Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 49 of 352
Found at i:15892920 original size:13 final size:13
Alignment explanation
Indices: 15892886--15892928 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
15892876 TTTCTTTTTC
*
15892886 ATTTCATTTATTT
1 ATTTCATTTCTTT
15892899 CATTT-ATTTCTTT
1 -ATTTCATTTCTTT
15892912 ATTTCATTTCTTT
1 ATTTCATTTCTTT
15892925 ATTT
1 ATTT
15892929 TATTATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 4 0.15
13 19 0.70
14 4 0.15
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTCATTTCTTT
Found at i:15892930 original size:26 final size:26
Alignment explanation
Indices: 15892860--15892932 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
15892850 TTTTTCTCTG
*
15892860 TTTCATTTTCTTTGTTTT-TCTTTTTCA
1 TTTCA-TTTCTTTATTTTAT-TTTTTCA
*
15892887 TTTCATTTATTTCA-TTTATTTCTTT-A
1 TTTCATTTCTTT-ATTTTATTT-TTTCA
15892913 TTTCATTTCTTTATTTTATT
1 TTTCATTTCTTTATTTTATT
15892933 ATTAAACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
25 1 0.03
26 29 0.74
27 9 0.23
ACGTcount: A:0.14, C:0.12, G:0.01, T:0.73
Consensus pattern (26 bp):
TTTCATTTCTTTATTTTATTTTTTCA
Found at i:15897224 original size:11 final size:10
Alignment explanation
Indices: 15897206--15897240 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
15897196 CCAATTTGTG
15897206 AAAAAAAATA
1 AAAAAAAATA
15897216 AATAAAAAAT-
1 AA-AAAAAATA
15897226 AAAAAAAATA
1 AAAAAAAATA
15897236 AAAAA
1 AAAAA
15897241 GAGAACACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 7 0.30
10 9 0.39
11 7 0.30
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:15897231 original size:9 final size:9
Alignment explanation
Indices: 15897206--15897240 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
15897196 CCAATTTGTG
15897206 AAAAAAAAT
1 AAAAAAAAT
15897215 AAATAAAAAAT
1 -AA-AAAAAAT
15897226 AAAAAAAAT
1 AAAAAAAAT
15897235 AAAAAA
1 AAAAAA
15897241 GAGAACACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 13 0.54
10 4 0.17
11 7 0.29
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:15897234 original size:16 final size:17
Alignment explanation
Indices: 15897209--15897240 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15897199 ATTTGTGAAA
15897209 AAAAATAAATAAAAAAT
1 AAAAATAAATAAAAAAT
15897226 AAAAA-AAATAAAAAA
1 AAAAATAAATAAAAAA
15897241 GAGAACACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAATAAATAAAAAAT
Found at i:15897802 original size:9 final size:9
Alignment explanation
Indices: 15897788--15897855 Score: 55
Period size: 9 Copynumber: 7.0 Consensus size: 9
15897778 ATTGTAGAAT
15897788 TTTTTAAAA
1 TTTTTAAAA
*
15897797 TTTTTATATA
1 TTTTTA-AAA
* *
15897807 TTCTTTATAT
1 TT-TTTAAAA
15897817 TTTTTAATATA
1 TTTTTAA-A-A
15897828 TTTTTTAAAA
1 -TTTTTAAAA
*
15897838 TTTTTACAA
1 TTTTTAAAA
15897847 TTTTTAAAA
1 TTTTTAAAA
15897856 AAAATAAATT
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
9 26 0.57
10 8 0.17
11 5 0.11
12 7 0.15
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:15897826 original size:21 final size:21
Alignment explanation
Indices: 15897790--15897843 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
15897780 TGTAGAATTT
15897790 TTTAAAATTTTT-ATATATTC
1 TTTAAAATTTTTAATATATTC
* * *
15897810 TTTATATTTTTTAATATATTT
1 TTTAAAATTTTTAATATATTC
15897831 TTTAAAATTTTTA
1 TTTAAAATTTTTA
15897844 CAATTTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTAAAATTTTTAATATATTC
Found at i:15897882 original size:18 final size:18
Alignment explanation
Indices: 15897859--15897896 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15897849 TTTAAAAAAA
*
15897859 ATAAATTTTGAAATTTTT
1 ATAAATATTGAAATTTTT
*
15897877 ATAAATATTGTAATTTTT
1 ATAAATATTGAAATTTTT
15897895 AT
1 AT
15897897 TGAGAGGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
ATAAATATTGAAATTTTT
Found at i:15901166 original size:22 final size:23
Alignment explanation
Indices: 15901141--15901186 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
15901131 CAACCAAATC
15901141 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
15901163 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
15901186 A
1 A
15901187 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:15901192 original size:23 final size:23
Alignment explanation
Indices: 15901148--15901192 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15901138 ATCAATTCAA
*
15901148 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
15901171 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
15901193 CACATCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:15908848 original size:28 final size:28
Alignment explanation
Indices: 15908816--15908872 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
15908806 CCTTCCCTGC
15908816 AATATTAAATCGAGACCAATCCACATCA
1 AATATTAAATCGAGACCAATCCACATCA
*
15908844 AATATTAAATCGAGATCAATCCACATCA
1 AATATTAAATCGAGACCAATCCACATCA
15908872 A
1 A
15908873 CCAAATCAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.47, C:0.23, G:0.07, T:0.23
Consensus pattern (28 bp):
AATATTAAATCGAGACCAATCCACATCA
Found at i:15908905 original size:22 final size:23
Alignment explanation
Indices: 15908880--15908925 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
15908870 CAACCAAATC
15908880 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
15908902 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
15908925 A
1 A
15908926 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:15908931 original size:23 final size:23
Alignment explanation
Indices: 15908887--15908931 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15908877 ATCAATTCAA
*
15908887 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
15908910 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
15908932 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:15918381 original size:34 final size:34
Alignment explanation
Indices: 15918309--15918385 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
15918299 TTGCAATATG
* * * *
15918309 GTGTATTTATCACTCTGTCGAGTTATTTAGTGTG
1 GTGTAGTTATCACTCTGTCAAGCTATTTAGTGTA
*
15918343 GTGTAGTTATCGCTCTGTCAAGCTATCTT-GTGTA
1 GTGTAGTTATCACTCTGTCAAGCTAT-TTAGTGTA
15918377 GTGTAGTTA
1 GTGTAGTTA
15918386 CCCGTGCATT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 35 0.95
35 2 0.05
ACGTcount: A:0.18, C:0.13, G:0.25, T:0.44
Consensus pattern (34 bp):
GTGTAGTTATCACTCTGTCAAGCTATTTAGTGTA
Found at i:15918933 original size:8 final size:8
Alignment explanation
Indices: 15918922--15918958 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
15918912 TTTTAAATGA
15918922 TATTTTAT
1 TATTTTAT
15918930 TATTTTAT
1 TATTTTAT
15918938 TATTTTAT
1 TATTTTAT
15918946 TATTATT-T
1 TATT-TTAT
15918954 TATTT
1 TATTT
15918959 AGTATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 1 0.04
8 25 0.89
9 2 0.07
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:15919534 original size:24 final size:24
Alignment explanation
Indices: 15919507--15919556 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
15919497 GAATTAGAAG
15919507 TTGAATAAAATATGAAATTAAATT
1 TTGAATAAAATATGAAATTAAATT
15919531 TTGAATAAAATATGAAATTAAATT
1 TTGAATAAAATATGAAATTAAATT
15919555 TT
1 TT
15919557 ACTGCGTATA
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (24 bp):
TTGAATAAAATATGAAATTAAATT
Found at i:15921142 original size:46 final size:46
Alignment explanation
Indices: 15921089--15921573 Score: 410
Period size: 46 Copynumber: 10.8 Consensus size: 46
15921079 ACTTTCTGAA
*
15921089 ATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** *
15921135 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGCGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * * *
15921181 ATGAAATGAATAAGACCATGGTTG-AAG--A-C-TGGTAATCCTGCT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA-CATGAT
* * ** ** * * ** *
15921223 AT--AAGGATG-AGGTTCGCGG--G--AGAAAGC-T---TTC-TGAA
1 ATGAAATG-TGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
15921258 ATGAAATGTGTAAGGCCATGGTTGAAAGATACCATGGCAAAATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
15921304 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
15921350 ATGAAAAGTGTAAGACCATGGTTGAAAGATAGCATGGTAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* ** *
15921396 ATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACGCGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * * *
15921442 ATGAAATGAATAAGACCATGGTTGAAAGATACTATGGCAACATAACG
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-T
** ** *
15921489 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * * * *
15921535 AAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
15921574 TAATGTCGAA
Statistics
Matches: 354, Mismatches: 67, Indels: 36
0.77 0.15 0.08
Matches are distributed among these distances:
35 4 0.01
36 3 0.01
37 10 0.03
38 1 0.00
39 2 0.01
40 10 0.03
41 10 0.03
42 5 0.01
43 1 0.00
45 3 0.01
46 264 0.75
47 41 0.12
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:15921317 original size:169 final size:169
Alignment explanation
Indices: 15921038--15921375 Score: 525
Period size: 169 Copynumber: 2.0 Consensus size: 169
15921028 ATTTAGCCTG
* **
15921038 GACTGGTAATCCCACTGTAAGGATGAGGTTCGCGGGAGTGTACTTTCTGAAATGAAATGTGTAAA
1 GACTGGTAATCCCACTATAAGGATGAGGTTCGCGGGAGTAAACTTTCTGAAATGAAATGTGTAAA
*
15921103 ACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAAAATGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
** *
15921168 ATGGCAATGCGACATGAAATGAATAAGACCATGGTTGAA
131 ATGGCAACACGACATGAAAAGAATAAGACCATGGTTGAA
**
15921207 GACTGGTAATCCTGCTATAAGGATGAGGTTCGCGGGAG-AAAGCTTTCTGAAATGAAATGTGTAA
1 GACTGGTAATCCCACTATAAGGATGAGGTTCGCGGGAGTAAA-CTTTCTGAAATGAAATGTGTAA
**
15921271 GGCCATGGTTGAAAGATACCATGGCAAAATGATATGAAATGTGTAAGACCATGGTTGAAAGATAC
65 AACCATGGTTGAAAGATACCATGGCAAAATGATATGAAATGTGTAAGACCATGGTTGAAAGATAC
* * **
15921336 CATGGCAACATGATATGAAAAGTGTAAGACCATGGTTGAA
130 CATGGCAACACGACATGAAAAGAATAAGACCATGGTTGAA
15921376 AGATAGCATG
Statistics
Matches: 153, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
168 1 0.01
169 152 0.99
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (169 bp):
GACTGGTAATCCCACTATAAGGATGAGGTTCGCGGGAGTAAACTTTCTGAAATGAAATGTGTAAA
ACCATGGTTGAAAGATACCATGGCAAAATGATATGAAATGTGTAAGACCATGGTTGAAAGATACC
ATGGCAACACGACATGAAAAGAATAAGACCATGGTTGAA
Found at i:15923025 original size:15 final size:17
Alignment explanation
Indices: 15922993--15923026 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15922983 TTAAATTTAT
15922993 AGATGGTTATATTGGTA
1 AGATGGTTATATTGGTA
15923010 AGATGGTTA-A-TGGTA
1 AGATGGTTATATTGGTA
15923025 AG
1 AG
15923027 TGATAGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 1 0.06
17 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (17 bp):
AGATGGTTATATTGGTA
Found at i:15929462 original size:21 final size:22
Alignment explanation
Indices: 15929428--15929473 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
15929418 AAAAAAAAGA
*
15929428 AAATCTAAATTTTTAAAAATAT
1 AAATATAAATTTTTAAAAATAT
*
15929450 AAATATAAA-TTTTAAATATAT
1 AAATATAAATTTTTAAAAATAT
15929471 AAA
1 AAA
15929474 GAGAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AAATATAAATTTTTAAAAATAT
Found at i:15931802 original size:25 final size:25
Alignment explanation
Indices: 15931773--15931821 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
15931763 GAAACTCCTC
*
15931773 CGAGCTGAATAACGAAAAGCTCATG
1 CGAGCAGAATAACGAAAAGCTCATG
* *
15931798 CGAGCAGTATAACGAGAAGCTCAT
1 CGAGCAGAATAACGAAAAGCTCAT
15931822 ACAAGCTAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.16
Consensus pattern (25 bp):
CGAGCAGAATAACGAAAAGCTCATG
Found at i:15931834 original size:25 final size:25
Alignment explanation
Indices: 15931781--15931846 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
15931771 TCCGAGCTGA
* * *
15931781 ATAACGAAAAGCTCATGCGAGCAGT
1 ATAACGAGAAGCTCATACAAGCAGT
15931806 ATAACGAGAAGCTCATACAAGCTAG-
1 ATAACGAGAAGCTCATACAAGC-AGT
*
15931831 ATAACGGGAAGCTCAT
1 ATAACGAGAAGCTCAT
15931847 TAGAGCTGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
25 34 0.94
26 2 0.06
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (25 bp):
ATAACGAGAAGCTCATACAAGCAGT
Found at i:15932582 original size:27 final size:28
Alignment explanation
Indices: 15932552--15932608 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
15932542 ATTTTTGATG
15932552 AAATGAGCTATTTG-GG-CTAATTTGTGA
1 AAATGAGCT-TTTGAGGACTAATTTGTGA
*
15932579 AAATGAGGTTTTGAAGGACTAATTTGTGA
1 AAATGAGCTTTTG-AGGACTAATTTGTGA
15932608 A
1 A
15932609 TTTAACATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 8 0.31
28 2 0.08
29 12 0.46
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (28 bp):
AAATGAGCTTTTGAGGACTAATTTGTGA
Found at i:15933645 original size:12 final size:13
Alignment explanation
Indices: 15933628--15933659 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
15933618 GCAAAAGTTA
15933628 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
15933640 AGTTTTGATGCAT
1 AGTTTTGATGCAT
15933653 -GTTTTGA
1 AGTTTTGA
15933660 AATGTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:15939196 original size:40 final size:40
Alignment explanation
Indices: 15939141--15939220 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
15939131 TATCTTTGAG
*
15939141 AATCTCCATACCAAGTATCTTCCTTACTGCCCCCAAATCC
1 AATCTCCATACCAAGTATATTCCTTACTGCCCCCAAATCC
*
15939181 AATCTCTATACCAAGTATATTCCTTACTGCCCCCAAATCC
1 AATCTCCATACCAAGTATATTCCTTACTGCCCCCAAATCC
15939221 TTCATCTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.29, C:0.38, G:0.05, T:0.29
Consensus pattern (40 bp):
AATCTCCATACCAAGTATATTCCTTACTGCCCCCAAATCC
Found at i:15943731 original size:5 final size:5
Alignment explanation
Indices: 15943688--15943738 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
15943678 ACATAGTAAT
* *
15943688 AATTA TAATTA TAATTA ATATTT AATTA TATTA AA-TA AATTA AATTA
1 AATTA -AATTA -AATTA A-ATTA AATTA AATTA AATTA AATTA AATTA
15943735 AATT
1 AATT
15943739 TATTTTTAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
4 4 0.10
5 20 0.51
6 15 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (5 bp):
AATTA
Found at i:15945118 original size:27 final size:27
Alignment explanation
Indices: 15945055--15945119 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
15945045 TTATTATTAT
* *
15945055 TTATTATTAGTATGGTTTTATATTAAA
1 TTATTATTATTATGGTTTCATATTAAA
*
15945082 TTATTATTATTATGGTTTCATATTAAG
1 TTATTATTATTATGGTTTCATATTAAA
*
15945109 TTATAATTATT
1 TTATTATTATT
15945120 TAATTGGTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (27 bp):
TTATTATTATTATGGTTTCATATTAAA
Found at i:15945579 original size:22 final size:21
Alignment explanation
Indices: 15945547--15945587 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
15945537 TAAACAAAGT
15945547 AAATAAAAGAATA-AAAGAATG
1 AAATAAAAGAA-ACAAAGAATG
15945568 AAATAAAAAGAAACAAAGAA
1 AAAT-AAAAGAAACAAAGAA
15945588 AAGAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (21 bp):
AAATAAAAGAAACAAAGAATG
Found at i:15946570 original size:21 final size:21
Alignment explanation
Indices: 15946495--15946574 Score: 70
Period size: 21 Copynumber: 3.7 Consensus size: 21
15946485 ACTGATCAGA
*
15946495 CACTTTATGTGTCGTATTTCAGG
1 CACTTCATGTGTCGT-TTT-AGG
* * * * *
15946518 CACCTCGTGTGCCGTATCAGG
1 CACTTCATGTGTCGTTTTAGG
*
15946539 CACTTCGTGTGTCGTTTTAGG
1 CACTTCATGTGTCGTTTTAGG
*
15946560 CACTTTATGTGTCGT
1 CACTTCATGTGTCGT
15946575 ATTCTGATCA
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
21 33 0.73
22 1 0.02
23 11 0.24
ACGTcount: A:0.14, C:0.23, G:0.25, T:0.39
Consensus pattern (21 bp):
CACTTCATGTGTCGTTTTAGG
Found at i:15963769 original size:14 final size:14
Alignment explanation
Indices: 15963750--15963778 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
15963740 GCAATAATTC
15963750 AATCTAGGGTTCAT
1 AATCTAGGGTTCAT
15963764 AATCTAGGGTTCAT
1 AATCTAGGGTTCAT
15963778 A
1 A
15963779 GGTAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (14 bp):
AATCTAGGGTTCAT
Found at i:15964612 original size:49 final size:50
Alignment explanation
Indices: 15964454--15964668 Score: 254
Period size: 49 Copynumber: 4.3 Consensus size: 50
15964444 ATATGATGAA
* * * * * * *
15964454 TAAGAGCAGGCTACTATGCGTACCTGATAACTTCGATCACATATGTAATAC
1 TAAGTGCAGGCTACTACGTGTACCGGATAA-TTAGATCACATGTGTAGTAC
* * ** * *
15964505 TAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCGGATAATTAGATCACATGTGTAGTAC
* * *
15964555 TAAATGCAGGCTACTACGTGTACCGGATAATT-GGTCACGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCGGATAATTAGATCACATGTGTAGTAC
*
15964604 TAAGTGCAGGCTACTACGTGTACCGGATAATT-GATCGCATGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCGGATAATTAGATCACATGTGTAGTAC
15964653 TAAGTGCAGGCTACTA
1 TAAGTGCAGGCTACTA
15964669 TGCGTACCAG
Statistics
Matches: 143, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
49 78 0.55
50 42 0.29
51 23 0.16
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (50 bp):
TAAGTGCAGGCTACTACGTGTACCGGATAATTAGATCACATGTGTAGTAC
Found at i:15969415 original size:20 final size:20
Alignment explanation
Indices: 15969390--15969429 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
15969380 GTCCATCGTT
*
15969390 TTTAATATAATCTTTATATA
1 TTTAATATAATCTTAATATA
15969410 TTTAATATAATCTTAATATA
1 TTTAATATAATCTTAATATA
15969430 GACATCCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTAATATAATCTTAATATA
Found at i:15969418 original size:11 final size:11
Alignment explanation
Indices: 15969391--15969429 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
15969381 TCCATCGTTT
15969391 TTAATATAATC
1 TTAATATAATC
*
15969402 TTTATAT-AT-
1 TTAATATAATC
15969411 TTAATATAATC
1 TTAATATAATC
15969422 TTAATATA
1 TTAATATA
15969430 GACATCCATC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 6 0.25
10 4 0.17
11 14 0.58
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (11 bp):
TTAATATAATC
Found at i:15969732 original size:12 final size:12
Alignment explanation
Indices: 15969715--15969741 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15969705 TTTCAATTAA
15969715 ATAGTTAAAAAT
1 ATAGTTAAAAAT
15969727 ATAGTTAAAAAT
1 ATAGTTAAAAAT
15969739 ATA
1 ATA
15969742 ATTATTTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (12 bp):
ATAGTTAAAAAT
Found at i:15971564 original size:70 final size:70
Alignment explanation
Indices: 15971447--15971579 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 70
15971437 ACTTTTGGCA
* * * * * *
15971447 GGGCCAATGTTGAGATTTTCTAATTTATCAATGGGCCAAGACGATACCTACGCCTGTCATTTTTT
1 GGGCCAATGTTGAGATTTTATAATTTACCAAGGGGACAAGACAATACCTACCCCTGTCATTTTTT
15971512 AAAAG
66 AAAAG
* * *
15971517 GGGCCAATGTTGAGATTTTATTATTTACCAAGGGGATAAGGCAATACCTACCCCTGTCATTTT
1 GGGCCAATGTTGAGATTTTATAATTTACCAAGGGGACAAGACAATACCTACCCCTGTCATTTT
15971580 CTGAATATTA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
70 54 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (70 bp):
GGGCCAATGTTGAGATTTTATAATTTACCAAGGGGACAAGACAATACCTACCCCTGTCATTTTTT
AAAAG
Found at i:15979110 original size:16 final size:18
Alignment explanation
Indices: 15979078--15979110 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15979068 TCCTCCTGAA
15979078 ATTTTATATCAATTTTAC
1 ATTTTATATCAATTTTAC
15979096 ATTTTAT-TC-ATTTTA
1 ATTTTATATCAATTTTA
15979111 GTTCCTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTATATCAATTTTAC
Found at i:15989061 original size:104 final size:106
Alignment explanation
Indices: 15988809--15989076 Score: 420
Period size: 104 Copynumber: 2.6 Consensus size: 106
15988799 TTGTATATAA
** *
15988809 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
*
15988873 TTGAAATGTGAAAGGGGGTTGCTAATGTGCTGATTCCCCGCG
65 TTGAAATGTAAAAGGGGGTTGCTAATGTGCTGATTCCCCGCG
*
15988915 AGGGGTTGCTAAGTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGATATCCACCTGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC-ATATCT
15988979 TTGAAATG-AAAAGGGGGTTGCT-ATGTGCTGATTCCCC-CG
65 TTGAAATGTAAAAGGGGGTTGCTAATGTGCTGATTCCCCGCG
* *
15989018 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
15989077 ATAACGGTTA
Statistics
Matches: 151, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
103 28 0.19
104 44 0.29
105 41 0.27
106 38 0.25
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.30
Consensus pattern (106 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTAAAAGGGGGTTGCTAATGTGCTGATTCCCCGCG
Found at i:15996505 original size:102 final size:104
Alignment explanation
Indices: 15996292--15996557 Score: 432
Period size: 102 Copynumber: 2.6 Consensus size: 104
15996282 TTGTATATAA
** *
15996292 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
15996356 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAA-GTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
15996397 AGGGGTTGCTAAGTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGATATCCACTC-TATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCAC-CATATCT
15996460 TTGAAA-TGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAAGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
15996499 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
15996558 ATAACGGTTA
Statistics
Matches: 152, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
102 60 0.39
103 28 0.18
104 38 0.25
105 26 0.17
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAAGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:16000777 original size:16 final size:16
Alignment explanation
Indices: 16000747--16000779 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16000737 TGCATGATGG
16000747 TGGTTTGGAGTGGAGA
1 TGGTTTGGAGTGGAGA
16000763 TGGTATTGGAG-GGAGA
1 TGGT-TTGGAGTGGAGA
16000779 T
1 T
16000780 AATTGTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.21, C:0.00, G:0.48, T:0.30
Consensus pattern (16 bp):
TGGTTTGGAGTGGAGA
Found at i:16021142 original size:38 final size:38
Alignment explanation
Indices: 16021068--16021143 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
16021058 AGAACGGAAA
**
16021068 ATGTTAATGAGTAACTGATTTGTAACTTTTGGATAATG
1 ATGTTAATGAGTAACTGATTTGTAACTTTTCAATAATG
* * * *
16021106 ATGTTAATGGGTGATTGATTTGTCACTTTTCAATAATG
1 ATGTTAATGAGTAACTGATTTGTAACTTTTCAATAATG
16021144 TTAGTGATTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (38 bp):
ATGTTAATGAGTAACTGATTTGTAACTTTTCAATAATG
Found at i:16022918 original size:25 final size:25
Alignment explanation
Indices: 16022890--16022939 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
16022880 TTTTTCAGAG
16022890 TAAGTAATATTGATAATATTTAATA
1 TAAGTAATATTGATAATATTTAATA
*
16022915 TAAGTAATATTGATGATATTTAATA
1 TAAGTAATATTGATAATATTTAATA
16022940 GTTGATACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (25 bp):
TAAGTAATATTGATAATATTTAATA
Found at i:16022986 original size:19 final size:19
Alignment explanation
Indices: 16022962--16023000 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
16022952 TTAAGTAAAT
*
16022962 ATTGTTTGTATATATTTTA
1 ATTGTTGGTATATATTTTA
*
16022981 ATTGTTGGTATTTATTTTA
1 ATTGTTGGTATATATTTTA
16023000 A
1 A
16023001 GTAATTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.62
Consensus pattern (19 bp):
ATTGTTGGTATATATTTTA
Found at i:16023719 original size:15 final size:15
Alignment explanation
Indices: 16023701--16023736 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
16023691 GGTTTTTAAT
16023701 ATTTTTAGCTTTACG
1 ATTTTTAGCTTTACG
* *
16023716 ATTTTTGGGTTTACG
1 ATTTTTAGCTTTACG
16023731 ATTTTT
1 ATTTTT
16023737 TTTAAAAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.08, G:0.17, T:0.58
Consensus pattern (15 bp):
ATTTTTAGCTTTACG
Found at i:16026656 original size:20 final size:19
Alignment explanation
Indices: 16026631--16026671 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
16026621 CATTTCCAAT
*
16026631 TATCATATTTTCTATTTCAA
1 TATCATAATTTCTA-TTCAA
16026651 TATCATAATTTCTATTCAA
1 TATCATAATTTCTATTCAA
16026670 TA
1 TA
16026672 GCATTTCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (19 bp):
TATCATAATTTCTATTCAA
Found at i:16029736 original size:42 final size:42
Alignment explanation
Indices: 16029634--16029792 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 42
16029624 TATGTGCTAT
* ** *
16029634 CGTGTAAGACCAC-GTCTGAGAGGTTGGCATCGATTTGTGATTTA
1 CGTGTAAGACC-CTGTCTGGGACATTGGCATCGATAT-TGA-TTA
* *
16029678 CGTGTAAGACCATGTCTGGGACATTGGCATCGCATA-TGATTT
1 CGTGTAAGACCCTGTCTGGGACATTGGCATCG-ATATTGATTA
* *
16029720 TGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTA
1 CGTGTAAGACCCTGTCTGGGACATTGGCATCGATA-TTGATTA
* *
16029763 CATGTAAGACCAC-GTCTGGGACGTTGGCAT
1 CGTGTAAGACC-CTGTCTGGGACATTGGCAT
16029793 TGTACGAGCT
Statistics
Matches: 96, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.03
42 31 0.32
43 32 0.33
44 28 0.29
45 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCCTGTCTGGGACATTGGCATCGATATTGATTA
Found at i:16032621 original size:26 final size:26
Alignment explanation
Indices: 16032567--16032618 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
16032557 ACTTTTTGAT
*
16032567 TTCCAATGAATACCAGTTTCAATCAA
1 TTCCAATCAATACCAGTTTCAATCAA
16032593 TTCCAATTCAATACACA-TTTCAATCA
1 TTCCAA-TCAATAC-CAGTTTCAATCA
16032619 TTCATATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 6 0.26
27 15 0.65
28 2 0.09
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.33
Consensus pattern (26 bp):
TTCCAATCAATACCAGTTTCAATCAA
Found at i:16033338 original size:17 final size:15
Alignment explanation
Indices: 16033310--16033343 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
16033300 CCCTAATTTC
16033310 TCCCTTTTCTTTCTT
1 TCCCTTTTCTTTCTT
16033325 TCCCTTTTTCCTTTCTT
1 TCCC-TTTT-CTTTCTT
16033342 TC
1 TC
16033344 TTTCTCCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 4 0.24
17 9 0.53
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (15 bp):
TCCCTTTTCTTTCTT
Found at i:16033429 original size:5 final size:5
Alignment explanation
Indices: 16033421--16033456 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
16033411 AGTTTATGTT
16033421 TATTA TATTAA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATT-A TATTA TATTA TATTA TATTA TATTA
16033457 ACATAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATTA
Found at i:16033691 original size:24 final size:24
Alignment explanation
Indices: 16033664--16033709 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
16033654 TTTGTACAAA
16033664 TGTATTTAATTGTTACCATACACT
1 TGTATTTAATTGTTACCATACACT
* *
16033688 TGTATTTACTTTTTACCATACA
1 TGTATTTAATTGTTACCATACA
16033710 TGTGTTACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.48
Consensus pattern (24 bp):
TGTATTTAATTGTTACCATACACT
Found at i:16039669 original size:18 final size:18
Alignment explanation
Indices: 16039648--16039742 Score: 61
Period size: 18 Copynumber: 5.2 Consensus size: 18
16039638 TTAAACTCTC
16039648 TTTCTTTTTCAATTTCTT
1 TTTCTTTTTCAATTTCTT
*
16039666 TTTC-TTCTCACA-TTCTT
1 TTTCTTTTTCA-ATTTCTT
** * * *
16039683 TTTCACTCTCGATCTCTT
1 TTTCTTTTTCAATTTCTT
*
16039701 TTTCTTTTTC-CTTCTCTTT
1 TTTCTTTTTCAATT-TC-TT
*
16039720 TTTCTTTTTTCACTTTCTT
1 TTTC-TTTTTCAATTTCTT
16039739 TTTC
1 TTTC
16039743 AAGTTCATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
17 16 0.26
18 22 0.36
19 12 0.20
20 8 0.13
21 3 0.05
ACGTcount: A:0.07, C:0.25, G:0.01, T:0.66
Consensus pattern (18 bp):
TTTCTTTTTCAATTTCTT
Found at i:16039706 original size:6 final size:6
Alignment explanation
Indices: 16039697--16039784 Score: 52
Period size: 6 Copynumber: 13.8 Consensus size: 6
16039687 ACTCTCGATC
* * ** ***
16039697 TCTTTT TCTTTT TCCTTC TCTTTTT TCTTTTT TCACTT TCTTTT TCAAGT
1 TCTTTT TCTTTT TCTTTT TC-TTTT TC-TTTT TCTTTT TCTTTT TCTTTT
16039747 TCATTTT TCTTTT TCTTATT CTCTTTT TGC-TTT TCTTT
1 TC-TTTT TCTTTT TCTT-TT -TCTTTT T-CTTTT TCTTT
16039785 ACACTCTCTA
Statistics
Matches: 62, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
5 1 0.02
6 38 0.61
7 19 0.31
8 4 0.06
ACGTcount: A:0.06, C:0.20, G:0.02, T:0.72
Consensus pattern (6 bp):
TCTTTT
Found at i:16039728 original size:20 final size:20
Alignment explanation
Indices: 16039678--16039741 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 20
16039668 TCTTCTCACA
16039678 TTCTTTTTCACTCTCGATCTCTTT
1 TTCTTTTTCACT-TC--TCT-TTT
16039702 TTCTTTTTC-CTTCTCTTTT
1 TTCTTTTTCACTTCTCTTTT
16039721 TTCTTTTTTCACTT-TCTTTT
1 TTC-TTTTTCACTTCTCTTTT
16039741 T
1 T
16039742 CAAGTTCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
19 6 0.16
20 16 0.42
21 3 0.08
22 2 0.05
23 2 0.05
24 9 0.24
ACGTcount: A:0.05, C:0.25, G:0.02, T:0.69
Consensus pattern (20 bp):
TTCTTTTTCACTTCTCTTTT
Found at i:16039742 original size:19 final size:18
Alignment explanation
Indices: 16039695--16039742 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
16039685 TCACTCTCGA
16039695 TCTCTTTTTCTTTTTCCT
1 TCTCTTTTTCTTTTTCCT
16039713 TCTCTTTTTTCTTTTTTCACT
1 TCTC-TTTTTC-TTTTTC-CT
16039734 T-TCTTTTTC
1 TCTCTTTTTC
16039743 AAGTTCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 4 0.15
19 12 0.44
20 8 0.30
21 3 0.11
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (18 bp):
TCTCTTTTTCTTTTTCCT
Found at i:16047135 original size:22 final size:22
Alignment explanation
Indices: 16047082--16047135 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
16047072 TTTGGGTATG
* *
16047082 TGATG-ATGTTATTTTATAAATA
1 TGATGAAT-TTATCTTAAAAATA
16047104 TGCATGAATTTATCTTAAAAATA
1 TG-ATGAATTTATCTTAAAAATA
16047127 TGATGAATT
1 TGATGAATT
16047136 AATTTGGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 9 0.32
23 17 0.61
24 2 0.07
ACGTcount: A:0.39, C:0.04, G:0.13, T:0.44
Consensus pattern (22 bp):
TGATGAATTTATCTTAAAAATA
Found at i:16056298 original size:71 final size:71
Alignment explanation
Indices: 16056144--16056298 Score: 179
Period size: 71 Copynumber: 2.2 Consensus size: 71
16056134 TCTACTAGTG
* *
16056144 GTTGGGTGCAAAATATTATTGTTTTATCCAACCAGTGCAAGGCACATCTATCGTCAATTTATCCG
1 GTTGGGTGCAAAATATTATCGGTTTATCCAACCAGTGCAAGGCACATCTATCGTCAATTTATCCG
*
16056209 ACCAGT
66 ACCAAT
* ** * * * **
16056215 GATGGGCACAAAATATTATCGGTTTATTCAACCAGTGC-AGGACATATCTATTGTCGGTATTA-C
1 GTTGGGTGCAAAATATTATCGGTTTATCCAACCAGTGCAAGG-CACATCTATCGTCAAT-TTATC
16056278 CGACCAAT
64 CGACCAAT
16056286 GTTGGGTGCAAAA
1 GTTGGGTGCAAAA
16056299 CATTGTTACA
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
70 3 0.04
71 62 0.91
72 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (71 bp):
GTTGGGTGCAAAATATTATCGGTTTATCCAACCAGTGCAAGGCACATCTATCGTCAATTTATCCG
ACCAAT
Found at i:16058614 original size:17 final size:18
Alignment explanation
Indices: 16058594--16058630 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
16058584 GTTCAGTACC
16058594 AATCAGTCAA-CAGTAAT
1 AATCAGTCAATCAGTAAT
*
16058611 AATCAGTTAATCAGTAAT
1 AATCAGTCAATCAGTAAT
16058629 AA
1 AA
16058631 CCATTTATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (18 bp):
AATCAGTCAATCAGTAAT
Found at i:16058627 original size:18 final size:18
Alignment explanation
Indices: 16058594--16058645 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
16058584 GTTCAGTACC
*
16058594 AATCAGTCAA-CAGTAAT
1 AATCAGTTAATCAGTAAT
16058611 AATCAGTTAATCAGTAAT
1 AATCAGTTAATCAGTAAT
* * *
16058629 AACCATTTATTCAGTAA
1 AATCAGTTAATCAGTAA
16058646 CAGTTGTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 9 0.30
18 21 0.70
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (18 bp):
AATCAGTTAATCAGTAAT
Found at i:16058655 original size:18 final size:18
Alignment explanation
Indices: 16058633--16058685 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
16058623 AGTAATAACC
16058633 ATTTATTCAGTAACAGTT
1 ATTTATTCAGTAACAGTT
*
16058651 GTTTATTCAGTAACAGTT
1 ATTTATTCAGTAACAGTT
* *
16058669 AATTATTCAGTAGCAGT
1 ATTTATTCAGTAACAGT
16058686 CAATTTTCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (18 bp):
ATTTATTCAGTAACAGTT
Found at i:16058696 original size:17 final size:18
Alignment explanation
Indices: 16058635--16058697 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
16058625 TAATAACCAT
***
16058635 TTATTCAGTAACAGTTGT
1 TTATTCAGTAACAGTCAA
*
16058653 TTATTCAGTAACAGTTAA
1 TTATTCAGTAACAGTCAA
*
16058671 TTATTCAGTAGCAGTCAA
1 TTATTCAGTAACAGTCAA
16058689 TT-TTCAGTA
1 TTATTCAGTA
16058698 CCTTTATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
17 7 0.17
18 34 0.83
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:16058826 original size:6 final size:6
Alignment explanation
Indices: 16058809--16058855 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
16058799 TACACCGTGT
* * * *
16058809 CAGTAA CGGTAA CAGTAA CGGTAA CAGTAA TAGTAA CAGTAG CAGTA
1 CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
16058856 CGGTACACAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (6 bp):
CAGTAA
Found at i:16058826 original size:12 final size:12
Alignment explanation
Indices: 16058809--16058849 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
16058799 TACACCGTGT
16058809 CAGTAACGGTAA
1 CAGTAACGGTAA
16058821 CAGTAACGGTAA
1 CAGTAACGGTAA
**
16058833 CAGTAATAGTAA
1 CAGTAACGGTAA
16058845 CAGTA
1 CAGTA
16058850 GCAGTACGGT
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:0.44, C:0.15, G:0.22, T:0.20
Consensus pattern (12 bp):
CAGTAACGGTAA
Found at i:16059901 original size:27 final size:27
Alignment explanation
Indices: 16059863--16059917 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
16059853 AAACATCAAA
16059863 ATTAAGTAAAAAGGGCTAAATTGACTT
1 ATTAAGTAAAAAGGGCTAAATTGACTT
16059890 ATTAAGTAAAAAGGGCTAAATTGACTT
1 ATTAAGTAAAAAGGGCTAAATTGACTT
16059917 A
1 A
16059918 CCTATTAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.29
Consensus pattern (27 bp):
ATTAAGTAAAAAGGGCTAAATTGACTT
Found at i:16060087 original size:13 final size:12
Alignment explanation
Indices: 16060055--16060088 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
16060045 TTACTATATA
16060055 TATATAATAACT
1 TATATAATAACT
16060067 TA-ATAATATACT
1 TATATAATA-ACT
16060079 TATATAATAA
1 TATATAATAA
16060089 GTAAACATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATAACT
Found at i:16066492 original size:1 final size:1
Alignment explanation
Indices: 16066486--16066510 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
16066476 CTTAAAACTT
16066486 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
16066511 CCATTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:16067583 original size:25 final size:25
Alignment explanation
Indices: 16067554--16067601 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
16067544 CCCATAAAGT
16067554 TAAACTTAATTTCAAGTCAAAGTGC
1 TAAACTTAATTTCAAGTCAAAGTGC
*
16067579 TAAACTTGATTTCAAGTCAAAGT
1 TAAACTTAATTTCAAGTCAAAGT
16067602 TCACGTTGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (25 bp):
TAAACTTAATTTCAAGTCAAAGTGC
Found at i:16068985 original size:23 final size:24
Alignment explanation
Indices: 16068959--16069005 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
16068949 ATAGTTTAGT
* *
16068959 ATTCGA-TTTATTTGAATTTAAAA
1 ATTCGACTTGATTTAAATTTAAAA
16068982 ATTCGACTTGATTTAAATTTAAAA
1 ATTCGACTTGATTTAAATTTAAAA
16069006 TTAAAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (24 bp):
ATTCGACTTGATTTAAATTTAAAA
Found at i:16069631 original size:12 final size:12
Alignment explanation
Indices: 16069614--16069638 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16069604 TAATTGGGAA
16069614 TTTGTTTAATTT
1 TTTGTTTAATTT
16069626 TTTGTTTAATTT
1 TTTGTTTAATTT
16069638 T
1 T
16069639 CAAATACAGT
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:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TTTGTTTAATTT
Found at i:16070918 original size:24 final size:21
Alignment explanation
Indices: 16070872--16070918 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
16070862 TTGATATGTT
16070872 AGTGAAGAGAAAATAAGAGAA
1 AGTGAAGAGAAAATAAGAGAA
*
16070893 AGTGATGAGAAATAGTATAGAGAA
1 AGTGAAGAGAAA-A-TA-AGAGAA
16070917 AG
1 AG
16070919 AAAATAAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 11 0.50
22 1 0.05
23 2 0.09
24 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.30, T:0.15
Consensus pattern (21 bp):
AGTGAAGAGAAAATAAGAGAA
Found at i:16072380 original size:46 final size:46
Alignment explanation
Indices: 16072328--16072692 Score: 473
Period size: 46 Copynumber: 8.0 Consensus size: 46
16072318 GCTTTCTGAA
** * *
16072328 ATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
16072374 ATGAAATGAATAAGGCCATGGTTGAAAGATACCATGACAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
16072420 GGGAAATGAATAAGACCATGGTTGAAAGATTCCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
16072466 ATGAAATGAATAAGACCATGGTTGAAAGACACCATAGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
16072512 GGGAAATGAATAAGACCATGGTTGAAAGATTCCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
16072558 ATGAAATGAATAAGACCATGGTTGAAAGACACCATAGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
16072604 GGGAAATGAATAA-ACCATGGTTGAAAGAGACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
16072649 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
16072693 TCGAAGATAA
Statistics
Matches: 277, Mismatches: 40, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
44 1 0.00
45 39 0.14
46 237 0.86
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:16072487 original size:92 final size:92
Alignment explanation
Indices: 16072338--16072680 Score: 548
Period size: 92 Copynumber: 3.7 Consensus size: 92
16072328 ATGAAATGTG
* * *
16072338 TAAGACCATGGTTGAAAGATACAATGGCAACGTGACATGAAATGAATAAGGCCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
*
16072403 TACCAT-GACAACATGACGGGAAATGAA
66 CACCATAG-CAACATGACGGGAAATGAA
* *
16072430 TAAGACCATGGTTGAAAGATTCCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
16072495 CACCATAGCAACATGACGGGAAATGAA
66 CACCATAGCAACATGACGGGAAATGAA
* *
16072522 TAAGACCATGGTTGAAAGATTCCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
16072587 CACCATAGCAACATGACGGGAAATGAA
66 CACCATAGCAACATGACGGGAAATGAA
* * *
16072614 TAA-ACCATGGTTGAAAGAGACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAATAAGACCATGGTTGAAAG
16072677 ACAC
65 ACAC
16072681 TATGGCATCA
Statistics
Matches: 238, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
90 1 0.00
91 57 0.24
92 179 0.75
93 1 0.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
CACCATAGCAACATGACGGGAAATGAA
Found at i:16073534 original size:37 final size:37
Alignment explanation
Indices: 16073493--16073563 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
16073483 GGTTTTGGGG
16073493 ATTTGATCTTCAATTTCAAATTTATACTGGAATAGGT
1 ATTTGATCTTCAATTTCAAATTTATACTGGAATAGGT
16073530 ATTTGATCTTCAATTTCAAATTTATACTGGAATA
1 ATTTGATCTTCAATTTCAAATTTATACTGGAATA
16073564 AGTTTTGGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (37 bp):
ATTTGATCTTCAATTTCAAATTTATACTGGAATAGGT
Found at i:16074022 original size:30 final size:31
Alignment explanation
Indices: 16073986--16074043 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
16073976 TGTTTCAAAA
* **
16073986 ATACCTAATTGGTAGTTGAACTT-TATTTTT
1 ATACCTAATTAGTACATGAACTTGTATTTTT
16074016 ATACCTAATTAGTACATGAACTTGTATT
1 ATACCTAATTAGTACATGAACTTGTATT
16074044 CTGTTACTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (31 bp):
ATACCTAATTAGTACATGAACTTGTATTTTT
Found at i:16078242 original size:21 final size:23
Alignment explanation
Indices: 16078213--16078257 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
16078203 CTTTAATTTA
*
16078213 TATTATATTT-AT-TTTTTAAAG
1 TATTATATTTGATATTTATAAAG
*
16078234 TATTTTATTTGATATTTATAAAG
1 TATTATATTTGATATTTATAAAG
16078257 T
1 T
16078258 TAATAAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 2 0.10
23 9 0.45
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (23 bp):
TATTATATTTGATATTTATAAAG
Found at i:16092440 original size:24 final size:24
Alignment explanation
Indices: 16092413--16092482 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
16092403 TTATTAACAT
16092413 TGTTCGTGAACATGTTCAATTAT-A
1 TGTTCGTGAACATGTTC-ATTATAA
* * *
16092437 TGTTCATGAACATGTTCGTTTTAA
1 TGTTCGTGAACATGTTCATTATAA
*
16092461 TATTCGTGAACATGTTCGATTA
1 TGTTCGTGAACATGTTC-ATTA
16092483 AGTTAAATGA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 3 0.08
24 32 0.86
25 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (24 bp):
TGTTCGTGAACATGTTCATTATAA
Found at i:16094269 original size:27 final size:26
Alignment explanation
Indices: 16094239--16094303 Score: 67
Period size: 28 Copynumber: 2.4 Consensus size: 26
16094229 TTATATCTAC
16094239 AACTGTATCTAATTGGGCTAAGGCCCA
1 AACTGTATCTAA-TGGGCTAAGGCCCA
* * *
16094266 AACTGAATCTGTAATGGGCTTAGGCCTA
1 AACTGTATC--TAATGGGCTAAGGCCCA
*
16094294 ACCTGTATCT
1 AACTGTATCT
16094304 GACTATATTC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
26 1 0.03
27 8 0.26
28 19 0.61
29 3 0.10
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
AACTGTATCTAATGGGCTAAGGCCCA
Found at i:16095494 original size:26 final size:27
Alignment explanation
Indices: 16095464--16095514 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
16095454 GAATAAAGAA
16095464 GATCCTTGC-TTCCATTCAAGATGCAT
1 GATCCTTGCTTTCCATTCAAGATGCAT
16095490 GATCCTTGCTTTCCATTCAAGATGC
1 GATCCTTGCTTTCCATTCAAGATGC
16095515 TACTATCTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (27 bp):
GATCCTTGCTTTCCATTCAAGATGCAT
Found at i:16098473 original size:24 final size:24
Alignment explanation
Indices: 16098441--16098492 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
16098431 ACGTATGAAA
*
16098441 CTGGGCCGACGGTCTAATCAATGG
1 CTGGGCCGACAGTCTAATCAATGG
**
16098465 CTGGGCCGACAGTCTAATCCGTGG
1 CTGGGCCGACAGTCTAATCAATGG
16098489 CTGG
1 CTGG
16098493 ACAGTACAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.17, C:0.27, G:0.35, T:0.21
Consensus pattern (24 bp):
CTGGGCCGACAGTCTAATCAATGG
Found at i:16099019 original size:25 final size:26
Alignment explanation
Indices: 16098972--16099020 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
16098962 AGTTGTAGAG
*
16098972 AGAAAATTATCTAAAGAACTTATTTC
1 AGAAAATTATCTAAAGAAATTATTTC
16098998 AGAAAATT-TCTAAA-AATATTATT
1 AGAAAATTATCTAAAGAA-ATTATT
16099021 ATTATTTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.10
25 11 0.52
26 8 0.38
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (26 bp):
AGAAAATTATCTAAAGAAATTATTTC
Found at i:16101440 original size:25 final size:25
Alignment explanation
Indices: 16101388--16101454 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
16101378 CTAAGTAAGA
*
16101388 GGAAGCTCATACGAGCCGTATACTG
1 GGAAGCTCATACGAGCCGTAAACTG
**
16101413 GGAAGCTCATACGAGTTGTAAA-TCG
1 GGAAGCTCATACGAGCCGTAAACT-G
* *
16101438 GGAAACTCATATGAGCC
1 GGAAGCTCATACGAGCC
16101455 AAATATCGGA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
24 1 0.03
25 33 0.97
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (25 bp):
GGAAGCTCATACGAGCCGTAAACTG
Found at i:16109768 original size:26 final size:26
Alignment explanation
Indices: 16109721--16109776 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
16109711 CGATATATGA
*
16109721 CTCTTCGTGAGCTTCCCGATTAAAGG
1 CTCTTCGTGAGCTTCCCAATTAAAGG
* * *
16109747 CTCTTTGTGAGCTTCCTAATTAATGG
1 CTCTTCGTGAGCTTCCCAATTAAAGG
16109773 CTCT
1 CTCT
16109777 CCATAGCTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.38
Consensus pattern (26 bp):
CTCTTCGTGAGCTTCCCAATTAAAGG
Found at i:16113769 original size:13 final size:13
Alignment explanation
Indices: 16113751--16113776 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16113741 ACCTACTTAA
16113751 AATAAATATGAAT
1 AATAAATATGAAT
16113764 AATAAATATGAAT
1 AATAAATATGAAT
16113777 TGGATTTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
AATAAATATGAAT
Found at i:16114642 original size:13 final size:13
Alignment explanation
Indices: 16114580--16114642 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
16114570 ATAACAATGT
*
16114580 TTTTAAAAAGTAT
1 TTTTAAAAAGTAC
*
16114593 TTTTAAAAAGTGC
1 TTTTAAAAAGTAC
* * *
16114606 TATGAAAAAGTGC
1 TTTTAAAAAGTAC
*
16114619 TATTTTTAAAAGTAC
1 --TTTTAAAAAGTAC
16114634 TTTTAAAAA
1 TTTTAAAAA
16114643 TTTGAGCGCT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
13 30 0.77
15 9 0.23
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (13 bp):
TTTTAAAAAGTAC
Found at i:16120631 original size:24 final size:23
Alignment explanation
Indices: 16120599--16120713 Score: 64
Period size: 24 Copynumber: 5.2 Consensus size: 23
16120589 AGAATTCAAA
* *
16120599 AAATATAAATTTTAAATATTTTT
1 AAATATAAATATTAAATATTTAT
*
16120622 AAATAATAAATATTAATTATTTAT
1 AAAT-ATAAATATTAAATATTTAT
**
16120646 AAA-ATTTA-ATTAGAATA--TAT
1 AAATATAAATATTA-AATATTTAT
* * *
16120666 AAAT-TATATTTTAAATA-TT-C
1 AAATATAAATATTAAATATTTAT
** *
16120686 AAATATAACCATTAAATATTTGT
1 AAATATAAATATTAAATATTTAT
16120709 AAATA
1 AAATA
16120714 GATATTAACA
Statistics
Matches: 70, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
20 17 0.24
21 17 0.24
22 8 0.11
23 9 0.13
24 19 0.27
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (23 bp):
AAATATAAATATTAAATATTTAT
Found at i:16121104 original size:18 final size:15
Alignment explanation
Indices: 16121080--16121136 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 15
16121070 TTATCAAAAA
16121080 TTTTATTTTTAAATACT
1 TTTTATTTTTAAAT--T
16121097 TTTCTATTTTTAAATT
1 TTT-TATTTTTAAATT
16121113 TTTTATTTTT--ATT
1 TTTTATTTTTAAATT
16121126 TTTTAATTTTT
1 TTTT-ATTTTT
16121137 GATTTTTTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
13 7 0.18
14 6 0.16
15 7 0.18
16 4 0.11
17 3 0.08
18 11 0.29
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTATTTTTAAATT
Found at i:16121127 original size:21 final size:21
Alignment explanation
Indices: 16121096--16121143 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
16121086 TTTTAAATAC
*
16121096 TTTTCTATTTTTAAATTTTTTA
1 TTTT-TATTTTTAAATTTTTGA
*
16121118 TTTTTATTTTTTAATTTTTGA
1 TTTTTATTTTTAAATTTTTGA
16121139 TTTTT
1 TTTTT
16121144 TTGAATTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTTTATTTTTAAATTTTTGA
Found at i:16127123 original size:17 final size:16
Alignment explanation
Indices: 16127103--16127142 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
16127093 TAGTTGGATA
16127103 TTTTATTTTATTTTTAT
1 TTTTATTTT-TTTTTAT
*
16127120 TTTTAACTTTTTTTTAT
1 TTTT-ATTTTTTTTTAT
16127137 TTTTAT
1 TTTTAT
16127143 ATAATTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 1 0.05
17 15 0.75
18 4 0.20
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTATTTTTTTTTAT
Found at i:16130239 original size:26 final size:27
Alignment explanation
Indices: 16130206--16130259 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
16130196 AAAAGAAAAG
*
16130206 AAAAGAAAAGAAAAA-GGCCTCTTCAA
1 AAAAGAAAAAAAAAAGGGCCTCTTCAA
16130232 AAAAGAAAAAAAAAAGGGCCTCTTCAA
1 AAAAGAAAAAAAAAAGGGCCTCTTCAA
16130259 A
1 A
16130260 GAACATATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.11
Consensus pattern (27 bp):
AAAAGAAAAAAAAAAGGGCCTCTTCAA
Found at i:16137048 original size:47 final size:47
Alignment explanation
Indices: 16136994--16137117 Score: 117
Period size: 47 Copynumber: 2.6 Consensus size: 47
16136984 ACCAACACAC
**
16136994 CAGTACGGCACTCAATGCCTCATCGACTT-TGCCGAAGTAAACAGTAA
1 CAGTACGGCACTCAATGCCTCATCGACTTAAACCGAAGT-AACAGTAA
* * *
16137041 CAGTACGGTACTCAGTACCTCATCGGA-TTAAACCGAAGTAACAGTAA
1 CAGTACGGCACTCAATGCCTCATC-GACTTAAACCGAAGTAACAGTAA
* * * *
16137088 TAATACGACACACATAGTGCCTCATCGACT
1 CAGTACGGCACTCA-A-TGCCTCATCGACT
16137118 CAAAGTTGAA
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
47 40 0.67
48 11 0.18
49 9 0.15
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.22
Consensus pattern (47 bp):
CAGTACGGCACTCAATGCCTCATCGACTTAAACCGAAGTAACAGTAA
Found at i:16137843 original size:10 final size:10
Alignment explanation
Indices: 16137838--16137887 Score: 50
Period size: 11 Copynumber: 4.8 Consensus size: 10
16137828 TTTTATGTTT
16137838 TATTATATTA
1 TATTATATTA
16137848 TATTAT-TATA
1 TATTATAT-TA
16137858 TTATTATATTA
1 -TATTATATTA
16137869 T-TATATTATTA
1 TAT-TA-TATTA
16137880 TATTATAT
1 TATTATAT
16137888 ACTTAAATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
9 2 0.06
10 14 0.41
11 16 0.47
12 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TATTATATTA
Found at i:16137846 original size:5 final size:5
Alignment explanation
Indices: 16137838--16137887 Score: 50
Period size: 5 Copynumber: 9.6 Consensus size: 5
16137828 TTTTATGTTT
16137838 TATTA TATTA TATTA T-TATA TTATTA TATTA T-TATA TTATTA TATTA
1 TATTA TATTA TATTA TAT-TA -TATTA TATTA TAT-TA -TATTA TATTA
16137885 TAT
1 TAT
16137888 ACTTAAATAC
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
4 2 0.05
5 29 0.74
6 6 0.15
7 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:16137854 original size:8 final size:8
Alignment explanation
Indices: 16137843--16137885 Score: 86
Period size: 8 Copynumber: 5.4 Consensus size: 8
16137833 TGTTTTATTA
16137843 TATTATAT
1 TATTATAT
16137851 TATTATAT
1 TATTATAT
16137859 TATTATAT
1 TATTATAT
16137867 TATTATAT
1 TATTATAT
16137875 TATTATAT
1 TATTATAT
16137883 TAT
1 TAT
16137886 ATACTTAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TATTATAT
Found at i:16142203 original size:21 final size:21
Alignment explanation
Indices: 16142177--16142217 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16142167 AGACGAGCAA
* *
16142177 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
16142198 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
16142218 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:16156865 original size:20 final size:21
Alignment explanation
Indices: 16156842--16156882 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16156832 CAAATGTGTT
16156842 AAAAT-CATTAATTAAAATAA
1 AAAATACATTAATTAAAATAA
* *
16156862 AAAATATATTATTTAAAATAA
1 AAAATACATTAATTAAAATAA
16156883 TACAAATGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAATACATTAATTAAAATAA
Found at i:16156998 original size:24 final size:23
Alignment explanation
Indices: 16156966--16157015 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
16156956 GTAATTAAAT
* *
16156966 TTTATAAATAATTAATATTTATTA
1 TTTAAAAATAATTAAAATTTA-TA
*
16156990 TTTAAAAATATTTAAAATTTATA
1 TTTAAAAATAATTAAAATTTATA
16157013 TTT
1 TTT
16157016 CATATATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTAAAAATAATTAAAATTTATA
Found at i:16157014 original size:30 final size:30
Alignment explanation
Indices: 16156975--16157031 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
16156965 TTTTATAAAT
16156975 AATTAATATTT-AT-TATTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
16157005 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
16157032 AACAAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:16181401 original size:56 final size:55
Alignment explanation
Indices: 16181341--16181514 Score: 186
Period size: 57 Copynumber: 3.1 Consensus size: 55
16181331 TAGTTGAGCG
* *
16181341 ACTATTTTGTAACTTTTCATAGTTGGACGACTAAAAAAAATAATAGTAATTGAGTA
1 ACTATTTTGTAACTTTTCATAGTTGGAC-ACAAAAAAAAATAATAATAATTGAGTA
* * ** *
16181397 ACTATTTTGTAACTTTTCAAAGTTGAACAGCCAAAAAAGGATATTAATAATTGAGTA
1 ACTATTTTGTAACTTTTCATAGTTGGACA--CAAAAAAAAATAATAATAATTGAGTA
* * * * * *
16181454 ACCATTTTGTAACTTTTCATAATTGGATAACAAAAAAAAATTACTAATAGTTGAGTG
1 ACTATTTTGTAACTTTTCATAGTTGGA-CACAAAAAAAAA-TAATAATAATTGAGTA
16181511 ACTA
1 ACTA
16181515 CTAGAATTGT
Statistics
Matches: 96, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
55 1 0.01
56 34 0.35
57 60 0.62
58 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.34
Consensus pattern (55 bp):
ACTATTTTGTAACTTTTCATAGTTGGACACAAAAAAAAATAATAATAATTGAGTA
Found at i:16184686 original size:8 final size:8
Alignment explanation
Indices: 16184673--16184719 Score: 60
Period size: 8 Copynumber: 5.6 Consensus size: 8
16184663 GTGAGTATAT
16184673 TTTAATAA
1 TTTAATAA
16184681 TTTAATAA
1 TTTAATAA
16184689 TTTAATAATA
1 TTTAAT-A-A
16184699 TTTAAT-A
1 TTTAATAA
16184706 TTTAATTAA
1 TTTAA-TAA
16184715 TTTAA
1 TTTAA
16184720 ACATCTTCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
7 6 0.17
8 15 0.43
9 7 0.20
10 7 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TTTAATAA
Found at i:16184715 original size:18 final size:20
Alignment explanation
Indices: 16184674--16184715 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
16184664 TGAGTATATT
16184674 TTAATAATTTAATAATTTAA
1 TTAATAATTTAATAATTTAA
16184694 -TAAT-ATTTAAT-ATTTAA
1 TTAATAATTTAATAATTTAA
16184711 TTAAT
1 TTAAT
16184716 TTAAACATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
18 11 0.52
19 4 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTAATAATTTAATAATTTAA
Found at i:16189072 original size:19 final size:20
Alignment explanation
Indices: 16189036--16189088 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
16189026 TCGTTATGAT
16189036 AATTATTATAATTTTTTACG
1 AATTATTATAATTTTTTACG
16189056 AATT-TTAT-ATTTCTTTAC-
1 AATTATTATAATTT-TTTACG
* *
16189074 ATTTTTTATAATTTT
1 AATTATTATAATTTT
16189089 CTTATGACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 7 0.24
19 14 0.48
20 8 0.28
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (20 bp):
AATTATTATAATTTTTTACG
Found at i:16189168 original size:30 final size:30
Alignment explanation
Indices: 16189129--16189185 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
16189119 TTCTATATAT
*
16189129 TTTATAATTTTTTTACAATTTTTATAAAAA
1 TTTACAATTTTTTTACAATTTTTATAAAAA
**
16189159 TTTACAATTTTTTTAGGATTTTTATAA
1 TTTACAATTTTTTTACAATTTTTATAA
16189186 TTTTTTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (30 bp):
TTTACAATTTTTTTACAATTTTTATAAAAA
Found at i:16189190 original size:10 final size:10
Alignment explanation
Indices: 16189041--16189196 Score: 51
Period size: 10 Copynumber: 15.6 Consensus size: 10
16189031 ATGATAATTA
16189041 TTATAATTTT
1 TTATAATTTT
*
16189051 TTACGAA--TT
1 TTA-TAATTTT
16189060 TTAT-ATTTCT
1 TTATAATTT-T
*
16189070 TTA-CATTTT
1 TTATAATTTT
16189079 TTATAATTTT
1 TTATAATTTT
* *
16189089 CTTATGACTTT
1 -TTATAATTTT
*
16189100 ATATATATTTT
1 TTATA-ATTTT
*
16189111 TTCT-ATATTT
1 TTATAAT-TTT
* *
16189121 CTAT-ATATT
1 TTATAATTTT
16189130 TTATAATTTT
1 TTATAATTTT
*
16189140 TT-TACAATTT
1 TTATA-ATTTT
***
16189150 TTATAAAAAT
1 TTATAATTTT
*
16189160 TTACAATTTT
1 TTATAATTTT
16189170 TT-TAGGA-TTT
1 TTATA--ATTTT
16189180 TTATAATTTTT
1 TTATAA-TTTT
16189191 TTATAA
1 TTATAA
16189197 ATTATTAAAA
Statistics
Matches: 106, Mismatches: 23, Indels: 33
0.65 0.14 0.20
Matches are distributed among these distances:
7 1 0.01
9 21 0.20
10 54 0.51
11 30 0.28
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.62
Consensus pattern (10 bp):
TTATAATTTT
Found at i:16190922 original size:50 final size:50
Alignment explanation
Indices: 16190796--16191235 Score: 350
Period size: 50 Copynumber: 8.9 Consensus size: 50
16190786 AGGATAAGGT
* * * *** * *
16190796 GCCGACGCCATGTCCCGGACATGGTCTTACACTG--GCTCACCCATCAAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAG
* * * * * *
16190844 GTCGATGTCATGTCCCAAACACGGTCTTACACTGACTCTCGTATATTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAG
* * * * *
16190894 GCCGGTGCCATATCCCATACATGGTCTTACACTCACTCTCATCTATCG-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAG
* * * *
16190943 TGTCGATGCCATGTCCCAGATAAGGTCTTACACTGACTCTCGTATATCGAG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAG
* * * *
16190994 GCCGATGCCATATCCCAGACATGGTCTTAGACTGA----CACATATC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAG
* *
16191039 GTCGATGCCATGTCCCAGACATGGTCTTACACTTG-CTCTCATCTATCG-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACAC-TGACTCTCATATATCGAG
*
16191088 TGCCGATGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCATCTATCG-G
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATCGAG
* * * * * * * * *
16191138 TACCGATGCCATGTTCCAAACACGGGCTTACACT-AGCTCTTATATCTAGAA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATCGAG
* *
16191189 GTCGATGCCATGTCCCAGACATGGTCTTACACT-AGCCCTCATATATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATC
16191236 CCTAACATCA
Statistics
Matches: 310, Mismatches: 68, Indels: 26
0.77 0.17 0.06
Matches are distributed among these distances:
45 30 0.10
46 8 0.03
48 28 0.09
49 8 0.03
50 235 0.76
51 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAG
Found at i:16190973 original size:100 final size:99
Alignment explanation
Indices: 16190844--16191222 Score: 409
Period size: 100 Copynumber: 3.8 Consensus size: 99
16190834 ACCCATCAAA
* * *
16190844 GTCGATGTCATGTCCCAAACACGGTCTTACACTGACTCTCGTATATTGAGGCCGGTGCCATATCC
1 GTCGATGCCATGTCCCAAACACGGTCTTACACTGACTCTCGTATATCGAGGCCGATGCCATATCC
*
16190909 CATACATGGTCTTACACTCACTCTCATCTATCGGT
66 CAGACATGGTCTTACACT-ACTCTCATCTATCGGT
* * *
16190944 GTCGATGCCATGTCCCAGATAAGGTCTTACACTGACTCTCGTATATCGAGGCCGATGCCATATCC
1 GTCGATGCCATGTCCCAAACACGGTCTTACACTGACTCTCGTATATCGAGGCCGATGCCATATCC
* * **
16191009 CAGACATGGTCTTAGACTGA--CACA--TATC-AA
66 CAGACATGGTCTTACACT-ACTCTCATCTATCGGT
* * * * *
16191039 GTCGATGCCATGTCCCAGACATGGTCTTACACTTG-CTCTCATCTATCG-GTGCCGATGCCATGT
1 GTCGATGCCATGTCCCAAACACGGTCTTACAC-TGACTCTCGTATATCGAG-GCCGATGCCATAT
16191102 CCCAGACATGGTCTTACACTAGCTCTCATCTATCGGT
64 CCCAGACATGGTCTTACACTA-CTCTCATCTATCGGT
** * * * * *
16191139 ACCGATGCCATGTTCCAAACACGGGCTTACACT-AGCTCT--TATATCTAGAAGTCGATGCCATG
1 GTCGATGCCATGTCCCAAACACGGTCTTACACTGA-CTCTCGTATATC--GAGGCCGATGCCATA
16191201 TCCCAGACATGGTCTTACACTA
63 TCCCAGACATGGTCTTACACTA
16191223 GCCCTCATAT
Statistics
Matches: 236, Mismatches: 30, Indels: 26
0.81 0.10 0.09
Matches are distributed among these distances:
94 2 0.01
95 72 0.31
96 6 0.03
97 3 0.01
98 8 0.03
99 5 0.02
100 140 0.59
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (99 bp):
GTCGATGCCATGTCCCAAACACGGTCTTACACTGACTCTCGTATATCGAGGCCGATGCCATATCC
CAGACATGGTCTTACACTACTCTCATCTATCGGT
Found at i:16191068 original size:145 final size:147
Alignment explanation
Indices: 16190899--16191221 Score: 404
Period size: 145 Copynumber: 2.2 Consensus size: 147
16190889 TTGAGGCCGG
* * * *
16190899 TGCCATATCCCATACATGGTCTTACACTCACTCTCATCTATCGGTGTCGATGCCATGTCCCAGAT
1 TGCCATGTCCCAGACATGGTCTTACACTCACTCTCATCTATCGGTGCCGATGCCATGTCCCAGAC
* * * * * *
16190964 AAGGTCTTACACT-GACTCTCGTATATCGAG-GCCGATGCCATATCCCAGACATGGTCTTAGACT
66 AAGGTCTTACACTAG-CTCTCATATATCG-GTACCGATGCCATATCCCAAACACGGGCTTACACT
16191027 -GACAC-ATATC-AAGTCGA
129 AG-CACTATATCAAAGTCGA
**
16191044 TGCCATGTCCCAGACATGGTCTTACACTTGCTCTCATCTATCGGTGCCGATGCCATGTCCCAGAC
1 TGCCATGTCCCAGACATGGTCTTACACTCACTCTCATCTATCGGTGCCGATGCCATGTCCCAGAC
* * * *
16191109 ATGGTCTTACACTAGCTCTCATCTATCGGTACCGATGCCATGTTCCAAACACGGGCTTACACTAG
66 AAGGTCTTACACTAGCTCTCATATATCGGTACCGATGCCATATCCCAAACACGGGCTTACACTAG
*
16191174 CTCTTATATCTAGAAGTCGA
131 CAC-TATATC-A-AAGTCGA
16191194 TGCCATGTCCCAGACATGGTCTTACACT
1 TGCCATGTCCCAGACATGGTCTTACACT
16191222 AGCCCTCATA
Statistics
Matches: 153, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
144 1 0.01
145 110 0.72
146 2 0.01
147 5 0.03
150 35 0.23
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (147 bp):
TGCCATGTCCCAGACATGGTCTTACACTCACTCTCATCTATCGGTGCCGATGCCATGTCCCAGAC
AAGGTCTTACACTAGCTCTCATATATCGGTACCGATGCCATATCCCAAACACGGGCTTACACTAG
CACTATATCAAAGTCGA
Found at i:16191197 original size:195 final size:194
Alignment explanation
Indices: 16190796--16191217 Score: 485
Period size: 195 Copynumber: 2.1 Consensus size: 194
16190786 AGGATAAGGT
* * * * * ** *
16190796 GCCGACGCCATGTCCCGGACATGGTCTTACACTGGCTCACCCATCAAAGTCGATGTCATGTCCCA
1 GCCGATGCCATATCCCAGACATGGTCTTAGACT-G-ACACATATC-AAGTCGATGCCATGTCCCA
* * * *
16190861 AACACGGTCTTACACTGACTCTCGTATATTGAGGCCGGTGCCATATCCCATACATGGTCTTACAC
63 AACACGGTCTTACACTGACTCTCATATATCGAGGCCGATGCCATATCCCAGACATGGTCTTACAC
** * * *
16190926 TCACTCTCATCTATCGGTGTCGATGCCATGTCCCAGATAAGGTCTTACACTGACTCTCGTATATC
128 TCACTCTCATCTATCGGTACCGATGCCATGTCCCAAACAAGGGCTTACACTGACTCTC-TATATC
*
16190991 GAG
192 GAA
*
16190994 GCCGATGCCATATCCCAGACATGGTCTTAGACTGACACATATCAAGTCGATGCCATGTCCCAGAC
1 GCCGATGCCATATCCCAGACATGGTCTTAGACTGACACATATCAAGTCGATGCCATGTCCCAAAC
* * *
16191059 ATGGTCTTACACTTG-CTCTCATCTATCG-GTGCCGATGCCATGTCCCAGACATGGTCTTACACT
66 ACGGTCTTACAC-TGACTCTCATATATCGAG-GCCGATGCCATATCCCAGACATGGTCTTACACT
* *
16191122 -AGCTCTCATCTATCGGTACCGATGCCATGTTCCAAACACGGGCTTACACT-AGCTCT-TATATC
129 CA-CTCTCATCTATCGGTACCGATGCCATGTCCCAAACAAGGGCTTACACTGA-CTCTCTATATC
16191184 TAGAA
192 --GAA
* *
16191189 GTCGATGCCATGTCCCAGACATGGTCTTA
1 GCCGATGCCATATCCCAGACATGGTCTTA
16191218 CACTAGCCCT
Statistics
Matches: 192, Mismatches: 26, Indels: 15
0.82 0.11 0.06
Matches are distributed among these distances:
193 6 0.03
194 3 0.02
195 145 0.76
196 8 0.04
197 1 0.01
198 29 0.15
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (194 bp):
GCCGATGCCATATCCCAGACATGGTCTTAGACTGACACATATCAAGTCGATGCCATGTCCCAAAC
ACGGTCTTACACTGACTCTCATATATCGAGGCCGATGCCATATCCCAGACATGGTCTTACACTCA
CTCTCATCTATCGGTACCGATGCCATGTCCCAAACAAGGGCTTACACTGACTCTCTATATCGAA
Found at i:16191223 original size:100 final size:98
Alignment explanation
Indices: 16190796--16191235 Score: 395
Period size: 100 Copynumber: 4.5 Consensus size: 98
16190786 AGGATAAGGT
* * * * * ** *
16190796 GCCGACGCCATGTCCCGGACATGGTCTTACACTGGCTCACCCATC-A-AAGTCGATGTCATGTCC
1 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCT--CTCATCTATCGGTCGATGCCATGTCC
16190859 CAAACACGGTCTTACACTGACTCTCGTATAT-TGAG
64 CAAACACGGTCTTACACTGACTCTC-TATATCTGAG
* *
16190894 GCCGGTGCCATATCCCATACATGGTCTTACACTCA-CTCTCATCTATCGGTGTCGATGCCATGTC
1 GCCGATGCCATATCCCAGACATGGTCTTACACT-AGCTCTCATCTATC-G-GTCGATGCCATGTC
* * *
16190958 CCAGATAAGGTCTTACACTGACTCTCGTATATC-GAG
63 CCAAACACGGTCTTACACTGACTCTC-TATATCTGAG
* * * *
16190994 GCCGATGCCATATCCCAGACATGGTCTTAGACT-G-ACACA--TATCAAGTCGATGCCATGTCCC
1 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATCTATC-GGTCGATGCCATGTCCC
* * *
16191055 AGACATGGTCTTACACTTG-CTCTCATCTATC-G-G
65 AAACACGGTCTTACAC-TGACTCTC-TATATCTGAG
* *
16191088 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTATCGGTACCGATGCCATGTT
1 -GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATCTATCGGT--CGATGCCATGTC
* *
16191153 CCAAACACGGGCTTACACT-AGCTCT-TATATCTAGAA
63 CCAAACACGGTCTTACACTGA-CTCTCTATATCT-GAG
* * * *
16191189 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCCCTCATATATC
1 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATCTATC
16191236 CCTAACATCA
Statistics
Matches: 284, Mismatches: 38, Indels: 38
0.79 0.11 0.11
Matches are distributed among these distances:
94 1 0.00
95 72 0.25
96 12 0.04
97 4 0.01
98 40 0.14
99 5 0.02
100 150 0.53
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (98 bp):
GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATCTATCGGTCGATGCCATGTCCCA
AACACGGTCTTACACTGACTCTCTATATCTGAG
Found at i:16192755 original size:11 final size:11
Alignment explanation
Indices: 16192741--16192775 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
16192731 TTCTTTTGAA
16192741 TCTTTTTTCTT
1 TCTTTTTTCTT
16192752 TCTTTTTTCTT
1 TCTTTTTTCTT
*
16192763 TTTTTCTTTCTT
1 TCTTT-TTTCTT
16192775 T
1 T
16192776 ATATATATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 15 0.68
12 7 0.32
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TCTTTTTTCTT
Found at i:16193402 original size:3 final size:3
Alignment explanation
Indices: 16193396--16193549 Score: 79
Period size: 3 Copynumber: 51.7 Consensus size: 3
16193386 TTTTTTTACA
* *
16193396 TAT TAT TAA TAT TAT TAC TAT TAT T-T TAT T-T CTAT TAT TAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT
* * * * * *
16193440 TAT TAT TAC TGT TAG TAT TAT T-T TCAT TAC TAT TAT TTT TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * *
16193485 CA- TAT TAT AACA TAT TAT TAT TACT AAT TAT TAT TAT T-T CTAG T-T
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT -TAT TAT
*
16193530 TAT TAT TAT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT TAT TA
16193550 GTGTATGTAT
Statistics
Matches: 111, Mismatches: 27, Indels: 26
0.68 0.16 0.16
Matches are distributed among these distances:
2 9 0.08
3 95 0.86
4 7 0.06
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:16193424 original size:23 final size:23
Alignment explanation
Indices: 16193398--16193443 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
16193388 TTTTTACATA
16193398 TTATTAATATTATTA-CTATTATT
1 TTATTAATATTATTATCT-TTATT
**
16193421 TTATTTCTATTATTATCTTTATT
1 TTATTAATATTATTATCTTTATT
16193444 ATTACTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTAATATTATTATCTTTATT
Found at i:16193551 original size:23 final size:24
Alignment explanation
Indices: 16193511--16193576 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 24
16193501 ATTATTACTA
* *
16193511 ATTATTATTATTTCTAGTTTAT-T
1 ATTATTATTATATCTAGTGTATGT
16193534 ATTATTATTAATAT-TAGTGTATGT
1 ATTATTATT-ATATCTAGTGTATGT
*
16193558 A-TATTA-TATATGTA-TGTAT
1 ATTATTATTATATCTAGTGTAT
16193577 ATATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
21 9 0.24
22 3 0.08
23 21 0.55
24 5 0.13
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.58
Consensus pattern (24 bp):
ATTATTATTATATCTAGTGTATGT
Found at i:16193573 original size:17 final size:16
Alignment explanation
Indices: 16193551--16193582 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
16193541 TTAATATTAG
16193551 TGTATGTATATTATATA
1 TGTATGTATA-TATATA
16193568 TGTATGTATATATAT
1 TGTATGTATATATAT
16193583 TTATATATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (16 bp):
TGTATGTATATATATA
Found at i:16193793 original size:8 final size:9
Alignment explanation
Indices: 16193780--16193834 Score: 51
Period size: 10 Copynumber: 5.8 Consensus size: 9
16193770 GTTTTCAATA
16193780 TTATAT-TT
1 TTATATATT
16193788 TTATATATT
1 TTATATATT
16193797 ATTATATATT
1 -TTATATATT
16193807 TTAATATTATT
1 TT-ATA-TATT
16193818 AGTTATATATT
1 --TTATATATT
16193829 TT-TATA
1 TTATATA
16193835 CTATTATATG
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
8 10 0.24
9 6 0.15
10 12 0.29
11 8 0.20
12 3 0.07
13 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (9 bp):
TTATATATT
Found at i:16193826 original size:22 final size:21
Alignment explanation
Indices: 16193778--16193893 Score: 114
Period size: 22 Copynumber: 5.5 Consensus size: 21
16193768 ATGTTTTCAA
16193778 TATTATAT-TTTT-ATA-TAT
1 TATTATATATTTTAATACTAT
*
16193796 TATTATATATTTTAATATTAT
1 TATTATATATTTTAATACTAT
*
16193817 TAGTTATATATTTTTATACTAT
1 TA-TTATATATTTTAATACTAT
* *
16193839 TATATGTATATTTCTAATATTA-
1 TAT-TATATATTT-TAATACTAT
*
16193861 TATTGTATATTTCTAATACTAT
1 TATTATATATTT-TAATACTAT
16193883 TATTTATATAT
1 TA-TTATATAT
16193894 ATATGTGTGT
Statistics
Matches: 83, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
18 8 0.10
19 4 0.05
20 3 0.04
21 23 0.28
22 32 0.39
23 13 0.16
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (21 bp):
TATTATATATTTTAATACTAT
Found at i:16193829 original size:42 final size:42
Alignment explanation
Indices: 16193781--16193893 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 42
16193771 TTTTCAATAT
16193781 TATATTTTTATA-TATTATTATATATTT-TAATATTATTAGTTA
1 TATATTTTTATACTATTATTATATATTTCTAATATTA-TA-TTA
* *
16193823 TATATTTTTATACTATTATATGTATATTTCTAATATTATATTG
1 TATATTTTTATACTATTAT-TATATATTTCTAATATTATATTA
*
16193866 TATATTTCTAATACTATTATTTATATAT
1 TATATTT-TTATACTATTA-TTATATAT
16193894 ATATGTGTGT
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
42 12 0.19
43 15 0.24
44 26 0.42
45 9 0.15
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.59
Consensus pattern (42 bp):
TATATTTTTATACTATTATTATATATTTCTAATATTATATTA
Found at i:16193912 original size:16 final size:17
Alignment explanation
Indices: 16193891--16193925 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
16193881 ATTATTTATA
16193891 TATATATGTGTGT-GTG
1 TATATATGTGTGTAGTG
*
16193907 TATATATTTGTGTAGTG
1 TATATATGTGTGTAGTG
16193924 TA
1 TA
16193926 CAAAGTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (17 bp):
TATATATGTGTGTAGTG
Found at i:16193912 original size:18 final size:19
Alignment explanation
Indices: 16193889--16193924 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
16193879 CTATTATTTA
16193889 TATATATATGTGT-GTGTG
1 TATATATATGTGTAGTGTG
*
16193907 TATATATTTGTGTAGTGT
1 TATATATATGTGTAGTGT
16193925 ACAAAGTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (19 bp):
TATATATATGTGTAGTGTG
Found at i:16194024 original size:22 final size:22
Alignment explanation
Indices: 16193966--16194025 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 22
16193956 CTAAGGTATG
*
16193966 TATATATTGTATATGTTTTATA
1 TATATATTGTATATGTTTTAAA
* *
16193988 TATGT-TATGTATATATTTTTAAA
1 TATATAT-TGTATAT-GTTTTAAA
16194011 TACTATATTGTATAT
1 TA-TATATTGTATAT
16194026 ATATTCTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
21 1 0.03
22 11 0.37
23 8 0.27
24 9 0.30
25 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (22 bp):
TATATATTGTATATGTTTTAAA
Found at i:16194051 original size:25 final size:26
Alignment explanation
Indices: 16193995--16194054 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
16193985 ATATATGTTA
* *
16193995 TGTATATATTTTTAAATACTATATTG
1 TGTATATATTCTTAAATACCATATTG
* *
16194021 TATATATATTCTT-AATTCCATATTG
1 TGTATATATTCTTAAATACCATATTG
16194046 TGTATATAT
1 TGTATATAT
16194055 CATTATTACA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 18 0.62
26 11 0.38
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (26 bp):
TGTATATATTCTTAAATACCATATTG
Found at i:16201536 original size:10 final size:11
Alignment explanation
Indices: 16201514--16201552 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
16201504 ATGTCTCCAC
16201514 AAGAATAAAAA
1 AAGAATAAAAA
16201525 AAGAATAAAAA
1 AAGAATAAAAA
16201536 AAGAGA-AAGAAA
1 AAGA-ATAA-AAA
16201548 AAGAA
1 AAGAA
16201553 ACAAAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 18 0.69
12 8 0.31
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.05
Consensus pattern (11 bp):
AAGAATAAAAA
Found at i:16203141 original size:31 final size:31
Alignment explanation
Indices: 16203103--16203193 Score: 182
Period size: 31 Copynumber: 2.9 Consensus size: 31
16203093 ACGAGCTGGA
16203103 CTAAACCAGCATAGAAACAAATAATGCCCGG
1 CTAAACCAGCATAGAAACAAATAATGCCCGG
16203134 CTAAACCAGCATAGAAACAAATAATGCCCGG
1 CTAAACCAGCATAGAAACAAATAATGCCCGG
16203165 CTAAACCAGCATAGAAACAAATAATGCCC
1 CTAAACCAGCATAGAAACAAATAATGCCC
16203194 CGCATTGCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 60 1.00
ACGTcount: A:0.46, C:0.26, G:0.14, T:0.13
Consensus pattern (31 bp):
CTAAACCAGCATAGAAACAAATAATGCCCGG
Done.