Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008987.1 Hibiscus syriacus cultivar Beakdansim tig00112352_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: 239634
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:3603 original size:22 final size:21
Alignment explanation
Indices: 3561--3600 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3551 TGAGTTGTTT
*
3561 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
3582 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
3601 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:5832 original size:30 final size:30
Alignment explanation
Indices: 5793--5858 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
5783 CTTAGAAATC
5793 ATTTGGAAAATCTTAAAATCCATTTAACTTA
1 ATTT-GAAAATCTTAAAATCCATTTAACTTA
5824 ATTTGAAAATCTTAAAATCCATTTAACTTA
1 ATTTGAAAATCTTAAAATCCATTTAACTTA
5854 ATTTG
1 ATTTG
5859 TTATATCGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 31 0.89
31 4 0.11
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (30 bp):
ATTTGAAAATCTTAAAATCCATTTAACTTA
Found at i:6143 original size:20 final size:21
Alignment explanation
Indices: 6128--6190 Score: 90
Period size: 21 Copynumber: 2.9 Consensus size: 21
6118 AAAAAGACCG
6128 AAAACGTGTCATAAAGACAAA
1 AAAACGTGTCATAAAGACAAA
*
6149 AAAACGTGTCATAAAGGCATATA
1 AAAACGTGTCATAAAGACA-A-A
*
6172 AAAACGTGTCACAAAGACA
1 AAAACGTGTCATAAAGACA
6191 TATTATTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 18 0.49
22 1 0.03
23 18 0.49
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (21 bp):
AAAACGTGTCATAAAGACAAA
Found at i:6178 original size:23 final size:23
Alignment explanation
Indices: 6128--6193 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
6118 AAAAAGACCG
6128 AAAACGTGTCATAAAGACA-A-A
1 AAAACGTGTCATAAAGACATATA
*
6149 AAAACGTGTCATAAAGGCATATA
1 AAAACGTGTCATAAAGACATATA
*
6172 AAAACGTGTCACAAAGACATAT
1 AAAACGTGTCATAAAGACATAT
6194 TATTAAACAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 18 0.45
22 1 0.03
23 21 0.52
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.18
Consensus pattern (23 bp):
AAAACGTGTCATAAAGACATATA
Found at i:6553 original size:44 final size:44
Alignment explanation
Indices: 6483--6599 Score: 177
Period size: 44 Copynumber: 2.7 Consensus size: 44
6473 AGAAAGTGAT
6483 TTAAAAA-A-AATAAAAAAGTCTATTTTAAATATTATGTTGTAAA
1 TTAAAAATATAAT-AAAAAGTCTATTTTAAATATTATGTTGTAAA
*
6526 TTAAAAATATAATAACAAA-TTTATTTTAAATATTATGTTGTAAA
1 TTAAAAATATAATAA-AAAGTCTATTTTAAATATTATGTTGTAAA
*
6570 TTGAAAATATAATAAAAAGTCTATTTTAAA
1 TTAAAAATATAATAAAAAGTCTATTTTAAA
6600 CTAAAACAAT
Statistics
Matches: 67, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
43 10 0.15
44 51 0.76
45 6 0.09
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (44 bp):
TTAAAAATATAATAAAAAGTCTATTTTAAATATTATGTTGTAAA
Found at i:7313 original size:24 final size:24
Alignment explanation
Indices: 7281--7326 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
7271 TATAAGGACA
7281 AAATATACCTTTTTACCTAAATAT
1 AAATATACCTTTTTACCTAAATAT
*
7305 AAATTTACCTTTTTACCTAAAT
1 AAATATACCTTTTTACCTAAAT
7327 CAAATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.43
Consensus pattern (24 bp):
AAATATACCTTTTTACCTAAATAT
Found at i:10983 original size:21 final size:21
Alignment explanation
Indices: 10959--11003 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
10949 TCATTCAACC
* *
10959 CCACGGCGAACACCACGGCCA
1 CCACGGAGAACACCACCGCCA
**
10980 CCACGGAGGCCACCACCGCCA
1 CCACGGAGAACACCACCGCCA
11001 CCA
1 CCA
11004 AGCAGACAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.51, G:0.22, T:0.00
Consensus pattern (21 bp):
CCACGGAGAACACCACCGCCA
Found at i:13137 original size:16 final size:16
Alignment explanation
Indices: 13116--13146 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13106 TTTAAGGAAT
13116 TAATCTAAAAATAAAA
1 TAATCTAAAAATAAAA
*
13132 TAATCTAAATATAAA
1 TAATCTAAAAATAAA
13147 GATCAACATG
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:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
TAATCTAAAAATAAAA
Found at i:16649 original size:35 final size:32
Alignment explanation
Indices: 16595--16666 Score: 99
Period size: 35 Copynumber: 2.2 Consensus size: 32
16585 CCTTACAAAC
*
16595 TCCCTAGTTTTTCCGGGCTAAACTATAACCTT
1 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
*
16627 TCCCTAGATTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTT-C-CGGGCTAAACTAGAACCTT
16662 TCCCT
1 TCCCT
16667 TTTACAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
32 7 0.20
33 5 0.14
34 1 0.03
35 22 0.63
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (32 bp):
TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
Found at i:16975 original size:21 final size:21
Alignment explanation
Indices: 16949--16990 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16939 CCAGAATGGG
* *
16949 GGGAATTGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
16970 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
16991 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:17220 original size:29 final size:31
Alignment explanation
Indices: 17188--17247 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
17178 AAATTTTGAA
*
17188 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
17217 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
17248 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:20086 original size:32 final size:34
Alignment explanation
Indices: 20050--20120 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
20040 CCTTACAAAC
* * *
20050 TCCCTAG-TTTTTC-CGGGCTAAACTATAACTTT
1 TCCCTAGCTTTTACACGGGCTAAACTAGAACCTT
*
20082 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAGCTTTTACACGGGCTAAACTAGAACCTT
20116 TCCCT
1 TCCCT
20121 TTTACAAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.35
Consensus pattern (34 bp):
TCCCTAGCTTTTACACGGGCTAAACTAGAACCTT
Found at i:20429 original size:21 final size:21
Alignment explanation
Indices: 20403--20444 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
20393 CCAAAATGGG
*
20403 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
20424 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
20445 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:20577 original size:19 final size:19
Alignment explanation
Indices: 20550--20596 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
20540 GAGCCTCGGG
* * *
20550 TACTGTTCAAACAGTGATT
1 TACTATTCAAACAGTAAAT
*
20569 TACTATTCAAATAGTAAAT
1 TACTATTCAAACAGTAAAT
20588 TACTATTCA
1 TACTATTCA
20597 TAAAAACATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (19 bp):
TACTATTCAAACAGTAAAT
Found at i:20693 original size:29 final size:31
Alignment explanation
Indices: 20661--20720 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
20651 AAATTTTGAA
*
20661 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
20690 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
20721 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:23738 original size:21 final size:21
Alignment explanation
Indices: 23708--23748 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
23698 TTAATATAAT
23708 AATAATAACAAA-ATAAATAC
1 AATAATAACAAAGATAAATAC
23728 AATAGATAACAAAGATAAATA
1 AATA-ATAACAAAGATAAATA
23749 AAAGTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.21
21 8 0.42
22 7 0.37
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (21 bp):
AATAATAACAAAGATAAATAC
Found at i:23799 original size:13 final size:13
Alignment explanation
Indices: 23767--23805 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
23757 TAAAAAAGGA
23767 AAAAAATAAAAAT
1 AAAAAATAAAAAT
*
23780 AATAAAATAAAATT
1 AA-AAAATAAAAAT
*
23794 TAAAAATAAAAA
1 AAAAAATAAAAA
23806 CCAAATACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:25142 original size:29 final size:29
Alignment explanation
Indices: 25107--25188 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 29
25097 AAGCTAAATT
* * *
25107 GATGTCATTACTTACATTATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
25136 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
25165 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
25189 GTTAGGTGAG
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
29 43 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:29911 original size:29 final size:29
Alignment explanation
Indices: 29876--29957 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
29866 AAACTAAATT
* *
29876 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
29905 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
29934 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
29958 GTTAGGTGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:31607 original size:29 final size:29
Alignment explanation
Indices: 31546--31628 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 29
31536 CCCAACCCAT
* ** *
31546 AGGTCGCCATGCACTCCCAGCGACCTCCT
1 AGGTCGCCATGCACTCCCGGCGACCAACG
* *
31575 AGGTCGCCATGCACTCCGGGCGACCAAGG
1 AGGTCGCCATGCACTCCCGGCGACCAACG
* *
31604 AGGTCGTCATGCACGCCCGGCGACC
1 AGGTCGCCATGCACTCCCGGCGACC
31629 TTGTCTCCTT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.18, C:0.40, G:0.29, T:0.13
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCCGGCGACCAACG
Found at i:31819 original size:29 final size:29
Alignment explanation
Indices: 31772--31828 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
31762 GGGTTAAAAG
*
31772 CTTGGTCGCCGGGCATGCATGGCGACCTT
1 CTTGGTCGCCCGGCATGCATGGCGACCTT
31801 CTTGGTCGCCCGG-AGTGCATGGCGACCT
1 CTTGGTCGCCCGGCA-TGCATGGCGACCT
31829 AGGAGGTCGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.11, C:0.32, G:0.35, T:0.23
Consensus pattern (29 bp):
CTTGGTCGCCCGGCATGCATGGCGACCTT
Found at i:34694 original size:21 final size:21
Alignment explanation
Indices: 34670--34714 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
34660 TCATTCAACC
* *
34670 CCACGGCGAACACCACGGCCA
1 CCACGGAGAACACCACCGCCA
**
34691 CCACGGAGGCCACCACCGCCA
1 CCACGGAGAACACCACCGCCA
34712 CCA
1 CCA
34715 AGCAGACAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.51, G:0.22, T:0.00
Consensus pattern (21 bp):
CCACGGAGAACACCACCGCCA
Found at i:38276 original size:2 final size:2
Alignment explanation
Indices: 38269--38306 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
38259 CATGCAATTC
38269 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
38307 CACATACATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39303 original size:20 final size:20
Alignment explanation
Indices: 39278--39335 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
39268 TTCCTCTTGA
* *
39278 AGTGCATTGTTGCATTCTAC
1 AGTGCATCGATGCATTCTAC
39298 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
39321 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
39336 CTACCCATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.47
22 1 0.03
23 3 0.09
24 13 0.41
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:41406 original size:25 final size:23
Alignment explanation
Indices: 41376--41443 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 23
41366 ATCATCCAAT
*
41376 TCATATCATATAACATATATCATT
1 TCATATCATATAACATATATC-TA
* *
41400 TGCATAT-AT-TCACATATCTTCTA
1 T-CATATCATATAACATAT-ATCTA
41423 TCATATCATATAAACATATAT
1 TCATATCATAT-AACATATAT
41444 ATATAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
22 5 0.15
23 11 0.32
24 7 0.21
25 11 0.32
ACGTcount: A:0.40, C:0.18, G:0.01, T:0.41
Consensus pattern (23 bp):
TCATATCATATAACATATATCTA
Found at i:43374 original size:24 final size:20
Alignment explanation
Indices: 43301--43378 Score: 120
Period size: 20 Copynumber: 3.7 Consensus size: 20
43291 TTCCCCTTGA
43301 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
43321 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
43341 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
43364 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
43379 CTCCTTATGC
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
20 37 0.69
22 1 0.02
23 3 0.06
24 13 0.24
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:46444 original size:21 final size:21
Alignment explanation
Indices: 46420--46464 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
46410 TCATTCAACC
* *
46420 CCACGGCGAACACCACGGCCA
1 CCACGGAGAACACCACCGCCA
**
46441 CCACGGAGGCCACCACCGCCA
1 CCACGGAGAACACCACCGCCA
46462 CCA
1 CCA
46465 AGCAGACAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.51, G:0.22, T:0.00
Consensus pattern (21 bp):
CCACGGAGAACACCACCGCCA
Found at i:46891 original size:14 final size:14
Alignment explanation
Indices: 46852--46902 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
46842 ATTTTACATA
46852 ATTTAAATTTATAT
1 ATTTAAATTTATAT
**
46866 A-TTATTTGTTATAT
1 ATTTAAAT-TTATAT
46880 ATTTAAATTTATAT
1 ATTTAAATTTATAT
46894 -TTATAAATT
1 ATT-TAAATT
46903 ATTTATCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
13 6 0.20
14 20 0.67
15 4 0.13
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (14 bp):
ATTTAAATTTATAT
Found at i:49112 original size:29 final size:29
Alignment explanation
Indices: 49070--49128 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
49060 ATTTTCACCT
49070 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
*
49099 AACTAAATTGATGTAAGCAATGCCATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
49128 A
1 A
49129 TTAATTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.47, C:0.15, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:56739 original size:23 final size:23
Alignment explanation
Indices: 56713--56804 Score: 121
Period size: 23 Copynumber: 4.0 Consensus size: 23
56703 CACCACAGCT
* *
56713 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
* *
56736 CGTAGAATTGTACCGGAGTGCCG
1 CGTAGAATTGCACCGGAGTGCCA
*
56759 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGGAGTGCCA
* *
56782 CGTAGAATTACACCGTAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
56805 TATAATAATG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.21
Consensus pattern (23 bp):
CGTAGAATTGCACCGGAGTGCCA
Found at i:57051 original size:30 final size:30
Alignment explanation
Indices: 57010--57074 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
57000 ACATAATTTG
* * *
57010 TATCACGTAGACATATTATTTTTC-TACCTT
1 TATCACATAGACATATCA-TTTCCATACCTT
57040 TATCACATAGACATATCATTTCCATACCTT
1 TATCACATAGACATATCATTTCCATACCTT
57070 TATCA
1 TATCA
57075 TATAACTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 4 0.13
30 27 0.87
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.42
Consensus pattern (30 bp):
TATCACATAGACATATCATTTCCATACCTT
Found at i:57948 original size:25 final size:25
Alignment explanation
Indices: 57920--57975 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
57910 CTACTTCCTT
57920 TCTT-TAATTCTTCATATACTTCTCA
1 TCTTATAATT-TTCATATACTTCTCA
**
57945 TCTTATGGTTTTCATATACTTCTCA
1 TCTTATAATTTTCATATACTTCTCA
*
57970 ACTTAT
1 TCTTAT
57976 GGTTTTAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 24 0.89
26 3 0.11
ACGTcount: A:0.23, C:0.21, G:0.04, T:0.52
Consensus pattern (25 bp):
TCTTATAATTTTCATATACTTCTCA
Found at i:57976 original size:25 final size:25
Alignment explanation
Indices: 57930--57981 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
57920 TCTTTAATTC
*
57930 TTCATATACTTCTCATCTTATGGTT
1 TTCATATACTTCTCAACTTATGGTT
57955 TTCATATACTTCTCAACTTATGGTT
1 TTCATATACTTCTCAACTTATGGTT
57980 TT
1 TT
57982 AAGATAATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.21, C:0.19, G:0.08, T:0.52
Consensus pattern (25 bp):
TTCATATACTTCTCAACTTATGGTT
Found at i:63646 original size:23 final size:23
Alignment explanation
Indices: 63620--63688 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
63610 CACCACAGCT
*
63620 CGTATAATTGCACCGGAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
* *
63643 CGTAGAATTACACCGGAGTGCCG
1 CGTAGAATTGCACCGGAGTGCCA
*
63666 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
63689 TATAATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGGAGTGCCA
Found at i:63937 original size:30 final size:30
Alignment explanation
Indices: 63903--63960 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
63893 TTGTATCACG
*
63903 TAGACATATTATTTTCC-TACCTTTATCATA
1 TAGACATATCA-TTTCCATACCTTTATCATA
63933 TAGACATATCATTTCCATACCTTTATCA
1 TAGACATATCATTTCCATACCTTTATCA
63961 CATAACTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
TAGACATATCATTTCCATACCTTTATCATA
Found at i:70841 original size:45 final size:45
Alignment explanation
Indices: 70773--70858 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
70763 GAATTAGTAG
* * *
70773 CCGGAAAACATCTTGGCCGGGACGTTAGTCTCTGTGGATTCGCAA
1 CCGGAAAACATCTTCGCCAGGACGGTAGTCTCTGTGGATTCGCAA
70818 CCGGAAAACATCTTCGCCAGGACGGTAGTCTCTGTGGATTC
1 CCGGAAAACATCTTCGCCAGGACGGTAGTCTCTGTGGATTC
70859 TTTTATAACT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.24
Consensus pattern (45 bp):
CCGGAAAACATCTTCGCCAGGACGGTAGTCTCTGTGGATTCGCAA
Found at i:76851 original size:129 final size:132
Alignment explanation
Indices: 76580--77166 Score: 757
Period size: 135 Copynumber: 4.4 Consensus size: 132
76570 CAACTGGGAT
* * * * * *
76580 TTCATCTTCGGGTTTTTTGAAGATGTC--A--ACGAACCACCAGAGCTTTCGGTCGCGGGGTTCC
1 TTCATCATCGGGTCTTTTGAAGATGTCGTACCACG-ACCACGAGAGCTTTCGATGGCGGGATTCC
* * * * * *
76641 ATCCCACCCCACTGTG-GGAA--ATCGTCGTCGCTCGAGAATAGCTTTCGTTT-GCTAAATGGAA
65 ATTCCACCCCATTGTGCGAAATCATCATCGTCGCTCGAGAAGAGCTTTCGTTTAGC-AAATGGGA
*
76702 TTTT
129 TTTC
* * * * * * *
76706 TTCGTCGTCAGTTCTTTTAAAGA-G-C-T-CCTCAATCCACGAGAGCTTTCGATGGCGGGATTCC
1 TTCATCATCGGGTCTTTTGAAGATGTCGTACCACGA-CCACGAGAGCTTTCGATGGCGGGATTCC
* *
76767 ATTCCACCCCGTTGTGCTAAATCATCATCGTCGCTCGAGAAGAGCTTTCGTTTAGCAAATGGGAT
65 ATTCCACCCCATTGTGCGAAATCATCATCGTCGCTCGAGAAGAGCTTTCGTTTAGCAAATGGGAT
76832 TTC
130 TTC
76835 TTCATCATCGGGTCTTTTGAAGATGTCTGTGAACCACGACCACGAGAGCTTTCGATGGCGGGATT
1 TTCATCATCGGGTCTTTTGAAGATGTC-GT--ACCACGACCACGAGAGCTTTCGATGGCGGGATT
76900 CCATTCCACCCCATTGTGCGAAATCATCATCGTCGCTCGAGAAGAGCTTTCGTTTAGCAAATGGG
63 CCATTCCACCCCATTGTGCGAAATCATCATCGTCGCTCGAGAAGAGCTTTCGTTTAGCAAATGGG
76965 ATTTC
128 ATTTC
*
76970 TTCATCATTGGGTCTTTTGAAGATGTCAGTGAACCACGACCACGAGAGCTTTCGATGGCGGGATT
1 TTCATCATCGGGTCTTTTGAAGATGTC-GT--ACCACGACCACGAGAGCTTTCGATGGCGGGATT
77035 CCATTCCACCCCATTGTGCGAAATCATCATCGTCGCTCGAGAAGAGCTTTCGTTTAGCAAATGGG
63 CCATTCCACCCCATTGTGCGAAATCATCATCGTCGCTCGAGAAGAGCTTTCGTTTAGCAAATGGG
77100 ATTTC
128 ATTTC
* *
77105 TTCATCATTGGGTCTTTTGAAGATGTCAGTGAACCACGACCACGAGAGCTTTCGATCGCGGG
1 TTCATCATCGGGTCTTTTGAAGATGTC-GT--ACCACGACCACGAGAGCTTTCGATGGCGGG
77167 GTTCGAGTCC
Statistics
Matches: 413, Mismatches: 33, Indels: 21
0.88 0.07 0.04
Matches are distributed among these distances:
124 1 0.00
125 2 0.00
126 55 0.13
127 2 0.00
129 56 0.14
130 3 0.01
131 1 0.00
133 1 0.00
135 288 0.70
136 4 0.01
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (132 bp):
TTCATCATCGGGTCTTTTGAAGATGTCGTACCACGACCACGAGAGCTTTCGATGGCGGGATTCCA
TTCCACCCCATTGTGCGAAATCATCATCGTCGCTCGAGAAGAGCTTTCGTTTAGCAAATGGGATT
TC
Found at i:76917 original size:135 final size:135
Alignment explanation
Indices: 76739--77166 Score: 811
Period size: 135 Copynumber: 3.2 Consensus size: 135
76729 GCTCCTCAAT
* *
76739 CCACGAGAGCTTTCGATGGCGGGATTCCATTCCACCCCGTTGTGCTAAATCATCATCGTCGCTCG
1 CCACGAGAGCTTTCGATGGCGGGATTCCATTCCACCCCATTGTGCGAAATCATCATCGTCGCTCG
* *
76804 AGAAGAGCTTTCGTTTAGCAAATGGGATTTCTTCATCATCGGGTCTTTTGAAGATGTCTGTGAAC
66 AGAAGAGCTTTCGTTTAGCAAATGGGATTTCTTCATCATTGGGTCTTTTGAAGATGTCAGTGAAC
76869 CACGA
131 CACGA
76874 CCACGAGAGCTTTCGATGGCGGGATTCCATTCCACCCCATTGTGCGAAATCATCATCGTCGCTCG
1 CCACGAGAGCTTTCGATGGCGGGATTCCATTCCACCCCATTGTGCGAAATCATCATCGTCGCTCG
76939 AGAAGAGCTTTCGTTTAGCAAATGGGATTTCTTCATCATTGGGTCTTTTGAAGATGTCAGTGAAC
66 AGAAGAGCTTTCGTTTAGCAAATGGGATTTCTTCATCATTGGGTCTTTTGAAGATGTCAGTGAAC
77004 CACGA
131 CACGA
77009 CCACGAGAGCTTTCGATGGCGGGATTCCATTCCACCCCATTGTGCGAAATCATCATCGTCGCTCG
1 CCACGAGAGCTTTCGATGGCGGGATTCCATTCCACCCCATTGTGCGAAATCATCATCGTCGCTCG
77074 AGAAGAGCTTTCGTTTAGCAAATGGGATTTCTTCATCATTGGGTCTTTTGAAGATGTCAGTGAAC
66 AGAAGAGCTTTCGTTTAGCAAATGGGATTTCTTCATCATTGGGTCTTTTGAAGATGTCAGTGAAC
77139 CACGA
131 CACGA
*
77144 CCACGAGAGCTTTCGATCGCGGG
1 CCACGAGAGCTTTCGATGGCGGG
77167 GTTCGAGTCC
Statistics
Matches: 288, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
135 288 1.00
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (135 bp):
CCACGAGAGCTTTCGATGGCGGGATTCCATTCCACCCCATTGTGCGAAATCATCATCGTCGCTCG
AGAAGAGCTTTCGTTTAGCAAATGGGATTTCTTCATCATTGGGTCTTTTGAAGATGTCAGTGAAC
CACGA
Found at i:78228 original size:19 final size:19
Alignment explanation
Indices: 78183--78231 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
78173 TAGATTATTT
78183 ATTCTTAAATATATAATTA
1 ATTCTTAAATATATAATTA
* * *
78202 TTTTTTAAATTTAT-ATATA
1 ATTCTTAAATATATAAT-TA
78221 ATTCTTAAATA
1 ATTCTTAAATA
78232 ATACTTATTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTCTTAAATATATAATTA
Found at i:78934 original size:4 final size:4
Alignment explanation
Indices: 78925--78953 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
78915 TGGGTTTTCG
78925 TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT T
78954 TTATGTTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:92214 original size:39 final size:39
Alignment explanation
Indices: 92160--92264 Score: 183
Period size: 39 Copynumber: 2.7 Consensus size: 39
92150 AGCAGTAGAT
92160 TATTTGATTTAGTAGTTTAGATTAACTAGAACTCTATCC
1 TATTTGATTTAGTAGTTTAGATTAACTAGAACTCTATCC
* **
92199 TATTTGGTTTAGTAGTTTAGATTAACTCTAACTCTATCC
1 TATTTGATTTAGTAGTTTAGATTAACTAGAACTCTATCC
92238 TATTTGATTTAGTAGTTTAGATTAACT
1 TATTTGATTTAGTAGTTTAGATTAACT
92265 TCATCCTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 62 1.00
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (39 bp):
TATTTGATTTAGTAGTTTAGATTAACTAGAACTCTATCC
Found at i:97248 original size:31 final size:31
Alignment explanation
Indices: 97203--97283 Score: 135
Period size: 31 Copynumber: 2.6 Consensus size: 31
97193 TTTTGAAAAA
* *
97203 TAATAGTTGAGTGACCAAAAAATAATTTAAG
1 TAATAGGTGGGTGACCAAAAAATAATTTAAG
*
97234 TAATAGGTGGGTGACCAAAACATAATTTAAG
1 TAATAGGTGGGTGACCAAAAAATAATTTAAG
97265 TAATAGGTGGGTGACCAAA
1 TAATAGGTGGGTGACCAAA
97284 TAGTTAGTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.26
Consensus pattern (31 bp):
TAATAGGTGGGTGACCAAAAAATAATTTAAG
Found at i:97640 original size:23 final size:23
Alignment explanation
Indices: 97596--97640 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
97586 TTATTTAGGA
* *
97596 ACTAAAATATAAATAAGCTAAGG
1 ACTAAAATACAAATAAACTAAGG
*
97619 ACTAAAATACAAATAAATTAAG
1 ACTAAAATACAAATAAACTAAG
97641 ACTTCAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.22
Consensus pattern (23 bp):
ACTAAAATACAAATAAACTAAGG
Found at i:114977 original size:49 final size:49
Alignment explanation
Indices: 114883--114983 Score: 130
Period size: 49 Copynumber: 2.1 Consensus size: 49
114873 TCTACGACGC
* * ** * *
114883 TACGAGTTGGACATGGGCTTAATGATAGAATGCGCATAAAAACAGAACA
1 TACGAGTTGGACACGGCCTTAATGATAGAAAACACACAAAAACAGAACA
* *
114932 TACGAGTTTGACACGGCCTTAATGATAGAAAACACACAAACACAGAACA
1 TACGAGTTGGACACGGCCTTAATGATAGAAAACACACAAAAACAGAACA
114981 TAC
1 TAC
114984 ATGCACAGCT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.19
Consensus pattern (49 bp):
TACGAGTTGGACACGGCCTTAATGATAGAAAACACACAAAAACAGAACA
Found at i:115394 original size:2 final size:2
Alignment explanation
Indices: 115387--115412 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
115377 CTTAACATGC
115387 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
115413 CTTTTCAAGG
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):
AT
Found at i:115526 original size:33 final size:33
Alignment explanation
Indices: 115484--115550 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
115474 CCCAAAGATG
115484 ATCAAGCAAACACTATACCATTGGAATAACAAT
1 ATCAAGCAAACACTATACCATTGGAATAACAAT
115517 ATCAAGCAAACACTATACCATTGGAATAACAAT
1 ATCAAGCAAACACTATACCATTGGAATAACAAT
115550 A
1 A
115551 ACTATGCCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.49, C:0.21, G:0.09, T:0.21
Consensus pattern (33 bp):
ATCAAGCAAACACTATACCATTGGAATAACAAT
Found at i:123733 original size:63 final size:63
Alignment explanation
Indices: 123624--123752 Score: 188
Period size: 63 Copynumber: 2.0 Consensus size: 63
123614 TCTGCTACAA
* * *
123624 TGGATTCTGGGATTGAGCACCCAAATCAAGCTGTAAATGACAGGGTTGTCGAAGAACAACTCG
1 TGGATACTGAGATTGAGCACCCAAATCAAGCAGTAAATGACAGGGTTGTCGAAGAACAACTCG
** *
123687 TGGATACTGAGATTGAGCACCCAAATCAAGCAGTAGGTGA-ATGGGTTGTCGAAGAACAATTCG
1 TGGATACTGAGATTGAGCACCCAAATCAAGCAGTAAATGACA-GGGTTGTCGAAGAACAACTCG
123750 TGG
1 TGG
123753 CTCCCGGCAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
62 1 0.02
63 58 0.98
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (63 bp):
TGGATACTGAGATTGAGCACCCAAATCAAGCAGTAAATGACAGGGTTGTCGAAGAACAACTCG
Found at i:125129 original size:22 final size:23
Alignment explanation
Indices: 125104--125147 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
125094 GGCAACTAAC
125104 TTTGGAAAATGTTT-TTTCAAAG
1 TTTGGAAAATGTTTCTTTCAAAG
*
125126 TTTGGTAAATGTTTCTTTCAAA
1 TTTGGAAAATGTTTCTTTCAAA
125148 AATGTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.48
Consensus pattern (23 bp):
TTTGGAAAATGTTTCTTTCAAAG
Found at i:135401 original size:171 final size:171
Alignment explanation
Indices: 135102--135414 Score: 418
Period size: 171 Copynumber: 1.8 Consensus size: 171
135092 AAAGTCGAAC
135102 TTCTAAGAATGCCGTTTTTTTCTTTAATGTGATAATCAACTAAAATAACCAAAAGTAGCTCAAAA
1 TTCTAAGAATGCCGTTTTTTTCTTTAATGTGATAATCAACTAAAATAACCAAAAGTAGCTCAAAA
** * * * * *
135167 TAGATCGTTAAAATTAACCCGAAACATCAAATTGAACAAAATAGAATTGAGTCTGCGAACTCCAA
66 TAGATCAATAAAATTAACCCGAAACATCAAATTAAACAAAAGAGAATAGAGTCTACAAACTCCAA
*
135232 TCGGTCAATCTATATATTTTTAAGAAACTTAAACAGTGAAT
131 TCGATCAATCTATATATTTTTAAGAAACTTAAACAGTGAAT
** * *
135273 TTCTAAG-ATGCCGATTCTTTTCTCTTTAATGTGATAATCAACT-AAATGTCTAAAA-TGGCTCA
1 TTCTAAGAATGCCG-TT-TTTT-TCTTTAATGTGATAATCAACTAAAATAACCAAAAGTAGCTCA
* * * *
135335 AAATATATCAATAAATTTAACCGGAAATATCAAATTAAACAAAAGAGAATAG-GTACTACAAACT
63 AAATAGATCAATAAAATTAACCCGAAACATCAAATTAAACAAAAGAGAATAGAGT-CTACAAACT
135399 CCAATCGATCAATCTA
127 CCAATCGATCAATCTA
135415 GACCATAGTT
Statistics
Matches: 122, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
170 8 0.07
171 80 0.66
172 13 0.11
173 21 0.17
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (171 bp):
TTCTAAGAATGCCGTTTTTTTCTTTAATGTGATAATCAACTAAAATAACCAAAAGTAGCTCAAAA
TAGATCAATAAAATTAACCCGAAACATCAAATTAAACAAAAGAGAATAGAGTCTACAAACTCCAA
TCGATCAATCTATATATTTTTAAGAAACTTAAACAGTGAAT
Found at i:136672 original size:54 final size:54
Alignment explanation
Indices: 136553--136658 Score: 203
Period size: 54 Copynumber: 2.0 Consensus size: 54
136543 CAAGAGGAAA
*
136553 GAAAATCGTTCAAGTCTTTCCTTAATTAATACTAGGCGTCATCACCTTCGTAAT
1 GAAAATCGTTCAAGTCTTTCCTTAATTAATACTAGGCATCATCACCTTCGTAAT
136607 GAAAATCGTTCAAGTCTTTCCTTAATTAATACTAGGCATCATCACCTTCGTA
1 GAAAATCGTTCAAGTCTTTCCTTAATTAATACTAGGCATCATCACCTTCGTA
136659 CATTTACATG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (54 bp):
GAAAATCGTTCAAGTCTTTCCTTAATTAATACTAGGCATCATCACCTTCGTAAT
Found at i:137551 original size:24 final size:24
Alignment explanation
Indices: 137512--137572 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
137502 TGGTTTAGGA
* * *
137512 GGTGGAGCTGGGGGAGGGCTTGGC
1 GGTGGAGGTGGAGGAGGACTTGGC
*
137536 GGTGGAGGTGGAGGAGGACTTGGT
1 GGTGGAGGTGGAGGAGGACTTGGC
* *
137560 GGGGGTGGTGGAG
1 GGTGGAGGTGGAG
137573 CCGGTGGTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.11, C:0.07, G:0.64, T:0.18
Consensus pattern (24 bp):
GGTGGAGGTGGAGGAGGACTTGGC
Found at i:137560 original size:21 final size:21
Alignment explanation
Indices: 137536--137603 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
137526 AGGGCTTGGC
137536 GGTGGAGGTGGAGGAGGACTT
1 GGTGGAGGTGGAGGAGGACTT
* * * *
137557 GGTGGGGGTGGTGGA-GCCGGT
1 GGTGGAGGTGGAGGAGGAC-TT
* * *
137578 GGTGGCGCTGGAGGAGGTCTT
1 GGTGGAGGTGGAGGAGGACTT
137599 GGTGG
1 GGTGG
137604 TGGTTTAGGA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
20 2 0.06
21 32 0.89
22 2 0.06
ACGTcount: A:0.10, C:0.09, G:0.60, T:0.21
Consensus pattern (21 bp):
GGTGGAGGTGGAGGAGGACTT
Found at i:137637 original size:30 final size:30
Alignment explanation
Indices: 137598--137903 Score: 177
Period size: 30 Copynumber: 10.1 Consensus size: 30
137588 GAGGAGGTCT
137598 TGGTGGTGGTTTAGGAGGCGGAGCAGGTGG
1 TGGTGGTGGTTTAGGAGGCGGAGCAGGTGG
* * * *
137628 TGATGGTGGTTTAGGAGGCGGAGCTGGAGC
1 TGGTGGTGGTTTAGGAGGCGGAGCAGGTGG
* ** * ** * **
137658 TGGCGGTGGCGGT-GGCGTTGGAGGAGGTCT
1 TGGTGGTGG-TTTAGGAGGCGGAGCAGGTGG
* * * *
137688 TGGTGGCGGTTTAGGAGGTGGAGCTGGAGG
1 TGGTGGTGGTTTAGGAGGCGGAGCAGGTGG
* **
137718 CGGCAGTGGTTTAGGAGGCGGAGCAGGTGG
1 TGGTGGTGGTTTAGGAGGCGGAGCAGGTGG
* * *
137748 TGGTGGTGGTTTAGGAGGCGGAGCTGGAGA
1 TGGTGGTGGTTTAGGAGGCGGAGCAGGTGG
* * ** * ** * **
137778 TGGAGCTGGCGGT-GGCGTTGGAGGAGGTCT
1 TGGTGGTGG-TTTAGGAGGCGGAGCAGGTGG
* *
137808 TGGTGGCGGTTTAGGA-GCTGGAGCTGGTGG
1 TGGTGGTGGTTTAGGAGGC-GGAGCAGGTGG
* ** *
137838 CGGCAGTGGTTTAGGAGGCGGAGCTGGTGGTGG
1 TGGTGGTGGTTTAGGAGGCGGAGC---AGGTGG
*
137871 TGGTGGTGGTTTAGGAGGCGGAGCAGGAGG
1 TGGTGGTGGTTTAGGAGGCGGAGCAGGTGG
137901 TGG
1 TGG
137904 AGCTGGAGGC
Statistics
Matches: 194, Mismatches: 73, Indels: 18
0.68 0.26 0.06
Matches are distributed among these distances:
29 2 0.01
30 161 0.83
31 4 0.02
33 27 0.14
ACGTcount: A:0.13, C:0.10, G:0.55, T:0.23
Consensus pattern (30 bp):
TGGTGGTGGTTTAGGAGGCGGAGCAGGTGG
Found at i:137666 original size:60 final size:59
Alignment explanation
Indices: 137602--137899 Score: 233
Period size: 60 Copynumber: 4.9 Consensus size: 59
137592 AGGTCTTGGT
*
137602 GGTGGTTTAGGAGGCGGAGCAGGTGGTGATGGTGGTTTAGGAGGCGGAGCTGGAGCTGGC
1 GGTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAGC-GGC
** * ** * ** * *
137662 GGTGGCGGT-GGCGTTGGAGGAGGTCTTGGTGGCGGTTTAGGAGGTGGAGCTGGAGGCGGC
1 GGTGG-TTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGA-GCGGC
* * *
137722 AGTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAGATGGA
1 GGTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAG-CGGC
* ** * ** * ** * *
137782 GCTGGCGGT-GGCGTTGGAGGAGGTCTTGGTGGCGGTTTAGGA-GCTGGAGCTGGTGGCGGC
1 GGTGG-TTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGC-GGAGCTGG-AGCGGC
* * *
137842 AGTGGTTTAGGAGGCGGAGCTGGTGGTGGTGGTGGTGGTTTAGGAGGCGGAGCAGGAG
1 GGTGGTTTAGGAGGCGGAGC---AGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAG
137900 GTGGAGCTGG
Statistics
Matches: 174, Mismatches: 52, Indels: 22
0.70 0.21 0.09
Matches are distributed among these distances:
59 5 0.03
60 136 0.78
61 5 0.03
62 1 0.01
63 25 0.14
64 2 0.01
ACGTcount: A:0.13, C:0.10, G:0.54, T:0.22
Consensus pattern (59 bp):
GGTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAGCGGC
Found at i:137680 original size:90 final size:90
Alignment explanation
Indices: 137578--137741 Score: 247
Period size: 90 Copynumber: 1.8 Consensus size: 90
137568 TGGAGCCGGT
* * * **
137578 GGTGGCGCTGGAGGAGGTCTTGGTGGTGGTTTAGGAGGCGGAGCAGGTGGTGATGGTGGTTTAGG
1 GGTGGCGCTGGAGGAGGTCTTGGTGGCGGTTTAGGAGGCGGAGCAGGAGGCGACAGTGGTTTAGG
137643 AGGCGGAGCTGGAGCTGGCGGTGGC
66 AGGCGGAGCTGGAGCTGGCGGTGGC
* * * *
137668 GGTGGCGTTGGAGGAGGTCTTGGTGGCGGTTTAGGAGGTGGAGCTGGAGGCGGCAGTGGTTTAGG
1 GGTGGCGCTGGAGGAGGTCTTGGTGGCGGTTTAGGAGGCGGAGCAGGAGGCGACAGTGGTTTAGG
137733 AGGCGGAGC
66 AGGCGGAGC
137742 AGGTGGTGGT
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
90 65 1.00
ACGTcount: A:0.13, C:0.11, G:0.54, T:0.22
Consensus pattern (90 bp):
GGTGGCGCTGGAGGAGGTCTTGGTGGCGGTTTAGGAGGCGGAGCAGGAGGCGACAGTGGTTTAGG
AGGCGGAGCTGGAGCTGGCGGTGGC
Found at i:137739 original size:120 final size:120
Alignment explanation
Indices: 137603--137909 Score: 506
Period size: 120 Copynumber: 2.5 Consensus size: 120
137593 GGTCTTGGTG
* * * *
137603 GTGGTTTAGGAGGCGGAGCAGGTGGTGATGGTGGTTTAGGAGGCGGAGCTGGAGCTGGCGGTGGC
1 GTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAGATGGAGCTGGC
*
137668 GGTGGCGTTGGAGGAGGTCTTGGTGGCGGTTTAGGAGGTGGAGCTGGAGGCGGCA
66 GGTGGCGTTGGAGGAGGTCTTGGTGGCGGTTTAGGAGCTGGAGCTGGAGGCGGCA
137723 GTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAGATGGAGCTGGC
1 GTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAGATGGAGCTGGC
*
137788 GGTGGCGTTGGAGGAGGTCTTGGTGGCGGTTTAGGAGCTGGAGCTGGTGGCGGCA
66 GGTGGCGTTGGAGGAGGTCTTGGTGGCGGTTTAGGAGCTGGAGCTGGAGGCGGCA
* * *
137843 GTGGTTTAGGAGGCGGAGCTGGTGGTGGTGGTGGTGGTTTAGGAGGCGGAGCAGGAGGTGGAGCT
1 GTGGTTTAGGAGGCGGAGC---AGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAGATGGAGCT
137908 GG
63 GG
137910 AGGCGGAGCA
Statistics
Matches: 175, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
120 133 0.76
123 42 0.24
ACGTcount: A:0.13, C:0.10, G:0.54, T:0.22
Consensus pattern (120 bp):
GTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAGATGGAGCTGGC
GGTGGCGTTGGAGGAGGTCTTGGTGGCGGTTTAGGAGCTGGAGCTGGAGGCGGCA
Found at i:137898 original size:12 final size:12
Alignment explanation
Indices: 137883--137921 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
137873 GTGGTGGTTT
137883 AGGAGGCGGAGC
1 AGGAGGCGGAGC
*
137895 AGGAGGTGGAGC
1 AGGAGGCGGAGC
*
137907 TGGAGGCGGAGC
1 AGGAGGCGGAGC
137919 AGG
1 AGG
137922 TGGAGGTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.23, C:0.13, G:0.59, T:0.05
Consensus pattern (12 bp):
AGGAGGCGGAGC
Found at i:137902 original size:24 final size:23
Alignment explanation
Indices: 137875--137939 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
137865 TGGTGGTGGT
137875 GGTGGTTTAGGAGGCGGAGCAGGA
1 GGTGGTTT-GGAGGCGGAGCAGGA
** *
137899 GGTGGAGCTGGAGGCGGAGCAGGT
1 GGTGG-TTTGGAGGCGGAGCAGGA
*
137923 GGAGGTTTCGGAGGCGG
1 GGTGGTTT-GGAGGCGG
137940 TGCTGGTGGA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 1 0.03
24 31 0.94
25 1 0.03
ACGTcount: A:0.17, C:0.11, G:0.57, T:0.15
Consensus pattern (23 bp):
GGTGGTTTGGAGGCGGAGCAGGA
Found at i:137950 original size:120 final size:117
Alignment explanation
Indices: 137603--137950 Score: 421
Period size: 120 Copynumber: 2.9 Consensus size: 117
137593 GGTCTTGGTG
* * * *
137603 GTGGTTTAGGAGGCGGAGCAGGTGGTGATGGTGGTTTAGGAGGCGGAGCTGGAGCTGGCGGTGGC
1 GTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAGATGGAGCTGGC
**
137668 GGTGGCGTTGGAGGAGGTCTTGGTGGCGGTTTAGGAGGTGGAGCTGGAGGCGGCA
66 GGTGGCGTTGGAGGAGGTCTTGGTGGCGG--T-GCTGGTGGAGCTGGAGGCGGCA
137723 GTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAGATGGAGCTGGC
1 GTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAGATGGAGCTGGC
* *
137788 GGTGGCGTTGGAGGAGGTCTTGGTGGCGGT-TTAGGAGCTGGAGCTGGTGGCGGCA
66 GGTGGCGTTGGAGGAGGTCTTGGTGGCGGTGCT--G-G-TGGAGCTGGAGGCGGCA
* * *
137843 GTGGTTTAGGAGGCGGAGCTGGTGGTGGTGGTGGTGGTTTAGGAGGCGGAGCAGGAGGTGGAGCT
1 GTGGTTTAGGAGGCGGAGC---AGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAGATGGAGCT
* * * ** * *
137908 GGAGGCGGAGCAGGTGGAGGT-TTCGGAGGCGGTGCTGGTGGAG
63 GGCGGTGGCGTTGGAGGAGGTCTT-GGTGGCGGTGCTGGTGGAG
137951 GAATTGGGGG
Statistics
Matches: 201, Mismatches: 18, Indels: 18
0.85 0.08 0.08
Matches are distributed among these distances:
118 2 0.01
119 1 0.00
120 130 0.65
121 1 0.00
122 3 0.01
123 63 0.31
124 1 0.00
ACGTcount: A:0.14, C:0.10, G:0.55, T:0.22
Consensus pattern (117 bp):
GTGGTTTAGGAGGCGGAGCAGGTGGTGGTGGTGGTTTAGGAGGCGGAGCTGGAGATGGAGCTGGC
GGTGGCGTTGGAGGAGGTCTTGGTGGCGGTGCTGGTGGAGCTGGAGGCGGCA
Found at i:144312 original size:15 final size:15
Alignment explanation
Indices: 144294--144323 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
144284 ATAAAGCGTC
*
144294 CAATAATAATAAAAT
1 CAATAAAAATAAAAT
144309 CAATAAAAATAAAAT
1 CAATAAAAATAAAAT
144324 ATTTCTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (15 bp):
CAATAAAAATAAAAT
Found at i:144962 original size:2 final size:2
Alignment explanation
Indices: 144955--144988 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
144945 TAATTATCCC
*
144955 AT AT AT AT AT AT AT GT 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
144989 GTATTTGTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:145637 original size:20 final size:20
Alignment explanation
Indices: 145614--145653 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
145604 ATCGCATTGT
* *
145614 GATTTTTCATTTCGCGTTGC
1 GATTTTCCATTTCGCCTTGC
145634 GATTTTCCATTTCGCCTTGC
1 GATTTTCCATTTCGCCTTGC
145654 AATAGTCTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.25, G:0.17, T:0.47
Consensus pattern (20 bp):
GATTTTCCATTTCGCCTTGC
Found at i:145789 original size:6 final size:6
Alignment explanation
Indices: 145778--145802 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
145768 GACATGTATT
145778 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
145803 GACGGACGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:146396 original size:41 final size:43
Alignment explanation
Indices: 146314--146404 Score: 123
Period size: 41 Copynumber: 2.2 Consensus size: 43
146304 TGGTCGTGGT
* *
146314 CACTATCGCAACGTATTTGTAAACTATCGCAACAACAACTGTA
1 CACTATCGCAACGAATTTGTAAACAATCGCAACAACAACTGTA
* *
146357 CACTATCGCAACGAATTTG-AAA-AATCGCATCGACAACTGTA
1 CACTATCGCAACGAATTTGTAAACAATCGCAACAACAACTGTA
*
146398 TACTATC
1 CACTATC
146405 ACAATACGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 22 0.51
42 3 0.07
43 18 0.42
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.25
Consensus pattern (43 bp):
CACTATCGCAACGAATTTGTAAACAATCGCAACAACAACTGTA
Found at i:150128 original size:40 final size:42
Alignment explanation
Indices: 150081--150159 Score: 117
Period size: 40 Copynumber: 1.9 Consensus size: 42
150071 TGAAAAAATA
150081 ATTATTAAAACACAATTA-T-TATAAAAAAATATAAATAATG
1 ATTATTAAAACACAATTATTGTATAAAAAAATATAAATAATG
* * *
150121 ATTATTAAAACATAATTATTGTATACAAATATATAAATA
1 ATTATTAAAACACAATTATTGTATAAAAAAATATAAATA
150160 TCTACCAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 17 0.50
41 1 0.03
42 16 0.47
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (42 bp):
ATTATTAAAACACAATTATTGTATAAAAAAATATAAATAATG
Found at i:150138 original size:14 final size:13
Alignment explanation
Indices: 150074--150140 Score: 57
Period size: 14 Copynumber: 5.0 Consensus size: 13
150064 TTGATCTTGA
150074 AAAAATAATTATT
1 AAAAATAATTATT
*
150087 AAAACACAATTATT
1 AAAA-ATAATTATT
*
150101 ATAAAA-AAATA-T
1 A-AAAATAATTATT
*
150113 AAATAATGATTATT
1 AAA-AATAATTATT
150127 AAAACATAATTATT
1 AAAA-ATAATTATT
150141 GTATACAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
11 2 0.05
12 4 0.09
13 12 0.28
14 22 0.51
15 3 0.07
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (13 bp):
AAAAATAATTATT
Found at i:154128 original size:20 final size:20
Alignment explanation
Indices: 154105--154143 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
154095 CATATTTGAA
154105 TATAATTTATAATATTTTTT
1 TATAATTTATAATATTTTTT
* * *
154125 TATATTTTTTTATATTTTT
1 TATAATTTATAATATTTTT
154144 GTTAATGTGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TATAATTTATAATATTTTTT
Found at i:154131 original size:10 final size:10
Alignment explanation
Indices: 154116--154143 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
154106 ATAATTTATA
154116 ATATTTTTTT
1 ATATTTTTTT
154126 ATATTTTTTT
1 ATATTTTTTT
154136 ATATTTTT
1 ATATTTTT
154144 GTTAATGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
ATATTTTTTT
Found at i:154304 original size:72 final size:71
Alignment explanation
Indices: 154105--154355 Score: 188
Period size: 72 Copynumber: 3.4 Consensus size: 71
154095 CATATTTGAA
*
154105 TATAATTTATAATATTTTTTTATATTTTTTTATATTTTTGTTAATGTGAAAAATAATTCTTAATT
1 TATAATTTATAATA-TTTTTTATATATTTTTA-ATTTTTGTTAATG-G---AATAATTCTTAATT
*
154170 CTTATTTATTAAA
60 -TTATTTATTAAC
* * * * *** ** * *
154183 AATAATTTA-CA-ACTTTTTATATATTTTAAAAAAATTAATAGAAGAAATAATTCTTAATTTGTA
1 TATAATTTATAATATTTTTTATATATTTT-TAATTTTTGTTA-ATGGAATAATTCTTAATTT-TA
154246 TTTATTAAC
63 TTTATTAAC
**
154255 TATAATTTATAATATTTTTTATATATTTTTAATTTTTGTTAATGGAATAAACAATGATTAATTTT
1 TATAATTTATAATATTTTTTATATATTTTTAATTTTTGTTAATGGAAT----AATTCTTAATTTT
154320 -TTTATTAAC
62 ATTTATTAAC
* *
154329 CATAATTTAT-ACA-TTTTTATATATTTT
1 TATAATTTATAATATTTTTTATATATTTT
154356 ATTTTTCATA
Statistics
Matches: 136, Mismatches: 28, Indels: 24
0.72 0.15 0.13
Matches are distributed among these distances:
71 1 0.01
72 51 0.38
73 9 0.07
74 33 0.24
75 19 0.14
76 14 0.10
77 1 0.01
78 8 0.06
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (71 bp):
TATAATTTATAATATTTTTTATATATTTTTAATTTTTGTTAATGGAATAATTCTTAATTTTATTT
ATTAAC
Found at i:156899 original size:18 final size:19
Alignment explanation
Indices: 156876--156917 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
156866 ATAGGATGAA
156876 TTCAAGCTAATGAAGAA-C
1 TTCAAGCTAATGAAGAATC
*
156894 TTCAAGCTAATGTAGAATC
1 TTCAAGCTAATGAAGAATC
156913 TTCAA
1 TTCAA
156918 ATCTAGACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (19 bp):
TTCAAGCTAATGAAGAATC
Found at i:158054 original size:7 final size:7
Alignment explanation
Indices: 158042--158076 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
158032 TCTTCTCTAT
158042 CTCTAAC
1 CTCTAAC
158049 CTCTAAC
1 CTCTAAC
158056 CTCTAAC
1 CTCTAAC
158063 CTCTAAC
1 CTCTAAC
158070 CTCTAAC
1 CTCTAAC
158077 TCACACTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.43, G:0.00, T:0.29
Consensus pattern (7 bp):
CTCTAAC
Found at i:159985 original size:19 final size:19
Alignment explanation
Indices: 159937--159986 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
159927 TTTCGGTTAA
*
159937 ATAT-TTTAAATATATATT
1 ATATATTTAAATATATATC
* *
159955 A-ATATATAAAATATATGTC
1 ATATAT-TTAAATATATATC
159974 ATATATTTAAATA
1 ATATATTTAAATA
159987 AATTAATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
17 2 0.08
18 2 0.08
19 17 0.68
20 4 0.16
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (19 bp):
ATATATTTAAATATATATC
Found at i:163881 original size:2 final size:2
Alignment explanation
Indices: 163874--163908 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
163864 TAACTCATTC
163874 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
163909 ACTTTTGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:165356 original size:6 final size:6
Alignment explanation
Indices: 165345--165495 Score: 284
Period size: 6 Copynumber: 25.2 Consensus size: 6
165335 CTTTCGAACT
165345 GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA
1 GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA
165393 GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA
1 GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA
* *
165441 GTAGGA GTAGGA GTAGGC GTAGGA GTAGGC GTAGGA GTAGGA GTAGGA
1 GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA GTAGGA
165489 GTAGGA G
1 GTAGGA G
165496 CTGTTTTGTA
Statistics
Matches: 141, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 141 1.00
ACGTcount: A:0.32, C:0.01, G:0.50, T:0.17
Consensus pattern (6 bp):
GTAGGA
Found at i:167772 original size:18 final size:19
Alignment explanation
Indices: 167749--167786 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
167739 TATAATATAT
*
167749 TAAATAATA-ATTTAAATA
1 TAAATAAAATATTTAAATA
167767 TAAATAAAATATTTAAATA
1 TAAATAAAATATTTAAATA
167786 T
1 T
167787 TTTTATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAATAAAATATTTAAATA
Found at i:170093 original size:3 final size:3
Alignment explanation
Indices: 170085--170109 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
170075 GAATAGGGTT
170085 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
170110 GTTTGATGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:175403 original size:36 final size:37
Alignment explanation
Indices: 175356--175665 Score: 152
Period size: 38 Copynumber: 8.5 Consensus size: 37
175346 AAAAAATTCC
*
175356 AAAACTATATATTATATA-GTTTTCAAAAATG-ATTT
1 AAAAATATATATTATATATGTTTTCAAAAATGTATTT
* * *
175391 AAAAATAT-TA-TATA-A-G-ATTAAAAATATGTTTTT
1 AAAAATATATATTATATATGTTTTCAAAA-ATGTATTT
* *
175424 AAAACTATATATTATATAAT-TTTTCAAAAATGTTTTTTTT
1 AAAAATATATATTATAT-ATGTTTTCAAAAATG---TATTT
*
175464 AAAAAACTATATATTATATATATTTTC-AAAATG-ATTT
1 -AAAAA-TATATATTATATATGTTTTCAAAAATGTATTT
* * *
175501 CAAAACTATATATTATATATATTTTC--AAATGCATTTT
1 -AAAAATATATATTATATATGTTTTCAAAAATGTA-TTT
* * *
175538 CAAAAACTATACATTATATATGTTTTC-AAAATTTTTTT
1 -AAAAA-TATATATTATATATGTTTTCAAAAATGTATTT
* * *
175576 AAAAAACTATATACTATATATATTTTC-GAAATGT-TTT
1 -AAAAA-TATATATTATATATGTTTTCAAAAATGTATTT
* * * * * * *
175613 CGAAACTATATAGTACATATATTTTAAAAACAT-T-TTC
1 -AAAAATATATATTATATATGTTTTCAAAA-ATGTATTT
175650 AAAAAT-TATATTATAT
1 AAAAATATATATTATAT
175666 TGCTATAAAA
Statistics
Matches: 220, Mismatches: 35, Indels: 40
0.75 0.12 0.14
Matches are distributed among these distances:
31 6 0.03
32 5 0.02
33 14 0.06
34 4 0.02
35 24 0.11
36 42 0.19
37 30 0.14
38 57 0.26
39 4 0.02
40 5 0.02
41 12 0.05
42 17 0.08
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (37 bp):
AAAAATATATATTATATATGTTTTCAAAAATGTATTT
Found at i:175522 original size:38 final size:36
Alignment explanation
Indices: 175355--175665 Score: 210
Period size: 36 Copynumber: 8.5 Consensus size: 36
175345 TAAAAAATTC
*
175355 CAAAACTATATATTATATA-GTTTTCAAAAATGATTT
1 CAAAACTATATATTATATATATTTTC-AAAATGATTT
* * ** *
175391 -AAAAATAT-TA-TATA-AGA-TTAAAAATATGTTTT
1 CAAAACTATATATTATATATATTTTCAAA-ATGATTT
* *
175423 TAAAACTATATATTATATA-ATTTTTCAAAAATGTTTTTTTT
1 CAAAACTATATATTATATATA-TTTTC-AAAATG----ATTT
*
175464 AAAAAACTATATATTATATATATTTTCAAAATGATTT
1 -CAAAACTATATATTATATATATTTTCAAAATGATTT
175501 CAAAACTATATATTATATATATTTTC-AAATGCATTTT
1 CAAAACTATATATTATATATATTTTCAAAATG-A-TTT
* * **
175538 CAAAAACTATACATTATATATGTTTTCAAAATTTTTTT
1 C-AAAACTATATATTATATATATTTTCAAAA-TGATTT
* * * *
175576 AAAAAACTATATACTATATATATTTTCGAAATGTTTT
1 -CAAAACTATATATTATATATATTTTCAAAATGATTT
* * * **
175613 CGAAACTATATAGTACATATATTTT-AAAAACATTTT
1 CAAAACTATATATTATATATATTTTCAAAATGA-TTT
*
175649 CAAAAAT-TATATTATAT
1 CAAAACTATATATTATAT
175666 TGCTATAAAA
Statistics
Matches: 220, Mismatches: 33, Indels: 45
0.74 0.11 0.15
Matches are distributed among these distances:
31 3 0.01
32 9 0.04
33 11 0.05
34 4 0.02
35 28 0.13
36 56 0.25
37 17 0.08
38 54 0.25
39 3 0.01
40 1 0.00
41 10 0.05
42 23 0.10
43 1 0.00
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (36 bp):
CAAAACTATATATTATATATATTTTCAAAATGATTT
Found at i:175619 original size:74 final size:73
Alignment explanation
Indices: 175460--175642 Score: 208
Period size: 74 Copynumber: 2.5 Consensus size: 73
175450 AAAATGTTTT
* * * *
175460 TTTTAAAAAACTATATATTATATATATTTTCAAAATGATTTCAAAACTATATATTATATATATTT
1 TTTTCAAAAACTATACATTATATATATTTTCAAAATGATTTAAAAACTATATACTATATATATTT
175525 TCAAATGCA
66 TCAAATG-A
* **
175534 TTTTCAAAAACTATACATTATATATGTTTTCAAAATTTTTTTAAAAAACTATATACTATATATAT
1 TTTTCAAAAACTATACATTATATATATTTTCAAAA-TGATTT-AAAAACTATATACTATATATAT
175599 TTTCGAAATG-
64 TTTC-AAATGA
* * * * *
175609 TTTTC-GAAACTATATAGTACATATATTTTAAAAA
1 TTTTCAAAAACTATACATTATATATATTTTCAAAA
175643 CATTTTCAAA
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
74 55 0.59
75 9 0.10
76 24 0.26
77 5 0.05
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (73 bp):
TTTTCAAAAACTATACATTATATATATTTTCAAAATGATTTAAAAACTATATACTATATATATTT
TCAAATGA
Found at i:175648 original size:76 final size:75
Alignment explanation
Indices: 175502--175642 Score: 187
Period size: 76 Copynumber: 1.9 Consensus size: 75
175492 AAATGATTTC
* * * * *
175502 AAAACTATATATTATATATATTTTCAAATGCATTTTCAAAAACTATACATTATATATGTTTTCAA
1 AAAACTATATACTATATATATTTTCAAATG-ATTTTCAAAAACTATACAGTACATATATTTTAAA
175567 AATTTTTTTAA
65 AATTTTTTTAA
* *
175578 AAAACTATATACTATATATATTTTCGAAATG-TTTTC-GAAACTATATAGTACATATATTTTAAA
1 AAAACTATATACTATATATATTTTC-AAATGATTTTCAAAAACTATACAGTACATATATTTTAAA
175641 AA
65 AA
175643 CATTTTCAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
74 23 0.40
75 5 0.09
76 24 0.42
77 5 0.09
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (75 bp):
AAAACTATATACTATATATATTTTCAAATGATTTTCAAAAACTATACAGTACATATATTTTAAAA
ATTTTTTTAA
Found at i:176593 original size:165 final size:165
Alignment explanation
Indices: 176292--177296 Score: 1039
Period size: 165 Copynumber: 6.1 Consensus size: 165
176282 TCGAGGGTTT
* * ** * * * *
176292 TTGGCAGATAGCCCTTCTCGACTTAAGCCATGCTGCAAATGATGTG-CTTTAGAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTTGGAGCTGAGCGTAG
* * * * * * *
176356 TCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
66 TCGAACTCAAAGGTC-TTTGG---CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
176421 GCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
127 GCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* * *
176460 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGTAAATGATATGCCCTCGGAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTTGGAGCTGAGCGTAG
* *
176525 TCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAATGATGTGCCG
66 TCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCG
176590 TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
131 TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* ** * * * * * *
176625 CTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTTGGAGCTGAGCGTAG
* * * * * *
176690 TCGAACTTAAGGGTCTTTGGCAGATAGCTCTTCTTGACTTAAGCTATACTGCAAATTATGTGCC-
66 TCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCG
176754 TTGGAGCTGAGCGTAGTCGAACTCAAAGGTC---T-
131 TT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* * * * * * * *
176786 TTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAATGATGTGTCGTT-GAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTTGGAGCTGAGCGTAG
* * * * * * * * * *
176850 TCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGTTAT
66 TCGAACTCAAAGGTC-TTTG---GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* * * * * *
176915 GCTCTTTAAGCTGAGTGTAATCGAACTTAAGGGTC---T-
127 GC-CGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* * * * * * *
176951 TTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTG-CCTTGGAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTTGGAGCTGAGCGTAG
*
177015 TCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAATGATGTGCCG
66 TCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCG
177080 TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
131 TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* ** * * * ** * *
177115 CTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTTAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTTGGAGCTGAGCGTAG
* * * *
177180 TCGAACTTAAGGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCC-
66 TCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCG
* * *
177244 TTGGAGCTGAGCGTAGTCAAACTCGAAGGTC-TTGG
131 TT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
* *
177279 TGGGCAGATAGCCCTTCT
1 TTGGCAGATAACCCTTCT
177297 GGCCTTGAGC
Statistics
Matches: 696, Mismatches: 126, Indels: 34
0.81 0.15 0.04
Matches are distributed among these distances:
160 49 0.07
161 74 0.11
162 1 0.00
163 1 0.00
164 91 0.13
165 405 0.58
166 2 0.00
168 43 0.06
169 30 0.04
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (165 bp):
TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATATGCCCTTGGAGCTGAGCGTAG
TCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCG
TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
Found at i:176839 original size:245 final size:245
Alignment explanation
Indices: 176267--177296 Score: 1632
Period size: 245 Copynumber: 4.2 Consensus size: 245
176257 ACCTCGAAGT
* * * * * *
176267 TGAGTGTAATCGAACTCGAGGGTTTTTGGCAGATAGCCCTTCTCGACTTAAGCCATGCTGCAAAT
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAAT
* * * *
176332 GATGTG-CTTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAG
66 GATGTGCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAG
* * * * * * *
176396 CCTTGAGTTATGCTGTAAATGATGTGCCGTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
130 CCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTC---T-
* * * * * * * * * *
176460 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGTAAATGATATGCCCTCGGAGC
191 TTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTG-CCTTGGAGC
176516 TGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAAT
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAAT
176581 GATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGC
66 GATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGC
176646 CTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGC
131 CTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGC
* *
176711 AGATAGCTCTTCTTGACTTAAGCTATACTGCAAATTATGTGCCTTGGAGC
196 AGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGC
*
176761 TGAGCGTAGTCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAAT
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAAT
*
176826 GATGTGTCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGC
66 GATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGC
* * *
176891 CTTGAGTTATGTTGTAAATGTTATGCTCTTTAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGC
131 CTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGC
176956 AGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGC
196 AGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGC
*
177006 TGAGCGTAGTCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAAT
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAAT
177071 GATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGC
66 GATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGC
*
177136 CTTGAGTTATGCTGTAAATGTTATGCCCTTTAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGC
131 CTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGC
177201 AGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGC
196 AGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGC
*
177251 TGAGCGTAGTCAAACTCGAAGGTCTTGGTGGGCAGATAGCCCTTCT
1 TGAGCGTAGTCGAACTCGAAGGTCTT--T-GGCAGATAGCCCTTCT
177297 GGCCTTGAGC
Statistics
Matches: 736, Mismatches: 40, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
245 512 0.70
246 36 0.05
247 2 0.00
248 16 0.02
249 144 0.20
250 26 0.04
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (245 bp):
TGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACGTAAGCTATGCTGCAAAT
GATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAGATAACCCTTCTAGC
CTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGC
AGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGC
Found at i:180377 original size:18 final size:19
Alignment explanation
Indices: 180336--180380 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
180326 AGTTAATGTG
180336 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
*
180355 AATGCAAAGAAAATAA-GA
1 AATGCAAAGAAAATAACAA
180373 AATGCAAA
1 AATGCAAA
180381 ATGTCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.67, C:0.09, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:182276 original size:16 final size:16
Alignment explanation
Indices: 182255--182285 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
182245 AATGAGCCAA
182255 AATTAATAAATAAAAT
1 AATTAATAAATAAAAT
182271 AATTAATAAATAAAA
1 AATTAATAAATAAAA
182286 CACGGGCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATTAATAAATAAAAT
Found at i:183536 original size:20 final size:18
Alignment explanation
Indices: 183511--183556 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 18
183501 ATGAAATGAA
183511 AATAATAATAATAACATACT
1 AATAATAATAATAA-A-ACT
183531 AATAATAATAATAAAACT
1 AATAATAATAATAAAACT
183549 ATATAATA
1 A-ATAATA
183557 TATATATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.16
19 7 0.28
20 14 0.56
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (18 bp):
AATAATAATAATAAAACT
Found at i:183695 original size:37 final size:40
Alignment explanation
Indices: 183652--183738 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
183642 TGATTTAAAA
183652 ATATTATATAA-GATT-AAAAAT-ATGTTTTTAAAACTAT
1 ATATTATATAATGATTCAAAAATGATGTTTTTAAAACTAT
** * *
183689 ATATTATATAATTTTTCAAAAATGTTTTTTTTAAAACTAT
1 ATATTATATAATGATTCAAAAATGATGTTTTTAAAACTAT
183729 ATATTATATA
1 ATATTATATA
183739 TATTTTCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
37 11 0.26
38 2 0.05
39 6 0.14
40 24 0.56
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (40 bp):
ATATTATATAATGATTCAAAAATGATGTTTTTAAAACTAT
Found at i:183730 original size:38 final size:34
Alignment explanation
Indices: 183542--183873 Score: 143
Period size: 38 Copynumber: 9.4 Consensus size: 34
183532 ATAATAATAA
* *
183542 TAAAACTATATAATATATATATTTCAAAAATATTTTTTT
1 TAAAACTATAT-ATATA-ATTTTTC-AAAA-A-TGTTTT
* *
183581 TAAAACTATATAT-TATATTCTT-AAAAA--TTTC
1 TAAAACTATATATATA-ATTTTTCAAAAATGTTTT
* * *
183612 CAAAACTATATATTATATAGTTTTCAAAAATG-ATT
1 TAAAACTATATA-TATA-ATTTTTCAAAAATGTTTT
* ** *
183647 TAAAAATAT-TATATAA-GATTAAAAATATGTTTT
1 TAAAACTATATATATAATTTTTCAAAA-ATGTTTT
183680 TAAAACTATATATTATATAATTTTTCAAAAATGTTTTTTT
1 TAAAAC--TATA-TATATAATTTTTCAAAAATG---TTTT
*
183720 TAAAACTATATATTATATATATTTTC-AAAATGATTT
1 TAAAACTATATA-TATA-AT-TTTTCAAAAATGTTTT
*
183756 CAAAACTATATATAT-ATTTTTC---AATGCATTTT
1 TAAAACTATATATATAATTTTTCAAAAATG--TTTT
* * *
183788 CAAAACTATACATTATATATGTTTTC-AAAATTTTTT
1 TAAAACTATATA-TATA-AT-TTTTCAAAAATGTTTT
*
183824 TAAAAAACTATATACTATATATATTTTC-GAAATGTTTT
1 T--AAAACTATATA-TATA-AT-TTTTCAAAAATGTTTT
**
183862 CGAAACTATATA
1 TAAAACTATATA
183874 GTACATATAT
Statistics
Matches: 234, Mismatches: 31, Indels: 59
0.72 0.10 0.18
Matches are distributed among these distances:
30 4 0.02
31 20 0.09
32 24 0.10
33 23 0.10
34 8 0.03
35 20 0.09
36 33 0.14
37 19 0.08
38 49 0.21
39 19 0.08
40 15 0.06
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (34 bp):
TAAAACTATATATATAATTTTTCAAAAATGTTTT
Found at i:183771 original size:31 final size:32
Alignment explanation
Indices: 183733--183815 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 32
183723 AACTATATAT
183733 TATATATA-TTTTCAAAATG-A-TTTCAAAACTA
1 TATATATATTTTTC--AATGCATTTTCAAAACTA
183764 TATATATATTTTTCAATGCATTTTCAAAACTA
1 TATATATATTTTTCAATGCATTTTCAAAACTA
183796 TACATTATATATGTTTTCAA
1 T--A-TATATAT-TTTTCAA
183816 AATTTTTTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
30 4 0.09
31 9 0.20
32 17 0.38
34 1 0.02
35 7 0.16
36 7 0.16
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.46
Consensus pattern (32 bp):
TATATATATTTTTCAATGCATTTTCAAAACTA
Found at i:183868 original size:106 final size:108
Alignment explanation
Indices: 183676--183873 Score: 294
Period size: 106 Copynumber: 1.9 Consensus size: 108
183666 TAAAAATATG
* * ** *
183676 TTTTTAAAACTATATATTATATAATTTTTCAAAAATGTTTTTTTTAAAACTATATATTATATATA
1 TTTTCAAAACTATACATTATATAATTTTTCAAAAATGTTTTTTAAAAAACTATATACTATATATA
183741 TTTTCAAAATGATTTCAAAACTATATATATATTTTTCAATGCA
66 TTTTCAAAATGATTTCAAAACTATATATATATTTTTCAATGCA
183784 TTTTCAAAACTATACATTATAT-ATGTTTTC-AAAAT-TTTTTTAAAAAACTATATACTATATAT
1 TTTTCAAAACTATACATTATATAAT-TTTTCAAAAATGTTTTTTAAAAAACTATATACTATATAT
* * *
183846 ATTTTCGAAATGTTTTCGAAACTATATA
65 ATTTTCAAAATGATTTCAAAACTATATA
183874 GTACATATAT
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
106 49 0.60
107 7 0.09
108 25 0.31
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (108 bp):
TTTTCAAAACTATACATTATATAATTTTTCAAAAATGTTTTTTAAAAAACTATATACTATATATA
TTTTCAAAATGATTTCAAAACTATATATATATTTTTCAATGCA
Found at i:187448 original size:200 final size:200
Alignment explanation
Indices: 187101--187500 Score: 755
Period size: 200 Copynumber: 2.0 Consensus size: 200
187091 AGCTATAAAA
*
187101 CAAACGAAAAAAGTGGAAATGCAACTTACGAGAGATATCAAATGATCGCATTCGAGGTCCGTTAA
1 CAAACGAAAAAAGTGGAAATGCAACTTACGAGAGATACCAAATGATCGCATTCGAGGTCCGTTAA
187166 GAAGCCTTCATAGACAAAAGCTCTGCAAAAGAAAAGAAATTTAAGACAAAAATGAAAGAAAATAA
66 GAAGCCTTCATAGACAAAAGCTCTGCAAAAGAAAAGAAATTTAAGACAAAAATGAAAGAAAATAA
187231 AAATTAGTTAAGAATCGAAGAGAAACTGAGGACCTAGGTTTCCAAGAAACTTGTTTGACTTTTGA
131 AAATTAGTTAAGAATCGAAGAGAAACTGAGGACCTAGGTTTCCAAGAAACTTGTTTGACTTTTGA
187296 AGGAT
196 AGGAT
*
187301 CAAACGAAAAAAGTGGAACTGCAACTTACGAGAGATACCAAATGATCGCATTCGAGGTCCGTTAA
1 CAAACGAAAAAAGTGGAAATGCAACTTACGAGAGATACCAAATGATCGCATTCGAGGTCCGTTAA
*
187366 GAAGCCTTCATAGACAAAAGCTCTGCAAAAGAAAAGAAATTTAAGACAAAAATGAAAGATAATAA
66 GAAGCCTTCATAGACAAAAGCTCTGCAAAAGAAAAGAAATTTAAGACAAAAATGAAAGAAAATAA
**
187431 AAATTAGTTGCGAATCGAAGAGAAACTGAGGACCTAGGTTTCCAAGAAACTTGTTTGACTTTTGA
131 AAATTAGTTAAGAATCGAAGAGAAACTGAGGACCTAGGTTTCCAAGAAACTTGTTTGACTTTTGA
187496 AGGAT
196 AGGAT
187501 TGATAATGGA
Statistics
Matches: 195, Mismatches: 5, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
200 195 1.00
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.21
Consensus pattern (200 bp):
CAAACGAAAAAAGTGGAAATGCAACTTACGAGAGATACCAAATGATCGCATTCGAGGTCCGTTAA
GAAGCCTTCATAGACAAAAGCTCTGCAAAAGAAAAGAAATTTAAGACAAAAATGAAAGAAAATAA
AAATTAGTTAAGAATCGAAGAGAAACTGAGGACCTAGGTTTCCAAGAAACTTGTTTGACTTTTGA
AGGAT
Found at i:188206 original size:16 final size:16
Alignment explanation
Indices: 188185--188219 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
188175 GGTAAGTTCA
188185 CATAATTTACAAACTT
1 CATAATTTACAAACTT
188201 CATAATTTACAAACTT
1 CATAATTTACAAACTT
188217 CAT
1 CAT
188220 TGTAGAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (16 bp):
CATAATTTACAAACTT
Found at i:200185 original size:191 final size:188
Alignment explanation
Indices: 199850--200216 Score: 585
Period size: 191 Copynumber: 1.9 Consensus size: 188
199840 CGGAACATTG
* *
199850 GGCCTCCAGTTTCTAAAAGAACGAGGTCTCCTTCAATTTACGATGATGAATTTCTTCAGGATAAC
1 GGCCTCCAGTTTCTAAAAGAACGAGGTCTCCTTCAATTTACCATGATGAATTTCTTCAGGATAAA
* * *
199915 TCCACCCCACTGAAGTGCGAAACATTGGGCCTTCAGTTTCTAAAAGAACGAGGTCTCCTCCTTTA
66 TCCACCCCACTGAAGTGCGAAACATCGGGCCTTCAGTTTCAAAAAGAACGAGGTCTCCTCCTTCA
*
199980 ATTTATGATGATGAATTTCTTCAGGATAACTCCACTCCTACTGAAGTGCGAAACACCA
131 ATTTACGATGATGAATTTCTTCAGGATAACTCCACTCCTACTGAAGTGCGAAACACCA
*
200038 GGCCTTCAGTTTCTAAAAGAACGAGGTCTCCTCCTTCAATTTACCATGATGAATTTCTTCAGGAT
1 GGCCTCCAGTTTCTAAAAGAACGAGG--T-CTCCTTCAATTTACCATGATGAATTTCTTCAGGAT
*
200103 AAATCCACTCCTACTGAAGTGCGAAACATCGGGCCTTCAGTTTCAAAAAG-ACGAGGTCTCCTCC
63 AAATCCAC-CCCACTGAAGTGCGAAACATCGGGCCTTCAGTTTCAAAAAGAACGAGGTCTCCTCC
* *
200167 TTCAGTTTACCG-TGATGAATTTCTTCAGGATAACTCCACTCCTATTGAAG
127 TTCAATTTA-CGATGATGAATTTCTTCAGGATAACTCCACTCCTACTGAAG
200217 ATGATACTAA
Statistics
Matches: 164, Mismatches: 10, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
188 25 0.15
190 1 0.01
191 99 0.60
192 39 0.24
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (188 bp):
GGCCTCCAGTTTCTAAAAGAACGAGGTCTCCTTCAATTTACCATGATGAATTTCTTCAGGATAAA
TCCACCCCACTGAAGTGCGAAACATCGGGCCTTCAGTTTCAAAAAGAACGAGGTCTCCTCCTTCA
ATTTACGATGATGAATTTCTTCAGGATAACTCCACTCCTACTGAAGTGCGAAACACCA
Found at i:200205 original size:95 final size:96
Alignment explanation
Indices: 199836--200216 Score: 585
Period size: 96 Copynumber: 4.0 Consensus size: 96
199826 CTTCTCCTGC
* * *
199836 AGTGCGGAACATTGGGCCTCCAGTTTCTAAAAGAACGAGG--T-CTCCTTCAATTTACGATGATG
1 AGTGCGAAACATCGGGCCTTCAGTTTCTAAAAGAACGAGGTCTCCTCCTTCAATTTACGATGATG
*
199898 AATTTCTTCAGGATAACTCCAC-CCCACTGA
66 AATTTCTTCAGGATAACTCCACTCCTACTGA
* * *
199928 AGTGCGAAACATTGGGCCTTCAGTTTCTAAAAGAACGAGGTCTCCTCCTTTAATTTATGATGATG
1 AGTGCGAAACATCGGGCCTTCAGTTTCTAAAAGAACGAGGTCTCCTCCTTCAATTTACGATGATG
199993 AATTTCTTCAGGATAACTCCACTCCTACTGA
66 AATTTCTTCAGGATAACTCCACTCCTACTGA
* * *
200024 AGTGCGAAACACCAGGCCTTCAGTTTCTAAAAGAACGAGGTCTCCTCCTTCAATTTACCATGATG
1 AGTGCGAAACATCGGGCCTTCAGTTTCTAAAAGAACGAGGTCTCCTCCTTCAATTTACGATGATG
*
200089 AATTTCTTCAGGATAAATCCACTCCTACTGA
66 AATTTCTTCAGGATAACTCCACTCCTACTGA
* *
200120 AGTGCGAAACATCGGGCCTTCAGTTTCAAAAAG-ACGAGGTCTCCTCCTTCAGTTTACCG-TGAT
1 AGTGCGAAACATCGGGCCTTCAGTTTCTAAAAGAACGAGGTCTCCTCCTTCAATTTA-CGATGAT
*
200183 GAATTTCTTCAGGATAACTCCACTCCTATTGA
65 GAATTTCTTCAGGATAACTCCACTCCTACTGA
200215 AG
1 AG
200217 ATGATACTAA
Statistics
Matches: 265, Mismatches: 19, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
92 38 0.14
94 1 0.00
95 99 0.37
96 127 0.48
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (96 bp):
AGTGCGAAACATCGGGCCTTCAGTTTCTAAAAGAACGAGGTCTCCTCCTTCAATTTACGATGATG
AATTTCTTCAGGATAACTCCACTCCTACTGA
Found at i:203113 original size:36 final size:35
Alignment explanation
Indices: 203058--203129 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 35
203048 GAACATCAAA
*
203058 AGAGAGCCAACTGGTAAAGCATATACACAAAGACC
1 AGAGAGCCAACCGGTAAAGCATATACACAAAGACC
* *
203093 AGAGAGTCAACCGGTTAAAGCATATATACAAAGACC
1 AGAGAGCCAACCGG-TAAAGCATATACACAAAGACC
203129 A
1 A
203130 AAGGCCTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 12 0.36
36 21 0.64
ACGTcount: A:0.46, C:0.21, G:0.19, T:0.14
Consensus pattern (35 bp):
AGAGAGCCAACCGGTAAAGCATATACACAAAGACC
Found at i:206917 original size:116 final size:116
Alignment explanation
Indices: 206713--206946 Score: 441
Period size: 116 Copynumber: 2.0 Consensus size: 116
206703 AATAGTGTTA
* *
206713 TCAGCAAAACCAGCAAGATGTCATGGGGCCTTGAGATCATTCACCATGAGAATCTTGCACCAAGA
1 TCAGCAAAACCAGCAAGATGTCATGGGGCCTTGAGATCACTCACCATGAGAATCTTCCACCAAGA
*
206778 AAGCAACTTCTCTGTTTCGTTTTGGCTACCCCACATCTAATTTCACAGGCC
66 AAGCAACTTCTCTGTTTCCTTTTGGCTACCCCACATCTAATTTCACAGGCC
206829 TCAGCAAAACCAGCAAGATGTCATGGGGCCTTGAGATCACTCACCATGAGAATCTTCCACCAAGA
1 TCAGCAAAACCAGCAAGATGTCATGGGGCCTTGAGATCACTCACCATGAGAATCTTCCACCAAGA
206894 AAGCAACTTCTCTGTTTCCTTTTGGCTACCCCACATCTAATTTCACAGGCC
66 AAGCAACTTCTCTGTTTCCTTTTGGCTACCCCACATCTAATTTCACAGGCC
206945 TC
1 TC
206947 TGCCGCATCG
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 115 1.00
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (116 bp):
TCAGCAAAACCAGCAAGATGTCATGGGGCCTTGAGATCACTCACCATGAGAATCTTCCACCAAGA
AAGCAACTTCTCTGTTTCCTTTTGGCTACCCCACATCTAATTTCACAGGCC
Found at i:217052 original size:21 final size:21
Alignment explanation
Indices: 217026--217067 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
217016 TTTCAAAAAA
*
217026 AAAAACGAAGATCACTTGACC
1 AAAAACAAAGATCACTTGACC
217047 AAAAACAAAGATCACTTGACC
1 AAAAACAAAGATCACTTGACC
217068 TCCTAGGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.24, G:0.12, T:0.14
Consensus pattern (21 bp):
AAAAACAAAGATCACTTGACC
Found at i:217535 original size:18 final size:18
Alignment explanation
Indices: 217512--217554 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
217502 TGCCTTTAAG
217512 ATTTGATTTGATAAATGA
1 ATTTGATTTGATAAATGA
* * *
217530 ATTTGATTTTATAATTTA
1 ATTTGATTTGATAAATGA
217548 ATTTGAT
1 ATTTGAT
217555 ATTCTTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (18 bp):
ATTTGATTTGATAAATGA
Found at i:236694 original size:3 final size:3
Alignment explanation
Indices: 236686--236710 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
236676 CACATCTCTT
236686 GCA GCA GCA GCA GCA GCA GCA GCA G
1 GCA GCA GCA GCA GCA GCA GCA GCA G
236711 AACTTCCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.36, T:0.00
Consensus pattern (3 bp):
GCA
Done.