Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003619.1 Hibiscus syriacus cultivar Beakdansim tig00007657_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: 132422
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:10386 original size:16 final size:16
Alignment explanation
Indices: 10365--10396 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10355 GAAGAAGAAG
10365 AAGAAGTCCTTTTTTT
1 AAGAAGTCCTTTTTTT
10381 AAGAAGTCCTTTTTTT
1 AAGAAGTCCTTTTTTT
10397 TGCCTATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (16 bp):
AAGAAGTCCTTTTTTT
Found at i:29238 original size:2 final size:2
Alignment explanation
Indices: 29231--29275 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
29221 CTTTTTAAAT
29231 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
29273 TA T
1 TA T
29276 TTTGTTTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:29670 original size:22 final size:24
Alignment explanation
Indices: 29645--29696 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
29635 ATAAACATTT
29645 TTATTTGTAA-A-T-TGTTTGTTTA
1 TTATTTGTAATAGTATGTTT-TTTA
29667 TTA-TT-TAATAGTATGTTTTTTA
1 TTATTTGTAATAGTATGTTTTTTA
29689 TTATTTGT
1 TTATTTGT
29697 GTTTGTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
20 3 0.12
21 3 0.12
22 11 0.44
23 7 0.28
24 1 0.04
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (24 bp):
TTATTTGTAATAGTATGTTTTTTA
Found at i:30109 original size:20 final size:20
Alignment explanation
Indices: 30084--30121 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30074 AATTTTTTTA
30084 AAATTTATAAAATAATTATT
1 AAATTTATAAAATAATTATT
* *
30104 AAATTTATCAAATTATTA
1 AAATTTATAAAATAATTA
30122 CAAAATAGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATTTATAAAATAATTATT
Found at i:30127 original size:20 final size:20
Alignment explanation
Indices: 30083--30127 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
30073 TAATTTTTTT
*
30083 AAAATTTATAAAATAATTAT
1 AAAATTTATAAAATAATTAC
* * *
30103 TAAATTTATCAAATTATTAC
1 AAAATTTATAAAATAATTAC
30123 AAAAT
1 AAAAT
30128 AGTCACTACG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATTTATAAAATAATTAC
Found at i:31951 original size:23 final size:24
Alignment explanation
Indices: 31912--31964 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
31902 TATTAATTTA
* *
31912 TAAAATGTTAAATTATAAATTAGT
1 TAAAATCTTAAATTATAAATTAAT
*
31936 TAAAATCTTAAA-TATAATTTAAT
1 TAAAATCTTAAATTATAAATTAAT
31959 TAAAAT
1 TAAAAT
31965 ACAATATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (24 bp):
TAAAATCTTAAATTATAAATTAAT
Found at i:34459 original size:31 final size:30
Alignment explanation
Indices: 34444--34525 Score: 128
Period size: 31 Copynumber: 2.7 Consensus size: 30
34434 AAATTGGTAA
34444 AAATTAATAATTATTTTATAATAATTTAAT
1 AAATTAATAATTATTTTATAATAATTTAAT
*
34474 AAATTTAATAATTAATTTATAATAATTTAAT
1 AAA-TTAATAATTATTTTATAATAATTTAAT
* *
34505 AATTTAATGATTATTTTATAA
1 AAATTAATAATTATTTTATAA
34526 CTTTTAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
30 19 0.40
31 28 0.60
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (30 bp):
AAATTAATAATTATTTTATAATAATTTAAT
Found at i:34464 original size:11 final size:11
Alignment explanation
Indices: 34447--34508 Score: 67
Period size: 11 Copynumber: 5.8 Consensus size: 11
34437 TTGGTAAAAA
34447 TTAATAATTAT
1 TTAATAATTAT
* *
34458 TTTATAATAAT
1 TTAATAATTAT
34469 TTAATAA--AT
1 TTAATAATTAT
34478 TTAATAATTAAT
1 TTAATAATT-AT
*
34490 TT-ATAATAAT
1 TTAATAATTAT
34500 TTAATAATT
1 TTAATAATT
34509 TAATGATTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
9 9 0.21
10 4 0.10
11 25 0.60
12 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TTAATAATTAT
Found at i:34475 original size:8 final size:8
Alignment explanation
Indices: 34462--34512 Score: 63
Period size: 8 Copynumber: 6.5 Consensus size: 8
34452 AATTATTTTA
34462 TAATAATT
1 TAATAATT
34470 TAATAAATT
1 TAAT-AATT
34479 TAATAA-T
1 TAATAATT
34486 TAAT--TT
1 TAATAATT
34492 ATAATAATT
1 -TAATAATT
34501 TAATAATT
1 TAATAATT
34509 TAAT
1 TAAT
34513 GATTATTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
6 1 0.03
7 9 0.24
8 18 0.47
9 10 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
TAATAATT
Found at i:34652 original size:17 final size:18
Alignment explanation
Indices: 34620--34653 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34610 TGTTATTATA
34620 TTATGAAAGTAATAACAT
1 TTATGAAAGTAATAACAT
34638 TTATGAAAG-AATAACA
1 TTATGAAAGTAATAACA
34654 AATAACAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (18 bp):
TTATGAAAGTAATAACAT
Found at i:43556 original size:22 final size:22
Alignment explanation
Indices: 43531--43572 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
43521 TACCTTAACT
43531 AACTATTGAATAGTTTAATTCA
1 AACTATTGAATAGTTTAATTCA
*
43553 AACTTTTGAATAGTTTAATT
1 AACTATTGAATAGTTTAATT
43573 TCATTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (22 bp):
AACTATTGAATAGTTTAATTCA
Found at i:46188 original size:24 final size:24
Alignment explanation
Indices: 46161--46244 Score: 125
Period size: 24 Copynumber: 3.5 Consensus size: 24
46151 CATCTGTTCG
46161 AACATAAATGAATGAAAATAAATA
1 AACATAAATGAATGAAAATAAATA
*
46185 AACATAAATGAACT-AACATAAATA
1 AACATAAATGAA-TGAAAATAAATA
* *
46209 AACATAAATAAATGAATATAAATA
1 AACATAAATGAATGAAAATAAATA
46233 AACATAAATGAA
1 AACATAAATGAA
46245 CGAACATATA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
23 1 0.02
24 52 0.96
25 1 0.02
ACGTcount: A:0.65, C:0.07, G:0.06, T:0.21
Consensus pattern (24 bp):
AACATAAATGAATGAAAATAAATA
Found at i:46193 original size:14 final size:14
Alignment explanation
Indices: 46188--46234 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
46178 ATAAATAAAC
46188 ATAAATGAAC-TAA
1 ATAAATGAACATAA
*
46201 CATAAATAAACATAA
1 -ATAAATGAACATAA
*
46216 ATAAATGAATATAA
1 ATAAATGAACATAA
46230 ATAAA
1 ATAAA
46235 CATAAATGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 26 0.90
15 3 0.10
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.23
Consensus pattern (14 bp):
ATAAATGAACATAA
Found at i:46229 original size:10 final size:10
Alignment explanation
Indices: 46171--46245 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
46161 AACATAAATG
*
46171 AATGAAAATA
1 AATGAACATA
*
46181 AATAAACATA
1 AATGAACATA
46191 AATGAAC-TA
1 AATGAACATA
46200 ACAT-AA-ATAA
1 A-ATGAACAT-A
46210 ACAT-AA-ATA
1 A-ATGAACATA
*
46219 AATGAATATA
1 AATGAACATA
*
46229 AATAAACATA
1 AATGAACATA
46239 AATGAAC
1 AATGAAC
46246 GAACATATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
8 2 0.04
9 10 0.19
10 42 0.78
ACGTcount: A:0.65, C:0.08, G:0.05, T:0.21
Consensus pattern (10 bp):
AATGAACATA
Found at i:46232 original size:48 final size:49
Alignment explanation
Indices: 46161--46257 Score: 160
Period size: 48 Copynumber: 2.0 Consensus size: 49
46151 CATCTGTTCG
* *
46161 AACATAAATGAATGAAAATAAATAAACATAAATGAACTAACATA-AATA
1 AACATAAATAAATGAAAATAAATAAACATAAATGAACGAACATATAATA
*
46209 AACATAAATAAATGAATATAAATAAACATAAATGAACGAACATATAATA
1 AACATAAATAAATGAAAATAAATAAACATAAATGAACGAACATATAATA
46258 CAACGTTCAC
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
48 41 0.91
49 4 0.09
ACGTcount: A:0.64, C:0.08, G:0.06, T:0.22
Consensus pattern (49 bp):
AACATAAATAAATGAAAATAAATAAACATAAATGAACGAACATATAATA
Found at i:46978 original size:3 final size:3
Alignment explanation
Indices: 46972--47046 Score: 134
Period size: 3 Copynumber: 25.0 Consensus size: 3
46962 TTATTTAAAT
46972 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
47019 TTA TTA TTA TTA TTA TATA TTA TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA
47047 AATAAATATA
Statistics
Matches: 70, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.03
3 65 0.93
4 3 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:47056 original size:19 final size:19
Alignment explanation
Indices: 46979--47055 Score: 70
Period size: 18 Copynumber: 4.2 Consensus size: 19
46969 AATTTATTAT
* *
46979 TATTATTATTATTATTAT-
1 TATTATTATTAATATAATA
* *
46997 TATTATTATTATTATTATTA
1 TATTATTATTAATA-TAATA
* *
47017 TATTATTATTATTATTATA
1 TATTATTATTAATATAATA
47036 TATTATTATTAA-ATAA-A
1 TATTATTATTAATATAATA
47053 TAT
1 TAT
47056 AATATATATA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
17 4 0.08
18 17 0.33
19 16 0.31
20 14 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATTATTATTAATATAATA
Found at i:47066 original size:30 final size:30
Alignment explanation
Indices: 46972--47067 Score: 85
Period size: 30 Copynumber: 3.3 Consensus size: 30
46962 TTATTTAAAT
* * *
46972 TTATTAT-TATTATTATT--ATTATTATTA
1 TTATTATATATTATTATTAAATAAATATAA
* * * *
46999 TTATTAT-TATTATTATTATATTATTATTA
1 TTATTATATATTATTATTAAATAAATATAA
47028 TTATTATATATTATTATTAAATAAATATAA
1 TTATTATATATTATTATTAAATAAATATAA
47058 -TATATATATA
1 TTAT-TATATA
47068 CATATACAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
27 17 0.28
29 20 0.33
30 24 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (30 bp):
TTATTATATATTATTATTAAATAAATATAA
Found at i:48381 original size:20 final size:21
Alignment explanation
Indices: 48335--48381 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
48325 ATGCTTTTAA
48335 ATATATTGTTCTAATTGTATT
1 ATATATTGTTCTAATTGTATT
* *
48356 -TTTATTGTTTTAATTGT-TT
1 ATATATTGTTCTAATTGTATT
48375 ATATATT
1 ATATATT
48382 TAAATATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.64
Consensus pattern (21 bp):
ATATATTGTTCTAATTGTATT
Found at i:49068 original size:15 final size:15
Alignment explanation
Indices: 49048--49076 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
49038 AATTCAACTT
49048 TTTTGTTTTTCATGA
1 TTTTGTTTTTCATGA
49063 TTTTGTTTTTCATG
1 TTTTGTTTTTCATG
49077 TTGTTATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.07, G:0.14, T:0.69
Consensus pattern (15 bp):
TTTTGTTTTTCATGA
Found at i:55798 original size:96 final size:96
Alignment explanation
Indices: 55660--55846 Score: 284
Period size: 96 Copynumber: 1.9 Consensus size: 96
55650 CAGAACCAAA
* * *
55660 TTCCATCTGTCCCTCAACGAGATGCTTACTATCCGCCACCTGGCCAACCACAGGAGACTCCAAGT
1 TTCCATCTGTCCCTCAACGAGATGCTTACTACCCACCACCTGGCCAAACACAGGAGACTCCAAGT
*
55725 CAGCAATTCCAAATGCCTCCTACTCATCAAG
66 CAACAATTCCAAATGCCTCCTACTCATCAAG
* * * *
55756 TTCCTTCTGTCCCTCAACTAGATGCTTACTACCCACCTCCTGGCCAAACTCAGGAGACTCCAAGT
1 TTCCATCTGTCCCTCAACGAGATGCTTACTACCCACCACCTGGCCAAACACAGGAGACTCCAAGT
* *
55821 CAACAATTCCCAATGCCTCCTGCTCA
66 CAACAATTCCAAATGCCTCCTACTCA
55847 GCAACCACAG
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 81 1.00
ACGTcount: A:0.26, C:0.37, G:0.13, T:0.24
Consensus pattern (96 bp):
TTCCATCTGTCCCTCAACGAGATGCTTACTACCCACCACCTGGCCAAACACAGGAGACTCCAAGT
CAACAATTCCAAATGCCTCCTACTCATCAAG
Found at i:57314 original size:16 final size:17
Alignment explanation
Indices: 57290--57330 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
57280 GAATTTAAAA
57290 ATTAA-TTTATTTTTA-
1 ATTAATTTTATTTTTAT
*
57305 ATTTATTTTATTTTTAT
1 ATTAATTTTATTTTTAT
57322 ATTAATTTT
1 ATTAATTTT
57331 TGTATTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 4 0.18
16 10 0.45
17 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTAATTTTATTTTTAT
Found at i:57964 original size:16 final size:16
Alignment explanation
Indices: 57943--57999 Score: 105
Period size: 16 Copynumber: 3.6 Consensus size: 16
57933 TTAAGTGTTA
57943 AATGATTCAAATGCTG
1 AATGATTCAAATGCTG
*
57959 AATGATTCAAATACTG
1 AATGATTCAAATGCTG
57975 AATGATTCAAATGCTG
1 AATGATTCAAATGCTG
57991 AATGATTCA
1 AATGATTCA
58000 GAGGCTATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (16 bp):
AATGATTCAAATGCTG
Found at i:58031 original size:15 final size:15
Alignment explanation
Indices: 58007--58038 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
57997 TCAGAGGCTA
58007 TGTATAAATTAGCTC
1 TGTATAAATTAGCTC
*
58022 TGTATGAATTAGCTC
1 TGTATAAATTAGCTC
58037 TG
1 TG
58039 AATGTGACAT
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:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (15 bp):
TGTATAAATTAGCTC
Found at i:58126 original size:15 final size:15
Alignment explanation
Indices: 58106--58135 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
58096 TATTTTTGTG
58106 CTGAATCAATCAACA
1 CTGAATCAATCAACA
*
58121 CTGAATCATTCAACA
1 CTGAATCAATCAACA
58136 TTAAATCATT
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:0.43, C:0.27, G:0.07, T:0.23
Consensus pattern (15 bp):
CTGAATCAATCAACA
Found at i:58270 original size:2 final size:2
Alignment explanation
Indices: 58263--58300 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
58253 AAGTAAATTA
58263 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
58301 TTGTCATTTC
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:59471 original size:141 final size:141
Alignment explanation
Indices: 59215--59499 Score: 332
Period size: 141 Copynumber: 2.0 Consensus size: 141
59205 CTGATATGGT
*
59215 TTTAAGGAGCATGAAGACCACATCAATCTTCAAATGGTGTTTTTGTTAAAAGGCATTGGATTAAT
1 TTTAAGGAGCATGAAGACCACAT-AATCTTCAAATAGTGTTTTTGTTAAAAGGCATTGGATTAAT
* * ** * *
59280 CAATTACCCTTTGATATTTATGTTAGTATCAGTTTTAGGTGTTTGAATGACTAGGTTTTATTGAG
65 CAATTACCCTTTGATATTTATGTTAGCATCAATTTTAGGCATTTGAATGACTAAGTTTTAGTGAG
*
59345 CATAAAGGTCTTC
130 CAT-AAGGTCATC
*
59358 TTTAAGGAGCATGACA-ACCACAT-ATCTTCAAATAGTGTTTTT-TGT-AAAGGCATTTGGTTTA
1 TTTAAGGAGCATGA-AGACCACATAATCTTCAAATAGTGTTTTTGT-TAAAAGGCA-TTGGATTA
* ** *
59419 ATCCA-TA-TGTTCTGTAGTATTTATGTTAGCAT-AATTTTTGGCATTTGAATGACTAAGTTTTA
63 ATCAATTACCCTT-TG-A-TATTTATGTTAGCATCAATTTTAGGCATTTGAATGACTAAGTTTTA
59481 GTGAGCATAAGGTCATC
125 GTGAGCATAAGGTCATC
59498 TT
1 TT
59500 GGAGGTTATA
Statistics
Matches: 123, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
139 2 0.02
140 22 0.18
141 63 0.51
142 14 0.11
143 21 0.17
144 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (141 bp):
TTTAAGGAGCATGAAGACCACATAATCTTCAAATAGTGTTTTTGTTAAAAGGCATTGGATTAATC
AATTACCCTTTGATATTTATGTTAGCATCAATTTTAGGCATTTGAATGACTAAGTTTTAGTGAGC
ATAAGGTCATC
Found at i:63601 original size:19 final size:19
Alignment explanation
Indices: 63577--63614 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
63567 GCTGCCAAGA
*
63577 GGCAAAAGGTGGGCATTGC
1 GGCAAAAGGTCGGCATTGC
63596 GGCAAAAGGTCGGCATTGC
1 GGCAAAAGGTCGGCATTGC
63615 TGCTGATCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.39, T:0.16
Consensus pattern (19 bp):
GGCAAAAGGTCGGCATTGC
Found at i:71648 original size:30 final size:30
Alignment explanation
Indices: 71614--71686 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
71604 CTCGAAGTAC
71614 CTATCCAAAGGTCATAAAGATCCTCGGTAA
1 CTATCCAAAGGTCATAAAGATCCTCGGTAA
*
71644 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAAAGGTCATAAAGATCCTCGGTAA
* *
71674 CTGTCCATAGGTC
1 CTATCCAAAGGTC
71687 CCGAAAAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (30 bp):
CTATCCAAAGGTCATAAAGATCCTCGGTAA
Found at i:73026 original size:3 final size:3
Alignment explanation
Indices: 73018--73057 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
73008 TTTCACTTAT
73018 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA
73058 AGCTCTGGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:74464 original size:39 final size:37
Alignment explanation
Indices: 74373--74615 Score: 162
Period size: 38 Copynumber: 6.5 Consensus size: 37
74363 ATATATACAT
* * *
74373 ATTTTGAAACTACGTATATAATATATAGTTTT-TAATA-
1 ATTTTGAAAATA--TATATAATATATAGTTTTAAAAAAC
* *
74410 GTTTTTAAAATTATAT--AATATATAGTTTTAAAAAAAC
1 ATTTTGAAAA-TATATATAATATATAGTTTT-AAAAAAC
* * *
74447 ATTTTAGAAAATATATATAATATATAATTTTTAAAATC
1 ATTTT-GAAAATATATATAATATATAGTTTTAAAAAAC
* **
74485 ATTTGGAAAACT-TATATATATATATAGTTTTTGAAAAC
1 ATTTTGAAAA-TATATATA-ATATATAGTTTTAAAAAAC
* *
74523 ATTTTTGAAAACATATAT-AT-TATAGTTTT-GAAAAC
1 A-TTTTGAAAATATATATAATATATAGTTTTAAAAAAC
* * * *
74558 ATTTTGAAAACATTTATATTATATAGTTTT-TAAAAC
1 ATTTTGAAAATATATATAATATATAGTTTTAAAAAAC
* *
74594 GTTTTGGGAAAATTTATATAAT
1 ATTTT--GAAAATATATATAAT
74616 CTTTTTTGAA
Statistics
Matches: 167, Mismatches: 24, Indels: 29
0.76 0.11 0.13
Matches are distributed among these distances:
34 28 0.17
35 8 0.05
36 33 0.20
37 29 0.17
38 44 0.26
39 25 0.15
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (37 bp):
ATTTTGAAAATATATATAATATATAGTTTTAAAAAAC
Found at i:74488 original size:38 final size:37
Alignment explanation
Indices: 74387--74666 Score: 213
Period size: 39 Copynumber: 7.6 Consensus size: 37
74377 TGAAACTACG
* * *
74387 TATATAATATATAGTTTTTAATA-GTTTT-TAAAAT-
1 TATATAATATATAGTTTTTAAAACATTTTGGAAAATA
* *
74421 TATATAATATATAGTTTTAAAAAAACATTTTAGAAAATA
1 TATATAATATATAGTTTT--TAAAACATTTTGGAAAATA
*
74460 TATATAATATATAATTTTTAAAATCA-TTTGGAAAACT-
1 TATATAATATATAGTTTTTAAAA-CATTTTGGAAAA-TA
* *
74497 TATATATATATATAGTTTTTGAAAACATTTTTGAAAACA
1 TATATA-ATATATAGTTTTT-AAAACATTTTGGAAAATA
* *
74536 TATAT-AT-TATAGTTTTGAAAACATTTT-GAAAACA
1 TATATAATATATAGTTTTTAAAACATTTTGGAAAATA
* * * *
74570 TTTATATTATATAGTTTTTAAAACGTTTTGGGAAAATT
1 TATATAATATATAGTTTTTAAAACATTTT-GGAAAATA
* * * *
74608 TATATAATCT-T--TTTTGAAAACATGTTGGAAAACA
1 TATATAATATATAGTTTTTAAAACATTTTGGAAAATA
* * *
74642 TTCGTATATTATATAGTTTTAAAAA
1 -T-ATATAATATATAGTTTTTAAAA
74667 AAAAAAAAAC
Statistics
Matches: 197, Mismatches: 29, Indels: 35
0.75 0.11 0.13
Matches are distributed among these distances:
34 35 0.18
35 24 0.12
36 36 0.18
37 26 0.13
38 34 0.17
39 42 0.21
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.44
Consensus pattern (37 bp):
TATATAATATATAGTTTTTAAAACATTTTGGAAAATA
Found at i:74564 original size:11 final size:11
Alignment explanation
Indices: 74548--74572 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
74538 TATATTATAG
74548 TTTTGAAAACA
1 TTTTGAAAACA
74559 TTTTGAAAACA
1 TTTTGAAAACA
74570 TTT
1 TTT
74573 ATATTATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:74576 original size:36 final size:37
Alignment explanation
Indices: 74420--74666 Score: 199
Period size: 36 Copynumber: 6.6 Consensus size: 37
74410 GTTTTTAAAA
* *
74420 TTATATAATATATAGTTTTAAAAAAACATTTTAGAAAATAT
1 TTATAT-ATATATAGTTTT--GAAAACATTTT-GAAAACAT
* * * *
74461 ATATA-ATATATAATTTTTAAAATCATTTGGAAAAC-T
1 TTATATATATATAGTTTTGAAAA-CATTTTGAAAACAT
74497 TATATATATATATAGTTTTTGAAAACATTTTTGAAAACA-
1 T-TATATATATATAG-TTTTGAAAACA-TTTTGAAAACAT
74536 -TATATAT-TATAGTTTTGAAAACATTTTGAAAACAT
1 TTATATATATATAGTTTTGAAAACATTTTGAAAACAT
* * *
74571 TTATAT-TATATAGTTTTTAAAACGTTTTGGGAAA-AT
1 TTATATATATATAGTTTTGAAAACATTTT-GAAAACAT
* * *
74607 TTATATA-ATCT-TTTTTGAAAACATGTTGGAAAACAT
1 TTATATATATATAGTTTTGAAAACAT-TTTGAAAACAT
*
74643 TCGTATAT-TATATAGTTTTAAAAA
1 T--TATATATATATAGTTTTGAAAA
74667 AAAAAAAAAC
Statistics
Matches: 168, Mismatches: 21, Indels: 36
0.75 0.09 0.16
Matches are distributed among these distances:
34 11 0.07
35 26 0.15
36 45 0.27
37 24 0.14
38 22 0.13
39 36 0.21
41 4 0.02
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (37 bp):
TTATATATATATAGTTTTGAAAACATTTTGAAAACAT
Found at i:74612 original size:72 final size:72
Alignment explanation
Indices: 74419--74666 Score: 250
Period size: 72 Copynumber: 3.3 Consensus size: 72
74409 AGTTTTTAAA
* * * *
74419 ATTATATAATATATAGTTTTAAAAAAACATTTTAGAAAATATATATAATATATAATTTTTAAAAT
1 ATTATATATTATATAGTTTT--TAAAACATTTTGGAAAATATATAT-AT-TATAATTTTGAAAA-
74484 CATTTGGAAAAC
61 CATTTGGAAAAC
* * *
74496 -TTATATATATATATAGTTTTTGAAAACATTTTTGAAAACATATATATTATAGTTTTGAAAACAT
1 ATTATATAT-TATATAGTTTTT-AAAACATTTTGGAAAATATATATATTATAATTTTGAAAACAT
*
74560 TTTGAAAAC
64 TTGGAAAAC
* * * * *
74569 ATT-TATATTATATAGTTTTTAAAACGTTTTGGGAAAATTTATATAATCT-TTTTTGAAAACATG
1 ATTATATATTATATAGTTTTTAAAACATTTT-GGAAAATATATATATTATAATTTTGAAAACAT-
74632 TTGGAAAAC
64 TTGGAAAAC
* *
74641 ATTCGTATATTATATAGTTTTAAAAA
1 ATT-ATATATTATATAGTTTTTAAAA
74667 AAAAAAAAAC
Statistics
Matches: 148, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
71 21 0.14
72 36 0.24
73 16 0.11
74 34 0.23
75 2 0.01
76 28 0.19
77 11 0.07
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (72 bp):
ATTATATATTATATAGTTTTTAAAACATTTTGGAAAATATATATATTATAATTTTGAAAACATTT
GGAAAAC
Found at i:74638 original size:34 final size:34
Alignment explanation
Indices: 74442--74639 Score: 139
Period size: 35 Copynumber: 5.5 Consensus size: 34
74432 TAGTTTTAAA
* * *
74442 AAAACATTTTAGAAAATATATATAATATATAATTTTT
1 AAAACATTTTGGAAAATTTATATAATAT-T--TTTTG
74479 AAAATCA-TTTGGAAAACTTATATATATATATAGTTTTTG
1 AAAA-CATTTTGGAAAA-TT-TATATA-ATAT--TTTTTG
* ** * *
74518 AAAACATTTTTGAAAACATATATATTATAGTTTTG
1 AAAACATTTTGGAAAATTTATATAATAT-TTTTTG
* *
74553 AAAACATTTTGAAAACATTTATATTATATAGTTTTT-
1 AAAACATTTTGGAAA-ATTTATA-TA-ATATTTTTTG
* *
74589 AAAACGTTTTGGGAAAATTTATATAATCTTTTTTG
1 AAAACATTTT-GGAAAATTTATATAATATTTTTTG
*
74624 AAAACATGTTGGAAAA
1 AAAACATTTTGGAAAA
74640 CATTCGTATA
Statistics
Matches: 127, Mismatches: 23, Indels: 25
0.73 0.13 0.14
Matches are distributed among these distances:
34 13 0.10
35 28 0.22
36 24 0.19
37 28 0.22
38 7 0.06
39 22 0.17
40 4 0.03
41 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.42
Consensus pattern (34 bp):
AAAACATTTTGGAAAATTTATATAATATTTTTTG
Found at i:74736 original size:3 final size:3
Alignment explanation
Indices: 74728--74766 Score: 60
Period size: 3 Copynumber: 12.3 Consensus size: 3
74718 TGTATATATA
74728 TAT TAT TAT TAT TATT TATT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT T
74767 TTTCATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 28 0.80
4 7 0.20
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:80128 original size:169 final size:169
Alignment explanation
Indices: 79811--80878 Score: 1497
Period size: 169 Copynumber: 6.4 Consensus size: 169
79801 GCTCAAGGCC
* * * * * * * *
79811 AGAAGGGCTATCTGCCCAC-CAAGA-CCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCA
1 AGAAGGGTTATCTGCCAACTAAAGACCCTT-AAGTTCGATTACACTCAGCTTCAAGGGCATATCA
* * * * * * * * * * *
79873 TTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTCGAGTTCGATTACGTT
65 TTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCT
*
79935 CAGCTTCGAAGGCACATCATTTTGCAGTATAACTTAAGTCA
130 CAGC-TCCAAGGCACATCATTTTGCAGTATAACTTAAGTCA
79976 AGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCAT
1 AGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCAT
80041 TTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTC
66 TTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTC
80106 AGCTCCAAGGCACATCATTTTGCAGTATAACTTAAGTCA
131 AGCTCCAAGGCACATCATTTTGCAGTATAACTTAAGTCA
80145 AGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCAT
1 AGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCAT
80210 TTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTC
66 TTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTC
* * *
80275 AGCTCCAAGGCACATCA-TTTGCAGAATAGCTTAAGTCC
131 AGCTCCAAGGCACATCATTTTGCAGTATAACTTAAGTCA
* * * * * * *
80313 AGAAGGGCTATCTGCCCAC-CAAGA-CCTTCGAGTTCGACTACACTCAGCTCCAA-GGCACATCA
1 AGAAGGGTTATCTGCCAACTAAAGACCCTT-AAGTTCGATTACACTCAGCTTCAAGGGCATATCA
* * * * * * * * * * *
80375 TTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTCGAGTTCGATTACGTT
65 TTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCT
*
80437 CAGCTTCGAAGGCACATCATTTTGCAGTATAACTTAAGTCA
130 CAGC-TCCAAGGCACATCATTTTGCAGTATAACTTAAGTCA
80478 AGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCAT
1 AGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCAT
80543 TTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACC-TTGAGTTCGACTACGCTC
66 TTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTC
80607 AGCTCCAAGGCACATCATTTTGCAGTATAACTTAAGTCA
131 AGCTCCAAGGCACATCATTTTGCAGTATAACTTAAGTCA
80646 AGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCAT
1 AGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCAT
80711 TTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTC
66 TTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTC
* * *
80776 AGCTCCAAGGCACATCA-TTTGCAGAATAGCTTAAGTCC
131 AGCTCCAAGGCACATCATTTTGCAGTATAACTTAAGTCA
* * * * * * *
80814 AGAAGGGCTATCTGCCCAC-CAAGA-CCTTCGAGTTCGACTACACTCAGCTCCAA-GGCACATCA
1 AGAAGGGTTATCTGCCAACTAAAGACCCTT-AAGTTCGATTACACTCAGCTTCAAGGGCATATCA
80876 TTT
65 TTT
80879 GCAGTATAGG
Statistics
Matches: 813, Mismatches: 73, Indels: 33
0.88 0.08 0.04
Matches are distributed among these distances:
163 27 0.03
164 13 0.02
165 52 0.06
166 104 0.13
167 130 0.16
168 216 0.27
169 235 0.29
170 36 0.04
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (169 bp):
AGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCAT
TTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTC
AGCTCCAAGGCACATCATTTTGCAGTATAACTTAAGTCA
Found at i:80339 original size:83 final size:83
Alignment explanation
Indices: 79811--80992 Score: 1138
Period size: 83 Copynumber: 14.2 Consensus size: 83
79801 GCTCAAGGCC
* *
79811 AGAAGGGCTATCTGCCCACCAAGA-CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCCCACCAAGACCCTT-GAGTTCGACTACACTCAGCTCCAAGGCACATCATT
* * *
79875 TGCAGAATAGCTTAAGTCG
65 TGCAGCATAACTTAAGTCA
* * * ** *
79894 AGAAGGGCTATCTG-CCA--AAGACCCTCGAGTTCGATTACGTTCAGCTTCGAAGGCACATCATT
1 AGAAGGGTTATCTGCCCACCAAGACCCTTGAGTTCGACTACACTCAGC-TCCAAGGCACATCA-T
*
79956 TTGCAGTATAACTTAAGTCA
64 TTGCAGCATAACTTAAGTCA
* * * * * *
79976 AGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCAT
1 AGAAGGGTTATCTGCCCAC-CAAGACCCTTGAGTTCGACTACACTCAGCTCCAA-GGCACATCAT
* * * *
80041 TTACAGCATAACTCAAGGCT
64 TTGCAGCATAACTTAAGTCA
* * *
80061 AGAAGGGTTATCTG-TCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCCCACC-AAGACCCTTGAGTTCGACTACACTCAGCTCCAAGGCACATCA-T
*
80125 TTGCAGTATAACTTAAGTCA
64 TTGCAGCATAACTTAAGTCA
* * * * * *
80145 AGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCAT
1 AGAAGGGTTATCTGCCCAC-CAAGACCCTTGAGTTCGACTACACTCAGCTCCAA-GGCACATCAT
* * * *
80210 TTACAGCATAACTCAAGGCT
64 TTGCAGCATAACTTAAGTCA
* * *
80230 AGAAGGGTTATCTG-TCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCCCACC-AAGACCCTTGAGTTCGACTACACTCAGCTCCAAGGCACATCATT
* * *
80294 TGCAGAATAGCTTAAGTCC
65 TGCAGCATAACTTAAGTCA
*
80313 AGAAGGGCTATCTGCCCACCAAGA-CCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCCCACCAAGACCCTT-GAGTTCGACTACACTCAGCTCCAAGGCACATCATT
* * *
80377 TGCAGAATAGCTTAAGTCG
65 TGCAGCATAACTTAAGTCA
* * * ** *
80396 AGAAGGGCTATCTG-CCA--AAGACCCTCGAGTTCGATTACGTTCAGCTTCGAAGGCACATCATT
1 AGAAGGGTTATCTGCCCACCAAGACCCTTGAGTTCGACTACACTCAGC-TCCAAGGCACATCA-T
*
80458 TTGCAGTATAACTTAAGTCA
64 TTGCAGCATAACTTAAGTCA
* * * * * *
80478 AGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCAT
1 AGAAGGGTTATCTGCCCAC-CAAGACCCTTGAGTTCGACTACACTCAGCTCCAA-GGCACATCAT
* * * *
80543 TTACAGCATAACTCAAGGCT
64 TTGCAGCATAACTTAAGTCA
* *
80563 AGAAGGGTTATCTG-TCACCAAAGA-CCTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCCCACC-AAGACCCTTGAGTTCGACTACACTCAGCTCCAAGGCACATCA-T
*
80626 TTGCAGTATAACTTAAGTCA
64 TTGCAGCATAACTTAAGTCA
* * * * * *
80646 AGAAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCAT
1 AGAAGGGTTATCTGCCCAC-CAAGACCCTTGAGTTCGACTACACTCAGCTCCAA-GGCACATCAT
* * * *
80711 TTACAGCATAACTCAAGGCT
64 TTGCAGCATAACTTAAGTCA
* * *
80731 AGAAGGGTTATCTG-TCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCCCACC-AAGACCCTTGAGTTCGACTACACTCAGCTCCAAGGCACATCATT
* * *
80795 TGCAGAATAGCTTAAGTCC
65 TGCAGCATAACTTAAGTCA
*
80814 AGAAGGGCTATCTGCCCACCAAGA-CCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTGCCCACCAAGACCCTT-GAGTTCGACTACACTCAGCTCCAAGGCACATCATT
* ** *
80878 TGCAGTATAGGTTAAGTCG
65 TGCAGCATAACTTAAGTCA
** * *** * * * * *
80897 AGAATAGCTATCTG-CCA--AAGACCCCCAAGTTTGATTACATTCAGCTTCGAGGGCACATCATT
1 AGAAGGGTTATCTGCCCACCAAGACCCTTGAGTTCGACTACACTCAGC-TCCAAGGCACATCATT
* *
80959 TGCAGCATAGCTTAAGTCG
65 TGCAGCATAACTTAAGTCA
*
80978 AGAAGGGCTATCTGC
1 AGAAGGGTTATCTGC
80993 TAAAGACCTT
Statistics
Matches: 910, Mismatches: 153, Indels: 73
0.80 0.13 0.06
Matches are distributed among these distances:
80 60 0.07
81 77 0.08
82 85 0.09
83 288 0.32
84 140 0.15
85 180 0.20
86 80 0.09
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (83 bp):
AGAAGGGTTATCTGCCCACCAAGACCCTTGAGTTCGACTACACTCAGCTCCAAGGCACATCATTT
GCAGCATAACTTAAGTCA
Found at i:80855 original size:501 final size:502
Alignment explanation
Indices: 79789--80992 Score: 2232
Period size: 501 Copynumber: 2.4 Consensus size: 502
79779 TAAACAAACT
** * * *
79789 ATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTATCTGCCCACCAAGACCTTCGAGTTCGACTACGC
1 ATTTGCAGAATAGCTTAAGTCCAGAAGGGCTATCTGCCCACCAAGACCTTCGAGTTCGACTACAC
79854 TCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCT
66 TCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCT
79919 CGAGTTCGATTACGTTCAGCTTCGAAGGCACATCATTTTGCAGTATAACTTAAGTCAAGAAGGGT
131 CGAGTTCGATTACGTTCAGCTTCGAAGGCACATCATTTTGCAGTATAACTTAAGTCAAGAAGGGT
79984 TATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCA
196 TATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCA
80049 TAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA
261 TAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA
80114 GGCACATCATTTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGT
326 GGCACATCATTTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGT
80179 TCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG
391 TCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG
80244 TCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
456 TCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
80291 ATTTGCAGAATAGCTTAAGTCCAGAAGGGCTATCTGCCCACCAAGACCTTCGAGTTCGACTACAC
1 ATTTGCAGAATAGCTTAAGTCCAGAAGGGCTATCTGCCCACCAAGACCTTCGAGTTCGACTACAC
80356 TCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCT
66 TCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCT
80421 CGAGTTCGATTACGTTCAGCTTCGAAGGCACATCATTTTGCAGTATAACTTAAGTCAAGAAGGGT
131 CGAGTTCGATTACGTTCAGCTTCGAAGGCACATCATTTTGCAGTATAACTTAAGTCAAGAAGGGT
80486 TATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCA
196 TATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCA
80551 TAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACC-TTGAGTTCGACTACGCTCAGCTCCAA
261 TAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA
80615 GGCACATCATTTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGT
326 GGCACATCATTTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGT
80680 TCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG
391 TCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG
80745 TCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
456 TCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
80792 ATTTGCAGAATAGCTTAAGTCCAGAAGGGCTATCTGCCCACCAAGACCTTCGAGTTCGACTACAC
1 ATTTGCAGAATAGCTTAAGTCCAGAAGGGCTATCTGCCCACCAAGACCTTCGAGTTCGACTACAC
* * ** *
80857 TCAGCTCCAAGGCACATCATTTGCAGTATAGGTTAAGTCGAGAATAGCTATCTGCCAAAGACCCC
66 TCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCT
* * * * * * * *
80922 CAAGTTTGATTACATTCAGCTTCGAGGGCACATCA-TTTGCAGCATAGCTTAAGTCGAGAAGGGC
131 CGAGTTCGATTACGTTCAGCTTCGAAGGCACATCATTTTGCAGTATAACTTAAGTCAAGAAGGGT
80986 TATCTGC
196 TATCTGC
80993 TAAAGACCTT
Statistics
Matches: 684, Mismatches: 18, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
500 32 0.05
501 359 0.52
502 293 0.43
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (502 bp):
ATTTGCAGAATAGCTTAAGTCCAGAAGGGCTATCTGCCCACCAAGACCTTCGAGTTCGACTACAC
TCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCT
CGAGTTCGATTACGTTCAGCTTCGAAGGCACATCATTTTGCAGTATAACTTAAGTCAAGAAGGGT
TATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCA
TAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA
GGCACATCATTTTGCAGTATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAAGACCCTTAAGT
TCGATTACACTCAGCTTCAAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG
TCACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:81737 original size:37 final size:36
Alignment explanation
Indices: 81687--81864 Score: 134
Period size: 36 Copynumber: 4.9 Consensus size: 36
81677 TTTTAATAGT
*
81687 TTTTA-AAATTATATAATATATAGTTTTAAAAAAACA
1 TTTTAGAAAATATATAATATATAGTTTT-AAAAAACA
* * *
81723 TTTTAGAAAATATATATAATATATAATTTTTAAAATCA
1 TTTTAG-AAA-ATATATAATATATAGTTTTAAAAAACA
* **
81761 -TTTGGAAAACT-TATATATATATAGTTTTTGAAAACA
1 TTTTAGAAAA-TATATA-ATATATAGTTTTAAAAAACA
* * *
81797 TTTTTGAAAACATAT-ATATTATAGTTTT-GAAAACA
1 TTTTAGAAAATATATAATA-TATAGTTTTAAAAAACA
* * *
81832 TTTT-GAAACATTTATATTATATAGTTTTTAAAA
1 TTTTAGAAA-ATATATAATATATAGTTTTAAAAA
81865 CGTTTTGGGA
Statistics
Matches: 117, Mismatches: 14, Indels: 22
0.76 0.09 0.14
Matches are distributed among these distances:
34 4 0.03
35 32 0.27
36 40 0.34
37 15 0.13
38 9 0.08
39 17 0.15
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (36 bp):
TTTTAGAAAATATATAATATATAGTTTTAAAAAACA
Found at i:81802 original size:12 final size:12
Alignment explanation
Indices: 81785--81809 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
81775 ATATATATAG
81785 TTTTTGAAAACA
1 TTTTTGAAAACA
81797 TTTTTGAAAACA
1 TTTTTGAAAACA
81809 T
1 T
81810 ATATATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:81825 original size:35 final size:36
Alignment explanation
Indices: 81696--81938 Score: 192
Period size: 35 Copynumber: 6.6 Consensus size: 36
81686 TTTTTAAAAT
* * *
81696 TATATAATATATAGTTTTAAAAAAACATTTTAGAAAATA
1 TATAT-ATATATAGTTTT--GAAAACATTTTGGAAAACA
* * *
81735 TATATAATATATAATTTTTAAAATCA-TTTGGAAAACT
1 TATAT-ATATATAGTTTTGAAAA-CATTTTGGAAAACA
*
81772 TATATATATATAGTTTTTGAAAACATTTTTGAAAACA
1 TATATATATATAG-TTTTGAAAACATTTTGGAAAACA
81809 TATATAT-TATAGTTTTGAAAACATTTT-G-AAACA
1 TATATATATATAGTTTTGAAAACATTTTGGAAAACA
* * * *
81842 TTTATATTATATAGTTTTTAAAACGTTTTGGGAAA-A
1 TATATA-TATATAGTTTTGAAAACATTTTGGAAAACA
* ** *
81878 TTTATATA-ATCTTTTTTGAAAACATGTTGGAAAACA
1 TATATATATAT-AGTTTTGAAAACATTTTGGAAAACA
* *
81914 TTCGTATATTATATAGTTTTAAAAA
1 -T-ATATA-TATATAGTTTTGAAAA
81939 AAAAAAACAT
Statistics
Matches: 169, Mismatches: 22, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
33 10 0.06
34 4 0.02
35 52 0.31
36 23 0.14
37 45 0.27
38 6 0.04
39 27 0.16
40 2 0.01
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (36 bp):
TATATATATATAGTTTTGAAAACATTTTGGAAAACA
Found at i:82006 original size:3 final size:3
Alignment explanation
Indices: 81998--82029 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
81988 TGTATATATA
81998 TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT T
82030 TTTCATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:82017 original size:16 final size:16
Alignment explanation
Indices: 81998--82030 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
81988 TGTATATATA
81998 TATTATTATTATTATT
1 TATTATTATTATTATT
82014 TATTATTATTATTATT
1 TATTATTATTATTATT
82030 T
1 T
82031 TTCATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTATTATTATTATT
Found at i:84097 original size:17 final size:18
Alignment explanation
Indices: 84075--84115 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
84065 ATTTTATTTA
84075 TATTAATAAATAATT-AT
1 TATTAATAAATAATTAAT
*
84092 TATTAA-AAATTATTAAT
1 TATTAATAAATAATTAAT
84109 TATTAAT
1 TATTAAT
84116 TTTAAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTAATAAATAATTAAT
Found at i:84104 original size:13 final size:14
Alignment explanation
Indices: 84075--84108 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
84065 ATTTTATTTA
84075 TATTAATAAATAAT
1 TATTAATAAATAAT
*
84089 TATTATTAAA-AAT
1 TATTAATAAATAAT
84102 TATTAAT
1 TATTAAT
84109 TATTAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TATTAATAAATAAT
Found at i:87693 original size:20 final size:20
Alignment explanation
Indices: 87668--87741 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
87658 TTTTCTCAAT
*
87668 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
** *
87688 TCGCAACGCGAATTGGGAAAA
1 TCGCAACGCGAA-TAAGTAAA
*
87709 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
87729 TCGCAACGCGAAT
1 TCGCAACGCGAAT
87742 TGGGAAAATC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.41, C:0.19, G:0.23, T:0.18
Consensus pattern (20 bp):
TCGCAACGCGAATAAGTAAA
Found at i:87711 original size:21 final size:21
Alignment explanation
Indices: 87685--87755 Score: 99
Period size: 21 Copynumber: 3.4 Consensus size: 21
87675 GCGAATAAGT
87685 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* ** *
87706 AAATCGCAATGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
87726 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
87747 AAATCGCAA
1 AAATCGCAA
87756 TACGATACAT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.39
21 25 0.61
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.15
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:87713 original size:41 final size:41
Alignment explanation
Indices: 87668--87756 Score: 178
Period size: 41 Copynumber: 2.2 Consensus size: 41
87658 TTTTCTCAAT
87668 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
87709 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
87750 TCGCAAT
1 TCGCAAT
87757 ACGATACATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:87791 original size:41 final size:41
Alignment explanation
Indices: 87746--87823 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
87736 GCGAATTGGG
* *
87746 AAAATCGCAA-TACGATACATACTATCGCAATGCGATAATAA
1 AAAATCGCAACGA-GATACATACTATCGCAACGCGATAATAA
* *
87787 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACATACTATCGCAACGCGATA
87824 CTGACTTTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 31 0.97
42 1 0.03
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACATACTATCGCAACGCGATAATAA
Found at i:87839 original size:20 final size:20
Alignment explanation
Indices: 87791--87842 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
87781 TAATAAAAAA
* *
87791 TCGCAACGAGATACTTACTT
1 TCGCAACGCGATACTGACTT
87811 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
87831 TCGCAACGCGAT
1 TCGCAACGCGAT
87843 TTACATAGCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:88433 original size:19 final size:19
Alignment explanation
Indices: 88405--88584 Score: 164
Period size: 19 Copynumber: 9.8 Consensus size: 19
88395 CAAAATCACA
88405 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
88424 TTGTGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
88443 TTGCGATTTTTATTTCGCGG
1 TTGCGATTTTCATTTCGC-G
88463 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
88482 TTGCGATTGTC---T-G-G
1 TTGCGATTTTCATTTCGCG
* **
88496 TCGCGATAGTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
88515 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCGCG
**
88529 TTGCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTT-CGCG
* *
88549 TTGCGATTCTCATTATCTCG
1 TTGCGATTTTCATT-TCGCG
88569 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
88585 AACCAACAGA
Statistics
Matches: 132, Mismatches: 16, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
14 20 0.15
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 54 0.41
20 49 0.37
21 1 0.01
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:88482 original size:39 final size:38
Alignment explanation
Indices: 88405--88584 Score: 164
Period size: 33 Copynumber: 4.9 Consensus size: 38
88395 CAAAATCACA
*
88405 TTGCGATTTTCATTTCGCGTTGTGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCG
*
88443 TTGCGATTTTTATTTCGCGGTTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGC-GTTGCGATTTTCATTTCGCG
* * **
88482 TTGCGATTGTC---T-G-GTCGCGATAGTCATTTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCG
* **
88515 TTGCGA--TTC---TCTCGTTGCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTT-CGCG
* *
88549 TTGCGATTCTCATTATCTCGTTGCGATTTTCATTTC
1 TTGCGATTTTCATT-TCGCGTTGCGATTTTCATTTC
88585 AACCAACAGA
Statistics
Matches: 119, Mismatches: 13, Indels: 19
0.79 0.09 0.13
Matches are distributed among these distances:
31 3 0.03
33 38 0.32
34 10 0.08
35 1 0.01
36 3 0.03
38 17 0.14
39 29 0.24
40 18 0.15
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (38 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCG
Found at i:88561 original size:20 final size:20
Alignment explanation
Indices: 88527--88584 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
88517 GCGATTCTCT
**
88527 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
88547 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
88567 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
88585 AACCAACAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:90646 original size:42 final size:42
Alignment explanation
Indices: 90587--90708 Score: 120
Period size: 42 Copynumber: 2.9 Consensus size: 42
90577 CCCGACTCGT
* * *
90587 CTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCC
1 CTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCC
* * * *
90629 CTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCC
* ** * *
90671 CTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
90709 TCCGATTCAC
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 61 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
CTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCC
Found at i:90666 original size:21 final size:21
Alignment explanation
Indices: 90642--90711 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
90632 TCATTCCTCG
90642 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
90663 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
90684 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
90705 AGAGTCC
1 AGAGTCC
90712 GATTCACATG
Statistics
Matches: 34, Mismatches: 13, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
20 2 0.06
21 31 0.91
22 1 0.03
ACGTcount: A:0.23, C:0.37, G:0.20, T:0.20
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:92286 original size:19 final size:19
Alignment explanation
Indices: 92264--92414 Score: 71
Period size: 19 Copynumber: 8.7 Consensus size: 19
92254 CGAAATTAAA
92264 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
92283 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
92298 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
92316 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
92330 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
92349 TTCACATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
92364 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
92382 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
92401 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
92415 GGACATTAAG
Statistics
Matches: 94, Mismatches: 22, Indels: 31
0.64 0.15 0.21
Matches are distributed among these distances:
14 28 0.30
16 6 0.06
17 6 0.06
19 44 0.47
20 10 0.11
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:92310 original size:33 final size:32
Alignment explanation
Indices: 92268--92394 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
92258 ATTAAATTCG
92268 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
92301 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
*
92334 CGTTGCGATTTTCATTTCACATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
92367 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
92395 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:92357 original size:66 final size:66
Alignment explanation
Indices: 92261--92393 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
92251 ACGCGAAATT
* *
92261 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCACATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
92326 G
66 G
*
92327 AAATTAGCGTTGCGATTTTCATTTCACATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCACATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
92392 G
66 G
92393 A
1 A
92394 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCACATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:95994 original size:20 final size:20
Alignment explanation
Indices: 95969--96026 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
95959 ATTCATTTGA
95969 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
95989 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
96009 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
96027 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:96090 original size:19 final size:19
Alignment explanation
Indices: 96068--96112 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
96058 TTCTCGTTGC
96068 GATTTTCATTTCGCATTGA
1 GATTTTCATTTCGCATTGA
* *
96087 GATTTTCATTTTGCATTGC
1 GATTTTCATTTCGCATTGA
96106 GATTTTC
1 GATTTTC
96113 TCGTTGCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.51
Consensus pattern (19 bp):
GATTTTCATTTCGCATTGA
Found at i:98209 original size:14 final size:14
Alignment explanation
Indices: 98190--98247 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
98180 ATGCGAAATG
98190 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
98204 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
98220 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
98236 AAAATCGCAACG
1 AAAATCGCAACG
98248 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:98232 original size:32 final size:33
Alignment explanation
Indices: 98174--98264 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
98164 GGAAATGGCT
*
98174 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
98207 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
98239 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
98265 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:98258 original size:19 final size:19
Alignment explanation
Indices: 98116--98269 Score: 114
Period size: 19 Copynumber: 8.6 Consensus size: 19
98106 TAGTTTACTT
* *
98116 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
98136 TCGCAACGCGAAATGACTA
1 TCGCAACGCGAAATGAAAA
***
98155 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
98175 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
98194 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
98208 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
98226 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
98240 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
98259 TCGCAATGCGA
1 TCGCAACGCGA
98270 TTTGTGTTTC
Statistics
Matches: 108, Mismatches: 14, Indels: 25
0.73 0.10 0.17
Matches are distributed among these distances:
14 20 0.19
15 1 0.01
16 6 0.06
17 2 0.02
18 11 0.10
19 39 0.36
20 29 0.27
ACGTcount: A:0.43, C:0.24, G:0.20, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:98300 original size:14 final size:14
Alignment explanation
Indices: 98281--98338 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
98271 TTGTGTTTCG
98281 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
98295 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
98311 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
98327 CGTTGCGATTTT
1 CGTTGCGATTTT
98339 CATTTCGTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:98315 original size:32 final size:33
Alignment explanation
Indices: 98276--98354 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
98266 GCGATTTGTG
98276 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
98308 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
**
98341 TTTCGTATTGCGAT
1 TTTCGCGTTGCGAT
98355 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 27 0.61
33 17 0.39
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:98373 original size:20 final size:20
Alignment explanation
Indices: 98348--98393 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
98338 TCATTTCGTA
98348 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCGCG
* * *
98368 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTCCGCG
98388 TTGCGA
1 TTGCGA
98394 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGCG
Found at i:98892 original size:18 final size:18
Alignment explanation
Indices: 98866--98910 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
98856 GTCGATCAGA
*
98866 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
98884 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
98902 TGATGGCTC
1 TGATGGCTC
98911 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:100255 original size:20 final size:20
Alignment explanation
Indices: 100230--100267 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
100220 AATAGTTTCT
100230 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
100250 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
100268 GAGAGAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:100556 original size:22 final size:22
Alignment explanation
Indices: 100531--100574 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
100521 GATTTAGATA
100531 GACGGATTTCG-CTGGAGATGGG
1 GACGGATTTCGTC-GGAGATGGG
100553 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
100575 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.18, C:0.14, G:0.45, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:100843 original size:61 final size:61
Alignment explanation
Indices: 100742--100879 Score: 186
Period size: 61 Copynumber: 2.3 Consensus size: 61
100732 CGCTTTGAAA
* * * *
100742 ATCGCATTGCGATTATGTATTATCGCGTTGTGAAAGTCAGTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTCAGTATCGCATTGCGAAAGTAAGT
* * * * * *
100803 ATCTCGTTGCGATTTTTTATTATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTCAGTATCGCATTGCGAAAGTAAGT
100864 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
100880 CCCAATTCGC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTCAGTATCGCATTGCGAAAGTAAGT
Found at i:100876 original size:20 final size:20
Alignment explanation
Indices: 100742--100876 Score: 119
Period size: 20 Copynumber: 6.7 Consensus size: 20
100732 CGCTTTGAAA
*
100742 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
100763 ATCGCGTTGTGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
100783 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
100803 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
100824 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
100844 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
100864 ATCGCATTGCGAT
1 ATCGCATTGCGAT
100877 TTTCCCAATT
Statistics
Matches: 94, Mismatches: 18, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
19 2 0.02
20 69 0.73
21 23 0.24
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:100894 original size:21 final size:21
Alignment explanation
Indices: 100865--100957 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
100855 ATAGTCAGTA
100865 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
100886 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
100906 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
100927 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
100947 TCGCATTGCGA
1 TCGCATTGCGA
100958 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:100895 original size:41 final size:41
Alignment explanation
Indices: 100865--100957 Score: 150
Period size: 41 Copynumber: 2.3 Consensus size: 41
100855 ATAGTCAGTA
* *
100865 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
* *
100906 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
100947 TCGCATTGCGA
1 TCGCATTGCGA
100958 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:100895 original size:61 final size:61
Alignment explanation
Indices: 100742--100897 Score: 161
Period size: 61 Copynumber: 2.6 Consensus size: 61
100732 CGCTTTGAAA
* ** * * * *
100742 ATCGCATTGCGATTATGTATTATCGCGTTGTGAAAGTCAGTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTCAGTATCGCATTGCGAAAGTAAGT
* * ** * * * *
100803 ATCTCGTTGCGATTTTTTATTATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTCAGTATCGCATTGCGAAAGTAAGT
100864 ATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGATTTT-CCAATATCGCGTTGCGAT
100898 TTACTTATTC
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
61 76 0.97
62 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (61 bp):
ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTCAGTATCGCATTGCGAAAGTAAGT
Found at i:110320 original size:29 final size:29
Alignment explanation
Indices: 110271--110345 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
110261 TACATGTAAG
* * *
110271 ATTAAAAGAGTGAGGCTCTAATTATAAAT
1 ATTAAAAGAATGAGGCCCTAAGTATAAAT
*
110300 ATTAAAAGAATGTGGCCCTAAGTATAAAT
1 ATTAAAAGAATGAGGCCCTAAGTATAAAT
* * *
110329 ATCAAATGAGTGAGGCC
1 ATTAAAAGAATGAGGCC
110346 TGAGCAATTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.27
Consensus pattern (29 bp):
ATTAAAAGAATGAGGCCCTAAGTATAAAT
Found at i:114221 original size:150 final size:150
Alignment explanation
Indices: 114067--114357 Score: 359
Period size: 150 Copynumber: 1.9 Consensus size: 150
114057 CGACGGTGCA
* * * * * * * * *
114067 TGGTGTACATTATTACCATTTGAGTAAGGAT-AAATCCGAATCAGTGGGGAAGATTTCGACAATG
1 TGGTGAACACTATTACCATTTGAGCAAGG-TGAAATCAGAACCAGTGGGAAAAATTCCGACAACG
* * *
114131 GGAAACAAATCTTCCTTCAAACAACCCATTTATGATCATAAGAGTTCCAATTCCATTGGTTCATT
65 GGAAACAAATCTTCCTTCAAACAACCCATTGATGATCACAAGAGTTCCAATTCAATTGGTTCATT
*
114196 GCAATCTGAAAAAAAAGTGGC
130 GCAATATGAAAAAAAAGTGGC
** * * *
114217 TGGTGAACACTATTATGATTTGAGCAAGGTGAAATCAGAACCGGTGGGAAAAATTCCGAGAGCGG
1 TGGTGAACACTATTACCATTTGAGCAAGGTGAAATCAGAACCAGTGGGAAAAATTCCGACAACGG
* * * *
114282 GAAGCAAATCTTCCTTCAAACATCTCATTGATGATCACAAGAGTTCTAATTCAATTGGTTCATTG
66 GAAACAAATCTTCCTTCAAACAACCCATTGATGATCACAAGAGTTCCAATTCAATTGGTTCATTG
*
114347 GAATATGAAAA
131 CAATATGAAAA
114358 GGCTGAGCTT
Statistics
Matches: 117, Mismatches: 23, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
149 1 0.01
150 116 0.99
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.28
Consensus pattern (150 bp):
TGGTGAACACTATTACCATTTGAGCAAGGTGAAATCAGAACCAGTGGGAAAAATTCCGACAACGG
GAAACAAATCTTCCTTCAAACAACCCATTGATGATCACAAGAGTTCCAATTCAATTGGTTCATTG
CAATATGAAAAAAAAGTGGC
Found at i:114800 original size:32 final size:32
Alignment explanation
Indices: 114759--114825 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
114749 GCAACCAACA
114759 CTTATTTTGCGATGAAAGTTATGGATAAAGCT
1 CTTATTTTGCGATGAAAGTTATGGATAAAGCT
114791 CTTATTTTGCGATGAAAGTTATGGATAAAGCT
1 CTTATTTTGCGATGAAAGTTATGGATAAAGCT
114823 CTT
1 CTT
114826 TTGGCGAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (32 bp):
CTTATTTTGCGATGAAAGTTATGGATAAAGCT
Found at i:121493 original size:24 final size:23
Alignment explanation
Indices: 121463--121512 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
121453 TAAAGATTAA
*
121463 AATAAAGA-TAAATCATTAATGTTT
1 AATAAAGATTAAAT-A-TAATATTT
121487 AATAAAGATTAAATATAATATTT
1 AATAAAGATTAAATATAATATTT
121510 AAT
1 AAT
121513 CACTTTGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 10 0.42
24 9 0.38
25 5 0.21
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (23 bp):
AATAAAGATTAAATATAATATTT
Found at i:122303 original size:20 final size:21
Alignment explanation
Indices: 122280--122337 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
122270 CTCAGTTTCC
122280 AAAATCGCAACGTGAATAGTA
1 AAAATCGCAACGTGAATAGTA
* *
122301 AAAAGCGTAACGTGAATAGT-
1 AAAATCGCAACGTGAATAGTA
*
122321 AAAATCGCAACGCGAAT
1 AAAATCGCAACGTGAAT
122338 TTAGAAAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.17
Consensus pattern (21 bp):
AAAATCGCAACGTGAATAGTA
Found at i:122729 original size:20 final size:20
Alignment explanation
Indices: 122700--122785 Score: 154
Period size: 20 Copynumber: 4.2 Consensus size: 20
122690 CATATAGATT
122700 CGTTGCGATTTTACTATTCA
1 CGTTGCGATTTTACTATTCA
*
122720 CGTTGTGATTTTTACTATTCA
1 CGTTGCGA-TTTTACTATTCA
122741 CGTTGCGATTTTACTATTCA
1 CGTTGCGATTTTACTATTCA
122761 CGTTGCGATTTTACTATTCA
1 CGTTGCGATTTTACTATTCA
122781 CGTTG
1 CGTTG
122786 TGAAATTGGA
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
20 44 0.70
21 19 0.30
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.47
Consensus pattern (20 bp):
CGTTGCGATTTTACTATTCA
Found at i:122746 original size:41 final size:40
Alignment explanation
Indices: 122700--122785 Score: 154
Period size: 41 Copynumber: 2.1 Consensus size: 40
122690 CATATAGATT
*
122700 CGTTGCGATTTTACTATTCACGTTGTGATTTTTACTATTCA
1 CGTTGCGATTTTACTATTCACGTTGCGA-TTTTACTATTCA
122741 CGTTGCGATTTTACTATTCACGTTGCGATTTTACTATTCA
1 CGTTGCGATTTTACTATTCACGTTGCGATTTTACTATTCA
122781 CGTTG
1 CGTTG
122786 TGAAATTGGA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 17 0.39
41 27 0.61
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.47
Consensus pattern (40 bp):
CGTTGCGATTTTACTATTCACGTTGCGATTTTACTATTCA
Found at i:122827 original size:20 final size:20
Alignment explanation
Indices: 122802--122848 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
122792 TGGAGTTCGC
*
122802 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGACTTCTGT
122822 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTCTGT
122842 GTTGCGA
1 GTTGCGA
122849 TTTACAGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.13, G:0.28, T:0.45
Consensus pattern (20 bp):
GTTGCGAATTTGACTTCTGT
Found at i:122865 original size:20 final size:20
Alignment explanation
Indices: 122842--122909 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
122832 TGACTTCTGT
*
122842 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAAATTCGC
** *
122862 GTTGCGAATTTGGAAAATCGC
1 GTTGCG-ATTTACAAATTCGC
** *
122883 AATGCGATTTACATATTCGC
1 GTTGCGATTTACAAATTCGC
122903 GTTGCGA
1 GTTGCGA
122910 AATTGGAAAG
Statistics
Matches: 35, Mismatches: 12, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
20 21 0.60
21 14 0.40
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:122946 original size:20 final size:21
Alignment explanation
Indices: 122898--122950 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
122888 GATTTACATA
122898 TTCGCGTTGCGAAATTGGAAAG
1 TTCGCGTTGCGAAATTGG-AAG
*
122920 -T-GAGTTGCGAAATTGG-AG
1 TTCGCGTTGCGAAATTGGAAG
122938 TTCGCGTTGCGAA
1 TTCGCGTTGCGAA
122951 TTTGTTGGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 2 0.07
19 1 0.04
20 23 0.85
21 1 0.04
ACGTcount: A:0.25, C:0.13, G:0.34, T:0.28
Consensus pattern (21 bp):
TTCGCGTTGCGAAATTGGAAG
Done.