Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006230.1 Hibiscus syriacus cultivar Beakdansim tig00014847_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: 103464
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:5991 original size:12 final size:12
Alignment explanation
Indices: 5974--6034 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
5964 GTATCAATCC
5974 TAAAATAAATTA
1 TAAAATAAATTA
*
5986 TAAAATATA-TA
1 TAAAATAAATTA
*
5997 TAAGAATATAATTT
1 TAA-AATA-AATTA
* *
6011 TTAAATAAACTA
1 TAAAATAAATTA
*
6023 TAAAATTAATTA
1 TAAAATAAATTA
6035 AAATACATAA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
11 5 0.14
12 24 0.65
13 5 0.14
14 3 0.08
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (12 bp):
TAAAATAAATTA
Found at i:6025 original size:37 final size:36
Alignment explanation
Indices: 5976--6052 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 36
5966 ATCAATCCTA
*
5976 AAATAAATTATAAAA-TATATATAAGAAT-ATAATTTTT
1 AAATAAACTATAAAATTA-AT-TAA-AATAATAATTTTT
6013 AAATAAACTATAAAATTAATTAAAATACATAATTTTT
1 AAATAAACTATAAAATTAATTAAAATA-ATAATTTTT
6050 AAA
1 AAA
6053 ATATTTTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
35 3 0.08
36 3 0.08
37 28 0.78
38 2 0.06
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (36 bp):
AAATAAACTATAAAATTAATTAAAATAATAATTTTT
Found at i:7389 original size:23 final size:22
Alignment explanation
Indices: 7349--7397 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
7339 GTATTACAAT
* *
7349 AATATATTTATAACATAAGTTAA
1 AATATATTAATAACATAA-ATAA
* *
7372 AATATATTAATTATATAAATAA
1 AATATATTAATAACATAAATAA
7394 AATA
1 AATA
7398 ATACCTTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
AATATATTAATAACATAAATAA
Found at i:11184 original size:2 final size:2
Alignment explanation
Indices: 11177--11202 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11167 CATTAATTTC
11177 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
11203 ATCAAACACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25008 original size:18 final size:18
Alignment explanation
Indices: 24973--25021 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
24963 GATTGTCGGA
24973 GACGAGGAGAGAAGAAGAG
1 GACGAGGA-AGAAGAAGAG
*
24992 GACGAGGAAGGAGAAGAG
1 GACGAGGAAGAAGAAGAG
*
25010 GAAGAGGAAGAA
1 GACGAGGAAGAA
25022 AGGGTGGCGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 19 0.70
19 8 0.30
ACGTcount: A:0.49, C:0.04, G:0.47, T:0.00
Consensus pattern (18 bp):
GACGAGGAAGAAGAAGAG
Found at i:27222 original size:11 final size:11
Alignment explanation
Indices: 27202--27231 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
27192 ATAAAAATTG
*
27202 ATCATTAAATA
1 ATCATAAAATA
27213 ATCATAAAATA
1 ATCATAAAATA
27224 ATCATAAA
1 ATCATAAA
27232 CGAAACGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (11 bp):
ATCATAAAATA
Found at i:27460 original size:68 final size:67
Alignment explanation
Indices: 27351--27487 Score: 204
Period size: 68 Copynumber: 2.0 Consensus size: 67
27341 GCATATTGAT
*
27351 ATTGATTTTATTACAATGAGAACATCTAGGGTGATACAAGCACCAATCAATTTAAGTGTATAGAA
1 ATTGATTTTATTACAATGAGAACATCTAGGGTGATACAAGCACCAATCAATTTAAGGGTATA-AA
27416 AAA
65 AAA
* ** *
27419 ATTGATTTTATTGCAATGAGAACATCT-GTGGTGATACAAGCACCAATTGATTTAAGGGTCTAAA
1 ATTGATTTTATTACAATGAGAACATCTAG-GGTGATACAAGCACCAATCAATTTAAGGGTATAAA
27483 AAA
65 AAA
27486 AT
1 AT
27488 CTATAAAATA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
67 8 0.13
68 55 0.87
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.31
Consensus pattern (67 bp):
ATTGATTTTATTACAATGAGAACATCTAGGGTGATACAAGCACCAATCAATTTAAGGGTATAAAA
AA
Found at i:28138 original size:60 final size:61
Alignment explanation
Indices: 28017--28144 Score: 152
Period size: 60 Copynumber: 2.1 Consensus size: 61
28007 AAACATATGA
* ***
28017 ATAGTCG-AGTGACCATTTTGTAACTTTTAATAGTCAAATGGCTCAACAAAATAGTGTCCT
1 ATAGTCGAAGTGACCATTTTGTAACTTTTAATAGTCAAATGACTCAACAAAATAGAACCCT
* ** * *
28077 ATAGTCGAAG-GATCATTTTGTAACTTTTAATAGTCGGATGATTCAACAAACTAGAACCCT
1 ATAGTCGAAGTGACCATTTTGTAACTTTTAATAGTCAAATGACTCAACAAAATAGAACCCT
*
28137 ATAATCGA
1 ATAGTCGA
28145 GGGACCAATT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 55 0.96
61 2 0.04
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (61 bp):
ATAGTCGAAGTGACCATTTTGTAACTTTTAATAGTCAAATGACTCAACAAAATAGAACCCT
Found at i:38562 original size:19 final size:19
Alignment explanation
Indices: 38538--38581 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
38528 ACCAACTAAA
38538 TCGCAATGCGATCGATAAT
1 TCGCAATGCGATCGATAAT
38557 TCGCAATGCGATCGATAAT
1 TCGCAATGCGATCGATAAT
38576 TCGCAA
1 TCGCAA
38582 CGTGATCTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (19 bp):
TCGCAATGCGATCGATAAT
Found at i:38588 original size:19 final size:19
Alignment explanation
Indices: 38538--38588 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
38528 ACCAACTAAA
*
38538 TCGCAATGCGATCGATAAT
1 TCGCAACGCGATCGATAAT
*
38557 TCGCAATGCGATCGATAAT
1 TCGCAACGCGATCGATAAT
*
38576 TCGCAACGTGATC
1 TCGCAACGCGATC
38589 TCCGGTATCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (19 bp):
TCGCAACGCGATCGATAAT
Found at i:38688 original size:21 final size:20
Alignment explanation
Indices: 38662--38731 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 20
38652 CATATTCGCA
38662 TTGCGATAGCCGAAGTTCACG
1 TTGCGATAGCCGAAGTTC-CG
*
38683 TTGCGATTTATTCC-AAGTT-CG
1 TTGCGA--TA-GCCGAAGTTCCG
*
38704 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGCCGAAGTTC-CG
38725 TTGCGAT
1 TTGCGAT
38732 TTATTCCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
18 1 0.03
19 7 0.17
21 23 0.57
23 7 0.17
24 2 0.05
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (20 bp):
TTGCGATAGCCGAAGTTCCG
Found at i:38718 original size:42 final size:42
Alignment explanation
Indices: 38662--38789 Score: 202
Period size: 42 Copynumber: 3.0 Consensus size: 42
38652 CATATTCGCA
* *
38662 TTGCGATAGCCGAAGTTCACGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
*
38704 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
* * *
38746 TTGCGATAGTCCAAATTCGCGTTGCGATTTATTCTAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
38788 TT
1 TT
38790 CGCAACGACG
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 79 1.00
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.37
Consensus pattern (42 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
Found at i:38747 original size:21 final size:21
Alignment explanation
Indices: 38681--38789 Score: 100
Period size: 21 Copynumber: 5.2 Consensus size: 21
38671 CCGAAGTTCA
38681 CGTTGCGATTTATTCCAAGTT
1 CGTTGCGATTTATTCCAAGTT
* *
38702 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAGTT
*
38721 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAGTT
* *
38744 CGTTGCGA--TAGTCCAAATT
1 CGTTGCGATTTATTCCAAGTT
*
38763 CGCGTTGCGATTTATTCTAAGTT
1 --CGTTGCGATTTATTCCAAGTT
38786 CGTT
1 CGTT
38790 CGCAACGACG
Statistics
Matches: 71, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
19 19 0.27
21 36 0.51
23 16 0.23
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAGTT
Found at i:38760 original size:19 final size:19
Alignment explanation
Indices: 38694--38764 Score: 70
Period size: 19 Copynumber: 3.5 Consensus size: 19
38684 TGCGATTTAT
*
38694 TCCAAGTTCGTTGCGATAG
1 TCCAAATTCGTTGCGATAG
* * *
38713 TCGAAGTTCGCGTTGCGATTTAT
1 TCCAAATT--CGTTGCGA--TAG
38736 TCCAAATTCGTTGCGATAG
1 TCCAAATTCGTTGCGATAG
38755 TCCAAATTCG
1 TCCAAATTCG
38765 CGTTGCGATT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 19 0.44
21 16 0.37
23 8 0.19
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (19 bp):
TCCAAATTCGTTGCGATAG
Found at i:40280 original size:29 final size:29
Alignment explanation
Indices: 40230--40301 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 29
40220 ATGCACTCCC
*
40230 CACTCCCAGCGACCTACAAGGTCGCCATG
1 CACTCCCAGCGACCTACAAGGTCGCCAAG
* ***
40259 CACTCCCAGTGACCTTGTAGGTCGCCAAG
1 CACTCCCAGCGACCTACAAGGTCGCCAAG
* *
40288 CAGTCCCGGCGACC
1 CACTCCCAGCGACC
40302 AAGCTTGGTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.21, C:0.40, G:0.24, T:0.15
Consensus pattern (29 bp):
CACTCCCAGCGACCTACAAGGTCGCCAAG
Found at i:40551 original size:29 final size:29
Alignment explanation
Indices: 40500--40556 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
40490 ATAATGGCCA
* *
40500 TAGGTCGCCATGCAATCCGGGCGACCTTG
1 TAGGTCACCATGCAATCCAGGCGACCTTG
**
40529 TAGGTCACCATGCCTTCCAGGCGACCTT
1 TAGGTCACCATGCAATCCAGGCGACCTT
40557 TGTGGGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.18, C:0.33, G:0.26, T:0.23
Consensus pattern (29 bp):
TAGGTCACCATGCAATCCAGGCGACCTTG
Found at i:40906 original size:26 final size:26
Alignment explanation
Indices: 40877--40960 Score: 143
Period size: 26 Copynumber: 3.3 Consensus size: 26
40867 ACATAAAAGA
*
40877 AAGAAAGGGAGAAGAGATTGCAGCTG
1 AAGAAAGGGAGAAGAGATTGCAGCAG
40903 AAGAAAGGGAGAAGAGATTGCAGCAG
1 AAGAAAGGGAGAAGAGATTGCAGCAG
*
40929 AAGAAAGGGAGAAGAGATTGCAGCCG
1 AAGAAAGGGAGAAGAGATTGCAGCAG
40955 -AGAAAG
1 AAGAAAG
40961 AAAGAAAGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
25 6 0.11
26 50 0.89
ACGTcount: A:0.45, C:0.08, G:0.38, T:0.08
Consensus pattern (26 bp):
AAGAAAGGGAGAAGAGATTGCAGCAG
Found at i:40974 original size:12 final size:12
Alignment explanation
Indices: 40959--40985 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
40949 CAGCCGAGAA
40959 AGAAAGAAAGGG
1 AGAAAGAAAGGG
40971 AGAAAGAAAGGG
1 AGAAAGAAAGGG
40983 AGA
1 AGA
40986 TAAGGCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAGGG
Found at i:41463 original size:15 final size:14
Alignment explanation
Indices: 41443--41473 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
41433 GTTTGTTAGT
41443 TTATTATATTATAAG
1 TTATTATATTA-AAG
41458 TTATTATATTAAAG
1 TTATTATATTAAAG
41472 TT
1 TT
41474 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:43735 original size:21 final size:21
Alignment explanation
Indices: 43709--43928 Score: 254
Period size: 21 Copynumber: 10.5 Consensus size: 21
43699 GTTTCCAGAT
*
43709 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
*
43730 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
*
43751 TCGCAATGCGAA-TAT-GTA-AA
1 TCGCAATGCGAACT-TCG-ACTA
*
43771 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTCGACTA
*
43792 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
*
43813 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTCGACTA
* *
43834 TCGCAATACGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
*
43855 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTCGACTA
* *
43876 TCGCAATACGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
43897 TCGCAATGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
43918 TCGCAATGCGA
1 TCGCAATGCGA
43929 TAGTCCAAAT
Statistics
Matches: 169, Mismatches: 20, Indels: 20
0.81 0.10 0.10
Matches are distributed among these distances:
20 19 0.11
21 148 0.88
22 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:43762 original size:42 final size:42
Alignment explanation
Indices: 43709--43928 Score: 304
Period size: 42 Copynumber: 5.3 Consensus size: 42
43699 GTTTCCAGAT
* * * *
43709 TCGCAACGCGAACTTCGACTATCGCAATGCGA-ACTTGGACTA
1 TCGCAATGCGAACTTGGACTATCGCAATGCGATA-GTCGACTA
* *
43751 TCGCAATGCGAA-TATGTA-AATCGCAATGCGATAGTCGACTA
1 TCGCAATGCGAACT-TGGACTATCGCAATGCGATAGTCGACTA
43792 TCGCAATGCGAACTTGGACTATCGCAATGCGATAGTCGACTA
1 TCGCAATGCGAACTTGGACTATCGCAATGCGATAGTCGACTA
*
43834 TCGCAATACGAACTTGGACTATCGCAATGCGATAGTCGACTA
1 TCGCAATGCGAACTTGGACTATCGCAATGCGATAGTCGACTA
* *
43876 TCGCAATACGAACTTGGACTATCGCAATGCGA-ACTTCGACTA
1 TCGCAATGCGAACTTGGACTATCGCAATGCGATA-GTCGACTA
43918 TCGCAATGCGA
1 TCGCAATGCGA
43929 TAGTCCAAAT
Statistics
Matches: 162, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
41 35 0.22
42 127 0.78
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (42 bp):
TCGCAATGCGAACTTGGACTATCGCAATGCGATAGTCGACTA
Found at i:44633 original size:24 final size:24
Alignment explanation
Indices: 44606--44657 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
44596 CGTTCATTTA
*
44606 CGTTCGTGAACGTTCGGTTATGTT
1 CGTTCATGAACGTTCGGTTATGTT
* ** *
44630 CGTTTATGTTCGTTCGTTTATGTT
1 CGTTCATGAACGTTCGGTTATGTT
44654 CGTT
1 CGTT
44658 TATGTTCATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.10, C:0.15, G:0.25, T:0.50
Consensus pattern (24 bp):
CGTTCATGAACGTTCGGTTATGTT
Found at i:44644 original size:14 final size:14
Alignment explanation
Indices: 44627--44657 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
44617 GTTCGGTTAT
44627 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
44641 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
44655 GTT
1 GTT
44658 TATGTTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:44658 original size:24 final size:24
Alignment explanation
Indices: 44616--44677 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
44606 CGTTCGTGAA
*
44616 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGTTTATGTTCGTTTATGTT
44640 CGTTCGTTTATGTTCGTTTATGTT
1 CGTTCGTTTATGTTCGTTTATGTT
* *
44664 CATTCATTTATGTT
1 CGTTCGTTTATGTT
44678 TAACACAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.11, C:0.13, G:0.19, T:0.56
Consensus pattern (24 bp):
CGTTCGTTTATGTTCGTTTATGTT
Found at i:45417 original size:10 final size:10
Alignment explanation
Indices: 45402--45476 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
45392 GGGTCTCAAA
45402 CGTTTATGTT
1 CGTTTATGTT
45412 CGTTTATGTT
1 CGTTTATGTT
45422 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
45433 ATGTTCGTGTT
1 -CGTTTATGTT
*
45444 CGTTTATATT
1 CGTTTATGTT
45454 CG----TGTT
1 CGTTTATGTT
45460 CGTTTATGTT
1 CGTTTATGTT
45470 CGTTTAT
1 CGTTTAT
45477 TTATTAAATG
Statistics
Matches: 49, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
6 5 0.10
10 33 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.11, C:0.12, G:0.20, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:45433 original size:16 final size:16
Alignment explanation
Indices: 45408--45472 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
45398 CAAACGTTTA
45408 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
45424 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
*
45440 TGTTCGTTTATATTCG
1 TGTTCGTTTATGTTCG
45456 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
45472 T
1 T
45473 TTATTTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.09, C:0.12, G:0.22, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:45566 original size:16 final size:16
Alignment explanation
Indices: 45542--45572 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45532 AAAAAAAATT
45542 TGTTAGTTTATGTTCG
1 TGTTAGTTTATGTTCG
*
45558 TGTTCGTTTATGTTC
1 TGTTAGTTTATGTTC
45573 ATTTATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTAGTTTATGTTCG
Found at i:45921 original size:21 final size:21
Alignment explanation
Indices: 45892--46047 Score: 135
Period size: 21 Copynumber: 7.4 Consensus size: 21
45882 ATTTTGGACT
45892 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
45913 ATCTCAACGCGAACTTGGACT--
1 ATCGCAA--CGAACTTGGAATAA
* *
45934 ACCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
45955 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAACTTGGAATAA
*
45976 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
* *
45997 ATCGCAACGTGAACTTCGACT--
1 ATCGCAAC--GAACTTGGAATAA
46018 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
46039 ATCGCAACG
1 ATCGCAACG
46048 CGAACTTAGA
Statistics
Matches: 105, Mismatches: 18, Indels: 24
0.71 0.12 0.16
Matches are distributed among these distances:
19 28 0.27
21 49 0.47
23 28 0.27
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:45944 original size:42 final size:42
Alignment explanation
Indices: 45888--46066 Score: 295
Period size: 42 Copynumber: 4.3 Consensus size: 42
45878 TGCGATTTTG
* *
45888 GACTATCGCAACGAACTTGGAATAAATCTCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
45930 GACTACCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
45972 GACTATCGCAACGAATTTGGAATAAATCGCAACGTGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
46014 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTA
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
46056 GACTATCGCAA
1 GACTATCGCAA
46067 TGCGAATATG
Statistics
Matches: 128, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 128 1.00
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:45949 original size:19 final size:19
Alignment explanation
Indices: 45885--46066 Score: 121
Period size: 21 Copynumber: 8.7 Consensus size: 19
45875 CGTTGCGATT
45885 TTGGACTATCGCAACGAAC
1 TTGGACTATCGCAACGAAC
* *
45904 TTGGAATAAATCTCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
* *
45927 TTGGACTACCGCAACGAAT
1 TTGGACTATCGCAACGAAC
*
45946 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
* *
45969 TTCGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
*
45988 TTGGAATAAATCGCAACGTGAAC
1 TTGGACT--ATCGCAAC--GAAC
*
46011 TTCGACTATCGCAACGAAC
1 TTGGACTATCGCAACGAAC
*
46030 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
*
46053 TTAGACTATCGCAA
1 TTGGACTATCGCAA
46067 TGCGAATATG
Statistics
Matches: 126, Mismatches: 21, Indels: 30
0.71 0.12 0.17
Matches are distributed among these distances:
19 34 0.27
21 54 0.43
23 38 0.30
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (19 bp):
TTGGACTATCGCAACGAAC
Found at i:46408 original size:14 final size:14
Alignment explanation
Indices: 46389--46436 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
46379 TTCAAGTCGT
46389 AAATCATTACTATC
1 AAATCATTACTATC
46403 AAATCATTAC--T-
1 AAATCATTACTATC
*
46414 AAATCATTAATATC
1 AAATCATTACTATC
46428 AAATCATTA
1 AAATCATTA
46437 AATATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:46416 original size:25 final size:25
Alignment explanation
Indices: 46388--46436 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
46378 GTTCAAGTCG
*
46388 TAAATCATTACTATCAAATCATTAC
1 TAAATCATTAATATCAAATCATTAC
46413 TAAATCATTAATATCAAATCATTA
1 TAAATCATTAATATCAAATCATTA
46437 AATATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAATCATTAATATCAAATCATTAC
Found at i:46452 original size:21 final size:22
Alignment explanation
Indices: 46388--46446 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 22
46378 GTTCAAGTCG
*
46388 TAAATCATTACTATCAAATCATT
1 TAAATCATTAATATCAAATCA-T
46411 ACTAAATCATTAATATCAAATCAT
1 --TAAATCATTAATATCAAATCAT
46435 TAAAT-ATTAATA
1 TAAATCATTAATA
46447 ATAAATTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 7 0.21
22 5 0.15
24 1 0.03
25 20 0.61
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATCATTAATATCAAATCAT
Found at i:46460 original size:24 final size:24
Alignment explanation
Indices: 46433--46518 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
46423 ATATCAAATC
46433 ATTAAATATTAATAATAAATTATT
1 ATTAAATATTAATAATAAATTATT
*
46457 ATTACTAATCATTAATAATCATTAATATCAAATC
1 ATTA--AAT-ATTAATAAT-A--AAT-T---ATT
*
46491 ATTAAATAATAATAATAAATTATT
1 ATTAAATATTAATAATAAATTATT
46515 ATTA
1 ATTA
46519 CTAATCATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 20
0.68 0.04 0.28
Matches are distributed among these distances:
24 10 0.20
26 3 0.06
27 10 0.20
28 4 0.08
30 4 0.08
31 9 0.18
32 3 0.06
34 6 0.12
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (24 bp):
ATTAAATATTAATAATAAATTATT
Found at i:46594 original size:60 final size:60
Alignment explanation
Indices: 46515--46645 Score: 228
Period size: 60 Copynumber: 2.2 Consensus size: 60
46505 ATAAATTATT
* *
46515 ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCAGTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
*
46574 ATTACTAAATCAGTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCAGTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
46634 ATTACTAAATCA
1 ATTACTAAATCA
46646 TTATTATAAT
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
59 6 0.09
60 62 0.91
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.40
Consensus pattern (60 bp):
ATTACTAAATCAGTAATATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
Found at i:46741 original size:14 final size:14
Alignment explanation
Indices: 46722--46769 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
46712 TTCAAGTTGT
46722 AAATCATTACTATC
1 AAATCATTACTATC
46736 AAATCATTAC--T-
1 AAATCATTACTATC
*
46747 AAATCATTAATATC
1 AAATCATTACTATC
46761 AAATCATTA
1 AAATCATTA
46770 AATATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:46749 original size:25 final size:25
Alignment explanation
Indices: 46721--46769 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
46711 GTTCAAGTTG
*
46721 TAAATCATTACTATCAAATCATTAC
1 TAAATCATTAATATCAAATCATTAC
46746 TAAATCATTAATATCAAATCATTA
1 TAAATCATTAATATCAAATCATTA
46770 AATATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAATCATTAATATCAAATCATTAC
Found at i:46785 original size:21 final size:22
Alignment explanation
Indices: 46721--46779 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 22
46711 GTTCAAGTTG
*
46721 TAAATCATTACTATCAAATCATT
1 TAAATCATTAATATCAAATCA-T
46744 ACTAAATCATTAATATCAAATCAT
1 --TAAATCATTAATATCAAATCAT
46768 TAAAT-ATTAATA
1 TAAATCATTAATA
46780 ATAAATTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 7 0.21
22 5 0.15
24 1 0.03
25 20 0.61
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATCATTAATATCAAATCAT
Found at i:46790 original size:21 final size:22
Alignment explanation
Indices: 46721--46790 Score: 63
Period size: 21 Copynumber: 3.1 Consensus size: 22
46711 GTTCAAGTTG
* *
46721 TAAATCATTACTATCAAATCATTAC
1 TAAATCATTAATATC-AA--ATTAT
*
46746 TAAATCATTAATATCAAATCAT
1 TAAATCATTAATATCAAATTAT
46768 TAAAT-ATTAATAAT-AAATTAT
1 TAAATCATTAAT-ATCAAATTAT
46789 TA
1 TA
46791 TTACTAATCA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 14 0.35
22 10 0.25
24 2 0.05
25 14 0.35
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAATCATTAATATCAAATTAT
Found at i:46805 original size:10 final size:10
Alignment explanation
Indices: 46790--46816 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
46780 ATAAATTATT
46790 ATTACTAATC
1 ATTACTAATC
46800 ATTACTAATC
1 ATTACTAATC
46810 ATTACTA
1 ATTACTA
46817 TCAAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:46863 original size:50 final size:49
Alignment explanation
Indices: 46800--46975 Score: 226
Period size: 60 Copynumber: 3.3 Consensus size: 49
46790 ATTACTAATC
*
46800 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
*
46849 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAAT
1 ATTACT-AATCATTACTATCAAATCATTAAATATTAATAATAATTTC------A-T--T
46908 GATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
1 -ATTACT-AATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
46959 ATTACTAATCATTACTA
1 ATTACTAATCATTACTA
46976 AATCATTATT
Statistics
Matches: 113, Mismatches: 3, Indels: 22
0.82 0.02 0.16
Matches are distributed among these distances:
49 17 0.15
50 44 0.39
51 1 0.01
53 1 0.01
54 1 0.01
56 1 0.01
57 1 0.01
59 1 0.01
60 46 0.41
ACGTcount: A:0.46, C:0.12, G:0.01, T:0.41
Consensus pattern (49 bp):
ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
Found at i:46907 original size:21 final size:21
Alignment explanation
Indices: 46883--46967 Score: 52
Period size: 21 Copynumber: 4.2 Consensus size: 21
46873 CATTAAATAT
46883 TAATAATAATTTCATTATTAC
1 TAATAATAATTTCATTATTAC
* * * ** *
46904 TAATGATTACTAAATCATTAC
1 TAATAATAATTTCATTATTAC
* * *
46925 T-ATCA-AA--TCATTAAATAT
1 TAATAATAATTTCATT-ATTAC
46943 TAATAATAATTTCATTATTAC
1 TAATAATAATTTCATTATTAC
46964 TAAT
1 TAAT
46968 CATTACTAAA
Statistics
Matches: 43, Mismatches: 16, Indels: 10
0.62 0.23 0.14
Matches are distributed among these distances:
17 2 0.05
18 4 0.09
19 4 0.09
20 5 0.12
21 23 0.53
22 5 0.12
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.44
Consensus pattern (21 bp):
TAATAATAATTTCATTATTAC
Found at i:46983 original size:21 final size:21
Alignment explanation
Indices: 46899--46983 Score: 54
Period size: 21 Copynumber: 4.2 Consensus size: 21
46889 TAATTTCATT
*
46899 ATTACTAATGATTACTAAATC
1 ATTACTAATCATTACTAAATC
* *
46920 ATTACT-ATCAAATCATTAAAT-
1 ATTACTAATC--ATTACTAAATC
* * * *
46941 ATTAATAATAATT--T-CATT
1 ATTACTAATCATTACTAAATC
46959 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
46980 ATTA
1 ATTA
46984 TTATAATTTC
Statistics
Matches: 46, Mismatches: 11, Indels: 14
0.65 0.15 0.20
Matches are distributed among these distances:
17 2 0.04
18 12 0.26
20 5 0.11
21 17 0.37
22 10 0.22
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.41
Consensus pattern (21 bp):
ATTACTAATCATTACTAAATC
Found at i:46997 original size:60 final size:60
Alignment explanation
Indices: 46849--46983 Score: 252
Period size: 60 Copynumber: 2.2 Consensus size: 60
46839 TAATTTCATT
*
46849 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATG
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
*
46909 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
46969 ATTACTAAATCATTA
1 ATTACTAAATCATTA
46984 TTATAATTTC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 73 1.00
ACGTcount: A:0.46, C:0.12, G:0.01, T:0.41
Consensus pattern (60 bp):
ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
Found at i:47027 original size:335 final size:334
Alignment explanation
Indices: 46307--47317 Score: 1617
Period size: 335 Copynumber: 3.0 Consensus size: 334
46297 TTTTAGTATC
*
46307 AAATCATTATTATAATTTCGTTACTAGTTATGTAACGAAAATATGGTTAATTGAACCAAACATTG
1 AAATCATTATTATAATTTCATTACTAGTTATGTAACGAAAATATGGTTAATTGAACCAAACATTG
46372 TTCATTGTTCAAGTCGTAAATCATTACTATCAAATCATTACTAAATCATTAATATCAAATCATTA
66 TTCATTGTTCAAGTCGTAAATCATTACTATCAAATCATTACTAAATCATTAATATCAAATCATTA
* *
46437 AATATTAATAATAAATTATTATTACTAATCATTAATAATCATTAATATCAAATCATTAAATAA-T
131 AATATTAATAATAAATTATTATTACTAATCATTACTAATCATTACTATCAAATCATTAAA-AATT
* * *
46501 AATAATAAATT-ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTA
195 AATAATAATTTCATTATTACTAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTA
* *
46565 TTACTAATCATTACTAAATCAGTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
260 TTACTAATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACT
46630 AATCATTACT
325 AATCATTACT
*
46640 AAATCATTATTATAATTTCATTACTAGTTATGTAACGAAAATATGGTTAATTGAATCAAACATTG
1 AAATCATTATTATAATTTCATTACTAGTTATGTAACGAAAATATGGTTAATTGAACCAAACATTG
*
46705 TTCATTGTTCAAGTTGTAAATCATTACTATCAAATCATTACTAAATCATTAATATCAAATCATTA
66 TTCATTGTTCAAGTCGTAAATCATTACTATCAAATCATTACTAAATCATTAATATCAAATCATTA
46770 AATATTAATAATAAATTATTATTACTAATCATTACTAATCATTACTATCAAATCATTAAAAATTA
131 AATATTAATAATAAATTATTATTACTAATCATTACTAATCATTACTATCAAATCATTAAAAATTA
46835 ATAATAATTTCATTATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTA
196 ATAATAATTTCATTATTACT-AATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTA
*
46900 TTACTAATGATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACT
260 TTACTAATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACT
46965 AATCATTACT
325 AATCATTACT
46975 AAATCATTATTATAATTTCATTACTAGTTATGTAACGAAAATATGGTTAATTGAACCAAACATTG
1 AAATCATTATTATAATTTCATTACTAGTTATGTAACGAAAATATGGTTAATTGAACCAAACATTG
*
47040 TTCATTGTCCAAGTCGTAAATCATTACTATCAAATCATTACTAAATCATTAATATCAAATCATT-
66 TTCATTGTTCAAGTCGTAAATCATTACTATCAAATCATTACTAAATCATTAATATCAAATCATTA
* * * * * *
47104 AATATCAAATAATTAAATATTAATTATAAATTATTATTACTAATCATTGCTATCAAATCATTAAA
131 AATAT-TAATAA-T-AA-ATT-ATTATTACTAATCATTACTAATCATTACTATCAAATCATTAAA
* * *
47169 AATTAATAATAATTTCATTATTACTAATCATT-AT-T-AAATCATT-AATATCAAATCATTAA-A
191 AATTAATAATAATTTCATTATTACTAATCATTAATATCAAATCATTAAATAT-TAAT-AATAATT
* * *
47229 T-ATTAATAATAATTTCATTATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTT
254 TCATTATTACTAA--TCATTACTA--AATCATTACTATCAAATCATTAAATATTAATAATAATTT
*
47293 CATTATTATTAATCATTACT
315 CATTATTACTAATCATTACT
47313 AAATC
1 AAATC
47318 TTAAAAATAC
Statistics
Matches: 636, Mismatches: 28, Indels: 23
0.93 0.04 0.03
Matches are distributed among these distances:
332 2 0.00
333 196 0.31
334 28 0.04
335 257 0.40
336 13 0.02
337 4 0.01
338 73 0.11
339 63 0.10
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (334 bp):
AAATCATTATTATAATTTCATTACTAGTTATGTAACGAAAATATGGTTAATTGAACCAAACATTG
TTCATTGTTCAAGTCGTAAATCATTACTATCAAATCATTACTAAATCATTAATATCAAATCATTA
AATATTAATAATAAATTATTATTACTAATCATTACTAATCATTACTATCAAATCATTAAAAATTA
ATAATAATTTCATTATTACTAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTAT
TACTAATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTA
ATCATTACT
Found at i:47076 original size:14 final size:14
Alignment explanation
Indices: 47057--47119 Score: 78
Period size: 14 Copynumber: 4.7 Consensus size: 14
47047 TCCAAGTCGT
*
47057 AAATCATTACTATC
1 AAATCATTAATATC
*
47071 AAATCATT-A-CT-
1 AAATCATTAATATC
47082 AAATCATTAATATC
1 AAATCATTAATATC
47096 AAATCATTAATATC
1 AAATCATTAATATC
*
47110 AAATAATTAA
1 AAATCATTAA
47120 ATATTAATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
11 8 0.19
12 2 0.05
13 1 0.02
14 31 0.74
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTAATATC
Found at i:47084 original size:25 final size:25
Alignment explanation
Indices: 47056--47104 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
47046 GTCCAAGTCG
*
47056 TAAATCATTACTATCAAATCATTAC
1 TAAATCATTAATATCAAATCATTAC
47081 TAAATCATTAATATCAAATCATTA
1 TAAATCATTAATATCAAATCATTA
47105 ATATCAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAATCATTAATATCAAATCATTAC
Found at i:47134 original size:21 final size:22
Alignment explanation
Indices: 47096--47236 Score: 59
Period size: 21 Copynumber: 6.5 Consensus size: 22
47086 CATTAATATC
47096 AAATCATTAATATCAAATAATT
1 AAATCATTAATATCAAATAATT
47118 AAAT-ATTAATTAT-AAATTATTATT
1 AAATCATTAA-TATCAAA-TA--ATT
** *
47142 ACTAATCATTGCTATCAAATCATT
1 A--AATCATTAATATCAAATAATT
*
47166 AAA-AATT-A-AT--AATAATT
1 AAATCATTAATATCAAATAATT
** * * *
47183 TCATTATTACTAATC--ATTATT
1 AAATCATTAAT-ATCAAATAATT
*
47204 AAATCATTAATATCAAATCATT
1 AAATCATTAATATCAAATAATT
47226 AAAT-ATTAATA
1 AAATCATTAATA
47237 ATAATTTCAT
Statistics
Matches: 88, Mismatches: 16, Indels: 31
0.65 0.12 0.23
Matches are distributed among these distances:
17 7 0.08
18 3 0.03
19 2 0.02
20 3 0.03
21 32 0.36
22 20 0.23
24 8 0.09
26 7 0.08
27 6 0.07
ACGTcount: A:0.49, C:0.09, G:0.01, T:0.41
Consensus pattern (22 bp):
AAATCATTAATATCAAATAATT
Found at i:47158 original size:48 final size:49
Alignment explanation
Indices: 47097--47201 Score: 149
Period size: 48 Copynumber: 2.2 Consensus size: 49
47087 ATTAATATCA
* *
47097 AATCATTAATATCAAATAATTAAATATTAATTATAAATT-ATTATTACT
1 AATCATTAATATCAAATAATTAAAAATTAATAATAAATTCATTATTACT
** * *
47145 AATCATTGCTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
1 AATCATTAATATCAAATAATTAAAAATTAATAATAAATTCATTATTACT
47194 AATCATTA
1 AATCATTA
47202 TTAAATCATT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 33 0.67
49 16 0.33
ACGTcount: A:0.48, C:0.10, G:0.01, T:0.42
Consensus pattern (49 bp):
AATCATTAATATCAAATAATTAAAAATTAATAATAAATTCATTATTACT
Found at i:47234 original size:60 final size:60
Alignment explanation
Indices: 47072--47276 Score: 238
Period size: 60 Copynumber: 3.3 Consensus size: 60
47062 ATTACTATCA
* * *
47072 AATCATTACTAAATCATTAATATCAAATCATT-AATATCAAATAATTAA-AT-ATTAATTA-T
1 AATCATTATTAAATCATTAATATCAAATCATTAAATAT-TAATAA-TAATTTCATT-ATTACT
* ** *
47131 AAATTATTATTACTAATCATTGCTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
1 -AATCATTATTA--AATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
47194 AATCATTATTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1 AATCATTATTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
47254 AATCATTACTATCAAATCATTAA
1 AATCATTA-T-T-AAATCATTAA
47277 ATATTAATAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
60 63 0.50
61 4 0.03
62 40 0.32
63 18 0.14
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.41
Consensus pattern (60 bp):
AATCATTATTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
Found at i:47267 original size:49 final size:48
Alignment explanation
Indices: 47196--47313 Score: 202
Period size: 49 Copynumber: 2.4 Consensus size: 48
47186 TTATTACTAA
*
47196 TCATTATTA-AATCATTAATATCAAATCATTAAATATTAATAATAATT
1 TCATTATTATAATCATTACTATCAAATCATTAAATATTAATAATAATT
47243 TCATTATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATT
1 TCATTATTA-TAATCATTACTATCAAATCATTAAATATTAATAATAATT
47292 TCATTATTATTAATCATTACTA
1 TCATTATTA-TAATCATTACTA
47314 AATCTTAAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
47 9 0.13
49 58 0.87
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.44
Consensus pattern (48 bp):
TCATTATTATAATCATTACTATCAAATCATTAAATATTAATAATAATT
Found at i:49667 original size:15 final size:16
Alignment explanation
Indices: 49647--49682 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
49637 GCCATTTCAG
*
49647 AAACACAGTA-TTTTT
1 AAACACAATATTTTTT
49662 AAACACAATATTTTTT
1 AAACACAATATTTTTT
49678 AAACA
1 AAACA
49683 GAAATTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.36
Consensus pattern (16 bp):
AAACACAATATTTTTT
Found at i:50199 original size:28 final size:30
Alignment explanation
Indices: 50151--50212 Score: 110
Period size: 28 Copynumber: 2.1 Consensus size: 30
50141 TTTTTATATA
50151 TAATATAATATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
50181 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
50209 TAAT
1 TAAT
50213 TAACTAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:50649 original size:26 final size:26
Alignment explanation
Indices: 50613--50663 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
50603 ATGCACGAGG
*
50613 GAGCAGGGTTAAGTTTGGTCGCCAGC
1 GAGCAGGGTTAAGTTTGGTAGCCAGC
50639 GAGCAGGGTTAAGTTTGGTAGCCAG
1 GAGCAGGGTTAAGTTTGGTAGCCAG
50664 GACTGCTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.16, G:0.39, T:0.24
Consensus pattern (26 bp):
GAGCAGGGTTAAGTTTGGTAGCCAGC
Found at i:52050 original size:2 final size:2
Alignment explanation
Indices: 52045--52091 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
52035 TTAATCATTA
52045 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 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
52087 AT AT A
1 AT AT A
52092 ATGATATAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:54976 original size:3 final size:3
Alignment explanation
Indices: 54962--55032 Score: 81
Period size: 3 Copynumber: 23.7 Consensus size: 3
54952 AATTTTTTCA
* * * *
54962 TAT TAT TTT TAT TAT TAT TTT TAT TAT TAT TAA AAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
55010 CAT TA- TAT ATAT TAT TAT TAT TA
1 TAT TAT TAT -TAT TAT TAT TAT TA
55033 AATAAAAAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
2 2 0.04
3 51 0.91
4 3 0.05
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:56558 original size:2 final size:2
Alignment explanation
Indices: 56546--56604 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
56536 ATCCTAGTCT
*
56546 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56588 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
56605 TTGTTTAAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:56813 original size:150 final size:146
Alignment explanation
Indices: 56617--57021 Score: 417
Period size: 151 Copynumber: 2.7 Consensus size: 146
56607 GTTTAAATAA
* * * * * * * *
56617 TAATATTTATTTA-TTTTTAATATCAAATAAAAGGACAGTCTTAAAGCAACTAGATGTCCTATTC
1 TAATATTTATTTATTTTTTAATAT-TAAGAAATGGACTGTCTTAAAGCACCTAGAAGTCATTTTC
* * * * *
56681 TGGTACTT-TAAATAAATAAATATATTATTTATAAAAA-CCGGATATTGTTTTAATTAAATTA-T
65 TGATA-TTCTAAATAAATAAATATCTTATTTATAAAAATACAGATATTATTTTAATTAAATTATT
56743 TTTATAAGAAAATAAATCATATT-T
129 TTTAT-AG-AAAT--AT--T-TTAT
* *
56767 TAATATTTATTTATTTTTTAATATTAAGAAATGGATTGTCTTAAAGCACCTAGAAGTCATTTTAT
1 TAATATTTATTTATTTTTTAATATTAAGAAATGGACTGTCTTAAAGCACCTAGAAGTCATTTTCT
* * * * * *
56832 GATATTCTCAAATAAATAAATATCCTATTTTTAAAATTATATATATATATTATTTTATTTTAATT
66 GATATTCT-AAATAAATAAATATCTTATTTAT-AAA--A-ATACAGATATTATTTTAATTAAATT
*
56897 ATTTTTATAGAAATGTTTTAT
126 ATTTTTATAGAAATATTTTAT
56918 TAATATTTATTTATTTTTTAATATTAAGAAAT-GAGCTGTCTTAAAGCACCTAGAAGTCATTTTC
1 TAATATTTATTTATTTTTTAATATTAAGAAATGGA-CTGTCTTAAAGCACCTAGAAGTCATTTTC
*
56982 TGATATTTCTAAGTAAATAAATATCTTATTTATAAAAATA
65 TGATA-TTCTAAATAAATAAATATCTTATTTATAAAAATA
57022 AAATTATTTT
Statistics
Matches: 216, Mismatches: 27, Indels: 27
0.80 0.10 0.10
Matches are distributed among these distances:
147 3 0.01
148 1 0.00
149 2 0.01
150 55 0.25
151 116 0.54
152 7 0.03
153 1 0.00
154 1 0.00
155 5 0.02
156 19 0.09
157 6 0.03
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (146 bp):
TAATATTTATTTATTTTTTAATATTAAGAAATGGACTGTCTTAAAGCACCTAGAAGTCATTTTCT
GATATTCTAAATAAATAAATATCTTATTTATAAAAATACAGATATTATTTTAATTAAATTATTTT
TATAGAAATATTTTAT
Found at i:57544 original size:13 final size:13
Alignment explanation
Indices: 57526--57568 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
57516 ACTTATAATA
57526 TTTATTATATTTT
1 TTTATTATATTTT
*
57539 TTTATTATTAATGTT
1 TTTATTA-T-ATTTT
*
57554 TTTATTTTATTTT
1 TTTATTATATTTT
57567 TT
1 TT
57569 AGATATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 13 0.52
14 2 0.08
15 10 0.40
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTATTATATTTT
Found at i:57550 original size:26 final size:27
Alignment explanation
Indices: 57508--57568 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
57498 TCTTTCAAAA
*
57508 ATTTTATTACTTATAA-TATTTATTAT
1 ATTTTTTTACTTATAAGTATTTATTAT
* *
57534 ATTTTTTTA-TTATTAATGTTTTTATTTT
1 ATTTTTTTACTTA-TAA-GTATTTATTAT
57562 ATTTTTT
1 ATTTTTT
57569 AGATATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 3 0.10
26 11 0.38
28 15 0.52
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (27 bp):
ATTTTTTTACTTATAAGTATTTATTAT
Found at i:57557 original size:15 final size:16
Alignment explanation
Indices: 57527--57563 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
57517 CTTATAATAT
*
57527 TTATTATATTTTTTTA
1 TTATTATATGTTTTTA
57543 TTATTA-ATGTTTTTA
1 TTATTATATGTTTTTA
57558 TT-TTAT
1 TTATTAT
57564 TTTTTAGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 3 0.16
15 10 0.53
16 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (16 bp):
TTATTATATGTTTTTA
Found at i:59203 original size:8 final size:8
Alignment explanation
Indices: 59190--59221 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
59180 TTATTGTTAC
59190 ATTCACAT
1 ATTCACAT
59198 ATTCACAT
1 ATTCACAT
59206 ATTCACAT
1 ATTCACAT
*
59214 ATTTACAT
1 ATTCACAT
59222 TTGCATTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (8 bp):
ATTCACAT
Found at i:59278 original size:14 final size:14
Alignment explanation
Indices: 59255--59288 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
59245 TTTACGTTTG
*
59255 TATTTATATTTTCA
1 TATTTGTATTTTCA
*
59269 TTTTTGTATTTTCA
1 TATTTGTATTTTCA
59283 TATTTG
1 TATTTG
59289 CATAATTACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.68
Consensus pattern (14 bp):
TATTTGTATTTTCA
Found at i:65125 original size:15 final size:16
Alignment explanation
Indices: 65093--65126 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
65083 CGTATAAATG
65093 TCCCGAAGGACCTATCA
1 TCCCGAAGGA-CTATCA
65110 TCCCGAAGGA-TATCA
1 TCCCGAAGGACTATCA
65125 TC
1 TC
65127 TGTGTCCCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
17 10 0.59
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (16 bp):
TCCCGAAGGACTATCA
Found at i:65142 original size:38 final size:39
Alignment explanation
Indices: 65091--65187 Score: 151
Period size: 39 Copynumber: 2.5 Consensus size: 39
65081 CTCGTATAAA
*
65091 TGTCCCGAAGGACCTATCAT-CCCGAAGGATATCATCTG
1 TGTCCCGAAGGACCTATCATCCCCGAAGGATATAATCTG
* *
65129 TGTCCCGAAGGACCTGTCATCCCCGAAGGATGTAATCTG
1 TGTCCCGAAGGACCTATCATCCCCGAAGGATATAATCTG
*
65168 TGTCCCGTAGGACCTATCAT
1 TGTCCCGAAGGACCTATCAT
65188 ATGTCTTATA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
38 19 0.36
39 34 0.64
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.25
Consensus pattern (39 bp):
TGTCCCGAAGGACCTATCATCCCCGAAGGATATAATCTG
Found at i:66080 original size:36 final size:36
Alignment explanation
Indices: 66033--66104 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
66023 TTCATTTAGG
66033 GGGGAATCGATACCCCCCCA-GGGGGAATCTGTTCCC
1 GGGGAATCGATA-CCCCCCAGGGGGGAATCTGTTCCC
66069 GGGGAATCGATACCCCCCAGGGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCAGGGGGGAATCTGTTCCC
66105 CCTACACATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 7 0.20
36 28 0.80
ACGTcount: A:0.19, C:0.32, G:0.32, T:0.17
Consensus pattern (36 bp):
GGGGAATCGATACCCCCCAGGGGGGAATCTGTTCCC
Found at i:70047 original size:21 final size:21
Alignment explanation
Indices: 70021--70060 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
70011 CAGAACCCCA
*
70021 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
70042 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
70061 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:81122 original size:39 final size:38
Alignment explanation
Indices: 81046--81140 Score: 118
Period size: 39 Copynumber: 2.5 Consensus size: 38
81036 CTCGTATAAA
* * * *
81046 TGTCTCGAAGGACCTATCATCCCGAAGGATGTCATCTG
1 TGTCCCGAAAGACCTATCATCCCGAAGAATGTAATCTG
*
81084 TGTCCCGAAAGACCTGTCATCCCCGAAGAATGTAATCTG
1 TGTCCCGAAAGACCTATCAT-CCCGAAGAATGTAATCTG
* *
81123 TGTCCCGTAGGACCTATC
1 TGTCCCGAAAGACCTATC
81141 CTATGTCTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
38 17 0.35
39 31 0.65
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (38 bp):
TGTCCCGAAAGACCTATCATCCCGAAGAATGTAATCTG
Found at i:81316 original size:12 final size:12
Alignment explanation
Indices: 81299--81325 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
81289 CCATGTATTT
81299 CATATCATATCA
1 CATATCATATCA
81311 CATATCATATCA
1 CATATCATATCA
81323 CAT
1 CAT
81326 GTATCACCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.26, G:0.00, T:0.33
Consensus pattern (12 bp):
CATATCATATCA
Found at i:81912 original size:39 final size:38
Alignment explanation
Indices: 81833--81927 Score: 109
Period size: 39 Copynumber: 2.5 Consensus size: 38
81823 CTCGTATAAA
* * * *
81833 TGTCTCGAAGGACCTATCATCCCGAAGGATGTCATATG
1 TGTCCCGAAAGACCTATCATCCCGAAGAATGTAATATG
* *
81871 TGTCCCGAAAGACCTGTCATCCCCGAAGAATGTAATCTG
1 TGTCCCGAAAGACCTATCAT-CCCGAAGAATGTAATATG
* *
81910 TGTCCCGTAGGACCTATC
1 TGTCCCGAAAGACCTATC
81928 CTATGTCTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
38 17 0.36
39 30 0.64
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (38 bp):
TGTCCCGAAAGACCTATCATCCCGAAGAATGTAATATG
Found at i:82103 original size:12 final size:12
Alignment explanation
Indices: 82086--82112 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
82076 CCATGTATTT
82086 CATATCATATCA
1 CATATCATATCA
82098 CATATCATATCA
1 CATATCATATCA
82110 CAT
1 CAT
82113 GTATCACCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.26, G:0.00, T:0.33
Consensus pattern (12 bp):
CATATCATATCA
Found at i:82494 original size:787 final size:787
Alignment explanation
Indices: 80981--82551 Score: 3079
Period size: 787 Copynumber: 2.0 Consensus size: 787
80971 TATATTATTT
80981 AGAATAGAGGTATGCGAGTACACTGAGGTTGTGCACACATATGCTGTCACCACAGCTCGTATAAA
1 AGAATAGAGGTATGCGAGTACACTGAGGTTGTGCACACATATGCTGTCACCACAGCTCGTATAAA
*
81046 TGTCTCGAAGGACCTATCATCCCGAAGGATGTCATCTGTGTCCCGAAAGACCTGTCATCCCCGAA
66 TGTCTCGAAGGACCTATCATCCCGAAGGATGTCATATGTGTCCCGAAAGACCTGTCATCCCCGAA
81111 GAATGTAATCTGTGTCCCGTAGGACCTATCCTATGTCTTATAGGACATATGTAACCCTCGACTCT
131 GAATGTAATCTGTGTCCCGTAGGACCTATCCTATGTCTTATAGGACATATGTAACCCTCGACTCT
81176 TCACATGCCAACTATACCTATAACTCTCGTATCATATACTATGGGCATTTATTATGAATACATTT
196 TCACATGCCAACTATACCTATAACTCTCGTATCATATACTATGGGCATTTATTATGAATACATTT
81241 CTCATCACTTGTTCTTTCTCTTCTATCACATACCACATGTATGTGTAACCATGTATTTCATATCA
261 CTCATCACTTGTTCTTTCTCTTCTATCACATACCACATGTATGTGTAACCATGTATTTCATATCA
81306 TATCACATATCATATCACATGTATCACCTATTACATATTCATATGTCATTTCATATCATATCACA
326 TATCACATATCATATCACATGTATCACCTATTACATATTCATATGTCATTTCATATCATATCACA
81371 TGTATTATATGTGCATGTAATCATGTAGATCATATCATATAGCTTATATCATTTCTCATGTGTTC
391 TGTATTATATGTGCATGTAATCATGTAGATCATATCATATAGCTTATATCATTTCTCATGTGTTC
*
81436 ATGTAAACACATATGTTATATCTTGCTCACATATGAATGTATTCACATATATTAATTTCACATAT
456 ATGTAAACACATATGTTATATCTTGCTCACATATAAATGTATTCACATATATTAATTTCACATAT
*
81501 CTCATATTTTATTCTCATATGTTCACATCAATTATGTCACATAAAATAATATAAGACACATATGC
521 CTCATATTTTATTCTCATATGTTCACATCAATCATGTCACATAAAATAATATAAGACACATATGC
81566 CCACTTTCATGTACTCATGCACACATAATATTCATATCAATCACATGCTTGTACTTATGGAATTA
586 CCACTTTCATGTACTCATGCACACATAATATTCATATCAATCACATGCTTGTACTTATGGAATTA
81631 TGAATTCAAACATGTAAATATACTTATCAAAAATACTCCCCAATGATGTATAAAACATCCATATA
651 TGAATTCAAACATGTAAATATACTTATCAAAAATACTCCCCAATGATGTATAAAACATCCATATA
81696 TAATGTTTTGCATGCATCACAAATCAAATAACATTTTAGGAGTCACTTCTTACCACAGTAACTCC
716 TAATGTTTTGCATGCATCACAAATCAAATAACATTTTAGGAGTCACTTCTTACCACAGTAACTCC
81761 GTCATTG
781 GTCATTG
81768 AGAATAGAGGTATGCGAGTACACTGAGGTTGTGCACACATATGCTGTCACCACAGCTCGTATAAA
1 AGAATAGAGGTATGCGAGTACACTGAGGTTGTGCACACATATGCTGTCACCACAGCTCGTATAAA
81833 TGTCTCGAAGGACCTATCATCCCGAAGGATGTCATATGTGTCCCGAAAGACCTGTCATCCCCGAA
66 TGTCTCGAAGGACCTATCATCCCGAAGGATGTCATATGTGTCCCGAAAGACCTGTCATCCCCGAA
81898 GAATGTAATCTGTGTCCCGTAGGACCTATCCTATGTCTTATAGGACATATGTAACCCTCGACTCT
131 GAATGTAATCTGTGTCCCGTAGGACCTATCCTATGTCTTATAGGACATATGTAACCCTCGACTCT
*
81963 TGACATGCCAACTATACCTATAACTCTCGTATCATATACTATGGGCATTTATTATGAATACATTT
196 TCACATGCCAACTATACCTATAACTCTCGTATCATATACTATGGGCATTTATTATGAATACATTT
82028 CTCATCACTTGTTCTTTCTCTTCTATCACATACCACATGTATGTGTAACCATGTATTTCATATCA
261 CTCATCACTTGTTCTTTCTCTTCTATCACATACCACATGTATGTGTAACCATGTATTTCATATCA
82093 TATCACATATCATATCACATGTATCACCTATTACATATTCATATGTCATTTCATATCATATCACA
326 TATCACATATCATATCACATGTATCACCTATTACATATTCATATGTCATTTCATATCATATCACA
82158 TGTATTATATGTGCATGTAATCATGTAGATCATATCATATAGCTTATATCATTTCTCATGTGTTC
391 TGTATTATATGTGCATGTAATCATGTAGATCATATCATATAGCTTATATCATTTCTCATGTGTTC
82223 ATGTAAACACATATGTTATATCTTGCTCACATATAAATGTATTCACATATATTAATTTCACATAT
456 ATGTAAACACATATGTTATATCTTGCTCACATATAAATGTATTCACATATATTAATTTCACATAT
*
82288 CTCATATTTTATTCTCATATGTTCACATCAATCATGTCACATAAAATAATATAAGAGACATATGC
521 CTCATATTTTATTCTCATATGTTCACATCAATCATGTCACATAAAATAATATAAGACACATATGC
* *
82353 CCACTTTCATGTACTCATGCACATATAATATTCATATCAATCACATGCTTGTGCTTATGGAATTA
586 CCACTTTCATGTACTCATGCACACATAATATTCATATCAATCACATGCTTGTACTTATGGAATTA
82418 TGAATTCAAACATGTAAATATACTTATCAAAAATACTCCCCAATGATGTATAAAACATCCATATA
651 TGAATTCAAACATGTAAATATACTTATCAAAAATACTCCCCAATGATGTATAAAACATCCATATA
82483 TAATGTTTTGCATGCATCACAAATCAAATAACATTTTAGGAGTCACTTCTTACCACAGTAACTCC
716 TAATGTTTTGCATGCATCACAAATCAAATAACATTTTAGGAGTCACTTCTTACCACAGTAACTCC
82548 GTCA
781 GTCA
82552 CTGGCTCCTC
Statistics
Matches: 777, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
787 777 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (787 bp):
AGAATAGAGGTATGCGAGTACACTGAGGTTGTGCACACATATGCTGTCACCACAGCTCGTATAAA
TGTCTCGAAGGACCTATCATCCCGAAGGATGTCATATGTGTCCCGAAAGACCTGTCATCCCCGAA
GAATGTAATCTGTGTCCCGTAGGACCTATCCTATGTCTTATAGGACATATGTAACCCTCGACTCT
TCACATGCCAACTATACCTATAACTCTCGTATCATATACTATGGGCATTTATTATGAATACATTT
CTCATCACTTGTTCTTTCTCTTCTATCACATACCACATGTATGTGTAACCATGTATTTCATATCA
TATCACATATCATATCACATGTATCACCTATTACATATTCATATGTCATTTCATATCATATCACA
TGTATTATATGTGCATGTAATCATGTAGATCATATCATATAGCTTATATCATTTCTCATGTGTTC
ATGTAAACACATATGTTATATCTTGCTCACATATAAATGTATTCACATATATTAATTTCACATAT
CTCATATTTTATTCTCATATGTTCACATCAATCATGTCACATAAAATAATATAAGACACATATGC
CCACTTTCATGTACTCATGCACACATAATATTCATATCAATCACATGCTTGTACTTATGGAATTA
TGAATTCAAACATGTAAATATACTTATCAAAAATACTCCCCAATGATGTATAAAACATCCATATA
TAATGTTTTGCATGCATCACAAATCAAATAACATTTTAGGAGTCACTTCTTACCACAGTAACTCC
GTCATTG
Found at i:82835 original size:36 final size:36
Alignment explanation
Indices: 82788--82859 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
82778 TTCATTTAGG
82788 GGGGAATCGATACCCCCCCA-GGGGGAATCTGTTCCC
1 GGGGAATCGATA-CCCCCCAGGGGGGAATCTGTTCCC
82824 GGGGAATCGATACCCCCCAGGGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCAGGGGGGAATCTGTTCCC
82860 CCTGCACATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 7 0.20
36 28 0.80
ACGTcount: A:0.19, C:0.32, G:0.32, T:0.17
Consensus pattern (36 bp):
GGGGAATCGATACCCCCCAGGGGGGAATCTGTTCCC
Found at i:85418 original size:54 final size:54
Alignment explanation
Indices: 85343--85457 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 54
85333 AAATCATAGA
* * *
85343 AAAGGATGAATATGTTGTCAAATGCTTTAC-AAACATCTAGCCAGAAGCCACAAG
1 AAAGGATGAATATGTTATCAAAAGCTTTACGAAA-ATCCAGCCAGAAGCCACAAG
* * * * *
85397 AAAGGATGAGTGTGTTATCAAAAGCTTTACGAAAATCCGGGCAGAAGCCACGAG
1 AAAGGATGAATATGTTATCAAAAGCTTTACGAAAATCCAGCCAGAAGCCACAAG
85451 AAAGGAT
1 AAAGGAT
85458 TAATGTATTG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 49 0.94
55 3 0.06
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (54 bp):
AAAGGATGAATATGTTATCAAAAGCTTTACGAAAATCCAGCCAGAAGCCACAAG
Found at i:85862 original size:22 final size:22
Alignment explanation
Indices: 85806--85863 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
85796 TACATCTACA
*
85806 CTCTTCAAAGATAATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
85828 CTCTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
*
85850 CTTTTCAAAGATGA
1 CTCTTCAAAGATGA
85864 AAGCTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (22 bp):
CTCTTCAAAGATGATAGATTCT
Found at i:86674 original size:45 final size:45
Alignment explanation
Indices: 86618--86776 Score: 201
Period size: 45 Copynumber: 3.5 Consensus size: 45
86608 GAGAGCTTTT
* **
86618 TGATATTTTCAAAACCTTCGGGTCATCTGTAATCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCA
*
86663 TGATGTTTTCAAAACCATCGGGTCATCTGTAAGACCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCA
* * ** * *
86708 TGATGCTTTCAAAACCTTCAGGTCATCCATAAGACCTGCAGTGAA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCA
*
86753 GGATGTTTTCAAAAAGCCTTCGGG
1 TGATGTTTTC-AAAA-CCTTCGGG
86777 AGCTTTTTGA
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 87 0.89
46 4 0.04
47 7 0.07
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCA
Found at i:86793 original size:121 final size:119
Alignment explanation
Indices: 86663--86895 Score: 324
Period size: 121 Copynumber: 1.9 Consensus size: 119
86653 CTTCAGTGCA
* *
86663 TGATGTTTTCAAAACCATCGGGTCATCTGTAAGACC-TTCAGTGCATGATGCTTTCAAAACCTTC
1 TGATATTTTCAAAACCATCGGGTCATCTGTAAG-CCATTCAGTGCATAATGCTTTCAAAACCTTC
*
86727 AGGTCATCCATAAGACCTGCAGTGAAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
65 AGGTCATCCATAAGACCTGCAGTGAAGGATGCTTTC-AAAA-CCTTCGGGAGCTTTT
* * * *
86784 TGATATTTTCAAAATCTTCGGGTCATCTGTAAGCCATTCAGTGCATAATGTTTTCAAAACCTTCG
1 TGATATTTTCAAAACCATCGGGTCATCTGTAAGCCATTCAGTGCATAATGCTTTCAAAACCTTCA
** * * *
86849 GGTCATCTGTAAGACCTTCAGTGCATGATGCTTTCAAAACCTTCGGG
66 GGTCATCCATAAGACCTGCAGTGAAGGATGCTTTCAAAACCTTCGGG
86896 TCATCCATAA
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
119 8 0.08
120 6 0.06
121 85 0.86
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (119 bp):
TGATATTTTCAAAACCATCGGGTCATCTGTAAGCCATTCAGTGCATAATGCTTTCAAAACCTTCA
GGTCATCCATAAGACCTGCAGTGAAGGATGCTTTCAAAACCTTCGGGAGCTTTT
Found at i:86794 original size:166 final size:164
Alignment explanation
Indices: 86520--87062 Score: 807
Period size: 166 Copynumber: 3.3 Consensus size: 164
86510 TATTTCCCAC
* * * * *
86520 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACTTTCGAGTCATTCATAAGACATGCAGTG
1 CATCTGTAAGACCTTCAGTGCATGATGCTTTCAAAACCTTCG-GTCATCCATAAGACCTGCAGTG
*
86585 CAAGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAA
65 -AAGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAA
* *
86650 TCCCTTCAGTGCATGATGTTTTCAAAACCATCGGGT
129 ACCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
86686 CATCTGTAAGACCTTCAGTGCATGATGCTTTCAAAACCTTCAGGTCATCCATAAGACCTGCAGTG
1 CATCTGTAAGACCTTCAGTGCATGATGCTTTCAAAACCTTC-GGTCATCCATAAGACCTGCAGTG
*
86751 AAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAATCTTCGGGTCATCTGTAA
65 AA-GATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAA
* * *
86816 GCCATTCAGTGCATAATGTTTTCAAAACCTTCGGGT
129 ACCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
*
86852 CATCTGTAAGACCTTCAGTGCATGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGAAGTG
1 CATCTGTAAGACCTTCAGTGCATGATGCTTTCAAAACCTTC-GGTCATCCATAAGACCTGCAGTG
* *
86917 CATGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAA
65 -AAGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAA
* *
86982 AACCTTCAGTGCATGATGCTTTCAAAACCTTCGGGT
129 ACCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
* ** * * *
87018 CGTCCATAAGACCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCGG
1 CATCTGTAAGACCTTCAGTGCATGATGCTTTC-AAAA-CCTTCGG
87063 GAGCTTTTTG
Statistics
Matches: 345, Mismatches: 27, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
165 2 0.01
166 330 0.96
167 8 0.02
168 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (164 bp):
CATCTGTAAGACCTTCAGTGCATGATGCTTTCAAAACCTTCGGTCATCCATAAGACCTGCAGTGA
AGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATCTGTAAAC
CCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:86840 original size:45 final size:45
Alignment explanation
Indices: 86784--86932 Score: 210
Period size: 45 Copynumber: 3.3 Consensus size: 45
86774 GGGAGCTTTT
* *
86784 TGATATTTTCAAAATCTTCGGGTCATCTGTAAG-CCATTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACC-TTCAGTGCA
*
86829 TAATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCA
* ** **
86874 TGATGCTTTCAAAACCTTCGGGTCATCCATAAGACCTGAAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCA
86919 TGATGTTTTCAAAA
1 TGATGTTTTCAAAA
86933 AGCCTTCAGG
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
45 91 0.98
46 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCA
Found at i:86959 original size:121 final size:121
Alignment explanation
Indices: 86834--87165 Score: 549
Period size: 121 Copynumber: 2.7 Consensus size: 121
86824 GTGCATAATG
86834 TTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCATGATGCTTTCAAAACCTTCGGGTCA
1 TTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCATGATGCTTTCAAAACCTTCGGGTCA
*
86899 TCCATAAGACCTGAAGTGCATGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATA
66 TCCATAAGACCTGAAGTGCAAGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATA
* *
86955 TTTTCAAAACCTTCGGGTCATCTGTAAAACCTTCAGTGCATGATGCTTTCAAAACCTTCGGGTCG
1 TTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCATGATGCTTTCAAAACCTTCGGGTCA
* * *
87020 TCCATAAGACCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATA
66 TCCATAAGACCTGAAGTGCAAGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATA
* * *
87076 TTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGATCA
1 TTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCATGATGCTTTCAAAACCTTCGGGTCA
**
87141 TCTGTAAGACCT-ACAGTGCAAGATG
66 TCCATAAGACCTGA-AGTGCAAGATG
87166 ATAGGACTTT
Statistics
Matches: 196, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
121 196 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (121 bp):
TTTTCAAAACCTTCGGGTCATCTGTAAGACCTTCAGTGCATGATGCTTTCAAAACCTTCGGGTCA
TCCATAAGACCTGAAGTGCAAGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATA
Found at i:87007 original size:45 final size:45
Alignment explanation
Indices: 86956--87063 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
86946 TTTTTGATAT
** * *
86956 TTTCAAAACCTTCGGGTCATCTGTAAAACCTTCAGTGCATGATGC
1 TTTCAAAACCTTCGGGTCATCCATAAAACCTGCAGTGCAGGATGC
* * *
87001 TTTCAAAACCTTCGGGTCGTCCATAAGACCTGCAGTGCAGGATGT
1 TTTCAAAACCTTCGGGTCATCCATAAAACCTGCAGTGCAGGATGC
87046 TTTCAAAAAGCCTTCGGG
1 TTTC-AAAA-CCTTCGGG
87064 AGCTTTTTGA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 42 0.78
46 4 0.07
47 8 0.15
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (45 bp):
TTTCAAAACCTTCGGGTCATCCATAAAACCTGCAGTGCAGGATGC
Found at i:87125 original size:45 final size:45
Alignment explanation
Indices: 87071--87165 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
87061 GGGAGCTTTT
* * * *
87071 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGATCATCTGTAAGACCTACAGTGCA
87116 TGATGTTTTCAAAACCTTCGGATCATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGATCATCTGTAAGACCTACAGTGCA
*
87161 AGATG
1 TGATG
87166 ATAGGACTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGATCATCTGTAAGACCTACAGTGCA
Found at i:87347 original size:15 final size:15
Alignment explanation
Indices: 87314--87356 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
87304 ATTTTTTCAC
***
87314 ATTATTTTTATTTTT
1 ATTATTTTTATTAAA
87329 ATTATTTTTATTAAA
1 ATTATTTTTATTAAA
*
87344 ATTATTATTATTA
1 ATTATTTTTATTA
87357 TTAAATAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTATTTTTATTAAA
Found at i:87350 original size:18 final size:18
Alignment explanation
Indices: 87327--87361 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
87317 ATTTTTATTT
*
87327 TTATTATTTTTATTAAAA
1 TTATTATTATTATTAAAA
87345 TTATTATTATTATTAAA
1 TTATTATTATTATTAAA
87362 TAAAAAATAA
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:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTATTATTATTAAAA
Found at i:91891 original size:17 final size:18
Alignment explanation
Indices: 91864--91903 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
91854 ACAAGTTTAA
91864 ATTTATAAAATTATTA-TT
1 ATTTATAAAATT-TTATTT
91882 ATTT-TAAAATTTTATTT
1 ATTTATAAAATTTTATTT
91899 ATTTA
1 ATTTA
91904 AGTTTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 3 0.15
17 13 0.65
18 4 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTATAAAATTTTATTT
Found at i:92309 original size:29 final size:30
Alignment explanation
Indices: 92276--92340 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
92266 TGAATTGTCA
*
92276 TAATTT-TTTCTATTTATTATAAT-TTAAAT
1 TAATTTATTT-TATATATTATAATATTAAAT
92305 TAATTTATTTTATATATTATAATATT-AAT
1 TAATTTATTTTATATATTATAATATTAAAT
*
92334 AAATTTA
1 TAATTTA
92341 AGCATCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 27 0.84
30 5 0.16
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (30 bp):
TAATTTATTTTATATATTATAATATTAAAT
Done.