Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 53 of 198
Found at i:15935392 original size:18 final size:18
Alignment explanation
Indices: 15935369--15935406 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
15935359 ACTGAATGTA
*
15935369 TTGTCCTCGTGTTGGGTT
1 TTGTCCTCGTGTTGAGTT
15935387 TTGTCCTCGTGTTGAGTT
1 TTGTCCTCGTGTTGAGTT
15935405 TT
1 TT
15935407 ATCCCTAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.03, C:0.16, G:0.29, T:0.53
Consensus pattern (18 bp):
TTGTCCTCGTGTTGAGTT
Found at i:15938716 original size:44 final size:47
Alignment explanation
Indices: 15938666--15938755 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 47
15938656 AATTGTATAT
*
15938666 ATTTTTAT-T-TTTTGTAAAT-TGTATATATTTCAAAAT-ATTATAAG
1 ATTTTTATATATTTT-TAAATATATATATATTTCAAAATAATTATAAG
*
15938710 ATTTTTATATATTTTTAATTATATATATATTTCAAAATAATTATAA
1 ATTTTTATATATTTTTAAATATATATATATTTCAAAATAATTATAA
15938756 CCTAAAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
44 8 0.20
45 5 0.12
46 20 0.50
47 7 0.17
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.54
Consensus pattern (47 bp):
ATTTTTATATATTTTTAAATATATATATATTTCAAAATAATTATAAG
Found at i:15944581 original size:15 final size:13
Alignment explanation
Indices: 15944551--15944585 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
15944541 AATGATTTTC
15944551 TTTAGTTTTTTAT
1 TTTAGTTTTTTAT
15944564 TTTAGTTATTTTATT
1 TTTAGTT-TTTTA-T
15944579 TTTAGTT
1 TTTAGTT
15944586 GTACTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 5 0.25
15 8 0.40
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (13 bp):
TTTAGTTTTTTAT
Found at i:15944618 original size:22 final size:22
Alignment explanation
Indices: 15944569--15944654 Score: 84
Period size: 22 Copynumber: 3.6 Consensus size: 22
15944559 TTTATTTTAG
15944569 TTATTTTATTTTTAGTTGTACTT
1 TTATTTTATTTTTAGTTGTA-TT
15944592 TTATTTTATTTGTTAGTTGT-TT
1 TTATTTTATTT-TTAGTTGTATT
* *
15944614 TTATTTTATCTTTCAGACTTATATGCT
1 TTATTTTAT-TTTTAG--TTGTAT--T
15944641 TTATTTTATTTTTA
1 TTATTTTATTTTTA
15944655 TTCTGCATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
22 14 0.26
23 13 0.25
24 11 0.21
25 1 0.02
26 4 0.08
27 10 0.19
ACGTcount: A:0.19, C:0.06, G:0.08, T:0.67
Consensus pattern (22 bp):
TTATTTTATTTTTAGTTGTATT
Found at i:15945943 original size:13 final size:13
Alignment explanation
Indices: 15945925--15945953 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
15945915 TTAGACACTT
15945925 TGAGTGCTTTGAG
1 TGAGTGCTTTGAG
15945938 TGAGTGCTTTGAG
1 TGAGTGCTTTGAG
15945951 TGA
1 TGA
15945954 TCCTTAGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.07, G:0.38, T:0.38
Consensus pattern (13 bp):
TGAGTGCTTTGAG
Found at i:15946925 original size:18 final size:19
Alignment explanation
Indices: 15946902--15946942 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
15946892 TTAAAAATAA
15946902 TTTTTGT-TGTTTTAGATT
1 TTTTTGTATGTTTTAGATT
* *
15946920 TTTTTGTATTTTTTTGATT
1 TTTTTGTATGTTTTAGATT
15946939 TTTT
1 TTTT
15946943 AATCAAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.78
Consensus pattern (19 bp):
TTTTTGTATGTTTTAGATT
Found at i:15947153 original size:20 final size:20
Alignment explanation
Indices: 15947116--15947162 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
15947106 AATATTCTAA
15947116 TAATTTAATGACTATC-AAT
1 TAATTTAATGACTATCAAAT
* * *
15947135 GTAATTTATTGATTTTCAAAT
1 -TAATTTAATGACTATCAAAT
15947156 TAATTTA
1 TAATTTA
15947163 GAAATATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.49
Consensus pattern (20 bp):
TAATTTAATGACTATCAAAT
Found at i:15948258 original size:34 final size:35
Alignment explanation
Indices: 15948214--15948280 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
15948204 CAGTAAAATA
15948214 TTTTCCGTAAAATGATTT-CGGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* * *
15948248 TTTTCTGTAAAATGATTTACTGGAAAGTATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
15948281 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:15948544 original size:23 final size:23
Alignment explanation
Indices: 15948518--15948576 Score: 118
Period size: 23 Copynumber: 2.6 Consensus size: 23
15948508 TGTAATTGTG
15948518 TTAAAAAAACAAGTATTGAATAA
1 TTAAAAAAACAAGTATTGAATAA
15948541 TTAAAAAAACAAGTATTGAATAA
1 TTAAAAAAACAAGTATTGAATAA
15948564 TTAAAAAAACAAG
1 TTAAAAAAACAAG
15948577 AAGAGCACTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.24
Consensus pattern (23 bp):
TTAAAAAAACAAGTATTGAATAA
Found at i:15949689 original size:2 final size:2
Alignment explanation
Indices: 15949677--15949713 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
15949667 NNNNNNNNNN
15949677 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15949714 AGTAATGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15950024 original size:22 final size:21
Alignment explanation
Indices: 15949998--15950042 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
15949988 TACGTTAGCG
15949998 AACAAATATATAAATATAAATA
1 AACAAATATATAAATA-AAATA
* *
15950020 AACAAATATTTATATAAAATA
1 AACAAATATATAAATAAAATA
15950041 AA
1 AA
15950043 TATTTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (21 bp):
AACAAATATATAAATAAAATA
Found at i:15950490 original size:20 final size:20
Alignment explanation
Indices: 15950461--15950507 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
15950451 GAGCCTTTAT
*
15950461 ATCAATTTGAATCAAATCAA
1 ATCAAATTGAATCAAATCAA
* *
15950481 ATCAAATTGATTGAAATCAA
1 ATCAAATTGAATCAAATCAA
*
15950501 ATTAAAT
1 ATCAAAT
15950508 CAAGATATTG
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:0.51, C:0.11, G:0.06, T:0.32
Consensus pattern (20 bp):
ATCAAATTGAATCAAATCAA
Found at i:15956101 original size:66 final size:66
Alignment explanation
Indices: 15955978--15956152 Score: 208
Period size: 66 Copynumber: 2.5 Consensus size: 66
15955968 AATGAGAAAG
* *
15955978 GATCAAGGTGAAAATCCGCAAAGGGCGTTTTGAGTCCTAAAAAATAAAAAGGAAAAAAGAAAAGA
1 GATCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAATAAAAAGGAAAAAAGAAAAGA
15956043 A
66 A
*
15956044 GATCGAGGTGAAAACCCGCAAAGGGCGCTTTGAGT-CTAAAAAATAAATAAAGGAAAAAGAAAAA
1 GATCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAT-AA-AAAGG----A-AAAAA
15956108 GAAAATAGAGA
59 G-AAA-AGA-A
**
15956119 GGCCAAGGTGAAAACCCGCAAAGGGCGCTTTGAG
1 GATCAAGGTGAAAACCCGCAAAGGGCGCTTTGAG
15956153 ACCAAAGGGG
Statistics
Matches: 93, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
65 9 0.10
66 34 0.37
67 5 0.05
71 1 0.01
72 6 0.06
73 3 0.03
74 3 0.03
75 32 0.34
ACGTcount: A:0.47, C:0.13, G:0.26, T:0.14
Consensus pattern (66 bp):
GATCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAATAAAAAGGAAAAAAGAAAAGA
A
Found at i:15956831 original size:14 final size:14
Alignment explanation
Indices: 15956814--15956849 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
15956804 AATGAACAAG
15956814 CAAGCAATGATCAC
1 CAAGCAATGATCAC
15956828 CAAGCAATGATCAC
1 CAAGCAATGATCAC
*
15956842 CAACCAAT
1 CAAGCAAT
15956850 AAGAAGAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.44, C:0.31, G:0.11, T:0.14
Consensus pattern (14 bp):
CAAGCAATGATCAC
Found at i:15957457 original size:45 final size:45
Alignment explanation
Indices: 15957389--15958245 Score: 1129
Period size: 45 Copynumber: 19.0 Consensus size: 45
15957379 GGAGTAGGTT
* * *
15957389 GAAGATAACAGATTTTGTTTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
15957434 GAAGTTAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
15957479 GAAGATAGTAGATCTTGTCTTCCTGTAGTGCCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* ** * *
15957524 GAAGGTAGCAGATCTTGTCTTCCTACATTGGGAGCAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * * * * * *
15957569 GATGATAACAGACCTTCTCTTTCTGTACTAGCAGTGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
15957614 GAAGATAGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGTACATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
15957659 GAAGATAGAAGATCTTGTCGTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
15957704 GAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
15957749 AAAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
15957794 GAAGATAGCAAATATTGTCTTCCTTTACTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
15957839 GAAGATAGCAGATCTTGTCTTCCTATATTTGCAACAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
15957884 GAAGATAGCATATCTTGTCTTCCTGTATTGGCAGGGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * *
15957929 GAAGATAGTAAATCTTATCTTCCTGTACTGGCAACGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
15957974 GAAGATAACAGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * * *
15958019 GAAGATAGTAGATCTTATCTTCCTATACTAGCAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
15958064 GAAGATAGCAGATATTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
15958109 GAAGGTAGCAGATCTTGTCTTTCTGTATTGGCAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
15958154 GAAGATAGTAAATCTTGTCTTCCTGTACTGGCAGCGAAGTAAATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
15958199 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
15958244 GA
1 GA
15958246 CAGAGTACTG
Statistics
Matches: 697, Mismatches: 115, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 697 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
Found at i:15958845 original size:45 final size:45
Alignment explanation
Indices: 15958772--15959805 Score: 1302
Period size: 45 Copynumber: 23.4 Consensus size: 45
15958762 AGTAGGTTGA
* * * *
15958772 AAGATAACAGATTTTGTTTTCCTGTATTGGCAGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
15958817 AAGTTAGCAGATCTTGTCTTCCTTTATTGGCAGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
*
15958862 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAAATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * *
15958907 AACATAGCTGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * * *
15958952 AAGGTAGCAGATCTTGTCTTCCTGTATTGGTAGCAAAGTAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * *
15958997 AAGAAAGCAGATCTTGTATTCCTGTACTGGCAGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * * * *
15959042 AAGAAAGCAGATCTTGTTTTCCTATATTGGCAACAAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * * *
15959087 AAGATAACAGATCTTGTCTTTCTGTACTGGCAGCGAAGTAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * * *
15959132 AAGATAGCAGATCTTGTCTTCCTGTACTAGCAGTGAAGTATATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
15959177 AAGATAGAAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
15959222 ATGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * * * *
15959267 AAGATAACAGATCTTGTCTTTCTGTACTGGTAGCGAAGTAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * * *
15959312 AAGATAGCAGATCTTATATTCCTGTACTGGCAGCAAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * * *
15959357 AAGATAGTAGATCTTGTCTTCTTGTATTGGCAGGGAAATAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * *
15959402 AAGATAGCAGATCTTATCTTCTTGTACT-G--GC-----AG--CG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
15959437 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
15959482 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGGAGTAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * * *
15959527 AAGATAGCAGATGTTGTCTTCCTGTACTGGCAGTGAAGTACATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
*
15959572 AAGATAGAAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
15959617 AAGATAGCAGATCTTGTCTTCCTGTACTGGCAGCGAAGTAGATTG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
15959662 AAGATAGCAGATCTTGTCTTTCTGTACTGGCA-C---------CG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
15959697 AAGATAGCAGA-CATTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
1 AAGATAGCAGATC-TTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
15959742 AAGACAGCAGATCTTGTCTTCATGTATTGGCAGCGAAGTAGAAT-G
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG-ATCG
*
15959787 AAGTTAGCAGATCTTGTCT
1 AAGATAGCAGATCTTGTCT
15959806 CCCTAAGCAG
Statistics
Matches: 856, Mismatches: 110, Indels: 46
0.85 0.11 0.05
Matches are distributed among these distances:
34 1 0.00
35 57 0.07
36 2 0.00
37 2 0.00
38 1 0.00
42 1 0.00
43 2 0.00
44 2 0.00
45 785 0.92
46 3 0.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (45 bp):
AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
Found at i:15959446 original size:35 final size:35
Alignment explanation
Indices: 15959400--15959474 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
15959390 GGAAATAGAT
*
15959400 CGAAGATAGCAGATCTTATCTTCTTGTACTGGCAG
1 CGAAGATAGCAGATCTTATCTTCCTGTACTGGCAG
*
15959435 CGAAGATAGCAGATCTTGTCTTCCTGTACTGGCAG
1 CGAAGATAGCAGATCTTATCTTCCTGTACTGGCAG
*
15959470 TGAAG
1 CGAAG
15959475 TAGATCGAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (35 bp):
CGAAGATAGCAGATCTTATCTTCCTGTACTGGCAG
Found at i:15959707 original size:35 final size:35
Alignment explanation
Indices: 15959661--15959734 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
15959651 GAAGTAGATT
*
15959661 GAAGATAGCAGATC-TTGTCTTTCTGTACTGGCACC
1 GAAGATAGCAGA-CATTGTCTTCCTGTACTGGCACC
* *
15959696 GAAGATAGCAGACATTGTCTTCCTGTATTGGCAGC
1 GAAGATAGCAGACATTGTCTTCCTGTACTGGCACC
15959731 GAAG
1 GAAG
15959735 TAGATCGAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
34 1 0.03
35 34 0.97
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (35 bp):
GAAGATAGCAGACATTGTCTTCCTGTACTGGCACC
Found at i:15959967 original size:44 final size:44
Alignment explanation
Indices: 15959919--15960093 Score: 106
Period size: 44 Copynumber: 4.0 Consensus size: 44
15959909 GAGTAGGTTG
*
15959919 AAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCT
1 AAGATAGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCT
* * * * * * *
15959963 AAGATAGCAAATCCTATCTTCCC-AAGATAGTAG-GGAAGAATATTT
1 AAGATAGTAGATCCTGTC-TCCCTAAG-CAGTAGTGG-AGCAGATCT
** * * * * * * *
15960008 AAGCCACTA-ATCCCT-TCTCCTTGAGCAGGAGTGGAGTAGGTCG
1 AAGATAGTAGAT-CCTGTCTCCCTAAGCAGTAGTGGAGCAGATCT
* * *
15960051 AAGATTGTAGATCCTGTATCCCTAAGTAGTAGTGGAGCAGATC
1 AAGATAGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATC
15960094 GAAGGTAGCG
Statistics
Matches: 91, Mismatches: 32, Indels: 16
0.65 0.23 0.12
Matches are distributed among these distances:
43 19 0.21
44 49 0.54
45 23 0.25
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
AAGATAGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCT
Found at i:15960033 original size:132 final size:132
Alignment explanation
Indices: 15959795--15960113 Score: 444
Period size: 132 Copynumber: 2.4 Consensus size: 132
15959785 TGAAGTTAGC
* * * * *
15959795 AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAAATCTTATTTTCCCAAGGTA
1 AGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAAATCTTATCTTCCCAAGATA
* * *
15959860 GTAGGGAAGCAGATTTAAGCCACCAGTCCTATCACCCTGAGCAGCGA-TGGAGTAGGTTGAAGAT
66 GTAGGGAAGAAGATTTAAGCCACCAATCCTATCACCCTGAGCAG-GAGTGGAGTAGGTCGAAGAT
15959924 TGT
130 TGT
* *
15959927 AGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCTAAGATAGCAAATCCTATCTTCCCAAGATA
1 AGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAAATCTTATCTTCCCAAGATA
* * * *
15959992 GTAGGGAAGAATATTTAAGCCACTAATCCCT-TCTCCTTGAGCAGGAGTGGAGTAGGTCGAAGAT
66 GTAGGGAAGAAGATTTAAGCCACCAAT-CCTATCACCCTGAGCAGGAGTGGAGTAGGTCGAAGAT
15960056 TGT
130 TGT
* * * *
15960059 AGATCCTGTATCCCTAAGTAGTAGTGGAGCAGATCGAAGGTAGCGAATCTTATCT
1 AGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAAATCTTATCT
15960114 CCTTGGCATT
Statistics
Matches: 165, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
131 2 0.01
132 160 0.97
133 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (132 bp):
AGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCAAATCTTATCTTCCCAAGATA
GTAGGGAAGAAGATTTAAGCCACCAATCCTATCACCCTGAGCAGGAGTGGAGTAGGTCGAAGATT
GT
Found at i:15960907 original size:23 final size:23
Alignment explanation
Indices: 15960863--15960907 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
15960853 TATTATTTTG
* *
15960863 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
15960886 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
15960908 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:15961269 original size:36 final size:36
Alignment explanation
Indices: 15961194--15961269 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
15961184 CATACATACG
*
15961194 TTTTATAATATATACATATACGTACACATTTTTTAAT
1 TTTTATAATATATACATATACG-ACACATTTTATAAT
* *
15961231 TTTTATAA-ATATATATATAC-ACATACTTTTATATAT
1 TTTTATAATATATACATATACGACACA-TTTTATA-AT
15961267 TTT
1 TTT
15961270 CTATGTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 4 0.12
35 6 0.18
36 16 0.47
37 8 0.24
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (36 bp):
TTTTATAATATATACATATACGACACATTTTATAAT
Found at i:15961614 original size:3 final size:3
Alignment explanation
Indices: 15961606--15961655 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
15961596 CTTTTCATTC
*
15961606 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15961654 TT
1 TT
15961656 TTTGTTCTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:15963044 original size:30 final size:30
Alignment explanation
Indices: 15963010--15963202 Score: 174
Period size: 30 Copynumber: 6.4 Consensus size: 30
15963000 TTCATCGAAC
* * *
15963010 TATGAAAAGGGATCGATTTGGCTGTCAAAT
1 TATGAAAAGGGATAGATTCGGCTATCAAAT
* **
15963040 TATGAAAAGGGATA-ACTTTGATTATCAAAT
1 TATGAAAAGGGATAGA-TTCGGCTATCAAAT
* * *
15963070 TATGAAAAGGGATAGCTTCAGCTGTCAAAT
1 TATGAAAAGGGATAGATTCGGCTATCAAAT
* *
15963100 TATGAAAAGAGATAGCTTCGGCTATCAAAT
1 TATGAAAAGGGATAGATTCGGCTATCAAAT
* * * * * *
15963130 TATGAAAAGGGAT-GGTGACGACCATCGAAC
1 TATGAAAAGGGATAGAT-TCGGCTATCAAAT
* * *
15963160 TATGAAAAGGGATAGCTTCGGCTGTCGAAT
1 TATGAAAAGGGATAGATTCGGCTATCAAAT
15963190 TATGAAAAGGGAT
1 TATGAAAAGGGAT
15963203 GGTGACGACC
Statistics
Matches: 133, Mismatches: 26, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
29 3 0.02
30 128 0.96
31 2 0.02
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.26
Consensus pattern (30 bp):
TATGAAAAGGGATAGATTCGGCTATCAAAT
Found at i:15963164 original size:60 final size:61
Alignment explanation
Indices: 15963100--15963276 Score: 243
Period size: 60 Copynumber: 2.9 Consensus size: 61
15963090 GCTGTCAAAT
* * *
15963100 TATGAAAAGAGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCGAA-C
1 TATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGGTGACGACCATCGAATA
*
15963160 TATGAAAAGGGATAGCTTCGGCTGTCGAATTATGAAAAGGGATGGTGACGACCATC-AATA
1 TATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGGTGACGACCATCGAATA
* * * * *
15963220 TATGAAAAGGGATAGCTTCGACTTTCGAATCAAGGAAAA-GGATGGTGACAACCATCG
1 TATGAAAAGGGATAGCTTCGGCTATCGAAT-TATGAAAAGGGATGGTGACGACCATCG
15963277 TGGTTTTACT
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
59 2 0.02
60 97 0.92
61 6 0.06
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.22
Consensus pattern (61 bp):
TATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGGTGACGACCATCGAATA
Found at i:15963224 original size:30 final size:30
Alignment explanation
Indices: 15963127--15963232 Score: 126
Period size: 30 Copynumber: 3.5 Consensus size: 30
15963117 TCGGCTATCA
15963127 AATTATGAAAAGGGATGGTGACGACCATCG
1 AATTATGAAAAGGGATGGTGACGACCATCG
* * * * **
15963157 AACTATGAAAAGGGATAGCT-TCGGCTGTCG
1 AATTATGAAAAGGGAT-GGTGACGACCATCG
15963187 AATTATGAAAAGGGATGGTGACGACCATC-
1 AATTATGAAAAGGGATGGTGACGACCATCG
15963216 AATATATGAAAAGGGAT
1 AAT-TATGAAAAGGGAT
15963233 AGCTTCGACT
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
29 5 0.08
30 54 0.89
31 2 0.03
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.22
Consensus pattern (30 bp):
AATTATGAAAAGGGATGGTGACGACCATCG
Found at i:15963248 original size:90 final size:90
Alignment explanation
Indices: 15963034--15963248 Score: 231
Period size: 90 Copynumber: 2.4 Consensus size: 90
15963024 GATTTGGCTG
* * * *
15963034 TCAAATTATGAAAAGGGATAACTTTGA-TTATCAAATTATGAAAAGGGATAGCTTCAGCTGTCAA
1 TCAAATTATGAAAAGGGATAGCTTCGACTT-TCGAACTATGAAAAGGGATAGCTTCAGCTGTCAA
* * *
15963098 ATTATGAAAAGAGATAGCTTCGGCTA
65 ATTATGAAAAGAGATAGCTACGACCA
* * ** * *
15963124 TCAAATTATGAAAAGGGAT-GGTGACGACCATCGAACTATGAAAAGGGATAGCTTCGGCTGTCGA
1 TCAAATTATGAAAAGGGATAGCT-TCGACTTTCGAACTATGAAAAGGGATAGCTTCAGCTGTCAA
* *
15963188 ATTATGAAAAGGGAT-GGTGACGACCA
65 ATTATGAAAAGAGATAGCT-ACGACCA
15963214 TC-AATATATGAAAAGGGATAGCTTCGACTTTCGAA
1 TCAAAT-TATGAAAAGGGATAGCTTCGACTTTCGAA
15963249 TCAAGGAAAA
Statistics
Matches: 101, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
89 6 0.06
90 93 0.92
91 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.26
Consensus pattern (90 bp):
TCAAATTATGAAAAGGGATAGCTTCGACTTTCGAACTATGAAAAGGGATAGCTTCAGCTGTCAAA
TTATGAAAAGAGATAGCTACGACCA
Found at i:15964953 original size:22 final size:23
Alignment explanation
Indices: 15964928--15964973 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
15964918 AAATTAGGAG
15964928 AAAGTTTTG-CCAAGCAAGATTT
1 AAAGTTTTGACCAAGCAAGATTT
15964950 AAAGTTTTGACCAAGCAAGATTT
1 AAAGTTTTGACCAAGCAAGATTT
15964973 A
1 A
15964974 CCTTGCATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.30
Consensus pattern (23 bp):
AAAGTTTTGACCAAGCAAGATTT
Found at i:15965669 original size:19 final size:19
Alignment explanation
Indices: 15965638--15965784 Score: 84
Period size: 21 Copynumber: 7.3 Consensus size: 19
15965628 CTTAATTATA
15965638 CCCTGAATTGTACTTATGTGC
1 CCCTG-ATTGTACTTA-GTGC
* *
15965659 CCCTG-TTGTACTTCAATAC
1 CCCTGATTGTACTT-AGTGC
*
15965678 CCCTGAATTGCACTTACGTGC
1 CCCTG-ATTGTACTTA-GTGC
*
15965699 CCCT-ATTGTACTTCAGTAC
1 CCCTGATTGTACTT-AGTGC
15965718 CCCTGAATT-TCACTTACGTGC
1 CCCTG-ATTGT-ACTTA-GTGC
* * *
15965739 CCCTGTTTGTACTTCAATAC
1 CCCTGATTGTACTT-AGTGC
* *
15965759 CCCTGAATTGCACATACGTGC
1 CCCTG-ATTGTACTTA-GTGC
15965780 CCCTG
1 CCCTG
15965785 TTTACACTCC
Statistics
Matches: 97, Mismatches: 16, Indels: 26
0.70 0.12 0.19
Matches are distributed among these distances:
19 30 0.31
20 19 0.20
21 48 0.49
ACGTcount: A:0.20, C:0.32, G:0.15, T:0.33
Consensus pattern (19 bp):
CCCTGATTGTACTTAGTGC
Found at i:15965683 original size:40 final size:40
Alignment explanation
Indices: 15965638--15965786 Score: 235
Period size: 40 Copynumber: 3.7 Consensus size: 40
15965628 CTTAATTATA
* *
15965638 CCCTGAATTGTACTTATGTGCCCCTGTTGTACTTCAATAC
1 CCCTGAATTGCACTTACGTGCCCCTGTTGTACTTCAATAC
* *
15965678 CCCTGAATTGCACTTACGTGCCCCTATTGTACTTCAGTAC
1 CCCTGAATTGCACTTACGTGCCCCTGTTGTACTTCAATAC
*
15965718 CCCTGAATTTCACTTACGTGCCCCTGTTTGTACTTCAATAC
1 CCCTGAATTGCACTTACGTGCCCCTG-TTGTACTTCAATAC
*
15965759 CCCTGAATTGCACATACGTGCCCCTGTT
1 CCCTGAATTGCACTTACGTGCCCCTGTT
15965787 TACACTCCGG
Statistics
Matches: 99, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 62 0.63
41 37 0.37
ACGTcount: A:0.19, C:0.32, G:0.15, T:0.34
Consensus pattern (40 bp):
CCCTGAATTGCACTTACGTGCCCCTGTTGTACTTCAATAC
Found at i:15967376 original size:35 final size:35
Alignment explanation
Indices: 15967273--15967362 Score: 153
Period size: 35 Copynumber: 2.6 Consensus size: 35
15967263 TATAGTCTAT
15967273 AGGCTCTACGAAGCGACACCATGGAAATGGTTTAC
1 AGGCTCTACGAAGCGACACCATGGAAATGGTTTAC
*
15967308 AGGCTCTACAAAGCGACACCATGGAAATGGTTTAC
1 AGGCTCTACGAAGCGACACCATGGAAATGGTTTAC
* *
15967343 AGGCTCTACGGAGCAACACC
1 AGGCTCTACGAAGCGACACC
15967363 TTAAAAAAGG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.24, T:0.18
Consensus pattern (35 bp):
AGGCTCTACGAAGCGACACCATGGAAATGGTTTAC
Found at i:15968994 original size:15 final size:14
Alignment explanation
Indices: 15968970--15968999 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
15968960 TAATTGTGTT
15968970 ATAAAAAAAAAACA
1 ATAAAAAAAAAACA
15968984 ATAACAAAAAAAACA
1 ATAA-AAAAAAAACA
15968999 A
1 A
15969000 AGATTGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (14 bp):
ATAAAAAAAAAACA
Found at i:15969128 original size:46 final size:46
Alignment explanation
Indices: 15969057--15969148 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 46
15969047 ACAAATTAAT
*
15969057 AATATTATCAAAGTGCATAATTAGTAGTACA-CAACATAATAAGTAC
1 AATATTATCAAAGTGCATAACTAGTAGTACACCAA-ATAATAAGTAC
* * * * *
15969103 AATATTGTCTAAGTGCATTACTAGTATTACACCAAATAATTAGTAC
1 AATATTATCAAAGTGCATAACTAGTAGTACACCAAATAATAAGTAC
15969149 TACACCACAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 36 0.92
47 3 0.08
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (46 bp):
AATATTATCAAAGTGCATAACTAGTAGTACACCAAATAATAAGTAC
Found at i:15969663 original size:30 final size:30
Alignment explanation
Indices: 15969629--15969687 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
15969619 CATCATAATC
15969629 ATCAATGCTTTTCTTTAAAAATGGTTCATG
1 ATCAATGCTTTTCTTTAAAAATGGTTCATG
* *
15969659 ATCAATTCTTTTTTTTAAAAATGGTTCAT
1 ATCAATGCTTTTCTTTAAAAATGGTTCAT
15969688 ACTTCTTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (30 bp):
ATCAATGCTTTTCTTTAAAAATGGTTCATG
Found at i:15970184 original size:21 final size:21
Alignment explanation
Indices: 15970159--15970198 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
15970149 CAAGCTTAAC
15970159 ACAAACTAATTTCAATATCCA
1 ACAAACTAATTTCAATATCCA
15970180 ACAAACTAATTTCAATATC
1 ACAAACTAATTTCAATATC
15970199 AATATCCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (21 bp):
ACAAACTAATTTCAATATCCA
Found at i:15974168 original size:29 final size:29
Alignment explanation
Indices: 15974134--15974196 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
15974124 AAAAATGTCA
*
15974134 ATTTTT-AAAAATAATTAGGGAATTAGGCC-
1 ATTTTTCAAAAAT--TTAGGGAAATAGGCCG
*
15974163 ATTTTTCCAAAATTTAGGGAAATAGGCCG
1 ATTTTTCAAAAATTTAGGGAAATAGGCCG
15974192 ATTTT
1 ATTTT
15974197 GGAGAAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 14 0.47
29 11 0.37
30 5 0.17
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (29 bp):
ATTTTTCAAAAATTTAGGGAAATAGGCCG
Found at i:15979500 original size:18 final size:18
Alignment explanation
Indices: 15979477--15979512 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15979467 CTATGGCATC
15979477 TTTGAAATAATAATAAAA
1 TTTGAAATAATAATAAAA
* *
15979495 TTTGAATTAATCATAAAA
1 TTTGAAATAATAATAAAA
15979513 CAGCAGGACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.36
Consensus pattern (18 bp):
TTTGAAATAATAATAAAA
Found at i:15980466 original size:13 final size:13
Alignment explanation
Indices: 15980448--15980477 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15980438 ATTATTTACC
*
15980448 AAAATAATACAAA
1 AAAATAAAACAAA
15980461 AAAATAAAACAAA
1 AAAATAAAACAAA
15980474 AAAA
1 AAAA
15980478 AGGTTGCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (13 bp):
AAAATAAAACAAA
Found at i:15980651 original size:10 final size:10
Alignment explanation
Indices: 15980636--15980757 Score: 87
Period size: 10 Copynumber: 12.3 Consensus size: 10
15980626 GAAGGAGAGG
15980636 GAAAGAAGAA
1 GAAAGAAGAA
15980646 GAAAG-A-AA
1 GAAAGAAGAA
*
15980654 GAAAGAAAAA
1 GAAAGAAGAA
15980664 GAAAGAA-AA
1 GAAAGAAGAA
*
15980673 GGAAAGGAGAGGA
1 -GAAA-GA-AGAA
**
15980686 GAGGGAAGAAA
1 GAAAGAAG-AA
15980697 GAAA-AAGAA
1 GAAAGAAGAA
*
15980706 GGAAAGAAAAA
1 -GAAAGAAGAA
*
15980717 GAAAGGAGAA
1 GAAAGAAGAA
15980727 GAAA-AA-AA
1 GAAAGAAGAA
15980735 GAAAGAAAGAA
1 GAAAG-AAGAA
15980746 G-AAGAAGAA
1 GAAAGAAGAA
15980755 GAA
1 GAA
15980758 GAGGGAAGGA
Statistics
Matches: 89, Mismatches: 10, Indels: 26
0.71 0.08 0.21
Matches are distributed among these distances:
8 13 0.15
9 13 0.15
10 45 0.51
11 14 0.16
12 3 0.03
13 1 0.01
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:15980653 original size:4 final size:4
Alignment explanation
Indices: 15980636--15980745 Score: 56
Period size: 4 Copynumber: 27.8 Consensus size: 4
15980626 GAAGGAGAGG
*
15980636 GAAA G-AA G-AA GAAA GAAA GAAA G-AA -AAA GAAA GAAAA GGAAA GGAGAG
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA -GA-AA
* * *
15980684 GAGAG GGAA GAAA G-AA -AAA GAAG GAAA G-AA -AAA GAAA GGAGAA GAAA
1 GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA
*
15980731 AAAA GAAA GAAA GAA
1 GAAA GAAA GAAA GAA
15980746 GAAGAAGAAG
Statistics
Matches: 86, Mismatches: 8, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
3 18 0.21
4 45 0.52
5 19 0.22
6 4 0.05
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:15980695 original size:43 final size:42
Alignment explanation
Indices: 15980639--15980759 Score: 122
Period size: 43 Copynumber: 2.9 Consensus size: 42
15980629 GGAGAGGGAA
* *
15980639 AGAAG-AAGAAAGAAAGAAAGAAAAAGAAAGAAAAGGAAAGG
1 AGAAGAAAAAAAGAAAGAAAGAAAAAGAAAGAAAAAGAAAGG
* *** *
15980680 AGAGGAGAGGGAAGAAAGAAA-AAGAAGGAAAGAAAAAGAAAGG
1 AGAAGA-AAAAAAGAAAGAAAGAA-AAAGAAAGAAAAAGAAAGG
* *
15980723 AGAAGAAAAAAAGAAAGAAAGAAGAAG-AAGAAGAAGA
1 AGAAGAAAAAAAGAAAGAAAGAAAAAGAAAGAAAAAGA
15980760 GGGAAGGAAG
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
41 13 0.20
42 15 0.23
43 36 0.56
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (42 bp):
AGAAGAAAAAAAGAAAGAAAGAAAAAGAAAGAAAAAGAAAGG
Found at i:15980737 original size:32 final size:31
Alignment explanation
Indices: 15980690--15980759 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 31
15980680 AGAGGAGAGG
* *
15980690 GAAGAA-AGAAAAAGAAGGAAAGAAAAAGAAA
1 GAAGAAGAAAAAAAGAAAGAAAGAAAAAG-AA
* *
15980721 GGAGAAGAAAAAAAGAAAGAAAGAAGAAGAA
1 GAAGAAGAAAAAAAGAAAGAAAGAAAAAGAA
15980752 GAAGAAGA
1 GAAGAAGA
15980760 GGGAAGGAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
31 14 0.42
32 19 0.58
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (31 bp):
GAAGAAGAAAAAAAGAAAGAAAGAAAAAGAA
Found at i:15981473 original size:159 final size:152
Alignment explanation
Indices: 15981124--15981909 Score: 785
Period size: 159 Copynumber: 5.0 Consensus size: 152
15981114 AAAATGTTAT
* *
15981124 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
1 ATTTAAAAATCACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATAA
* * *
15981189 AATTAAAAATTCTGATA-TTTTTTAAAGTAATAAAATGC-AGAGAAAAAATACGAACAAATGGCC
66 AATTAGAAATTAT-ATATTTTTTTAAAGTAATAAAATGCGGGA-AAAAAATACGAACAAATGGCC
* * *
15981252 GAAGTAAGAGTGTTTTACTAAATT
129 GAAATAAGAGTCTTTTACTAAATA
* * * * *
15981276 TTTTAAAAATTCAGA-AACAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAAA
1 ATTTAAAAA-TCACACTA-AATTAAT---AA-ATTTCAAACATAATGTACTGAAATAATGTAAAA
* * * *
15981340 TAATAAAA-TACGAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATACGAGCA
60 TAATAAAATTA-GAAATTATATATTTTT-TT-AAAGTAATAAAATGCGGGAAAAAAATACGAACA
** *
15981404 AATGGCAAAAATAAGGATTTCTTTTACACTAAATGA
122 AATGGCCGAAATAA-GA-GTCTTTT--ACTAAAT-A
* * *
15981440 ATTTAAAAATCACACTAAATTAATAAATTTCAAACATAATGCATTGAAATAATGTAAAATTATAA
1 ATTTAAAAATCACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATAA
*
15981505 AATTAGAAATTAT-TATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGCC
66 AATTAGAAATTATATAT-TTTTTTAAAGTAATAAAATGCGG-GAAAAAAATACGAACAAATGGCC
* *
15981569 GAAGTAAGAGTCTTTTACTAAATT
129 GAAATAAGAGTCTTTTACTAAATA
* * * * * *
15981593 TTTTAAAAATTCAGA-AATAATGAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAAA
1 ATTTAAAAA-TCACACTA-AATTAAT---AA-ATTTCAAACATAATGTACTGAAATAATGTAAAA
* * * * *
15981657 TAATAAAA-TACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATATGAGC
60 TAATAAAATTA-G-AAATTATATATTTTT-TT-AAAGTAATAAAATGCGGGAAAAAAATACGAAC
* * * * *
15981721 AAAGGGCGGGAATAAGGGTTTTTTTACACTAAATTA
121 AAATGGCCGAAATAAGAG-TCTTTT--ACTAAA-TA
* * * * *
15981757 ATTCAAAAAACACACTAAATTAATAAATTTCAAACATAATGCATTGAAATAATGTAAAATTATAA
1 ATTTAAAAATCACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATAA
15981822 AATTAGAAATTATGATATTTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCC
66 AATTAGAAATTAT-ATATTTTTTTAAAGTAATAAAATGCGG-GAAAAAAATACGAACAAATGGCC
*
15981887 GAAGTAAGAGTCTTTTACTAAAT
129 GAAATAAGAGTCTTTTACTAAAT
15981910 TTTTCAAAAA
Statistics
Matches: 515, Mismatches: 80, Indels: 76
0.77 0.12 0.11
Matches are distributed among these distances:
152 9 0.02
153 19 0.04
154 18 0.03
155 6 0.01
156 13 0.03
157 90 0.17
158 101 0.20
159 139 0.27
160 43 0.08
161 26 0.05
163 33 0.06
164 18 0.03
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (152 bp):
ATTTAAAAATCACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATAA
AATTAGAAATTATATATTTTTTTAAAGTAATAAAATGCGGGAAAAAAATACGAACAAATGGCCGA
AATAAGAGTCTTTTACTAAATA
Found at i:15981669 original size:317 final size:317
Alignment explanation
Indices: 15981124--15981931 Score: 1386
Period size: 317 Copynumber: 2.5 Consensus size: 317
15981114 AAAATGTTAT
* * * *
15981124 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
1 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCATTGAAATAATGTAAAATTATAA
* * *
15981189 AATTAAAAATTCTGATATTTTTTAAAGTAATAAAATGCAGAG-AAAAAATACGAACAAATGGCCG
66 AATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCG
* * *
15981253 AAGTAAGAGTGTTTTACTAAATTTTTTAAAAATTCAGAAACAATTAATACAAATATTTCAAACAA
131 AAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATGAATACAAATATTTCAAACAA
15981318 AATGTACTGAAATAATATAAAATAATAAAATACG-AAATAATATATTTTTATTGAAAGTAATAAA
196 AATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAA
*
15981382 ATTCGGGAAAATAATACGAGCAAATGGCAAAAATAAGGATTTCTTTTACACTAAATGA
261 ATTCGGGAAAATAATACGAGCAAAGGGCAAAAATAAGGATTT-TTTTACACTAAATGA
*
15981440 ATTTAAAAATCACACTAAATTAATAAATTTCAAACATAATGCATTGAAATAATGTAAAATTATAA
1 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCATTGAAATAATGTAAAATTATAA
* *
15981505 AATTAGAAATTATTATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAGGGCCG
66 AATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCG
15981570 AAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATGAATACAAATATTTCAAACAA
131 AAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATGAATACAAATATTTCAAACAA
15981635 AATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAA
196 AATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAA
* *** * *
15981700 ATTCGGGAAAATAATATGAGCAAAGGGCGGGAATAAGGGTTTTTTTACACTAAATTA
261 ATTCGGGAAAATAATACGAGCAAAGGGCAAAAATAAGGATTTTTTTACACTAAATGA
*
15981757 ATTCAAAAAACACACTAAATTAATAAATTTCAAACATAATGCATTGAAATAATGTAAAATTATAA
1 ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCATTGAAATAATGTAAAATTATAA
15981822 AATTAGAAATTATGATATTTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCC
66 AATTAGAAATTATGATA-TTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCC
*
15981887 GAAGTAAGAGTCTTTTACTAAATTTTTCAAAAATTCAGAAATAAT
130 GAAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAAT
15981932 TTTTAAAAAT
Statistics
Matches: 464, Mismatches: 25, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
316 98 0.21
317 210 0.45
318 156 0.34
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (317 bp):
ATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCATTGAAATAATGTAAAATTATAA
AATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCG
AAGTAAGAGTCTTTTACTAAATTTTTTAAAAATTCAGAAATAATGAATACAAATATTTCAAACAA
AATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAA
ATTCGGGAAAATAATACGAGCAAAGGGCAAAAATAAGGATTTTTTTACACTAAATGA
Found at i:15981939 original size:21 final size:22
Alignment explanation
Indices: 15981907--15981952 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
15981897 TCTTTTACTA
15981907 AATTTTTCAAAAATTCAGAAAT
1 AATTTTTCAAAAATTCAGAAAT
15981929 AATTTTT-AAAAATTCAGAAAT
1 AATTTTTCAAAAATTCAGAAAT
15981950 AAT
1 AAT
15981953 ATATTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (22 bp):
AATTTTTCAAAAATTCAGAAAT
Found at i:15981997 original size:119 final size:117
Alignment explanation
Indices: 15981820--15982032 Score: 313
Period size: 119 Copynumber: 1.8 Consensus size: 117
15981810 GTAAAATTAT
*
15981820 AAAATTAGAAATTATGATATTTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGG
1 AAAATTAGAAATAATGATATTTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGG
*
15981885 CCGAAGTAAGAGTCTTTTACTAAATTTTTCAAAAATTCAGAAATAATTTTTA
66 CCGAAATAAGAGTCTTTTACTAAATTTTTCAAAAATTCAGAAATAATTTTTA
*
15981937 AAAATTCAGAAATAAT-ATATTTTTATTGAAAGTAATAAAATTCAGGA-AAAAAAATACGAACAA
1 AAAATT-AGAAATAATGATATTTTT-TT-AAAGTAATAAAATGC-GGAGAAAAAAATACGAACAA
* * * *
15982000 GTGGCCGAAATAAGGGTTTTTTACTAATTTTTT
62 ATGGCCGAAATAAGAGTCTTTTACTAAATTTTT
15982033 TTAGAAAAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
117 14 0.16
118 10 0.12
119 58 0.68
120 3 0.04
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (117 bp):
AAAATTAGAAATAATGATATTTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGG
CCGAAATAAGAGTCTTTTACTAAATTTTTCAAAAATTCAGAAATAATTTTTA
Found at i:15987413 original size:54 final size:56
Alignment explanation
Indices: 15987312--15987418 Score: 157
Period size: 54 Copynumber: 1.9 Consensus size: 56
15987302 CCACTAATCT
15987312 TAATAACTAACACAATAACAATAATAATAGTTTTATACTCAAAATAATACTAAAAA
1 TAATAACTAACACAATAACAATAATAATAGTTTTATACTCAAAATAATACTAAAAA
* * *
15987368 TAATAACTAAC-C-ATAATAATAATATTAGTTTTTTACT-AACAATAATACTAA
1 TAATAACTAACACAATAACAATAATAATAGTTTTATACTCAA-AATAATACTAA
15987419 GTAACATCTA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
53 2 0.04
54 33 0.70
55 1 0.02
56 11 0.23
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (56 bp):
TAATAACTAACACAATAACAATAATAATAGTTTTATACTCAAAATAATACTAAAAA
Found at i:16008940 original size:39 final size:43
Alignment explanation
Indices: 16008877--16008959 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 43
16008867 CCGAATATAA
*
16008877 TAAATATATTTTTATTTTTA-TTTTTTAATTTTAAAATACTTT
1 TAAATATATTTTTATTTTTATTTTTTTAATTTTAAAATAATTT
*
16008919 TAAA-ATA-TTTT-TTTTTATTTTTTTATTTTTAAAATAATTT
1 TAAATATATTTTTATTTTTATTTTTTTAATTTTAAAATAATTT
16008959 T
1 T
16008960 TTAATGTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
39 6 0.16
40 25 0.66
41 3 0.08
42 4 0.11
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (43 bp):
TAAATATATTTTTATTTTTATTTTTTTAATTTTAAAATAATTT
Found at i:16020066 original size:21 final size:21
Alignment explanation
Indices: 16020040--16020081 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16020030 CTAGCAGGAC
* *
16020040 AGCTGATGTGGCAAGTTAACT
1 AGCTGATATGACAAGTTAACT
*
16020061 AGCTGATATGACCAGTTAACT
1 AGCTGATATGACAAGTTAACT
16020082 TGCCACGTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (21 bp):
AGCTGATATGACAAGTTAACT
Found at i:16025644 original size:15 final size:15
Alignment explanation
Indices: 16025624--16025656 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
16025614 TAGATCAAAT
16025624 TATCATTTATAATTG
1 TATCATTTATAATTG
16025639 TATCATTTATAATTG
1 TATCATTTATAATTG
16025654 TAT
1 TAT
16025657 ATATATGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (15 bp):
TATCATTTATAATTG
Found at i:16026878 original size:6 final size:6
Alignment explanation
Indices: 16026861--16026924 Score: 83
Period size: 6 Copynumber: 10.7 Consensus size: 6
16026851 CGAAATGGAG
* * * *
16026861 AAATGG AAATGA AAATGA AGATGA AAATGA AGATGA AAATGA AGATGA
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA
*
16026909 AAATGA AGATGA AAAT
1 AAATGA AAATGA AAAT
16026925 TTGCAATCCT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.59, C:0.00, G:0.23, T:0.17
Consensus pattern (6 bp):
AAATGA
Found at i:16026884 original size:12 final size:12
Alignment explanation
Indices: 16026869--16026924 Score: 112
Period size: 12 Copynumber: 4.7 Consensus size: 12
16026859 AGAAATGGAA
16026869 ATGAAAATGAAG
1 ATGAAAATGAAG
16026881 ATGAAAATGAAG
1 ATGAAAATGAAG
16026893 ATGAAAATGAAG
1 ATGAAAATGAAG
16026905 ATGAAAATGAAG
1 ATGAAAATGAAG
16026917 ATGAAAAT
1 ATGAAAAT
16026925 TTGCAATCCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 44 1.00
ACGTcount: A:0.59, C:0.00, G:0.23, T:0.18
Consensus pattern (12 bp):
ATGAAAATGAAG
Found at i:16026896 original size:24 final size:24
Alignment explanation
Indices: 16026861--16026924 Score: 112
Period size: 24 Copynumber: 2.7 Consensus size: 24
16026851 CGAAATGGAG
16026861 AAATGGAA-ATGAAAATGAAGATGA
1 AAAT-GAAGATGAAAATGAAGATGA
16026885 AAATGAAGATGAAAATGAAGATGA
1 AAATGAAGATGAAAATGAAGATGA
16026909 AAATGAAGATGAAAAT
1 AAATGAAGATGAAAAT
16026925 TTGCAATCCT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
23 3 0.08
24 36 0.92
ACGTcount: A:0.59, C:0.00, G:0.23, T:0.17
Consensus pattern (24 bp):
AAATGAAGATGAAAATGAAGATGA
Found at i:16027103 original size:26 final size:26
Alignment explanation
Indices: 16027067--16027128 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
16027057 ATATTTTCTT
* *
16027067 AAAATTTTACCAGGGAT-AAATTCGTC
1 AAAATTTTACCAAGAATAAAATT-GTC
16027093 AAAATTTTACCAAGAATAAAATTGTC
1 AAAATTTTACCAAGAATAAAATTGTC
16027119 AAAATTTTAC
1 AAAATTTTAC
16027129 TAAGGGTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 28 0.85
27 5 0.15
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (26 bp):
AAAATTTTACCAAGAATAAAATTGTC
Found at i:16027138 original size:26 final size:26
Alignment explanation
Indices: 16027067--16027140 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 26
16027057 ATATTTTCTT
*
16027067 AAAATTTTACCAGGG-ATAAATTCGTC
1 AAAATTTTACAAGGGTA-AAATTCGTC
**
16027093 AAAATTTTACCAAGAATAAAATT-GTC
1 AAAATTTTA-CAAGGGTAAAATTCGTC
16027119 AAAATTTTACTAAGGGTAAAAT
1 AAAATTTTAC-AAGGGTAAAAT
16027141 AGGAATGAGA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 1 0.03
26 30 0.75
27 8 0.20
28 1 0.03
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (26 bp):
AAAATTTTACAAGGGTAAAATTCGTC
Found at i:16035979 original size:17 final size:18
Alignment explanation
Indices: 16035951--16035988 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
16035941 TACATTTGGT
16035951 ATTGTATGAATTAAATTA
1 ATTGTATGAATTAAATTA
*
16035969 ATTGT-TGAATTAATTTA
1 ATTGTATGAATTAAATTA
16035986 ATT
1 ATT
16035989 TGATAGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (18 bp):
ATTGTATGAATTAAATTA
Found at i:16042398 original size:75 final size:75
Alignment explanation
Indices: 16042307--16042455 Score: 239
Period size: 75 Copynumber: 2.0 Consensus size: 75
16042297 ATGGAAATTA
*
16042307 ATATTCTTTTGGAAAGAATACAA-TACCTTTTTCTAACTTTTCATTTGCCTTC-TCTATTAATAA
1 ATATTCTTTTGGAAAGAATACAATTA-CTTTTTCTAACTTTCCATTTGCCTTCAT-TATTAATAA
16042370 GGGAATAATCCT
64 GGGAATAATCCT
* *
16042382 ATATTCTTTTTGAAAGAATATAATTACTTTTTCTAACTTTCCATTTGCCTTCATTATTAATAAGG
1 ATATTCTTTTGGAAAGAATACAATTACTTTTTCTAACTTTCCATTTGCCTTCATTATTAATAAGG
16042447 GAATAATCC
66 GAATAATCC
16042456 AAGTTTTCCT
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
75 66 0.96
76 3 0.04
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.44
Consensus pattern (75 bp):
ATATTCTTTTGGAAAGAATACAATTACTTTTTCTAACTTTCCATTTGCCTTCATTATTAATAAGG
GAATAATCCT
Found at i:16067971 original size:29 final size:29
Alignment explanation
Indices: 16067915--16068014 Score: 119
Period size: 30 Copynumber: 3.4 Consensus size: 29
16067905 AAAATTTACT
* *
16067915 AATTATATTTTGGCCCCTAATTTTTTCTAA
1 AATTACATTTTGG-CCCTAACTTTTTCTAA
16067945 AATTACATTTTGGCCCTAACTTTTTCTAA
1 AATTACATTTTGGCCCTAACTTTTTCTAA
** * * *
16067974 AATTACATTTTAACACTTAACTTCTCCTAA
1 AATTACATTTTGGC-CCTAACTTTTTCTAA
16068004 AATTACATTTT
1 AATTACATTTT
16068015 TTACCTCTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
29 27 0.44
30 35 0.56
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (29 bp):
AATTACATTTTGGCCCTAACTTTTTCTAA
Found at i:16068507 original size:24 final size:24
Alignment explanation
Indices: 16068467--16068535 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 24
16068457 CCTTGATTTG
*
16068467 AAGAAGAGAAATG-AGAAAAGAAAA
1 AAGAGGAGAAA-GAAGAAAAGAAAA
*
16068491 AAGAGGAGAAAGAAG-AAAGAAGA
1 AAGAGGAGAAAGAAGAAAAGAAAA
* *
16068514 GAGAAGGAGAAGAGAAAAAAAG
1 AAG-AGGAGAA-AGAAGAAAAG
16068536 GAAAGCGCTG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
23 10 0.27
24 19 0.51
25 4 0.11
26 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (24 bp):
AAGAGGAGAAAGAAGAAAAGAAAA
Found at i:16068645 original size:20 final size:17
Alignment explanation
Indices: 16068608--16068644 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
16068598 CGAGAGAAGG
16068608 AGAAGAAAAAGAAAGAA
1 AGAAGAAAAAGAAAGAA
16068625 AGAAGAAAAAGAAA-AA
1 AGAAGAAAAAGAAAGAA
16068641 AGAA
1 AGAA
16068645 AATAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
AGAAGAAAAAGAAAGAA
Found at i:16068651 original size:17 final size:17
Alignment explanation
Indices: 16068608--16068651 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
16068598 CGAGAGAAGG
*
16068608 AGAAGAAAAAGAAAGAA
1 AGAAAAAAAAGAAAGAA
*
16068625 AGAAGAAAAAGAAA-AA
1 AGAAAAAAAAGAAAGAA
16068641 AGAAAATAAAA
1 AGAAAA-AAAA
16068652 ATAGTCGGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (17 bp):
AGAAAAAAAAGAAAGAA
Found at i:16074300 original size:18 final size:18
Alignment explanation
Indices: 16074279--16074316 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
16074269 ATGAAAAGAT
*
16074279 AATTAATTTTTTGTGCAG
1 AATTAATTTTTCGTGCAG
16074297 AATTAATTTTTCGTGCAG
1 AATTAATTTTTCGTGCAG
16074315 AA
1 AA
16074317 AGGTCGAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (18 bp):
AATTAATTTTTCGTGCAG
Found at i:16075616 original size:18 final size:17
Alignment explanation
Indices: 16075590--16075658 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 17
16075580 GCAATAAAAA
*
16075590 AACGTTTTGAAATTGAAT
1 AACGATTTGAAA-TGAAT
16075608 AACGATTTGTAAATGAAT
1 AACGATTTG-AAATGAAT
* * *
16075626 AATGTTTTGGAAATGAACG
1 AACGATTT-GAAATGAA-T
16075645 ACACGATTTGAAAT
1 A-ACGATTTGAAAT
16075659 TAACATAAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
18 26 0.63
19 10 0.24
20 5 0.12
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (17 bp):
AACGATTTGAAATGAAT
Found at i:16081296 original size:74 final size:74
Alignment explanation
Indices: 16081021--16082481 Score: 1693
Period size: 74 Copynumber: 19.6 Consensus size: 74
16081011 TCCATTCTTT
* * *
16081021 TTTCTGTTTTTCAAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCGCATGCCG
1 TTTC-GTTTTTC--AAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCG
16081086 AGGTATTTTCAA
63 AGGTATTTTCAA
** * * *
16081098 TTTTATTTTTCAAAAAAATCAACTCATAA-TCTGATAGGTGACTTGAGCCTCGGGTCGCACACCG
1 TTTCGTTTTTC--AAAAATCAACTCATAATTC-GAGAGGTGAGTTGAGCCTCGGGTCGCACGCCG
16081162 AGGTATTCTT-AA
63 AGGTATT-TTCAA
** * * * * * *
16081174 TTTTTTTTTTAAAAAAATCAACGCATAATCCGAGAGGTGAGTTGAGCCTTGGGCCGCACGCCAAG
1 TTTCGTTTTT-CAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
16081239 GTATTTTCAA
65 GTATTTTCAA
16081249 TTTCGTTTTTCAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGG
1 TTTCGTTTTTCAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGG
*
16081314 TATTCTCAA
66 TATTTTCAA
* * * *
16081323 TTTCGTTTTTCAAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGTCGTACACCGA
1 TTTCGTTTTTC--AAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGA
16081388 GGTATTTTCAA
64 GGTATTTTCAA
* * * *
16081399 TTTCATTTTTCAAAAATCAACTCATAA-TCTGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAG
1 TTTCGTTTTTCAAAAATCAACTCATAATTC-GAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
16081463 GTATTTTCAA
65 GTATTTTCAA
* * * * * *
16081473 TTTTC-TTTTTTAAAAATCAACTCATAA-TCTGAGAGGTAAGTTAAGCATCGGGTCGTATGCCGA
1 -TTTCGTTTTTCAAAAATCAACTCATAATTC-GAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGA
16081536 GGTATTTTCAA
64 GGTATTTTCAA
** * * * * *
16081547 TTTTATTTTTCAAAAACCAACTCATAA-TCTGAAAGGTGAGTTGAGCCTTGGGTCGCATGCTGAG
1 TTTCGTTTTTCAAAAATCAACTCATAATTC-GAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
16081611 GTATTTTCAA
65 GTATTTTCAA
* * * * *** *
16081621 TTTCGTTTTTCAAAAATCAACTCATAATCCGAGAGCTAAATTGATATTTGGGTCGCACGCCGAGG
1 TTTCGTTTTTCAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGG
16081686 TATTTTCAA
66 TATTTTCAA
* * * *
16081695 TTTTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGATCCTCGGGTCGCACGCTGAGG
1 TTTCGTTTTTCAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGG
16081760 TATTTTCAA
66 TATTTTCAA
* * * * *
16081769 TTTCTTTTTTCAAAATTCAACTCATAA-TCTGAGAGGTGAGTTGAGCCCCGAGTCGCACGCTGAG
1 TTTCGTTTTTCAAAAATCAACTCATAATTC-GAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
16081833 GTATTTTCAA
65 GTATTTTCAA
* *
16081843 TTT--TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGG
1 TTTCGTTTTTCAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGG
16081906 TATTTTCAA
66 TATTTTCAA
* * * * * * * * **
16081915 TTCCCTTTTTCAAAATTCAACTCATAATCCGAAAGGTGAGTTAAGCCTCGAGTCGAACGCTAAGG
1 TTTCGTTTTTCAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGG
*
16081980 TATTTTCAG
66 TATTTTCAA
* * * * * *
16081989 TTTTGTTATTCAAAAATCAACTTATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGA
1 TTTCGTTTTTCAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGG
16082054 TATTTTCAA
66 TATTTTCAA
* * * * *
16082063 TTTCTTTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTTGCACGTCAAG
1 TTTC-GTTTTTCAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
16082128 GTATTTTCAA
65 GTATTTTCAA
* ** * ** * **
16082138 TTTCATTTTTCAAAGTTTAACTCATAATTTTAGAGGTGAGTTGAGCCTCCGGTCGCACGTTGAGG
1 TTTCGTTTTTCAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGG
*
16082203 TATTTTTAA
66 TATTTTCAA
* * *
16082212 TTTCGTTTTTCAAAAATCAACTCATAA-TCTAAGAGGTGAGTTGAGCTTCGGGTCGCACACCGAG
1 TTTCGTTTTTCAAAAATCAACTCATAATTC-GAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
16082276 GTATTTTCAA
65 GTATTTTCAA
* * **
16082286 TTAT-GTTTTTCAAAAATCAACTCATAATTTGAGAGGTGAGTTGAGCCTCGGGTCGCATGTTGAG
1 TT-TCGTTTTTCAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
16082350 GTATTTTCAA
65 GTATTTTCAA
* * * ** * *
16082360 TTTTGTTTTTCAAAAATCAACTAATAATTCGAGAGGCGAGTTGAGCCTCGATTTGCACGTCGAGG
1 TTTCGTTTTTCAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGG
16082425 TATTTTCAA
66 TATTTTCAA
* * * * *
16082434 TTTCTATTTTTTCAAATATCAACTCATAATCCAAGAGGTAAGTTGAGC
1 TTTC--GTTTTTCAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGC
16082482 TTCAGGTTAC
Statistics
Matches: 1196, Mismatches: 166, Indels: 45
0.85 0.12 0.03
Matches are distributed among these distances:
72 65 0.05
73 8 0.01
74 813 0.68
75 132 0.11
76 173 0.14
77 5 0.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (74 bp):
TTTCGTTTTTCAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAGG
TATTTTCAA
Found at i:16083141 original size:30 final size:29
Alignment explanation
Indices: 16083059--16083158 Score: 137
Period size: 29 Copynumber: 3.4 Consensus size: 29
16083049 TACTAACTAC
* *
16083059 ATTTTGGCCCTAACTTTTTCTAAAATTAC
1 ATTTTGACCCTAACTTTTTCTAAAATTAT
*
16083088 ATTTTGGCCCTAACTTTTTCTAAAATTAT
1 ATTTTGACCCTAACTTTTTCTAAAATTAT
** *
16083117 ATTTTGACCCTAAACTTTCCCTAAAATTGT
1 ATTTTGACCCT-AACTTTTTCTAAAATTAT
16083147 ATTTTGACCCTA
1 ATTTTGACCCTA
16083159 GAAATTTTGC
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
29 39 0.60
30 26 0.40
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (29 bp):
ATTTTGACCCTAACTTTTTCTAAAATTAT
Found at i:16083612 original size:15 final size:15
Alignment explanation
Indices: 16083559--16083613 Score: 65
Period size: 15 Copynumber: 3.4 Consensus size: 15
16083549 TAAAGAAGAG
16083559 AAAGGAGAAAAGAAA
1 AAAGGAGAAAAGAAA
*
16083574 AAAGAAGAGAAAGAAGA
1 AAAGGAGA-AAAGAA-A
16083591 GAGAAGGAGAAAAGAAA
1 -A-AAGGAGAAAAGAAA
16083608 AAAGGA
1 AAAGGA
16083614 AAGCGCCGGC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
15 12 0.35
16 7 0.21
17 2 0.06
18 7 0.21
19 6 0.18
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (15 bp):
AAAGGAGAAAAGAAA
Found at i:16083705 original size:9 final size:9
Alignment explanation
Indices: 16083693--16083737 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
16083683 AGAGAAGGAG
16083693 AAGAAAAAA
1 AAGAAAAAA
*
16083702 AAGAAAAAG
1 AAGAAAAAA
*
16083711 AAGGAAAAA
1 AAGAAAAAA
16083720 AAGAAAGAAA
1 AAGAAA-AAA
16083730 AAGAAAAA
1 AAGAAAAA
16083738 TATAAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
9 22 0.71
10 9 0.29
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:16083726 original size:22 final size:24
Alignment explanation
Indices: 16083685--16083734 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 24
16083675 TGGAGTCGAG
16083685 AGAAGGAGAAGAAAAAAAAGAAAA
1 AGAAGGAGAAGAAAAAAAAGAAAA
*
16083709 AGAAGGA-AA-AAAAGAAAGAAAA
1 AGAAGGAGAAGAAAAAAAAGAAAA
16083731 AGAA
1 AGAA
16083735 AAATATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 16 0.64
23 2 0.08
24 7 0.28
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (24 bp):
AGAAGGAGAAGAAAAAAAAGAAAA
Found at i:16083833 original size:14 final size:14
Alignment explanation
Indices: 16083814--16083859 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
16083804 TGGCCCAGCA
*
16083814 AACAGCAGCAGCCC
1 AACAGCAACAGCCC
16083828 AACAGCAACAGCCC
1 AACAGCAACAGCCC
* *
16083842 AACAACAATAGCCC
1 AACAGCAACAGCCC
16083856 AACA
1 AACA
16083860 ACAGACCCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.46, C:0.39, G:0.13, T:0.02
Consensus pattern (14 bp):
AACAGCAACAGCCC
Found at i:16083910 original size:14 final size:14
Alignment explanation
Indices: 16083814--16083911 Score: 60
Period size: 14 Copynumber: 7.0 Consensus size: 14
16083804 TGGCCCAGCA
*
16083814 AACAGCAGCAGCCC
1 AACAGCAGTAGCCC
**
16083828 AACAGCAACAGCCC
1 AACAGCAGTAGCCC
* *
16083842 AACAACAATAGCCC
1 AACAGCAGTAGCCC
*
16083856 AACAACAG-A-CCC
1 AACAGCAGTAGCCC
* *
16083868 ACTCCAGCTGTAGCCC
1 A--ACAGCAGTAGCCC
16083884 AATC--CAGTCAGCCC
1 AA-CAGCAGT-AGCCC
16083898 AACAGCAGTAGCCC
1 AACAGCAGTAGCCC
16083912 TACCCAACAA
Statistics
Matches: 67, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
12 4 0.06
13 5 0.07
14 48 0.72
15 6 0.09
16 4 0.06
ACGTcount: A:0.37, C:0.41, G:0.15, T:0.07
Consensus pattern (14 bp):
AACAGCAGTAGCCC
Found at i:16085290 original size:25 final size:25
Alignment explanation
Indices: 16085252--16085323 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
16085242 GAGCAGAGCC
* * *
16085252 ATATTCACAGCTCGTGTGAGTATTT
1 ATATTCACAACTCGTGTAAGCATTT
16085277 ATATTCACAACTCGTGTAAGCATTT
1 ATATTCACAACTCGTGTAAGCATTT
16085302 ATATTCACAACTCGTGTAAGCA
1 ATATTCACAACTCGTGTAAGCA
16085324 ACTCTATCCT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (25 bp):
ATATTCACAACTCGTGTAAGCATTT
Found at i:16109492 original size:20 final size:20
Alignment explanation
Indices: 16109467--16109507 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
16109457 ACTTCTTTTA
*
16109467 AAGTCTTTCCAATATGGAGG
1 AAGTCTGTCCAATATGGAGG
* *
16109487 AAGTCTGTCTATTATGGAGG
1 AAGTCTGTCCAATATGGAGG
16109507 A
1 A
16109508 TACAAAAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (20 bp):
AAGTCTGTCCAATATGGAGG
Found at i:16111053 original size:10 final size:10
Alignment explanation
Indices: 16111024--16111059 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 10
16111014 AAATTAATAA
16111024 ATTTGTACAT
1 ATTTGTACAT
16111034 ATAATTGTACAT
1 AT--TTGTACAT
16111046 ATTTGTACAT
1 ATTTGTACAT
16111056 ATTT
1 ATTT
16111060 TTTAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 14 0.58
12 10 0.42
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.50
Consensus pattern (10 bp):
ATTTGTACAT
Found at i:16111963 original size:26 final size:26
Alignment explanation
Indices: 16111934--16111993 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
16111924 TTTAATTTTC
16111934 ATTATTTTCGACT-AAGTTAAATTTAA
1 ATTATTTTCGA-TAAAGTTAAATTTAA
** *
16111960 ATTATTTTTTATAAATTTAAATTTAA
1 ATTATTTTCGATAAAGTTAAATTTAA
*
16111986 ATTTTTTT
1 ATTATTTT
16111994 TTATAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 1 0.03
26 28 0.97
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (26 bp):
ATTATTTTCGATAAAGTTAAATTTAA
Found at i:16111994 original size:26 final size:26
Alignment explanation
Indices: 16111950--16112025 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
16111940 TTCGACTAAG
*
16111950 TTAAATTTAAATTATTTTTTATAAAT
1 TTAAATTTAAATTTTTTTTTATAAAT
16111976 TTAAATTTAAATTTTTTTTTATAAA-
1 TTAAATTTAAATTTTTTTTTATAAAT
16112001 TTAAGA--T-AATTTTTTTGTTATAAAT
1 TTAA-ATTTAAATTTTTTT-TTATAAAT
16112026 AAGCGGATGA
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
23 9 0.20
24 8 0.17
25 4 0.09
26 25 0.54
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (26 bp):
TTAAATTTAAATTTTTTTTTATAAAT
Found at i:16121197 original size:57 final size:58
Alignment explanation
Indices: 16121115--16121233 Score: 179
Period size: 57 Copynumber: 2.1 Consensus size: 58
16121105 AGAAATGGTG
*
16121115 AAATGGAGAAATAGGAAACATTTGGAAATGATTATGGTTTTCTCCAAAATG-AAAATGA
1 AAATGGAGAAATA-GAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAAATGA
* *
16121173 AAATGGAGAAATA-AAATCATTTGGAAATGAATGTGGTTTTCTCCAAAGTGAAAAATGA
1 AAATGGAGAAATAGAAA-CATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAAATGA
16121231 AAA
1 AAA
16121234 AGACTTGAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
56 3 0.05
57 30 0.54
58 23 0.41
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.27
Consensus pattern (58 bp):
AAATGGAGAAATAGAAACATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAAATGA
Found at i:16125450 original size:23 final size:23
Alignment explanation
Indices: 16125423--16125476 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
16125413 GGTCAAATGA
16125423 TGGTATGTTTTGAATGACCAACT
1 TGGTATGTTTTGAATGACCAACT
*
16125446 TGGTACGTTTTGAATGACCAACT
1 TGGTATGTTTTGAATGACCAACT
*
16125469 TGGCATGT
1 TGGTATGT
16125477 AGTCATTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (23 bp):
TGGTATGTTTTGAATGACCAACT
Found at i:16131209 original size:17 final size:16
Alignment explanation
Indices: 16131180--16131222 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
16131170 TCAGAATTTC
* *
16131180 ATAAGTTTGGTAATCA
1 ATAAGTTTTGTAACCA
16131196 ATAATGTTTTGTAACCA
1 ATAA-GTTTTGTAACCA
16131213 ATAACGTTTT
1 ATAA-GTTTT
16131223 CGATAATGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (16 bp):
ATAAGTTTTGTAACCA
Found at i:16141801 original size:15 final size:15
Alignment explanation
Indices: 16141781--16141810 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16141771 TTTTGATCAG
*
16141781 GTAAAAGTTCTTTTA
1 GTAAAAATTCTTTTA
16141796 GTAAAAATTCTTTTA
1 GTAAAAATTCTTTTA
16141811 ACTATTCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (15 bp):
GTAAAAATTCTTTTA
Found at i:16142818 original size:19 final size:21
Alignment explanation
Indices: 16142796--16142840 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
16142786 GGAATAAGTC
*
16142796 AAAAAA-TATGGGCAAACT-T
1 AAAAAATTAAGGGCAAACTAT
*
16142815 AAAAAATTAAGGGTAAACTAT
1 AAAAAATTAAGGGCAAACTAT
16142836 AAAAA
1 AAAAA
16142841 TAGTCACCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 10 0.45
21 6 0.27
ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20
Consensus pattern (21 bp):
AAAAAATTAAGGGCAAACTAT
Found at i:16143140 original size:16 final size:17
Alignment explanation
Indices: 16143112--16143156 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
16143102 TTCAAAAATA
16143112 AAAAATTTT-AAATTTT
1 AAAAATTTTAAAATTTT
16143128 -AAAATTTTAAAATTTT
1 AAAAATTTTAAAATTTT
16143144 AAAAATTTTAAAA
1 AAAAATTTTAAAA
16143157 AAAATATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.30
16 7 0.26
17 12 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAAATTTTAAAATTTT
Found at i:16143157 original size:9 final size:8
Alignment explanation
Indices: 16143113--16143156 Score: 72
Period size: 8 Copynumber: 5.5 Consensus size: 8
16143103 TCAAAAATAA
16143113 AAAATTTT
1 AAAATTTT
16143121 -AAATTTT
1 AAAATTTT
16143128 AAAATTTT
1 AAAATTTT
16143136 AAAATTTT
1 AAAATTTT
16143144 AAAAATTTT
1 -AAAATTTT
16143153 AAAA
1 AAAA
16143157 AAAATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.21
8 19 0.56
9 8 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
AAAATTTT
Found at i:16143267 original size:21 final size:21
Alignment explanation
Indices: 16143242--16143296 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
16143232 TCTAACATGG
* *
16143242 ATTTTATTTATTAAAATAATA
1 ATTTTATTAAATAAAATAATA
16143263 ATTTTA-TAAATAAAATAATA
1 ATTTTATTAAATAAAATAATA
*
16143283 ATCTTA-TAAATAAA
1 ATTTTATTAAATAAA
16143297 CCAATTTAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 25 0.81
21 6 0.19
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTTTATTAAATAAAATAATA
Found at i:16143278 original size:20 final size:20
Alignment explanation
Indices: 16143253--16143296 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
16143243 TTTTATTTAT
*
16143253 TAAAATAATAATTTTATAAA
1 TAAAATAATAATCTTATAAA
16143273 TAAAATAATAATCTTATAAA
1 TAAAATAATAATCTTATAAA
16143293 TAAA
1 TAAA
16143297 CCAATTTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAATAATAATCTTATAAA
Found at i:16144439 original size:20 final size:19
Alignment explanation
Indices: 16144414--16144459 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
16144404 CGGATATAAA
16144414 TTAAAAAAATAAAAAATATT
1 TTAAAAAAATAAAAAA-ATT
* **
16144434 TTAAAAATATAAACTAATT
1 TTAAAAAAATAAAAAAATT
16144453 TTAAAAA
1 TTAAAAA
16144460 GTATACTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TTAAAAAAATAAAAAAATT
Found at i:16144441 original size:18 final size:19
Alignment explanation
Indices: 16144418--16144459 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
16144408 TATAAATTAA
16144418 AAAAATAAAAAAT-ATTTT
1 AAAAATAAAAAATAATTTT
* *
16144436 AAAAATATAAACTAATTTT
1 AAAAATAAAAAATAATTTT
16144455 AAAAA
1 AAAAA
16144460 GTATACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATAAAAAATAATTTT
Found at i:16144453 original size:19 final size:18
Alignment explanation
Indices: 16144418--16144464 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
16144408 TATAAATTAA
*
16144418 AAAAATAAAAAATATTTT
1 AAAAATATAAAATATTTT
*
16144436 AAAAATATAAACTAATTTT
1 AAAAATATAAAAT-ATTTT
16144455 AAAAAGTATA
1 AAAAA-TATA
16144465 CTTTTTGGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 11 0.44
19 10 0.40
20 4 0.16
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAAATATAAAATATTTT
Found at i:16144503 original size:31 final size:32
Alignment explanation
Indices: 16144463--16144539 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 32
16144453 TTAAAAAGTA
*
16144463 TACTTTTTGGACAAGTTTC-GGTAC-AACTAGG
1 TACTTTTTGGACAAG-TTCAAGTACAAACTAGG
*
16144494 TGCTTTTTGGACAAGTTCAAGTACAAACTAGG
1 TACTTTTTGGACAAGTTCAAGTACAAACTAGG
16144526 TAC-TTTTGGACAAG
1 TACTTTTTGGACAAG
16144540 CTTAGGATAG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
30 3 0.07
31 29 0.71
32 9 0.22
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (32 bp):
TACTTTTTGGACAAGTTCAAGTACAAACTAGG
Found at i:16148699 original size:12 final size:12
Alignment explanation
Indices: 16148682--16148706 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16148672 AAGTGATAAT
16148682 GACGACGATGAC
1 GACGACGATGAC
16148694 GACGACGATGAC
1 GACGACGATGAC
16148706 G
1 G
16148707 GTGAATCAAA
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:0.32, C:0.24, G:0.36, T:0.08
Consensus pattern (12 bp):
GACGACGATGAC
Found at i:16150072 original size:59 final size:59
Alignment explanation
Indices: 16149991--16150107 Score: 189
Period size: 59 Copynumber: 2.0 Consensus size: 59
16149981 CTTGCAGTTT
* *
16149991 CTGTGGCAGCTGATATTCATTTCTTCAGTGTCAGCTCCCTTCTTAATAAGGTACTCTTA
1 CTGTAGCACCTGATATTCATTTCTTCAGTGTCAGCTCCCTTCTTAATAAGGTACTCTTA
* * *
16150050 CTGTAGCACCTGATATTCATTTCTTCTGTGTCAGCTCCCTTCTTAGTAAGTTACTCTT
1 CTGTAGCACCTGATATTCATTTCTTCAGTGTCAGCTCCCTTCTTAATAAGGTACTCTT
16150108 TAATTAAGAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.41
Consensus pattern (59 bp):
CTGTAGCACCTGATATTCATTTCTTCAGTGTCAGCTCCCTTCTTAATAAGGTACTCTTA
Found at i:16154184 original size:74 final size:74
Alignment explanation
Indices: 16154061--16154211 Score: 194
Period size: 74 Copynumber: 2.0 Consensus size: 74
16154051 TAGTAGACAT
* * * * *
16154061 AATTACTGTGGCATTTTCGACAATATAGTGTTATCTTATACTTTATGCTGAAAGATTTTTATAAT
1 AATTACTGTGGCATTTTCGACAAGATAGCGTCATCTTATACTTTATGCTGAAAGATTCTTAGAAT
16154126 TTGTTTTCA
66 TTGTTTTCA
* * * * ** *
16154135 AATTAGTGTGGCATTTTCTACAAGATTGCGTCATCTTGTGTTTTGTGCTGAAAGATTCTTAGAAT
1 AATTACTGTGGCATTTTCGACAAGATAGCGTCATCTTATACTTTATGCTGAAAGATTCTTAGAAT
16154200 TTGTTTTCA
66 TTGTTTTCA
16154209 AAT
1 AAT
16154212 GTTTTTACCA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (74 bp):
AATTACTGTGGCATTTTCGACAAGATAGCGTCATCTTATACTTTATGCTGAAAGATTCTTAGAAT
TTGTTTTCA
Found at i:16157933 original size:38 final size:38
Alignment explanation
Indices: 16157890--16157965 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
16157880 TGCTAAATAA
* *
16157890 GCATTGAATATGCTAAATTTTAGATAAATATATACAAC
1 GCATTGAATATGCTAAATGTTAGATAAATATAGACAAC
16157928 GCATTGAATATGCTAAATGTTAGATAAATATAGACAAC
1 GCATTGAATATGCTAAATGTTAGATAAATATAGACAAC
16157966 TGGCTAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (38 bp):
GCATTGAATATGCTAAATGTTAGATAAATATAGACAAC
Found at i:16158290 original size:5 final size:5
Alignment explanation
Indices: 16158280--16158308 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
16158270 AATATTTTAA
16158280 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
16158309 AATTTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:16161600 original size:30 final size:30
Alignment explanation
Indices: 16161564--16161625 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
16161554 TGCAACAGGA
* *
16161564 GGTGGGTTTGCT-GGTTTGGGTTCAGGTGGT
1 GGTGGGTTTGCTGGGGTT-GCTTCAGGTGGT
*
16161594 GGTGGGTTTTCTGGGGTTGCTTCAGGTGGT
1 GGTGGGTTTGCTGGGGTTGCTTCAGGTGGT
16161624 GG
1 GG
16161626 ATTTGGTGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.03, C:0.08, G:0.50, T:0.39
Consensus pattern (30 bp):
GGTGGGTTTGCTGGGGTTGCTTCAGGTGGT
Found at i:16166704 original size:25 final size:25
Alignment explanation
Indices: 16166670--16166756 Score: 88
Period size: 25 Copynumber: 3.5 Consensus size: 25
16166660 ACAAGCTGTA
*
16166670 AACGTTAAGCTCCTTCGAGCTGAAT
1 AACGGTAAGCTCCTTCGAGCTGAAT
*
16166695 AACGGTAAGCTCC-TCTAAGCTGAAT
1 AACGGTAAGCTCCTTC-GAGCTGAAT
* * * *
16166720 AACAGTAAGCTCATACGAGCTGAGT
1 AACGGTAAGCTCCTTCGAGCTGAAT
16166745 ATA-GGTAAGCTC
1 A-ACGGTAAGCTC
16166757 ATAAAAGCTA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
24 2 0.04
25 47 0.92
26 2 0.04
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (25 bp):
AACGGTAAGCTCCTTCGAGCTGAAT
Found at i:16166765 original size:50 final size:49
Alignment explanation
Indices: 16166654--16166769 Score: 112
Period size: 50 Copynumber: 2.4 Consensus size: 49
16166644 GTACATGTAT
* * * *
16166654 GCTCATACAAGCTGTAAACGTTAAGCTCCTTCGAGCTGAATAACGGTAA
1 GCTCATAAAAGCTGAAAACGTTAAGCTCATACGAGCTGAATAACGGTAA
* ** *
16166703 GCTCCTCTAAGCTGAATAACAG-TAAGCTCATACGAGCTGAGTATA-GGTAA
1 GCTCATAAAAGCTGAA-AAC-GTTAAGCTCATACGAGCTGAATA-ACGGTAA
16166753 GCTCATAAAAGCT-AAAA
1 GCTCATAAAAGCTGAAAA
16166770 TCGGTAACCC
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
48 2 0.04
49 14 0.26
50 36 0.67
51 2 0.04
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (49 bp):
GCTCATAAAAGCTGAAAACGTTAAGCTCATACGAGCTGAATAACGGTAA
Found at i:16171772 original size:29 final size:29
Alignment explanation
Indices: 16171698--16171772 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
16171688 CCATACGACC
*
16171698 GTGTGCTAGATTGTGTGAGCGACACGGGA
1 GTGTGCTAGGTTGTGTGAGCGACACGGGA
* ** *
16171727 GTGCG-TCAGGTCATGTGGGTC-ACACGGGA
1 GTGTGCT-AGGTTGTGTGAG-CGACACGGGA
16171756 GTGTGCTAGGTTGTGTG
1 GTGTGCTAGGTTGTGTG
16171773 CCAGGCCTTA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
28 1 0.03
29 32 0.91
30 2 0.06
ACGTcount: A:0.16, C:0.15, G:0.43, T:0.27
Consensus pattern (29 bp):
GTGTGCTAGGTTGTGTGAGCGACACGGGA
Found at i:16177040 original size:42 final size:43
Alignment explanation
Indices: 16176993--16177096 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 43
16176983 TTCCGAGGAG
* * *
16176993 TGATTTCATGTAAGAGCATGTCTGGGACATTGGCATCG-TATA
1 TGATTTCATGTAAGACCATGCCTGGGACAATGGCATCGATATA
* * * *
16177035 TGATTTCGTATAAGACCTTGCCTGGGATAATGGCATCGATATA
1 TGATTTCATGTAAGACCATGCCTGGGACAATGGCATCGATATA
* **
16177078 TTATAACATGTAAGACCAT
1 TGATTTCATGTAAGACCAT
16177097 ATTTGGGATA
Statistics
Matches: 48, Mismatches: 13, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
42 31 0.65
43 17 0.35
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (43 bp):
TGATTTCATGTAAGACCATGCCTGGGACAATGGCATCGATATA
Found at i:16181878 original size:54 final size:54
Alignment explanation
Indices: 16181755--16181878 Score: 169
Period size: 54 Copynumber: 2.3 Consensus size: 54
16181745 TGGCCACGGC
* * * * *
16181755 AAGAAGACCTCGTAGTGTAAGACCTAGTCTAGGACTATGGCATCGTATGGGGAT
1 AAGAAGACCACATAGTGTAAGACCTAGTCTAGGACTATCGCATCATATGAGGAT
* *
16181809 ACGAAGACCATATAGTGTAAGACCTAGTCTAGGACTATCGCATCATATGAGGAT
1 AAGAAGACCACATAGTGTAAGACCTAGTCTAGGACTATCGCATCATATGAGGAT
16181863 AAG-AGAACCACATAGT
1 AAGAAG-ACCACATAGT
16181879 TTACCTCACT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
53 2 0.03
54 58 0.97
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGAAGACCACATAGTGTAAGACCTAGTCTAGGACTATCGCATCATATGAGGAT
Found at i:16182017 original size:18 final size:20
Alignment explanation
Indices: 16181994--16182032 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
16181984 ATATGCATAC
*
16181994 AGAGG-AAGGATGAA-AGAA
1 AGAGGAAAGCATGAAGAGAA
16182012 AGAGGAAAGCATGAAGAGAA
1 AGAGGAAAGCATGAAGAGAA
16182032 A
1 A
16182033 TCTATATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.56, C:0.03, G:0.36, T:0.05
Consensus pattern (20 bp):
AGAGGAAAGCATGAAGAGAA
Found at i:16194484 original size:30 final size:30
Alignment explanation
Indices: 16194448--16194505 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
16194438 AACGACTAGC
*
16194448 ACACACAATCAATGAGACGGTAGAATTAGT
1 ACACACAATCAATAAGACGGTAGAATTAGT
16194478 ACACACAATCAATAAGACGGTAGAATTA
1 ACACACAATCAATAAGACGGTAGAATTA
16194506 TGTCCATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (30 bp):
ACACACAATCAATAAGACGGTAGAATTAGT
Found at i:16196380 original size:46 final size:46
Alignment explanation
Indices: 16196327--16196421 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
16196317 ATTTAATTTC
* **
16196327 ATTAGTTAACATTTCAATAGTCGTATAAACACATCATTTCTGAGCA
1 ATTAGTTAACATTTCAATAGTCATATAAACACATCATTTCCAAGCA
16196373 ATTAGTTAACATTTCAATAGTCATATAAACACATCATTTCCAAGCA
1 ATTAGTTAACATTTCAATAGTCATATAAACACATCATTTCCAAGCA
16196419 ATT
1 ATT
16196422 CAGGAAGTCA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (46 bp):
ATTAGTTAACATTTCAATAGTCATATAAACACATCATTTCCAAGCA
Found at i:16196555 original size:20 final size:20
Alignment explanation
Indices: 16196532--16196571 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
16196522 TAGTGCTATT
* *
16196532 AGAGGCATCGTAGTGCAAAC
1 AGAGGCAACGAAGTGCAAAC
16196552 AGAGGCAACGAAGTGCAAAC
1 AGAGGCAACGAAGTGCAAAC
16196572 CCGTACAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.30, T:0.10
Consensus pattern (20 bp):
AGAGGCAACGAAGTGCAAAC
Found at i:16198643 original size:43 final size:42
Alignment explanation
Indices: 16198572--16198929 Score: 332
Period size: 43 Copynumber: 8.3 Consensus size: 42
16198562 AGCGCCGCAA
*
16198572 AAAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTTCC
1 AAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCC
* * * *
16198614 GAAAACGCCGCTATAGATAAAGACTTTTAGCGGTGC-TTTCCC
1 -AAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCC
*
16198656 ACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTT-C
1 A-AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCC
* * * *****
16198698 ACAAACGCTGCTATAGATTAGGACCTTTAGCGGCGCAACCACAC
1 A-AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTC-C
* *
16198742 AAAACGCCGCTATAGATCAAGACCTTTAGTGACGCTTTTTCAC
1 AAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTC-C
* * * **
16198785 AAAACACCGCTATAGATCAGGACTTTTAGCGGCG-TTTGTGGAAC
1 AAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTT-T--TCC
*
16198829 AAACGCACGCCGCTATAGATAAAGACCTTTAGCGGCGCTTTTTCCC
1 AAA---ACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTT-CC
16198875 ACAAACGCCGCTATAGA--ATAGACCTTTAGCGGCGC-TTTTCAC
1 A-AAACGCCGCTATAGATCA-AGACCTTTAGCGGCGCTTTTTC-C
16198917 ACAAACGCCGCTA
1 A-AAACGCCGCTA
16198930 AAAACATATC
Statistics
Matches: 260, Mismatches: 40, Indels: 31
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.01
42 92 0.35
43 112 0.43
44 19 0.07
46 2 0.01
47 30 0.12
48 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (42 bp):
AAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCC
Found at i:16198747 original size:85 final size:86
Alignment explanation
Indices: 16198572--16198929 Score: 379
Period size: 85 Copynumber: 4.1 Consensus size: 86
16198562 AGCGCCGCAA
* * *
16198572 AAAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTTC-CGAAAACGCCGCTATAGATAAAG
1 AAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCAC-AAAACGCCGCTATAGATTAGG
* * *
16198636 ACTTTTAGCGGTGCTTTCC-CAC
65 ACCTTTAGCGGCGC-ATCCACAC
* *
16198658 -AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCAC-AAACGCTGCTATAGATTAGGA
1 AAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCACAAAACGCCGCTATAGATTAGGA
*
16198721 CCTTTAGCGGCGCAACCACAC
66 CCTTTAGCGGCGCATCCACAC
* * * *
16198742 AAAACGCCGCTATAGATCAAGACCTTTAGTGACGCTTTTTCACAAAACACCGCTATAGATCAGGA
1 AAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCACAAAACGCCGCTATAGATTAGGA
* ** **
16198807 CTTTTAGCGGCGTTTGTGGA-AC
66 CCTTTAGCGGCG--CATCCACAC
* * *
16198829 AAACGCACGCCGCTATAGATAAAGACCTTTAGCGGCGCTTTTTCCCACAAACGCCGCTATAGAAT
1 AAA---ACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCACA-AAACGCCGCTATAGATT
* *
16198894 A-GACCTTTAGCGGCGCTTTTCACAC
62 AGGACCTTTAGCGGCGC-ATCCACAC
16198919 -AAACGCCGCTA
1 AAAACGCCGCTA
16198930 AAAACATATC
Statistics
Matches: 228, Mismatches: 32, Indels: 24
0.80 0.11 0.08
Matches are distributed among these distances:
83 2 0.01
84 32 0.14
85 78 0.34
86 39 0.17
87 5 0.02
88 1 0.00
89 4 0.02
90 52 0.23
91 15 0.07
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (86 bp):
AAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCACAAAACGCCGCTATAGATTAGGA
CCTTTAGCGGCGCATCCACAC
Found at i:16200012 original size:23 final size:23
Alignment explanation
Indices: 16199982--16200044 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
16199972 AGGAAAAAGG
*
16199982 TAATTTAGATTTATACCTGATTA
1 TAATTTAGATTTATACCTGACTA
*
16200005 TAATTTAGATTTATACCTGCCTA
1 TAATTTAGATTTATACCTGACTA
16200028 TAATTTAGATTTATACC
1 TAATTTAGATTTATACC
16200045 GTAGGGAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (23 bp):
TAATTTAGATTTATACCTGACTA
Found at i:16204684 original size:41 final size:41
Alignment explanation
Indices: 16204622--16204779 Score: 203
Period size: 41 Copynumber: 3.9 Consensus size: 41
16204612 ATAAAATGTT
* *
16204622 TTAGAGGCGCTTTTTCAAAAACGCCGCTAAA-AGCCCGAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGA-CCCGAGCA
* * *
16204663 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCGAGCA
* * *
16204704 TTAGCGGCGCTTTTCCAAAAATGCCGCTAAAGATCTGAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCGAGCA
* *
16204745 TTAGCGGCGCTTCTCCAAAAATGCCGCTAAA-ACCC
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCC
16204780 CGAAAGGTTA
Statistics
Matches: 108, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
40 2 0.02
41 105 0.97
42 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (41 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCGAGCA
Found at i:16205118 original size:30 final size:30
Alignment explanation
Indices: 16205074--16205193 Score: 89
Period size: 30 Copynumber: 4.0 Consensus size: 30
16205064 GACAGCCAAT
* *
16205074 GACTTCTATCGGACGTAATAGGTAGTCATC
1 GACTTCTGTTGGACGTAATAGGTAGTCATC
* * * *
16205104 GACTTTTGTTGGACGCAATCGGTAGCCATC
1 GACTTCTGTTGGACGTAATAGGTAGTCATC
* *** * * *
16205134 GGCTTCTAACGGACATAGTCA-GCAGTCATC
1 GACTTCTGTTGGACGTAAT-AGGTAGTCATC
* *
16205164 GACTTCTGTTGGACGTAATCGATAGTCATC
1 GACTTCTGTTGGACGTAATAGGTAGTCATC
16205194 ATCTTCTATT
Statistics
Matches: 62, Mismatches: 26, Indels: 4
0.67 0.28 0.04
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (30 bp):
GACTTCTGTTGGACGTAATAGGTAGTCATC
Found at i:16209387 original size:51 final size:51
Alignment explanation
Indices: 16209308--16209648 Score: 257
Period size: 51 Copynumber: 6.7 Consensus size: 51
16209298 ATACCTGGTT
* *
16209308 CACATAGTAGCCTGCATATAGTACTACACATGTGACCATTTTCATCTGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATA
* * * *** * *
16209359 CACGTAGCAGCCTGCACATAGTACTACACATGTGATCGAAGCT-ATCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATTTTCATCCGATA
* * *
16209410 CGCATAGTAGCCTGCACATAGTACTACACATGCGACC--TATCATTCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCA-TCCGATA
* * *
16209460 CACATAGTAGCCTACATATAGTACTACACAAGTGACCATTTTCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATA
* * * * * * *** * *
16209511 CACGTAGTAGTCAGCACATAGTACTGCACACGTGATCA-AAGCTATTCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTC-ATCCGATA
* ** * * *
16209562 -AGCATAGTAGCTTGCACATAGTACTACACATGCAACC--TATCATTCTGTTA
1 CA-CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCA-TCCGATA
* *
16209612 CACGA-AGTAGCCTACACATAGTACTACACACGTGACC
1 CAC-ATAGTAGCCTGCACATAGTACTACACATGTGACC
16209649 TAGCAACTTC
Statistics
Matches: 225, Mismatches: 55, Indels: 21
0.75 0.18 0.07
Matches are distributed among these distances:
48 1 0.00
49 2 0.01
50 74 0.33
51 141 0.63
52 7 0.03
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATA
Found at i:16209519 original size:101 final size:101
Alignment explanation
Indices: 16209308--16209540 Score: 245
Period size: 101 Copynumber: 2.3 Consensus size: 101
16209298 ATACCTGGTT
* * * * * *
16209308 CACATAGTAGCCTGCATATAGTACTACACATGTGACCATTTTCATCTGATACACGTAGCAGCCTG
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCA-TATCATCCGATACACATAGCAGCCTA
* * * *
16209373 CACATAGTACTACACATGTGATCGAAGCTATCTGGTA
65 CACATAGTACTACACAAGTGATCCAAGCTATCCGATA
* *
16209410 CGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGATACACATAGTAGCCTA
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCATATCA-TCCGATACACATAGCAGCCTA
* ***
16209474 CATATAGTACTACACAAGTGA-CCATTTTCATCCGATA
65 CACATAGTACTACACAAGTGATCCAAGCT-ATCCGATA
* * * *
16209511 CACGTAGTAGTCAGCACATAGTACTGCACA
1 CACATAGTAGCCTGCACATAGTACTACACA
16209541 CGTGATCAAA
Statistics
Matches: 108, Mismatches: 21, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
100 7 0.06
101 67 0.62
102 34 0.31
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (101 bp):
CACATAGTAGCCTGCACATAGTACTACACATGCGACCATATCATCCGATACACATAGCAGCCTAC
ACATAGTACTACACAAGTGATCCAAGCTATCCGATA
Found at i:16209584 original size:152 final size:152
Alignment explanation
Indices: 16209308--16209648 Score: 506
Period size: 152 Copynumber: 2.2 Consensus size: 152
16209298 ATACCTGGTT
* * * *
16209308 CACATAGTAGCCTGCATATAGTACTACACATGTGACCATTTTCATCTGATACACGTAGCAGCCTG
1 CACATAGTAGCCTACATATAGTACTACACAAGTGACCATTTTCATCCGATACACGTAGCAGCCAG
* * *
16209373 CACATAGTACTACACATGTGATCGAAGCTATCTGGTACGCATAGTAGCCTGCACATAGTACTACA
66 CACATAGTACTACACACGTGATCAAAGCTATCTGGTAAGCATAGTAGCCTGCACATAGTACTACA
*
16209438 CATGCGACCTATCATTCCGATA
131 CATGCAACCTATCATTCCGATA
* *
16209460 CACATAGTAGCCTACATATAGTACTACACAAGTGACCATTTTCATCCGATACACGTAGTAGTCAG
1 CACATAGTAGCCTACATATAGTACTACACAAGTGACCATTTTCATCCGATACACGTAGCAGCCAG
* *
16209525 CACATAGTACTGCACACGTGATCAAAGCTAT-TCGGTAAGCATAGTAGCTTGCACATAGTACTAC
66 CACATAGTACTACACACGTGATCAAAGCTATCT-GGTAAGCATAGTAGCCTGCACATAGTACTAC
* *
16209589 ACATGCAACCTATCATTCTGTTA
130 ACATGCAACCTATCATTCCGATA
* *
16209612 CACGA-AGTAGCCTACACATAGTACTACACACGTGACC
1 CAC-ATAGTAGCCTACATATAGTACTACACAAGTGACC
16209649 TAGCAACTTC
Statistics
Matches: 171, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
151 1 0.01
152 169 0.99
153 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (152 bp):
CACATAGTAGCCTACATATAGTACTACACAAGTGACCATTTTCATCCGATACACGTAGCAGCCAG
CACATAGTACTACACACGTGATCAAAGCTATCTGGTAAGCATAGTAGCCTGCACATAGTACTACA
CATGCAACCTATCATTCCGATA
Found at i:16212438 original size:42 final size:42
Alignment explanation
Indices: 16212358--16212439 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
16212348 TGTGTTCTCT
* **
16212358 ATGCCATAGTCCATTTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGTCCATCTATGGTCTTACACATATGCACATATTG
16212400 ATGCCATAG-CCTATCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGTCC-ATCTATGGTCTTACACA-TATGCACATAT
16212440 CACACCGATG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 2 0.06
42 31 0.89
43 2 0.06
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.35
Consensus pattern (42 bp):
ATGCCATAGTCCATCTATGGTCTTACACATATGCACATATTG
Found at i:16215228 original size:51 final size:51
Alignment explanation
Indices: 16215148--16215438 Score: 275
Period size: 51 Copynumber: 5.7 Consensus size: 51
16215138 ATACCCGGTT
*
16215148 CACATAGTAGCCTGCATATAGTACTACACATGTGACCATTTTCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATA
* * * *** *
16215199 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCT-ATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATTTTCATCCGATA
** * *
16215250 CGTATAGTAGCCTGCACATAGTACTACACATGCGACC--TATCATTCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCA-TCCGATA
* *
16215300 CACATAGTAACCTGTACATAGTACTACACATGTGACCATTTTCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATA
** * * ** *** * *
16215351 CACGGAGCAGCCTGCACATAGTACTACACACGTGATTGAAGCT-ATTCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATTTTCATCCGATA
** *
16215402 TGCATAGTAGCCTGCACATAGTACTACACACGTGACC
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACC
16215439 TAGCAACTTC
Statistics
Matches: 191, Mismatches: 43, Indels: 13
0.77 0.17 0.05
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 39 0.20
51 141 0.74
52 9 0.05
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATA
Found at i:16215273 original size:102 final size:101
Alignment explanation
Indices: 16215151--16215334 Score: 280
Period size: 101 Copynumber: 1.8 Consensus size: 101
16215141 CCCGGTTCAC
* * * * *
16215151 ATAGTAGCCTGCATATAGTACTACACATGTGACCATTTTCA-TCCGATACACGTAGTAGCCTGCA
1 ATAGTAGCCTGCACATAGTACTACACATGCGACC--TATCATTCCGATACACATAGTAACCTGCA
16215215 CATAGTACTACACACGTGATCGAAGCTATCCGGTACGT
64 CATAGTACTACACACGTGATCGAAGCTATCCGGTACGT
*
16215253 ATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGATACACATAGTAACCTGTACA
1 ATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGATACACATAGTAACCTGCACA
*
16215318 TAGTACTACACATGTGA
66 TAGTACTACACACGTGA
16215335 CCATTTTCAT
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 38 0.51
102 32 0.43
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (101 bp):
ATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGATACACATAGTAACCTGCACA
TAGTACTACACACGTGATCGAAGCTATCCGGTACGT
Found at i:16215347 original size:101 final size:101
Alignment explanation
Indices: 16215148--16215380 Score: 272
Period size: 101 Copynumber: 2.3 Consensus size: 101
16215138 ATACCCGGTT
* * * * *
16215148 CACATAGTAGCCTGCATATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCTG
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCA-TATCATCCGATACACATAGTAACCTG
* *
16215213 CACATAGTACTACACACGTGATCGAAGCTATCCGGTA
65 CACATAGTACTACACACGTGATCCAAGCTATCCGATA
**
16215250 CGTATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGATACACATAGTAACCTG
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCATATCA-TCCGATACACATAGTAACCTG
* * ***
16215314 TACATAGTACTACACATGTGA-CCATTTTCATCCGATA
65 CACATAGTACTACACACGTGATCCAAGCT-ATCCGATA
** *
16215351 CACGGAGCAGCCTGCACATAGTACTACACA
1 CACATAGTAGCCTGCACATAGTACTACACA
16215381 CGTGATTGAA
Statistics
Matches: 110, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
100 7 0.06
101 70 0.64
102 33 0.30
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (101 bp):
CACATAGTAGCCTGCACATAGTACTACACATGCGACCATATCATCCGATACACATAGTAACCTGC
ACATAGTACTACACACGTGATCCAAGCTATCCGATA
Found at i:16215424 original size:152 final size:152
Alignment explanation
Indices: 16215148--16215440 Score: 487
Period size: 152 Copynumber: 1.9 Consensus size: 152
16215138 ATACCCGGTT
* * * *
16215148 CACATAGTAGCCTGCATATAGTACTACACATGTGACCATTTTCATCCGATACACGTAGTAGCCTG
1 CACATAGTAACCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACGGAGCAGCCTG
*
16215213 CACATAGTACTACACACGTGATCGAAGCTATCCGGTACGTATAGTAGCCTGCACATAGTACTACA
66 CACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCCTGCACATAGTACTACA
*
16215278 CATGCGACCTATCATTCCGATA
131 CACGCGACCTATCATTCCGATA
*
16215300 CACATAGTAACCTGTACATAGTACTACACATGTGACCATTTTCATCCGATACACGGAGCAGCCTG
1 CACATAGTAACCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACGGAGCAGCCTG
* * *
16215365 CACATAGTACTACACACGTGATTGAAGCTATTCGGTATGCATAGTAGCCTGCACATAGTACTACA
66 CACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCCTGCACATAGTACTACA
*
16215430 CACGTGACCTA
131 CACGCGACCTA
16215441 GCAACTTCAC
Statistics
Matches: 130, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
152 130 1.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (152 bp):
CACATAGTAACCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACGGAGCAGCCTG
CACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCCTGCACATAGTACTACA
CACGCGACCTATCATTCCGATA
Found at i:16230422 original size:21 final size:21
Alignment explanation
Indices: 16230398--16230437 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16230388 TCACATGGCT
* *
16230398 ATGTATCTCTATCACACGGGC
1 ATGTATCTCCACCACACGGGC
*
16230419 ATGTGTCTCCACCACACGG
1 ATGTATCTCCACCACACGG
16230438 CCGTGTGCCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.25
Consensus pattern (21 bp):
ATGTATCTCCACCACACGGGC
Found at i:16247675 original size:443 final size:443
Alignment explanation
Indices: 16246849--16247714 Score: 1669
Period size: 443 Copynumber: 2.0 Consensus size: 443
16246839 TTTTATATTA
*
16246849 ATTAAATAAATATTAGTTTATTTATATTTTAATTTGATTTTTAAATGATATTTTATTATTTTATT
1 ATTAAATAAATATTAGTTTATTAATATTTTAATTTGATTTTTAAATGATATTTTATTATTTTATT
16246914 AGTATTTTATTTAGTATATATAAGAAAAGGAAGATGAAGAATCATCGATTCCACCATATTTCCAT
66 AGTATTTTATTTAGTATATATAAGAAAAGGAAGATGAAGAATCATCGATTCCACCATATTTCCAT
*
16246979 GCAACTAACCTGAGAAGAGAGGAGAAGAAAGAAAGTTTTGCTTTCTTTACAATTTGGTCCTTCCA
131 CCAACTAACCTGAGAAGAGAGGAGAAGAAAGAAAGTTTTGCTTTCTTTACAATTTGGTCCTTCCA
16247044 CCAAAAATTTACAATTTTCACCTAGAAATCAAAAGAATTTCCATAGCTTCTAAGAGAGAAGAATA
196 CCAAAAATTTACAATTTTCACCTAGAAATCAAAAGAATTTCCATAGCTTCTAAGAGAGAAGAATA
* * *
16247109 GCAATGAGACAATGGGGAGCTAGAATATCAAGTTAGATTCAAGAAATAGAAGTTTTAGGAGAGAG
261 ACAATGAGACAATGCGGAGCTAGAATATCAAGTTAGATTCAAGAAATAGAAGTTGTAGGAGAGAG
16247174 AAAATCAAGTTAAAGATTGAAATCAATAGCACAAGGTAAGAACATCAAGATTTCAATATATTTTT
326 AAAATCAAGTTAAAGATTGAAATCAATAGCACAAGGTAAGAACATCAAGATTTCAATATATTTTT
16247239 AAGTTTGATATTATTGAAAAAGTATGGAAATAATGTTATAGTAAAGTTTTCTT
391 AAGTTTGATATTATTGAAAAAGTATGGAAATAATGTTATAGTAAAGTTTTCTT
16247292 ATTAAATAAATATTAGTTTATTAATATTTTAATTTGATTTTTAAATGATATTTTATTATTTTATT
1 ATTAAATAAATATTAGTTTATTAATATTTTAATTTGATTTTTAAATGATATTTTATTATTTTATT
16247357 AGTATTTTATTTAGTATATATAAGAAAAGGAAGATGAAGAATCATCGATTCCACCATATTTCCAT
66 AGTATTTTATTTAGTATATATAAGAAAAGGAAGATGAAGAATCATCGATTCCACCATATTTCCAT
16247422 CCAACTAACCTGAGAAGAGAGGAGAAGAAAGAAAGTTTTGCTTTCTTTACAATTTGGTCCTTCCA
131 CCAACTAACCTGAGAAGAGAGGAGAAGAAAGAAAGTTTTGCTTTCTTTACAATTTGGTCCTTCCA
*
16247487 CCAAAAATTTACCATTTTCACCTAGAAATCAAAAGAATTTCCATAGCTTCTAAGAGAGAAGAATA
196 CCAAAAATTTACAATTTTCACCTAGAAATCAAAAGAATTTCCATAGCTTCTAAGAGAGAAGAATA
16247552 ACAATGAGACAATGCGGAGCTAGAATATCAAGTTAGATTCAAGAAATAGAAGTTGTAGGAGAGAG
261 ACAATGAGACAATGCGGAGCTAGAATATCAAGTTAGATTCAAGAAATAGAAGTTGTAGGAGAGAG
*
16247617 AAAATCAAGTTGAAGATTGAAATCAATAGCACAAGGTAAGAACATCAAGATTTCAATATATTTTT
326 AAAATCAAGTTAAAGATTGAAATCAATAGCACAAGGTAAGAACATCAAGATTTCAATATATTTTT
16247682 AAGTTTGATATTATTGAAAAAGTATGGAAATAA
391 AAGTTTGATATTATTGAAAAAGTATGGAAATAA
16247715 GTGAAAGTGA
Statistics
Matches: 416, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
443 416 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (443 bp):
ATTAAATAAATATTAGTTTATTAATATTTTAATTTGATTTTTAAATGATATTTTATTATTTTATT
AGTATTTTATTTAGTATATATAAGAAAAGGAAGATGAAGAATCATCGATTCCACCATATTTCCAT
CCAACTAACCTGAGAAGAGAGGAGAAGAAAGAAAGTTTTGCTTTCTTTACAATTTGGTCCTTCCA
CCAAAAATTTACAATTTTCACCTAGAAATCAAAAGAATTTCCATAGCTTCTAAGAGAGAAGAATA
ACAATGAGACAATGCGGAGCTAGAATATCAAGTTAGATTCAAGAAATAGAAGTTGTAGGAGAGAG
AAAATCAAGTTAAAGATTGAAATCAATAGCACAAGGTAAGAACATCAAGATTTCAATATATTTTT
AAGTTTGATATTATTGAAAAAGTATGGAAATAATGTTATAGTAAAGTTTTCTT
Found at i:16260089 original size:6 final size:6
Alignment explanation
Indices: 16260078--16260105 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
16260068 AAAAAGATGA
16260078 AAAATG AAAATG AAAATG AAAATG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAA
16260106 AGTGAAAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:16261488 original size:87 final size:87
Alignment explanation
Indices: 16261342--16261870 Score: 781
Period size: 87 Copynumber: 6.1 Consensus size: 87
16261332 AGATTAGTGA
* * * *
16261342 AGATCAAAAACAAAACCTTGCCTCCATCAGTTGCAGTGAAGCTGGTTGAAGATAGCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
16261407 CTTCCTGTGTTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* * * *
16261429 AGATCGAAAATAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
16261494 CTTCCTACGTTAACAGTGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* * * *
16261516 CGATCAAAAACAAAGCCTTGCTTCCATCGGTTGCGGTGGAGCTGGTTGAAGATAGCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
**
16261581 CTTCCTGCGTTAACAGCGAAAT
66 CTTCCTGCGTTAACAGCGAAGC
*
16261603 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTTGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
16261668 CTTCCTGTGTTAACAACGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* * * *
16261690 AGATCGAAAGCAAAGCCTTGCCTCCATCGGTTGCAGTGGAGTTGGTTAAAGATAGCAGATCTTAC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
16261755 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
* *
16261777 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTG-AGTGGAGCTAGTTAAAGATAGCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* ** *
16261841 CCTCCTGCGTCGACAGTGAAGC
66 CTTCCTGCGTTAACAGCGAAGC
16261863 AGATCAAA
1 AGATCAAA
16261871 GATTACAAGT
Statistics
Matches: 398, Mismatches: 44, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
86 53 0.13
87 345 0.87
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (87 bp):
AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCGTTAACAGCGAAGC
Done.