Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007366.1 Hibiscus syriacus cultivar Beakdansim tig00019759_pilon, whole genome shotgun sequence
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: 142436
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:190 original size:2 final size:2
Alignment explanation
Indices: 183--222 Score: 62
Period size: 2 Copynumber: 19.0 Consensus size: 2
173 AATGAAATAC
183 AT AT AT AT AT AT AT AT AT GAT AT ACT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT -AT AT A-T AT AT AT AT AT AT AT
223 TTTAAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 32 0.89
3 4 0.11
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:266 original size:35 final size:37
Alignment explanation
Indices: 208--276 Score: 90
Period size: 35 Copynumber: 1.9 Consensus size: 37
198 TATGATATAC
*
208 TATATATATATATATTTTAAAAAA-ATTGTTTTAAATT
1 TATATATACATATATTTTAAAAAATATT-TTTTAAATT
*
245 TATATA-ACATATA-TTTCAAAAATATTTTTTAA
1 TATATATACATATATTTTAAAAAATATTTTTTAA
277 CTATATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 14 0.48
36 9 0.31
37 6 0.21
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (37 bp):
TATATATACATATATTTTAAAAAATATTTTTTAAATT
Found at i:291 original size:31 final size:35
Alignment explanation
Indices: 210--297 Score: 103
Period size: 36 Copynumber: 2.6 Consensus size: 35
200 TGATATACTA
* *
210 TATATATATATATTTTAAAAAAATTGTTTTAAATT
1 TATATACATATATTTTAAAAAAATTGTTTTAAATC
* *
245 TATATAACATATATTTCAAAAATATT-TTTT-AA-C
1 TATAT-ACATATATTTTAAAAAAATTGTTTTAAATC
278 TATATA-ATATATTTTAAAAA
1 TATATACATATATTTTAAAAA
298 GTTTTCAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
31 13 0.28
32 1 0.02
33 5 0.11
34 2 0.04
35 9 0.19
36 17 0.36
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (35 bp):
TATATACATATATTTTAAAAAAATTGTTTTAAATC
Found at i:320 original size:38 final size:38
Alignment explanation
Indices: 278--510 Score: 244
Period size: 39 Copynumber: 6.1 Consensus size: 38
268 ATTTTTTAAC
* *
278 TATATAATATATTTTAAAAA-G-TTTTCAAAACTATATAT
1 TATATAAT-T-TTTCAAAAATGTTTTTAAAAACTATATAT
316 TATATAATTTTTCAAAAATGTTTTTTAAAAACTATATAT
1 TATATAATTTTTCAAAAATG-TTTTTAAAAACTATATAT
* * *
355 TATATAATTTTTTTAAAAATGTTTTTTAAAAGTATATAT
1 TATATAA-TTTTTCAAAAATGTTTTTAAAAACTATATAT
*
394 TATATAAGTTTTCAAAAATGTTTTTAAAAACTATATAT
1 TATATAATTTTTCAAAAATGTTTTTAAAAACTATATAT
* * * *
432 TATAT-ATATTTTC-AAAATATTTTCAAAAACTATACAA
1 TATATAAT-TTTTCAAAAATGTTTTTAAAAACTATATAT
* * * *
469 TATATAAATTTTCGAAAATCGTTTGTGAAAA-T-TATAT
1 TATATAATTTTTCAAAAAT-GTTTTTAAAAACTATATAT
506 TATAT
1 TATAT
511 TTTGTCAAAA
Statistics
Matches: 166, Mismatches: 21, Indels: 17
0.81 0.10 0.08
Matches are distributed among these distances:
36 8 0.05
37 41 0.25
38 52 0.31
39 53 0.32
40 12 0.07
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.46
Consensus pattern (38 bp):
TATATAATTTTTCAAAAATGTTTTTAAAAACTATATAT
Found at i:790 original size:43 final size:40
Alignment explanation
Indices: 628--876 Score: 204
Period size: 42 Copynumber: 6.0 Consensus size: 40
618 CTACATATAC
* * *
628 CTTTATAATTGAG-CTCTTAA-TTTTCAATCTCACTTTCTA
1 CTTTATAATTGAGAC-CCTAATTTTTTAATCTCACTTTTTA
*
667 CCTTTATAATTGAGCCCCTAATTTTTTAATCTCA-TTTTTA
1 -CTTTATAATTGAGACCCTAATTTTTTAATCTCACTTTTTA
* *
707 CCTTATAATTGAGACCTCT-ATTTTTTCAT-TC-CTATCTTTTA
1 CTTTATAATTGAGACC-CTAATTTTTTAATCTCAC--T-TTTTA
* * *
748 CTTATATAATTTAGTTCCCTAATTTTTTCAGTCTCACTTTTTA
1 CTT-TATAATTGAG-ACCCTAATTTTTT-AATCTCACTTTTTA
* * *
791 CTTTTAAAATTGAGGCCCCTAATATTTTAATCTCACTTTTTA
1 C-TTTATAATTGA-GACCCTAATTTTTTAATCTCACTTTTTA
* * *
833 CCTTTAAAATTGAGGAACATAATTTTTTAATCTCACTTTTTA
1 -CTTTATAATTGA-GACCCTAATTTTTTAATCTCACTTTTTA
875 CT
1 CT
877 AATCCTAATA
Statistics
Matches: 173, Mismatches: 20, Indels: 31
0.77 0.09 0.14
Matches are distributed among these distances:
38 2 0.01
39 23 0.13
40 25 0.14
41 21 0.12
42 60 0.35
43 34 0.20
44 5 0.03
45 2 0.01
46 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.49
Consensus pattern (40 bp):
CTTTATAATTGAGACCCTAATTTTTTAATCTCACTTTTTA
Found at i:832 original size:85 final size:82
Alignment explanation
Indices: 647--876 Score: 218
Period size: 85 Copynumber: 2.8 Consensus size: 82
637 TGAGCTCTTA
* *
647 ATTTTCAATCTCACTTTCTACCTTTATAATTGAGCCCCTAATTTTTTAATCTCA-TTTTTAC-CT
1 ATTTT-AATCTCACTTTTTACCTTTATAATTGAGACCCTAATTTTTTAATCTCACTTTTTACTCT
* *
710 TATAATTGAGACCTCTAT
65 TAAAATTGAGACCCCTAT
* * * * *
728 TTTTTCAT-TC-CTATCTTTTA-CTTATATAATTTAGTTCCCTAATTTTTTCAGTCTCACTTTTT
1 ATTTTAATCTCAC--T-TTTTACCTT-TATAATTGAG-ACCCTAATTTTTT-AATCTCACTTTTT
* *
790 ACTTTTAAAATTGAGGCCCCTAAT
60 ACTCTTAAAATTGAGACCCCT-AT
* * *
814 ATTTTAATCTCACTTTTTACCTTTAAAATTGAGGAACATAATTTTTTAATCTCACTTTTTACT
1 ATTTTAATCTCACTTTTTACCTTTATAATTGA-GACCCTAATTTTTTAATCTCACTTTTTACT
877 AATCCTAATA
Statistics
Matches: 118, Mismatches: 18, Indels: 23
0.74 0.11 0.14
Matches are distributed among these distances:
78 1 0.01
79 2 0.02
80 6 0.05
81 17 0.14
82 12 0.10
83 6 0.05
84 22 0.19
85 36 0.31
86 13 0.11
87 2 0.02
88 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.05, T:0.49
Consensus pattern (82 bp):
ATTTTAATCTCACTTTTTACCTTTATAATTGAGACCCTAATTTTTTAATCTCACTTTTTACTCTT
AAAATTGAGACCCCTAT
Found at i:4837 original size:19 final size:19
Alignment explanation
Indices: 4793--4872 Score: 88
Period size: 19 Copynumber: 3.9 Consensus size: 19
4783 AAATGTTAAT
4793 AAATCAAAGAAAAACATAAAATA
1 AAATCAAA-AAAAA-A-AAAA-A
*
4816 AAATCAAAAGAAAAAGAAAA
1 AAATCAAAA-AAAAAAAAAA
*
4836 AAATCAAAAAAAAAAAAAC
1 AAATCAAAAAAAAAAAAAA
4855 AAATCAAAAAAGAAAAAA
1 AAATCAAAAAA-AAAAAA
4873 TGAGATAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
19 19 0.37
20 16 0.31
21 3 0.06
22 2 0.04
23 12 0.23
ACGTcount: A:0.80, C:0.07, G:0.05, T:0.07
Consensus pattern (19 bp):
AAATCAAAAAAAAAAAAAA
Found at i:4919 original size:20 final size:20
Alignment explanation
Indices: 4881--4918 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4871 AATGAGATAA
4881 AACAAAATATAAAATAAAAT
1 AACAAAATATAAAATAAAAT
*
4901 AACAAAATA-ATAATAAAA
1 AACAAAATATAAAATAAAA
4919 AAATATTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (20 bp):
AACAAAATATAAAATAAAAT
Found at i:4921 original size:14 final size:13
Alignment explanation
Indices: 4810--4923 Score: 63
Period size: 12 Copynumber: 8.5 Consensus size: 13
4800 AGAAAAACAT
*
4810 AAAATAAAATCAA
1 AAAATAAAATAAA
* *
4823 AAGA-AAAAGAAA
1 AAAATAAAATAAA
4835 AAAATCAAAA-AAA
1 AAAAT-AAAATAAA
*
4848 AAAAAACAAATCAAA
1 AAAATA-AAAT-AAA
* *
4863 AAAGAAAAAATGAGAT
1 AAA-ATAAAAT-A-AA
* *
4879 AAAACAAAAT-AT
1 AAAATAAAATAAA
*
4891 AAAATAAAATAAC
1 AAAATAAAATAAA
4904 AAAATAATAATAAA
1 AAAATAA-AATAAA
4918 AAAATA
1 AAAATA
4924 TTGAATGGAT
Statistics
Matches: 81, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
12 21 0.26
13 21 0.26
14 15 0.19
15 17 0.21
16 7 0.09
ACGTcount: A:0.78, C:0.05, G:0.04, T:0.12
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:9274 original size:12 final size:12
Alignment explanation
Indices: 9259--9300 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
9249 CATAGTTTTC
*
9259 CAAGGCATATTG
1 CAAGGCATATGG
9271 CAAGGCATATGG
1 CAAGGCATATGG
*
9283 CAAGGAATATGG
1 CAAGGCATATGG
9295 CAAGGC
1 CAAGGC
9301 TTGCAAGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.36, C:0.17, G:0.31, T:0.17
Consensus pattern (12 bp):
CAAGGCATATGG
Found at i:9589 original size:22 final size:23
Alignment explanation
Indices: 9555--9597 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
9545 GTCACTACAA
9555 ATTGCTTTATTAT-TATTATTTC
1 ATTGCTTTATTATATATTATTTC
9577 ATTGCATTT-TTATATATTATT
1 ATTGC-TTTATTATATATTATT
9598 ATATATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.63
Consensus pattern (23 bp):
ATTGCTTTATTATATATTATTTC
Found at i:10665 original size:15 final size:15
Alignment explanation
Indices: 10645--10683 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
10635 GCTGGTGGTT
10645 AGAAGACTTTGGCTA
1 AGAAGACTTTGGCTA
10660 AGAAGACTTTGGCTA
1 AGAAGACTTTGGCTA
10675 AGAAGACTT
1 AGAAGACTT
10684 GGACATTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (15 bp):
AGAAGACTTTGGCTA
Found at i:11499 original size:31 final size:31
Alignment explanation
Indices: 11455--11525 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 31
11445 TCCTTAATTT
* *
11455 TTTATTATATTTTTT-ATTTTTATAATTTAATC
1 TTTATAAT-TTTTTTCAATTTTAT-ATTTAATC
* *
11487 TTT-TAATTTTTTTCAATTTTATTTTTTATC
1 TTTATAATTTTTTTCAATTTTATATTTAATC
11517 TTTATAATT
1 TTTATAATT
11526 GAGGTTCCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
30 15 0.45
31 15 0.45
32 3 0.09
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.70
Consensus pattern (31 bp):
TTTATAATTTTTTTCAATTTTATATTTAATC
Found at i:11541 original size:43 final size:42
Alignment explanation
Indices: 11494--11917 Score: 303
Period size: 43 Copynumber: 10.1 Consensus size: 42
11484 ATCTTTTAAT
* * * *
11494 TTTTTTCAATTTTATTTTTTATCTTTATAATTGAGGTTCCTAA
1 TTTTTTCAATCTCATTTTTTACCTTTATAATTGA-GTCCCTAA
*
11537 TTTTTTTAAT-T-ATACTTTTTA-C-TT-T--TT-A-TCCCTTAA
1 TTTTTTCAATCTCAT--TTTTTACCTTTATAATTGAGTCCC-TAA
* * * *
11573 TTTTTTCAATTTCATTTTTTTACATTTATAATTGACGACTCTAA
1 TTTTTTCAATCTCA-TTTTTTACCTTTATAATTGA-GTCCCTAA
* * *
11617 -ATTTTCAATCCTACA--TTGTACCTTTATAATTGAG-CTC-ATA
1 TTTTTTCAAT-CT-CATTTTTTACCTTTATAATTGAGTCCCTA-A
* *
11657 TTTTTTCAATCTCA-CTTTTACCTTTATAATTGAGCCCCTAA
1 TTTTTTCAATCTCATTTTTTACCTTTATAATTGAGTCCCTAA
11698 TTTTTT-AATCTCATTTTTTACCTTTATAATTGA-TGCCTCTAA
1 TTTTTTCAATCTCATTTTTTACCTTTATAATTGAGT-CC-CTAA
* * * *
11740 TTTTTTTAATCTCATCTTCTA-CTTATATAATTTAGTTCCCTAA
1 TTTTTTCAATCTCATTTTTTACCTT-TATAATTGAG-TCCCTAA
* * *
11783 TTTTTTCAATCTCACTTTTTT-CCTTTAAAACTGAGACCCCTAA
1 TTTTTTCAATCTCA-TTTTTTACCTTTATAATTGAG-TCCCTAA
* * * *
11826 TTTTTTTTAATCTCACTTTTTACCTTTAAAATTGAGGCCCCTAA
1 -TTTTTTCAATCTCATTTTTTACCTTTATAATTGA-GTCCCTAA
* *
11870 TTTTTTTAATCTCACTTTTTACCTTTATAATTGAAG-CCCTAA
1 TTTTTTCAATCTCATTTTTTACCTTTATAATTG-AGTCCCTAA
11912 TTTTTT
1 TTTTTT
11918 TAATTAAACT
Statistics
Matches: 317, Mismatches: 30, Indels: 69
0.76 0.07 0.17
Matches are distributed among these distances:
35 3 0.01
36 12 0.04
37 8 0.03
38 3 0.01
39 6 0.02
40 33 0.10
41 42 0.13
42 46 0.15
43 112 0.35
44 46 0.15
45 6 0.02
ACGTcount: A:0.25, C:0.18, G:0.05, T:0.52
Consensus pattern (42 bp):
TTTTTTCAATCTCATTTTTTACCTTTATAATTGAGTCCCTAA
Found at i:11565 original size:44 final size:43
Alignment explanation
Indices: 11441--11565 Score: 130
Period size: 44 Copynumber: 2.9 Consensus size: 43
11431 AATATTTTAT
*
11441 AGGTTCCTTAA-TTTTTT-ATTATATTTTTTATTTTTATAATTT
1 AGGTTCC-TAATTTTTTTAATTATATTTTTTATTTTTATAATTG
* ** * *
11483 A-ATCTTTTAATTTTTTTCAATTTTATTTTTTATCTTTATAATTG
1 AGGT-TCCTAATTTTTTT-AATTATATTTTTTATTTTTATAATTG
*
11527 AGGTTCCTAATTTTTTTAATTATACTTTTTACTTTTTAT
1 AGGTTCCTAATTTTTTTAATTATATTTTTTA-TTTTTAT
11566 CCCTTAATTT
Statistics
Matches: 65, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
41 4 0.06
42 8 0.12
43 12 0.18
44 40 0.62
45 1 0.02
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.65
Consensus pattern (43 bp):
AGGTTCCTAATTTTTTTAATTATATTTTTTATTTTTATAATTG
Found at i:11644 original size:42 final size:40
Alignment explanation
Indices: 11597--11730 Score: 128
Period size: 40 Copynumber: 3.3 Consensus size: 40
11587 TTTTTTTACA
11597 TTTATAATTGACGACTC-TAAATTTTCAATC-CTACATTGTACC
1 TTTATAATTGA-G-CTCATAAATTTTCAATCTC-AC-TTGTACC
** *
11639 TTTATAATTGAGCTCATATTTTTTCAATCTCACTTTTACC
1 TTTATAATTGAGCTCATAAATTTTCAATCTCACTTGTACC
* * * * * *
11679 TTTATAATTGAGCCCCTAATTTTTTAATCTCATTTTTTACC
1 TTTATAATTGAGCTCATAAATTTTCAATCTCA-CTTGTACC
11720 TTTATAATTGA
1 TTTATAATTGA
11731 TGCCTCTAAT
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
40 37 0.46
41 32 0.40
42 12 0.15
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.48
Consensus pattern (40 bp):
TTTATAATTGAGCTCATAAATTTTCAATCTCACTTGTACC
Found at i:11875 original size:87 final size:86
Alignment explanation
Indices: 11637--11918 Score: 316
Period size: 87 Copynumber: 3.3 Consensus size: 86
11627 CTACATTGTA
* * *
11637 CCTTTATAATTGAG-CTCAT-A-TTTTTTCAATCTCAC-TTTTACCTTTATAATTGA-GCCCCTA
1 CCTTTATAATTGAGACCCCTAATTTTTTTTAATCTCACTTTTTACCTTTATAATTGAGGCCCCTA
11697 ATTTTTTAATCTCA-TTTTTT
66 ATTTTTTAATCTCACTTTTTT
* * * **
11717 ACCTTTATAATTGATG-CCTCTAA-TTTTTTTAATCTCA-TCTTCTA-CTTATATAATTTAGTTC
1 -CCTTTATAATTGA-GACCCCTAATTTTTTTTAATCTCACT-TTTTACCTT-TATAATTGAGGCC
11778 CCTAATTTTTTCAATCTCACTTTTTT
62 CCTAATTTTTT-AATCTCACTTTTTT
* * *
11804 CCTTTAAAACTGAGACCCCTAATTTTTTTTAATCTCACTTTTTACCTTTAAAATTGAGGCCCCTA
1 CCTTTATAATTGAGACCCCTAATTTTTTTTAATCTCACTTTTTACCTTTATAATTGAGGCCCCTA
*
11869 ATTTTTTTAATCTCACTTTTTA
66 A-TTTTTTAATCTCACTTTTTT
*
11891 CCTTTATAATTGA-AGCCCTAATTTTTTT
1 CCTTTATAATTGAGACCCCTAATTTTTTT
11919 AATTAAACTT
Statistics
Matches: 168, Mismatches: 20, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
81 13 0.08
82 3 0.02
83 17 0.10
84 12 0.07
85 13 0.08
86 38 0.23
87 62 0.37
88 10 0.06
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.50
Consensus pattern (86 bp):
CCTTTATAATTGAGACCCCTAATTTTTTTTAATCTCACTTTTTACCTTTATAATTGAGGCCCCTA
ATTTTTTAATCTCACTTTTTT
Found at i:11899 original size:130 final size:126
Alignment explanation
Indices: 11635--11939 Score: 354
Period size: 130 Copynumber: 2.4 Consensus size: 126
11625 TCCTACATTG
* * * * *
11635 TACCTTTATAATTGAG-CTC-ATATTTTTTCAATCTCAC-TTTTACCTTTATAATTGAGCCCCTA
1 TACCTTTATAATTAAGTCCCTA-ATTTTTTCAATCTCACTTTTTTCCTTTAAAACTGAGCCCCTA
* * * *
11697 ATTTTTTAATCTCATTTTTTACCTTTATAATTGATGCCTCTAATTTTTTTAATCTCATCTTC
65 ATTTTTTAATCTCACTTTTTACCTTTAAAATTGAGGCCCCTAATTTTTTTAATCTCATCTTC
*
11759 TA-CTTATATAATTTAGTTCCCTAATTTTTTCAATCTCACTTTTTTCCTTTAAAACTGAGACCCC
1 TACCTT-TATAATTAAG-TCCCTAATTTTTTCAATCTCACTTTTTTCCTTTAAAACTGAG-CCCC
11823 TAATTTTTTTTAATCTCACTTTTTACCTTTAAAATTGAGGCCCCTAATTTTTTTAATCTCA-CTT
63 TAA--TTTTTTAATCTCACTTTTTACCTTTAAAATTGAGGCCCCTAATTTTTTTAATCTCATC-T
*
11887 TT
125 TC
* * *
11889 TACCTTTATAATTGAAG-CCCTAATTTTTTTAAT-TAAACTTTTTTACTTTAA
1 TACCTTTATAATT-AAGTCCCTAATTTTTTCAATCT-CACTTTTTTCCTTTAA
11940 TAGTTTAAGC
Statistics
Matches: 155, Mismatches: 14, Indels: 19
0.82 0.07 0.10
Matches are distributed among these distances:
123 3 0.02
124 11 0.07
126 18 0.12
127 17 0.11
128 8 0.05
129 30 0.19
130 63 0.41
131 5 0.03
ACGTcount: A:0.26, C:0.19, G:0.05, T:0.50
Consensus pattern (126 bp):
TACCTTTATAATTAAGTCCCTAATTTTTTCAATCTCACTTTTTTCCTTTAAAACTGAGCCCCTAA
TTTTTTAATCTCACTTTTTACCTTTAAAATTGAGGCCCCTAATTTTTTTAATCTCATCTTC
Found at i:11932 original size:43 final size:44
Alignment explanation
Indices: 11570--11958 Score: 316
Period size: 43 Copynumber: 9.2 Consensus size: 44
11560 TTTTATCCCT
* * * * * * *
11570 TAATTTTTTCAATTTCATTTTTTTACATTTATAATTGACGACTC
1 TAATTTTTTTAATCTCACTTTTTTACCTTTATAATTGAAGCCCC
* * * * * *
11614 TAA-ATTTTCAATC-CTAC-ATTGTACCTTTATAATTG-AGCTCA
1 TAATTTTTTTAATCTC-ACTTTTTTACCTTTATAATTGAAGCCCC
*
11655 T-ATTTTTTCAATCTCAC--TTTTACCTTTATAATTG-AGCCCC
1 TAATTTTTTTAATCTCACTTTTTTACCTTTATAATTGAAGCCCC
* *
11695 TAA-TTTTTTAATCTCA-TTTTTTACCTTTATAATTGATGCCTC
1 TAATTTTTTTAATCTCACTTTTTTACCTTTATAATTGAAGCCCC
* * * *
11737 TAATTTTTTTAATCTCA-TCTTCTA-CTTATATAATT-TAGTTCCC
1 TAATTTTTTTAATCTCACTTTTTTACCTT-TATAATTGAAG-CCCC
* * *
11780 TAATTTTTTCAATCTCACTTTTTT-CCTTTAAAACTG-AGACCCC
1 TAATTTTTTTAATCTCACTTTTTTACCTTTATAATTGAAG-CCCC
* *
11823 TAATTTTTTTTAATCTCAC-TTTTTACCTTTAAAATTGAGGCCCC
1 TAA-TTTTTTTAATCTCACTTTTTTACCTTTATAATTGAAGCCCC
11867 TAATTTTTTTAATCTCAC-TTTTTACCTTTATAATTGAAG-CCC
1 TAATTTTTTTAATCTCACTTTTTTACCTTTATAATTGAAGCCCC
* * *
11909 TAATTTTTTTAAT-TAAACTTTTTTA-CTTTAATAGTTTAAGCCCC
1 TAATTTTTTTAATCT-CACTTTTTTACCTTT-ATAATTGAAGCCCC
11953 T-ATTTT
1 TAATTTT
11959 AATCATTTTT
Statistics
Matches: 286, Mismatches: 39, Indels: 41
0.78 0.11 0.11
Matches are distributed among these distances:
40 34 0.12
41 32 0.11
42 50 0.17
43 123 0.43
44 46 0.16
45 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.05, T:0.50
Consensus pattern (44 bp):
TAATTTTTTTAATCTCACTTTTTTACCTTTATAATTGAAGCCCC
Found at i:13157 original size:28 final size:29
Alignment explanation
Indices: 13125--13182 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
13115 TGAGTAATTC
*
13125 AAAAGTTTATTAAGTAAAATA-AAAAAAT
1 AAAAGTATATTAAGTAAAATAGAAAAAAT
13153 AAAAGTATATTAAGTAAAATAGGAAAAAAT
1 AAAAGTATATTAAGTAAAATA-GAAAAAAT
13183 GGTAAAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 20 0.74
30 7 0.26
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (29 bp):
AAAAGTATATTAAGTAAAATAGAAAAAAT
Found at i:16416 original size:39 final size:39
Alignment explanation
Indices: 16362--16464 Score: 143
Period size: 39 Copynumber: 2.6 Consensus size: 39
16352 AAGTTTAATT
***
16362 GTTTTTGTTTCATTTTAGTACTCATTGTTAAAAACTTCA
1 GTTTTTGTTTCATTTTAGTACTCACAATTAAAAACTTCA
* *
16401 GTTTTTGTTTCATTTTAGTACCACACAATTAAAAACTTTA
1 GTTTTTGTTTCATTTTAGTA-CTCACAATTAAAAACTTCA
16441 GTTTTTTGTTTCATTTTAGTACTC
1 G-TTTTTGTTTCATTTTAGTACTC
16465 GTTCAAAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
39 20 0.36
40 17 0.30
41 19 0.34
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51
Consensus pattern (39 bp):
GTTTTTGTTTCATTTTAGTACTCACAATTAAAAACTTCA
Found at i:16744 original size:22 final size:21
Alignment explanation
Indices: 16717--16780 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
16707 TTTTTATTAT
16717 ATTTTTTATTTTTATAATTGA
1 ATTTTTTATTTTTATAATTGA
* * **
16738 ATCTTTTAATTTTTTTAATTTT
1 AT-TTTTTATTTTTATAATTGA
*
16760 ATTTTTTATCTTTATAATTGA
1 ATTTTTTATTTTTATAATTGA
16781 GGTCCCTAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
21 16 0.48
22 17 0.52
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (21 bp):
ATTTTTTATTTTTATAATTGA
Found at i:16763 original size:43 final size:43
Alignment explanation
Indices: 16702--16818 Score: 132
Period size: 43 Copynumber: 2.7 Consensus size: 43
16692 TAATACTTTT
*
16702 CTAA-TTTTTT-ATTATATTTTTTATTTTTATAATTGA-ATCTT
1 CTAATTTTTTTAATTATATTTTTTATTTTTATAATTGAGATC-C
* * * *
16743 TTAATTTTTTTAATTTTATTTTTTATCTTTATAATTGAGGTCC
1 CTAATTTTTTTAATTATATTTTTTATTTTTATAATTGAGATCC
* *
16786 CTAATTTTTTTAATTCTACTTTTTACTTTTTAT
1 CTAATTTTTTTAATTATATTTTTTA-TTTTTAT
16819 CCTTTAATTT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
41 3 0.05
42 6 0.10
43 46 0.73
44 8 0.13
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.65
Consensus pattern (43 bp):
CTAATTTTTTTAATTATATTTTTTATTTTTATAATTGAGATCC
Found at i:16929 original size:42 final size:42
Alignment explanation
Indices: 16827--17218 Score: 282
Period size: 42 Copynumber: 9.2 Consensus size: 42
16817 ATCCTTTAAT
* * * * *
16827 TTTTTCAATCTCATTTTTTTTACATTTATAATTGACGACT-TTAAG
1 TTTTTCAATCTCA--CTTTATACCTTTATAATTGA-G-CTCCTAAA
* * * *
16872 TTTTTCAATCCCACTTTATACATTTATAAATGAACTCCTAAA
1 TTTTTCAATCTCACTTTATACCTTTATAATTGAGCTCCTAAA
* *
16914 ATTTTCAATCTCACTTTCTACCTTTATAATTGAGCCTCCTAAA
1 TTTTTCAATCTCACTTTATACCTTTATAATTGAG-CTCCTAAA
* * *
16957 TTTTT-AATCTCATTTTTTACGTTTATAATTGAGGCGT-CT-AA
1 TTTTTCAATCTCACTTTATACCTTTATAATTGA-GC-TCCTAAA
* * * *
16998 TTTTTCAATCCCAACTTT-TA-CTTATATAATTTAGTTCCCTAAT
1 TTTTTCAATCTC-ACTTTATACCTT-TATAATTGAGCT-CCTAAA
** * * * *
17041 TTTTTCGGTCTCACTTTTTACCTTTAAAATTAAGGC-CTCTAAT
1 TTTTTCAATCTCACTTTATACCTTTATAATTGA-GCTC-CTAAA
* * *
17084 TTTTTTAATCTCACTTTATACATTTATAATTGAGCTCCTAAT
1 TTTTTCAATCTCACTTTATACCTTTATAATTGAGCTCCTAAA
* * *
17126 TTTTTCAATCTCACTTTCTACCTTTATAATTGGGCCCCT-AA
1 TTTTTCAATCTCACTTTATACCTTTATAATTGAGCTCCTAAA
* * * *
17167 TTTTTTAATCTCATTTTTTACGTTTATAATTGAGGACT-CT-AA
1 TTTTTCAATCTCACTTTATACCTTTATAATTGA-G-CTCCTAAA
17209 TTTTTCAATC
1 TTTTTCAATC
17219 CCATCTTTTA
Statistics
Matches: 281, Mismatches: 49, Indels: 37
0.77 0.13 0.10
Matches are distributed among these distances:
40 1 0.00
41 41 0.15
42 136 0.48
43 87 0.31
44 4 0.01
45 12 0.04
ACGTcount: A:0.27, C:0.19, G:0.06, T:0.48
Consensus pattern (42 bp):
TTTTTCAATCTCACTTTATACCTTTATAATTGAGCTCCTAAA
Found at i:16961 original size:85 final size:83
Alignment explanation
Indices: 16827--17239 Score: 290
Period size: 85 Copynumber: 4.9 Consensus size: 83
16817 ATCCTTTAAT
* * * * *
16827 TTTTTCAATCTCATTTTTTTTACATTTATAATTGACGACT-TTAAGTTTTTCAATCCCACTTTAT
1 TTTTTCAATCTCA--CTTTTTACATTTATAATTGA-G-CTCCTAAATTTTTCAATCTCACTTTTT
*
16891 ACATTTATAAATGAACTCCTAAA
62 ACCTTTATAAATGAACTCCT-AA
* * * * *
16914 ATTTTCAATCTCACTTTCTACCTTTATAATTGAGCCTCCTAAATTTTT-AATCTCATTTTTTACG
1 TTTTTCAATCTCACTTTTTACATTTATAATTGAG-CTCCTAAATTTTTCAATCTCACTTTTTACC
* *
16978 TTTATAATTGAGGCGT-CTAA
65 TTTATAAATGA-AC-TCCTAA
* * * * **
16998 TTTTTCAATCCCAAC-TTTTAC-TTATATAATTTAGTTCCCTAATTTTTTCGGTCTCACTTTTTA
1 TTTTTCAATCTC-ACTTTTTACATT-TATAATTGAGCT-CCTAAATTTTTCAATCTCACTTTTTA
*
17061 CCTTTA-AAATTAAGGC-CTCTAA
63 CCTTTATAAATGAA--CTC-CTAA
* * * *
17083 TTTTTTTAATCTCACTTTATACATTTATAATTGAGCTCCTAATTTTTTCAATCTCACTTTCTACC
1 -TTTTTCAATCTCACTTTTTACATTTATAATTGAGCTCCTAAATTTTTCAATCTCACTTTTTACC
* ** *
17148 TTTATAATTGGGCCCCTAA
65 TTTATAAATGAACTCCTAA
* * * *
17167 TTTTTTAATCTCATTTTTTACGTTTATAATTGAGGACT-CT-AATTTTTCAATCCCA-TCTTTTA
1 TTTTTCAATCTCACTTTTTACATTTATAATTGA-G-CTCCTAAATTTTTCAATCTCACT-TTTTA
17229 -CTTATATAAAT
63 CCTT-TATAAAT
17240 TTAGTTCCCT
Statistics
Matches: 261, Mismatches: 45, Indels: 44
0.75 0.13 0.13
Matches are distributed among these distances:
82 4 0.02
83 56 0.21
84 73 0.28
85 85 0.33
86 29 0.11
87 14 0.05
ACGTcount: A:0.27, C:0.19, G:0.06, T:0.48
Consensus pattern (83 bp):
TTTTTCAATCTCACTTTTTACATTTATAATTGAGCTCCTAAATTTTTCAATCTCACTTTTTACCT
TTATAAATGAACTCCTAA
Found at i:17133 original size:212 final size:212
Alignment explanation
Indices: 16872--17258 Score: 661
Period size: 212 Copynumber: 1.8 Consensus size: 212
16862 CGACTTTAAG
16872 TTTTTCAATCCCACTTTATACATTTATAAATGAACTCCTAAAATTTTCAATCTCACTTTCTACCT
1 TTTTTCAATCCCACTTTATACATTTATAAATGAACTCCTAAAATTTTCAATCTCACTTTCTACCT
16937 TTATAATTGAGCCTCCTAAATTTTTAATCTCATTTTTTACGTTTATAATTGAGG-CGTCTAATTT
66 TTATAATTGAGCC-CCTAAATTTTTAATCTCATTTTTTACGTTTATAATTGAGGAC-TCTAATTT
17001 TTCAATCCCAACTTTTACTTATAT-AATTTAGTTCCCTAATTTTTTCGGTCTCACTTTTTACCTT
129 TTCAATCCCAACTTTTACTTATATAAATTTAGTTCCCTAATTTTTTCGGTCTCACTTTTTACCTT
17065 TAAAATTAAGGCCTCTAAT
194 TAAAATTAAGGCCTCTAAT
* * * * **
17084 TTTTTTAATCTCACTTTATACATTTATAATTGAGCTCCTAATTTTTTCAATCTCACTTTCTACCT
1 TTTTTCAATCCCACTTTATACATTTATAAATGAACTCCTAAAATTTTCAATCTCACTTTCTACCT
* *
17149 TTATAATTGGGCCCCTAATTTTTTAATCTCATTTTTTACGTTTATAATTGAGGACTCTAATTTTT
66 TTATAATTGAGCCCCTAAATTTTTAATCTCATTTTTTACGTTTATAATTGAGGACTCTAATTTTT
*
17214 CAATCCCATCTTTTACTTATATAAATTTAGTTCCCTAATTTTTTC
131 CAATCCCAACTTTTACTTATATAAATTTAGTTCCCTAATTTTTTC
17259 AGTTAAGCCC
Statistics
Matches: 164, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
211 70 0.43
212 94 0.57
ACGTcount: A:0.27, C:0.20, G:0.06, T:0.48
Consensus pattern (212 bp):
TTTTTCAATCCCACTTTATACATTTATAAATGAACTCCTAAAATTTTCAATCTCACTTTCTACCT
TTATAATTGAGCCCCTAAATTTTTAATCTCATTTTTTACGTTTATAATTGAGGACTCTAATTTTT
CAATCCCAACTTTTACTTATATAAATTTAGTTCCCTAATTTTTTCGGTCTCACTTTTTACCTTTA
AAATTAAGGCCTCTAAT
Found at i:17361 original size:42 final size:43
Alignment explanation
Indices: 17261--17361 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
17251 ATTTTTTCAG
** *
17261 TTAAGCCCCTAATTTTTTTAATCTCACTTTTTACCTTTAAAAT
1 TTAAGCCCCTAATTTTTTTAATCAAACATTTTACCTTTAAAAT
* * *
17304 TGAGGCCCCTAATTTTTTTAATCAAACATTTTA-CTTTAATAGT
1 TTAAGCCCCTAATTTTTTTAATCAAACATTTTACCTTTAA-AAT
17347 TTAAGCCCCT-ATTTT
1 TTAAGCCCCTAATTTT
17362 AATCATTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 11 0.22
43 38 0.78
ACGTcount: A:0.28, C:0.20, G:0.06, T:0.47
Consensus pattern (43 bp):
TTAAGCCCCTAATTTTTTTAATCAAACATTTTACCTTTAAAAT
Found at i:24550 original size:28 final size:28
Alignment explanation
Indices: 24510--24565 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
24500 GTTCAATTTG
24510 TTAAAATTTCAAAGCTAATATCAGTATC
1 TTAAAATTTCAAAGCTAATATCAGTATC
*
24538 TTAAAATTTCAAAGCTAATGTCAGTATC
1 TTAAAATTTCAAAGCTAATATCAGTATC
24566 AAATTTGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (28 bp):
TTAAAATTTCAAAGCTAATATCAGTATC
Found at i:28657 original size:34 final size:34
Alignment explanation
Indices: 28614--28683 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
28604 TAGTTAACCC
28614 AAGAAAATATTAAAACATATATGTTTATAAATCT
1 AAGAAAATATTAAAACATATATGTTTATAAATCT
28648 AAGAAAATATTAAAACATATATGTTTATAAATCT
1 AAGAAAATATTAAAACATATATGTTTATAAATCT
28682 AA
1 AA
28684 TTGGCTGAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (34 bp):
AAGAAAATATTAAAACATATATGTTTATAAATCT
Found at i:28849 original size:39 final size:41
Alignment explanation
Indices: 28806--28907 Score: 136
Period size: 41 Copynumber: 2.5 Consensus size: 41
28796 AAGTTTAGTT
* * * *
28806 ATTTTTGTTTCATTTTAGT-GCTCATCGTTAAAAACTTCA-
1 ATTTTTGTTTCATTTTAGTACCACACCATTAAAAACTTCAG
*
28845 ATTTTTGTTTCATTTTAGTACCACACCATTAAAAACTTTAG
1 ATTTTTGTTTCATTTTAGTACCACACCATTAAAAACTTCAG
*
28886 CTTTTTGTTTCATTTTAGTACC
1 ATTTTTGTTTCATTTTAGTACC
28908 CGTTCAAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 19 0.35
40 15 0.27
41 21 0.38
ACGTcount: A:0.25, C:0.17, G:0.09, T:0.49
Consensus pattern (41 bp):
ATTTTTGTTTCATTTTAGTACCACACCATTAAAAACTTCAG
Found at i:29105 original size:17 final size:16
Alignment explanation
Indices: 29083--29114 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
29073 CCAAAGGGAC
29083 AATACTTTTCTCAATTT
1 AATACTTTTCT-AATTT
29100 AATACTTTTCTAATT
1 AATACTTTTCTAATT
29115 CTTTTTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (16 bp):
AATACTTTTCTAATTT
Found at i:30406 original size:30 final size:30
Alignment explanation
Indices: 30346--30410 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
30336 TATTATTATA
* **
30346 TTTTTTATTTTTATAATTGAATCTTTTAAT
1 TTTTTTATCTTTATAATTGAATCTCCTAAT
*
30376 TTTTTTATCTTTATAATTGAGGTC-CCTAAT
1 TTTTTTATCTTTATAATTGA-ATCTCCTAAT
30406 TTTTT
1 TTTTT
30411 AATTCCACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.23, C:0.08, G:0.06, T:0.63
Consensus pattern (30 bp):
TTTTTTATCTTTATAATTGAATCTCCTAAT
Found at i:30517 original size:43 final size:42
Alignment explanation
Indices: 30377--30764 Score: 297
Period size: 42 Copynumber: 9.3 Consensus size: 42
30367 TCTTTTAATT
*
30377 TTTTTATCTTTATAATTGAGGTCC-CTAATTTTTT-AAT-TCCAC
1 TTTTTACCTTTATAATTGA-G-CCTCTAATTTTTTCAATCT-CAC
* * *
30419 ATTTTA-CTTT-TTA-T-A-CCT-TAATTTTTTTCAATCTCATT
1 TTTTTACCTTTATAATTGAGCCTCTAA-TTTTTTCAATCTCA-C
* * * * *
30457 TTTTTGCATTTATAATTGACGACTCTAAGTTTTTCAATCCCAC
1 TTTTTACCTTTATAATTGA-GCCTCTAATTTTTTCAATCTCAC
*
30500 TTTATACCTTTATAATTGAG-CTCCTAATTTTTTCAATCTCAC
1 TTTTTACCTTTATAATTGAGCCT-CTAATTTTTTCAATCTCAC
* * *
30542 TTTCTACCTTTATAATTGAGCCCCCTAATTTTTT-AATCTCAT
1 TTTTTACCTTTATAATTGAG-CCTCTAATTTTTTCAATCTCAC
*
30584 TTTTTACCTTTATAATTGAGGCCTCTAA-TTTTTCAATCCCA-
1 TTTTTACCTTTATAATTGA-GCCTCTAATTTTTTCAATCTCAC
* *
30625 TCTTTTA-CTTATATAATTTAGTTCC-CTAATTTTTTCAGTCTCAC
1 T-TTTTACCTT-TATAATTGAG--CCTCTAATTTTTTCAATCTCAC
* * * * *
30669 TTTTTACCTTTAAAATTAAGGCTCCTAATTTTTTTAATCTTAC
1 TTTTTACCTTTATAATTGAGCCT-CTAATTTTTTCAATCTCAC
* * **
30712 TTTTTACCTTTAAAATTGATGCC-CTAATTTTTTTAATCAAAC
1 TTTTTACCTTTATAATTGA-GCCTCTAATTTTTTCAATCTCAC
30754 TTTTTA-CTTTA
1 TTTTTACCTTTA
30765 ATAGTTTAAG
Statistics
Matches: 284, Mismatches: 35, Indels: 55
0.76 0.09 0.15
Matches are distributed among these distances:
35 5 0.02
36 6 0.02
37 5 0.02
38 6 0.02
39 4 0.01
40 4 0.01
41 23 0.08
42 120 0.42
43 87 0.31
44 21 0.07
45 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.05, T:0.51
Consensus pattern (42 bp):
TTTTTACCTTTATAATTGAGCCTCTAATTTTTTCAATCTCAC
Found at i:30543 original size:42 final size:43
Alignment explanation
Indices: 30441--30764 Score: 308
Period size: 42 Copynumber: 7.6 Consensus size: 43
30431 ATACCTTAAT
* * * *
30441 TTTTTTCAATCTCATTTTTTTGCATTTATAATTGACGACT-CTAA
1 TTTTTTCAATCTCA-CTTTTTACCTTTATAATTGA-GGCTCCTAA
* * *
30485 GTTTTTCAATCCCACTTTATACCTTTATAATTGA-GCTCCTAA
1 TTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCTCCTAA
* * *
30527 TTTTTTCAATCTCACTTTCTACCTTTATAATTGAGCCCCCTAA
1 TTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCTCCTAA
*
30570 TTTTTT-AATCTCATTTTTTACCTTTATAATTGAGGC-CTCTAA
1 TTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCTC-CTAA
* * *
30612 -TTTTTCAATCCCA-TCTTTTA-CTTATATAATTTA-GTTCCCTAA
1 TTTTTTCAATCTCACT-TTTTACCTT-TATAATTGAGGCT-CCTAA
* * *
30654 TTTTTTCAGTCTCACTTTTTACCTTTAAAATTAAGGCTCCTAA
1 TTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCTCCTAA
* * * *
30697 TTTTTTTAATCTTACTTTTTACCTTTAAAATTGATGC-CCTAA
1 TTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCTCCTAA
* **
30739 TTTTTTTAATCAAACTTTTTA-CTTTA
1 TTTTTTCAATCTCACTTTTTACCTTTA
30765 ATAGTTTAAG
Statistics
Matches: 238, Mismatches: 30, Indels: 27
0.81 0.10 0.09
Matches are distributed among these distances:
41 18 0.08
42 113 0.47
43 89 0.37
44 18 0.08
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.50
Consensus pattern (43 bp):
TTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCTCCTAA
Found at i:30737 original size:85 final size:85
Alignment explanation
Indices: 30441--30764 Score: 322
Period size: 85 Copynumber: 3.8 Consensus size: 85
30431 ATACCTTAAT
* * * * * * * *
30441 TTTTTTCAATCTCATTTTTTTGCATTTATAATTGACGACTCTAAGTTTTTCAATCCCACTTTATA
1 TTTTTTCAATCTCA-CTTTTTACCTTTATAATTGATG-CCCTAATTTTTTCAATCTCACTTTTTA
30506 CCTTTATAATTGA-GCTCCTAA
64 CCTTTATAATTGAGGCTCCTAA
* *
30527 TTTTTTCAATCTCACTTTCTACCTTTATAATTGA-GCCCCCTAATTTTTT-AATCTCATTTTTTA
1 TTTTTTCAATCTCACTTTTTACCTTTATAATTGATG--CCCTAATTTTTTCAATCTCACTTTTTA
30590 CCTTTATAATTGAGGC-CTCTAA
64 CCTTTATAATTGAGGCTC-CTAA
* * * *
30612 -TTTTTCAATCCCA-TCTTTTA-CTTATATAATTTAGTTCCCTAATTTTTTCAGTCTCACTTTTT
1 TTTTTTCAATCTCACT-TTTTACCTT-TATAATTGA-TGCCCTAATTTTTTCAATCTCACTTTTT
* *
30674 ACCTTTAAAATTAAGGCTCCTAA
63 ACCTTTATAATTGAGGCTCCTAA
* * * * **
30697 TTTTTTTAATCTTACTTTTTACCTTTAAAATTGATGCCCTAATTTTTTTAATCAAACTTTTTA-C
1 TTTTTTCAATCTCACTTTTTACCTTTATAATTGATGCCCTAATTTTTTCAATCTCACTTTTTACC
30761 TTTA
66 TTTA
30765 ATAGTTTAAG
Statistics
Matches: 198, Mismatches: 28, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
83 4 0.02
84 67 0.34
85 86 0.43
86 37 0.19
87 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.50
Consensus pattern (85 bp):
TTTTTTCAATCTCACTTTTTACCTTTATAATTGATGCCCTAATTTTTTCAATCTCACTTTTTACC
TTTATAATTGAGGCTCCTAA
Found at i:32291 original size:36 final size:36
Alignment explanation
Indices: 32260--32332 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
32250 CAATAATTAT
32260 GTTAATTTTTTTAACAACAAGAATCAAAATAAAATC
1 GTTAATTTTTTTAACAACAAGAATCAAAATAAAATC
32296 GTTAATTTTTTTAACAACAAGAATCAAAATAAAATC
1 GTTAATTTTTTTAACAACAAGAATCAAAATAAAATC
32332 G
1 G
32333 AAACATAGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (36 bp):
GTTAATTTTTTTAACAACAAGAATCAAAATAAAATC
Found at i:35042 original size:28 final size:28
Alignment explanation
Indices: 35002--35057 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
34992 GTTCAATTTG
*
35002 TTAAAATTTCAAAGCTAATCTCAGTATC
1 TTAAAATTTCAAAGCTAATATCAGTATC
35030 TTAAAATTTCAAAGCTAATATCAGTATC
1 TTAAAATTTCAAAGCTAATATCAGTATC
35058 AAATTTGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (28 bp):
TTAAAATTTCAAAGCTAATATCAGTATC
Found at i:38689 original size:20 final size:19
Alignment explanation
Indices: 38664--38712 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 19
38654 ACTTCAAAAT
38664 ATTTT-AATATAAAATATATA
1 ATTTTAAAT-TAAAA-ATATA
38684 ATTTTAAATTAAAAATAT-
1 ATTTTAAATTAAAAATATA
38702 A-TTTAAATTAA
1 ATTTTAAATTAA
38713 GTTAATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 10 0.36
18 1 0.04
19 4 0.14
20 10 0.36
21 3 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTTAAATTAAAAATATA
Found at i:38747 original size:27 final size:26
Alignment explanation
Indices: 38717--38780 Score: 60
Period size: 25 Copynumber: 2.5 Consensus size: 26
38707 AATTAAGTTA
*
38717 ATAATAAAATATATTCAATAAATTAGT
1 ATAATAAAATATATTCAA-AAATTAAT
* * *
38744 AT-A-AAAATATTTTTAAAAGTTAAT
1 ATAATAAAATATATTCAAAAATTAAT
38768 ATATATAAAATAT
1 ATA-ATAAAATAT
38781 TATGAAAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
24 8 0.27
25 11 0.37
26 2 0.07
27 9 0.30
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (26 bp):
ATAATAAAATATATTCAAAAATTAAT
Found at i:39453 original size:17 final size:16
Alignment explanation
Indices: 39431--39462 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
39421 CCAAAGGGAC
39431 AATACTTTTCTCAATTT
1 AATACTTTTCT-AATTT
39448 AATACTTTTCTAATT
1 AATACTTTTCTAATT
39463 CTTTTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (16 bp):
AATACTTTTCTAATTT
Found at i:40212 original size:19 final size:19
Alignment explanation
Indices: 40177--40213 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
40167 ATGACCAACA
* *
40177 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCAATCTCT
40196 AAATCGCAACGCAATCTC
1 AAATCGCAACGCAATCTC
40214 CATTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.30, G:0.14, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCAATCTCT
Found at i:40310 original size:21 final size:19
Alignment explanation
Indices: 40239--40332 Score: 62
Period size: 20 Copynumber: 4.6 Consensus size: 19
40229 GTTTCCAGAT
* *
40239 TCGCAACGCGATTTTGACCA
1 TCGCAATGCGATTTTGA-AA
*
40259 TCGCATTGCGATTTTCGAAA
1 TCGCAATGCGATTTT-GAAA
**
40279 TCCGCGTTGCGATTTTAGATAA
1 T-CGCAATGCGATTTT-GA-AA
* *
40301 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGATTTTG-AAA
*
40321 TCGCAACGCGAT
1 TCGCAATGCGAT
40333 AATACGTGAT
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
20 28 0.47
21 28 0.47
22 3 0.05
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (19 bp):
TCGCAATGCGATTTTGAAA
Found at i:40345 original size:41 final size:41
Alignment explanation
Indices: 40300--40410 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 41
40290 ATTTTAGATA
*
40300 ATCGCAATGCGAATATGTA-AATCGCAACGCGATAATACGTG
1 ATCGCAACGCGAATATG-ACAATCGCAACGCGATAATACGTG
* * * *
40341 ATCGCAACGCGATTCTGACTATCGCAATGCGATAATACGTG
1 ATCGCAACGCGAATATGACAATCGCAACGCGATAATACGTG
* * *
40382 ATCGCAACGCGATTCTGACTATCGCAACG
1 ATCGCAACGCGAATATGACAATCGCAACG
40411 AGATTCTGAC
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 1 0.02
41 62 0.98
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (41 bp):
ATCGCAACGCGAATATGACAATCGCAACGCGATAATACGTG
Found at i:40346 original size:21 final size:21
Alignment explanation
Indices: 40320--40394 Score: 100
Period size: 21 Copynumber: 3.6 Consensus size: 21
40310 GAATATGTAA
40320 ATCGCAACGCGATAATACGTG
1 ATCGCAACGCGATAATACGTG
**
40341 ATCGCAACGCGATTCTGAC-T-
1 ATCGCAACGCGATAAT-ACGTG
*
40361 ATCGCAATGCGATAATACGTG
1 ATCGCAACGCGATAATACGTG
40382 ATCGCAACGCGAT
1 ATCGCAACGCGAT
40395 TCTGACTATC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.04
20 14 0.31
21 27 0.60
22 2 0.04
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGATAATACGTG
Found at i:40366 original size:20 final size:20
Alignment explanation
Indices: 40341--40447 Score: 153
Period size: 20 Copynumber: 5.3 Consensus size: 20
40331 ATAATACGTG
40341 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* **
40361 ATCGCAATGCGATAAT-ACGT
1 ATCGCAACGCGATTCTGAC-T
40381 GATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
*
40402 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
40422 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
40442 ATCGCA
1 ATCGCA
40448 TCACTGAATT
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
19 2 0.03
20 58 0.76
21 14 0.18
22 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:41296 original size:24 final size:24
Alignment explanation
Indices: 41268--41321 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
41258 GTATTCAAAA
41268 TTTGATCATGGTCAATACCCGGAC
1 TTTGATCATGGTCAATACCCGGAC
* * *
41292 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCATGGTCAATACCCGGAC
41316 TTTGAT
1 TTTGAT
41322 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATCATGGTCAATACCCGGAC
Found at i:43816 original size:20 final size:20
Alignment explanation
Indices: 43791--43844 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
43781 CACTTTCATT
43791 TGACTATCGTAACGCGAATA
1 TGACTATCGTAACGCGAATA
* * *
43811 TGACTATCGCAACGTGAATT
1 TGACTATCGTAACGCGAATA
*
43831 TGAATATCGTAACG
1 TGACTATCGTAACG
43845 GGATAATCGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (20 bp):
TGACTATCGTAACGCGAATA
Found at i:43908 original size:54 final size:54
Alignment explanation
Indices: 43850--43984 Score: 234
Period size: 54 Copynumber: 2.5 Consensus size: 54
43840 TAACGGGATA
* *
43850 ATCGCAATGCAAAAATGACTATCGCAAAGGGATAATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACTATCGCAAAGGGATAATCGCAATGCGAAAATGACT
*
43904 ATCGCAACGCGAAAATGACTATCGCAATGGGATAATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACTATCGCAAAGGGATAATCGCAATGCGAAAATGACT
*
43958 ATCGCAACGCGAATATGACTATCGCAA
1 ATCGCAACGCGAAAATGACTATCGCAA
43985 CGCGAATTTA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (54 bp):
ATCGCAACGCGAAAATGACTATCGCAAAGGGATAATCGCAATGCGAAAATGACT
Found at i:43909 original size:20 final size:20
Alignment explanation
Indices: 43884--44125 Score: 215
Period size: 20 Copynumber: 12.8 Consensus size: 20
43874 CAAAGGGATA
*
43884 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
43904 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
43924 ATCGCAATG-G--GAT-A--
1 ATCGCAACGCGAAAATGACT
*
43938 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
43958 ATCGCAACGCGAATATGACT
1 ATCGCAACGCGAAAATGACT
** *
43978 ATCGCAACGCGAATTTAACT
1 ATCGCAACGCGAAAATGACT
**
43998 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
* *
44018 ATCGCAA--C-TAGAT-A--
1 ATCGCAACGCGAAAATGACT
44032 ATCGCAACGCG-AAATGACT
1 ATCGCAACGCGAAAATGACT
44051 ATCGCAACGCG-AAATGACT
1 ATCGCAACGCGAAAATGACT
** *
44070 ATCGCAACGCGAATTTGATT
1 ATCGCAACGCGAAAATGACT
* **
44090 ATCGCAACGGGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
44110 ATCGCAACGAGAAAAT
1 ATCGCAACGCGAAAAT
44126 TGCAAAGTGT
Statistics
Matches: 188, Mismatches: 21, Indels: 26
0.80 0.09 0.11
Matches are distributed among these distances:
14 16 0.09
15 1 0.01
16 6 0.03
17 7 0.04
18 2 0.01
19 31 0.16
20 125 0.66
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:43999 original size:40 final size:39
Alignment explanation
Indices: 43791--44118 Score: 232
Period size: 34 Copynumber: 8.8 Consensus size: 39
43781 CACTTTCATT
* * *
43791 TGACTATCGTAACGCGAATATGACTATCGCAACGTGAATT
1 TGACTATCGCAACGCGAA-ATGACTATCGCAACGCGAATA
* * * * * *
43831 TGAATATCGTAACG-G-GAT-A--ATCGCAATGCAAAAA
1 TGACTATCGCAACGCGAAATGACTATCGCAACGCGAATA
* * * *
43865 TGACTATCGCAAAG-G-GAT-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAAATGACTATCGCAACGCGAATA
* *
43899 TGACTATCGCAACGCGAAAATGACTATCGCAATG-G--GA
1 TGACTATCGCAACGCG-AAATGACTATCGCAACGCGAATA
*
43936 T-A--ATCGCAATGCGAAAATGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCG-AAATGACTATCGCAACGCGAATA
* * *
43973 TGACTATCGCAACGCGAATTTAACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAA-ATGACTATCGCAACGCGAATA
* *
44013 TGACTATCGCAA--CTAGAT-A--ATCGCAACGCGAA-A
1 TGACTATCGCAACGCGAAATGACTATCGCAACGCGAATA
*
44046 TGACTATCGCAACGCGAAATGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAAATGACTATCGCAACGCGAATA
* * *
44085 TGATTATCGCAACGGGAATTTGACTATCGCAACG
1 TGACTATCGCAACGCGAA-ATGACTATCGCAACG
44119 AGAAAATTGC
Statistics
Matches: 237, Mismatches: 31, Indels: 40
0.77 0.10 0.13
Matches are distributed among these distances:
33 12 0.05
34 93 0.39
35 6 0.03
36 4 0.02
37 9 0.04
38 17 0.07
39 20 0.08
40 76 0.32
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (39 bp):
TGACTATCGCAACGCGAAATGACTATCGCAACGCGAATA
Found at i:44264 original size:59 final size:62
Alignment explanation
Indices: 44176--44332 Score: 221
Period size: 59 Copynumber: 2.5 Consensus size: 62
44166 GATTGAAATC
44176 AACAAATCAACTCATTTCAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCA-ATA
1 AACAAATCAACT-ATTTCAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCATATA
*
44238 AACAAATCAACT-TTT-AATCAATTAAACAAGCACAAATAAGAATTATTTACACATCATTTA
1 AACAAATCAACTATTTCAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCATATA
* *
44298 AACAAATAAGAATTATTTACACATCAATTAAACAA
1 AACAAAT--CAACTATTT-CA-ATCAATTAAACAA
44333 ATCAACTCTT
Statistics
Matches: 85, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
59 41 0.48
60 12 0.14
62 15 0.18
63 3 0.04
65 1 0.01
66 13 0.15
ACGTcount: A:0.52, C:0.17, G:0.03, T:0.27
Consensus pattern (62 bp):
AACAAATCAACTATTTCAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCATATA
Found at i:44303 original size:30 final size:30
Alignment explanation
Indices: 44210--44334 Score: 132
Period size: 30 Copynumber: 4.2 Consensus size: 30
44200 TTAAACAAGC
44210 ACAAATAAGAATTATTTACACATCAA-TAA
1 ACAAATAAGAATTATTTACACATCAATTAA
* * * * **
44239 ACAAATCA-ACTT-TTAATCA-ATTAAACAA
1 ACAAATAAGAATTATTTA-CACATCAATTAA
*
44267 GCACAAATAAGAATTATTTACACATCATTTAA
1 --ACAAATAAGAATTATTTACACATCAATTAA
44299 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATCAATTAA
44329 ACAAAT
1 ACAAAT
44335 CAACTCTTAT
Statistics
Matches: 76, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
27 7 0.09
28 7 0.09
29 7 0.09
30 42 0.55
31 5 0.07
32 8 0.11
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.29
Consensus pattern (30 bp):
ACAAATAAGAATTATTTACACATCAATTAA
Found at i:45757 original size:21 final size:21
Alignment explanation
Indices: 45711--45815 Score: 104
Period size: 21 Copynumber: 5.0 Consensus size: 21
45701 AGAATGTTGG
* *
45711 GAGGGACCTCTTCAACGATGA
1 GAGGGGCCTCTTGAACGATGA
* * *
45732 CAGGGGCCTCTTGAACGGTGG
1 GAGGGGCCTCTTGAACGATGA
* **
45753 GAGGGGACTCTTGAGGGATGA
1 GAGGGGCCTCTTGAACGATGA
*
45774 TAGGGGCCTCTTGAACGAT-A
1 GAGGGGCCTCTTGAACGATGA
*
45794 TGAGAGGCCTCTTGAACGATGA
1 -GAGGGGCCTCTTGAACGATGA
45816 CAGGTGAGTC
Statistics
Matches: 65, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 1 0.02
21 63 0.97
22 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.21
Consensus pattern (21 bp):
GAGGGGCCTCTTGAACGATGA
Found at i:46322 original size:20 final size:20
Alignment explanation
Indices: 46297--46340 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
46287 AATAGTTTCT
*
46297 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCACAACAC
*
46317 GAAACTTAAAATTACAACAC
1 GAAACTTAAAATCACAACAC
46337 GAAA
1 GAAA
46341 ATGATTATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.20, G:0.09, T:0.16
Consensus pattern (20 bp):
GAAACTTAAAATCACAACAC
Found at i:46354 original size:20 final size:20
Alignment explanation
Indices: 46331--46380 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
46321 CTTAAAATTA
* *
46331 CAACACGAAAATGATTATCG
1 CAACGCGAAAATGACTATCG
**
46351 CAACGCGAATTTGACTATCG
1 CAACGCGAAAATGACTATCG
46371 CAACGCGAAA
1 CAACGCGAAA
46381 CCAAAATCGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCG
Found at i:46505 original size:34 final size:35
Alignment explanation
Indices: 46460--46618 Score: 98
Period size: 34 Copynumber: 4.5 Consensus size: 35
46450 ATTGCGATTT
*
46460 TCATTTTCGCATTGCGATTA-TCCCGTTACGATAG
1 TCATTTCCGCATTGCGATTATTCCCGTTACGATAG
* *** *
46494 TCATTTCCGCATTGCGA-TAGTCATTTTCAC-ATTG
1 TCATTTCCGCATTGCGATTATTCCCGTT-ACGATAG
* *
46528 -CGATTATCC-CGTTGCGATAGTCATTTCCGCGTTGCGATAG
1 TC-ATT-TCCGCATTGCGAT--T-A-TTCC-CGTTACGATAG
* *
46568 TCATTTTCGCATTGCGATTA-TCCCGTTGCGATAG
1 TCATTTCCGCATTGCGATTATTCCCGTTACGATAG
*
46602 TCATTT-CGCGTTGCGAT
1 TCATTTCCGCATTGCGAT
46619 AGTCAAATTC
Statistics
Matches: 97, Mismatches: 15, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
33 13 0.13
34 50 0.52
35 8 0.08
37 2 0.02
38 2 0.02
39 5 0.05
40 16 0.16
41 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (35 bp):
TCATTTCCGCATTGCGATTATTCCCGTTACGATAG
Found at i:46505 original size:54 final size:54
Alignment explanation
Indices: 46431--46638 Score: 301
Period size: 54 Copynumber: 3.9 Consensus size: 54
46421 CATTTTCGCA
** * **
46431 TTGCGATTTTCATTTTCGCATTGCGATTTTCATTTTCGCATTGCGATTATCCCG
1 TTGCGATAGTCATTTCCGCATTGCGATAGTCATTTTCGCATTGCGATTATCCCG
* *
46485 TTACGATAGTCATTTCCGCATTGCGATAGTCATTTTCACATTGCGATTATCCCG
1 TTGCGATAGTCATTTCCGCATTGCGATAGTCATTTTCGCATTGCGATTATCCCG
*
46539 TTGCGATAGTCATTTCCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCG
1 TTGCGATAGTCATTTCCGCATTGCGATAGTCATTTTCGCATTGCGATTATCCCG
* ** *
46593 TTGCGATAGTCATTT-CGCGTTGCGATAGTCAAATTCGCGTTGCGAT
1 TTGCGATAGTCATTTCCGCATTGCGATAGTCATTTTCGCATTGCGAT
46639 AATCATTTTC
Statistics
Matches: 141, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
53 28 0.20
54 113 0.80
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (54 bp):
TTGCGATAGTCATTTCCGCATTGCGATAGTCATTTTCGCATTGCGATTATCCCG
Found at i:46566 original size:74 final size:75
Alignment explanation
Indices: 46407--46585 Score: 204
Period size: 74 Copynumber: 2.4 Consensus size: 75
46397 AAACTAAATT
** ** * * * *
46407 CGCGTTGCGATTTTCATTTTCGCATTGCGATTTTCATTTTCGCATTGCGATTTTCATTTTCGCAT
1 CGCGTTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCACATTGCGATTTCCAGTTGCGCAT
*
46472 TGCGATTATC
66 AGCGATTATC
* * *
46482 C-CGTTACGATAGTCATTTCCGCATTGCGATAGTCATTTTCACATTGCGATTATCCCGTTGCG-A
1 CGCGTTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCACATTGCGATT-TCCAGTTGCGCA
46545 TAGTC-ATT-TC
65 TAG-CGATTATC
46555 CGCGTTGCGATAGTCATTTTCGCATTGCGAT
1 CGCGTTGCGATAGTCATTTTCGCATTGCGAT
46586 TATCCCGTTG
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
73 3 0.03
74 76 0.87
75 8 0.09
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (75 bp):
CGCGTTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCACATTGCGATTTCCAGTTGCGCAT
AGCGATTATC
Found at i:46649 original size:20 final size:20
Alignment explanation
Indices: 46405--46657 Score: 166
Period size: 20 Copynumber: 13.6 Consensus size: 20
46395 CGAAACTAAA
**
46405 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATAGTCATT
* **
46425 TTCGCATTGCGATTTTCATT
1 TTCGCGTTGCGATAGTCATT
* **
46445 TTCGCATTGCGATTTTCATT
1 TTCGCGTTGCGATAGTCATT
*
46465 TTCGCATTGCGAT--T-A--
1 TTCGCGTTGCGATAGTCATT
* *
46480 -TCCCGTTACGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
* *
46499 TCCGCATTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
* *
46519 TTCACATTGCGAT--T-A--
1 TTCGCGTTGCGATAGTCATT
*
46534 -TCCCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
*
46553 TCCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
*
46573 TTCGCATTGCGAT--T-A--
1 TTCGCGTTGCGATAGTCATT
*
46588 -TCCCGTTGCGATAGTCA-T
1 TTCGCGTTGCGATAGTCATT
**
46606 TTCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCATT
*
46626 TTCGCGTTGCGATAATCATT
1 TTCGCGTTGCGATAGTCATT
*
46646 TTCGTGTTGCGA
1 TTCGCGTTGCGA
46658 CTATTCTTCT
Statistics
Matches: 191, Mismatches: 24, Indels: 36
0.76 0.10 0.14
Matches are distributed among these distances:
14 29 0.15
16 3 0.02
17 6 0.03
18 3 0.02
19 16 0.08
20 134 0.70
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCATT
Found at i:48540 original size:20 final size:20
Alignment explanation
Indices: 48515--48558 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
48505 AATAGTTTCT
48515 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
48535 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
48555 GAAA
1 GAAA
48559 AATGATTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.23, G:0.11, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:48605 original size:14 final size:14
Alignment explanation
Indices: 48586--48640 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
48576 GAATTTGACT
48586 ATCGCAACGAGATA
1 ATCGCAACGAGATA
* *
48600 ATCGCAACGCGAATGGCT
1 ATCGCAACGAG-AT---A
48618 ATCGCAACGAGATA
1 ATCGCAACGAGATA
48632 ATCGCAACG
1 ATCGCAACG
48641 CGAATTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 19 0.58
15 2 0.06
17 2 0.06
18 10 0.30
ACGTcount: A:0.36, C:0.25, G:0.24, T:0.15
Consensus pattern (14 bp):
ATCGCAACGAGATA
Found at i:48625 original size:32 final size:32
Alignment explanation
Indices: 48566--48645 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 32
48556 AAAAATGATT
48566 ATCGCAACGCGAATTTGACTATCGCAACGAGATA
1 ATCGCAACGCGAA--TGACTATCGCAACGAGATA
*
48600 ATCGCAACGCGAATGGCTATCGCAACGAGATA
1 ATCGCAACGCGAATGACTATCGCAACGAGATA
48632 ATCGCAACGCGAAT
1 ATCGCAACGCGAAT
48646 TTTATCGTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
32 32 0.71
34 13 0.29
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (32 bp):
ATCGCAACGCGAATGACTATCGCAACGAGATA
Found at i:49033 original size:22 final size:22
Alignment explanation
Indices: 49006--49085 Score: 133
Period size: 22 Copynumber: 3.6 Consensus size: 22
48996 GATGGAGATA
49006 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
49028 GACGGATTTCGCCGGAGATAGG
1 GACGGATTTCGCCGGAGATGGG
*
49050 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
49072 GACGGATGTCGCCG
1 GACGGATTTCGCCG
49086 TAGAGAGTGA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.19, C:0.19, G:0.44, T:0.19
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:49273 original size:20 final size:20
Alignment explanation
Indices: 49248--49353 Score: 142
Period size: 20 Copynumber: 5.2 Consensus size: 20
49238 ATATTGCAAC
*
49248 GCGATAGTCAGAATCTCGTT
1 GCGATAGTCAGAATCGCGTT
49268 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
**
49288 GCGATCACGT-ATTATCGCGTT
1 GCGAT-A-GTCAGAATCGCGTT
49309 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
*
49329 GCGATAGTCAAAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
*
49349 ACGAT
1 GCGAT
49354 CACGTATTAT
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
19 2 0.03
20 57 0.75
21 15 0.20
22 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (20 bp):
GCGATAGTCAGAATCGCGTT
Found at i:49315 original size:61 final size:61
Alignment explanation
Indices: 49248--49374 Score: 218
Period size: 61 Copynumber: 2.1 Consensus size: 61
49238 ATATTGCAAC
* * * *
49248 GCGATAGTCAGAATCTCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTATTATCGCGTT
1 GCGATAGTCAGAATCGCGTTGCGATAGTCAAAATCGCGTTACGATCACGTATTATCGCATT
49309 GCGATAGTCAGAATCGCGTTGCGATAGTCAAAATCGCGTTACGATCACGTATTATCGCATT
1 GCGATAGTCAGAATCGCGTTGCGATAGTCAAAATCGCGTTACGATCACGTATTATCGCATT
49370 GCGAT
1 GCGAT
49375 TATCTAAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (61 bp):
GCGATAGTCAGAATCGCGTTGCGATAGTCAAAATCGCGTTACGATCACGTATTATCGCATT
Found at i:49386 original size:21 final size:19
Alignment explanation
Indices: 49362--49435 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 19
49352 ATCACGTATT
49362 ATCGCATTGCGATTATCTAAA
1 ATCGCATTGCGATT-TC-AAA
*
49383 ATCGCAATGCGGATTTCGAAA
1 ATCGCATTGC-GATTTC-AAA
*
49404 ATCGCATTGCGATGGTCAAA
1 ATCGCATTGCGAT-TTCAAA
*
49424 ATCGCGTTGCGA
1 ATCGCATTGCGA
49436 ATCTGGAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
20 17 0.37
21 25 0.54
22 4 0.09
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (19 bp):
ATCGCATTGCGATTTCAAA
Found at i:49473 original size:20 final size:19
Alignment explanation
Indices: 49449--49495 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
49439 TGGAAACTGA
*
49449 ATTGCGATAATGGAGATCGC
1 ATTGCGAT-ATAGAGATCGC
* *
49469 GTTGCGATTTAGAGATCGC
1 ATTGCGATATAGAGATCGC
49488 ATTGCGAT
1 ATTGCGAT
49496 TTTATTGATC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (19 bp):
ATTGCGATATAGAGATCGC
Found at i:49505 original size:20 final size:19
Alignment explanation
Indices: 49461--49497 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
49451 TGCGATAATG
*
49461 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
49480 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
49498 TATTGATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:49682 original size:42 final size:43
Alignment explanation
Indices: 49636--50041 Score: 321
Period size: 42 Copynumber: 9.7 Consensus size: 43
49626 TTGAATCTTT
* * * *
49636 TAATTTTTTCAATTTTA-TTTTTATCTTTAAAATTGAGGTCCC
1 TAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGTCCC
49678 TAATTTTTGT-AAT-TCTACTTTTTACC--T-T--TT-A--TCCC
1 TAATTTTT-TCAATCTC-ACTTTTTACCTTTATAATTGAGGTCCC
* * * * *
49713 TTAATTTTTATCAATCTCATTTTTTTACATTTATAATTGATGACTC
1 -TAATTTTT-TCAATCTCA-CTTTTTACCTTTATAATTGAGGTCCC
* * ** *
49759 TAAGTTTTTCAATCACACTTTAAACCTTTATAATTGAGCT-CC
1 TAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGTCCC
* **
49801 TAATTTTTTCAATCTCACTTTCTACCTTTATAATTGA-ACCCC
1 TAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGTCCC
* * * *
49843 TAATTTTTT-AATCTCATTTTTTTCGTTTATAATTGAGGTCTC
1 TAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGTCCC
* * *
49885 TAATTTTTTTCAATCCCATCTTTTT--CTTATATAATTTAGTTCCC
1 TAA-TTTTTTCAATCTCA-CTTTTTACCTT-TATAATTGAGGTCCC
* *
49929 TAATTTTTTCAGTCTCACTTTTTACCTTTAAAATTGAGG-CACC
1 TAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGTC-CC
* *
49972 TAATTTTTT-TATCTCACTTTTTACCTTTATAATTGAAGTCCC
1 TAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGTCCC
**
50014 TAATTTTTT-AATCAAACTTTTT-CCTTTA
1 TAATTTTTTCAATCTCACTTTTTACCTTTA
50042 ATAGTTTAAG
Statistics
Matches: 290, Mismatches: 49, Indels: 51
0.74 0.13 0.13
Matches are distributed among these distances:
35 4 0.01
36 9 0.03
37 5 0.02
38 11 0.04
40 1 0.00
41 32 0.11
42 115 0.40
43 66 0.23
44 33 0.11
45 12 0.04
46 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.05, T:0.51
Consensus pattern (43 bp):
TAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGTCCC
Found at i:49837 original size:85 final size:84
Alignment explanation
Indices: 49714--50041 Score: 301
Period size: 85 Copynumber: 3.9 Consensus size: 84
49704 TTTTATCCCT
* * *
49714 TAATTTTTATCAATCTCATTTTTTTACATTTATAATTGATGACTCTAAGTTTTTCAATCACACTT
1 TAATTTTT-TCAATCTCATCTTTTTACCTTTATAATTGA-GACCCTAA-TTTTTCAATCACACTT
**
49779 TAAACCTTTATAATTGAGCTCC
63 TTTACCTTTATAATTGAGCTCC
* * * *
49801 TAATTTTTTCAATCTCA-CTTTCTACCTTTATAATTGA-ACCCCTAATTTTTTAATCTCATTTTT
1 TAATTTTTTCAATCTCATCTTTTTACCTTTATAATTGAGA-CCCTAATTTTTCAATCACACTTTT
* * *
49864 TTCGTTTATAATTGAGGTCTC
65 TACCTTTATAATTGAGCTC-C
* * * * *
49885 TAATTTTTTTCAATCCCATCTTTTT--CTTATATAATTTAGTTCCCTAATTTTTTCAGTCTCACT
1 TAA-TTTTTTCAATCTCATCTTTTTACCTT-TATAATTGAG-ACCCTAA-TTTTTCAATCACACT
* *
49948 TTTTACCTTTAAAATTGAGGCACC
62 TTTTACCTTTATAATTGA-GCTCC
* * * *
49972 TAATTTTTT-TATCTCA-CTTTTTACCTTTATAATTGAAGTCCCTAATTTTTTAATCAAACTTTT
1 TAATTTTTTCAATCTCATCTTTTTACCTTTATAATTG-AGACCCTAATTTTTCAATCACACTTTT
50035 T-CCTTTA
65 TACCTTTA
50042 ATAGTTTAAG
Statistics
Matches: 198, Mismatches: 31, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
83 36 0.18
84 33 0.17
85 57 0.29
86 31 0.16
87 39 0.20
88 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.05, T:0.50
Consensus pattern (84 bp):
TAATTTTTTCAATCTCATCTTTTTACCTTTATAATTGAGACCCTAATTTTTCAATCACACTTTTT
ACCTTTATAATTGAGCTCC
Found at i:50089 original size:170 final size:170
Alignment explanation
Indices: 49758--50089 Score: 357
Period size: 170 Copynumber: 2.0 Consensus size: 170
49748 ATTGATGACT
* *
49758 CTAAGTTTTTCAATCACACTTTAAACCTTTATAATTGAGCTCCTAATTTTTTCAATCTCACTTTC
1 CTAAGTTTTTCAATCACACTTTAAACCTTTAAAATTGAGCACCTAATTTTTTCAATCTCACTTTC
* ** * * * *
49823 TACCTTTATAATTGAACCCCTAATTTTTTAATCTCATTTTTTTCGTTTATAATTGAGGTCTCTAA
66 TACCTTTATAATTGAACCCCTAATTTTTTAATCTAAACTTTTTCCTTTATAATTGAAGCCCCTAA
** * * *
49888 TTTTTTTCAATCCCATCTTTTTCTTATATAATTTAGTTCC
131 TTTTAATCAATCCCATATTTATCTAATATAATTTAGTTCC
* * * ** *
49928 CTAATTTTTTCAGTCTCACTTTTTACCTTTAAAATTGAGGCACCTAATTTTTT-TATCTCACTTT
1 CTAAGTTTTTCAATCACACTTTAAACCTTTAAAATTGA-GCACCTAATTTTTTCAATCTCACTTT
* * * *
49992 TTACCTTTATAATTGAAGTCCCTAATTTTTTAATC-AAACTTTTTCCTTTAATAGTTTAAGCCCC
65 CTACCTTTATAATTGAA-CCCCTAATTTTTTAATCTAAACTTTTTCCTTT-ATAATTGAAGCCCC
* * *
50056 T-ATTTTAATCATTTCTATGATTTAT-TAATATAAT
128 TAATTTTAATCAATCCCAT-ATTTATCTAATATAAT
50090 ATTAAATTAT
Statistics
Matches: 131, Mismatches: 27, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
170 88 0.67
171 43 0.33
ACGTcount: A:0.27, C:0.19, G:0.05, T:0.49
Consensus pattern (170 bp):
CTAAGTTTTTCAATCACACTTTAAACCTTTAAAATTGAGCACCTAATTTTTTCAATCTCACTTTC
TACCTTTATAATTGAACCCCTAATTTTTTAATCTAAACTTTTTCCTTTATAATTGAAGCCCCTAA
TTTTAATCAATCCCATATTTATCTAATATAATTTAGTTCC
Found at i:53610 original size:31 final size:31
Alignment explanation
Indices: 53574--53634 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
53564 ATTCGATCCT
*
53574 TCTTTTCCATTGTTTGACTCATTCAATAGCC
1 TCTTTTCCATGGTTTGACTCATTCAATAGCC
*
53605 TCTTTTTCATGGTTTGACTCATTCAATAGC
1 TCTTTTCCATGGTTTGACTCATTCAATAGC
53635 TCAACTAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.46
Consensus pattern (31 bp):
TCTTTTCCATGGTTTGACTCATTCAATAGCC
Found at i:54528 original size:34 final size:34
Alignment explanation
Indices: 54490--54558 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
54480 AATAAATTAC
54490 GTGGACATATCAAAAGTCTCGTATATAAACTATA
1 GTGGACATATCAAAAGTCTCGTATATAAACTATA
54524 GTGGACATATCAAAAGTCTCGTATATAAACTATA
1 GTGGACATATCAAAAGTCTCGTATATAAACTATA
54558 G
1 G
54559 CCGGTTCAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (34 bp):
GTGGACATATCAAAAGTCTCGTATATAAACTATA
Found at i:63380 original size:60 final size:60
Alignment explanation
Indices: 63269--63401 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 60
63259 ACATACGGGT
* * * * *
63269 GACCACTTTGTAATTTTTAATAGTAGATCGACTCAACAAAGCAACACCCTATAGTTAGGG
1 GACCATTTTGTAACTTTTAATAGTAGATAGACTCAAAAAAGCAACACCCTATAATTAGGG
* * * * * *
63329 GACTATTTTGTAACTTTTAATAGTTAGA-AGACTTAAAAAAGTAGCATCCTATAATTGGGG
1 GACCATTTTGTAACTTTTAATAG-TAGATAGACTCAAAAAAGCAACACCCTATAATTAGGG
63389 GACCATTTGTGTA
1 GACCATTT-TGTA
63402 TTTTACCCTT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
60 51 0.86
61 8 0.14
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (60 bp):
GACCATTTTGTAACTTTTAATAGTAGATAGACTCAAAAAAGCAACACCCTATAATTAGGG
Found at i:66946 original size:13 final size:13
Alignment explanation
Indices: 66893--66953 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
66883 CATTTAAATG
66893 ATAAACGAACACA
1 ATAAACGAACACA
*
66906 A-ACGAACGAACATA
1 ATA--AACGAACACA
*
66920 ATAAATG-A-AC-
1 ATAAACGAACACA
66930 ATAAACGAACACA
1 ATAAACGAACACA
66943 ATAAACGAACA
1 ATAAACGAACA
66954 TAAACAAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
10 6 0.16
11 2 0.05
12 4 0.11
13 15 0.39
14 10 0.26
15 1 0.03
ACGTcount: A:0.61, C:0.20, G:0.10, T:0.10
Consensus pattern (13 bp):
ATAAACGAACACA
Found at i:66972 original size:27 final size:25
Alignment explanation
Indices: 66893--66964 Score: 85
Period size: 23 Copynumber: 2.9 Consensus size: 25
66883 CATTTAAATG
*
66893 ATAAACGAACACAAACGAACGAACATA
1 ATAAACGAACATAAACGAAC-AACA-A
*
66920 ATAAATGAACATAAACGAAC-AC-A
1 ATAAACGAACATAAACGAACAACAA
*
66943 ATAAACGAACATAAACAAACAA
1 ATAAACGAACATAAACGAACAA
66965 TACAAATACA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 19 0.47
24 1 0.03
25 2 0.05
27 18 0.45
ACGTcount: A:0.62, C:0.19, G:0.08, T:0.10
Consensus pattern (25 bp):
ATAAACGAACATAAACGAACAACAA
Found at i:67246 original size:14 final size:14
Alignment explanation
Indices: 67226--67271 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 14
67216 GCCCTATGTT
67226 CGAACATAAATGAA
1 CGAACATAAATGAA
*
67240 TGAACATAAATGAA
1 CGAACATAAATGAA
67254 CGAACATATAATCGAA
1 CGAACATA-AAT-GAA
67270 CG
1 CG
67272 TTCACGAACG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 20 0.71
15 3 0.11
16 5 0.18
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.17
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:68354 original size:21 final size:21
Alignment explanation
Indices: 68315--68354 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
68305 GAGATCATGG
** *
68315 TTTAGAGTTTTTTATTTATAA
1 TTTAGAGTTTTAAAGTTATAA
68336 TTTAGAGTTTTAAAGTTAT
1 TTTAGAGTTTTAAAGTTAT
68355 TGATAGGGTA
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:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (21 bp):
TTTAGAGTTTTAAAGTTATAA
Found at i:68543 original size:15 final size:15
Alignment explanation
Indices: 68524--68580 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
68514 TAACCGGTTT
68524 CGGTTTTAAAAAAAC
1 CGGTTTTAAAAAAAC
*
68539 TGGTTTTTTTAAAAAAAC
1 CGG---TTTTAAAAAAAC
*
68557 CGGTTATAAAAAAAC
1 CGGTTTTAAAAAAAC
*
68572 CGATTTTAA
1 CGGTTTTAA
68581 TATTCCAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 20 0.59
18 14 0.41
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (15 bp):
CGGTTTTAAAAAAAC
Found at i:68550 original size:18 final size:18
Alignment explanation
Indices: 68527--68561 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
68517 CCGGTTTCGG
*
68527 TTTTAAAAAAACTGGTTT
1 TTTTAAAAAAACCGGTTT
68545 TTTTAAAAAAACCGGTT
1 TTTTAAAAAAACCGGTT
68562 ATAAAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (18 bp):
TTTTAAAAAAACCGGTTT
Found at i:68998 original size:13 final size:13
Alignment explanation
Indices: 68977--69031 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
68967 AAGTTCGATA
*
68977 AATTTAAATACTT
1 AATTGAAATACTT
68990 AATTGAAATACTT
1 AATTGAAATACTT
* *
69003 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
69017 AATTGAAATACTT
1 AATTGAAATACTT
69030 AA
1 AA
69032 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:69062 original size:33 final size:33
Alignment explanation
Indices: 69017--69115 Score: 155
Period size: 33 Copynumber: 3.0 Consensus size: 33
69007 AACTCAACAT
* * *
69017 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
69050 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
*
69083 AATTCAAATACTTAAAAACTT-CAAGTTCAATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
69115 A
1 A
69116 TTGAAACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 11 0.18
33 51 0.82
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:71475 original size:11 final size:12
Alignment explanation
Indices: 71454--71499 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
71444 TCCGGATAAA
71454 AACCGGTTTTTT
1 AACCGGTTTTTT
71466 AACCGGTTTTTTT
1 AACCGG-TTTTTT
71479 CAAACCGGTTTTTT
1 --AACCGGTTTTTT
*
71493 ATCCGGT
1 AACCGGT
71500 AAAAAAACCG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 12 0.40
13 6 0.20
14 6 0.20
15 6 0.20
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (12 bp):
AACCGGTTTTTT
Found at i:71484 original size:15 final size:14
Alignment explanation
Indices: 71453--71492 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
71443 TTCCGGATAA
71453 AAACCGG-TTTTTT
1 AAACCGGTTTTTTT
71466 -AACCGGTTTTTTT
1 AAACCGGTTTTTTT
71479 CAAACCGGTTTTTT
1 -AAACCGGTTTTTT
71493 ATCCGGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.25
13 6 0.25
15 12 0.50
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (14 bp):
AAACCGGTTTTTTT
Found at i:71530 original size:14 final size:13
Alignment explanation
Indices: 71495--71533 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
71485 GGTTTTTTAT
71495 CCGG-TAAAAAAA
1 CCGGTTAAAAAAA
*
71507 CCGGTTAAAATAA
1 CCGGTTAAAAAAA
71520 CCGGTTTAAAAAAA
1 CCGG-TTAAAAAAA
71534 TCCGATCCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 4 0.17
13 11 0.48
14 8 0.35
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.18
Consensus pattern (13 bp):
CCGGTTAAAAAAA
Found at i:80548 original size:149 final size:149
Alignment explanation
Indices: 80360--80674 Score: 526
Period size: 149 Copynumber: 2.1 Consensus size: 149
80350 GGGTAGAGGG
* *
80360 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
*
80425 ACT-TGATCCCTAGTACATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 A-TGTGATCCCTAGCACATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
80489 ATATGGCACTACGGTGCAAT
130 ATATGGCACTACGGTGCAAT
* **
80509 TCTACGCGGTCCTTCGGGATATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
* *
80574 ATGTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ATGTGATCCCTAGCACATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
80639 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
80658 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
80675 TGCATTTATA
Statistics
Matches: 156, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
148 2 0.01
149 154 0.99
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ATGTGATCCCTAGCACATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:80686 original size:23 final size:23
Alignment explanation
Indices: 80642--80686 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
80632 ATTATTATAT
*
80642 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
80665 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
80687 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:83891 original size:31 final size:31
Alignment explanation
Indices: 83856--83919 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
83846 TGGATGTTAA
*
83856 TTTGGGATATGATATAATCTGAT-CTCAGAAT
1 TTTGGGATATGATATAATATGATCCT-AGAAT
83887 TTTGGGATATGATATAATATGATCCTAGAAT
1 TTTGGGATATGATATAATATGATCCTAGAAT
83918 TT
1 TT
83920 CTAACGACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 29 0.94
32 2 0.06
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.41
Consensus pattern (31 bp):
TTTGGGATATGATATAATATGATCCTAGAAT
Found at i:84306 original size:3 final size:3
Alignment explanation
Indices: 84298--84348 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
84288 AACCTAATTC
84298 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
84346 TAT
1 TAT
84349 ATTTTTAAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:84660 original size:41 final size:41
Alignment explanation
Indices: 84604--84685 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
84594 ATTTTCATAA
* * * *
84604 ATTCTTTTACAATTAATATTTTAATAATTAAACTATTAAAT
1 ATTCCTTTACAATTAATATCTTAAAAATGAAACTATTAAAT
* *
84645 ATTCCTTTATAATTAATATCTTAAAAATGAAATTATTAAAT
1 ATTCCTTTACAATTAATATCTTAAAAATGAAACTATTAAAT
84686 TTATCAACGC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.46
Consensus pattern (41 bp):
ATTCCTTTACAATTAATATCTTAAAAATGAAACTATTAAAT
Found at i:84840 original size:58 final size:60
Alignment explanation
Indices: 84768--84925 Score: 230
Period size: 58 Copynumber: 2.7 Consensus size: 60
84758 AATCTTATTT
* *
84768 TAAATTGGTCCTTAAACTTTTGAATATTTTAATTTCATCCCCAAACTATGA-C-TCTTTC
1 TAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCATCCCCAAACTATGACCTTCTTTC
* * * * *
84826 TAAATTAGTACTTAAACTTTTGAACATCCTAATTCCATCCCTAAACTATGACCTTCTTTC
1 TAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCATCCCCAAACTATGACCTTCTTTC
*
84886 TAAATTAGTCCTTAAACTTTTGAATATTCCAATTTCATCC
1 TAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCATCC
84926 TCAATTTCAT
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
58 44 0.51
59 1 0.01
60 41 0.48
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (60 bp):
TAAATTAGTCCTTAAACTTTTGAATATTCTAATTTCATCCCCAAACTATGACCTTCTTTC
Found at i:85142 original size:60 final size:60
Alignment explanation
Indices: 85027--85160 Score: 155
Period size: 60 Copynumber: 2.2 Consensus size: 60
85017 ATGTATAGTT
** * * *
85027 GGGATGAAATTAGAATGTTCAAAAAGTTTGGGGATTAATTTAAAATTAAGGTCATAGTTTG
1 GGGATGAAATT-GAATGTTCAAAAAGTTTAAGGATTAATTTAAAATGAAGCTCATAGTTTA
*
85088 GGGATGAAATTGAAGTGTTC-AAAAGTTTAAGGATTAATTTAGAATGATA-CTCATAGTTTA
1 GGGATGAAATTGAA-TGTTCAAAAAGTTTAAGGATTAATTTAAAATGA-AGCTCATAGTTTA
**
85148 ATGATGAAATTGA
1 GGGATGAAATTGA
85161 GATATTTGAA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
60 46 0.73
61 17 0.27
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.34
Consensus pattern (60 bp):
GGGATGAAATTGAATGTTCAAAAAGTTTAAGGATTAATTTAAAATGAAGCTCATAGTTTA
Found at i:86875 original size:19 final size:21
Alignment explanation
Indices: 86851--86889 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
86841 TTTTATATTA
86851 TCTCA-TTT-CATTTTCTTCC
1 TCTCATTTTCCATTTTCTTCC
86870 TCTCATTTTCCATTTTCTTC
1 TCTCATTTTCCATTTTCTTC
86890 TTCTTCTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 3 0.17
21 10 0.56
ACGTcount: A:0.10, C:0.31, G:0.00, T:0.59
Consensus pattern (21 bp):
TCTCATTTTCCATTTTCTTCC
Found at i:87227 original size:49 final size:49
Alignment explanation
Indices: 87155--87251 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
87145 GCTTTCATCA
* *
87155 ATTCATAGATTTTGTAAAGATTTGGTTGTTTAAGCATTTTAGGGTTTAT
1 ATTCATAAATTTTGTAAAGATTTGGTTATTTAAGCATTTTAGGGTTTAT
87204 ATTCATAAATTTTGTAAAGATTTGGTTATTTAAGCATTTTAGGGTTTA
1 ATTCATAAATTTTGTAAAGATTTGGTTATTTAAGCATTTTAGGGTTTA
87252 CTTTTGAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.29, C:0.04, G:0.19, T:0.48
Consensus pattern (49 bp):
ATTCATAAATTTTGTAAAGATTTGGTTATTTAAGCATTTTAGGGTTTAT
Found at i:90219 original size:11 final size:11
Alignment explanation
Indices: 90203--90230 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
90193 TCCTACTTGA
90203 CATTTTCTTAC
1 CATTTTCTTAC
90214 CATTTTCTTAC
1 CATTTTCTTAC
90225 CATTTT
1 CATTTT
90231 TACTTGACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.25, G:0.00, T:0.57
Consensus pattern (11 bp):
CATTTTCTTAC
Found at i:99017 original size:2 final size:2
Alignment explanation
Indices: 99010--99042 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
99000 TTGTTTCTCT
*
99010 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
99043 TTTTCAGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:101841 original size:24 final size:24
Alignment explanation
Indices: 101813--101868 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
101803 CTCCCATCAA
* *
101813 TCGTAGACGTAGCCCTTCTCCGAT
1 TCGTAGACGAAGCCCTTCTCCAAT
*
101837 TCGTAGACGAAGCCGTTCTCCAAT
1 TCGTAGACGAAGCCCTTCTCCAAT
101861 TCGTAGAC
1 TCGTAGAC
101869 CTCTTCGTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.27
Consensus pattern (24 bp):
TCGTAGACGAAGCCCTTCTCCAAT
Found at i:103676 original size:14 final size:14
Alignment explanation
Indices: 103639--103679 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
103629 TGTTCTAATG
*
103639 AATAACTAGAGAAAA
1 AATAA-TAGATAAAA
103654 AATAGATAGATAAAA
1 AATA-ATAGATAAAA
103669 AATAATAGATA
1 AATAATAGATA
103680 GTCTTGAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 7 0.29
15 16 0.67
16 1 0.04
ACGTcount: A:0.66, C:0.02, G:0.12, T:0.20
Consensus pattern (14 bp):
AATAATAGATAAAA
Found at i:116074 original size:40 final size:39
Alignment explanation
Indices: 116019--116102 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 39
116009 AGTTGACAAG
* *
116019 TTGGTTGGTGACCAACTTGTACACATGAGAAAATTCATCT
1 TTGGTAGGTGACCAACTTGGACACATGAG-AAATTCATCT
* **
116059 TTGGTAGGTGGCCAACTTGGACACATGAGAGTTTCATCT
1 TTGGTAGGTGACCAACTTGGACACATGAGAAATTCATCT
116098 TTGGT
1 TTGGT
116103 CCTTAAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 13 0.33
40 26 0.67
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (39 bp):
TTGGTAGGTGACCAACTTGGACACATGAGAAATTCATCT
Found at i:120755 original size:40 final size:39
Alignment explanation
Indices: 120700--120783 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 39
120690 AGTTGACAAG
* *
120700 TTGGTTGGTGGCCAACTTGTACACATGGGAAAATTCATCT
1 TTGGTAGGTGGCCAACTTGTACACATGAG-AAATTCATCT
** *
120740 TTGGTAGGTGGCCAACTTGTGTACATGAGAATTTCATCT
1 TTGGTAGGTGGCCAACTTGTACACATGAGAAATTCATCT
120779 TTGGT
1 TTGGT
120784 CCTTAAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 14 0.36
40 25 0.64
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (39 bp):
TTGGTAGGTGGCCAACTTGTACACATGAGAAATTCATCT
Found at i:122751 original size:25 final size:25
Alignment explanation
Indices: 122723--122771 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
122713 TTTTTTCTAT
122723 TTAATAATTATTATTATAAT-TTCAC
1 TTAATAA-TATTATTATAATATTCAC
* *
122748 TTAATTATATTTTTATAATATTCA
1 TTAATAATATTATTATAATATTCA
122772 TATCATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (25 bp):
TTAATAATATTATTATAATATTCAC
Found at i:130000 original size:29 final size:29
Alignment explanation
Indices: 129966--130022 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
129956 TTTTCACATA
*
129966 ACTAAATTGATGTAATCAATGACATCAAT
1 ACTAAATTGATGTAAGCAATGACATCAAT
129995 ACTAAATTGATGTAAGCAATGACATCAA
1 ACTAAATTGATGTAAGCAATGACATCAA
130023 ATTAATCTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (29 bp):
ACTAAATTGATGTAAGCAATGACATCAAT
Found at i:134642 original size:8 final size:8
Alignment explanation
Indices: 134629--134655 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
134619 AAAGTTGCTA
134629 CAACCAAT
1 CAACCAAT
134637 CAACCAAT
1 CAACCAAT
134645 CAACCAAT
1 CAACCAAT
134653 CAA
1 CAA
134656 ACTACAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.37, G:0.00, T:0.11
Consensus pattern (8 bp):
CAACCAAT
Found at i:136070 original size:25 final size:25
Alignment explanation
Indices: 135988--136070 Score: 64
Period size: 25 Copynumber: 3.2 Consensus size: 25
135978 TTGTAACGCA
135988 ATTTACAAATAATGTTTGGCTTGGC
1 ATTTACAAATAATGTTTGGCTTGGC
* *
136013 ATTT-CTTAATATAAGATGTTT-GATAT-TC
1 ATTTAC--AA-AT-A-ATGTTTGGCT-TGGC
136041 AATTTACAAATAATGTTTGGCTTGGC
1 -ATTTACAAATAATGTTTGGCTTGGC
136067 ATTT
1 ATTT
136071 CTTAATATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 20
0.65 0.06 0.29
Matches are distributed among these distances:
24 1 0.02
25 15 0.34
26 6 0.14
27 4 0.09
28 6 0.14
29 11 0.25
30 1 0.02
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.45
Consensus pattern (25 bp):
ATTTACAAATAATGTTTGGCTTGGC
Done.