAAAAAATATTA-TT
1 TTACAAAA-AAAAAATATTACTT
46499421 TTA
1 TTA
46499424 AGGGTGCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.34
Consensus pattern (22 bp):
TTACAAAAAAAAAATATTACTT
Found at i:46512793 original size:62 final size:62
Alignment explanation
Indices: 46512672--46512807 Score: 139
Period size: 62 Copynumber: 2.2 Consensus size: 62
46512662 CAATTTGATT
* * * * ** *
46512672 CTAAATAT-AAAAAATTCAATAAATTTAGCCCTCAATATTTATAAAAAGTATCATTTTAGTT
1 CTAACTATAAAAAAAATCAATAAATTTAGCCATCAACATTTATAAAAAGTATCAACTTAGTC
* * * * ** *
46512733 CTAATTTTAAAAAAAATCAATAAGTTTAGTCATCAACATTTATAAAATTTGTCAACTTAGTC
1 CTAACTATAAAAAAAATCAATAAATTTAGCCATCAACATTTATAAAAAGTATCAACTTAGTC
46512795 CTAACTATAAAAA
1 CTAACTATAAAAA
46512808 TAAAATTAAA
Statistics
Matches: 59, Mismatches: 15, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
61 6 0.10
62 53 0.90
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.36
Consensus pattern (62 bp):
CTAACTATAAAAAAAATCAATAAATTTAGCCATCAACATTTATAAAAAGTATCAACTTAGTC
Found at i:46522260 original size:40 final size:42
Alignment explanation
Indices: 46522211--46522292 Score: 105
Period size: 40 Copynumber: 2.0 Consensus size: 42
46522201 GATAAAGCAG
*
46522211 GAAATCGCTTCCTCAAGGAAGCGC-TT-TGTCCACGTGGACA
1 GAAAACGCTTCCTCAAGGAAGCGCTTTGTGTCCACGTGGACA
** **
46522251 GAAAACGCTTCCTTGAGGGCGCGCTTTGTGTCCACGTGGACA
1 GAAAACGCTTCCTCAAGGAAGCGCTTTGTGTCCACGTGGACA
46522293 AAACGTTTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 19 0.54
41 2 0.06
42 14 0.40
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.23
Consensus pattern (42 bp):
GAAAACGCTTCCTCAAGGAAGCGCTTTGTGTCCACGTGGACA
Found at i:46530275 original size:23 final size:23
Alignment explanation
Indices: 46530205--46530290 Score: 110
Period size: 21 Copynumber: 4.0 Consensus size: 23
46530195 CCTGATCAGT
46530205 ATACGACACAT-AAGTGCCTGA-
1 ATACGACACATAAAGTGCCTGAG
** *
46530226 A-ACGACACACGAGGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
46530246 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCTGAG
46530269 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
46530291 TCGGCAAAGC
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
20 9 0.16
21 23 0.42
23 23 0.42
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:46530287 original size:44 final size:41
Alignment explanation
Indices: 46530205--46530291 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 41
46530195 CCTGATCAGT
* *
46530205 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
*
46530246 ATACGACACATAAAGTGCCTGAGATACGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTGA-A-ACGACACACAAAGTGCCTG
46530290 AT
1 AT
46530292 CGGCAAAGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
41 11 0.28
42 10 0.25
43 1 0.03
44 18 0.45
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:46531500 original size:15 final size:16
Alignment explanation
Indices: 46531482--46531513 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
46531472 TTAATTAATA
46531482 TAATTT-ATAATATTT
1 TAATTTAATAATATTT
46531497 TAATTTAATAATATTT
1 TAATTTAATAATATTT
46531513 T
1 T
46531514 TATAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTAATAATATTT
Found at i:46531504 original size:25 final size:26
Alignment explanation
Indices: 46531469--46531521 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
46531459 TATTATCTTA
46531469 ATTTTAATTAAT-ATA-ATTTATAAT
1 ATTTTAATTAATAATATATTTATAAT
*
46531493 ATTTTAATTTAATAATATTTTTATAAT
1 ATTTTAA-TTAATAATATATTTATAAT
46531520 AT
1 AT
46531522 AAATCAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 7 0.28
25 5 0.20
26 3 0.12
27 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTTTAATTAATAATATATTTATAAT
Found at i:46536031 original size:32 final size:32
Alignment explanation
Indices: 46535995--46536057 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
46535985 TGATTTTAAG
46535995 CAAAAATTACCATGATCTCTTGTTTCTATGTA
1 CAAAAATTACCATGATCTCTTGTTTCTATGTA
46536027 CAAAAATTACCATGATCTCTTGTTTCTATGT
1 CAAAAATTACCATGATCTCTTGTTTCTATGT
46536058 GTTTGACTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (32 bp):
CAAAAATTACCATGATCTCTTGTTTCTATGTA
Found at i:46541284 original size:29 final size:30
Alignment explanation
Indices: 46541252--46541325 Score: 71
Period size: 30 Copynumber: 2.5 Consensus size: 30
46541242 AATTTACGAT
*
46541252 AAAATTATAATTT-ACCCCTTAAATATAAA
1 AAAATTATAATTTAACCCCTTAAAAATAAA
* * *
46541281 AAAA-TACATATTTAATCCCTTAAAAATAAT
1 AAAATTATA-ATTTAACCCCTTAAAAATAAA
* *
46541311 GAAATTATAACTTAA
1 AAAATTATAATTTAA
46541326 TATATAGTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
28 3 0.09
29 8 0.23
30 21 0.60
31 3 0.09
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.34
Consensus pattern (30 bp):
AAAATTATAATTTAACCCCTTAAAAATAAA
Found at i:46541751 original size:48 final size:47
Alignment explanation
Indices: 46541699--46541790 Score: 123
Period size: 47 Copynumber: 1.9 Consensus size: 47
46541689 TACATACCCT
*
46541699 AATCCAACCGAATATGA-AGGAAAAATCGTTAGATTTAATTAATATTCC
1 AATCCAACCGAAAATGAGA-G-AAAATCGTTAGATTTAATTAATATTCC
* * *
46541747 AATCCAACCTAAAATGAGAGAAAATGGTTGGATTTAATTAATAT
1 AATCCAACCGAAAATGAGAGAAAATCGTTAGATTTAATTAATAT
46541791 ACTAAAGCCG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
47 22 0.56
48 16 0.41
49 1 0.03
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (47 bp):
AATCCAACCGAAAATGAGAGAAAATCGTTAGATTTAATTAATATTCC
Found at i:46545193 original size:29 final size:32
Alignment explanation
Indices: 46545135--46545199 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 32
46545125 TAAAATTGAT
* *
46545135 TTTATTTATGATTTAAATATTCGATAAATAGTA
1 TTTATTTA-GATTTAAATATTAGATAAATAATA
46545168 TTTATTTA-ATTTAAAT-TTAGAT-AATAATA
1 TTTATTTAGATTTAAATATTAGATAAATAATA
46545197 TTT
1 TTT
46545200 GGATTAATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 9 0.30
30 5 0.17
31 8 0.27
33 8 0.27
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (32 bp):
TTTATTTAGATTTAAATATTAGATAAATAATA
Found at i:46545319 original size:21 final size:21
Alignment explanation
Indices: 46545293--46545333 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
46545283 TTACCGATTG
46545293 AAGAAAAAGGAAATTATAATT
1 AAGAAAAAGGAAATTATAATT
*
46545314 AAGAAAAGGGAAATTATAAT
1 AAGAAAAAGGAAATTATAAT
46545334 GTAATCTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.17, T:0.22
Consensus pattern (21 bp):
AAGAAAAAGGAAATTATAATT
Found at i:46551402 original size:5 final size:5
Alignment explanation
Indices: 46551384--46551425 Score: 70
Period size: 5 Copynumber: 8.8 Consensus size: 5
46551374 AACCAAAGAT
46551384 TAAA- TAAA- TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC TAAA
1 TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC TAAA
46551426 GAACATTCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 8 0.22
5 29 0.78
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAC
Found at i:46564198 original size:2 final size:2
Alignment explanation
Indices: 46564191--46564216 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
46564181 AGAAACGGAA
46564191 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
46564217 CAGACCTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:46572544 original size:13 final size:13
Alignment explanation
Indices: 46572526--46572552 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46572516 CCACCTTAGA
46572526 AATCCAACCATAT
1 AATCCAACCATAT
46572539 AATCCAACCATAT
1 AATCCAACCATAT
46572552 A
1 A
46572553 CTTTTATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (13 bp):
AATCCAACCATAT
Found at i:46573433 original size:16 final size:16
Alignment explanation
Indices: 46573412--46573457 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
46573402 TTATTAAATT
46573412 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
46573428 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
46573443 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
46573458 CTATATTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:46573466 original size:107 final size:108
Alignment explanation
Indices: 46573352--46573562 Score: 379
Period size: 107 Copynumber: 2.0 Consensus size: 108
46573342 TATAGTATTA
* * * *
46573352 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAAAAATTTATTAAATTATATA
46573417 TTTTAATTATAATATATTTAATAATAATTATG-TTAAATTATC
66 TTTTAATTATAATATATTTAATAATAATTATGTTTAAATTATC
46573459 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAAAAATTTATTAAATTATATA
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAAAAATTTATTAAATTATATA
46573524 TTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
66 TTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
46573563 ATGATTAAAT
Statistics
Matches: 99, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
107 93 0.94
108 6 0.06
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (108 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAAAAATTTATTAAATTATATA
TTTTAATTATAATATATTTAATAATAATTATGTTTAAATTATC
Found at i:46573538 original size:16 final size:16
Alignment explanation
Indices: 46573519--46573560 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
46573509 TTATTAAATT
*
46573519 ATATATTTTAATTATA
1 ATATATTTTAATAATA
46573535 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
46573550 AT-TATGTTTAA
1 ATATAT-TTTAA
46573561 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:46573545 original size:15 final size:15
Alignment explanation
Indices: 46573510--46573551 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46573500 TTAAAAAATT
*
46573510 TATTAAATTAT-ATA
1 TATTTAATTATAATA
46573524 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
46573538 TATTTAATAATAAT
1 TATTTAATTATAAT
46573552 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:46573786 original size:45 final size:44
Alignment explanation
Indices: 46573686--46573795 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 44
46573676 TTTTCCATTA
46573686 TGCTATTACACCTCTATT-C----CATTCAACCAAACATAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACATAAGAT
* * *
46573725 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGT-TGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACA-TAAGA-T
46573770 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
46573796 CCTCTAATCC
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
39 16 0.27
40 1 0.02
44 16 0.27
45 26 0.44
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACATAAGAT
Found at i:46573795 original size:16 final size:16
Alignment explanation
Indices: 46573776--46573843 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
46573766 GATTTGCTAT
* *
46573776 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
46573792 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
46573808 TACACCTCCAATCCAA
1 TACACCTCTAATCCAA
46573824 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
46573840 TACA
1 TACA
46573844 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:46574400 original size:33 final size:33
Alignment explanation
Indices: 46574356--46574477 Score: 190
Period size: 33 Copynumber: 3.7 Consensus size: 33
46574346 CATTCGTAAC
* * *
46574356 GCCATAACCCAGTTATGGTCTTATCACCAGAAT
1 GCCATAGCCCAGCTATGGTCTTATCATCAGAAT
46574389 GCCATAGCCCAGCTATGGTCTTATCATCAGAAT
1 GCCATAGCCCAGCTATGGTCTTATCATCAGAAT
*
46574422 GCCATAGCCCAACTATGGTCTTATCATCAGAAT
1 GCCATAGCCCAGCTATGGTCTTATCATCAGAAT
* *
46574455 GCCATAGCCTAGTTATGGTCTTA
1 GCCATAGCCCAGCTATGGTCTTA
46574478 CATATAAACA
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 82 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (33 bp):
GCCATAGCCCAGCTATGGTCTTATCATCAGAAT
Found at i:46577280 original size:27 final size:26
Alignment explanation
Indices: 46577235--46577285 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
46577225 TTACACTTTT
*
46577235 TATATATTTTTTAAGTTTATTATATAG
1 TATATATTTTGTAAGTTTA-TATATAG
46577262 TATATATTTTGT-AGTTTTATATAT
1 TATATATTTTGTAAG-TTTATATAT
46577286 TTCTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (26 bp):
TATATATTTTGTAAGTTTATATATAG
Found at i:46577835 original size:89 final size:90
Alignment explanation
Indices: 46577725--46577990 Score: 441
Period size: 87 Copynumber: 3.0 Consensus size: 90
46577715 AAACAACAAA
* *
46577725 ATTGTCCTAAGATATAAGATAAAGCCAAAAACAAGCTACGAACATTTTCAC-ATGGATTTTAAAC
1 ATTGTCCTAAGA-A-AAGATAAAGCCAATAACAAGCTACGAACATTTTCACTTTGGATTTTAAAC
*
46577789 AGGTTTTTCAGATAACAACAAGGATAC
64 AGGCTTTTCAGATAACAACAAGGATAC
46577816 ATTGTCCTAAGAAAAGATAAAGCCAATAACAAGCTACGAACATTTTCACTTTGGATTTTAAACAG
1 ATTGTCCTAAGAAAAGATAAAGCCAATAACAAGCTACGAACATTTTCACTTTGGATTTTAAACAG
46577881 GCTTTTCAGAT---AACAAGGATAC
66 GCTTTTCAGATAACAACAAGGATAC
*
46577903 ATTGTCCTAAGAAAAGATAAAGCCAATAACAAGCTACGAACATTTTCACTTTGGATTTTAAACAC
1 ATTGTCCTAAGAAAAGATAAAGCCAATAACAAGCTACGAACATTTTCACTTTGGATTTTAAACAG
*
46577968 GCTTTTCAGATAACAACAGGGAT
66 GCTTTTCAGATAACAACAAGGAT
46577991 TACTTGCAAA
Statistics
Matches: 166, Mismatches: 5, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
87 86 0.52
89 35 0.21
90 33 0.20
91 12 0.07
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (90 bp):
ATTGTCCTAAGAAAAGATAAAGCCAATAACAAGCTACGAACATTTTCACTTTGGATTTTAAACAG
GCTTTTCAGATAACAACAAGGATAC
Found at i:46580126 original size:17 final size:17
Alignment explanation
Indices: 46580104--46580146 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
46580094 AGTACTTGAA
*
46580104 TTTTCATCTTTAAAAAT
1 TTTTCATCCTTAAAAAT
*
46580121 TTTTCATCCTTAAAATT
1 TTTTCATCCTTAAAAAT
46580138 TTTTCATCC
1 TTTTCATCC
46580147 ACTTTAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.28, C:0.19, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTCATCCTTAAAAAT
Found at i:46582407 original size:33 final size:33
Alignment explanation
Indices: 46582362--46582451 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 33
46582352 ACATTCGTAG
* *
46582362 TGCCATAACCCAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTATCATCAGAA
46582395 TGCCATAGCCCAGCTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTATCATCAGAA
* * *
46582428 TGTCATAGCCTAGCTATAGTCTTA
1 TGCCATAGCCCAGCTATGGTCTTA
46582452 CATATAAACA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (33 bp):
TGCCATAGCCCAGCTATGGTCTTATCATCAGAA
Found at i:46585166 original size:20 final size:18
Alignment explanation
Indices: 46585140--46585200 Score: 70
Period size: 20 Copynumber: 3.3 Consensus size: 18
46585130 TTTTTGTCAC
46585140 TTTTTATATATTTTTTAA
1 TTTTTATATATTTTTTAA
* *
46585158 GTTTATTATATACTTTGT-A
1 -TTT-TTATATATTTTTTAA
46585177 TTTTTATATATTTCTTTAA
1 TTTTTATATATTT-TTTAA
46585196 TTTTT
1 TTTTT
46585201 TAGAGTAAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 9 0.26
18 5 0.14
19 10 0.29
20 11 0.31
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTTATATATTTTTTAA
Found at i:46586615 original size:9 final size:8
Alignment explanation
Indices: 46586601--46586625 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
46586591 AAGAATTAGC
46586601 AAAAAAAG
1 AAAAAAAG
46586609 AAAAAAAG
1 AAAAAAAG
46586617 AAAAAAAG
1 AAAAAAAG
46586625 A
1 A
46586626 TGGAGATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:46587625 original size:6 final size:6
Alignment explanation
Indices: 46587614--46587640 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
46587604 ATCCATTTCT
46587614 CTCACA CTCACA CTCACA CTCACA CTC
1 CTCACA CTCACA CTCACA CTCACA CTC
46587641 GCCAATACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.52, G:0.00, T:0.19
Consensus pattern (6 bp):
CTCACA
Found at i:46589749 original size:17 final size:17
Alignment explanation
Indices: 46589729--46589762 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
46589719 GACTAATCCC
46589729 TATAAATCACTTAGGTA
1 TATAAATCACTTAGGTA
* *
46589746 TATACATTACTTAGGTA
1 TATAAATCACTTAGGTA
46589763 CATGCTACGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (17 bp):
TATAAATCACTTAGGTA
Found at i:46591828 original size:10 final size:10
Alignment explanation
Indices: 46591813--46591854 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
46591803 TTAAAATATA
46591813 ATAATTTAAT
1 ATAATTTAAT
46591823 ATAA-TTAAT
1 ATAATTTAAT
46591832 ATAATTTACAAT
1 ATAATTT--AAT
*
46591844 ATAATATAAT
1 ATAATTTAAT
46591854 A
1 A
46591855 AAATAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
9 9 0.32
10 10 0.36
12 9 0.32
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (10 bp):
ATAATTTAAT
Found at i:46591861 original size:34 final size:33
Alignment explanation
Indices: 46591801--46591867 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
46591791 AATTTTGTTT
* *
46591801 ATTTAAAATATAATAATTTAATATAATTAATATA
1 ATTTAAAATATAATAATATAAAATAA-TAATATA
*
46591835 ATTTACAATATAAT-ATAATAAAATAATAATATA
1 ATTTAAAATATAATAAT-ATAAAATAATAATATA
46591868 CTTAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 9 0.31
34 20 0.69
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (33 bp):
ATTTAAAATATAATAATATAAAATAATAATATA
Found at i:46591865 original size:21 final size:21
Alignment explanation
Indices: 46591819--46591872 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
46591809 TATAATAATT
* *
46591819 TAATATAATTAATATAATTTA
1 TAATATAATTAATATAAATAA
*
46591840 CAATATAATATAATA-AAATAA
1 TAATATAAT-TAATATAAATAA
*
46591861 TAATATACTTAA
1 TAATATAATTAA
46591873 AAAAAAGCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 3 0.11
21 19 0.70
22 5 0.19
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (21 bp):
TAATATAATTAATATAAATAA
Found at i:46595588 original size:18 final size:17
Alignment explanation
Indices: 46595535--46595577 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
46595525 AGTACTTGAA
*
46595535 TTTTCATCTTTAAAATT
1 TTTTCATCCTTAAAATT
46595552 TTTTCATCCTTAAAATT
1 TTTTCATCCTTAAAATT
46595569 TTTTCATCC
1 TTTTCATCC
46595578 ACTTTAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.26, C:0.19, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTCATCCTTAAAATT
Found at i:46597171 original size:57 final size:57
Alignment explanation
Indices: 46597058--46597172 Score: 176
Period size: 57 Copynumber: 2.0 Consensus size: 57
46597048 TATTTGTTTA
* * * **
46597058 TTATTTGTTTTATAATATTTTAAATGTTTTATAATATTTCTTTATTCAAATGTTTTT
1 TTATTTGTTTTATAACATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTT
*
46597115 TTATTTGTTTTATTACATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTT
1 TTATTTGTTTTATAACATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTT
46597172 T
1 T
46597173 AAAATCATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (57 bp):
TTATTTGTTTTATAACATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTT
Found at i:46597192 original size:57 final size:57
Alignment explanation
Indices: 46597065--46597195 Score: 140
Period size: 57 Copynumber: 2.3 Consensus size: 57
46597055 TTATTATTTG
* * * * ** * * **
46597065 TTTTATAATATTTTAAATGTTTTATAATATTTCTTTATTCAAATGTTTTTTTATTTG
1 TTTTATTACATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTTTAAATCA
46597122 TTTTATTACATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTTTAAAATCA
1 TTTTATTACATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTTT-AAATCA
46597180 TATTTA-TA-ATTTTAAA
1 T-TTTATTACATTTTAAA
46597196 ATACGTAAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
57 53 0.85
58 5 0.08
59 4 0.06
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (57 bp):
TTTTATTACATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTTTAAATCA
Found at i:46598601 original size:12 final size:12
Alignment explanation
Indices: 46598584--46598609 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46598574 ACCGATCTGG
46598584 TTTCGTTCTCCC
1 TTTCGTTCTCCC
46598596 TTTCGTTCTCCC
1 TTTCGTTCTCCC
46598608 TT
1 TT
46598610 GATTTGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.38, G:0.08, T:0.54
Consensus pattern (12 bp):
TTTCGTTCTCCC
Found at i:46600309 original size:18 final size:18
Alignment explanation
Indices: 46600286--46600324 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
46600276 TTTACCAACT
46600286 TTATGGATAATAATTTAA
1 TTATGGATAATAATTTAA
46600304 TTATGGATAATAATTTAA
1 TTATGGATAATAATTTAA
46600322 TTA
1 TTA
46600325 AAGATACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (18 bp):
TTATGGATAATAATTTAA
Found at i:46600330 original size:18 final size:18
Alignment explanation
Indices: 46600291--46600330 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
46600281 CAACTTTATG
**
46600291 GATAATAATTTAATTATG
1 GATAATAATTTAATTAAA
46600309 GATAATAATTTAATTAAA
1 GATAATAATTTAATTAAA
46600327 GATA
1 GATA
46600331 CAACATAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (18 bp):
GATAATAATTTAATTAAA
Found at i:46600973 original size:20 final size:20
Alignment explanation
Indices: 46600948--46600987 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46600938 AATATTTTCC
*
46600948 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
46600968 AGTAAAACATTTTTCAGAAA
1 AGTAAAACATTTTACAGAAA
46600988 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:46600989 original size:34 final size:35
Alignment explanation
Indices: 46600936--46601002 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
46600926 CAAACACTAG
*
46600936 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
46600971 AAAACATTTTTCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
46601003 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:46600994 original size:14 final size:14
Alignment explanation
Indices: 46600971--46601010 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
46600961 ACAGAAAAGT
*
46600971 AAAACATTTTTCAG
1 AAAACATTTTACAG
* *
46600985 AAATCATTTTACGG
1 AAAACATTTTACAG
46600999 AAAACATTTTAC
1 AAAACATTTTAC
46601011 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:46602620 original size:7 final size:7
Alignment explanation
Indices: 46602605--46602635 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
46602595 TCTTTCTAGT
46602605 ATAAAAA
1 ATAAAAA
*
46602612 ATTAAAA
1 ATAAAAA
46602619 ATAAAAA
1 ATAAAAA
46602626 ATAAAAA
1 ATAAAAA
46602633 ATA
1 ATA
46602636 TTTAAAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (7 bp):
ATAAAAA
Found at i:46603642 original size:44 final size:44
Alignment explanation
Indices: 46603592--46603693 Score: 159
Period size: 44 Copynumber: 2.3 Consensus size: 44
46603582 AATGCGAGCA
* *
46603592 AGTCTAAATGCAAGCCCGAATGGATGCAAGTCGAAGTGGCGGAC
1 AGTCTAAATGCAAGCCCGAATGGATGCAAGCCGAAGTGGCGAAC
* * *
46603636 TGTCTAAATGCAAGCCCGAGTGGATGCAAGCCGAAGTGGTGAAC
1 AGTCTAAATGCAAGCCCGAATGGATGCAAGCCGAAGTGGCGAAC
46603680 AGTCTAAATGCAAG
1 AGTCTAAATGCAAG
46603694 GTGAGTGGTG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.32, C:0.20, G:0.30, T:0.18
Consensus pattern (44 bp):
AGTCTAAATGCAAGCCCGAATGGATGCAAGCCGAAGTGGCGAAC
Found at i:46612331 original size:64 final size:64
Alignment explanation
Indices: 46612247--46612423 Score: 249
Period size: 64 Copynumber: 2.8 Consensus size: 64
46612237 ATATATATTT
*
46612247 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
*
46612311 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTAC
*
46612375 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
46612424 GAATGTTTGT
Statistics
Matches: 105, Mismatches: 3, Indels: 12
0.88 0.03 0.10
Matches are distributed among these distances:
61 1 0.01
62 14 0.13
63 4 0.04
64 75 0.71
65 11 0.10
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
Done.