Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 138 of 343
Found at i:46182851 original size:20 final size:20
Alignment explanation
Indices: 46182826--46182869 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
46182816 GGGTTAAAAT
*
46182826 TGAGTTGAATTGAGCTTGAG
1 TGAGTTGAATTGAGCTCGAG
*
46182846 TGAGTTGACTTGAGCTCGAG
1 TGAGTTGAATTGAGCTCGAG
46182866 TGAG
1 TGAG
46182870 CTGGAAACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.36, T:0.32
Consensus pattern (20 bp):
TGAGTTGAATTGAGCTCGAG
Found at i:46183434 original size:19 final size:19
Alignment explanation
Indices: 46183410--46183449 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
46183400 AGCTCCCGTG
46183410 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
46183429 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
46183448 TA
1 TA
46183450 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:46185886 original size:20 final size:20
Alignment explanation
Indices: 46185863--46185909 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
46185853 GGGTTAAAAT
*
46185863 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
46185883 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
46185903 TGAGCTG
1 TGAGCTG
46185910 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:46186183 original size:14 final size:14
Alignment explanation
Indices: 46186164--46186193 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
46186154 AACCGACCAA
*
46186164 TTTGTTCATATCCT
1 TTTGTTCATACCCT
46186178 TTTGTTCATACCCT
1 TTTGTTCATACCCT
46186192 TT
1 TT
46186194 CATTCCTACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.07, T:0.57
Consensus pattern (14 bp):
TTTGTTCATACCCT
Found at i:46187416 original size:49 final size:49
Alignment explanation
Indices: 46187312--46187556 Score: 321
Period size: 49 Copynumber: 5.0 Consensus size: 49
46187302 GTTGCCGAAG
* * * * *
46187312 TTATCTGGTACGCATAGTAGCCTGCACTTAATACTACACATGCGACCAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
*
46187361 TTATCTGGTACTCGTAG-AGCCTGCACTTAGTACTACACACGTGACCTAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AA
** * *
46187410 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA
* * * * *
46187460 GTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
46187510 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
46187557 TCACAATAGC
Statistics
Matches: 168, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
48 26 0.15
49 72 0.43
50 32 0.19
51 38 0.23
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
Found at i:46187527 original size:100 final size:98
Alignment explanation
Indices: 46187312--46187556 Score: 330
Period size: 100 Copynumber: 2.5 Consensus size: 98
46187302 GTTGCCGAAG
* * * * * * * *
46187312 TTATCTGGTACGCATAGTAGCCTGCACTTAATACTACACATGCGACCAATTATCTGGTACTCGTA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACGCATA
*
46187377 GAGCCTGCACTTAGTACTACACACGTGACCTAA
66 GAGCCTGCACTTAGTACTACACACGCGACCTAA
** * *
46187410 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACGCA
*
46187475 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
64 TAG-AGCCTGCACTTAGTACTACACACGCGACCTAA
46187510 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
46187557 TCACAATAGC
Statistics
Matches: 126, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
98 37 0.29
99 4 0.03
100 58 0.46
101 27 0.21
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (98 bp):
TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACGCATA
GAGCCTGCACTTAGTACTACACACGCGACCTAA
Found at i:46189207 original size:24 final size:24
Alignment explanation
Indices: 46189172--46189227 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
46189162 TTTAGGACAT
* * * *
46189172 ATTAAATTCGTCCATCAGCAGCTC
1 ATTAAATCCGTCAACCAACAGCTC
46189196 ATTAAATCCGTCAACCAACAGCTC
1 ATTAAATCCGTCAACCAACAGCTC
46189220 ATTAAATC
1 ATTAAATC
46189228 TATCCAGGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.36, C:0.29, G:0.09, T:0.27
Consensus pattern (24 bp):
ATTAAATCCGTCAACCAACAGCTC
Found at i:46189427 original size:24 final size:25
Alignment explanation
Indices: 46189400--46189454 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
46189390 GCAGCAACTA
*
46189400 ATTAATT-TGTTCT-AGTCTAGACAC
1 ATTAATTATGTCCTAAG-CTAGACAC
*
46189424 ATTAAATTATGTCCTAAGCTAGGCAC
1 ATT-AATTATGTCCTAAGCTAGACAC
46189450 ATTAA
1 ATTAA
46189455 ACATATGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 3 0.12
25 6 0.23
26 15 0.58
27 2 0.08
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (25 bp):
ATTAATTATGTCCTAAGCTAGACAC
Found at i:46190806 original size:10 final size:10
Alignment explanation
Indices: 46190791--46190847 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
46190781 AACTCCGACC
46190791 AGCTCAATTG
1 AGCTCAATTG
* *
46190801 AGCTCATTTT
1 AGCTCAATTG
*
46190811 AGCTCAATCG
1 AGCTCAATTG
*
46190821 AGCTCAATTT
1 AGCTCAATTG
*
46190831 AGCTACAATTC
1 AGCT-CAATTG
46190842 AGCTCA
1 AGCTCA
46190848 TTTATTTTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
10 29 0.76
11 9 0.24
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (10 bp):
AGCTCAATTG
Found at i:46190814 original size:20 final size:20
Alignment explanation
Indices: 46190791--46190850 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
46190781 AACTCCGACC
46190791 AGCTCAATTGAGCTCATTTT
1 AGCTCAATTGAGCTCATTTT
* *
46190811 AGCTCAATCGAGCTCAATTT
1 AGCTCAATTGAGCTCATTTT
*
46190831 AGCTACAATTCAGCTCATTT
1 AGCT-CAATTGAGCTCATTT
46190851 ATTTTATTGG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 22 0.65
21 12 0.35
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.35
Consensus pattern (20 bp):
AGCTCAATTGAGCTCATTTT
Found at i:46192218 original size:11 final size:12
Alignment explanation
Indices: 46192195--46192231 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
46192185 AAAAAAATCG
46192195 AAATTCAAAAAA
1 AAATTCAAAAAA
46192207 AAATTCAAAAAA
1 AAATTCAAAAAA
* *
46192219 AAAGTGAAAAAA
1 AAATTCAAAAAA
46192231 A
1 A
46192232 TTGAGCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (12 bp):
AAATTCAAAAAA
Found at i:46192266 original size:18 final size:15
Alignment explanation
Indices: 46192225--46192260 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
46192215 AAAAAAAGTG
*
46192225 AAAAAAATTGAGCAA
1 AAAAAAAGTGAGCAA
46192240 AAAAAAAGTGAGCAA
1 AAAAAAAGTGAGCAA
46192255 AAAAAA
1 AAAAAA
46192261 TCAAGTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.72, C:0.06, G:0.14, T:0.08
Consensus pattern (15 bp):
AAAAAAAGTGAGCAA
Found at i:46194845 original size:22 final size:22
Alignment explanation
Indices: 46194820--46194871 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
46194810 TTGAGAGTGA
*
46194820 AAAAGAAATTAAGAAAGAAGAGA-
1 AAAAGAAATT-AGAAA-AAGAAAC
*
46194843 AAATG-AATTAGAAAAAGAAAC
1 AAAAGAAATTAGAAAAAGAAAC
46194864 AAAAGAAA
1 AAAAGAAA
46194872 AAAGACGTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
20 5 0.21
21 9 0.38
22 6 0.25
23 4 0.17
ACGTcount: A:0.71, C:0.02, G:0.17, T:0.10
Consensus pattern (22 bp):
AAAAGAAATTAGAAAAAGAAAC
Found at i:46196225 original size:6 final size:6
Alignment explanation
Indices: 46196214--46196244 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
46196204 AGTTGTAAAG
46196214 TTTTAT TTTTAT TTTTA- TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
46196245 ATTTACTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:46196234 original size:11 final size:11
Alignment explanation
Indices: 46196214--46196248 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
46196204 AGTTGTAAAG
46196214 TTTTATTTTTAT
1 TTTTA-TTTTAT
46196226 TTTTATTTTAT
1 TTTTATTTTAT
46196237 TTTTA-TTTAT
1 TTTTATTTTAT
46196247 TT
1 TT
46196249 ACTTAGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 7 0.30
11 11 0.48
12 5 0.22
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:46198209 original size:31 final size:29
Alignment explanation
Indices: 46198156--46198223 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 29
46198146 AAAAAACGTG
* *
46198156 AAAAAAATATTGAGCAAAAAAAAGAAAGA
1 AAAAAAAGAGTGAGCAAAAAAAAGAAAGA
** *
46198185 AAAAAAAGAGTGAGGCAAATAAAAATCAAGT
1 AAAAAAAGAGTGA-GCAAA-AAAAAGAAAGA
46198216 AAAAAAAG
1 AAAAAAAG
46198224 TGAAAAGTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 11 0.34
30 5 0.16
31 16 0.50
ACGTcount: A:0.69, C:0.04, G:0.16, T:0.10
Consensus pattern (29 bp):
AAAAAAAGAGTGAGCAAAAAAAAGAAAGA
Found at i:46199129 original size:13 final size:13
Alignment explanation
Indices: 46199113--46199150 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
46199103 GAGTGAAATT
46199113 AAAGAAAATGAGA
1 AAAGAAAATGAGA
*
46199126 AAAGAAAAT-TGA
1 AAAGAAAATGAGA
*
46199138 AAAGAAATTGAGA
1 AAAGAAAATGAGA
46199151 TTGAGAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.66, C:0.00, G:0.21, T:0.13
Consensus pattern (13 bp):
AAAGAAAATGAGA
Found at i:46201959 original size:14 final size:14
Alignment explanation
Indices: 46201940--46201986 Score: 78
Period size: 14 Copynumber: 3.4 Consensus size: 14
46201930 ATTGTAGATT
46201940 AAAAAAATCGAAAA
1 AAAAAAATCGAAAA
46201954 AAAAAAATCGAATAA
1 AAAAAAATCGAA-AA
46201969 AAAAAAA-CGAAAA
1 AAAAAAATCGAAAA
46201982 AAAAA
1 AAAAA
46201987 TATATTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.22
14 16 0.50
15 9 0.28
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.06
Consensus pattern (14 bp):
AAAAAAATCGAAAA
Found at i:46214798 original size:23 final size:22
Alignment explanation
Indices: 46214747--46214798 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
46214737 CCTCGTCTTT
*
46214747 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
46214769 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
46214792 TTCTTTT
1 TTCTTTT
46214799 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:46221664 original size:9 final size:10
Alignment explanation
Indices: 46221657--46221713 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
46221647 AAGAGAAAAC
46221657 AAAGAAAAGA
1 AAAGAAAAGA
46221667 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
46221679 AAAGAAGA-A
1 AAAGAAAAGA
46221688 AAAGAAAATGA
1 AAAGAAAA-GA
46221699 AATA-AAAAGA
1 AA-AGAAAAGA
46221709 AAAGA
1 AAAGA
46221714 GAGGCAAGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:46221680 original size:21 final size:20
Alignment explanation
Indices: 46221646--46221713 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
46221636 ACATTCTTGT
46221646 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
46221667 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
46221688 AAAGAAAATGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
46221709 AAAGA
1 AAAGA
46221714 GAGGCAAGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:46221681 original size:6 final size:5
Alignment explanation
Indices: 46221657--46221713 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
46221647 AAGAGAAAAC
*
46221657 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
46221704 AAAGA AAAGA
1 AAAGA AAAGA
46221714 GAGGCAAGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:46221688 original size:15 final size:14
Alignment explanation
Indices: 46221657--46221713 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
46221647 AAGAGAAAAC
46221657 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
46221673 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
46221688 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
46221704 AAAGAAAAGA
1 AAAGAAAAGA
46221714 GAGGCAAGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:46221786 original size:11 final size:12
Alignment explanation
Indices: 46221754--46221784 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
46221744 TTGAGAGAAC
46221754 TTGAAAAAGCCT
1 TTGAAAAAGCCT
46221766 TTGAAAAAGCCT
1 TTGAAAAAGCCT
46221778 TTGAAAA
1 TTGAAAA
46221785 GCAAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:46221808 original size:17 final size:18
Alignment explanation
Indices: 46221788--46221823 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
46221778 TTGAAAAGCA
46221788 AAAATAA-AATGAAAAAG
1 AAAATAAGAATGAAAAAG
*
46221805 AAAATAAGATTGAAAAAG
1 AAAATAAGAATGAAAAAG
46221823 A
1 A
46221824 GAACGAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (18 bp):
AAAATAAGAATGAAAAAG
Found at i:46221808 original size:18 final size:19
Alignment explanation
Indices: 46221781--46221823 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
46221771 AAAGCCTTTG
46221781 AAAAGCAAAAATAA-AATGA
1 AAAAG-AAAAATAAGAATGA
*
46221800 AAAAG-AAAATAAGATTGA
1 AAAAGAAAAATAAGAATGA
46221818 AAAAGA
1 AAAAGA
46221824 GAACGAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.33
18 9 0.43
19 5 0.24
ACGTcount: A:0.72, C:0.02, G:0.14, T:0.12
Consensus pattern (19 bp):
AAAAGAAAAATAAGAATGA
Found at i:46221821 original size:30 final size:31
Alignment explanation
Indices: 46221787--46221868 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 31
46221777 TTTGAAAAGC
* *
46221787 AAAAATAAAATGAAAAAGAAA-ATAAGATTG
1 AAAAAGAAAATGAAAAAGAAATATAAGAGTG
* * * *
46221817 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATAAGAGTG
*
46221847 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
46221869 TGAAACAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
29 8 0.20
30 24 0.59
31 9 0.22
ACGTcount: A:0.66, C:0.01, G:0.20, T:0.13
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATAAGAGTG
Found at i:46235703 original size:30 final size:30
Alignment explanation
Indices: 46235669--46235732 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
46235659 AAAAAAAAGT
**
46235669 AAAAAAAAAGTGAAAAAAA-TCGAGCAAAAA
1 AAAAAAAAAGAAAAAAAAAGT-GAGCAAAAA
*
46235699 AAAAAGAAAGAAAAAAAAAGTGAGCAAAAA
1 AAAAAAAAAGAAAAAAAAAGTGAGCAAAAA
46235729 AAAA
1 AAAA
46235733 TCAAGTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.77, C:0.05, G:0.14, T:0.05
Consensus pattern (30 bp):
AAAAAAAAAGAAAAAAAAAGTGAGCAAAAA
Found at i:46235712 original size:14 final size:15
Alignment explanation
Indices: 46235695--46235732 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
46235685 AAATCGAGCA
46235695 AAAAAAAAAGAAAG-
1 AAAAAAAAAGAAAGC
**
46235709 AAAAAAAAAGTGAGC
1 AAAAAAAAAGAAAGC
46235724 AAAAAAAAA
1 AAAAAAAAA
46235733 TCAAGTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAGAAAGC
Found at i:46236762 original size:6 final size:6
Alignment explanation
Indices: 46236734--46236874 Score: 59
Period size: 6 Copynumber: 22.3 Consensus size: 6
46236724 CCATTGAGCG
* * * * * * *
46236734 AGAAAA GGAAAA AGAGAT TGAAAA AGAAAT TGAAAGA AAACAAA AAGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAA-A AGA-AAA A-GAAAA
* * * * * ** *
46236785 TGAAAA AGAAAA AGAAAT TGCAAA AGAAAA A-AAAA TCGAAAA AGTGAG
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA -AGAAAA AGAAAA
*
46236833 AGAAAA AGAAAA TGAAGAAA AGAAAA AGCGAAAA AGAAAA AG
1 AGAAAA AGAAAA AG-A-AAA AGAAAA A--GAAAA AGAAAA AG
46236875 CGAAAAAAGA
Statistics
Matches: 94, Mismatches: 32, Indels: 18
0.65 0.22 0.12
Matches are distributed among these distances:
5 4 0.04
6 65 0.69
7 12 0.13
8 13 0.14
ACGTcount: A:0.70, C:0.03, G:0.20, T:0.07
Consensus pattern (6 bp):
AGAAAA
Found at i:46236762 original size:18 final size:18
Alignment explanation
Indices: 46236735--46236828 Score: 86
Period size: 18 Copynumber: 5.4 Consensus size: 18
46236725 CATTGAGCGA
* *
46236735 GAAAAGGAAAAAGAGATT
1 GAAAAAGAAAAAGAAATT
**
46236753 GAAAAAGAAATTGAAA--
1 GAAAAAGAAAAAGAAATT
* *
46236769 G-AAAACAAAAAGAAAAT
1 GAAAAAGAAAAAGAAATT
46236786 GAAAAAGAAAAAGAAATT
1 GAAAAAGAAAAAGAAATT
* * *
46236804 GCAAAAGAAAAAAAAATC
1 GAAAAAGAAAAAGAAATT
46236822 GAAAAAG
1 GAAAAAG
46236829 TGAGAGAAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
15 11 0.18
16 1 0.02
17 1 0.02
18 47 0.78
ACGTcount: A:0.70, C:0.03, G:0.18, T:0.09
Consensus pattern (18 bp):
GAAAAAGAAAAAGAAATT
Found at i:46236796 original size:12 final size:12
Alignment explanation
Indices: 46236734--46236872 Score: 74
Period size: 12 Copynumber: 11.5 Consensus size: 12
46236724 CCATTGAGCG
*
46236734 AGAAAAGGAAAA
1 AGAAAATGAAAA
* *
46236746 AGAGATTGAAAA
1 AGAAAATGAAAA
*
46236758 AGAAATTG--AA
1 AGAAAATGAAAA
*
46236768 AGAAAA-CAAAA
1 AGAAAATGAAAA
46236779 AGAAAATGAAAA
1 AGAAAATGAAAA
* *
46236791 AGAAAAAGAAAT
1 AGAAAATGAAAA
*
46236803 TGCAAAA-GAAAA
1 AG-AAAATGAAAA
46236815 A-AAAATCGAAAA
1 AGAAAAT-GAAAA
* *
46236827 AGTGAGA-GAAAA
1 AG-AAAATGAAAA
46236839 AGAAAATGAAGAAA
1 AGAAAATG-A-AAA
*
46236853 AGAAAAAGCGAAAA
1 AG-AAAA-TGAAAA
46236867 AGAAAA
1 AGAAAA
46236873 AGCGAAAAAA
Statistics
Matches: 97, Mismatches: 17, Indels: 25
0.70 0.12 0.18
Matches are distributed among these distances:
10 11 0.11
11 10 0.10
12 49 0.51
13 9 0.09
14 12 0.12
15 5 0.05
16 1 0.01
ACGTcount: A:0.71, C:0.03, G:0.19, T:0.07
Consensus pattern (12 bp):
AGAAAATGAAAA
Found at i:46236873 original size:15 final size:15
Alignment explanation
Indices: 46236850--46236886 Score: 67
Period size: 14 Copynumber: 2.5 Consensus size: 15
46236840 GAAAATGAAG
46236850 AAAAGAAAAAGCG-A
1 AAAAGAAAAAGCGAA
46236864 AAAAGAAAAAGCGAA
1 AAAAGAAAAAGCGAA
46236879 AAAAGAAA
1 AAAAGAAA
46236887 TTGAAAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.76, C:0.05, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAGCGAA
Found at i:46236926 original size:33 final size:33
Alignment explanation
Indices: 46236889--46236951 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
46236879 AAAAGAAATT
46236889 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTGT-AAAAGAAA-CAAGTGAAAAA
*
46236922 GAAAGAGAGTCTGTAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTGTAAAAGAAACAAGTGAA
46236952 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.27, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTGTAAAAGAAACAAGTGAAAAA
Found at i:46240213 original size:21 final size:21
Alignment explanation
Indices: 46240187--46240248 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
46240177 TTGGTATTTG
*
46240187 GGAATTGGTACAAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
46240208 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
46240229 GGTATTGGTACGAATTGGTA
1 GGAATTGGTACGAAATGGTA
46240249 ATGGTTCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.32
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:46240218 original size:11 final size:11
Alignment explanation
Indices: 46240202--46240248 Score: 53
Period size: 10 Copynumber: 4.5 Consensus size: 11
46240192 TGGTACAAAA
46240202 TGGTATGGAAT
1 TGGTATGGAAT
*
46240213 TGGTAT-GAAA
1 TGGTATGGAAT
*
46240223 TGGTATGGTAT
1 TGGTATGGAAT
*
46240234 TGGTA-CGAAT
1 TGGTATGGAAT
46240244 TGGTA
1 TGGTA
46240249 ATGGTTCAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
10 17 0.57
11 13 0.43
ACGTcount: A:0.28, C:0.02, G:0.34, T:0.36
Consensus pattern (11 bp):
TGGTATGGAAT
Found at i:46243566 original size:21 final size:22
Alignment explanation
Indices: 46243520--46243566 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
46243510 CATTTTTCTT
*
46243520 TTCTTTTTCACTCTCTCTCAAT
1 TTCTTTTTCACTCTCTCTCAAA
* *
46243542 TTCTTTTTCAGT-TCTTTCAAA
1 TTCTTTTTCACTCTCTCTCAAA
46243563 TTCT
1 TTCT
46243567 CCAAAGATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.15, C:0.26, G:0.02, T:0.57
Consensus pattern (22 bp):
TTCTTTTTCACTCTCTCTCAAA
Found at i:46246036 original size:22 final size:23
Alignment explanation
Indices: 46246008--46246050 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
46245998 TATTTGGGAA
46246008 TTGGTACGAAATGGT-ATGGTAT
1 TTGGTACGAAATGGTAATGGTAT
*
46246030 TTGGTACGAATTGGTAATGGT
1 TTGGTACGAAATGGTAATGGT
46246051 TCAAAGAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.26, C:0.05, G:0.33, T:0.37
Consensus pattern (23 bp):
TTGGTACGAAATGGTAATGGTAT
Found at i:46248052 original size:22 final size:22
Alignment explanation
Indices: 46248024--46248067 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
46248014 TTTTGAACCA
46248024 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
46248046 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
46248068 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:46250055 original size:56 final size:56
Alignment explanation
Indices: 46249950--46250056 Score: 144
Period size: 56 Copynumber: 1.9 Consensus size: 56
46249940 ATTAATGCCG
* * * * *
46249950 TCCATGCATGGTGAATATCTCATTTAATTCAAGTTTTGCTTCCCTTTAAATGTCGT
1 TCCATACATGGTGAACATCTCATTTAATTCAAGTTTTGCTGCACATTAAATGTCGT
*
46250006 TCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCACATTAAAT
1 TCCATACATGGTGAACATCTCATTTAATTCAAGT-TTTGCTGCACATTAAAT
46250057 CAGCAAGCAG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
55 20 0.45
56 24 0.55
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (56 bp):
TCCATACATGGTGAACATCTCATTTAATTCAAGTTTTGCTGCACATTAAATGTCGT
Found at i:46250705 original size:20 final size:20
Alignment explanation
Indices: 46250680--46250734 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
46250670 ACGAGTTAAA
* *
46250680 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
46250700 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
46250720 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
46250735 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:46253948 original size:27 final size:27
Alignment explanation
Indices: 46253902--46254284 Score: 424
Period size: 27 Copynumber: 14.2 Consensus size: 27
46253892 ATTACTGAAA
* * * ***
46253902 TACCCTCGACTTGTAAAATTACCAAAG
1 TACCCTCGATTTATAGAATTACCATTT
* * *
46253929 TACCCTCAATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
**
46253956 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * **
46253983 TACCATCGATTTACAGAATTATTATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
46254010 TACCTTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
46254037 TACCCTCAATTTACAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCATTT
* **
46254064 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
46254091 TACACTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
46254118 TACCCTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCATTT
46254145 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
46254172 TACCCTCAATTTATAAAATTATCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
46254199 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCATTT
** **
46254226 TACTATCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
46254253 TACCCTCAATTTATAAAATTGCCATTT
1 TACCCTCGATTTATAGAATTACCATTT
46254280 TACCC
1 TACCC
46254285 CTAGGGTGTT
Statistics
Matches: 302, Mismatches: 54, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 302 1.00
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:46254028 original size:81 final size:81
Alignment explanation
Indices: 46253929--46254284 Score: 487
Period size: 81 Copynumber: 4.4 Consensus size: 81
46253919 ATTACCAAAG
* * * * *
46253929 TACCCTCAATTTATAGAATTATCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCATCGATT
1 TACCCTCAATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACTATTTTACCATCGATT
*
46253994 TACAGAATTATTATTT
66 TACAGAATTACTATTT
* * *
46254010 TACCTTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACTATTTTACCCTCGATT
1 TACCCTCAATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACTATTTTACCATCGATT
*
46254075 TACAGAATTACTGTTT
66 TACAGAATTACTATTT
* * * * *
46254091 TACACTCGATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACTATTTTACCCTCGATT
1 TACCCTCAATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACTATTTTACCATCGATT
* *
46254156 TATAGAATTACCATTT
66 TACAGAATTACTATTT
* * * *
46254172 TACCCTCAATTTATAAAATTATCATTTTACCCTCGATTTACAGAATTACTATTTTACTATCGATT
1 TACCCTCAATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACTATTTTACCATCGATT
* *
46254237 TATAGAATTACTGTTT
66 TACAGAATTACTATTT
* *
46254253 TACCCTCAATTTATAAAATTGCCATTTTACCC
1 TACCCTCAATTTATAGAATTACCATTTTACCC
46254285 CTAGGGTGTT
Statistics
Matches: 245, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 245 1.00
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (81 bp):
TACCCTCAATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACTATTTTACCATCGATT
TACAGAATTACTATTT
Found at i:46254568 original size:31 final size:32
Alignment explanation
Indices: 46254520--46254580 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
46254510 CTCGCTGCAA
*
46254520 TCTGGTGGCTTCACCAC-ATATATATATCTGT
1 TCTGGTGGCCTCACCACAATATATATATCTGT
*
46254551 TCTGGTGGCCT-AGCCACAATATTTATATCT
1 TCTGGTGGCCTCA-CCACAATATATATATCT
46254581 AGTGACTTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 1 0.04
31 14 0.54
32 11 0.42
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (32 bp):
TCTGGTGGCCTCACCACAATATATATATCTGT
Found at i:46254760 original size:6 final size:6
Alignment explanation
Indices: 46254721--46254857 Score: 86
Period size: 6 Copynumber: 22.3 Consensus size: 6
46254711 TTGCATTCAC
* *
46254721 ATTCTG ATAT-TG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG AT-TCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
46254770 -TCAGCTA ATTTTG ATTCTG ATTCTG ATTTTG ATTCTG ATTCTG -TCACCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
46254820 ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
46254858 AATGTTTCTT
Statistics
Matches: 100, Mismatches: 18, Indels: 26
0.69 0.12 0.18
Matches are distributed among these distances:
5 6 0.06
6 81 0.81
7 10 0.10
8 3 0.03
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:46254768 original size:31 final size:31
Alignment explanation
Indices: 46254733--46254793 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
46254723 TCTGATATTG
* *
46254733 ATTCTGTTACCTGATACTGATTCTGATTCTA
1 ATTCTGTCACCTAATACTGATTCTGATTCTA
* **
46254764 ATTCTGTCAGCTAATTTTGATTCTGATTCT
1 ATTCTGTCACCTAATACTGATTCTGATTCT
46254794 GATTTTGATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (31 bp):
ATTCTGTCACCTAATACTGATTCTGATTCTA
Found at i:46254790 original size:43 final size:43
Alignment explanation
Indices: 46254743--46254855 Score: 154
Period size: 43 Copynumber: 2.6 Consensus size: 43
46254733 ATTCTGTTAC
* * * *
46254743 CTGATACTGATTCTGATTCTAATTCTGTCAGCTAATTTTGATT
1 CTGATTCTGATTTTGATTCTAATTCTGTCACCTAATTCTGATT
* *
46254786 CTGATTCTGATTTTGATTCTGATTCTGTCACCTGATTCTGATT
1 CTGATTCTGATTTTGATTCTAATTCTGTCACCTAATTCTGATT
* *
46254829 CTGATTCTCATTTTGATTCTAGTTCTG
1 CTGATTCTGATTTTGATTCTAATTCTG
46254856 ATAATGTTTC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.49
Consensus pattern (43 bp):
CTGATTCTGATTTTGATTCTAATTCTGTCACCTAATTCTGATT
Found at i:46256978 original size:24 final size:25
Alignment explanation
Indices: 46256951--46257013 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 25
46256941 GCGTTTCCTC
*
46256951 GCACACATAGTGCTATATA-ATATT
1 GCACACATAGTGCCATATAGATATT
* * * *
46256975 GCACACATAGAGCCATGTAGTTTTT
1 GCACACATAGTGCCATATAGATATT
46257000 GCACACATAGTGCC
1 GCACACATAGTGCC
46257014 GCATAACCTC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 16 0.50
25 16 0.50
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (25 bp):
GCACACATAGTGCCATATAGATATT
Found at i:46258630 original size:30 final size:30
Alignment explanation
Indices: 46258559--46258641 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
46258549 CTTTTGTTTC
* *
46258559 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
46258590 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
46258619 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
46258642 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:46258641 original size:18 final size:18
Alignment explanation
Indices: 46258592--46258647 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
46258582 CACTCTCAAA
* *
46258592 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
46258609 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
46258627 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
46258646 TT
1 TT
46258648 CAAAGGCCAT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:46258648 original size:12 final size:12
Alignment explanation
Indices: 46258617--46258641 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46258607 TTTTTCAATC
46258617 TCATTTTCTTTT
1 TCATTTTCTTTT
46258629 TCATTTTCTTTT
1 TCATTTTCTTTT
46258641 T
1 T
46258642 GCTTTTCAAA
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:46258754 original size:12 final size:13
Alignment explanation
Indices: 46258728--46258765 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
46258718 TTTTATTTCA
46258728 TTTTCTTTTTCTTC
1 TTTTC-TTTTCTTC
*
46258742 TTTTGTTTT-TTC
1 TTTTCTTTTCTTC
46258754 TTTTCTTTTCTT
1 TTTTCTTTTCTT
46258766 TGTTTTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 11 0.52
13 6 0.29
14 4 0.19
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.82
Consensus pattern (13 bp):
TTTTCTTTTCTTC
Found at i:46258767 original size:21 final size:21
Alignment explanation
Indices: 46258728--46258777 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
46258718 TTTTATTTCA
46258728 TTTTCTTTTTCTTCTTTTGTT
1 TTTTCTTTTTCTTCTTTTGTT
*
46258749 TTTTC-TTTTCTTTTCTTTGTT
1 TTTTCTTTTTCTTCT-TTTGTT
*
46258770 TTCTCTTT
1 TTTTCTTT
46258778 ACAAGAATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.32
21 15 0.60
22 2 0.08
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (21 bp):
TTTTCTTTTTCTTCTTTTGTT
Found at i:46259724 original size:30 final size:30
Alignment explanation
Indices: 46259700--46259768 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
46259690 CGAGCTCACT
46259700 CCTAGCTC-ACTTTCAACTCACGAGCTAAAC
1 CCTAGCTCAACTTT-AACTCACGAGCTAAAC
* * *
46259730 CTTAGCTCAACTTTAGCTCACGAGCTAAAG
1 CCTAGCTCAACTTTAACTCACGAGCTAAAC
*
46259760 CTTAGCTCA
1 CCTAGCTCA
46259769 TTTTAGTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
30 30 0.86
31 5 0.14
ACGTcount: A:0.29, C:0.32, G:0.13, T:0.26
Consensus pattern (30 bp):
CCTAGCTCAACTTTAACTCACGAGCTAAAC
Found at i:46262336 original size:25 final size:26
Alignment explanation
Indices: 46262304--46262352 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
46262294 TTATAATATG
* *
46262304 AAAATGACCGTTTTA-CCCCTAGGTA
1 AAAATGACCATTATACCCCCTAGGTA
46262329 AAAATGACCATTATACCCCCTAGG
1 AAAATGACCATTATACCCCCTAGG
46262353 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (26 bp):
AAAATGACCATTATACCCCCTAGGTA
Found at i:46262403 original size:9 final size:9
Alignment explanation
Indices: 46262391--46262467 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
46262381 TTTGATAAAC
46262391 ATGATATGT
1 ATGATATGT
*
46262400 ATGATATGCAC
1 ATGATATG--T
46262411 ATGATATGT
1 ATGATATGT
* *
46262420 TTGATATGCAG
1 ATGATATG--T
*
46262431 ATGACATGT
1 ATGATATGT
*
46262440 ATGATATGCAC
1 ATGATATG--T
46262451 ATGATATGT
1 ATGATATGT
46262460 ATGATATG
1 ATGATATG
46262468 CACACGAGAT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 30 0.58
11 22 0.42
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (9 bp):
ATGATATGT
Found at i:46262479 original size:20 final size:20
Alignment explanation
Indices: 46262389--46262471 Score: 139
Period size: 20 Copynumber: 4.2 Consensus size: 20
46262379 ATTTTGATAA
46262389 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
46262409 ACATGATATGTTTGATATGC
1 ACATGATATGTATGATATGC
* *
46262429 AGATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
46262449 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
46262469 ACA
1 ACA
46262472 CGAGATGTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:46262663 original size:25 final size:24
Alignment explanation
Indices: 46262524--46262667 Score: 204
Period size: 24 Copynumber: 6.0 Consensus size: 24
46262514 GAGGAAGTGC
* *
46262524 AAAAGGGCTTATGCCCTAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
46262548 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
46262572 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
46262596 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
46262619 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
46262644 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
46262668 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 3, Indels: 11
0.89 0.02 0.09
Matches are distributed among these distances:
23 29 0.26
24 52 0.47
25 21 0.19
26 9 0.08
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:46262898 original size:31 final size:31
Alignment explanation
Indices: 46262860--46262923 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
46262850 CGTTTACCGT
46262860 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
46262891 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
46262922 AA
1 AA
46262924 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:46263678 original size:14 final size:14
Alignment explanation
Indices: 46263659--46263703 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
46263649 AACCCATCTT
*
46263659 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
46263673 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
46263686 AATTTAATTTAATG
1 AGTTTAATTTAATG
46263700 AGTT
1 AGTT
46263704 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:46264714 original size:29 final size:29
Alignment explanation
Indices: 46264681--46264740 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
46264671 ATAACCAAAC
*
46264681 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
* *
46264710 CTACATAAACTTCATATCCATAAACCTAT
1 CTACAAAAACTTCATATCCATAAACCCAT
46264739 CT
1 CT
46264741 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:46264733 original size:15 final size:15
Alignment explanation
Indices: 46264687--46264734 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
46264677 AAACCTACAA
*
46264687 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
46264702 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
46264716 AAACTTCATATCCAT
1 AAACTTCATATCCAT
46264731 AAAC
1 AAAC
46264735 CTATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:46264980 original size:16 final size:16
Alignment explanation
Indices: 46264956--46264988 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
46264946 AGTAAGTTTC
46264956 AAAAAAAAAT-TGAAA
1 AAAAAAAAATCTGAAA
46264971 AAAAACAAAATCTGAAA
1 AAAAA-AAAATCTGAAA
46264988 A
1 A
46264989 TTTGAACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 5 0.31
17 6 0.38
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAAAAAAATCTGAAA
Found at i:46266054 original size:30 final size:28
Alignment explanation
Indices: 46266018--46266073 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
46266008 AAGCGAAAAA
* *
46266018 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
46266048 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
46266074 CATGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:46268284 original size:14 final size:14
Alignment explanation
Indices: 46268265--46268309 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
46268255 AACTCATCTT
*
46268265 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
46268279 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
46268292 AATTTAATTTAATG
1 AGTTTAATTTAATG
46268306 AGTT
1 AGTT
46268310 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:46269320 original size:29 final size:29
Alignment explanation
Indices: 46269287--46269346 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
46269277 ATAACCAAAC
*
46269287 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
* *
46269316 CTACATAAACTTCATATCCATAAACCTAT
1 CTACAAAAACTTCATATCCATAAACCCAT
46269345 CT
1 CT
46269347 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:46269339 original size:15 final size:15
Alignment explanation
Indices: 46269293--46269340 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
46269283 AAACCTACAA
*
46269293 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
46269308 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
46269322 AAACTTCATATCCAT
1 AAACTTCATATCCAT
46269337 AAAC
1 AAAC
46269341 CTATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:46275285 original size:12 final size:12
Alignment explanation
Indices: 46275263--46275294 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
46275253 CATAAAAATT
46275263 TAAACTAAGTAAA
1 TAAA-TAAGTAAA
46275276 TAAATAAGTAAA
1 TAAATAAGTAAA
46275288 TAAATAA
1 TAAATAA
46275295 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.25
Consensus pattern (12 bp):
TAAATAAGTAAA
Found at i:46276709 original size:23 final size:22
Alignment explanation
Indices: 46276657--46276709 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
46276647 TCCACGTCTT
*
46276657 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
46276679 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
46276702 TTTCTTTT
1 TTTCTTTT
46276710 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:46279073 original size:12 final size:12
Alignment explanation
Indices: 46279051--46279082 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
46279041 CATAAAAATT
46279051 TAAACTAAGTAAA
1 TAAA-TAAGTAAA
46279064 TAAATAAGTAAA
1 TAAATAAGTAAA
46279076 TAAATAA
1 TAAATAA
46279083 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.25
Consensus pattern (12 bp):
TAAATAAGTAAA
Found at i:46280071 original size:8 final size:8
Alignment explanation
Indices: 46280058--46280094 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
46280048 GGCCTTCTAG
46280058 CTTTTCGA
1 CTTTTCGA
46280066 CTTTTCGA
1 CTTTTCGA
46280074 CTTTTC-A
1 CTTTTCGA
46280081 GCTTTTCGA
1 -CTTTTCGA
46280090 CTTTT
1 CTTTT
46280095 GCTATTACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 1 0.04
8 25 0.93
9 1 0.04
ACGTcount: A:0.11, C:0.24, G:0.11, T:0.54
Consensus pattern (8 bp):
CTTTTCGA
Found at i:46285313 original size:21 final size:21
Alignment explanation
Indices: 46285287--46285349 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
46285277 TTTGGTATTG
46285287 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
46285308 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
46285329 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
46285350 ACGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:46288825 original size:68 final size:66
Alignment explanation
Indices: 46288715--46288967 Score: 193
Period size: 68 Copynumber: 3.8 Consensus size: 66
46288705 ATACAGATAG
* * *
46288715 TATGTAGCTAGGTCACATGTA-TGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACAAGA
1 TATGTAGCTAGGTCACATG-AGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTAC-AGA
46288777 CAATA
62 CAATA
* * * **
46288782 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGATAAGAGAGCTAC-G-GGA
1 T-ATGTAGCTAGGTCACATGAGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACAGACAA
46288845 TA
65 TA
* * * * * *
46288847 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGAGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTAC-AGA
*
46288912 TAA-A
62 CAATA
* *
46288916 T-TG--GCTAGGTCACATGAGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TATGTAGCTAGGTCACATGAGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
46288968 CGAACTATAT
Statistics
Matches: 149, Mismatches: 26, Indels: 26
0.74 0.13 0.13
Matches are distributed among these distances:
62 1 0.01
63 19 0.13
64 24 0.16
65 4 0.03
66 22 0.15
67 26 0.17
68 48 0.32
69 4 0.03
70 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (66 bp):
TATGTAGCTAGGTCACATGAGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACAGACAAT
A
Found at i:46290915 original size:28 final size:28
Alignment explanation
Indices: 46290875--46290944 Score: 131
Period size: 28 Copynumber: 2.5 Consensus size: 28
46290865 GACTATATAT
*
46290875 GGCACTTAGTGTGCGAAACATTGAGTAA
1 GGCACTTAGTGTGCGAAACATCGAGTAA
46290903 GGCACTTAGTGTGCGAAACATCGAGTAA
1 GGCACTTAGTGTGCGAAACATCGAGTAA
46290931 GGCACTTAGTGTGC
1 GGCACTTAGTGTGC
46290945 AGAATTCTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (28 bp):
GGCACTTAGTGTGCGAAACATCGAGTAA
Found at i:46291007 original size:98 final size:96
Alignment explanation
Indices: 46290836--46291015 Score: 265
Period size: 98 Copynumber: 1.9 Consensus size: 96
46290826 ACAATGTTTA
*
46290836 GCACTTAGTGTGCGATTTGAGATAGCTTCGACTATATATGGCACTTAGTGTGCGAAACATTGAGT
1 GCACTTAGTGTGCGATTTGAGATAGCTTCGACTATATATGGCACTTAGTGTACGAAACATTGAGT
*
46290901 AAGGCACTTAGTGTGCGAAACATCGAGTAAG
66 AAGACACTTAGTGTGCGAAACATCGAGTAAG
* * *
46290932 GCACTTAGTGTGCAGAATTCT-A-ATAGCTTCGGCTATGTGATGGCACTTAGTGTATGAAACATT
1 GCACTTAGTGTGC-G-ATT-TGAGATAGCTTCGACTATAT-ATGGCACTTAGTGTACGAAACATT
46290995 GAGTAAGACACTTAGTGTGCG
62 GAGTAAGACACTTAGTGTGCG
46291016 GAATTATAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
96 13 0.17
97 15 0.20
98 46 0.61
99 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (96 bp):
GCACTTAGTGTGCGATTTGAGATAGCTTCGACTATATATGGCACTTAGTGTACGAAACATTGAGT
AAGACACTTAGTGTGCGAAACATCGAGTAAG
Found at i:46291062 original size:70 final size:70
Alignment explanation
Indices: 46290903--46291069 Score: 235
Period size: 70 Copynumber: 2.4 Consensus size: 70
46290893 CATTGAGTAA
* * *
46290903 GGCACTTAGTGTGCGAAACATCGAGTAAGGCACTTAGTGTGCAGAATTCTAATAGCTTCGGCTAT
1 GGCACTTAGTGTGCGAAACATTGAGTAAGACACTTAGTGTGCAGAATTATAATAGCTTCGGCTAT
*
46290968 GTGAT
66 GCGAT
** * *
46290973 GGCACTTAGTGTATGAAACATTGAGTAAGACACTTAGTGTGCGGAATTATAATAGCTTTGGCTAT
1 GGCACTTAGTGTGCGAAACATTGAGTAAGACACTTAGTGTGCAGAATTATAATAGCTTCGGCTAT
46291038 GCGAT
66 GCGAT
* * *
46291043 GGCACTTAATGCGCAAAACATTGAGTA
1 GGCACTTAGTGTGCGAAACATTGAGTA
46291070 TTTGACACTG
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
70 84 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (70 bp):
GGCACTTAGTGTGCGAAACATTGAGTAAGACACTTAGTGTGCAGAATTATAATAGCTTCGGCTAT
GCGAT
Found at i:46291423 original size:10 final size:10
Alignment explanation
Indices: 46291405--46291438 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
46291395 TGTATATATG
*
46291405 GTATATTTTA
1 GTATGTTTTA
46291415 GTATGTTTTA
1 GTATGTTTTA
*
46291425 GTATGTTTTG
1 GTATGTTTTA
46291435 GTAT
1 GTAT
46291439 AAATGTGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.59
Consensus pattern (10 bp):
GTATGTTTTA
Found at i:46293585 original size:46 final size:46
Alignment explanation
Indices: 46293350--46293621 Score: 182
Period size: 50 Copynumber: 5.7 Consensus size: 46
46293340 ATAGGGTGTA
46293350 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCCATC
1 ATGCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTACAT-C-TC
* * * * * *
46293397 AAGTCGATGTCAT-ACCCTAGACATGGTCTTACACTGACTATCAAAAT-TG
1 ATGCCGATG-CATGTCCC-AGACATGGTCTTACACTGGCT-T--ACATCTC
* * *
46293446 AGGCCGACGGCCATGTCCCAGACATGGTTTTACACTGGCTCTCACATCTCC
1 ATGCCGA-TG-CATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCT-C
* * * * *
46293497 GTGCTGATGCCATGTCCCAGAGATGGTCTTACATTGAC--ACATCTC
1 ATGCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTACATCTC
* *
46293542 ATAGCCAATGCATGTCCCAAACAT-GTCTTACACTGGCTTACATCTC
1 AT-GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTC
* *
46293588 GAGGCCGATGCATGTCCTAGACAT-GTCTTACACT
1 -ATGCCGATGCATGTCCCAGACATGGTCTTACACT
46293622 AGCTCTTGTC
Statistics
Matches: 174, Mismatches: 37, Indels: 29
0.73 0.15 0.12
Matches are distributed among these distances:
44 11 0.06
45 14 0.08
46 49 0.28
47 30 0.17
49 10 0.06
50 51 0.29
51 7 0.04
52 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
ATGCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTC
Found at i:46294266 original size:45 final size:45
Alignment explanation
Indices: 46294217--46294479 Score: 420
Period size: 45 Copynumber: 5.9 Consensus size: 45
46294207 TCGGCCATGG
* * * * *
46294217 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
46294262 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
46294307 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGG-CAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
46294351 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
46294396 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
* * * **
46294441 TGCTTCCTTAATTTGTTCCACAAATTATGCATGATGTTG
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTG
46294480 TCCACCTCTT
Statistics
Matches: 205, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
44 44 0.21
45 161 0.79
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:46294377 original size:89 final size:90
Alignment explanation
Indices: 46294217--46294479 Score: 429
Period size: 89 Copynumber: 2.9 Consensus size: 90
46294207 TCGGCCATGG
* * * *
46294217 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAATGCTTCCTTAAATTCTTCCA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAATGCTTCCTTAAATTCTTCCA
46294282 TGAATTATGCATGATGTTGGTCAAA
66 TGAATTATGCATGATGTTGGTCAAA
*
46294307 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGG-CAAATGCTTCCTCAAATTCTTCCA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAATGCTTCCTTAAATTCTTCCA
46294371 TGAATTATGCATGATGTTGGTCAAA
66 TGAATTATGCATGATGTTGGTCAAA
* * *
46294396 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTTAATTTGTTCCA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAATGCTTCCTTAAATTCTTCCA
**
46294461 CAAATTATGCATGATGTTG
66 TGAATTATGCATGATGTTG
46294480 TCCACCTCTT
Statistics
Matches: 162, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
89 88 0.54
90 74 0.46
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (90 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAATGCTTCCTTAAATTCTTCCA
TGAATTATGCATGATGTTGGTCAAA
Found at i:46294460 original size:134 final size:134
Alignment explanation
Indices: 46294217--46294479 Score: 427
Period size: 134 Copynumber: 2.0 Consensus size: 134
46294207 TCGGCCATGG
* * * *
46294217 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAATGCTTCCTTAAATTCTTCCA
1 TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCA
**
46294282 TGAATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGG
66 TGAATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCACAAATTATGCATGATGTTGG
46294347 CAAA
131 CAAA
* *
46294351 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCA
1 TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCA
* * *
46294416 TGAATTATGCATGATGTTGGTCAAATGCTTCCTTAATTTGTTCCACAAATTATGCATGATGTTG
66 TGAATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCACAAATTATGCATGATGTTG
46294480 TCCACCTCTT
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
134 118 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (134 bp):
TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCA
TGAATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCACAAATTATGCATGATGTTGG
CAAA
Found at i:46299742 original size:21 final size:19
Alignment explanation
Indices: 46299716--46299763 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 19
46299706 AAACTTAAAA
46299716 TGAATTTCAATCACTTTTTTTT
1 TGAATTTCAA--A-TTTTTTTT
*
46299738 T-AATTCCAAATTTTTTTT
1 TGAATTTCAAATTTTTTTT
46299756 TGAATTTC
1 TGAATTTC
46299764 TCTTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 9 0.39
19 6 0.26
21 7 0.30
22 1 0.04
ACGTcount: A:0.25, C:0.12, G:0.04, T:0.58
Consensus pattern (19 bp):
TGAATTTCAAATTTTTTTT
Found at i:46300657 original size:45 final size:45
Alignment explanation
Indices: 46300606--46300866 Score: 393
Period size: 45 Copynumber: 5.9 Consensus size: 45
46300596 TCGGTCATGG
* * * * *
46300606 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
46300651 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
46300696 TGCTTCCTCAAATTCTTCCATGAATTATGCATGA---TGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
46300738 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
46300783 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
* * * **
46300828 TGCTTCCTTAATTTGTTCCACAAATTATGCATGATGTTG
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTG
46300867 TCCACCTCTT
Statistics
Matches: 199, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
42 41 0.21
45 158 0.79
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:46300755 original size:87 final size:88
Alignment explanation
Indices: 46300606--46300866 Score: 389
Period size: 87 Copynumber: 2.9 Consensus size: 88
46300596 TCGGTCATGG
* * * *
46300606 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAATGCTTCCTTAAATTCTTCCA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGA--TTGGCCAAATGCTTCCTTAAATTCTTCCA
46300671 TGAATTATGCATGATGTTGGTCAAA
64 TGAATTATGCATGATGTTGGTCAAA
*
46300696 TGCTTCCTCAAATTCTTCCATGAATTATGCATGA-TGGCCAAATGCTTCCTCAAATTCTTCCATG
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATTGGCCAAATGCTTCCTTAAATTCTTCCATG
46300760 AATTATGCATGATGTTGGTCAAA
66 AATTATGCATGATGTTGGTCAAA
* * *
46300783 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTTAATTTGTTCCA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGA--TTGGCCAAATGCTTCCTTAAATTCTTCCA
**
46300848 CAAATTATGCATGATGTTG
64 TGAATTATGCATGATGTTG
46300867 TCCACCTCTT
Statistics
Matches: 157, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
87 86 0.55
90 71 0.45
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (88 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATTGGCCAAATGCTTCCTTAAATTCTTCCATG
AATTATGCATGATGTTGGTCAAA
Found at i:46300847 original size:132 final size:132
Alignment explanation
Indices: 46300606--46300863 Score: 417
Period size: 132 Copynumber: 2.0 Consensus size: 132
46300596 TCGGTCATGG
* * * *
46300606 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAATGCTTCCTTAAATTCTTCCA
1 TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCA
**
46300671 TGAATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGGCCA
66 TGAATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCACAAATTATGCATGATGGCCA
46300736 AA
131 AA
* *
46300738 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCA
1 TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCA
* * *
46300803 TGAATTATGCATGATGTTGGTCAAATGCTTCCTTAATTTGTTCCACAAATTATGCATGATG
66 TGAATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCACAAATTATGCATGATG
46300864 TTGTCCACCT
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 115 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.38
Consensus pattern (132 bp):
TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGCCAAATGCTTCCTCAAATTCTTCCA
TGAATTATGCATGATGTTGGTCAAATGCTTCCTCAAATTCTTCCACAAATTATGCATGATGGCCA
AA
Found at i:46305488 original size:14 final size:14
Alignment explanation
Indices: 46305446--46305490 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
46305436 TTAAAGAAGC
46305446 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
46305460 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
46305473 AACTCATTTAATTA
1 AACTCATTAAATTA
46305487 AACT
1 AACT
46305491 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:46306629 original size:21 final size:21
Alignment explanation
Indices: 46306603--46306665 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
46306593 TTGGTATTTG
46306603 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
46306624 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
46306645 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
46306666 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:46313574 original size:23 final size:22
Alignment explanation
Indices: 46313522--46313574 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
46313512 TCCACGTCTT
*
46313522 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
46313544 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
46313567 TTTCTTTT
1 TTTCTTTT
46313575 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:46319760 original size:14 final size:14
Alignment explanation
Indices: 46319741--46319785 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
46319731 AACTCATCTT
*
46319741 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
46319755 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
46319768 AATTTAATTTAATG
1 AGTTTAATTTAATG
46319782 AGTT
1 AGTT
46319786 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:46320791 original size:29 final size:29
Alignment explanation
Indices: 46320758--46320817 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
46320748 ATAACCAAAC
* *
46320758 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
46320787 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
46320816 CT
1 CT
46320818 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:46320810 original size:15 final size:15
Alignment explanation
Indices: 46320764--46320811 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
46320754 AAACCTACAA
*
46320764 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
46320779 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
46320793 AAACTTCATATCCAT
1 AAACTTCATATCCAT
46320808 AAAC
1 AAAC
46320812 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:46324272 original size:101 final size:98
Alignment explanation
Indices: 46324111--46324355 Score: 244
Period size: 99 Copynumber: 2.5 Consensus size: 98
46324101 TGGTTGTAGG
* * * * * *
46324111 TCACGTGTATAGTATTAAGTGCAGG--ACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAGCTAGATCACATGTGTAGTAC
* *
46324174 TAAGTGCGGGCTACTATACG-TACCAGACAACTTCGA
66 TAAGTACAGGCTAC--TACGCTACCAGACAA-TT-GA
* * *
46324210 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGCTAGATCACTTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAGCTAGATCACATGTGTAGTAC
** *
46324275 TAAGTACAGGCTACTACGTCTACCAGATTATTGG
66 TAAGTACAGGCTACTACG-CTACCAGACAATTGA
* * * ***
46324309 TCGCATGTGTAGTACTAAGTGCAGGCTAATATGCGTACCAGATAGCT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAGCT
46324356 TCGGTTACAA
Statistics
Matches: 120, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
99 67 0.56
100 2 0.02
101 51 0.43
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAGCTAGATCACATGTGTAGTAC
TAAGTACAGGCTACTACGCTACCAGACAATTGA
Found at i:46324302 original size:50 final size:50
Alignment explanation
Indices: 46324111--46324302 Score: 147
Period size: 50 Copynumber: 3.9 Consensus size: 50
46324101 TGGTTGTAGG
* * * * * * * *
46324111 TCACGTGTATAGTATTAAGTGCAGG--ACTACGTGTACCAGATAGTTAGG
1 TCACGTGTGTAGTACTAAGTACAGGCTACTACATCTACCAGATGGCTAGA
* * * * * *** *
46324159 TCGCATGTGTAGTACTAAGTGCGGGCTACTATA-CGTACCAGACAACTTCGA
1 TCACGTGTGTAGTACTAAGTACAGGCTACTACATC-TACCAGATGGC-TAGA
* * *
46324210 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGCTAGA
1 TCACGTGTGTAGTACTAAGTACAGGCTACTACATCTACCAGATGGCTAGA
* *
46324260 TCACTTGTGTAGTACTAAGTACAGGCTACTACGTCTACCAGAT
1 TCACGTGTGTAGTACTAAGTACAGGCTACTACATCTACCAGAT
46324303 TATTGGTCGC
Statistics
Matches: 111, Mismatches: 28, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
48 20 0.18
50 53 0.48
51 38 0.34
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTACAGGCTACTACATCTACCAGATGGCTAGA
Found at i:46324382 original size:150 final size:149
Alignment explanation
Indices: 46324111--46324384 Score: 345
Period size: 150 Copynumber: 1.8 Consensus size: 149
46324101 TGGTTGTAGG
* * *
46324111 TCACGTGTATAGTATTAAGTGCAGGACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTA
1 TCACGTGTATAGTACTAAGTACAGGACTACGTCTACCAGATAGTTAGGTCGCATGTGTAGTACTA
* * ** * *
46324176 AGTGCGGGCTACTATACGTACCAGACAACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTA
66 AGTGCAGGCTAATATACGTACCAGACAACTTCGATCACAAGGGTAGTAATAAGTGCAGGCTACTA
46324241 CATGTATCAGATGGCTAGA
131 CATGTATCAGATGGCTAGA
* *
46324260 TCACTTGTGTAGTACTAAGTACAGGCTACTACGTCTACCAGATTA-TT-GGTCGCATGTGTAGTA
1 TCACGTGTATAGTACTAAGTACAGG--ACTACGTCTACCAGA-TAGTTAGGTCGCATGTGTAGTA
* * * * * * *
46324323 CTAAGTGCAGGCTAATATGCGTACCAGATAGCTTCGGTTACAAGGGTGGTAATATGTGCAGG
63 CTAAGTGCAGGCTAATATACGTACCAGACAACTTCGATCACAAGGGTAGTAATAAGTGCAGG
46324385 AAACCGTGTA
Statistics
Matches: 104, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
149 21 0.20
150 65 0.62
151 16 0.15
152 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (149 bp):
TCACGTGTATAGTACTAAGTACAGGACTACGTCTACCAGATAGTTAGGTCGCATGTGTAGTACTA
AGTGCAGGCTAATATACGTACCAGACAACTTCGATCACAAGGGTAGTAATAAGTGCAGGCTACTA
CATGTATCAGATGGCTAGA
Found at i:46326851 original size:24 final size:22
Alignment explanation
Indices: 46326801--46326879 Score: 72
Period size: 24 Copynumber: 3.5 Consensus size: 22
46326791 AATTGAAATT
*
46326801 GAAAG-AAAACAAA-GAAAAAG
1 GAAAGAAAAAAAAATGAAAAAG
* *
46326821 TACAAGAAAAAAAGATTGAAAAAG
1 GA-AAGAAAAAAA-AATGAAAAAG
46326845 AGAAAGAAAAGAAAAATGAAAAAG
1 -GAAAGAAAA-AAAAATGAAAAAG
*
46326869 GAAAGGAAAAA
1 GAAAGAAAAAA
46326880 GTGAGGGAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 1 0.02
21 3 0.06
22 7 0.15
23 9 0.19
24 23 0.49
25 4 0.09
ACGTcount: A:0.72, C:0.03, G:0.20, T:0.05
Consensus pattern (22 bp):
GAAAGAAAAAAAAATGAAAAAG
Found at i:46329653 original size:12 final size:12
Alignment explanation
Indices: 46329636--46329662 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46329626 TTAAGTTATT
46329636 TAAGCCGCCTTC
1 TAAGCCGCCTTC
46329648 TAAGCCGCCTTC
1 TAAGCCGCCTTC
46329660 TAA
1 TAA
46329663 CCGATCCCAA
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:0.22, C:0.37, G:0.15, T:0.26
Consensus pattern (12 bp):
TAAGCCGCCTTC
Found at i:46331436 original size:28 final size:29
Alignment explanation
Indices: 46331384--46331457 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 29
46331374 AAGTCTACAT
* *
46331384 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
46331412 TCATTCATATAGCCCATTAGTCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
46331441 ACATTCATATGGCCCAT
1 ACATTCATATGGCCCAT
46331458 CTGGCCTGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 19 0.50
29 19 0.50
ACGTcount: A:0.30, C:0.32, G:0.12, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:46331470 original size:29 final size:29
Alignment explanation
Indices: 46331384--46331463 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
46331374 AAGTCTACAT
* *
46331384 ACATGCATATGGCCCA-CTAGGCCCAATC
1 ACATTCATATGGCCCATCTAGGCCAAATC
* * *
46331412 TCATTCATATAGCCCAT-TAGTCCCAAATC
1 ACATTCATATGGCCCATCTAG-GCCAAATC
46331441 ACATTCATATGGCCCATCT-GGCC
1 ACATTCATATGGCCCATCTAGGCC
46331464 TGAATCAATT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
28 18 0.44
29 22 0.54
30 1 0.02
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATCTAGGCCAAATC
Found at i:46339942 original size:17 final size:18
Alignment explanation
Indices: 46339920--46339960 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
46339910 CATTTCTTTT
46339920 TCTTTTGAATCACTC-TC
1 TCTTTTGAATCACTCATC
**
46339937 TCTTTTTTATCACTCATC
1 TCTTTTGAATCACTCATC
46339955 T-TTTTG
1 TCTTTTG
46339961 TTTTTCTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.15, C:0.24, G:0.05, T:0.56
Consensus pattern (18 bp):
TCTTTTGAATCACTCATC
Found at i:46344242 original size:6 final size:6
Alignment explanation
Indices: 46344231--46344262 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
46344221 ATAAATAAAT
46344231 AAATAA AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AA
46344263 CTTTACAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:46345656 original size:23 final size:22
Alignment explanation
Indices: 46345604--46345656 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
46345594 TCCACGTCTT
*
46345604 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
46345626 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
46345649 TTTCTTTT
1 TTTCTTTT
46345657 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:46351453 original size:16 final size:16
Alignment explanation
Indices: 46351429--46351464 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
46351419 ATAGCTGGAC
*
46351429 TTTCTACTTTTCGGCA
1 TTTCAACTTTTCGGCA
*
46351445 TTTCAACTTTTTGGCA
1 TTTCAACTTTTCGGCA
46351461 TTTC
1 TTTC
46351465 GAGATTTGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.22, G:0.11, T:0.53
Consensus pattern (16 bp):
TTTCAACTTTTCGGCA
Found at i:46356485 original size:18 final size:18
Alignment explanation
Indices: 46356445--46356485 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
46356435 CTTGGCCCAT
46356445 TGCAGTAACAGTAAATAG
1 TGCAGTAACAGTAAATAG
*
46356463 AGCAGTAACAGT-AATCAG
1 TGCAGTAACAGTAAAT-AG
46356481 TGCAG
1 TGCAG
46356486 CCAATGAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (18 bp):
TGCAGTAACAGTAAATAG
Found at i:46359323 original size:56 final size:55
Alignment explanation
Indices: 46359207--46359324 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 55
46359197 TGCATGCTTT
* * * *
46359207 CATT-AATGCCGTCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
*
46359261 CTTTAAATGCCGTTCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCTGCA
46359317 CATTAAAT
1 CATTAAAT
46359325 TAGCAAGCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 3 0.05
55 28 0.51
56 24 0.44
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
Found at i:46359973 original size:20 final size:20
Alignment explanation
Indices: 46359948--46360002 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
46359938 ACGAGTTAAA
* *
46359948 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
46359968 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
46359988 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
46360003 TTGAACCACG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:46361323 original size:15 final size:16
Alignment explanation
Indices: 46361284--46361324 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
46361274 AACAACACTC
46361284 CTTTCTTTTTCACTTT
1 CTTTCTTTTTCACTTT
* *
46361300 C-ATCCTTTTCA-TTT
1 CTTTCTTTTTCACTTT
46361314 CTTTCTTTTTC
1 CTTTCTTTTTC
46361325 CAACTCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
14 4 0.20
15 15 0.75
16 1 0.05
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.66
Consensus pattern (16 bp):
CTTTCTTTTTCACTTT
Found at i:46362417 original size:26 final size:27
Alignment explanation
Indices: 46362371--46362433 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 27
46362361 CAATCACTCT
* *
46362371 TTTTTTTTTCAATTTCGA-TTTTTTTC
1 TTTTTTTTTCAATTCCAATTTTTTTTC
46362397 TTTTTTTTT-AATTCCAAATTTTTTTTC
1 TTTTTTTTTCAATTCC-AATTTTTTTTC
46362424 TTCTTTTTTT
1 TT-TTTTTTT
46362434 TCTTCAATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 5 0.16
26 10 0.31
27 10 0.31
28 7 0.22
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.75
Consensus pattern (27 bp):
TTTTTTTTTCAATTCCAATTTTTTTTC
Found at i:46363871 original size:56 final size:55
Alignment explanation
Indices: 46363755--46363872 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 55
46363745 TGCATGCTTT
* * * *
46363755 CATT-AATGCCGTCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
*
46363809 CTTTAAATGCCGTTCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCTGCA
46363865 CATTAAAT
1 CATTAAAT
46363873 CAGCAAGCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 3 0.05
55 28 0.51
56 24 0.44
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCA
Found at i:46364519 original size:20 final size:20
Alignment explanation
Indices: 46364494--46364548 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
46364484 ACGAGTTAAA
* *
46364494 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
46364514 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
46364534 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
46364549 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:46365868 original size:15 final size:16
Alignment explanation
Indices: 46365829--46365869 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
46365819 AACAACACTC
46365829 CTTTCTTTTTCACTTT
1 CTTTCTTTTTCACTTT
* *
46365845 C-ATCCTTTTCA-TTT
1 CTTTCTTTTTCACTTT
46365859 CTTTCTTTTTC
1 CTTTCTTTTTC
46365870 CAACTCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
14 4 0.20
15 15 0.75
16 1 0.05
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.66
Consensus pattern (16 bp):
CTTTCTTTTTCACTTT
Found at i:46366063 original size:17 final size:15
Alignment explanation
Indices: 46366026--46366064 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
46366016 TATCTCCCAC
46366026 TCATCTTCTTTTTCTT
1 TCAT-TTCTTTTTCTT
46366042 TCATTTCTTTTTCATGT
1 TCATTTCTTTTTC-T-T
46366059 TCATTT
1 TCATTT
46366065 TCTCGCTCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.10, C:0.21, G:0.03, T:0.67
Consensus pattern (15 bp):
TCATTTCTTTTTCTT
Found at i:46366949 original size:30 final size:29
Alignment explanation
Indices: 46366911--46366978 Score: 88
Period size: 27 Copynumber: 2.4 Consensus size: 29
46366901 TTTCAGTCAC
*
46366911 TCTTTTTTTTTCAATT-TCGATTTTTTTTT
1 TCTTTTTTTTTCAATTCT-GAATTTTTTTT
46366940 TC-TTTTTTTT-AATTCTGAATTTTTTTT
1 TCTTTTTTTTTCAATTCTGAATTTTTTTT
46366967 TCTTCTTTTTTT
1 TCTT-TTTTTTT
46366979 TCTTCAATAC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
27 16 0.46
28 10 0.29
29 9 0.26
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.76
Consensus pattern (29 bp):
TCTTTTTTTTTCAATTCTGAATTTTTTTT
Found at i:46367042 original size:13 final size:13
Alignment explanation
Indices: 46367024--46367056 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
46367014 GAATACAAAC
46367024 TTTTTTTTCGAA-T
1 TTTTTTTTC-AAGT
46367037 TTTTTTTTCAAGT
1 TTTTTTTTCAAGT
46367050 TTTTTTT
1 TTTTTTT
46367057 ATTTTTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 2 0.11
13 17 0.89
ACGTcount: A:0.12, C:0.06, G:0.06, T:0.76
Consensus pattern (13 bp):
TTTTTTTTCAAGT
Found at i:46379663 original size:22 final size:22
Alignment explanation
Indices: 46379635--46379678 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
46379625 TTTTGAACCA
*
46379635 TTACCATTTCTTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
46379657 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
46379679 AAATACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.36, G:0.02, T:0.36
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:46380213 original size:22 final size:22
Alignment explanation
Indices: 46380183--46380226 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
46380173 TTTGGTATTT
46380183 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
46380205 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
46380227 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:46381678 original size:56 final size:56
Alignment explanation
Indices: 46381573--46381679 Score: 153
Period size: 56 Copynumber: 1.9 Consensus size: 56
46381563 ATTAATTCCG
* * * * *
46381573 TCCATGCATGGTGAATATCTCATTTAATTCATGTTTTGCTTCCCTTTAAATGCCGT
1 TCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCACATTAAATGCCGT
46381629 TCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCACATTAAAT
1 TCCATACATGGTGAACATCTCATTTAATTCATGT-TTTGCTGCACATTAAAT
46381680 CAGCAAGCAG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
55 21 0.47
56 24 0.53
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.40
Consensus pattern (56 bp):
TCCATACATGGTGAACATCTCATTTAATTCATGTTTTGCTGCACATTAAATGCCGT
Found at i:46382328 original size:20 final size:20
Alignment explanation
Indices: 46382303--46382357 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
46382293 ACGAGTTAAA
* *
46382303 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
46382323 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
46382343 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
46382358 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:46383205 original size:26 final size:27
Alignment explanation
Indices: 46383175--46383246 Score: 92
Period size: 26 Copynumber: 2.7 Consensus size: 27
46383165 CCTCACATAG
* *
46383175 GGGCAAAACAGTCAATTTACCATGT-A
1 GGGCAAAACAGTCATTTTACCATATAA
*
46383201 GGGCATAACAGTCATTTTACCATATAA
1 GGGCAAAACAGTCATTTTACCATATAA
* *
46383228 GGGAAAAATAGTCATTTTA
1 GGGCAAAACAGTCATTTTA
46383247 TTAATTTGGG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 22 0.56
27 17 0.44
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (27 bp):
GGGCAAAACAGTCATTTTACCATATAA
Found at i:46386086 original size:43 final size:43
Alignment explanation
Indices: 46386036--46386122 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
46386026 ATTTGTGATT
** *
46386036 TCGATATGTGTTTACGTGTAAGAACC-TGTCTGGGACAGTGGCA
1 TCGATATGTGGCTACATGTAAG-ACCATGTCTGGGACAGTGGCA
*
46386079 TCGATATGTGGCTACATGTAAGACCATGTCTGGGACATTGGCA
1 TCGATATGTGGCTACATGTAAGACCATGTCTGGGACAGTGGCA
46386122 T
1 T
46386123 TGTATGAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 3 0.08
43 36 0.92
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
TCGATATGTGGCTACATGTAAGACCATGTCTGGGACAGTGGCA
Found at i:46397998 original size:15 final size:14
Alignment explanation
Indices: 46397962--46398016 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
46397952 TCTATTGATC
46397962 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
46397976 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
46397990 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
46398005 GAAAGAAAAGAA
1 GAGA-AAAAGAA
46398017 TGAGGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Done.