Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005501.1 Hibiscus syriacus cultivar Beakdansim tig00012666_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: 75469
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:4390 original size:4 final size:4
Alignment explanation
Indices: 4381--4435 Score: 53
Period size: 4 Copynumber: 13.8 Consensus size: 4
4371 AAAAATAATA
*
4381 AAAT AAAT -AAT -AAT -AAT AAAT AAAT AAAT ATAT AATAT AAAT ATAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT A-AAT
4428 ATAAT AAA
1 A-AAT AAA
4436 ATATTTTTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
3 9 0.20
4 24 0.52
5 13 0.28
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (4 bp):
AAAT
Found at i:4405 original size:21 final size:21
Alignment explanation
Indices: 4381--4438 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 21
4371 AAAAATAATA
4381 AAATAAATAATAATAATAAAT
1 AAATAAATAATAATAATAAAT
4402 AAATAAATATATAAT-ATAAAT
1 AAATAAATA-ATAATAATAAAT
4423 ATAATATAATAA-AATA
1 A-AATA-AATAATAATA
4439 TTTTTGTAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
21 19 0.58
22 10 0.30
23 4 0.12
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATAAATAATAATAATAAAT
Found at i:4439 original size:21 final size:21
Alignment explanation
Indices: 4372--4439 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
4362 GGGGCCTACA
4372 AAAATAATAAA-ATAA-ATAAT
1 AAAAT-ATAAATATAATATAAT
*
4392 AATA-ATAAATA-AATA-AAT
1 AAAATATAAATATAATATAAT
4410 ATATAATATAAATATAATATAAT
1 A-A-AATATAAATATAATATAAT
4433 AAAATAT
1 AAAATAT
4440 TTTTGTAGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
18 11 0.28
19 3 0.08
20 4 0.10
21 12 0.31
22 5 0.13
23 4 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAATATAAATATAATATAAT
Found at i:8212 original size:19 final size:19
Alignment explanation
Indices: 8168--8212 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
8158 ATTTGTTTTT
8168 AATAAATTTTTATCTATAA
1 AATAAATTTTTATCTATAA
* *
8187 AATTAAATTTTTATTTTTAA
1 AA-TAAATTTTTATCTATAA
8207 AATAAA
1 AATAAA
8213 AGATTAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
AATAAATTTTTATCTATAA
Found at i:19841 original size:28 final size:27
Alignment explanation
Indices: 19781--19835 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
19771 AAAGTTATAT
*
19781 ACTTAAAAAACCCACAAAATTTTGAAA
1 ACTTAAAAAAACCACAAAATTTTGAAA
*
19808 ACTTAAAAAAACCTC-AAATCTTTGAAA
1 ACTTAAAAAAACCACAAAAT-TTTGAAA
19835 A
1 A
19836 TTTTAATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.55, C:0.18, G:0.04, T:0.24
Consensus pattern (27 bp):
ACTTAAAAAAACCACAAAATTTTGAAA
Found at i:27744 original size:23 final size:23
Alignment explanation
Indices: 27699--27744 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
27689 ACATTTTATA
*
27699 TGGCACTTCGGTACAATTCTACG
1 TGGCACTTCGGTACAATTATACG
* *
27722 TGGCACTTCGGTGCATTTATACG
1 TGGCACTTCGGTACAATTATACG
27745 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (23 bp):
TGGCACTTCGGTACAATTATACG
Found at i:28594 original size:21 final size:21
Alignment explanation
Indices: 28530--28587 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
28520 TGCTGAAATT
28530 ACTGTAGCAGTGCATCAGTAC
1 ACTGTAGCAGTGCATCAGTAC
*
28551 ACTGTAGCAGTGCAGCAGTAC
1 ACTGTAGCAGTGCATCAGTAC
28572 ACTGTAGCAGTGCATC
1 ACTGTAGCAGTGCATC
28588 GATACACATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (21 bp):
ACTGTAGCAGTGCATCAGTAC
Found at i:37475 original size:129 final size:129
Alignment explanation
Indices: 37245--37486 Score: 306
Period size: 129 Copynumber: 1.9 Consensus size: 129
37235 AAAAGGTAAA
* *
37245 ATTGAAAAAACAATGAAATATTGAGGACTGATTTTCTATTATACCTAGAGAATATAAAGAATAAA
1 ATTGAAAAAACAATGAAACATTGAGGACTCATTTTCTATTATACCTAGAGAATATAAAGAATAAA
* * * ** *
37310 AATGGCTTATCAGAAAATTTTTGACATATTGAGGTTGAAATTGTAAAAAGAAAATAAGGGCCCG
66 AAAGACTCATCAGAAAATTTTCAACATAATGAGGTTGAAATTGTAAAAAGAAAATAAGGGCCCG
* * ** * *
37374 ATTGAAATATCAATGAAACA-TGAGGACTCATTTTTCTATTATTTCTTGGGAATATAAAGAATAA
1 ATTGAAAAAACAATGAAACATTGAGGACTCA-TTTTCTATTATACCTAGAGAATATAAAGAATAA
** **
37438 AAAAGACTCATTTGAAAATTTTCAACATAATGAGGTTGTCATTGTAAAA
65 AAAAGACTCATCAGAAAATTTTCAACATAATGAGGTTGAAATTGTAAAA
37487 TATAAGGTGA
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
128 9 0.10
129 85 0.90
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.31
Consensus pattern (129 bp):
ATTGAAAAAACAATGAAACATTGAGGACTCATTTTCTATTATACCTAGAGAATATAAAGAATAAA
AAAGACTCATCAGAAAATTTTCAACATAATGAGGTTGAAATTGTAAAAAGAAAATAAGGGCCCG
Found at i:38342 original size:2 final size:2
Alignment explanation
Indices: 38337--38364 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
38327 ACTCACACAC
38337 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
38365 TAATAAAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39362 original size:3 final size:3
Alignment explanation
Indices: 39347--39447 Score: 114
Period size: 3 Copynumber: 32.7 Consensus size: 3
39337 TTCATTTAAA
*
39347 TAT TAT T-T ATAT TAT TAT TAT TAT TATT TAT AAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * *
39393 AAT TAT TAT TAT TAA TAT TAT TATT TAT TAT TAA TAT TAT TAT TAAA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T-AT
39440 TAT TAT TA
1 TAT TAT TA
39448 CAAGCCCAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
2 1 0.01
3 73 0.88
4 9 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:44880 original size:15 final size:15
Alignment explanation
Indices: 44860--44891 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
44850 ATCAATACCT
44860 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
44875 TTTTGCATACATTCA
1 TTTTGCATACATGCA
44890 TT
1 TT
44892 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:52317 original size:6 final size:6
Alignment explanation
Indices: 52306--52349 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
52296 ATGCTTGAAG
*
52306 AGAAAA AGAAAA GGAAAA A-AAAA GAGAAAA AGAAAAA AGAAAA A
1 AGAAAA AGAAAA AGAAAA AGAAAA -AGAAAA AG-AAAA AGAAAA A
52350 AAGAGAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 4 0.12
6 19 0.58
7 10 0.30
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:52332 original size:24 final size:23
Alignment explanation
Indices: 52303--52371 Score: 97
Period size: 23 Copynumber: 3.0 Consensus size: 23
52293 ATTATGCTTG
52303 AAGAGAAAAAGAAAAGGAAAAAAA
1 AAGAGAAAAAGAAAA-GAAAAAAA
52327 AAGAGAAAAAGAAAA-AAGAAAAA
1 AAGAGAAAAAGAAAAGAA-AAAAA
*
52350 AAGAGAAAAA-AGAAGAAAAAAA
1 AAGAGAAAAAGAAAAGAAAAAAA
52372 GGGGGTCAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
22 10 0.24
23 17 0.40
24 15 0.36
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (23 bp):
AAGAGAAAAAGAAAAGAAAAAAA
Found at i:52335 original size:10 final size:10
Alignment explanation
Indices: 52322--52372 Score: 50
Period size: 11 Copynumber: 4.8 Consensus size: 10
52312 AGAAAAGGAA
52322 AAAAAAAGAG
1 AAAAAAAGAG
*
52332 AAAAAGAAAAAAG
1 --AAA-AAAAGAG
52345 AAAAAAAGAG
1 AAAAAAAGAG
52355 -AAAAAAGAAG
1 AAAAAAAG-AG
52365 AAAAAAAG
1 AAAAAAAG
52373 GGGGTCAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
9 7 0.21
10 8 0.24
11 10 0.29
12 3 0.09
13 6 0.18
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:52336 original size:13 final size:13
Alignment explanation
Indices: 52303--52351 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
52293 ATTATGCTTG
*
52303 AAGAGAAAAAGAA
1 AAGAGAAAAAAAA
52316 AAG-G-AAAAAAA
1 AAGAGAAAAAAAA
52327 AAGAGAAAAAGAAA
1 AAGAGAAAAA-AAA
52341 AA-AGAAAAAAA
1 AAGAGAAAAAAA
52352 GAGAAAAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
11 9 0.28
12 4 0.12
13 14 0.44
14 5 0.16
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAGAGAAAAAAAA
Found at i:52341 original size:17 final size:16
Alignment explanation
Indices: 52306--52369 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 16
52296 ATGCTTGAAG
52306 AGAAAAAGAAAAGGAAA-
1 AGAAAAAGAAAA--AAAG
*
52323 A-AAAAAGAGAAAAAG
1 AGAAAAAGAAAAAAAG
52338 A-AAAAAGAAAAAAAG
1 AGAAAAAGAAAAAAAG
52353 AGAAAAAAGAAGAAAAA
1 AG-AAAAAGAA-AAAAA
52370 AAGGGGGTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.07
15 15 0.37
16 9 0.22
17 9 0.22
18 5 0.12
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AGAAAAAGAAAAAAAG
Found at i:53793 original size:115 final size:115
Alignment explanation
Indices: 53484--53914 Score: 792
Period size: 115 Copynumber: 3.7 Consensus size: 115
53474 GAATGTGCTC
53484 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
*
53549 TCATTGGATTTGAAAGATGAATTTGCTTATAGTAGAAATAAGGGAGACTCA
66 TCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAA-GGAGACTCA
53600 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
53665 TCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
66 TCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
53715 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
53780 TCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
66 TCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
* * *
53830 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA-GGAACTACATAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
* *
53894 TCATTGGAATTAAAAGATGAA
66 TCATTGGATTTGAAAGATGAA
53915 CTGCATGATC
Statistics
Matches: 309, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
114 32 0.10
115 172 0.56
116 105 0.34
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (115 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
TCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
Found at i:54839 original size:113 final size:113
Alignment explanation
Indices: 54635--54881 Score: 449
Period size: 113 Copynumber: 2.2 Consensus size: 113
54625 AGTGTCAGTT
*
54635 AAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATATGAAGAAGAAAGAAGAAATTCATAATGAGAAGAATTTGTT
*
54700 CAACCTTTTGCTCAAATCCATTACTTGATGGATTAGCTTTGCCAGAAA
66 CAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAAA
* *
54748 AATTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATATGAAGAAGAAAGAAGAAATTCATAATGAGAAGAATTTGTT
*
54813 CAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCCAGAAA
66 CAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAAA
54861 AAGTTCATAATGAGAAGAACT
1 AAGTTCATAATGAGAAGAACT
54882 TATTCAACTT
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 128 1.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.28
Consensus pattern (113 bp):
AAGTTCATAATGAGAAGAACTCATATGAAGAAGAAAGAAGAAATTCATAATGAGAAGAATTTGTT
CAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTGCCAGAAA
Found at i:54910 original size:72 final size:73
Alignment explanation
Indices: 54783--54953 Score: 292
Period size: 72 Copynumber: 2.4 Consensus size: 73
54773 TGAAGAAGAA
* *
54783 AGAAGAAA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATT
1 AGAA-AAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGATT
*
54847 AGCTTTTCC
65 AGCTTTGCC
54856 AGAAAAAGTTCATAATGAGAAGAACTTATTCAA-CTTTTGCTCAAATCCATCACTTGATGGATTA
1 AGAAAAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGATTA
54920 GCTTTGCC
66 GCTTTGCC
54928 AGAAAAAGTTCATAATGAGAAGAACT
1 AGAAAAAGTTCATAATGAGAAGAACT
54954 CATCTGAAGA
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
72 67 0.71
73 27 0.29
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (73 bp):
AGAAAAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGATTA
GCTTTGCC
Found at i:55016 original size:185 final size:185
Alignment explanation
Indices: 54670--55157 Score: 852
Period size: 185 Copynumber: 2.6 Consensus size: 185
54660 TGAAGAAGGA
* * *
54670 AGAAGAAA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATTACTTGATGGATT
1 AGAA-AAAGTTCATAATGAGAAGAACTTATTCAA-CTTTTGCTCAAATCCATCACTTGATGGATT
* *
54734 AGCTTTGCCAGAAAAATTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAAT
64 AGCTTTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAAT
54799 GAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCC
129 GAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCC
54856 AGAAAAAGTTCATAATGAGAAGAACTTATTCAACTTTTGCTCAAATCCATCACTTGATGGATTAG
1 AGAAAAAGTTCATAATGAGAAGAACTTATTCAACTTTTGCTCAAATCCATCACTTGATGGATTAG
54921 CTTTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGA
66 CTTTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGA
54986 GAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCC
131 GAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCC
*
55041 AGAAAAAGTTCATAATGAGAAGAACTTATTCAACTTTTTGCTCAAATCCATCACTTGATGGATCA
1 AGAAAAAGTTCATAATGAGAAGAACTTATTCAAC-TTTTGCTCAAATCCATCACTTGATGGATTA
* * * *
55106 ACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAA
65 GCTTTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
55158 CTTGTTCAAC
Statistics
Matches: 290, Mismatches: 10, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
185 186 0.64
186 104 0.36
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (185 bp):
AGAAAAAGTTCATAATGAGAAGAACTTATTCAACTTTTGCTCAAATCCATCACTTGATGGATTAG
CTTTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGA
GAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATTAGCTTTTCC
Found at i:55061 original size:113 final size:112
Alignment explanation
Indices: 54856--55066 Score: 370
Period size: 113 Copynumber: 1.9 Consensus size: 112
54846 TAGCTTTTCC
54856 AGAAAAAGTTCATAATGAGAAGAACTTATTCAACTTTTGCTCAAATCCATCACTTGATGGATTAG
1 AGAAAAAGTTCATAATGAGAAGAACTTATTCAACTTTTGCTCAAATCCATCACTTGATGGATTAG
54921 CTTTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
66 CTTTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
54968 AGAAGAAA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATT
1 AGAA-AAAGTTCATAATGAGAAGAACTTATTCAA-CTTTTGCTCAAATCCATCACTTGATGGATT
*
55032 AGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACT
64 AGCTTTGCCAGAAAAAGTTCATAATGAGAAGAACT
55067 TATTCAACTT
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
112 27 0.29
113 67 0.71
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (112 bp):
AGAAAAAGTTCATAATGAGAAGAACTTATTCAACTTTTGCTCAAATCCATCACTTGATGGATTAG
CTTTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
Found at i:55095 original size:73 final size:73
Alignment explanation
Indices: 54968--55139 Score: 274
Period size: 73 Copynumber: 2.4 Consensus size: 73
54958 TGAAGAAGGA
* * *
54968 AGAAGAAA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGGATT
1 AGAA-AAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGATC
*
55032 AGCTTTTCC
65 AACTTTTCC
*
55041 AGAAAAAGTTCATAATGAGAAGAACTTATTCAACTTTTTGCTCAAATCCATCACTTGATGGATCA
1 AGAAAAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
55106 ACTTTTCC
66 ACTTTTCC
*
55114 AGAGAAAGTTCATAATGAGAAGAACT
1 AGAAAAAGTTCATAATGAGAAGAACT
55140 CATCTGAAGA
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
72 3 0.03
73 89 0.97
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (73 bp):
AGAAAAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTCAAATCCATCACTTGATGGATCA
ACTTTTCC
Found at i:55217 original size:93 final size:93
Alignment explanation
Indices: 55058--55250 Score: 271
Period size: 93 Copynumber: 2.1 Consensus size: 93
55048 GTTCATAATG
* *
55058 AGAAGAACTTATTCAACTTTTTGCTCAAATCCATCACTTGATGGATCAACTTTTCCAGAGAAAGT
1 AGAAGAACTTATTCAACTTTTTGCTCAAATCCATCACTTGATGGATCAACATTACCAGAGAAAGT
55123 TCATAATGAGAAGAACTCATCTGAAGAA
66 TCATAATGAGAAGAACTCATCTGAAGAA
* * ** * * * *
55151 AGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAGCATTACCAG-GTCAAG
1 AGAAGAACTTATTCAACTTTTTGCTCAAATCCATCACTTGATGGATCAACATTACCAGAG-AAAG
55215 TTCATAATGAGAAGAACTCATCTGAAGAA
65 TTCATAATGAGAAGAACTCATCTGAAGAA
*
55244 GGAAGAA
1 AGAAGAA
55251 GAAGTTCATA
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
92 1 0.01
93 87 0.99
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (93 bp):
AGAAGAACTTATTCAACTTTTTGCTCAAATCCATCACTTGATGGATCAACATTACCAGAGAAAGT
TCATAATGAGAAGAACTCATCTGAAGAA
Found at i:55424 original size:116 final size:116
Alignment explanation
Indices: 55151--55503 Score: 626
Period size: 116 Copynumber: 3.1 Consensus size: 116
55141 ATCTGAAGAA
* *
55151 AGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAGCATTACCAGGTCA-AG
1 AGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGT-AGAG
55215 TTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATG
65 TTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
55264 AGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGT
1 AGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGT
55329 TCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
66 TCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
* *
55380 AGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGT
1 AGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGT
55445 TCATAATGAGAAGAACTCGTCATCTGAAGAA-GAAGAAGAAGTTCATAATG
66 TCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
55495 AGAAGAACT
1 AGAAGAACT
55504 AATCTGAAGA
Statistics
Matches: 231, Mismatches: 5, Indels: 6
0.95 0.02 0.02
Matches are distributed among these distances:
112 1 0.00
113 76 0.33
115 28 0.12
116 126 0.55
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (116 bp):
AGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGT
TCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
Found at i:55520 original size:39 final size:41
Alignment explanation
Indices: 55442--55521 Score: 128
Period size: 39 Copynumber: 2.0 Consensus size: 41
55432 TGCCAGGTAG
*
55442 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAGA
1 AGTTCATAATGAGAAGAAC-CGTAATCTGAAGAAGAAGAAGA
55484 AGTTCATAATGAGAAGAA-C-TAATCTGAAGAAGAAGAAG
1 AGTTCATAATGAGAAGAACCGTAATCTGAAGAAGAAGAAG
55522 TTCACAATGA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
39 18 0.49
40 1 0.03
42 18 0.49
ACGTcount: A:0.47, C:0.10, G:0.24, T:0.19
Consensus pattern (41 bp):
AGTTCATAATGAGAAGAACCGTAATCTGAAGAAGAAGAAGA
Found at i:55889 original size:3 final size:3
Alignment explanation
Indices: 55776--55880 Score: 140
Period size: 3 Copynumber: 34.7 Consensus size: 3
55766 TTCATTTAAA
*
55776 TAT TAT T-T ATAT TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
55821 AAT TAT TAT TAT TAA TAT TAT TAT TAT TAA TAT TAT TAAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT
*
55867 TAA TAT TAT TAT TA
1 TAT TAT TAT TAT TA
55881 AATATTATTT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
2 1 0.01
3 84 0.94
4 4 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:57410 original size:16 final size:16
Alignment explanation
Indices: 57389--57451 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 16
57379 TAGTTATTTT
57389 ATTATTTTTTAATAAA
1 ATTATTTTTTAATAAA
**
57405 ATTATTATTTTTTTAAA
1 ATTATT-TTTTAATAAA
*
57422 GATTATTTATTTAAT-TA
1 -ATTATTT-TTTAATAAA
57439 ATATATTTTTTAA
1 AT-TATTTTTTAA
57452 AATTATATCC
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 13 0.34
17 15 0.39
18 10 0.26
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
ATTATTTTTTAATAAA
Found at i:57431 original size:19 final size:18
Alignment explanation
Indices: 57387--57433 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 18
57377 ATTAGTTATT
57387 TTATTATTTTTTAATAAAA
1 TTATTATTTTTT-ATAAAA
57406 TTATTATTTTTT-TAAAGA
1 TTATTATTTTTTATAAA-A
57424 TTATTTATTT
1 TTA-TTATTT
57434 AATTAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.15
18 4 0.15
19 18 0.69
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
TTATTATTTTTTATAAAA
Found at i:57439 original size:19 final size:18
Alignment explanation
Indices: 57389--57451 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 18
57379 TAGTTATTTT
57389 ATTATTT-TTTAA-TAAA
1 ATTATTTATTTAATTAAA
**
57405 ATTA-TTATTTTTTTAAA
1 ATTATTTATTTAATTAAA
*
57422 GATTATTTATTTAATTAAT
1 -ATTATTTATTTAATTAAA
57441 A-TATTT-TTTAA
1 ATTATTTATTTAA
57452 AATTATATCC
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
15 2 0.05
16 12 0.32
17 9 0.24
18 5 0.13
19 10 0.26
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
ATTATTTATTTAATTAAA
Found at i:61226 original size:19 final size:19
Alignment explanation
Indices: 61198--61256 Score: 93
Period size: 19 Copynumber: 3.2 Consensus size: 19
61188 AAATCCAGAA
* *
61198 CCCC-AGGGGGTATCGATT
1 CCCCTAGGGGGAATCGGTT
61216 CCCCTAGGGGGAATCGGTT
1 CCCCTAGGGGGAATCGGTT
61235 CCCCTAGGGGGAATCGGTT
1 CCCCTAGGGGGAATCGGTT
61254 CCC
1 CCC
61257 TCGTGAGGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
18 4 0.11
19 34 0.89
ACGTcount: A:0.15, C:0.31, G:0.34, T:0.20
Consensus pattern (19 bp):
CCCCTAGGGGGAATCGGTT
Found at i:67028 original size:19 final size:19
Alignment explanation
Indices: 66988--67067 Score: 142
Period size: 19 Copynumber: 4.2 Consensus size: 19
66978 GGAATCTATA
*
66988 CCCCTAATGGGTAATCGGTT
1 CCCCTAATGGGGAAT-GGTT
67008 CCCCTAATGGGGAATGGTT
1 CCCCTAATGGGGAATGGTT
67027 CCCCTAATGGGGAATGGTT
1 CCCCTAATGGGGAATGGTT
67046 CCCCTAATGGGGAATGGTT
1 CCCCTAATGGGGAATGGTT
67065 CCC
1 CCC
67068 TAGGTGTAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
19 45 0.76
20 14 0.24
ACGTcount: A:0.20, C:0.25, G:0.29, T:0.26
Consensus pattern (19 bp):
CCCCTAATGGGGAATGGTT
Found at i:68254 original size:29 final size:29
Alignment explanation
Indices: 68185--68315 Score: 81
Period size: 29 Copynumber: 4.4 Consensus size: 29
68175 TGAATATATG
* * *
68185 TGTTTTACTAATTTT-GGCACTTTAGTTTC
1 TGTTTTACT-ATTTTAGTCACTTAAGTTTA
*
68214 TGTTATT-TTATTTTAGTCACTTAAGTTTA
1 TGTT-TTACTATTTTAGTCACTTAAGTTTA
*
68243 TGTTTTACTA-TTTATGTC-CTTTAAATTTA
1 TGTTTTACTATTTTA-GTCAC-TTAAGTTTA
* * * **
68272 TATTTTAATTGTTTTAGTCTGTTAAGTTTA
1 TGTTTT-ACTATTTTAGTCACTTAAGTTTA
*
68302 TGTTCTTACCATTT
1 TGTT-TTACTATTT
68316 CTAATCCAAG
Statistics
Matches: 78, Mismatches: 15, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
28 12 0.15
29 38 0.49
30 22 0.28
31 6 0.08
ACGTcount: A:0.21, C:0.10, G:0.11, T:0.58
Consensus pattern (29 bp):
TGTTTTACTATTTTAGTCACTTAAGTTTA
Found at i:69650 original size:27 final size:28
Alignment explanation
Indices: 69599--69651 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
69589 ACCTGTACTA
* *
69599 ACTAATTTCTTTTGTTTTGTTTGTGTAC
1 ACTAACTTCTTTTATTTTGTTTGTGTAC
69627 ACTAACTTC-TTTATTTTGTTTGTGT
1 ACTAACTTCTTTTATTTTGTTTGTGT
69652 CATTTTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.15, C:0.11, G:0.13, T:0.60
Consensus pattern (28 bp):
ACTAACTTCTTTTATTTTGTTTGTGTAC
Found at i:69682 original size:27 final size:27
Alignment explanation
Indices: 69652--69710 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
69642 TTGTTTGTGT
*
69652 CATTTTTCATCTCTATTAGCATCTTTG
1 CATTTTGCATCTCTATTAGCATCTTTG
* **
69679 CATTTTGCATCTGTATTTTCATCTTTG
1 CATTTTGCATCTCTATTAGCATCTTTG
69706 CATTT
1 CATTT
69711 CATTTTAAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.17, C:0.20, G:0.08, T:0.54
Consensus pattern (27 bp):
CATTTTGCATCTCTATTAGCATCTTTG
Found at i:72185 original size:117 final size:117
Alignment explanation
Indices: 71972--72289 Score: 427
Period size: 118 Copynumber: 2.8 Consensus size: 117
71962 AGGGGCTTCC
* *
71972 CAGTTTCATTCAGAGTCAATTTCAACTTCACAAGCGAAGAATATTGGACTCAAGACAACACAAGC
1 CAGTTTCATTCAGAGTCAATTTCAACTTCAC-AGCGAAGGATATTGGACTCGAGACAACACAAGC
* * *
72037 -------TCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTT
65 TTGGATTTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAAAAAATTCT
72083 CAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCT
1 CAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCT
72148 TGGATTTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAAAAAATTCT
66 TGGATTTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAAAAAATTCT
* * * * * * * *
72200 CAGTTTCATTTAAGAGCCAATTTCAATTTCACTGCGAATGATATTGGACTCGAAACAGCAAAAGC
1 CAGTTTCA-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGC
*
72265 TTGGATTTCGACTTCAC-GACGAAGG
65 TTGGATTTCAACTTCACAG-CGAAGG
72290 ATATTCAAGT
Statistics
Matches: 184, Mismatches: 14, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
110 31 0.17
111 31 0.17
117 52 0.28
118 70 0.38
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (117 bp):
CAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCT
TGGATTTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAAAAAATTCT
Found at i:72595 original size:43 final size:42
Alignment explanation
Indices: 72546--72665 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 42
72536 ACGAAGTGGC
**
72546 CATCCACGATTTCAACTCCACGACGGAGGATATCGTACCCATG
1 CATCCACG-TTTCAACTCCACGACGGAGGATATCGTACCCACA
* *
72589 GATCCACGTTTTCAACTCCACGACGGAGGATATCGTGCCCACA
1 CATCCACG-TTTCAACTCCACGACGGAGGATATCGTACCCACA
* * *
72632 CAACCACTGTTTCAACTTCACGACGAAGGATATC
1 CATCCAC-GTTTCAACTCCACGACGGAGGATATC
72666 CAATTCGAGG
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
43 66 0.99
44 1 0.01
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (42 bp):
CATCCACGTTTCAACTCCACGACGGAGGATATCGTACCCACA
Found at i:72830 original size:37 final size:37
Alignment explanation
Indices: 72761--72850 Score: 146
Period size: 37 Copynumber: 2.5 Consensus size: 37
72751 ACTTTGAAAT
*
72761 CAGTTTCCCTTGAAAC-AAGTTTTGTCTCCCTTGAGA
1 CAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGA
72797 CAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGA
1 CAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGA
* *
72834 CGGTTTTCCTTGAAACA
1 CAGTTTCCCTTGAAACA
72851 TAAAATCTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
36 16 0.32
37 34 0.68
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (37 bp):
CAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGA
Found at i:72889 original size:105 final size:102
Alignment explanation
Indices: 72710--72903 Score: 259
Period size: 105 Copynumber: 1.9 Consensus size: 102
72700 TCCACAATTT
*
72710 CAAAATTTATCTCTCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAATCAGTTTCCCTTGAA
1 CAAAATTTATCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAATCAGTTTCCCTTGAA
72775 ACAAGTTTTGTCTCCCTTGAGACAGTTTCCCTTGAAA
66 ACAAGTTTTGTCTCCCTTGAGACAGTTTCCCTTGAAA
* * *
72812 CAAAATTTTGTCTCCCTTGAGACGGTTT-TCCTTGAAACATAAAATCTTTGAGATC-GTTTTCCC
1 CAAAA-TTTATCTCCCTTGAGACAGTTTCT-CTTGAAACAT-AAA-CTTTGAAATCAG-TTTCCC
**
72875 TTGAAAC-AGATTTTGTCTCTTTTGAGACA
61 TTGAAACAAG-TTTTGTCTCCCTTGAGACA
72904 ACTTCTTTTG
Statistics
Matches: 80, Mismatches: 6, Indels: 9
0.84 0.06 0.09
Matches are distributed among these distances:
102 6 0.08
103 29 0.36
104 6 0.08
105 39 0.49
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (102 bp):
CAAAATTTATCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAATCAGTTTCCCTTGAA
ACAAGTTTTGTCTCCCTTGAGACAGTTTCCCTTGAAA
Found at i:73265 original size:3 final size:3
Alignment explanation
Indices: 73239--73328 Score: 92
Period size: 3 Copynumber: 29.7 Consensus size: 3
73229 TTAGAAAAAA
* * * *
73239 TAT TAT TAAA TAT AAT TAT CAT TAT TAT TAA TAT TAT TA- TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
73284 TAA TAT TAT TAT TAT TAG TAG TAT TATT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TA
73329 AACCCTACCA
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
2 2 0.03
3 65 0.90
4 5 0.07
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:73956 original size:145 final size:145
Alignment explanation
Indices: 73621--74031 Score: 459
Period size: 145 Copynumber: 2.8 Consensus size: 145
73611 TCGGATTCTC
* * * * * * *
73621 GCCGGTGATCGGGATCTCCGATCAACATTCCGAACGGTCAAAAGCTGTGCAAGGCCATCACGAAC
1 GCCGGAGATCGGGATCTCCGATCAACATTCTGAACGGTCAAAAGTTGCGCGAGACCAACACGAAC
* * * * *
73686 AACATACTGAAAATTCAGGATGATC-GACGGTGGACAGCGGTGGATCGGTG-AAATAAGTCGAAC
66 AACATACTGAAAATTCAGGACGATCGGACGGTGGACGGCGGCGGATCGGAGAAAATAAGCCGAAC
* *
73749 GGTTTTTGTCCTCTT
131 GATTTTTGGCCTCTT
* * * * * * *
73764 GCCGGAGATCGGGATCTCTGATCAACATT-TCAAACAGTTAAACGTTGCGTGAGACTAACACGAA
1 GCCGGAGATCGGGATCTCCGATCAACATTCT-GAACGGTCAAAAGTTGCGCGAGACCAACACGAA
*
73828 CAACATACTGAAAAATCAGGACGATCGGACGGTGGACGGCGGCGGATCGGAGAAAATAAGCCGAA
65 CAACATACTGAAAATTCAGGACGATCGGACGGTGGACGGCGGCGGATCGGAGAAAATAAGCCGAA
73893 CGATTTTTGGCCTCTT
130 CGATTTTTGGCCTCTT
* * * * * ** *
73909 GCCGGGGATCGGGAACTCCGATCAACATTCTGAATGGTCAAAAGTTGCACGAAACCAGTATGAAC
1 GCCGGAGATCGGGATCTCCGATCAACATTCTGAACGGTCAAAAGTTGCGCGAGACCAACACGAAC
* * * * ** *
73974 AACATACTGAAAATTCAAGACTATCGGACGGTGAACGACTACAGATCGGAGAAAATAA
66 AACATACTGAAAATTCAGGACGATCGGACGGTGGACGGCGGCGGATCGGAGAAAATAA
74032 ATTTGAACAG
Statistics
Matches: 219, Mismatches: 45, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
143 73 0.33
144 22 0.10
145 123 0.56
146 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.20
Consensus pattern (145 bp):
GCCGGAGATCGGGATCTCCGATCAACATTCTGAACGGTCAAAAGTTGCGCGAGACCAACACGAAC
AACATACTGAAAATTCAGGACGATCGGACGGTGGACGGCGGCGGATCGGAGAAAATAAGCCGAAC
GATTTTTGGCCTCTT
Done.