Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015346.1 Kokia drynarioides strain JFW-HI SEQ_130393, 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: 273082
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 624 characters in sequence are not A, C, G, or T
Found at i:314 original size:25 final size:23
Alignment explanation
Indices: 274--319 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
264 CTAATTAGGG
274 AATTATTATTTAAATTTAATTCA
1 AATTATTATTTAAATTTAATTCA
*
297 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TATTTA-AATTTAATT
320 TGGATCTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.54
Consensus pattern (23 bp):
AATTATTATTTAAATTTAATTCA
Found at i:1403 original size:21 final size:21
Alignment explanation
Indices: 1357--1422 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
1347 TTATAAACAA
* *
1357 TAAACGTTAAACCTTAAATCC
1 TAAATGTTAAACTTTAAATCC
*
1378 TAAATGTTAAACTTTAAATAC
1 TAAATGTTAAACTTTAAATCC
* * *
1399 TAAATTTTACATTTTAAATCC
1 TAAATGTTAAACTTTAAATCC
1420 TAA
1 TAA
1423 CTATACATTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (21 bp):
TAAATGTTAAACTTTAAATCC
Found at i:2450 original size:17 final size:17
Alignment explanation
Indices: 2364--2440 Score: 84
Period size: 17 Copynumber: 4.5 Consensus size: 17
2354 CCCAATCAGC
* *
2364 TTAAATTTATTTTAAAA
1 TTAAATTTATTATAAAT
* *
2381 TTAAGTTTATTCTAAAT
1 TTAAATTTATTATAAAT
* *
2398 TTAAATTTGGTT-GAAAT
1 TTAAATTT-ATTATAAAT
2415 TTAAATTTATTATAAAT
1 TTAAATTTATTATAAAT
2432 TTAAATTTA
1 TTAAATTTA
2441 AAGTTTATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
16 2 0.04
17 46 0.92
18 2 0.04
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (17 bp):
TTAAATTTATTATAAAT
Found at i:4336 original size:117 final size:117
Alignment explanation
Indices: 4117--4579 Score: 644
Period size: 117 Copynumber: 3.9 Consensus size: 117
4107 GAGGTCCCTA
4117 AACCTTCCAAAAATTACCATTTTACCCTCAAACTTCCAAAAATCCCATTTTTAACCCCCGAACCT
1 AACCTTCCAAAAATTACCATTTTACCC-CAAACTTCCAAAAATCCCATTTTTAA-CCCCGAACCT
* *
4182 TCCAAAAAATACCATTTTACCCTCGAACTTCCAAAAATCTCATTTTTAACCCCG
64 TCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTAACCCCG
* * * *
4236 AACCTTCCAAAAATTACCATTTTACTCCGAACTTCCAAAAATCTCATTTTTTACCCC-AGACCTT
1 AACCTTCCAAAAATTACCATTTTACCCCAAACTTCCAAAAATCCCATTTTTAACCCCGA-ACCTT
* * *
4300 CCAAAAATTACCATTTTGCCCCCGAACTTCCCAAAATCTCATTTTTGACCCC-
65 CCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTAACCCCG
* * * * *
4352 AGACCTGCCAAAAATTACCATTTTGCCCCCGAACTTCCCAAAATCTCATTTTTAACCCCGAACCT
1 A-ACCTTCCAAAAATTACCATTTT-ACCCCAAACTTCCAAAAATCCCATTTTTAACCCCGAACCT
*
4417 TCCAAAAATTATCATTTTACCCCCGAACTTCC-AAAATCTCATTTTTAACCCCG
64 TCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTAACCCCG
** * * * *
4470 AACCTTCCAAAAATTAATATTTTACCCCTAAACTTTCAAAAATCCCAATTTTGACCTCGAACCTT
1 AACCTTCCAAAAATTACCATTTTACCCC-AAACTTCCAAAAATCCCATTTTTAACCCCGAACCTT
* *
4535 CCAAAAATTACCATTTTACCTCCGAACTTCCAAAAATCCCATTTT
65 CCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTT
4580 CGACCTGGAA
Statistics
Matches: 306, Mismatches: 31, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
116 6 0.02
117 173 0.57
118 100 0.33
119 27 0.09
ACGTcount: A:0.33, C:0.33, G:0.04, T:0.30
Consensus pattern (117 bp):
AACCTTCCAAAAATTACCATTTTACCCCAAACTTCCAAAAATCCCATTTTTAACCCCGAACCTTC
CAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTAACCCCG
Found at i:4413 original size:176 final size:176
Alignment explanation
Indices: 4117--4579 Score: 671
Period size: 176 Copynumber: 2.6 Consensus size: 176
4107 GAGGTCCCTA
* *
4117 AACCTTCCAAAAATTACCATTTTACCCTCAAACTTCCAAAAATCCCATTTTTAACCCCCGAACCT
1 AACCTTCCAAAAATTACCATTTTACCCCCAAACTTCCAAAAATCCCATTTTTGA-CCCCGAACCT
* *
4182 TCCAAAAAATACCATTTTACCCTCGAACTTCCAAAAATCTCATTTTTAACCCCGAACCTTCCAAA
65 TCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTAACCCCGAACCTTCCAAA
* *
4247 AATTACCATTTTA-CTCCGAACTTCCAAAAATCTCATTTTTTACCCC-
130 AATTACCATTTTACCCCCGAACTTCC-AAAATCTCATTTTTAACCCCG
* * * *
4293 AGACCTTCCAAAAATTACCATTTTGCCCCCGAACTTCCCAAAATCTCATTTTTGACCCC-AGACC
1 A-ACCTTCCAAAAATTACCATTTTACCCCCAAACTTCCAAAAATCCCATTTTTGACCCCGA-ACC
* * *
4357 TGCCAAAAATTACCATTTTGCCCCCGAACTTCCCAAAATCTCATTTTTAACCCCGAACCTTCCAA
64 TTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTAACCCCGAACCTTCCAA
*
4422 AAATTATCATTTTACCCCCGAACTTCCAAAATCTCATTTTTAACCCCG
129 AAATTACCATTTTACCCCCGAACTTCCAAAATCTCATTTTTAACCCCG
** * * * *
4470 AACCTTCCAAAAATTAATATTTTACCCCTAAACTTTCAAAAATCCCAATTTTGACCTCGAACCTT
1 AACCTTCCAAAAATTACCATTTTACCCCCAAACTTCCAAAAATCCCATTTTTGACCCCGAACCTT
* *
4535 CCAAAAATTACCATTTTACCTCCGAACTTCCAAAAATCCCATTTT
66 CCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTT
4580 CGACCTGGAA
Statistics
Matches: 253, Mismatches: 29, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
175 1 0.00
176 192 0.76
177 60 0.24
ACGTcount: A:0.33, C:0.33, G:0.04, T:0.30
Consensus pattern (176 bp):
AACCTTCCAAAAATTACCATTTTACCCCCAAACTTCCAAAAATCCCATTTTTGACCCCGAACCTT
CCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCTCATTTTTAACCCCGAACCTTCCAAAA
ATTACCATTTTACCCCCGAACTTCCAAAATCTCATTTTTAACCCCG
Found at i:4612 original size:59 final size:58
Alignment explanation
Indices: 4117--4579 Score: 626
Period size: 59 Copynumber: 7.9 Consensus size: 58
4107 GAGGTCCCTA
* *
4117 AACCTTCCAAAAATTACCATTTTACCCTCAAACTTCCAAAAATCCCATTTTTAACCCCCG
1 AACCTTCCAAAAATTACCATTTTACCC-CGAACTTCCAAAAATCTCATTTTTAA-CCCCG
*
4177 AACCTTCCAAAAAATACCATTTTACCCTCGAACTTCCAAAAATCTCATTTTTAACCCCG
1 AACCTTCCAAAAATTACCATTTTACCC-CGAACTTCCAAAAATCTCATTTTTAACCCCG
* *
4236 AACCTTCCAAAAATTACCATTTTACTCCGAACTTCCAAAAATCTCATTTTTTACCCC-
1 AACCTTCCAAAAATTACCATTTTACCCCGAACTTCCAAAAATCTCATTTTTAACCCCG
* * *
4293 AGACCTTCCAAAAATTACCATTTTGCCCCCGAACTTCCCAAAATCTCATTTTTGACCCC-
1 A-ACCTTCCAAAAATTACCATTTT-ACCCCGAACTTCCAAAAATCTCATTTTTAACCCCG
* * *
4352 AGACCTGCCAAAAATTACCATTTTGCCCCCGAACTTCCCAAAATCTCATTTTTAACCCCG
1 A-ACCTTCCAAAAATTACCATTTT-ACCCCGAACTTCCAAAAATCTCATTTTTAACCCCG
*
4412 AACCTTCCAAAAATTATCATTTTACCCCCGAACTTCC-AAAATCTCATTTTTAACCCCG
1 AACCTTCCAAAAATTACCATTTTA-CCCCGAACTTCCAAAAATCTCATTTTTAACCCCG
** * * * * * *
4470 AACCTTCCAAAAATTAATATTTTACCCCTAAACTTTCAAAAATCCCAATTTTGACCTCG
1 AACCTTCCAAAAATTACCATTTTACCCC-GAACTTCCAAAAATCTCATTTTTAACCCCG
*
4529 AACCTTCCAAAAATTACCATTTTACCTCCGAACTTCCAAAAATCCCATTTT
1 AACCTTCCAAAAATTACCATTTTACC-CCGAACTTCCAAAAATCTCATTTT
4580 CGACCTGGAA
Statistics
Matches: 368, Mismatches: 28, Indels: 15
0.90 0.07 0.04
Matches are distributed among these distances:
57 5 0.01
58 100 0.27
59 209 0.57
60 54 0.15
ACGTcount: A:0.33, C:0.33, G:0.04, T:0.30
Consensus pattern (58 bp):
AACCTTCCAAAAATTACCATTTTACCCCGAACTTCCAAAAATCTCATTTTTAACCCCG
Found at i:6083 original size:29 final size:29
Alignment explanation
Indices: 6051--6192 Score: 137
Period size: 29 Copynumber: 4.8 Consensus size: 29
6041 ATTGAGATAA
* * *
6051 AAAAACGGAATTTTTCGAAATTTCGGGGT
1 AAAAATGGAATTTTTGGAAGTTTCGGGGT
6080 -AAAATGGTAATTTTT-GAGAGTTTCGGGGT
1 AAAAATGG-AATTTTTGGA-AGTTTCGGGGT
*
6109 CAAAAATGGAATTTTTGGAGGTTT-GAGGGT
1 -AAAAATGGAATTTTTGGAAGTTTCG-GGGT
* **
6139 AAAAATGTAATTTTTGGAAGTTTCGGGAAC
1 AAAAATGGAATTTTTGGAAGTTTCGGG-GT
*
6169 AAAAATGAAATTTTTGGATAGTTT
1 AAAAATGGAATTTTTGGA-AGTTT
6193 AGGGACCTCC
Statistics
Matches: 96, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
28 8 0.08
29 41 0.43
30 33 0.34
31 14 0.15
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (29 bp):
AAAAATGGAATTTTTGGAAGTTTCGGGGT
Found at i:6114 original size:59 final size:59
Alignment explanation
Indices: 6051--6183 Score: 155
Period size: 59 Copynumber: 2.3 Consensus size: 59
6041 ATTGAGATAA
* **
6051 AAAAACGGAATTTTTCGAAATTTCG-GGGT-AAAATGGTAATTTTT-GAGAGTTTCGGGGTC
1 AAAAATGGAATTTTTCGAAATTT-GAGGGTAAAAAT-GTAATTTTTGGA-AGTTTCGGGAAC
* **
6110 AAAAATGGAATTTTTGGAGGTTTGAGGGTAAAAATGTAATTTTTGGAAGTTTCGGGAAC
1 AAAAATGGAATTTTTCGAAATTTGAGGGTAAAAATGTAATTTTTGGAAGTTTCGGGAAC
*
6169 AAAAATGAAATTTTT
1 AAAAATGGAATTTTT
6184 GGATAGTTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
58 1 0.02
59 56 0.88
60 7 0.11
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.35
Consensus pattern (59 bp):
AAAAATGGAATTTTTCGAAATTTGAGGGTAAAAATGTAATTTTTGGAAGTTTCGGGAAC
Found at i:14936 original size:21 final size:20
Alignment explanation
Indices: 14887--14936 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
14877 AAAATGTATT
*
14887 TTAAATATTATATAATTATA
1 TTAAATATTTTATAATTATA
14907 TTAAA-ATTTTATAATTGATGA
1 TTAAATATTTTATAATT-AT-A
14928 -TAAATATTT
1 TTAAATATTT
14937 ATGTTAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 10 0.38
20 11 0.42
21 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (20 bp):
TTAAATATTTTATAATTATA
Found at i:23759 original size:3 final size:3
Alignment explanation
Indices: 23753--23777 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
23743 ATGGCATGAT
23753 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
23778 GCGGTGATTT
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:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:24249 original size:19 final size:19
Alignment explanation
Indices: 24227--24287 Score: 50
Period size: 24 Copynumber: 2.9 Consensus size: 19
24217 TAAATATAAA
24227 AATTTTTTAATGTATTTTT
1 AATTTTTTAATGTATTTTT
* *
24246 AATTTGTTGATAAATATTTATTTT
1 AATTT-TT--T-AATGTAT-TTTT
24270 AATATTTTTAATGTATTT
1 AAT-TTTTTAATGTATTT
24288 AATGTATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 11
0.68 0.09 0.23
Matches are distributed among these distances:
19 5 0.16
20 4 0.12
21 5 0.16
22 2 0.06
23 5 0.16
24 9 0.28
25 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (19 bp):
AATTTTTTAATGTATTTTT
Found at i:27190 original size:35 final size:35
Alignment explanation
Indices: 27149--27216 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
27139 CAATTTATCA
* *
27149 TTTGGTACCTATA-TTCGACTTTTATGTTCAATTTG
1 TTTGGTACCTA-AGTTCGAATTTCATGTTCAATTTG
*
27184 TTTGGTACCTAAGTTTGAATTTCATGTTCAATT
1 TTTGGTACCTAAGTTCGAATTTCATGTTCAATT
27217 GGTTCACAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 1 0.03
35 28 0.97
ACGTcount: A:0.22, C:0.13, G:0.15, T:0.50
Consensus pattern (35 bp):
TTTGGTACCTAAGTTCGAATTTCATGTTCAATTTG
Found at i:27492 original size:61 final size:58
Alignment explanation
Indices: 27370--27503 Score: 146
Period size: 61 Copynumber: 2.3 Consensus size: 58
27360 GGATAAAAAA
* * * *
27370 AAACTCAAGTATC-AATTTGAAAAAAAAAACTCAGGTACCAAACTAAACATTGAAGCC
1 AAACTCAAGTATCAAATTGGAAAAAAAAAACTCAGATACCAAACTAAACATTAAAACC
* * *
27427 AAACTCAAGTATCAAATTGGGACAAAAAAAATACTTAGATACTAAA-TGAAACATTAAAACT
1 AAACTCAAGTATCAAATT-GGA-AAAAAAAA-ACTCAGATACCAAACT-AAACATTAAAACC
*
27488 AAACTCAGGTATCAAA
1 AAACTCAAGTATCAAA
27504 AAGTATATTA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
57 13 0.20
58 4 0.06
59 2 0.03
60 9 0.14
61 36 0.56
ACGTcount: A:0.52, C:0.16, G:0.10, T:0.21
Consensus pattern (58 bp):
AAACTCAAGTATCAAATTGGAAAAAAAAAACTCAGATACCAAACTAAACATTAAAACC
Found at i:36352 original size:31 final size:31
Alignment explanation
Indices: 36314--36376 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 31
36304 GTCGAGTCAA
36314 AATTCAAAAAAC-ATAAAGACTAAAATTGATC
1 AATTC-AAAAACTATAAAGACTAAAATTGATC
*
36345 AATTCAAAAACTATAGAGACTAAAATTGATC
1 AATTCAAAAACTATAAAGACTAAAATTGATC
36376 A
1 A
36377 CGTAAAGTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 6 0.20
31 24 0.80
ACGTcount: A:0.56, C:0.13, G:0.08, T:0.24
Consensus pattern (31 bp):
AATTCAAAAACTATAAAGACTAAAATTGATC
Found at i:54839 original size:31 final size:30
Alignment explanation
Indices: 54810--54919 Score: 79
Period size: 30 Copynumber: 3.7 Consensus size: 30
54800 TTATTTATAT
54810 TATATTATTTTAATATTTAATAATTTT--A
1 TATATTATTTTAATATTTAATAATTTTACA
* * *
54838 TAAATT-TTTT-ATTTATTAAAAATTTGTACA
1 TATATTATTTTAATAT-TTAATAATTT-TACA
*
54868 TAT-TTATTTTAATATTT-TTAATATTTACA
1 TATATTATTTTAATATTTAATAAT-TTTACA
*
54897 TTATAATATTATTATATATTTAA
1 -TATATTATT-TTA-ATATTTAA
54920 CATAAATTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 18
0.69 0.10 0.20
Matches are distributed among these distances:
26 3 0.05
27 13 0.21
28 6 0.10
29 9 0.15
30 14 0.23
31 7 0.11
32 3 0.05
33 6 0.10
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (30 bp):
TATATTATTTTAATATTTAATAATTTTACA
Found at i:54930 original size:22 final size:22
Alignment explanation
Indices: 54881--54931 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 22
54871 TTATTTTAAT
54881 ATTT-TTAATATTTACATTATA
1 ATTTATTAATATTTACATTATA
54902 ATATTATTATATATTTAACA-TA-A
1 AT-TTATTA-ATATTT-ACATTATA
54925 ATTTATT
1 ATTTATT
54932 TTCTTAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
21 2 0.08
22 7 0.27
23 6 0.23
24 8 0.31
25 3 0.12
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTATTAATATTTACATTATA
Found at i:55797 original size:60 final size:60
Alignment explanation
Indices: 55725--55854 Score: 242
Period size: 60 Copynumber: 2.2 Consensus size: 60
55715 TGTAGTAGCC
* *
55725 TTCGGTTTCGGCGCAACTTTAGCCTTTGCCTTAACAGGCGTTGCAAGTTTGGCTTTCGGT
1 TTCGGTTTCGGCGCAACTGTAGCCTTTGCCTTAACAGGCGTTGCAAGTTTGACTTTCGGT
55785 TTCGGTTTCGGCGCAACTGTAGCCTTTGCCTTAACAGGCGTTGCAAGTTTGACTTTCGGT
1 TTCGGTTTCGGCGCAACTGTAGCCTTTGCCTTAACAGGCGTTGCAAGTTTGACTTTCGGT
55845 TTCGGTTTCG
1 TTCGGTTTCG
55855 ACGTGGTTTT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 68 1.00
ACGTcount: A:0.13, C:0.23, G:0.27, T:0.37
Consensus pattern (60 bp):
TTCGGTTTCGGCGCAACTGTAGCCTTTGCCTTAACAGGCGTTGCAAGTTTGACTTTCGGT
Found at i:65692 original size:20 final size:20
Alignment explanation
Indices: 65669--65706 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
65659 TTTTTAAAAT
65669 TTTCTAAATAAT-TTTACTTA
1 TTTCT-AATAATGTTTACTTA
65689 TTTCTAATAATGTTTACT
1 TTTCTAATAATGTTTACT
65707 AGTTTTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.32, C:0.11, G:0.03, T:0.55
Consensus pattern (20 bp):
TTTCTAATAATGTTTACTTA
Found at i:67795 original size:26 final size:26
Alignment explanation
Indices: 67726--67798 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
67716 CAGAGTAGTA
* * *
67726 CACGACCCTCAAGAAATTAAGATTGC
1 CACGACCCTCAGGAAATTGAGACTGC
67752 CACGACCCTCAGGAAATTGAGACTGC
1 CACGACCCTCAGGAAATTGAGACTGC
* *
67778 CACGACCCTCTGGGAATTGAG
1 CACGACCCTCAGGAAATTGAG
67799 GCTAACAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.18
Consensus pattern (26 bp):
CACGACCCTCAGGAAATTGAGACTGC
Found at i:75784 original size:10 final size:10
Alignment explanation
Indices: 75769--75799 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
75759 AATGAACATT
75769 AAAAAGAAAA
1 AAAAAGAAAA
75779 AAAAAGAAAA
1 AAAAAGAAAA
*
75789 GAAAAGAAAA
1 AAAAAGAAAA
75799 A
1 A
75800 TCAGTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:76352 original size:41 final size:41
Alignment explanation
Indices: 76307--76395 Score: 169
Period size: 41 Copynumber: 2.2 Consensus size: 41
76297 TATTTTAAAA
76307 TTAAATAATTAAAACATAAATTTATTAATAATTTAATTACT
1 TTAAATAATTAAAACATAAATTTATTAATAATTTAATTACT
*
76348 TTAAATAATTGAAACATAAATTTATTAATAATTTAATTACT
1 TTAAATAATTAAAACATAAATTTATTAATAATTTAATTACT
76389 TTAAATA
1 TTAAATA
76396 TAATTTAGGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (41 bp):
TTAAATAATTAAAACATAAATTTATTAATAATTTAATTACT
Found at i:85775 original size:18 final size:18
Alignment explanation
Indices: 85752--85786 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
85742 TCATTGAGAG
85752 CTTATTGGAATATCTTTT
1 CTTATTGGAATATCTTTT
**
85770 CTTATTGTCATATCTTT
1 CTTATTGGAATATCTTT
85787 ATTTTTAGAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.14, G:0.09, T:0.57
Consensus pattern (18 bp):
CTTATTGGAATATCTTTT
Found at i:90773 original size:31 final size:30
Alignment explanation
Indices: 90738--90803 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
90728 AGACAAAAAA
*
90738 AAATTCAAGTATCAAATTGAACATTGAAACC
1 AAATTCAA-TATCAAATTAAACATTGAAACC
* * *
90769 AAATTTCTATATCAAATTAAACATTTAAGCC
1 AAA-TTCAATATCAAATTAAACATTGAAACC
90800 AAAT
1 AAAT
90804 GAATGTGCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
30 1 0.03
31 25 0.83
32 4 0.13
ACGTcount: A:0.48, C:0.15, G:0.06, T:0.30
Consensus pattern (30 bp):
AAATTCAATATCAAATTAAACATTGAAACC
Found at i:93329 original size:28 final size:28
Alignment explanation
Indices: 93296--93366 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
93286 TAATTTTTTA
* * * *
93296 GAAATTTAATTATTGATTAATTTAATTT
1 GAAATTAAATAATTAATTAAATTAATTT
93324 GAAATTAAATAATTAATTAAATTAA-TT
1 GAAATTAAATAATTAATTAAATTAATTT
93351 -AAACTT-AATAATTAAT
1 GAAA-TTAAATAATTAAT
93367 AATATAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 13 0.34
27 4 0.11
28 21 0.55
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (28 bp):
GAAATTAAATAATTAATTAAATTAATTT
Found at i:98724 original size:22 final size:21
Alignment explanation
Indices: 98693--98733 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
98683 TCACTTCCCA
98693 GCCTGACTGTGGACCCTTTCT
1 GCCTGACTGTGGACCCTTTCT
*
98714 GCCTGCACTGTGGTCCCTTT
1 GCCTG-ACTGTGGACCCTTT
98734 GTTCCGAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.07, C:0.34, G:0.24, T:0.34
Consensus pattern (21 bp):
GCCTGACTGTGGACCCTTTCT
Found at i:106795 original size:15 final size:15
Alignment explanation
Indices: 106775--106813 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
106765 GCACATCAAA
*
106775 CAAGAATTAATATAT
1 CAAGAATTAATAAAT
*
106790 CAAGAA-TACTAAAT
1 CAAGAATTAATAAAT
106804 CAAGAATTAA
1 CAAGAATTAA
106814 GCACACATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.26
Consensus pattern (15 bp):
CAAGAATTAATAAAT
Found at i:107246 original size:25 final size:25
Alignment explanation
Indices: 107193--107239 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
107183 GTTGGATCCA
107193 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAATTCTAAAAAGATAATTTG
*
107218 AATTAAA-TCTAAACA-ATAATTT
1 AATTAAATTCTAAAAAGATAATTT
107240 CCTAATTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 7 0.33
25 7 0.33
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.36
Consensus pattern (25 bp):
AATTAAATTCTAAAAAGATAATTTG
Found at i:107325 original size:13 final size:13
Alignment explanation
Indices: 107304--107364 Score: 61
Period size: 13 Copynumber: 4.6 Consensus size: 13
107294 ACAATATAAT
107304 AATAATAATCCTA
1 AATAATAATCCTA
* *
107317 AATATTAAT-ATAA
1 AATAATAATCCT-A
107330 TAATAATAATCCTA
1 -AATAATAATCCTA
*
107344 AATATTAATCCTA
1 AATAATAATCCTA
*
107357 AAAAATAA
1 AATAATAA
107365 AGTTTAAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
12 1 0.03
13 27 0.71
14 9 0.24
15 1 0.03
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (13 bp):
AATAATAATCCTA
Found at i:107334 original size:27 final size:27
Alignment explanation
Indices: 107296--107352 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
107286 AAATATAAAC
107296 AATATAATAATAATAATCCTAAATATT
1 AATATAATAATAATAATCCTAAATATT
107323 AATATAATAATAATAATCCTAAATATT
1 AATATAATAATAATAATCCTAAATATT
107350 AAT
1 AAT
107353 CCTAAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (27 bp):
AATATAATAATAATAATCCTAAATATT
Found at i:108333 original size:21 final size:22
Alignment explanation
Indices: 108291--108349 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 22
108281 TTTTATCTTT
108291 TTCTTCTTTTTTTTCTGAATTTTC
1 TTCTTCTTTTTTTTC--AATTTTC
*
108315 TTCTTCTTTTTTTTC-ATTTTT
1 TTCTTCTTTTTTTTCAATTTTC
**
108336 TTCGACTTTTTTTT
1 TTCTTCTTTTTTTT
108350 TCTTTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.53
24 15 0.47
ACGTcount: A:0.07, C:0.15, G:0.03, T:0.75
Consensus pattern (22 bp):
TTCTTCTTTTTTTTCAATTTTC
Found at i:108337 original size:24 final size:23
Alignment explanation
Indices: 108291--108358 Score: 68
Period size: 24 Copynumber: 3.0 Consensus size: 23
108281 TTTTATCTTT
**
108291 TTCTTCTTTTTTTTCTGAATTTTC
1 TTCTTCTTTTTTTTCT-TTTTTTC
108315 TTCTTCTTTTTTTTCATTTTTTTC
1 TTCTTCTTTTTTTTC-TTTTTTTC
**
108339 GAC-T-TTTTTTTTCTTTTTTT
1 TTCTTCTTTTTTTTCTTTTTTT
108359 TAAATAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 7 0.18
22 9 0.23
23 1 0.03
24 21 0.54
25 1 0.03
ACGTcount: A:0.06, C:0.15, G:0.03, T:0.76
Consensus pattern (23 bp):
TTCTTCTTTTTTTTCTTTTTTTC
Found at i:109366 original size:8 final size:8
Alignment explanation
Indices: 109318--109367 Score: 50
Period size: 8 Copynumber: 6.1 Consensus size: 8
109308 ATAAATATAC
109318 TAATTTTT
1 TAATTTTT
109326 T--TTTTT
1 TAATTTTT
109332 TGAATTTTT
1 T-AATTTTT
*
109341 CAATTTTT
1 TAATTTTT
109349 TAATAATTTT
1 TAAT--TTTT
109359 TAATTTTT
1 TAATTTTT
109367 T
1 T
109368 TTCAATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
6 6 0.17
8 16 0.46
9 5 0.14
10 8 0.23
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (8 bp):
TAATTTTT
Found at i:109374 original size:18 final size:18
Alignment explanation
Indices: 109325--109377 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 18
109315 TACTAATTTT
109325 TTTTTTTTGAATTTTTCAA
1 TTTTTTTT-AATTTTTCAA
*
109344 TTTTTTAATAATTTTT-AA
1 TTTTTT-TTAATTTTTCAA
109362 TTTTTTTTCAATTTTT
1 TTTTTTTT-AATTTTT
109378 TAAAGACTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 1 0.03
18 15 0.50
19 13 0.43
20 1 0.03
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTTTTTTAATTTTTCAA
Found at i:109378 original size:19 final size:18
Alignment explanation
Indices: 109325--109380 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
109315 TACTAATTTT
*
109325 TTTTTTTTGAATTTTTCAA
1 TTTTTTTT-AATTTTTTAA
*
109344 TTTTTTAATAA-TTTTTAA
1 TTTTTT-TTAATTTTTTAA
109362 TTTTTTTTCAATTTTTTAA
1 TTTTTTTT-AATTTTTTAA
109381 AGACTTGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 1 0.03
18 14 0.45
19 15 0.48
20 1 0.03
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTTTTTAATTTTTTAA
Found at i:119530 original size:21 final size:21
Alignment explanation
Indices: 119491--119550 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
119481 ACAAATTTAA
*
119491 ATTCAATTC-AATCAGTTTTGT
1 ATTCAATTCAAATGA-TTTTGT
*
119512 ATTCAATTCAAATGATTTTTT
1 ATTCAATTCAAATGATTTTGT
*
119533 A-TCAATTTAATATGATTT
1 ATTCAATTCAA-ATGATTT
119551 GTGTCGATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.24
21 22 0.65
22 4 0.12
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (21 bp):
ATTCAATTCAAATGATTTTGT
Found at i:132199 original size:110 final size:111
Alignment explanation
Indices: 132060--132271 Score: 327
Period size: 110 Copynumber: 1.9 Consensus size: 111
132050 AATGAAATTT
* ** *
132060 CATGACAGCATAAGTCCAAGGCAACTAATCGGTATACAGAAATGGGGTTTCAAGGATGCAACGAT
1 CATGACAGCATAAGTCCAAGGCAACTAATCAGTATACAGAAATGGGGTTTCAACAATGAAACGAT
*
132125 GATTCCCAATGG-AAAAATCAACAAACGGAAATAAATTAGCCATTG
66 AATTCCCAATGGAAAAAATCAACAAACGGAAATAAATTAGCCATTG
* *
132170 CATGACGGCATACGTCCAAGGCAACTAATCAGTATACAGAAATGGGGTTTCAACAATGAAACGAT
1 CATGACAGCATAAGTCCAAGGCAACTAATCAGTATACAGAAATGGGGTTTCAACAATGAAACGAT
** *
132235 AATTCCTTATGGAAAAAATCAACAAATGGAAATAAAT
66 AATTCCCAATGGAAAAAATCAACAAACGGAAATAAAT
132272 AAGCAATCCA
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
110 68 0.75
111 23 0.25
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.21
Consensus pattern (111 bp):
CATGACAGCATAAGTCCAAGGCAACTAATCAGTATACAGAAATGGGGTTTCAACAATGAAACGAT
AATTCCCAATGGAAAAAATCAACAAACGGAAATAAATTAGCCATTG
Found at i:132372 original size:94 final size:94
Alignment explanation
Indices: 132184--132372 Score: 247
Period size: 95 Copynumber: 2.0 Consensus size: 94
132174 ACGGCATACG
* **
132184 TCCAAGGCAACTAATCAGTATACAGAAATGGGGTTTCAACAATGAAACGATAATTCCTTATGGAA
1 TCCAAGGCAACTAATCAGTATACAGAAATGGGGTTTCAACAATGAAACAATAATTCCCAATGGAA
* *
132249 AAAATCAACAAATGGAAATAAATAAGCAA
66 AAAATCAACAAATCGAAATAAACAAGCAA
** * * *
132278 TCCAAGGCAAACTAATTGGTATA-TGTAAATGGGGTTTCAAGAATGAAACAATGATTCCCAATGG
1 TCCAAGGC-AACTAATCAGTATACAG-AAATGGGGTTTCAACAATGAAACAATAATTCCCAATGG
*
132342 -AAAAATCAACATATCGAAATAAACAAGCAA
64 AAAAAATCAACAAATCGAAATAAACAAGCAA
132372 T
1 T
132373 TGCAAGACAC
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
94 37 0.45
95 45 0.55
ACGTcount: A:0.47, C:0.15, G:0.16, T:0.22
Consensus pattern (94 bp):
TCCAAGGCAACTAATCAGTATACAGAAATGGGGTTTCAACAATGAAACAATAATTCCCAATGGAA
AAAATCAACAAATCGAAATAAACAAGCAA
Found at i:135194 original size:17 final size:17
Alignment explanation
Indices: 135167--135223 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
135157 GTGAACTACA
*
135167 AGCTCATCAAGTGTGCG
1 AGCTCACCAAGTGTGCG
* ** **
135184 AGCTTACCAAGACTGTA
1 AGCTCACCAAGTGTGCG
135201 AGCTCACCAAGTGTGCG
1 AGCTCACCAAGTGTGCG
135218 AGCTCA
1 AGCTCA
135224 TTAAAATTAG
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (17 bp):
AGCTCACCAAGTGTGCG
Found at i:136787 original size:360 final size:357
Alignment explanation
Indices: 136269--137061 Score: 920
Period size: 381 Copynumber: 2.2 Consensus size: 357
136259 TATTGTTTTG
* * ** *
136269 AAAAACATTATCGTTAATAATATTAATTCAATGTGTAGAAATTGAGTTTTGTGTACATTTTAGAA
1 AAAAAAATTATCGTTAATAATACTAATTCAACATGTAGAAATTGAGTTTTGTGTGCATTTTAGAA
*
136334 GAATATTTTTTATGCAATATTAGATTTGTAGGAACTAAAATTGTTGTAAATAATACTAATCTAGT
66 GAATATTTTTTATGCAAGATTAGATTTGTAGGAACTAAAATTGTTGTAAATAATACTAATCTAGT
* * * *
136399 GTGTAGAAATTGAGTGCATATATGTTATTGTGTTATAGTTGCAATTTTTTTAATTTGTGA-G-TT
131 GTATACAAATTGAGTGCATAGATGTTATTGTGATATAGTTGCAATTTTTTTAATTTGTGATGATT
*
136462 TTAAAAGAA-TTTTTTTATTATGTGCAGGA-TAGATTTGTGGGAACTAAAATTGTTGTAAATAGC
196 TTAAAAGAATTTTTTTTATTATGTGCA-AATTAGATTTGTGGGAACTAAAATTGTTGTAAATA-C
* * * **
136525 T-TTGACTTTAAGGGAGCGGTAGCTAAAA-CTCTTGTCAAACACTTGTTTCGCCCCAATTCAAAC
259 TCTTGACTTAAAGGGAGAGGTAGCTAAAATC-CTTGTCAAACACCTGTTTCGCAACAATTCAAAC
*
136588 CATGTTATCCTTATCCCTTACCCCTAATTAATG-A-
323 CATGTTATCCATATCCCTTACCCCTAA-TAATGTAT
* *
136622 AAAAAAATTATCGTTAATAATACTAATTCAACATATAGAAATTGAGATTTGTGTGCATTTTAGAA
1 AAAAAAATTATCGTTAATAATACTAATTCAACATGTAGAAATTGAGTTTTGTGTGCATTTTAGAA
* **
136687 GGATATTTTTTTAATTATGTGCGGGATTAGATTTGTAGGAACTAAAATTGTTGTAAATAATACTA
66 -GA-A-TATTTT--TTA--TGCAAGATTAGATTTGTAGGAACTAAAATTGTTGTAAATAATACTA
* * *
136752 ATCTAGTGTATACAAATTGGGTGCATAGGTGTTATTGTGATATAGTTGCAATTTTTTTTATTTGT
124 ATCTAGTGTATACAAATTGAGTGCATAGATGTTATTGTGATATAGTTGCAATTTTTTTAATTTGT
136817 GAGTTCGAACCTCTCAACCAACATTTTAAAAGAATTTTTTTTATTATGTGCAAATTAGATTTGTG
189 GA--T-G---------------ATTTTAAAAGAATTTTTTTTATTATGTGCAAATTAGATTTGTG
* * *
136882 GGAACTAAAATTGTTGTAAATACTCTTGACTTAAATGGAGAGGTGGCTAAAATCCTTGTTAAACA
236 GGAACTAAAATTGTTGTAAATACTCTTGACTTAAAGGGAGAGGTAGCTAAAATCCTTGTCAAACA
* * * * * * *
136947 CCTGTTTCGCAAGAGTTCGAATCATGTTATCCATATCTCTTATCCCTAATATTGTATT
301 CCTGTTTCGCAACAATTCAAACCATGTTATCCATATCCCTTACCCCTAATAATGTA-T
* *
137005 AAAAAAA-TATAGTTAATAATACTAATTCAACATGTAGAAATTGGGTTTTGTGTGCAT
1 AAAAAAATTATCGTTAATAATACTAATTCAACATGTAGAAATTGAGTTTTGTGTGCAT
137062 AGATGTTATT
Statistics
Matches: 367, Mismatches: 39, Indels: 39
0.82 0.09 0.09
Matches are distributed among these distances:
353 58 0.16
354 2 0.01
355 1 0.00
356 5 0.01
358 3 0.01
360 103 0.28
364 1 0.00
380 18 0.05
381 122 0.33
382 47 0.13
383 7 0.02
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.39
Consensus pattern (357 bp):
AAAAAAATTATCGTTAATAATACTAATTCAACATGTAGAAATTGAGTTTTGTGTGCATTTTAGAA
GAATATTTTTTATGCAAGATTAGATTTGTAGGAACTAAAATTGTTGTAAATAATACTAATCTAGT
GTATACAAATTGAGTGCATAGATGTTATTGTGATATAGTTGCAATTTTTTTAATTTGTGATGATT
TTAAAAGAATTTTTTTTATTATGTGCAAATTAGATTTGTGGGAACTAAAATTGTTGTAAATACTC
TTGACTTAAAGGGAGAGGTAGCTAAAATCCTTGTCAAACACCTGTTTCGCAACAATTCAAACCAT
GTTATCCATATCCCTTACCCCTAATAATGTAT
Found at i:144253 original size:7 final size:7
Alignment explanation
Indices: 144243--144287 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
144233 AGGATTCAAA
144243 GTTCGAG
1 GTTCGAG
144250 GTTCGAG
1 GTTCGAG
144257 GTTCGAG
1 GTTCGAG
* **
144264 ATTTAAG
1 GTTCGAG
*
144271 TTTCGAG
1 GTTCGAG
144278 GTTCGAG
1 GTTCGAG
144285 GTT
1 GTT
144288 AGAGATTCAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.18, C:0.11, G:0.36, T:0.36
Consensus pattern (7 bp):
GTTCGAG
Found at i:148763 original size:24 final size:23
Alignment explanation
Indices: 148718--148764 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
148708 CGTTAAAAAT
* *
148718 TTTAAAATTATATTATTTATTTA
1 TTTAAAATTACATTATTCATTTA
*
148741 TTTAAAATTACATGTGTTCATTTA
1 TTTAAAATTACAT-TATTCATTTA
148765 CGTTCATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (23 bp):
TTTAAAATTACATTATTCATTTA
Found at i:150793 original size:57 final size:57
Alignment explanation
Indices: 150724--150838 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
150714 AACCTTAAAA
*
150724 TATTTTATAATTAGTTGAGAAAAATGGTAACTCGATTATTTAATTTTATTTTTTTAG
1 TATTTTATAATTAGATGAGAAAAATGGTAACTCGATTATTTAATTTTATTTTTTTAG
150781 TATTTTATAATTAGATGAGAAAAATGGTAACTCGATTATTTAATTTTATTTTTTTAG
1 TATTTTATAATTAGATGAGAAAAATGGTAACTCGATTATTTAATTTTATTTTTTTAG
150838 T
1 T
150839 CACTCAATTG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.50
Consensus pattern (57 bp):
TATTTTATAATTAGATGAGAAAAATGGTAACTCGATTATTTAATTTTATTTTTTTAG
Found at i:163735 original size:16 final size:16
Alignment explanation
Indices: 163714--163747 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
163704 CAAACGAACA
163714 CGGTCAAAAGTTTATT
1 CGGTCAAAAGTTTATT
163730 CGGTCAAAAGTTTATT
1 CGGTCAAAAGTTTATT
163746 CG
1 CG
163748 TTTACAGCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (16 bp):
CGGTCAAAAGTTTATT
Found at i:163892 original size:23 final size:23
Alignment explanation
Indices: 163865--163923 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
163855 AATGACTAAC
163865 CATTTTCTATTGCAAGTAATGAT
1 CATTTTCTATTGCAAGTAATGAT
163888 CATTTTCTATTGCAAGTAATGAT
1 CATTTTCTATTGCAAGTAATGAT
163911 CATTTTC-ATTGCA
1 CATTTTCTATTGCA
163924 GAAGATACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 6 0.17
23 30 0.83
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (23 bp):
CATTTTCTATTGCAAGTAATGAT
Found at i:175494 original size:75 final size:75
Alignment explanation
Indices: 175371--175515 Score: 263
Period size: 75 Copynumber: 1.9 Consensus size: 75
175361 AGAGCTATAC
* *
175371 TAGGTATTTGGGGGTTATGCTCGATGTTTCAGGCGGAGGTCTGGGCGGTGACCATATTTCTATAC
1 TAGGTATTTGGGGGTTATGCTCGATGTTTCAGGCGAAGGCCTGGGCGGTGACCATATTTCTATAC
175436 TTTGCTAAAT
66 TTTGCTAAAT
*
175446 TAGGTATTTGGGGGTTATGCTCGATGTTTCAGGCGAAGGCCTGGGCGGTGACCTTATTTCTATAC
1 TAGGTATTTGGGGGTTATGCTCGATGTTTCAGGCGAAGGCCTGGGCGGTGACCATATTTCTATAC
175511 TTTGC
66 TTTGC
175516 CAACGAATGG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.17, C:0.16, G:0.31, T:0.36
Consensus pattern (75 bp):
TAGGTATTTGGGGGTTATGCTCGATGTTTCAGGCGAAGGCCTGGGCGGTGACCATATTTCTATAC
TTTGCTAAAT
Found at i:180052 original size:27 final size:28
Alignment explanation
Indices: 180008--180065 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
179998 AAAGAATATA
* * *
180008 AACTATTAAAATGATAAATTTTCATTTC
1 AACTATAAAAATGATAAAATTTAATTTC
*
180036 AACTATAAAAAT-TTAAAATTTAATTTC
1 AACTATAAAAATGATAAAATTTAATTTC
180063 AAC
1 AAC
180066 CCAAAAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.40
Consensus pattern (28 bp):
AACTATAAAAATGATAAAATTTAATTTC
Found at i:186985 original size:21 final size:20
Alignment explanation
Indices: 186961--187001 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
186951 ATTAAATCAA
186961 TTAAAAAATTAATTAATTTTT
1 TTAAAAAATTAA-TAATTTTT
**
186982 TTAAAATTTTAATAATTTTT
1 TTAAAAAATTAATAATTTTT
187002 AACCAAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTAAAAAATTAATAATTTTT
Found at i:194078 original size:14 final size:15
Alignment explanation
Indices: 194059--194097 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
194049 TTGTTTCAAG
194059 TTTTAGATTTTC-GA
1 TTTTAGATTTTCAGA
*
194073 TTTTAG-TTTTCAGG
1 TTTTAGATTTTCAGA
194087 TTTTAGATTTT
1 TTTTAGATTTT
194098 AAAATTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 5 0.23
14 13 0.59
15 4 0.18
ACGTcount: A:0.18, C:0.05, G:0.15, T:0.62
Consensus pattern (15 bp):
TTTTAGATTTTCAGA
Found at i:201635 original size:31 final size:31
Alignment explanation
Indices: 201592--201650 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
201582 AAATATCGTT
* *
201592 AATTATTCTCATATTGGGTTCTGAACTTGAC
1 AATTATTCTCATATTGGGGTCTAAACTTGAC
*
201623 AATTATTTTCATATTGGGGTCTAAACTT
1 AATTATTCTCATATTGGGGTCTAAACTT
201651 TAGGGTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (31 bp):
AATTATTCTCATATTGGGGTCTAAACTTGAC
Found at i:201812 original size:60 final size:59
Alignment explanation
Indices: 201674--201814 Score: 149
Period size: 59 Copynumber: 2.4 Consensus size: 59
201664 GAAATATTAG
* * *
201674 GGATTAACTTTGACAAAAAAAGGTTAAGGTTCCAAAGTGGGAACAATTATCAAGTCCAT
1 GGATTAACTTTGACAAAAAAAAGTTAAGGTCCCAAAGTGGGAACAATTATCAAGTCCAA
* * * * * * * * *
201733 GAATTAACTTGGACAAAAAAAAGTTCATGTCCCAACGTTGGAATAATT-GCTAAGTTCAA
1 GGATTAACTTTGACAAAAAAAAGTTAAGGTCCCAAAGTGGGAACAATTATC-AAGTCCAA
201792 GGATTAACTTTGACAGAAAAAAA
1 GGATTAACTTTGACA-AAAAAAA
201815 AAAAACTCAA
Statistics
Matches: 66, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
58 1 0.02
59 58 0.88
60 7 0.11
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.26
Consensus pattern (59 bp):
GGATTAACTTTGACAAAAAAAAGTTAAGGTCCCAAAGTGGGAACAATTATCAAGTCCAA
Found at i:207896 original size:22 final size:22
Alignment explanation
Indices: 207854--207896 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
207844 GAATGAATCT
*
207854 TTTTTGAGCTTTTTCTGCATTG
1 TTTTTGAGCTTTTACTGCATTG
*
207876 TTTTTGTA-CTTTTACTTCATT
1 TTTTTG-AGCTTTTACTGCATT
207897 TTCCCTTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.12, C:0.14, G:0.12, T:0.63
Consensus pattern (22 bp):
TTTTTGAGCTTTTACTGCATTG
Found at i:218519 original size:15 final size:15
Alignment explanation
Indices: 218499--218549 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
218489 ATTTAATCGA
218499 TTTAATATATATTAT
1 TTTAATATATATTAT
218514 TTTAAT-TA-ATATAT
1 TTTAATATATAT-TAT
218528 TTATAATATATAATT-T
1 TT-TAATATAT-ATTAT
218544 TTTAAT
1 TTTAAT
218550 TTATTTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.06
14 7 0.23
15 14 0.45
16 5 0.16
17 1 0.03
18 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTAATATATATTAT
Found at i:218561 original size:26 final size:29
Alignment explanation
Indices: 218501--218561 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
218491 TTAATCGATT
218501 TAATATATATTATTTTAATTAATATATTTA
1 TAATATATATTATTTTAATT-ATATATTTA
218531 TAATATATAATT-TTTTAATT-TAT-TTTA
1 TAATATAT-ATTATTTTAATTATATATTTA
218558 -AATA
1 TAATA
218562 AAATAGGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
26 4 0.13
27 4 0.13
28 3 0.10
30 16 0.53
31 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
TAATATATATTATTTTAATTATATATTTA
Found at i:224318 original size:21 final size:21
Alignment explanation
Indices: 224292--224334 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
224282 AATACAAATT
*
224292 AAAGATATTGTAATCATGCGG
1 AAAGATATTGTAATAATGCGG
224313 AAAGATATTGTAATAATGCGG
1 AAAGATATTGTAATAATGCGG
224334 A
1 A
224335 TTGAGTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (21 bp):
AAAGATATTGTAATAATGCGG
Found at i:227533 original size:16 final size:16
Alignment explanation
Indices: 227512--227542 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
227502 AATGTGTGTT
*
227512 TAAAAATAATATATAA
1 TAAAAATAAAATATAA
227528 TAAAAATAAAATATA
1 TAAAAATAAAATATA
227543 TGGTTTAGAA
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAAAATAAAATATAA
Found at i:230183 original size:16 final size:16
Alignment explanation
Indices: 230156--230198 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
230146 AGACTCGAAA
*
230156 AAACCC-AAATAACCT
1 AAACCCAAAATAACAT
*
230171 AAACTCAAAATAACAT
1 AAACCCAAAATAACAT
*
230187 GAACCCAAAATA
1 AAACCCAAAATA
230199 TTCAAAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.58, C:0.26, G:0.02, T:0.14
Consensus pattern (16 bp):
AAACCCAAAATAACAT
Found at i:236497 original size:29 final size:29
Alignment explanation
Indices: 236451--236506 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
236441 TTCTATAAAC
*
236451 ACTTAATTTTAATGATAATTTAAAGAGGG
1 ACTTAATTTTAATAATAATTTAAAGAGGG
236480 ACTTAATTTTAATAATAATTTAAAGAG
1 ACTTAATTTTAATAATAATTTAAAGAG
236507 AGAAAACGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (29 bp):
ACTTAATTTTAATAATAATTTAAAGAGGG
Found at i:239184 original size:15 final size:15
Alignment explanation
Indices: 239164--239197 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
239154 CATTTAAAAA
239164 TTTAAT-TCATCTACT
1 TTTAATCTCATCTA-T
239179 TTTAATCTCATCTAT
1 TTTAATCTCATCTAT
239194 TTTA
1 TTTA
239198 GTATTTGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.26, C:0.18, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTAATCTCATCTAT
Found at i:247735 original size:6 final size:6
Alignment explanation
Indices: 247724--247754 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
247714 TACCAGGCTC
247724 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T
247755 AGTTTTTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:248061 original size:29 final size:29
Alignment explanation
Indices: 248021--248077 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
248011 CAGGGTTAAA
*
248021 TTAATTCCTATATTATTAAATAAATCAAT
1 TTAATTCCTATATTATTAAAAAAATCAAT
248050 TTAA-TCCTTATATTATTAAAAAAATCAA
1 TTAATTCC-TATATTATTAAAAAAATCAA
248078 ATAAATCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 3 0.12
29 23 0.88
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (29 bp):
TTAATTCCTATATTATTAAAAAAATCAAT
Found at i:248084 original size:29 final size:29
Alignment explanation
Indices: 248029--248084 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
248019 AATTAATTCC
* * *
248029 TATATTATTAAATAAATCAATTTAATCCT
1 TATATTATTAAAAAAATCAAATAAATCCT
248058 TATATTATTAAAAAAATCAAATAAATC
1 TATATTATTAAAAAAATCAAATAAATC
248085 TAAATTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (29 bp):
TATATTATTAAAAAAATCAAATAAATCCT
Found at i:258464 original size:15 final size:15
Alignment explanation
Indices: 258444--258474 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
258434 AACATATATG
258444 AATAAACAAACCAAT
1 AATAAACAAACCAAT
258459 AATAAACAAACCAAT
1 AATAAACAAACCAAT
258474 A
1 A
258475 CGTGTGTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.19, G:0.00, T:0.13
Consensus pattern (15 bp):
AATAAACAAACCAAT
Found at i:261059 original size:21 final size:21
Alignment explanation
Indices: 261035--261097 Score: 117
Period size: 21 Copynumber: 3.0 Consensus size: 21
261025 ACGATTATTC
261035 CCTCTTTGACGAGATGACATT
1 CCTCTTTGACGAGATGACATT
*
261056 CCTCTTTGACGATATGACATT
1 CCTCTTTGACGAGATGACATT
261077 CCTCTTTGACGAGATGACATT
1 CCTCTTTGACGAGATGACATT
261098 TTTCTGTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (21 bp):
CCTCTTTGACGAGATGACATT
Found at i:261554 original size:51 final size:51
Alignment explanation
Indices: 261499--261653 Score: 130
Period size: 51 Copynumber: 3.2 Consensus size: 51
261489 TTTCACATTA
261499 TATTTTTTTGTTTATTAAAACATATTTACATTTTCAGATGTCATATAATAT
1 TATTTTTTTGTTTATTAAAACATATTTACATTTTCAGATGTCATATAATAT
* * * * * * *
261550 TATTTTTTAAG-ATAATAAAA-A-A---ACA-TTTCAAAT-T-ATTTCACAT
1 TATTTTTT-TGTTTATTAAAACATATTTACATTTTCAGATGTCATATAATAT
* * *
261593 TATAATTTTTTGTTTATTAAGACATATTTGCATTTTCAGATGTCATATGATAT
1 TAT--TTTTTTGTTTATTAAAACATATTTACATTTTCAGATGTCATATAATAT
261646 TATTTTTT
1 TATTTTTT
261654 AAGATAATAA
Statistics
Matches: 76, Mismatches: 16, Indels: 24
0.66 0.14 0.21
Matches are distributed among these distances:
43 9 0.12
44 2 0.03
45 18 0.24
46 4 0.05
47 1 0.01
49 1 0.01
50 3 0.04
51 27 0.36
52 2 0.03
53 9 0.12
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (51 bp):
TATTTTTTTGTTTATTAAAACATATTTACATTTTCAGATGTCATATAATAT
Found at i:261604 original size:96 final size:96
Alignment explanation
Indices: 261453--261728 Score: 416
Period size: 96 Copynumber: 3.0 Consensus size: 96
261443 TAATTATACT
*
261453 TTATTTTTTAAGATAATAAAAAAACATTTCAAATTATTTCACATTATATTTTTTTGTTTATTAAA
1 TTATTTTTTAAGATAATAAAAAAACATTTCAAATTATTTCACATTATAATTTTTTGTTTATTAAA
*
261518 ACATATTTACATTTTCAGATGTCATATAATA
66 ACATATTTACATTTTCAGATGTCATATGATA
*
261549 TTATTTTTTAAGATAATAAAAAAACATTTCAAATTATTTCACATTATAATTTTTTGTTTATTAAG
1 TTATTTTTTAAGATAATAAAAAAACATTTCAAATTATTTCACATTATAATTTTTTGTTTATTAAA
*
261614 ACATATTTGCATTTTCAGATGTCATATGATA
66 ACATATTTACATTTTCAGATGTCATATGATA
261645 TTATTTTTTAAG---AT------A-A--T-AAATTATTTCACATTATAATTTTTTGTTTATTAAA
1 TTATTTTTTAAGATAATAAAAAAACATTTCAAATTATTTCACATTATAATTTTTTGTTTATTAAA
*
261697 ACATATTTATATTTTCAGATGTCATATGATA
66 ACATATTTACATTTTCAGATGTCATATGATA
261728 T
1 T
261729 ATCATTTTGG
Statistics
Matches: 173, Mismatches: 7, Indels: 13
0.90 0.04 0.07
Matches are distributed among these distances:
83 64 0.37
84 1 0.01
86 1 0.01
87 1 0.01
93 2 0.01
96 104 0.60
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.49
Consensus pattern (96 bp):
TTATTTTTTAAGATAATAAAAAAACATTTCAAATTATTTCACATTATAATTTTTTGTTTATTAAA
ACATATTTACATTTTCAGATGTCATATGATA
Found at i:262590 original size:31 final size:31
Alignment explanation
Indices: 262547--262610 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
262537 AAGATTAAAA
*
262547 AAAAATTATTTTTCCATTAAATTACGTGATT
1 AAAAATTATTTTTCCATAAAATTACGTGATT
* * *
262578 AAAAGTTATTTTTCCGTAAAATTTCGTGATT
1 AAAAATTATTTTTCCATAAAATTACGTGATT
262609 AA
1 AA
262611 TTAATAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (31 bp):
AAAAATTATTTTTCCATAAAATTACGTGATT
Found at i:266111 original size:28 final size:29
Alignment explanation
Indices: 266070--266124 Score: 103
Period size: 28 Copynumber: 1.9 Consensus size: 29
266060 AGACTGAAAC
266070 ACCTCATTCTAATTAAAATAAAATAAATG
1 ACCTCATTCTAATTAAAATAAAATAAATG
266099 ACCT-ATTCTAATTAAAATAAAATAAA
1 ACCTCATTCTAATTAAAATAAAATAAA
266125 AGAAGTCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.31
Consensus pattern (29 bp):
ACCTCATTCTAATTAAAATAAAATAAATG
Found at i:266238 original size:41 final size:41
Alignment explanation
Indices: 266181--266276 Score: 165
Period size: 41 Copynumber: 2.3 Consensus size: 41
266171 GAGTTTTATT
*
266181 TTAACAAGAATTCTAGTTACCCAATTCTAACAATCTCCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
*
266222 TTAACAAGAATTCTAGTCATCCAATTCTAACAATCTCCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
*
266263 TTGACAAGAATTCT
1 TTAACAAGAATTCT
266277 CTACGGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.30
Consensus pattern (41 bp):
TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
Found at i:266287 original size:17 final size:17
Alignment explanation
Indices: 266265--266304 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
266255 TCTCCACCTT
* *
266265 GACAAGAATTCTCTACG
1 GACAAGAACTCTCAACG
266282 GACAAGAACTCTCAACG
1 GACAAGAACTCTCAACG
*
266299 AACAAG
1 GACAAG
266305 TTCTCCACCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.15
Consensus pattern (17 bp):
GACAAGAACTCTCAACG
Found at i:269807 original size:13 final size:13
Alignment explanation
Indices: 269789--269815 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
269779 GGTTAAGATT
269789 TTTTGGCTCAAGC
1 TTTTGGCTCAAGC
269802 TTTTGGCTCAAGC
1 TTTTGGCTCAAGC
269815 T
1 T
269816 CGACTCGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.41
Consensus pattern (13 bp):
TTTTGGCTCAAGC
Found at i:269887 original size:11 final size:11
Alignment explanation
Indices: 269873--269921 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
269863 TTTTGTTGTC
269873 ATTTTACTATT
1 ATTTTACTATT
* *
269884 ATTTTCCTATC
1 ATTTTACTATT
*
269895 ATTTTGCTATT
1 ATTTTACTATT
*
269906 ATATTA-TATT
1 ATTTTACTATT
269916 ATTTTA
1 ATTTTA
269922 TTGTTATTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
10 9 0.29
11 22 0.71
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (11 bp):
ATTTTACTATT
Done.