Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003598.1 Hibiscus syriacus cultivar Beakdansim tig00007611_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: 28934
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Found at i:1267 original size:2 final size:2
Alignment explanation
Indices: 1260--1316 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
1250 TAAGATTTGG
1260 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1302 TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC T
1317 ATATATATAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1321 original size:2 final size:2
Alignment explanation
Indices: 1316--1352 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1306 TCTCTCTCTC
1316 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1353 CTCATTTTCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3076 original size:18 final size:18
Alignment explanation
Indices: 3047--3119 Score: 83
Period size: 18 Copynumber: 3.8 Consensus size: 18
3037 TGAATATTTA
*
3047 TCCCGAATGACCACTATG
1 TCCCGAAGGACCACTATG
* *
3065 TCCCAAAGGACCATTATATATG
1 TCCCGAAGGACC---A-CTATG
3087 TCCCGAAGGACCACTATG
1 TCCCGAAGGACCACTATG
3105 TCCCGAAGGACCACT
1 TCCCGAAGGACCACT
3120 GTATAACCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
18 29 0.63
19 1 0.02
21 1 0.02
22 15 0.33
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.21
Consensus pattern (18 bp):
TCCCGAAGGACCACTATG
Found at i:6902 original size:108 final size:109
Alignment explanation
Indices: 6728--7042 Score: 436
Period size: 108 Copynumber: 2.9 Consensus size: 109
6718 TGGGTTCGCT
* * ** * ***
6728 CCCTATTTCTTCAGAGGGTATAAGACTTGA-ATCATCTTCAACAAACTTGTCTGCCCCCTATTTC
1 CCCTATATCTTCAGAGAGTATAAGACCCGACA--ATCTTCAACAATCGCATCTGCCCCCTATTTC
**
6792 TTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
64 TTCAGAGAGTATAAGACTCGAACAATCTTCAACGACCGCGTCTGCC
* * *
6838 CCCTATTTCTTCAGAGAGTATAAGACCCG-TAATCTTCATCAATCGCATCTGCCCCCTATTTCTT
1 CCCTATATCTTCAGAGAGTATAAGACCCGACAATCTTCAACAATCGCATCTGCCCCCTATTTCTT
*
6902 CAGAGAGTATAAGACTCGAACAATCTTCAACGACCGTGTCTGCC
66 CAGAGAGTATAAGACTCGAACAATCTTCAACGACCGCGTCTGCC
* * *
6946 CCCTATATCTTCAGAGAGTATAAGACCCGAACAATCTTCAACTATTGCGTCTGCCCCCTATTTCT
1 CCCTATATCTTCAGAGAGTATAAGACCCG-ACAATCTTCAACAATCGCATCTGCCCCCTATTTCT
7011 TCAGAGAGTATAAGACTCGAACAATCTTCAAC
65 TCAGAGAGTATAAGACTCGAACAATCTTCAAC
7043 AAATGGGTTC
Statistics
Matches: 185, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
108 97 0.52
110 88 0.48
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (109 bp):
CCCTATATCTTCAGAGAGTATAAGACCCGACAATCTTCAACAATCGCATCTGCCCCCTATTTCTT
CAGAGAGTATAAGACTCGAACAATCTTCAACGACCGCGTCTGCC
Found at i:6945 original size:163 final size:163
Alignment explanation
Indices: 6728--7026 Score: 510
Period size: 163 Copynumber: 1.8 Consensus size: 163
6718 TGGGTTCGCT
* * * *
6728 CCCTATTTCTTCAGAGGGTATAAGACTTGAATCATCTTCAACAAACTTGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAATCATCTTCAACAAACGTGTCTGCCCCCTATATCT
*
6793 TCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTA
66 TCAGAGAGTATAAGACCCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTA
6858 TAAGACCCGTAATCTTCATCAATCGCATCTGCC
131 TAAGACCCGTAATCTTCATCAATCGCATCTGCC
* *
6891 CCCTATTTCTTCAGAGAGTATAAGACTCGAA-CAATCTTCAACGACCGTGTCTGCCCCCTATATC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAATC-ATCTTCAACAAACGTGTCTGCCCCCTATATC
*
6955 TTCAGAGAGTATAAGACCCGAACAATCTTCAACTATTGCGTCTGCCCCCTATTTCTTCAGAGAGT
65 TTCAGAGAGTATAAGACCCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGT
7020 ATAAGAC
130 ATAAGAC
7027 TCGAACAATC
Statistics
Matches: 127, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
162 1 0.01
163 126 0.99
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (163 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCGAATCATCTTCAACAAACGTGTCTGCCCCCTATATCT
TCAGAGAGTATAAGACCCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTA
TAAGACCCGTAATCTTCATCAATCGCATCTGCC
Found at i:7060 original size:55 final size:56
Alignment explanation
Indices: 6704--7097 Score: 409
Period size: 55 Copynumber: 7.2 Consensus size: 56
6694 GAATTCAATA
* * * *
6704 AATCTTCAGAAAAATGGGTTC-GCTCCCTATTTCTTCAGAGGGTATAAGACTTGAATC
1 AATCTTCA-ACAAATGGGTTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAA-C
*
6761 -ATCTTCAACAAACT-TG-TCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACAAA-TGGGTTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * * * *
6815 AATCTTCAACGATTGCG-TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCG--T
1 AATCTTCAACAAATGGGTTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * **
6868 AATCTTCATC-AATCGCATCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACAAATGGGTTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* ** * * *
6923 AATCTTCAACGACCGTG-TCTGCCCCCTATATCTTCAGAGAGTATAAGACCCGAAC
1 AATCTTCAACAAATGGGTTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * *
6978 AATCTTCAACTATTGCG-TCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACAAATGGGTTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* *
7033 AATCTTCAACAAATGGGTTC-GCTCCCTATTTC-TCTAGGGAGTAT-AGAACTCGAAC
1 AATCTTCAACAAATGGGTTCTGCCCCCTATTTCTTC-AGAGAGTATAAG-ACTCGAAC
*
7088 ATCTCTTCAA
1 A-ATCTTCAA
7098 ACGGGTTCGC
Statistics
Matches: 288, Mismatches: 37, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
52 2 0.01
53 43 0.15
54 8 0.03
55 217 0.75
56 18 0.06
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (56 bp):
AATCTTCAACAAATGGGTTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
Found at i:7077 original size:110 final size:110
Alignment explanation
Indices: 6704--7065 Score: 450
Period size: 110 Copynumber: 3.3 Consensus size: 110
6694 GAATTCAATA
* * * **
6704 AATCTTCAGAAAAATGGGT-TCGCTCCCTATTTCTTCAGAGGGTATAAGACTTGAATC-ATCTTC
1 AATCTTCA-ACAAATGGGTCT-GCCCCCTATTTCTTCAGAGAGTATAAGACCCGAA-CAATCTTC
6767 AACAAACTT--GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
63 AAC-AA-TTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * * * *
6815 AATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCG--TAATCTTCATC
1 AATCTTCAACAAATGGGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCGAACAATCTTCAAC
* *
6878 AATCGCATCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
66 AATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* ** * *
6923 AATCTTCAACGACCGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGACCCGAACAATCTTCAAC
1 AATCTTCAACAAATGGGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCGAACAATCTTCAAC
*
6988 TATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
66 AATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
*
7033 AATCTTCAACAAATGGGT-TCGCTCCCTATTTCT
1 AATCTTCAACAAATGGGTCT-GCCCCCTATTTCT
7066 CTAGGGAGTA
Statistics
Matches: 217, Mismatches: 27, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
106 1 0.00
107 2 0.01
108 94 0.43
109 1 0.00
110 110 0.51
111 9 0.04
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (110 bp):
AATCTTCAACAAATGGGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCGAACAATCTTCAAC
AATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
Found at i:7130 original size:218 final size:217
Alignment explanation
Indices: 6728--7149 Score: 495
Period size: 218 Copynumber: 1.9 Consensus size: 217
6718 TGGGTTCGCT
* * **
6728 CCCTATTTCTTCAGAGGGTATAAGACTTGAATCATCTTCAACAAACTTGTCTGCCCCCTATTTCT
1 CCCTATATCTTCAGAGAGTATAAGACCCGAATCATCTTCAACAAACTTGTCTGCCCCCTATTTCT
* *
6793 TCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTA
66 TCAGAGAGTATAAGACTCGAACAATCTTCAACAAATGCGTCTGCCCCCTATTTCTTCAGAGAGTA
* * *
6858 TAAGACCCGTAATCTTCATCAATCGCATCTGCCCCCTATTTCTTCAGAGAGTATA-AGACTCGAA
131 TAAGACCCGAAATCTTCATCAAACGCATCTGCCCCCTATTTCTTAAGAGAGTATAGA-ACTCGAA
6922 CAATCTTCAACGACCGTGTCTGCC
195 C-ATCTTCAACGACCGTGTCTGCC
*
6946 CCCTATATCTTCAGAGAGTATAAGACCCGAA-CAATCTTCAAC-TA-TTGCGTCTGCCCCCTATT
1 CCCTATATCTTCAGAGAGTATAAGACCCGAATC-ATCTTCAACAAACTT--GTCTGCCCCCTATT
* * *
7008 TCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAATGGGT-TCGCTCCCTATTTC-TCTAGG
63 TCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAATGCGTCT-GCCCCCTATTTCTTC-AGA
* * ** * * *
7071 GAGTAT-AGAACTCGAACATC-TCTTCAAACGGGT-TCGCTCCTTCTTTCTTTAAG-GAGTATAG
126 GAGTATAAG-ACCCGAA-ATCTTCATCAAACGCATCT-GCCCCCTATTTC-TTAAGAGAGTATAG
7132 AACTCGAACATCTTCAAC
187 AACTCGAACATCTTCAAC
7150 TGGGTTCGCT
Statistics
Matches: 174, Mismatches: 20, Indels: 21
0.81 0.09 0.10
Matches are distributed among these distances:
216 2 0.01
217 17 0.10
218 147 0.84
219 8 0.05
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (217 bp):
CCCTATATCTTCAGAGAGTATAAGACCCGAATCATCTTCAACAAACTTGTCTGCCCCCTATTTCT
TCAGAGAGTATAAGACTCGAACAATCTTCAACAAATGCGTCTGCCCCCTATTTCTTCAGAGAGTA
TAAGACCCGAAATCTTCATCAAACGCATCTGCCCCCTATTTCTTAAGAGAGTATAGAACTCGAAC
ATCTTCAACGACCGTGTCTGCC
Found at i:7237 original size:51 final size:51
Alignment explanation
Indices: 7016--7452 Score: 569
Period size: 51 Copynumber: 8.5 Consensus size: 51
7006 TTTCTTCAGA
* * * * *
7016 GAGTATA-AGACTCGAACAATCTTCAACAAATGGGTTCGCTCCCTATTTCTCTAGG
1 GAGTATAGA-ACTCGAAC-ATCTT---CAAACGGGTTCGCTCCTTCTTTCTTTAAG
7071 GAGTATAGAACTCGAACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
1 GAGTATAGAACTCGAACA--TCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
7124 GAGTATAGAACTCGAACATCTTC-AACTGGGTTCGCTCCCTTCTTTCTTTAAG
1 GAGTATAGAACTCGAACATCTTCAAAC-GGGTTCGCT-CCTTCTTTCTTTAAG
* * *
7176 GAGTATAGAACTTGAACATCTTC-AACTGGGTTCGCTCCTTCTCTCTTTAAA
1 GAGTATAGAACTCGAACATCTTCAAAC-GGGTTCGCTCCTTCTTTCTTTAAG
*
7227 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCATTAAG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
* * * * * * *
7278 GAGTATGGAACTCGGATATCTTCACACGGGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
*
7329 GAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
*
7380 GAGTATAGAACTCG--CATCTTCAAACGGGTTCTCTCCTTCTTTCTTTAAG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
* *
7429 GAGTATAGAACTCGCATATCTTCA
1 GAGTATAGAACTCGAACATCTTCA
7453 TTTGCTTCAC
Statistics
Matches: 345, Mismatches: 29, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
49 48 0.14
50 3 0.01
51 178 0.52
52 53 0.15
53 42 0.12
54 1 0.00
55 15 0.04
56 5 0.01
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (51 bp):
GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
Found at i:7289 original size:154 final size:153
Alignment explanation
Indices: 7071--7452 Score: 583
Period size: 154 Copynumber: 2.5 Consensus size: 153
7061 TTTCTCTAGG
7071 GAGTATAGAACTCGAACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACT
1 GAGTATAGAACTCGAACA--TCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACT
* * *
7136 CGAACATCTTCA-ACTGGGTTCGCTCCCTTCTTTCTTTAAGGAGTATAGAACTTGAACATCTTC-
64 CGAATATCTTCACAC-GGGTTCGCTCCC-TCTTTCTCTAAGGAGTATAGAACTCGAACATCTTCA
7199 AACTGGGTTCGCTCCTTCTCTCTTTAAA
127 AAC-GGGTTCGCTCCTTCTCTCTTTAAA
* *
7227 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCATTAAGGAGTATGGAACTCG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCG
* * *
7292 GATATCTTCACACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAACG
66 AATATCTTCACACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCGAACATCTTCAAACG
* *
7357 GGTTCGCTCCTTCTTTCTTTAAG
131 GGTTCGCTCCTTCTCTCTTTAAA
*
7380 GAGTATAGAACTCG--CATCTTCAAACGGGTTCTCTCCTTCTTTCTTTAAGGAGTATAGAACTCG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCG
*
7443 CATATCTTCA
66 AATATCTTCA
7453 TTTGCTTCAC
Statistics
Matches: 210, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
151 55 0.26
153 67 0.32
154 68 0.32
155 2 0.01
156 18 0.09
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (153 bp):
GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCG
AATATCTTCACACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCGAACATCTTCAAACG
GGTTCGCTCCTTCTCTCTTTAAA
Found at i:7880 original size:36 final size:36
Alignment explanation
Indices: 7822--8087 Score: 311
Period size: 36 Copynumber: 7.4 Consensus size: 36
7812 ACTCTTCTGA
* * **
7822 GAAGGCTTAAAATGGATCTGCTTCACTACTT-TTTGGT
1 GAAGGCTTAAGATGG-TTTGCTTCACTA-TTCTCCGGT
* * *
7859 GAAGACTTAAGATGGTTTGCTTCACTACTCTCTGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
7895 GAAGACTTATGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* * * *
7931 GAAGGCTTCAGATTGATTGCTTCCCTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
*
7967 GAAGGCTTCAGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
8003 GAAGGCTTAGGATGGTTTGCTTCACTATTCTCCAGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* * *
8039 GAAGGCTTCAGATGGTTTTCTTCACT-TCTCTTCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTAT-TCTCCGGT
*
8075 GAAGGCTAAAGAT
1 GAAGGCTTAAGAT
8088 TGACTTTGCT
Statistics
Matches: 200, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
35 2 0.01
36 185 0.93
37 13 0.06
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (36 bp):
GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
Found at i:8075 original size:108 final size:108
Alignment explanation
Indices: 7822--8087 Score: 345
Period size: 108 Copynumber: 2.5 Consensus size: 108
7812 ACTCTTCTGA
* * * * * *
7822 GAAGGCTTAAAATGGATCTGCTTCACTACTTTTTGGTGAAGACTTAAGATGGTTTGCTTCACTAC
1 GAAGGCTTCAGATGGAT-TGCTTCACTTCTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTAC
* * *
7887 TCTCTGGTGAAGACTTATGATGGTTTGCTTCACTATTCTCCGGT
65 TCTCCGGTGAAGACTTAGGATGGTTTGCTTCACTATTCTCCAGT
* * * * *
7931 GAAGGCTTCAGATTGATTGCTTCCCTAT-TCTCCGGTGAAGGCTTCAGATGGTTTGCTTCACTAT
1 GAAGGCTTCAGATGGATTGCTTCACT-TCTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTAC
*
7995 TCTCCGGTGAAGGCTTAGGATGGTTTGCTTCACTATTCTCCAGT
65 TCTCCGGTGAAGACTTAGGATGGTTTGCTTCACTATTCTCCAGT
* * *
8039 GAAGGCTTCAGATGGTTTTCTTCACTTCTCTTCGGTGAAGGCTAAAGAT
1 GAAGGCTTCAGATGGATTGCTTCACTTCTCTTCGGTGAAGGCTTAAGAT
8088 TGACTTTGCT
Statistics
Matches: 133, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
107 1 0.01
108 118 0.89
109 14 0.11
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (108 bp):
GAAGGCTTCAGATGGATTGCTTCACTTCTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTACT
CTCCGGTGAAGACTTAGGATGGTTTGCTTCACTATTCTCCAGT
Found at i:8992 original size:127 final size:127
Alignment explanation
Indices: 8808--9118 Score: 423
Period size: 127 Copynumber: 2.4 Consensus size: 127
8798 CTCAATAACT
* *
8808 TCTTGGTCTGAATCTTATT-TTCTCATCATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTAT
1 TCTTGGTCTGAATCTT-TTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTAT
* *
8872 ACTGGTGCGGGCCTTTCAAAATGCCCCTATTACCTCAAATTGTAAGGCTCATTCTTCATGCC-TC
65 ACTGGTACGGGCC-TTCAAAATGCCCC-ATCACCTCAAATTGTAAGGCTCATTCTTCATGCCTTC
*
8936 -CTTGGTCTGAATCTTTTCATCTCAACATGATGTGGGTTCAGTCGTTCCCCAACATTATCTTATA
1 TCTTGGTCTGAATCTTTTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTATA
* **
9000 CTGGTACGGGCCTTCAAAATGCCCCATCACCTTAGTTTGTAAGGCTCATTCTTCATGCCTTC
66 CTGGTACGGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTTCATGCCTTC
** * * * *
9062 TTCTTCTTCTGAAT-TTTGTCATCTCAACCTAATGTGGGTTCAGCCGTGCCACAACAT
1 -TCTTGGTCTGAATCTTT-TCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACAT
9119 ATCGCAACTT
Statistics
Matches: 163, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
125 30 0.18
126 17 0.10
127 72 0.44
128 44 0.27
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (127 bp):
TCTTGGTCTGAATCTTTTCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTATA
CTGGTACGGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTTCATGCCTTC
Found at i:13001 original size:20 final size:21
Alignment explanation
Indices: 12976--13070 Score: 92
Period size: 21 Copynumber: 4.6 Consensus size: 21
12966 AATGTGAAGT
12976 GGTCTTCAT-GTCGTTATG-AA
1 GGTCTTC-TCGTCGTTATGAAA
12996 GGTCTTCTCGTCGTTATGAAA
1 GGTCTTCTCGTCGTTATGAAA
*
13017 GGTCTTCTCGTC-TTGATGAAT
1 GGTCTTCTCGTCGTT-ATGAAA
* *
13038 GGCCTTCTCGTC-TTGATGAAT
1 GGTCTTCTCGTCGTT-ATGAAA
13059 GG-CATTCTCGTC
1 GGTC-TTCTCGTC
13071 TTGAAGAATG
Statistics
Matches: 69, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
19 1 0.01
20 19 0.28
21 49 0.71
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.39
Consensus pattern (21 bp):
GGTCTTCTCGTCGTTATGAAA
Found at i:13020 original size:21 final size:21
Alignment explanation
Indices: 12994--13112 Score: 109
Period size: 21 Copynumber: 5.7 Consensus size: 21
12984 TGTCGTTATG
12994 AAGGTCTTCTCGTCGTT-ATGA
1 AAGGTCTTCTCGTC-TTGATGA
13015 AAGGTCTTCTCGTCTTGATGA
1 AAGGTCTTCTCGTCTTGATGA
* *
13036 ATGGCCTTCTCGTCTTGATGA
1 AAGGTCTTCTCGTCTTGATGA
* *
13057 ATGG-CATTCTCGTCTTGAAG-
1 AAGGTC-TTCTCGTCTTGATGA
* * *
13077 AATGACATTCTTGTCTTGATGA
1 AAGGTC-TTCTCGTCTTGATGA
* *
13099 ATGCTCTTCTCGTC
1 AAGGTCTTCTCGTC
13113 CTTGGTACAA
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
20 5 0.06
21 75 0.91
22 2 0.02
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.39
Consensus pattern (21 bp):
AAGGTCTTCTCGTCTTGATGA
Found at i:13109 original size:42 final size:43
Alignment explanation
Indices: 13000--13112 Score: 135
Period size: 42 Copynumber: 2.7 Consensus size: 43
12990 TATGAAGGTC
* * * *
13000 TTCTCGTCGTT-ATGAAAGG-TCTTCTCGTCTTGATGAATGGCC
1 TTCTCGTC-TTGATGAATGGCTCTTCTCGTCTTGAAGAATGACA
*
13042 TTCTCGTCTTGATGAATGGC-ATTCTCGTCTTGAAGAATGACA
1 TTCTCGTCTTGATGAATGGCTCTTCTCGTCTTGAAGAATGACA
*
13084 TTCTTGTCTTGATGAAT-GCTCTTCTCGTC
1 TTCTCGTCTTGATGAATGGCTCTTCTCGTC
13113 CTTGGTACAA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
41 4 0.07
42 57 0.93
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (43 bp):
TTCTCGTCTTGATGAATGGCTCTTCTCGTCTTGAAGAATGACA
Found at i:17910 original size:108 final size:109
Alignment explanation
Indices: 17736--18049 Score: 425
Period size: 108 Copynumber: 2.9 Consensus size: 109
17726 TGGGTTCGCT
* * ** * ***
17736 CCCTATTTCTTCAGAGGGTATAAGACTTGAATC-ATCTTCAACAAACTTGTCTGCCCCCTATTTC
1 CCCTATATCTTCAGAGAGTATAAGAC-CCAA-CAATCTTCAACAATCGCATCTGCCCCCTATTTC
**
17800 TTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
64 TTCAGAGAGTATAAGACTCGAACAATCTTCAACGACCGCGTCTGCC
* ** *
17846 CCCTATTTCTTCAGAGAGTATAAGACCC-GTAATCTTCATCAATCGCATCTGCCCCCTATTTCTT
1 CCCTATATCTTCAGAGAGTATAAGACCCAACAATCTTCAACAATCGCATCTGCCCCCTATTTCTT
* *
17910 CAGAGAGTATAAGACTCGAACAATCTTCAATGACCGTGTCTGCC
66 CAGAGAGTATAAGACTCGAACAATCTTCAACGACCGCGTCTGCC
* * *
17954 CCCTATATCTTCAGAGAGTATAAGACCCAACAATCTTCAACTATTGCGTCTGCCCCCTATTTCTT
1 CCCTATATCTTCAGAGAGTATAAGACCCAACAATCTTCAACAATCGCATCTGCCCCCTATTTCTT
18019 CAGAGAGTATAAGACTCGAACAATCTTCAAC
66 CAGAGAGTATAAGACTCGAACAATCTTCAAC
18050 AAATGGGTTC
Statistics
Matches: 180, Mismatches: 22, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
108 95 0.53
109 60 0.33
110 25 0.14
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (109 bp):
CCCTATATCTTCAGAGAGTATAAGACCCAACAATCTTCAACAATCGCATCTGCCCCCTATTTCTT
CAGAGAGTATAAGACTCGAACAATCTTCAACGACCGCGTCTGCC
Found at i:17954 original size:163 final size:162
Alignment explanation
Indices: 17736--18033 Score: 490
Period size: 163 Copynumber: 1.8 Consensus size: 162
17726 TGGGTTCGCT
* * * *
17736 CCCTATTTCTTCAGAGGGTATAAGACTTGAATCATCTTCAACAAACTTGTCTGCCCCCTATTTCT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAATCATCTTCAACAAACGTGTCTGCCCCCTATATCT
*
17801 TCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTA
66 TCAGAGAGTATAAGAC-CCAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTA
17866 TAAGACCCGTAATCTTCATCAATCGCATCTGCC
130 TAAGACCCGTAATCTTCATCAATCGCATCTGCC
** *
17899 CCCTATTTCTTCAGAGAGTATAAGACTCGAA-CAATCTTCAATGACCGTGTCTGCCCCCTATATC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAATC-ATCTTCAACAAACGTGTCTGCCCCCTATATC
*
17963 TTCAGAGAGTATAAGACCCAACAATCTTCAACTATTGCGTCTGCCCCCTATTTCTTCAGAGAGTA
65 TTCAGAGAGTATAAGACCCAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTA
18028 TAAGAC
130 TAAGAC
18034 TCGAACAATC
Statistics
Matches: 125, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
162 53 0.42
163 72 0.58
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (162 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCGAATCATCTTCAACAAACGTGTCTGCCCCCTATATCT
TCAGAGAGTATAAGACCCAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTAT
AAGACCCGTAATCTTCATCAATCGCATCTGCC
Found at i:18047 original size:109 final size:108
Alignment explanation
Indices: 17769--18049 Score: 427
Period size: 108 Copynumber: 2.6 Consensus size: 108
17759 GACTTGAATC
* **
17769 ATCTTCAACAAACTTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACG
1 ATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACG
** * **
17834 ATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCGTA
66 ACCGCGTCTGCCCCCTATATCTTCAGAGAGTATAAGACCCACA
* * *
17877 ATCTTCATCAATCGCATCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAATG
1 ATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACG
*
17942 ACCGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGACCCAACA
66 ACCGCGTCTGCCCCCTATATCTTCAGAGAGTATAAGACCC-ACA
* *
17986 ATCTTCAACTATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
1 ATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
18050 AAATGGGTTC
Statistics
Matches: 155, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
108 95 0.61
109 60 0.39
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.29
Consensus pattern (108 bp):
ATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACG
ACCGCGTCTGCCCCCTATATCTTCAGAGAGTATAAGACCCACA
Found at i:18067 original size:55 final size:56
Alignment explanation
Indices: 17712--18104 Score: 391
Period size: 55 Copynumber: 7.2 Consensus size: 56
17702 GAATTCAATA
* * * *
17712 AATCTTCAGAAAAATGGGTTC-GCTCCCTATTTCTTCAGAGGGTATAAGACTTGAATC
1 AATCTTCA-ACAAATGGGTTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAA-C
*
17769 -ATCTTCAACAAACT-TG-TCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACAAA-TGGGTTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * * * *
17823 AATCTTCAACGATTGCG-TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCG--T
1 AATCTTCAACAAATGGGTTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * **
17876 AATCTTCATC-AATCGCATCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACAAATGGGTTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
** ** * * *
17931 AATCTTCAATGACCGTG-TCTGCCCCCTATATCTTCAGAGAGTATAAGAC-CCAAC
1 AATCTTCAACAAATGGGTTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * *
17985 AATCTTCAACTATTGCG-TCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
1 AATCTTCAACAAATGGGTTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* *
18040 AATCTTCAACAAATGGGTTC-GCTCCCTATTTC-TCTAGGGAGTAT-AGAACTCGAAC
1 AATCTTCAACAAATGGGTTCTGCCCCCTATTTCTTC-AGAGAGTATAAG-ACTCGAAC
*
18095 ATCTCTTCAA
1 A-ATCTTCAA
18105 ACGGGTTCGC
Statistics
Matches: 284, Mismatches: 39, Indels: 27
0.81 0.11 0.08
Matches are distributed among these distances:
52 2 0.01
53 43 0.15
54 55 0.19
55 166 0.58
56 18 0.06
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (56 bp):
AATCTTCAACAAATGGGTTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
Found at i:18137 original size:162 final size:157
Alignment explanation
Indices: 17724--18441 Score: 472
Period size: 162 Copynumber: 4.5 Consensus size: 157
17714 TCTTCAGAAA
* * **
17724 AATGGGTTCGCTCCCTATTTCTTCAGAGGGTATA-AGACTTGAATCATCTTCAACAAACTTG-TC
1 AATGGGTTCGCTCCCTATTTCTT-AGAGAGTATAGA-ACTCGAA-CATCTT---CAAACGGGTTC
* * * *
17787 TGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTAT
60 -GCTCCTTCTTTCTTAAG-GAGTATAAGACTCGAACAATCTTCAAC-ATTGCGTCTGCCCCCTAT
* * *
17852 TTCTTCAGAGAGTATAAGACCCG--TAATCTTCATC
122 TTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
* ** * *
17886 AATCGCATCTGCCCCCTATTTCTTCAGAGAGTATA-AGACTCGAACAATCTTCAATGAC-CGTGT
1 AATGGGTTC-GCTCCCTATTTCTT-AGAGAGTATAGA-ACTCGAAC-ATCTTCAA--ACGGGT-T
* * * * * *
17949 CTGCCCCCTATATCTTCAGAGAGTATAAGAC-CCAACAATCTTCAACTATTGCGTCTGCCCCCTA
59 C-GCTCCTTCTTTCTTAAG-GAGTATAAGACTCGAACAATCTTCAAC-ATTGCGTCTGCCCCCTA
18013 TTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
121 TTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
*
18050 AAATGGGTTCGCTCCCTATTTCTCTAGGGAGTATAGAACTCGAACATCTCTTCAAACGGGTTCGC
1 -AATGGGTTCGCTCCCTATTTCT-TAGAGAGTATAGAACTCGAACA--TCTTCAAACGGGTTCGC
* * *
18115 TCCTTCTTTCTTTAAGGAGTAT-AGAACTCGAAC-ATCTTCAAC--TGGGT-TCGCTCCCTTCTT
62 TCCTTCTTTC-TTAAGGAGTATAAG-ACTCGAACAATCTTCAACATTGCGTCT-GC-CCCCTATT
* *
18175 TCTTTA-AGGAGTAT-AGAACTTGAAC-ATCTTCAAC
123 TCTTCAGA-GAGTATAAG-ACTCGAACAATCTTCAAC
* * * *
18209 --TGGGTTCGCTCCTTCTCTCTTTAAAGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCC
1 AATGGGTTCGCTCCCTATTTC-TTAGAGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCC
* * * * * * *
18272 TTCTTTCATTAAGGAGTAT-GGAACTCGGA-TATCTTC-ACA-CGGGT-TCGCTCCCTCTTTC-T
65 TTCTTTC-TTAAGGAGTATAAG-ACTCGAACAATCTTCAACATTGCGTCT-GCCCCCTATTTCTT
* *
18331 CTAGGGAGTAT-GGAACTCGAAC-ATCTTC-A-
127 C-AGAGAGTATAAG-ACTCGAACAATCTTCAAC
* * * *
18360 AACGGGTTCGCTCCTTCTTTCTTTA-AGGAGTATAGAACTCG--CATCTTCAAACGGGTTCTCTC
1 AATGGGTTCGCTCCCTATTTC-TTAGA-GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTC
18422 CTTC-TTCTTTAAGGAGTATA
64 CTTCTTTC-TTAAGGAGTATA
18442 GAACTCGCAT
Statistics
Matches: 477, Mismatches: 49, Indels: 71
0.80 0.08 0.12
Matches are distributed among these distances:
150 14 0.03
151 24 0.05
152 3 0.01
153 67 0.14
154 60 0.13
156 36 0.08
157 1 0.00
158 1 0.00
159 18 0.04
160 27 0.06
161 3 0.01
162 88 0.18
163 80 0.17
164 40 0.08
165 15 0.03
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (157 bp):
AATGGGTTCGCTCCCTATTTCTTAGAGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCT
TCTTTCTTAAGGAGTATAAGACTCGAACAATCTTCAACATTGCGTCTGCCCCCTATTTCTTCAGA
GAGTATAAGACTCGAACAATCTTCAAC
Found at i:18244 original size:51 final size:51
Alignment explanation
Indices: 18023--18458 Score: 560
Period size: 51 Copynumber: 8.5 Consensus size: 51
18013 TTTCTTCAGA
* * * * *
18023 GAGTATA-AGACTCGAACAATCTTCAACAAATGGGTTCGCTCCCTATTTCTCTAGG
1 GAGTATAGA-ACTCGAAC-ATCTT---CAAACGGGTTCGCTCCTTCTTTCTTTAAG
18078 GAGTATAGAACTCGAACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
1 GAGTATAGAACTCGAACA--TCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
18131 GAGTATAGAACTCGAACATCTTC-AACTGGGTTCGCTCCCTTCTTTCTTTAAG
1 GAGTATAGAACTCGAACATCTTCAAAC-GGGTTCGCT-CCTTCTTTCTTTAAG
* * *
18183 GAGTATAGAACTTGAACATCTTC-AACTGGGTTCGCTCCTTCTCTCTTTAAA
1 GAGTATAGAACTCGAACATCTTCAAAC-GGGTTCGCTCCTTCTTTCTTTAAG
*
18234 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCATTAAG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
* * * * * * *
18285 GAGTATGGAACTCGGATATCTTCACACGGGTTCGCTCCCTCTTTCTCTAGG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
*
18336 GAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
*
18387 GAGTATAGAACTCG--CATCTTCAAACGGGTTCTCTCCTTC-TTCTTTAAG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
* *
18435 GAGTATAGAACTCGCATATCTTCA
1 GAGTATAGAACTCGAACATCTTCA
18459 TTTGCTTCAC
Statistics
Matches: 344, Mismatches: 29, Indels: 21
0.87 0.07 0.05
Matches are distributed among these distances:
48 23 0.07
49 24 0.07
50 10 0.03
51 171 0.50
52 53 0.15
53 42 0.12
54 1 0.00
55 15 0.04
56 5 0.01
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (51 bp):
GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAG
Found at i:18285 original size:154 final size:153
Alignment explanation
Indices: 18078--18458 Score: 574
Period size: 154 Copynumber: 2.5 Consensus size: 153
18068 TTTCTCTAGG
18078 GAGTATAGAACTCGAACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACT
1 GAGTATAGAACTCGAACA--TCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACT
* * *
18143 CGAACATCTTCA-ACTGGGTTCGCTCCCTTCTTTCTTTAAGGAGTATAGAACTTGAACATCTTC-
64 CGAATATCTTCACAC-GGGTTCGCTCCC-TCTTTCTCTAAGGAGTATAGAACTCGAACATCTTCA
18206 AACTGGGTTCGCTCCTTCTCTCTTTAAA
127 AAC-GGGTTCGCTCCTTCTCTCTTTAAA
* *
18234 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCATTAAGGAGTATGGAACTCG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCG
* * *
18299 GATATCTTCACACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAACG
66 AATATCTTCACACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCGAACATCTTCAAACG
* *
18364 GGTTCGCTCCTTCTTTCTTTAAG
131 GGTTCGCTCCTTCTCTCTTTAAA
*
18387 GAGTATAGAACTCG--CATCTTCAAACGGGTTCTCTCCTTC-TTCTTTAAGGAGTATAGAACTCG
1 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCG
*
18449 CATATCTTCA
66 AATATCTTCA
18459 TTTGCTTCAC
Statistics
Matches: 209, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
150 30 0.14
151 24 0.11
153 67 0.32
154 68 0.33
155 2 0.01
156 18 0.09
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (153 bp):
GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCG
AATATCTTCACACGGGTTCGCTCCCTCTTTCTCTAAGGAGTATAGAACTCGAACATCTTCAAACG
GGTTCGCTCCTTCTCTCTTTAAA
Found at i:18886 original size:36 final size:36
Alignment explanation
Indices: 18828--19093 Score: 311
Period size: 36 Copynumber: 7.4 Consensus size: 36
18818 ACTCTTCTGA
* * **
18828 GAAGGCTTAAAATGGATCTGCTTCACTACTT-TTTGGT
1 GAAGGCTTAAGATGG-TTTGCTTCACTA-TTCTCCGGT
* * *
18865 GAAGACTTAAGATGGTTTGCTTCACTACTCTCTGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
18901 GAAGACTTATGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* * * *
18937 GAAGGCTTCAGATTGATTGCTTCCCTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
*
18973 GAAGGCTTCAGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
19009 GAAGGCTTAGGATGGTTTGCTTCACTATTCTCCAGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* * *
19045 GAAGGCTTCAGATGGTTTTCTTCACT-TCTCTTCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTAT-TCTCCGGT
*
19081 GAAGGCTAAAGAT
1 GAAGGCTTAAGAT
19094 TGACTTTGCT
Statistics
Matches: 200, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
35 2 0.01
36 185 0.93
37 13 0.06
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (36 bp):
GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
Found at i:19081 original size:108 final size:108
Alignment explanation
Indices: 18828--19093 Score: 345
Period size: 108 Copynumber: 2.5 Consensus size: 108
18818 ACTCTTCTGA
* * * * * *
18828 GAAGGCTTAAAATGGATCTGCTTCACTACTTTTTGGTGAAGACTTAAGATGGTTTGCTTCACTAC
1 GAAGGCTTCAGATGGAT-TGCTTCACTTCTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTAC
* * *
18893 TCTCTGGTGAAGACTTATGATGGTTTGCTTCACTATTCTCCGGT
65 TCTCCGGTGAAGACTTAGGATGGTTTGCTTCACTATTCTCCAGT
* * * * *
18937 GAAGGCTTCAGATTGATTGCTTCCCTAT-TCTCCGGTGAAGGCTTCAGATGGTTTGCTTCACTAT
1 GAAGGCTTCAGATGGATTGCTTCACT-TCTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTAC
*
19001 TCTCCGGTGAAGGCTTAGGATGGTTTGCTTCACTATTCTCCAGT
65 TCTCCGGTGAAGACTTAGGATGGTTTGCTTCACTATTCTCCAGT
* * *
19045 GAAGGCTTCAGATGGTTTTCTTCACTTCTCTTCGGTGAAGGCTAAAGAT
1 GAAGGCTTCAGATGGATTGCTTCACTTCTCTTCGGTGAAGGCTTAAGAT
19094 TGACTTTGCT
Statistics
Matches: 133, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
107 1 0.01
108 118 0.89
109 14 0.11
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (108 bp):
GAAGGCTTCAGATGGATTGCTTCACTTCTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTACT
CTCCGGTGAAGACTTAGGATGGTTTGCTTCACTATTCTCCAGT
Found at i:19998 original size:126 final size:127
Alignment explanation
Indices: 19814--20123 Score: 419
Period size: 126 Copynumber: 2.4 Consensus size: 127
19804 CTCAATAACT
** *
19814 TCTTGGTCTGAATCTTATTTTCTCATCATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTATA
1 TCTTGGTCTGAATCTTATCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTATA
* *
19879 CTGGTGCGGGCCTTTCAAAATGCCCCTATTACCTCAAATTGTAAGGCTCATTCTTCATGCC-TC
66 CTGGTACGGGCC-TTCAAAATGCCCC-ATCACCTCAAATTGTAAGGCTCATTCTTCATGCCTTC
*
19942 -CTTGGTCTGAATCTT-TCATCTCAACATGATGTGGGTTCAGTCGTTCCCCAACATTATCTTATA
1 TCTTGGTCTGAATCTTATCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTATA
* **
20005 CTGGTACGGGCCTTCAAAATGCCCCATCACCTTAGTTTGTAAGGCTCATTCTTCATGCCTTC
66 CTGGTACGGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTTCATGCCTTC
** * * * * * *
20067 TTCTTCTTCTGAATTTTGTCATCTCAACCTAATGTGGGTTCAGCCGTGCCACAACAT
1 -TCTTGGTCTGAATCTTATCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACAT
20124 ATCGCAACTT
Statistics
Matches: 161, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
124 30 0.19
125 15 0.09
126 55 0.34
127 27 0.17
128 34 0.21
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (127 bp):
TCTTGGTCTGAATCTTATCATCTCAACATGATGTGGGTTCAGTCGTGCCCCAACATTATCTTATA
CTGGTACGGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGGCTCATTCTTCATGCCTTC
Found at i:24005 original size:20 final size:20
Alignment explanation
Indices: 23980--24115 Score: 104
Period size: 21 Copynumber: 6.6 Consensus size: 20
23970 AATGTGAAGT
23980 GGTCTTCAT-GTCGTTATGAA
1 GGTCTTC-TCGTCGTTATGAA
24000 GGTCTTCTCGTCGTTATGAA
1 GGTCTTCTCGTCGTTATGAA
24020 GGTCTTCTCGTC-TTGATGAA
1 GGTCTTCTCGTCGTT-ATGAA
*
24040 TGGCCTTCTCGTC-TTGATGAA
1 -GGTCTTCTCGTCGTT-ATGAA
24061 TGG-CATTCTCGTC-TTGATGAA
1 -GGTC-TTCTCGTCGTT-ATGAA
* *
24082 TGACATTCTCGTC-TTGATGAA
1 GGTC-TTCTCGTCGTT-ATGAA
*
24103 TGCTCTTCTCGTC
1 -GGTCTTCTCGTC
24116 CTTGGTACAA
Statistics
Matches: 105, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.03
20 37 0.35
21 64 0.61
22 1 0.01
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (20 bp):
GGTCTTCTCGTCGTTATGAA
Found at i:24049 original size:21 final size:21
Alignment explanation
Indices: 23995--24115 Score: 151
Period size: 21 Copynumber: 5.9 Consensus size: 21
23985 TCATGTCGTT
*
23995 ATGAA-GGTCTTCTCGTCGTT-
1 ATGAATGGCCTTCTCGTC-TTG
*
24015 ATGAA-GGTCTTCTCGTCTTG
1 ATGAATGGCCTTCTCGTCTTG
24035 ATGAATGGCCTTCTCGTCTTG
1 ATGAATGGCCTTCTCGTCTTG
*
24056 ATGAATGGCATTCTCGTCTTG
1 ATGAATGGCCTTCTCGTCTTG
* *
24077 ATGAATGACATTCTCGTCTTG
1 ATGAATGGCCTTCTCGTCTTG
24098 ATGAAT-GCTCTTCTCGTC
1 ATGAATGGC-CTTCTCGTC
24116 CTTGGTACAA
Statistics
Matches: 93, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
19 2 0.02
20 23 0.25
21 68 0.73
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.39
Consensus pattern (21 bp):
ATGAATGGCCTTCTCGTCTTG
Done.