Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003013.1 Hibiscus syriacus cultivar Beakdansim tig00006242_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: 71794
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Found at i:2634 original size:13 final size:14
Alignment explanation
Indices: 2618--2663 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
2608 TATATTTTAA
2618 TTATATTT-TTTTT
1 TTATATTTATTTTT
*
2631 TTATTTATTTCTTTTT
1 TTA--TATTTATTTTT
2647 TT-TATTTATTTTT
1 TTATATTTATTTTT
2660 TTAT
1 TTAT
2664 TATATATATC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 15 0.54
14 1 0.04
15 5 0.18
16 7 0.25
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (14 bp):
TTATATTTATTTTT
Found at i:2638 original size:17 final size:16
Alignment explanation
Indices: 2612--2661 Score: 73
Period size: 17 Copynumber: 3.0 Consensus size: 16
2602 CCCCTATATA
*
2612 TTTTAATTATATTTTTT
1 TTTTATTTAT-TTTTTT
2629 TTTTATTTATTTCTTTT
1 TTTTATTTATTT-TTTT
2646 TTTTATTTATTTTTTT
1 TTTTATTTATTTTTTT
2662 ATTATATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
16 6 0.19
17 25 0.81
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTATTTATTTTTTT
Found at i:2657 original size:32 final size:33
Alignment explanation
Indices: 2612--2675 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
2602 CCCCTATATA
* * *
2612 TTTTAATTATATTTTTTTTTTATTTATTTCTTT
1 TTTTAATTATATTTTTTTATTATATATATCTTT
*
2645 TTTTTATT-TATTTTTTTATTATATATATCTT
1 TTTTAATTATATTTTTTTATTATATATATCTT
2676 ATATCATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 20 0.74
33 7 0.26
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (33 bp):
TTTTAATTATATTTTTTTATTATATATATCTTT
Found at i:2669 original size:2 final size:2
Alignment explanation
Indices: 2664--2708 Score: 51
Period size: 2 Copynumber: 23.5 Consensus size: 2
2654 ATTTTTTTAT
*
2664 TA TA TA TA TC T- TA TA TCA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
2705 -A TA T
1 TA TA T
2709 GTATGTATAG
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
1 3 0.08
2 33 0.87
3 2 0.05
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2708 original size:21 final size:22
Alignment explanation
Indices: 2664--2717 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
2654 ATTTTTTTAT
* *
2664 TATATATATCT-TATATCATTA
1 TATATATATATATATATCATAA
2685 TATATATATATATATAT-ATAA
1 TATATATATATATATATCATAA
* *
2706 TATGTATGTATA
1 TATATATATATA
2718 GATGTATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.82
22 5 0.18
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (22 bp):
TATATATATATATATATCATAA
Found at i:2772 original size:18 final size:19
Alignment explanation
Indices: 2747--2830 Score: 64
Period size: 18 Copynumber: 4.4 Consensus size: 19
2737 ATTTACTATG
2747 TATATATTTTTTCTTAATA
1 TATATATTTTTTCTTAATA
* **
2766 T-TATATTTTATACGTTTTTA
1 TATATATTTT-TTC-TTAATA
2786 TATATATTTTTTTCTTAATA
1 TATATA-TTTTTTCTTAATA
* * * *
2806 TCTAT-TTTTTTATTTATT
1 TATATATTTTTTCTTAATA
2824 TATATAT
1 TATATAT
2831 ATTATATTTT
Statistics
Matches: 49, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
18 22 0.45
19 4 0.08
20 13 0.27
21 6 0.12
22 4 0.08
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.67
Consensus pattern (19 bp):
TATATATTTTTTCTTAATA
Found at i:2804 original size:40 final size:40
Alignment explanation
Indices: 2747--2833 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
2737 ATTTACTATG
2747 TATATA-TTTTTTCTTAATAT-TATATTTTATACGTT-TTTA
1 TATATATTTTTTTCTTAATATCTAT-TTTTATA-GTTATTTA
* *
2786 TATATATTTTTTTCTTAATATCTATTTTTTTATTTATTTA
1 TATATATTTTTTTCTTAATATCTATTTTTATAGTTATTTA
2826 TATATATT
1 TATATATT
2834 ATATTTTACT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
39 8 0.19
40 32 0.74
41 3 0.07
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.67
Consensus pattern (40 bp):
TATATATTTTTTTCTTAATATCTATTTTTATAGTTATTTA
Found at i:2933 original size:40 final size:38
Alignment explanation
Indices: 2811--2935 Score: 92
Period size: 40 Copynumber: 3.1 Consensus size: 38
2801 TAATATCTAT
* *
2811 TTTTTTATTTATTTATATATATTATATTTTACTTTATTTTATT
1 TTTTTTATTT-TTTATTTATATTATA-TTTA--TTATTTT-TA
* * * *
2854 TTTTTCTATTTTTT-TTTCTTAATATCATGTA-TATCTTTA
1 TTTTT-TATTTTTTATTT-ATATTAT-ATTTATTATTTTTA
2893 TTTTTTATTTGTTTATTTAGTATTATATTTATTATTTTTA
1 TTTTTTATTT-TTTATTTA-TATTATATTTATTATTTTTA
2933 TTT
1 TTT
2936 GTTTTTAGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
38 5 0.08
39 13 0.20
40 23 0.35
42 2 0.03
43 16 0.25
44 6 0.09
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (38 bp):
TTTTTTATTTTTTATTTATATTATATTTATTATTTTTA
Found at i:3000 original size:19 final size:19
Alignment explanation
Indices: 2976--3014 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
2966 TCTTTTTATT
2976 CCTTTTTTAATTTCTTTTA
1 CCTTTTTTAATTTCTTTTA
* *
2995 CCTTTTTTTATTTTTTTTA
1 CCTTTTTTAATTTCTTTTA
3014 C
1 C
3015 TCCATAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (19 bp):
CCTTTTTTAATTTCTTTTA
Found at i:3579 original size:17 final size:18
Alignment explanation
Indices: 3547--3582 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
3537 GAAATAAGTT
3547 AGTGTACATAAACAAAAG
1 AGTGTACATAAACAAAAG
3565 AGTGTACAT-AACAAAAG
1 AGTGTACATAAACAAAAG
3582 A
1 A
3583 AAAGAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.56, C:0.11, G:0.17, T:0.17
Consensus pattern (18 bp):
AGTGTACATAAACAAAAG
Found at i:4752 original size:20 final size:20
Alignment explanation
Indices: 4727--5010 Score: 245
Period size: 20 Copynumber: 14.8 Consensus size: 20
4717 GCGATTTTCT
4727 CGTTGCGATAGTCAAATTTC-
1 CGTTGCGATAGTCAAA-TTCG
*
4747 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
4767 TGTTGCGATAGTC-ATTTCG
1 CGTTGCGATAGTCAAATTCG
*
4786 CGTTGCGAT--T---A-TCT
1 CGTTGCGATAGTCAAATTCG
4800 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* * *
4820 TGTTGTGATAGTTAAATTCG
1 CGTTGCGATAGTCAAATTCG
* **
4840 AGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* **
4860 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
*
4880 CGTTGCGATACTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
4900 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* * *
4920 CATTGC--TA-T--TA-TCC
1 CGTTGCGATAGTCAAATTCG
* * *
4934 CGTTACGATATTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
*
4954 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
*
4974 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
4994 CGTTGCGATAGTCAAAT
1 CGTTGCGATAGTCAAAT
5011 GAATGTGTAA
Statistics
Matches: 214, Mismatches: 37, Indels: 26
0.77 0.13 0.09
Matches are distributed among these distances:
14 17 0.08
15 1 0.00
16 3 0.01
17 3 0.01
18 2 0.01
19 18 0.08
20 170 0.79
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:4808 original size:73 final size:73
Alignment explanation
Indices: 4683--4909 Score: 240
Period size: 73 Copynumber: 3.0 Consensus size: 73
4673 TTCAATCTGC
* * * * * *
4683 ATCATATTCGTGTTGCGATAGTCTAATACACTTTGCGATTTTCTCGTTGCGATAGTCAAATTTC-
1 ATCAAATTCGTGTTGCGATAGTC-ATTTCGCATTGCGATTATCTCGTTGCGATAGTCAAA-TTCG
4747 CGTTGCGATA
64 CGTTGCGATA
* *
4757 ATCAAATTCGTGTTGCGATAGTCATTTCGCGTTGCGATTATCTCGTTGCGATAGTCAAATTCGTG
1 ATCAAATTCGTGTTGCGATAGTCATTTCGCATTGCGATTATCTCGTTGCGATAGTCAAATTCGCG
*
4822 TTGTGATA
66 TTGCGATA
* * * * *
4830 GTTAAATTCGAGTTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCGCGTTGCGATACTCAA
1 ATCAAATTCGTGTTGCGATAGTCA-TTTCGCATTGCGAT--T-A---TCTCGTTGCGATAGTCAA
4895 ATTCGCGTTGCGATA
59 ATTCGCGTTGCGATA
4910 GTCATTTTCG
Statistics
Matches: 129, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
72 3 0.02
73 60 0.47
74 35 0.27
76 1 0.01
77 1 0.01
80 29 0.22
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (73 bp):
ATCAAATTCGTGTTGCGATAGTCATTTCGCATTGCGATTATCTCGTTGCGATAGTCAAATTCGCG
TTGCGATA
Found at i:4967 original size:54 final size:56
Alignment explanation
Indices: 4833--4979 Score: 165
Period size: 54 Copynumber: 2.6 Consensus size: 56
4823 TGTGATAGTT
* * *
4833 AAATTCGA-GTTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCGCGTTGCGATACTC
1 AAATTC-ACGTTGCGATAGTCATTTTCGCATTGC---A-TCATTATCCCGTTACGATACTC
* *
4893 AAATTCGCGTTGCGATAGTCATTTTCGCATTGC-T-ATTATCCCGTTACGATATTC
1 AAATTCACGTTGCGATAGTCATTTTCGCATTGCATCATTATCCCGTTACGATACTC
* *
4947 AAATTCACGTTGCGATAGTCATATTCGCGTTGC
1 AAATTCACGTTGCGATAGTCATTTTCGCATTGC
4980 GATAGTCATA
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
54 46 0.59
55 1 0.01
60 31 0.40
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (56 bp):
AAATTCACGTTGCGATAGTCATTTTCGCATTGCATCATTATCCCGTTACGATACTC
Found at i:5208 original size:18 final size:18
Alignment explanation
Indices: 5185--5219 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5175 AAGCCGGTTG
*
5185 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
5203 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
5220 GCCTTTTTCT
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:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:7490 original size:24 final size:24
Alignment explanation
Indices: 7456--7509 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
7446 CTTAAACATC
7456 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
7480 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
7504 ATCAAA
1 ATCAAA
7510 TTTTGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:8353 original size:20 final size:20
Alignment explanation
Indices: 8325--8516 Score: 120
Period size: 20 Copynumber: 9.4 Consensus size: 20
8315 TTGAGATTCA
*
8325 GCATTGCGACAGTCAGAATC
1 GCATTGCGATAGTCAGAATC
*
8345 GCGTTGCGATAGTCAGAATC
1 GCATTGCGATAGTCAGAATC
*
8365 GCATTGCGATAGTCATAATC
1 GCATTGCGATAGTCAGAATC
* * *
8385 GCATTGCGAT-TTACATATTC
1 GCATTGCGATAGT-CAGAATC
* * * *
8405 GCGTTGTGATAGTCATACTC
1 GCATTGCGATAGTCAGAATC
* * *
8425 GCATTGCGAT-TTACATATTC
1 GCATTGCGATAGT-CAGAATC
*
8445 GCATTGCGATAGTCGGAAAATC
1 GCATTGCGATAGTC--AGAATC
** * * * *
8467 GCAACGCGA-ATTTGGAAAATA
1 GCATTGCGATA-GT-CAGAATC
*
8488 GCAATGCGATAGTCAGAATC
1 GCATTGCGATAGTCAGAATC
8508 GCATTGCGA
1 GCATTGCGA
8517 ATCTGGAAAC
Statistics
Matches: 135, Mismatches: 28, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
19 2 0.01
20 103 0.76
21 17 0.13
22 13 0.10
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (20 bp):
GCATTGCGATAGTCAGAATC
Found at i:8391 original size:60 final size:59
Alignment explanation
Indices: 8325--8458 Score: 144
Period size: 60 Copynumber: 2.2 Consensus size: 59
8315 TTGAGATTCA
8325 GCATTGCGACAGTCAGAATCGCGTTGCGATAGTCAGAATCGCATTGCGATAGT-CATAATC
1 GCATTGCGA-AGTCAGAATCGCGTTGCGATAGTCAGAATCGCATTGCGAT-GTACATAATC
** * * * * * * *
8385 GCATTGCGATTTACATATTCGCGTTGTGATAGTCATACTCGCATTGCGATTTACATATTC
1 GCATTGCGAAGT-CAGAATCGCGTTGCGATAGTCAGAATCGCATTGCGATGTACATAATC
8445 GCATTGCGATAGTC
1 GCATTGCGA-AGTC
8459 GGAAAATCGC
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
59 2 0.03
60 57 0.95
61 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (59 bp):
GCATTGCGAAGTCAGAATCGCGTTGCGATAGTCAGAATCGCATTGCGATGTACATAATC
Found at i:8416 original size:40 final size:40
Alignment explanation
Indices: 8320--8458 Score: 172
Period size: 40 Copynumber: 3.5 Consensus size: 40
8310 CGAATTTGAG
* * * * *
8320 ATTCAGCATTGCGACAGTCAGAATCGCGTTGCGATAGT-CAG
1 ATTC-GCATTGCGATAGTCATAATCGCATTGCGAT-TTACAT
*
8361 AATCGCATTGCGATAGTCATAATCGCATTGCGATTTACAT
1 ATTCGCATTGCGATAGTCATAATCGCATTGCGATTTACAT
* * *
8401 ATTCGCGTTGTGATAGTCATACTCGCATTGCGATTTACAT
1 ATTCGCATTGCGATAGTCATAATCGCATTGCGATTTACAT
8441 ATTCGCATTGCGATAGTC
1 ATTCGCATTGCGATAGTC
8459 GGAAAATCGC
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 81 0.95
41 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (40 bp):
ATTCGCATTGCGATAGTCATAATCGCATTGCGATTTACAT
Found at i:9890 original size:2 final size:2
Alignment explanation
Indices: 9876--9966 Score: 59
Period size: 2 Copynumber: 47.5 Consensus size: 2
9866 TTGAACTATT
*
9876 TA TA TA -A TA -A TA TA TA TG TA CT- TA -A 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 TA TA
* * * * * *
9915 TA TA TA AA CTA TA TA CA TA AA TC T- TA TA TC T- TA TA TA TT TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9956 TA TA TA TA TA T
1 TA TA TA TA TA T
9967 TACATAGTTT
Statistics
Matches: 69, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
1 6 0.09
2 61 0.88
3 2 0.03
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.47
Consensus pattern (2 bp):
TA
Found at i:13664 original size:17 final size:17
Alignment explanation
Indices: 13642--13677 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13632 AAATTTAGAT
* *
13642 ATTTTAAGAGATACAAA
1 ATTTTAAGAAATAAAAA
13659 ATTTTAAGAAATAAAAA
1 ATTTTAAGAAATAAAAA
13676 AT
1 AT
13678 ATAAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.31
Consensus pattern (17 bp):
ATTTTAAGAAATAAAAA
Found at i:15679 original size:6 final size:6
Alignment explanation
Indices: 15668--15731 Score: 78
Period size: 6 Copynumber: 11.0 Consensus size: 6
15658 ACGTTGCACT
* * *
15668 GATACG GATACG G-GACG GATATG GATACG GATACG G-GACG GATACG
1 GATACG GATACG GATACG GATACG GATACG GATACG GATACG GATACG
*
15714 TATACG GATACG GATACG
1 GATACG GATACG GATACG
15732 AAGACGGGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
5 8 0.17
6 40 0.83
ACGTcount: A:0.31, C:0.16, G:0.36, T:0.17
Consensus pattern (6 bp):
GATACG
Found at i:15687 original size:11 final size:11
Alignment explanation
Indices: 15671--15713 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
15661 TTGCACTGAT
15671 ACGGATACGGG
1 ACGGATACGGG
* *
15682 ACGGATATGGAT
1 ACGGATACGG-G
15694 ACGGATACGGG
1 ACGGATACGGG
15705 ACGGATACG
1 ACGGATACG
15714 TATACGGATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.30, C:0.16, G:0.40, T:0.14
Consensus pattern (11 bp):
ACGGATACGGG
Found at i:15731 original size:29 final size:23
Alignment explanation
Indices: 15668--15726 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
15658 ACGTTGCACT
15668 GATACGGATACGGGACGGATATG
1 GATACGGATACGGGACGGATATG
*
15691 GATACGGATACGGGACGGATACG
1 GATACGGATACGGGACGGATATG
*
15714 TATACGGATACGG
1 GATACGGATACGG
15727 ATACGAAGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.31, C:0.15, G:0.37, T:0.17
Consensus pattern (23 bp):
GATACGGATACGGGACGGATATG
Found at i:19207 original size:20 final size:20
Alignment explanation
Indices: 19182--19274 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
19172 TTTTCCCAAT
19182 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
19202 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
19222 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* * *
19243 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAA-TAAGTAAA
19264 TCGCAATGCGA
1 TCGCAATGCGA
19275 TACTGACTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 27 0.46
21 32 0.54
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:19224 original size:41 final size:41
Alignment explanation
Indices: 19179--19274 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
19169 CGATTTTCCC
*
19179 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
19220 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
*
19261 AAATCGCAATGCGA
1 AATTCGCAATGCGA
19275 TACTGACTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
Found at i:19287 original size:41 final size:41
Alignment explanation
Indices: 19201--19335 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
19191 GAATAAGTAA
* * * *
19201 ATCGCAACGCGAATTGGGAAATTCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCG-ATACTG-ACT
19242 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
* * * * * *
19283 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTGACT
*
19324 TTCGCAACGCGA
1 ATCGCAACGCGA
19336 TACTGACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
Found at i:19288 original size:20 final size:20
Alignment explanation
Indices: 19263--19357 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
19253 AATTGAGAAA
*
19263 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
19283 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
19304 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
19324 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
19344 TTCGCAACGCGATA
1 ATCGCAACGCGATA
19358 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:19573 original size:22 final size:22
Alignment explanation
Indices: 19545--19588 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
19535 CACTCTCTCA
*
19545 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACAAAATCCGTC
*
19567 CCCATCTCCGGCAAAATCCGTC
1 CCCATCTCCGACAAAATCCGTC
19589 TATCTAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACAAAATCCGTC
Found at i:19877 original size:20 final size:20
Alignment explanation
Indices: 19852--19889 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19842 CGATTCTCTC
19852 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
19872 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
19890 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:21229 original size:18 final size:18
Alignment explanation
Indices: 21208--21252 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
21198 TCCACTTCGG
*
21208 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
21226 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
21244 GAGCCATCA
1 GAGCCATCA
21253 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:21779 original size:19 final size:20
Alignment explanation
Indices: 21725--21791 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
21715 TAGTTTACTT
* *
21725 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
21745 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
21765 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
21784 TCGCAACG
1 TCGCAACG
21792 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:21799 original size:14 final size:14
Alignment explanation
Indices: 21780--21837 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
21770 ATGCGAAATG
21780 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
21794 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
21810 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
21826 AAAATCGCAACG
1 AAAATCGCAACG
21838 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:21822 original size:32 final size:33
Alignment explanation
Indices: 21764--21854 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
21754 GGAAATGGCT
*
21764 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
21797 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
21829 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
21855 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:21848 original size:19 final size:19
Alignment explanation
Indices: 21725--21859 Score: 85
Period size: 19 Copynumber: 7.6 Consensus size: 19
21715 TAGTTTACTT
* **
21725 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
21745 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
21765 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
21784 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
21798 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
21816 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
21830 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
21849 TCGCAATGCGA
1 TCGCAACGCGA
21860 TTTGTGTTTC
Statistics
Matches: 92, Mismatches: 11, Indels: 25
0.72 0.09 0.20
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 27 0.29
20 24 0.26
21 1 0.01
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:21871 original size:19 final size:19
Alignment explanation
Indices: 21855--21932 Score: 96
Period size: 19 Copynumber: 4.4 Consensus size: 19
21845 AAAATCGCAA
21855 TGCGATTTGTGTTTCGCGT
1 TGCGATTTGTGTTTCGCGT
21874 TGCGATTTGTGTTTCGCGT
1 TGCGATTTGTGTTTCGCGT
21893 TGCGATTT-TG--T--CGT
1 TGCGATTTGTGTTTCGCGT
**
21907 TGCGATTT-CATTTCGCGT
1 TGCGATTTGTGTTTCGCGT
21925 TGCGATTT
1 TGCGATTT
21933 TGTCGTTGCG
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
14 11 0.21
16 2 0.04
18 13 0.25
19 27 0.51
ACGTcount: A:0.08, C:0.17, G:0.28, T:0.47
Consensus pattern (19 bp):
TGCGATTTGTGTTTCGCGT
Found at i:21909 original size:14 final size:14
Alignment explanation
Indices: 21890--21947 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
21880 TTGTGTTTCG
21890 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
21904 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
21920 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
21936 CGTTGCGATTTT
1 CGTTGCGATTTT
21948 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:21913 original size:33 final size:32
Alignment explanation
Indices: 21871--21963 Score: 141
Period size: 32 Copynumber: 2.8 Consensus size: 32
21861 TTGTGTTTCG
*
21871 CGTTGCGATTTGTGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTT-TATTTCGCGTTGCGATTTTGT
*
21904 CGTTGCGATTTCATTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTATTTCGCGTTGCGATTTTGT
*
21936 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTT-ATTTCGCGTTGCGAT
21964 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.10, C:0.18, G:0.26, T:0.46
Consensus pattern (32 bp):
CGTTGCGATTTTATTTCGCGTTGCGATTTTGT
Found at i:21926 original size:32 final size:32
Alignment explanation
Indices: 21871--21963 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
21861 TTGTGTTTCG
**
21871 CGTTGCGATTTGTGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTT-CATTTCGCGTTGCGATTTTGT
21904 CGTTGCGATTTCATTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTCATTTCGCGTTGCGATTTTGT
*
21936 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGA-TTTCATTTCGCGTTGCGAT
21964 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 27 0.48
33 29 0.52
ACGTcount: A:0.10, C:0.18, G:0.26, T:0.46
Consensus pattern (32 bp):
CGTTGCGATTTCATTTCGCGTTGCGATTTTGT
Found at i:21962 original size:19 final size:19
Alignment explanation
Indices: 21866--22021 Score: 102
Period size: 19 Copynumber: 8.7 Consensus size: 19
21856 GCGATTTGTG
*
21866 TTTCGCGTTGCGATTTGT-G
1 TTTCGCGTTGCGATTT-TCA
21885 TTTCGCGTTGCGA-TTT--
1 TTTCGCGTTGCGATTTTCA
*
21901 TGT--CGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTCA
21917 TTTCGCGTTGCGA-TTT--
1 TTTCGCGTTGCGATTTTCA
*
21933 TGT--CGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
* ***
21950 TTTCGCATTGCGATAGCCA
1 TTTCGCGTTGCGATTTTCA
**
21969 TTTCCGCGTTGCGATAGTCA
1 TTT-CGCGTTGCGATTTTCA
*
21989 TTTCGCGTTGCGATTTTAA
1 TTTCGCGTTGCGATTTTCA
*
22008 GTTTCGTGTTGCGA
1 -TTTCGCGTTGCGA
22022 AAGTAAACTA
Statistics
Matches: 112, Mismatches: 14, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
14 19 0.17
15 3 0.03
16 6 0.05
17 3 0.03
18 13 0.12
19 39 0.35
20 29 0.26
ACGTcount: A:0.12, C:0.19, G:0.26, T:0.44
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:21982 original size:20 final size:19
Alignment explanation
Indices: 21948--22002 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
21938 TTGCGATTTT
*
21948 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
21967 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
21987 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
22003 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:23885 original size:14 final size:14
Alignment explanation
Indices: 23866--23901 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
23856 ATTGTTTAAT
23866 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
23880 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
23894 TGATTTGT
1 TGATTTGT
23902 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:24073 original size:19 final size:19
Alignment explanation
Indices: 24018--24063 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
24008 ATCGCAACGA
24018 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
24037 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
24056 GAAAATCG
1 GAAAATCG
24064 TAACGAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.48, C:0.15, G:0.22, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:24129 original size:20 final size:20
Alignment explanation
Indices: 24104--24160 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
24094 TCGCATTGCG
*
24104 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAACC
24124 ATTTTCGCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAACC
*
24144 ATTTTCGCATTGCGATA
1 ATTTTCGCGTTGCGATA
24161 GTCAAATGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAACC
Found at i:24546 original size:14 final size:14
Alignment explanation
Indices: 24527--24562 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
24517 ATTGTTTAAT
24527 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
24541 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
24555 TGATTTGT
1 TGATTTGT
24563 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:25135 original size:14 final size:14
Alignment explanation
Indices: 25116--25151 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
25106 ATTGTTTAAT
25116 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
25130 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
25144 TGATTTGT
1 TGATTTGT
25152 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:25450 original size:588 final size:589
Alignment explanation
Indices: 24124--25526 Score: 2747
Period size: 589 Copynumber: 2.4 Consensus size: 589
24114 TGCGATAACC
*
24124 ATTTTCGCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
1 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
24189 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
66 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
*
24254 AAGTGCACACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
131 AAGTGCAAACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
*
24319 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGTTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
196 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
24384 TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
261 TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
24449 GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
326 GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
24514 TTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACA
391 TTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACA
24579 TAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAA
456 TAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAA
24644 CAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCAT
521 CAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCAT
*
24709 TGCG
586 TGCA
24713 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
1 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
24778 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
66 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
24843 AAGTGCAAACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCC-TTTGGTTTGAAA
131 AAGTGCAAACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
24907 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
196 ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
24972 TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
261 TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
25037 GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
326 GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTA-TT
25102 TTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
390 TTTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTAC
25167 ATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAA
455 ATAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAA
25232 ACAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCA
520 ACAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCA
25297 TTGCA
585 TTGCA
25302 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
1 ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
25367 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
66 AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
25432 AAGTGCAAACAT-AAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
131 AAGTGCAAACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
25496 ATGTTTGGTTAAGTACCTAGAATTCAATAAT
196 ATGTTTGGTTAAGTACCTAGAATTCAATAAT
25527 AATTGTTAAA
Statistics
Matches: 808, Mismatches: 4, Indels: 4
0.99 0.00 0.00
Matches are distributed among these distances:
588 242 0.30
589 566 0.70
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (589 bp):
ATTTTCTCGTTGCGATAACCATTTTCGCATTGCGATAGTCAAATGAATGTCTAATAAGTGATGAC
AACTGAACAGATCATAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAA
AAGTGCAAACATAAAATACACATAATGCAAGTTTTGTTAACATATATACTCCTTTTGGTTTGAAA
ATGTTTGGTTAAGTACCTAGAATTCAATAATTTGCTGTTTGTAGGTTTTAGATGTGTAGGAAGTC
TTGTTTGAGCAAATGTTTGGTTTCTGCAGGTTAATCCTTAAGTGAGCTGTGTGAAATGGATGTAC
GGGGTCACAAAGTTGTTGATTCATTGATTCAATAATTGATGAAGAAATAAGAATTATTATTATTT
TTGATTGTTTAATTGATTTGTAAAAGATGATTTGTAAATGTTGATTTGTTTAATTGATGTGTACA
TAATTTGTGTTGAAATGTAATAGTTGATTTGTTGATTTTCAATCTGCTTTATGTTGAAGGCAAAA
CAGACTATCGCAACGCGAAATGGCTATCGCAACGAGAAAATCGCAATGCGATTTTCGTTTCGCAT
TGCA
Found at i:26449 original size:24 final size:24
Alignment explanation
Indices: 26393--26451 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
26383 AGTCAGTATT
* *
26393 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATATTGGTCAATACA
* *
26417 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
26441 CGAATTTTGAT
1 CGAAATTTGAT
26452 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:26642 original size:12 final size:12
Alignment explanation
Indices: 26625--26649 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26615 ATATAATCCT
26625 GAAGAAGAAAAA
1 GAAGAAGAAAAA
26637 GAAGAAGAAAAA
1 GAAGAAGAAAAA
26649 G
1 G
26650 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:28958 original size:19 final size:19
Alignment explanation
Indices: 28936--29033 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
28926 GGAAATTACT
28936 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
28955 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
28969 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
28988 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
29002 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
29021 ATCGCAACGCGAA
1 ATCGCAATGCGAA
29034 TTTAATTTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:28978 original size:33 final size:33
Alignment explanation
Indices: 28936--29029 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
28926 GGAAATTACT
28936 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
28969 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
29002 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
29030 CGAATTTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:29051 original size:19 final size:19
Alignment explanation
Indices: 29029--29070 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
29019 AAATCGCAAC
29029 GCGAATTTAATTTCGCGTT
1 GCGAATTTAATTTCGCGTT
* * *
29048 GCGATTTTCATTTTGCGTT
1 GCGAATTTAATTTCGCGTT
29067 GCGA
1 GCGA
29071 TTCTCTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.43
Consensus pattern (19 bp):
GCGAATTTAATTTCGCGTT
Found at i:29071 original size:19 final size:19
Alignment explanation
Indices: 29038--29104 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
29028 CGCGAATTTA
29038 ATTTCGCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
*
29057 ATTTTGCGTTGCGA--TTC
1 ATTTCGCGTTGCGATTTTC
*
29074 ---TCTCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
*
29090 ATTTCGCATTGCGAT
1 ATTTCGCGTTGCGAT
29105 AGTACTTTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
14 9 0.24
16 3 0.08
17 3 0.08
19 23 0.61
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.46
Consensus pattern (19 bp):
ATTTCGCGTTGCGATTTTC
Found at i:29229 original size:14 final size:14
Alignment explanation
Indices: 29210--29246 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
29200 CATCAATTAA
29210 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
29224 ACAAATCACCTTTT
1 ACAAATCAACTTTT
29238 ACAAATCAA
1 ACAAATCAA
29247 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:30666 original size:21 final size:21
Alignment explanation
Indices: 30600--30666 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
30590 GTGAATCGGG
*
30600 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
30620 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
30642 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
30663 CTCT
1 CTCT
30667 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:30685 original size:42 final size:41
Alignment explanation
Indices: 30600--30722 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
30590 GTGAATCGGG
* * * * *
30600 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
30642 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
30684 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
30723 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:32763 original size:20 final size:19
Alignment explanation
Indices: 32718--32778 Score: 50
Period size: 20 Copynumber: 3.1 Consensus size: 19
32708 TCTTTTGGTT
32718 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* * *
32737 GATAATGAGAATTGCAACGCG
1 GA-AATGAAAATCGCAACG-A
** *
32758 GAAATGACTATCGCAATGA
1 GAAATGAAAATCGCAACGA
32777 GA
1 GA
32779 GAATCGCAAC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 4 0.12
20 26 0.81
21 2 0.06
ACGTcount: A:0.44, C:0.15, G:0.25, T:0.16
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:32800 original size:33 final size:33
Alignment explanation
Indices: 32743--32840 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 33
32733 ACGAGATAAT
*
32743 GAGAATTGCAACGCGGAAATGACTATCGCAATGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAATGA
* *
32777 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAATGA
**
32810 GAGAATCGCAACGCG-AATGAAAATCGCAATG
1 GAGAATCGCAACGCGAAATGACTATCGCAATG
32841 CGATTTTGGT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
32 12 0.21
33 32 0.56
34 13 0.23
ACGTcount: A:0.39, C:0.20, G:0.27, T:0.14
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAATGA
Found at i:32861 original size:19 final size:19
Alignment explanation
Indices: 32839--32905 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
32829 AAAATCGCAA
*
32839 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
32858 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
* *
32877 TGCGATAGTT-ATTTCCGCTT
1 TGCGAT-TTTGATTT-CGCGT
32897 TGCGATTTT
1 TGCGATTTT
32906 CATTCTCGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.10, C:0.16, G:0.24, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:33497 original size:21 final size:21
Alignment explanation
Indices: 33464--33543 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
33454 TGCGAAAGTA
* * *
33464 AGTATCTCGTTGCGATTTTTT
1 AGTATCGCATTGCGATTTTTC
* **
33485 ATTATCGCATTGCGA-TAGTC
1 AGTATCGCATTGCGATTTTTC
33505 AGTATCGCATTGCGATTTTCTC
1 AGTATCGCATTGCGATTTT-TC
* *
33527 AAT-TCGCGTTGCGATTT
1 AGTATCGCATTGCGATTT
33544 ACTTATTCGC
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 16 0.35
21 26 0.57
22 4 0.09
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (21 bp):
AGTATCGCATTGCGATTTTTC
Found at i:33512 original size:20 final size:20
Alignment explanation
Indices: 33427--33520 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
33417 CGCTAAGTAA
*
33427 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* * *
33447 ATCGTGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
33467 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
33488 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
33508 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
33521 TTTCTCAATT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 45 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:33539 original size:41 final size:41
Alignment explanation
Indices: 33452--33582 Score: 122
Period size: 41 Copynumber: 3.2 Consensus size: 41
33442 TCAGTATCGT
* * * * *
33452 GTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATTATCGC
1 GTTGCGATAGTAAGTATCGCATTGCGATTTTCTCAAT-TCGC
* *
33493 ATTGCGATAGTCAGTATCGCATTGCGATTTTCTCAATTCGC
1 GTTGCGATAGTAAGTATCGCATTGCGATTTTCTCAATTCGC
* ** * *
33534 GTTGCGAT-TTACTTATTCGCATTGCGAATTTCCCAATTCGC
1 GTTGCGATAGTAAGTA-TCGCATTGCGATTTTCTCAATTCGC
33575 GTTGCGAT
1 GTTGCGAT
33583 TTACTTATTC
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 68 0.92
42 3 0.04
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.39
Consensus pattern (41 bp):
GTTGCGATAGTAAGTATCGCATTGCGATTTTCTCAATTCGC
Found at i:33553 original size:20 final size:20
Alignment explanation
Indices: 33509--33601 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
33499 ATAGTCAGTA
*
33509 TCGCATTGCGATTTTCTCAAT
1 TCGCATTGCGATTTACT-AAT
* *
33530 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
* *
33550 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTAAT
* *
33571 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
33591 TCGCATTGCGA
1 TCGCATTGCGA
33602 ATTGGGAAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.47
21 31 0.53
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACTAAT
Found at i:33583 original size:41 final size:41
Alignment explanation
Indices: 33509--33604 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
33499 ATAGTCAGTA
* *
33509 TCGCATTGCGATTTTCTCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
33550 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
33591 TCGCATTGCGAATT
1 TCGCATTGCGAATT
33605 GGGAAAATCG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:35275 original size:65 final size:65
Alignment explanation
Indices: 35154--35277 Score: 171
Period size: 65 Copynumber: 1.9 Consensus size: 65
35144 TATAAATATA
* ***
35154 TTTTGTTTTTGTTTTAATTTATTAAATTTATTTATATATTTTTGTTTTTTATAAATATCTTTTGT
1 TTTTGTTTTTGTTTTAATTTATTAAATATATTTATATATTTTTGTTCCATATAAATATCTTTTGT
*
35219 TTTTGTTTTTGTTTTAATTTATTAAATATATTTATGTGATTTGTTG-TCCATA-AAATATC
1 TTTTGTTTTTGTTTTAATTTATTAAATATATTTATAT-ATTT-TTGTTCCATATAAATATC
35278 GAATGCATTA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
65 42 0.81
66 7 0.13
67 3 0.06
ACGTcount: A:0.25, C:0.03, G:0.08, T:0.64
Consensus pattern (65 bp):
TTTTGTTTTTGTTTTAATTTATTAAATATATTTATATATTTTTGTTCCATATAAATATCTTTTGT
Found at i:39031 original size:13 final size:13
Alignment explanation
Indices: 39013--39044 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
39003 TGATGGTAAG
39013 AAGGAGGTGAGAC
1 AAGGAGGTGAGAC
39026 AAGGAGGTGAGAC
1 AAGGAGGTGAGAC
39039 AAGGAG
1 AAGGAG
39045 ACTCGTTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.06, G:0.47, T:0.06
Consensus pattern (13 bp):
AAGGAGGTGAGAC
Found at i:39581 original size:18 final size:19
Alignment explanation
Indices: 39546--39582 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
39536 CACGGAATGT
39546 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
39566 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
39583 GGATTATTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:42019 original size:21 final size:22
Alignment explanation
Indices: 41968--42040 Score: 71
Period size: 23 Copynumber: 3.4 Consensus size: 22
41958 TAGTTTTGAA
* *
41968 ATATATATATATATATATATAT
1 ATATATTTAAATATATATATAT
41990 ATATATATTAAATATATATATAGT
1 ATATAT-TTAAATATATATATA-T
* *
42014 -TTTATTTAAA-ATATATGT-T
1 ATATATTTAAATATATATATAT
42033 ATATATTT
1 ATATATTT
42041 TGAAAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 1 0.02
20 6 0.14
21 7 0.16
22 11 0.26
23 17 0.40
24 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (22 bp):
ATATATTTAAATATATATATAT
Found at i:42029 original size:2 final size:2
Alignment explanation
Indices: 41968--42011 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
41958 TAGTTTTGAA
*
41968 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
42009 AT A
1 AT A
42012 GTTTTATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42029 original size:23 final size:23
Alignment explanation
Indices: 41968--42011 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
41958 TAGTTTTGAA
*
41968 ATATATA-TATATATATATATAT
1 ATATATATTAAATATATATATAT
41990 ATATATATTAAATATATATATA
1 ATATATATTAAATATATATATA
42012 GTTTTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATATATATTAAATATATATATAT
Found at i:43223 original size:22 final size:22
Alignment explanation
Indices: 43173--43215 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
43163 TTGAGTGAGT
43173 TGAGAGAATTTGAGAATTTTGG
1 TGAGAGAATTTGAGAATTTTGG
43195 TGAGAGAATTTGAGAATTTTG
1 TGAGAGAATTTGAGAATTTTG
43216 TGGGGAGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.37
Consensus pattern (22 bp):
TGAGAGAATTTGAGAATTTTGG
Found at i:43404 original size:29 final size:31
Alignment explanation
Indices: 43358--43420 Score: 94
Period size: 29 Copynumber: 2.1 Consensus size: 31
43348 TTCGTTTTGG
43358 TTTATTATTTCAATTTAATCCATAAATTTTA
1 TTTATTATTTCAATTTAATCCATAAATTTTA
* *
43389 TTTATT-TTT-AATTTAATCCTTATATTTTA
1 TTTATTATTTCAATTTAATCCATAAATTTTA
43418 TTT
1 TTT
43421 TACATTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 21 0.70
30 3 0.10
31 6 0.20
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (31 bp):
TTTATTATTTCAATTTAATCCATAAATTTTA
Found at i:43492 original size:4 final size:4
Alignment explanation
Indices: 43479--43508 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
43469 TAATTACATC
43479 TTTA -TTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
43509 TTAAACATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:46301 original size:22 final size:22
Alignment explanation
Indices: 46276--46321 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
46266 TGAACAGTGT
46276 CGTGAACAATAATAAACAATAC
1 CGTGAACAATAATAAACAATAC
* * *
46298 CGTGAACAGTGATGAACAATAC
1 CGTGAACAATAATAAACAATAC
46320 CG
1 CG
46322 AATGCTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.17
Consensus pattern (22 bp):
CGTGAACAATAATAAACAATAC
Found at i:47126 original size:31 final size:31
Alignment explanation
Indices: 47088--47200 Score: 172
Period size: 31 Copynumber: 3.6 Consensus size: 31
47078 AGCTCGTATA
*
47088 ATAATCTGTCCATATGTCCCGAATAACATAG
1 ATAATCTGTCCATATGTCCCGAAGAACATAG
47119 ATAATCTGTCCATATGTCCCGAAGAACATAG
1 ATAATCTGTCCATATGTCCCGAAGAACATAG
* * *
47150 GTAAACTGTCCATATGTCCCAAAGAACATAG
1 ATAATCTGTCCATATGTCCCGAAGAACATAG
*
47181 GTAATCCTGTCCATATGTCC
1 ATAAT-CTGTCCATATGTCC
47201 TGTAAGACAT
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 62 0.82
32 14 0.18
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (31 bp):
ATAATCTGTCCATATGTCCCGAAGAACATAG
Found at i:47164 original size:62 final size:63
Alignment explanation
Indices: 47093--47217 Score: 191
Period size: 62 Copynumber: 2.0 Consensus size: 63
47083 GTATAATAAT
* *
47093 CTGTCCATATGTCCCGAATAACATAGATAAT-CTGTCCATATGTCCCG-AAGAACATAGGTAAA
1 CTGTCCATATGTCCCAAAGAACATAGATAATCCTGTCCATATGTCCCGTAAG-ACATAGGTAAA
* *
47155 CTGTCCATATGTCCCAAAGAACATAGGTAATCCTGTCCATATGTCCTGTAAGACATAGGTAAA
1 CTGTCCATATGTCCCAAAGAACATAGATAATCCTGTCCATATGTCCCGTAAGACATAGGTAAA
47218 TCCCTCGACT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
62 28 0.49
63 26 0.46
64 3 0.05
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (63 bp):
CTGTCCATATGTCCCAAAGAACATAGATAATCCTGTCCATATGTCCCGTAAGACATAGGTAAA
Found at i:51399 original size:23 final size:23
Alignment explanation
Indices: 51369--51469 Score: 136
Period size: 23 Copynumber: 4.5 Consensus size: 23
51359 ACGAACGGAT
51369 GTAAACGAACACAATAAATGAAC
1 GTAAACGAACACAATAAATGAAC
* **
51392 GTAAACGAACACAAATGAACAAAC
1 GTAAACGAACAC-AATAAATGAAC
*
51416 GCAAACGAACACAATAAATGAAC
1 GTAAACGAACACAATAAATGAAC
51439 GTAAAC-AA-AC-ATAAATGAAC
1 GTAAACGAACACAATAAATGAAC
51459 GTAAACGAACA
1 GTAAACGAACA
51470 TAAATGAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
20 16 0.24
21 4 0.06
22 3 0.04
23 25 0.37
24 19 0.28
ACGTcount: A:0.57, C:0.19, G:0.13, T:0.11
Consensus pattern (23 bp):
GTAAACGAACACAATAAATGAAC
Found at i:51409 original size:20 final size:20
Alignment explanation
Indices: 51369--51477 Score: 92
Period size: 20 Copynumber: 5.0 Consensus size: 20
51359 ACGAACGGAT
51369 GTAAACGAACACAATAAATGAAC
1 GTAAACGAACAC---AAATGAAC
51392 GTAAACGAACACAAATGAACAAAC
1 GTAAACGAACACAAATG----AAC
*
51416 GCAAACGAACACAATAAATGAAC
1 GTAAACGAACAC---AAATGAAC
* *
51439 GTAAACAAACATAAATGAAC
1 GTAAACGAACACAAATGAAC
*
51459 GTAAACGAACATAAATGAA
1 GTAAACGAACACAAATGAA
51478 AATATTTTTT
Statistics
Matches: 74, Mismatches: 5, Indels: 17
0.77 0.05 0.18
Matches are distributed among these distances:
20 31 0.42
23 24 0.32
24 14 0.19
27 5 0.07
ACGTcount: A:0.58, C:0.17, G:0.13, T:0.12
Consensus pattern (20 bp):
GTAAACGAACACAAATGAAC
Found at i:51421 original size:24 final size:24
Alignment explanation
Indices: 51371--51433 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
51361 GAACGGATGT
** *
51371 AAACGAACAC-AATAAATGAACGT
1 AAACGAACACAAATAAACAAACGC
*
51394 AAACGAACACAAATGAACAAACGC
1 AAACGAACACAAATAAACAAACGC
51418 AAACGAACAC-AATAAA
1 AAACGAACACAAATAAA
51434 TGAACGTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 15 0.44
24 19 0.56
ACGTcount: A:0.60, C:0.21, G:0.11, T:0.08
Consensus pattern (24 bp):
AAACGAACACAAATAAACAAACGC
Found at i:51685 original size:24 final size:24
Alignment explanation
Indices: 51653--51702 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
51643 AACATAAATG
51653 AACGCACATAAACGAAAGAATATA
1 AACGCACATAAACGAAAGAATATA
* * *
51677 AACGGACATAAATGAACGAATATA
1 AACGCACATAAACGAAAGAATATA
51701 AA
1 AA
51703 TGAACATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.58, C:0.14, G:0.14, T:0.14
Consensus pattern (24 bp):
AACGCACATAAACGAAAGAATATA
Found at i:51709 original size:24 final size:24
Alignment explanation
Indices: 51653--51710 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
51643 AACATAAATG
*
51653 AACGCACATAAACGAAAGAATATA
1 AACGAACATAAACGAAAGAATATA
* * *
51677 AACGGACATAAATGAACGAATATA
1 AACGAACATAAACGAAAGAATATA
*
51701 AATGAACATA
1 AACGAACATA
51711 TTACCGAACG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.16
Consensus pattern (24 bp):
AACGAACATAAACGAAAGAATATA
Found at i:58606 original size:360 final size:360
Alignment explanation
Indices: 57935--58766 Score: 910
Period size: 360 Copynumber: 2.3 Consensus size: 360
57925 TTAACTATAC
* * * *
57935 AAGTGACAAAATTGAAGGTAAAGAGGTC-TCAAGTCTTGTTCCAGAGGATCATAGTTCAATGCAC
1 AAGTGACAAAATTGAAGTTAAAGAGGACAT-AAGTCTTGCTCCAGAGGATCAAAGTTCAATGCAC
* * * *
57999 TTAGAAGATACCGACATAACTGC-GACTGAACCAGTTCAGAAGGTAGTCATCCGGGAAAGTGATA
65 TTAGAAGATACCAACATAACTGCTG-CTGAACCAGTTCAGGAGGTAGTTATCCGGGAAAGTGACA
* * * *
58063 AAATGGATGTTAAAGGGGTTACATGTCCTGCTCAAGAGGATCAGAATTCCATGCACTTAGAAGAT
129 AAATGGAAGTTAAAGGAGTTACACGTCCTGCTCAAGAGGATCAGAATTCCATGCAATTAGAAGAT
** * * ** * * * *
58128 ACCAACATGACTGCTGCTGGATCAGTTCAGGAGTTACTTATCCGGGAAAGTGGAAAAATGGACGT
194 ACCAACACAACTGCTGCTGAACCAGCCCAGCAGGTACTTATCCGGGAAAGTGAAAAAATGGAAGT
* * * *
58193 TAAAGAGGACACAAATCTTGCTCCAGAGGATCAGAGTTCGATGCACATAGAAGATACCAACATGA
259 TAAAGAGGACACAAATCTTGCTCCAGAGGATCACAGTTCAATACACATAGAAGATACCAACATAA
* * * **
58258 CTGCTGCTGGATCAGTTCAGGAGTTAGGTATCTGGGA
324 CTGCTGCTGAACCAGCTCAGGAGCAAGGTATCTGGGA
* * * * *
58295 AAGTGACAAAATGGAAGTTAAAGAGGACATAAATCTTGCTCCAAAGGATCACAGTTCAATGTACT
1 AAGTGACAAAATTGAAGTTAAAGAGGACATAAGTCTTGCTCCAGAGGATCAAAGTTCAATGCACT
* * *
58360 TAGAAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGGTAGTTGTCTGGGACAGTGACAAA
66 TAGAAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGGTAGTTATCCGGGAAAGTGACAAA
* * * * *
58425 ATTGAAGTT-AAGGAG-TACTCACGTCTTGTTGAAGAGGATCAGACTT-CACTGCAATTAGAAGA
131 ATGGAAGTTAAAGGAGTTA--CACGTCCTGCTCAAGAGGATCAGAATTCCA-TGCAATTAGAAGA
* * *
58487 TACCAACACAATTGCTGCTGAACCAGCCCAGCAGGTAGTT-TACTGGGAAAGTGAAAAAGAT-GA
193 TACCAACACAACTGCTGCTGAACCAGCCCAGCAGGTACTTAT-CCGGGAAAGTGAAAAA-ATGGA
** * * * *
58550 AGTTAAAGAGGTTACGATTCTTGCT-CA-AGGATACCACAGTTCAATACACTTAGAAGATACCGA
256 AGTTAAAGAGGACACAAATCTTGCTCCAGAGGAT--CACAGTTCAATACACATAGAAGATACCAA
* * *
58613 GATAACTGCTGCTGAACCAGCTCAGGAGCAAGTTTTCTGGGA
319 CATAACTGCTGCTGAACCAGCTCAGGAGCAAGGTATCTGGGA
* * * * * *
58655 AAGTGACAAAATTGAAGTTAAAGAAGACATAAGTGC-TGCACTAGAGGATCAAAATTTAATGCAA
1 AAGTGACAAAATTGAAGTTAAAGAGGACATAAGT-CTTGCTCCAGAGGATCAAAGTTCAATGCAC
* * * *
58719 TTTGAAGATATCAGCATAACTGCTACTGAACCAGTTCAGGAGGTAGTT
65 TTAGAAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGGTAGTT
58767 TTCAGGGATC
Statistics
Matches: 392, Mismatches: 70, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
358 7 0.02
359 10 0.03
360 370 0.94
361 5 0.01
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (360 bp):
AAGTGACAAAATTGAAGTTAAAGAGGACATAAGTCTTGCTCCAGAGGATCAAAGTTCAATGCACT
TAGAAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGGTAGTTATCCGGGAAAGTGACAAA
ATGGAAGTTAAAGGAGTTACACGTCCTGCTCAAGAGGATCAGAATTCCATGCAATTAGAAGATAC
CAACACAACTGCTGCTGAACCAGCCCAGCAGGTACTTATCCGGGAAAGTGAAAAAATGGAAGTTA
AAGAGGACACAAATCTTGCTCCAGAGGATCACAGTTCAATACACATAGAAGATACCAACATAACT
GCTGCTGAACCAGCTCAGGAGCAAGGTATCTGGGA
Found at i:58767 original size:240 final size:238
Alignment explanation
Indices: 57935--58766 Score: 813
Period size: 240 Copynumber: 3.5 Consensus size: 238
57925 TTAACTATAC
* * * * * * *
57935 AAGTGACAAAATTGAAGGTAAAGAGGTC-TCAAGTCTTGTTCCAGAGGATCATAGTTCAATGCAC
1 AAGTGACAAAATTGAAGTTAAAGAAGACAT-AAGTCTTGCTCAAGAGGATCAGAGTTCAATGCAA
* * * * * *
57999 TTAGAAGATACCGACATAACTGCGACTGAACCAGTTCAGAAGGTAGTCATCCGGGAAAGTGATAA
65 TTAGAAGATACCAACATAACTGCTACTGAACCAGTTCAGGAGGTAGTTATCTGGGAAAGTGAAAA
* * * * * *
58064 AATGGATGTTAAAGGGGTTACATGTCCTGCTCAAGAGGATCAGAATTCCATGCACTTAGAAGATA
130 AATGGAAGTTAAAGAGGTTACAT-TCTTGCTCAA-AGGATCACAGTTCAATGCACTTAGAAGATA
* * * * * *
58129 CCAACATGACTGCTGCTGGATCAGTTCAGGAGTTACTTATCCGGGA
193 CCAACATAACTGCTGCTGAACCAGTTCAGGAGCTAGTTATCTGGGA
* * * * * * *
58175 AAGTGGA-AAAATGGACGTTAAAGAGGACACAAATCTTGCTCCAGAGGATCAGAGTTCGATGCAC
1 AAGT-GACAAAATTGAAGTTAAAGAAGACATAAGTCTTGCTCAAGAGGATCAGAGTTCAATGCA-
* * * * * * *
58239 A-TAGAAGATACCAACATGACTGCTGCTGGATCAGTTCAGGAGTTAGGTATCTGGGAAAGTGACA
64 ATTAGAAGATACCAACATAACTGCTACTGAACCAGTTCAGGAGGTAGTTATCTGGGAAAGTGAAA
*
58303 AAATGGAAGTTAAAGAGG--ACATAAATCTTGCTCCAAAGGATCACAGTTCAATGTACTTAGAAG
129 AAATGGAAGTTAAAGAGGTTACAT---TCTTGCT-CAAAGGATCACAGTTCAATGCACTTAGAAG
* *
58366 ATACCAACATAACTGCTGCTGAACCAGTTCAGGAGGTAGTTGTCTGGGA
190 ATACCAACATAACTGCTGCTGAACCAGTTCAGGAGCTAGTTATCTGGGA
* * * * * * *
58415 CAGTGACAAAATTGAAGTT-AAGGAGTAC-TCACGTCTTGTTGAAGAGGATCAGACTTCACTGCA
1 AAGTGACAAAATTGAAGTTAAAGAAG-ACAT-AAGTCTTGCTCAAGAGGATCAGAGTTCAATGCA
* * * ** *
58478 ATTAGAAGATACCAACACAATTGCTGCTGAACCAGCCCAGCAGGTAGTT-TACTGGGAAAGTGAA
64 ATTAGAAGATACCAACATAACTGCTACTGAACCAGTTCAGGAGGTAGTTAT-CTGGGAAAGTGAA
*
58542 AAAGAT-GAAGTTAAAGAGGTTACGATTCTTGCTC-AAGGATACCACAGTTCAATACACTTAGAA
128 AAA-ATGGAAGTTAAAGAGGTTAC-ATTCTTGCTCAAAGGAT--CACAGTTCAATGCACTTAGAA
* * * * *
58605 GATACCGAGATAACTGCTGCTGAACCAGCTCAGGAGCAAGTTTTCTGGGA
189 GATACCAACATAACTGCTGCTGAACCAGTTCAGGAGCTAGTTATCTGGGA
* * * * *
58655 AAGTGACAAAATTGAAGTTAAAGAAGACATAAGTGC-TGCACTAGAGGATCAAAATTTAATGCAA
1 AAGTGACAAAATTGAAGTTAAAGAAGACATAAGT-CTTGCTCAAGAGGATCAGAGTTCAATGCAA
* * *
58719 TTTGAAGATATCAGCATAACTGCTACTGAACCAGTTCAGGAGGTAGTT
65 TTAGAAGATACCAACATAACTGCTACTGAACCAGTTCAGGAGGTAGTT
58767 TTCAGGGATC
Statistics
Matches: 482, Mismatches: 90, Indels: 40
0.79 0.15 0.07
Matches are distributed among these distances:
238 10 0.02
239 9 0.02
240 445 0.92
241 14 0.03
242 2 0.00
243 2 0.00
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (238 bp):
AAGTGACAAAATTGAAGTTAAAGAAGACATAAGTCTTGCTCAAGAGGATCAGAGTTCAATGCAAT
TAGAAGATACCAACATAACTGCTACTGAACCAGTTCAGGAGGTAGTTATCTGGGAAAGTGAAAAA
ATGGAAGTTAAAGAGGTTACATTCTTGCTCAAAGGATCACAGTTCAATGCACTTAGAAGATACCA
ACATAACTGCTGCTGAACCAGTTCAGGAGCTAGTTATCTGGGA
Found at i:58769 original size:120 final size:120
Alignment explanation
Indices: 57935--58766 Score: 727
Period size: 120 Copynumber: 6.9 Consensus size: 120
57925 TTAACTATAC
* * * * * * *
57935 AAGTGACAAAATTGAAGGTAAAGAGGTC-TCAAGTCTTGTTCCAGAGGATCATAGTTCAATGCAC
1 AAGTGACAAAATGGAAGTTAAAGAAGACAT-AAGTCTTGCTCAAGAGGATCAGAGTTCAATGCAC
* * * *
57999 TTAGAAGATACCGACATAACTGC-GACTGAACCAGTTCAGAAGGTAGTCATCCGGGA
65 TTAGAAGATACCAACATAACTGCTG-CTGAACCAGTTCAGGAGGTAGTTATCTGGGA
* * ** * * *
58055 AAGTGATAAAATGGATGTTAAAGGGGTTACAT--GTCCTGCTCAAGAGGATCAGAATTCCATGCA
1 AAGTGACAAAATGGAAGTTAAAGAAG--ACATAAGTCTTGCTCAAGAGGATCAGAGTTCAATGCA
* * * * * *
58118 CTTAGAAGATACCAACATGACTGCTGCTGGATCAGTTCAGGAGTTACTTATCCGGGA
64 CTTAGAAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGGTAGTTATCTGGGA
* * * * * *
58175 AAGTGGA-AAAATGGACGTTAAAGAGGACACAAATCTTGCTCCAGAGGATCAGAGTTCGATGCAC
1 AAGT-GACAAAATGGAAGTTAAAGAAGACATAAGTCTTGCTCAAGAGGATCAGAGTTCAATGCAC
* * * * * *
58239 ATAGAAGATACCAACATGACTGCTGCTGGATCAGTTCAGGAGTTAGGTATCTGGGA
65 TTAGAAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGGTAGTTATCTGGGA
* * * *
58295 AAGTGACAAAATGGAAGTTAAAGAGGACATAAATCTTGCTCCAA-AGGATCACAGTTCAATGTAC
1 AAGTGACAAAATGGAAGTTAAAGAAGACATAAGTCTTGCT-CAAGAGGATCAGAGTTCAATGCAC
*
58359 TTAGAAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGGTAGTTGTCTGGGA
65 TTAGAAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGGTAGTTATCTGGGA
* * * * * * * *
58415 CAGTGACAAAATTGAAGTT-AAGGAGTAC-TCACGTCTTGTTGAAGAGGATCAGACTTCACTGCA
1 AAGTGACAAAATGGAAGTTAAAGAAG-ACAT-AAGTCTTGCTCAAGAGGATCAGAGTTCAATGCA
* * * ** *
58478 ATTAGAAGATACCAACACAATTGCTGCTGAACCAGCCCAGCAGGTAGTT-TACTGGGA
64 CTTAGAAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGGTAGTTAT-CTGGGA
* * ** ** * * *
58535 AAGTGAAAAAGAT-GAAGTTAAAGAGGTTACGATTCTTGCTC-A-AGGATACCACAGTTCAATAC
1 AAGTGACAAA-ATGGAAGTTAAAGAAGACATAAGTCTTGCTCAAGAGGAT--CAGAGTTCAATGC
* * * ** *
58597 ACTTAGAAGATACCGAGATAACTGCTGCTGAACCAGCTCAGGAGCAAGTTTTCTGGGA
63 ACTTAGAAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGGTAGTTATCTGGGA
* * * * * * *
58655 AAGTGACAAAATTGAAGTTAAAGAAGACATAAGTGC-TGCACTAGAGGATCAAAATTTAATGCAA
1 AAGTGACAAAATGGAAGTTAAAGAAGACATAAGT-CTTGCTCAAGAGGATCAGAGTTCAATGCAC
* * * *
58719 TTTGAAGATATCAGCATAACTGCTACTGAACCAGTTCAGGAGGTAGTT
65 TTAGAAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGGTAGTT
58767 TTCAGGGATC
Statistics
Matches: 579, Mismatches: 110, Indels: 46
0.79 0.15 0.06
Matches are distributed among these distances:
118 8 0.01
119 13 0.02
120 537 0.93
121 14 0.02
122 6 0.01
123 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (120 bp):
AAGTGACAAAATGGAAGTTAAAGAAGACATAAGTCTTGCTCAAGAGGATCAGAGTTCAATGCACT
TAGAAGATACCAACATAACTGCTGCTGAACCAGTTCAGGAGGTAGTTATCTGGGA
Done.