Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005755.1 Hibiscus syriacus cultivar Beakdansim tig00013468_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: 158992
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:4180 original size:35 final size:35
Alignment explanation
Indices: 4134--4206 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
4124 TGTTGACTAA
4134 TAATAATGTAGTAGGTCTAAGTCATGAAGAAATAT
1 TAATAATGTAGTAGGTCTAAGTCATGAAGAAATAT
4169 TAATAATGTAGTAGGTCTAAGTCATGAAGAAATAT
1 TAATAATGTAGTAGGTCTAAGTCATGAAGAAATAT
4204 TAA
1 TAA
4207 AAAATTGTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.44, C:0.05, G:0.19, T:0.32
Consensus pattern (35 bp):
TAATAATGTAGTAGGTCTAAGTCATGAAGAAATAT
Found at i:4473 original size:20 final size:19
Alignment explanation
Indices: 4436--4496 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
4426 GTATCGATCC
*
4436 AAAATGAT-ATACCAGGTAA
1 AAAATGATAAAACC-GGTAA
*
4455 AAATATGATAAAACCGGTATC
1 AAA-ATGATAAAACCGGTA-A
4476 AAAATGATAAAACCGGTAA
1 AAAATGATAAAACCGGTAA
4495 AA
1 AA
4497 CGTTACCGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.14
20 24 0.67
21 7 0.19
ACGTcount: A:0.54, C:0.11, G:0.15, T:0.20
Consensus pattern (19 bp):
AAAATGATAAAACCGGTAA
Found at i:4555 original size:181 final size:182
Alignment explanation
Indices: 4297--4710 Score: 625
Period size: 181 Copynumber: 2.3 Consensus size: 182
4287 AGGTAAAATT
* * * * * * * *
4297 ATGACAAAACCGGTAAAGCGCTACCAGATACATTTAAAGTGTCGGTATTTTAATATAAGGATCGA
1 ATGATAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGA
* *
4362 CACTTCGTGAATTTAAAAGAGAAGTAGTTTTAAATCCTATAAAGTGTCGATACTTTAAAAAAA-A
66 CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAAAAAATA
* *
4426 GTATCGATCCAAAATGATATACCAGGTAAAAATATGATAAAACCGGTATCAAA
131 -TATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAA
* **
4479 ATGATAAAACCGGTAAAACGTTACCGGATATATTGAAAGTGTTTATACTTT-ATATAAGGATCGA
1 ATGATAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGA
* ** *
4543 CACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAAAAAAATA
66 CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAAAAAATA
*
4608 TATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAA
131 TATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAA
4660 ATGATAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
1 ATGATAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
4711 CGTAAGTACG
Statistics
Matches: 209, Mismatches: 22, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
181 167 0.80
182 42 0.20
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.28
Consensus pattern (182 bp):
ATGATAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGA
CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAAAAAATA
TATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAA
Found at i:4654 original size:20 final size:19
Alignment explanation
Indices: 4631--4677 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
4621 CGATATAACA
4631 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
4651 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
4671 GGTAAAA
1 GGTAAAA
4678 CGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:4682 original size:17 final size:19
Alignment explanation
Indices: 4642--4682 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
4632 GTAAAAATAT
*
4642 GATAAAACCGGTATCAAAAT
1 GATAAAACCGG-ATCAAAAC
4662 GATAAAACCGG-T-AAAAC
1 GATAAAACCGGATCAAAAC
4679 GATA
1 GATA
4683 CCGGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
20 11 0.55
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (19 bp):
GATAAAACCGGATCAAAAC
Found at i:7043 original size:33 final size:33
Alignment explanation
Indices: 7001--7066 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
6991 AAATAGATGG
7001 AGTGGTGAAAGAAGTAT-AGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGT-TGAGGTGTTAAGGGGTGA
* *
7034 AGTGGTGAAAGAAGTTGGGGTGTTCAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
7067 TATTAAGATG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 1 0.03
33 29 0.97
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGTGA
Found at i:8883 original size:19 final size:19
Alignment explanation
Indices: 8859--8907 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
8849 AATGTAGGGT
8859 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
8878 TAATTTTGTATATGATTTA
1 TAATTTTGTATAAGATTTA
8897 TAATTTTGTAT
1 TAATTTTGTAT
8908 GTCAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:8918 original size:18 final size:19
Alignment explanation
Indices: 8859--8919 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 19
8849 AATGTAGGGT
** *
8859 TAATTTTGTATAAGATTTA
1 TAATTTTGTATATCATATA
* *
8878 TAATTTTGTATATGATTTA
1 TAATTTTGTATATCATATA
*
8897 TAATTTTGTATGTCA-ATA
1 TAATTTTGTATATCATATA
8915 TAATT
1 TAATT
8920 ATGAATGAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 7 0.18
19 31 0.82
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (19 bp):
TAATTTTGTATATCATATA
Found at i:9922 original size:200 final size:200
Alignment explanation
Indices: 9141--9903 Score: 1316
Period size: 200 Copynumber: 3.8 Consensus size: 200
9131 AATTTACAAT
* * *
9141 ATGGCAAACAGGGTGCAACCATAAAGTGTCAATCTATATAT-AAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
9205 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
9270 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
9335 AATGA
196 AATGA
*
9340 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
9405 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
9470 ATGATAGAATATGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
9535 AATGA
196 AATGA
*
9540 ATGACAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
9605 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
9670 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
9735 AATGA
196 AATGA
* *
9740 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTTGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * * *
9805 CGAAACCTAAAAGTATAATGTATTATGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
9870 ATGGGAGAAT-TGGTATATAAT-ATGTATCGACACT
131 ATGAGAGAATAT-GTCTA-AATAATGTATCGACACT
9904 GTTTAATGTT
Statistics
Matches: 538, Mismatches: 23, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
199 39 0.07
200 496 0.92
201 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATATGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:11363 original size:6 final size:6
Alignment explanation
Indices: 11352--11415 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
11342 CAAGCGGTCA
* * * * *
11352 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGAAG ATGACG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* *
11400 ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGA
11416 TGATCCAAAC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:11401 original size:3 final size:3
Alignment explanation
Indices: 11369--11419 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
11359 TGAAGCTGAC
* * * *
11369 GAT GAA GAT GAC GAT GAA GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
11417 GAT
1 GAT
11420 CCAAACAAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:11419 original size:12 final size:12
Alignment explanation
Indices: 11352--11415 Score: 83
Period size: 12 Copynumber: 5.3 Consensus size: 12
11342 CAAGCGGTCA
*
11352 ATGAAGATGAAG
1 ATGACGATGAAG
*
11364 CTGACGATGAAG
1 ATGACGATGAAG
11376 ATGACGATGAAG
1 ATGACGATGAAG
*
11388 ATGACGATGATG
1 ATGACGATGAAG
* *
11400 ATGATGATGATG
1 ATGACGATGAAG
11412 ATGA
1 ATGA
11416 TGATCCAAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 47 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:12984 original size:183 final size:183
Alignment explanation
Indices: 12629--13217 Score: 991
Period size: 183 Copynumber: 3.2 Consensus size: 183
12619 CAAAGTTTTC
* *
12629 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATATGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* * * * * * *
12694 CAAAAAGTATCGATTGAA-AAAACATCGTAACTCATAATTATAATGTAATAGATAATTTTGTAAT
66 CAAAAAGTGTCGA--CAATTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAAT
* *
12758 ATAATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCT
129 ATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
12813 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATAGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
12878 CAAAAAGTGTCGACAATTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTATAATAT
66 CAAAAAGTGTCGACAATTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
12943 AACCGGTATAAATATACCGGTTTTATGAGCAAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
12996 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
13061 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACAATTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
* *
13126 AACCGATATAAATATACTGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
13179 ACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
13218 TATAATGTAC
Statistics
Matches: 383, Mismatches: 21, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
182 2 0.01
183 307 0.80
184 74 0.19
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGACAATTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:13304 original size:120 final size:120
Alignment explanation
Indices: 13091--13337 Score: 440
Period size: 120 Copynumber: 2.1 Consensus size: 120
13081 ACATCGGAAC
13091 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAATATACTGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAATATACTGGTTTTATGAGC
*
13156 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * * *
13211 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACTGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAATATACTGGTTTTATGAGC
*
13276 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
13331 CCAGAAT
1 CCAGAAT
13338 GGAAGAAAAA
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAATATACTGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:13455 original size:303 final size:303
Alignment explanation
Indices: 12908--13502 Score: 1073
Period size: 303 Copynumber: 2.0 Consensus size: 303
12898 ACATCGGAAC
12908 CCAGAATTATAATGTAATAGATAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAGC
12973 AAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 AAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
*
13038 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
131 AGAAAAATGTGTCCATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
*
13103 TGTAATAGATAATTTTGTAATATAACCGATATAAATATACTGGTTTTATGAGCGAATAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGATATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
*
13168 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
261 AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * * * *
13211 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACTGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAGC
* *
13276 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 AAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
*
13341 AGAAAAATGTGTCCATACCTTGTCAAATAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
131 AGAAAAATGTGTCCATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
*
13406 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGATATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
*
13471 AACCTATATCGACGCTTTTTAATATTGTGTCG
261 AACCTATATCGACACTTTTTAATATTGTGTCG
13503 CTAATTTTAA
Statistics
Matches: 279, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
303 279 1.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (303 bp):
CCAGAATTATAATGTAATAGATAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAGC
AAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
AGAAAAATGTGTCCATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
TGTAATAGATAATTTTGTAATATAACCGATATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:16956 original size:87 final size:87
Alignment explanation
Indices: 16852--17105 Score: 438
Period size: 87 Copynumber: 2.9 Consensus size: 87
16842 AAATAGGTCA
* *
16852 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
* *
16917 TCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACATATTTTATT
16939 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
17004 CCCGTTAAATACATATTTTATT
66 CCCGTTAAATACATATTTTATT
*
17026 ATATAAGCGCTATCTATTACATTATATAAGCGTTATCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
**
17091 CTGGTTAAATA-ATAT
66 CCCGTTAAATACATAT
17106 AACATAACCG
Statistics
Matches: 160, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
86 4 0.03
87 156 0.98
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (87 bp):
ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
CCCGTTAAATACATATTTTATT
Found at i:16986 original size:23 final size:23
Alignment explanation
Indices: 16936--16980 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
16926 TACCTATTTT
* *
16936 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
16959 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
16981 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:17073 original size:23 final size:23
Alignment explanation
Indices: 17023--17067 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
17013 TACATATTTT
*
17023 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTATCTAATAC
*
17046 ATTATATAAGCGTTATCTAATA
1 ATTATATAAGCGCTATCTAATA
17068 TGTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (23 bp):
ATTATATAAGCGCTATCTAATAC
Found at i:20659 original size:21 final size:21
Alignment explanation
Indices: 20617--20660 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
20607 AGTAAAAAAA
* *
20617 TTACCTAAAACATTATTATTT
1 TTACCTAAAACATAAATATTT
*
20638 TTACCTAAAACATAAATGTTT
1 TTACCTAAAACATAAATATTT
20659 TT
1 TT
20661 TAACATTTCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (21 bp):
TTACCTAAAACATAAATATTT
Found at i:20821 original size:80 final size:80
Alignment explanation
Indices: 20681--20829 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 80
20671 AGTAAAGTAT
* * * * *
20681 CCAATAATAATAAAATCGGTAGAAAAAATAATGTTTTAGGTAGTACTTTATCGGATATGTTAATA
1 CCAATAATAAAAAAATCGGTAGAAAAAATAATGTTTTAGGTAATACTTTATCAGAAATGTTAAAA
20746 AAATGGGTAAAGCGC
66 AAATGGGTAAAGCGC
* **
20761 CCAATAATAAAAAAA-CTGGTAGAAATAATAATGTTTTAGGTAATTTTTTA-CTAGAAATGTTAA
1 CCAATAATAAAAAAATC-GGTAGAAAAAATAATGTTTTAGGTAATACTTTATC-AGAAATGTTAA
20824 AAAAAT
64 AAAAAT
20830 AATAACAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 2 0.03
80 57 0.97
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.32
Consensus pattern (80 bp):
CCAATAATAAAAAAATCGGTAGAAAAAATAATGTTTTAGGTAATACTTTATCAGAAATGTTAAAA
AAATGGGTAAAGCGC
Found at i:21434 original size:184 final size:183
Alignment explanation
Indices: 21147--21499 Score: 530
Period size: 184 Copynumber: 1.9 Consensus size: 183
21137 TGAAAAATGC
* * * ** *
21147 ATCGCTCCATAGCAATATTACAGGTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACCGAT
1 ATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAAGTCTCAAAATGACAAAAACGAT
* * * *
21212 AAAACGAAACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACA-CTTTTAGAATT
66 AAAACGAAACCGGATATGTTGAAAGTGTCAATAATTTAAAATAAGTATCAAAATCTTTTAGAATT
*
21276 TAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACATTAAAAAAATAT
131 TAAAAGAGAAAAAGTTATAGCGCCTATAAAGTGTCGATACATTAAAAAAATAT
21329 ATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAAGTCTCAAAAAATGACAAAAACG
1 ATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAAGTCTC--AAAATGACAAAAACG
* * *
21394 GTAAAAC-AATACCGGATATGTTGAAAGTGTCAATAATTTAAAATAAGTATCAAAATTTTTTGGA
64 ATAAAACGAA-ACCGGATATGTTGAAAGTGTCAATAATTTAAAATAAGTATCAAAATCTTTTAGA
*
21458 ATTTAAAAGAGAAAAAGTTATAGCGCCTATAAAGTGTTGATA
128 ATTTAAAAGAGAAAAAGTTATAGCGCCTATAAAGTGTCGATA
21500 TTTTTGTCGA
Statistics
Matches: 152, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
182 43 0.28
183 2 0.01
184 61 0.40
185 46 0.30
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.25
Consensus pattern (183 bp):
ATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACAAGTCTCAAAATGACAAAAACGAT
AAAACGAAACCGGATATGTTGAAAGTGTCAATAATTTAAAATAAGTATCAAAATCTTTTAGAATT
TAAAAGAGAAAAAGTTATAGCGCCTATAAAGTGTCGATACATTAAAAAAATAT
Found at i:24723 original size:80 final size:82
Alignment explanation
Indices: 24627--24842 Score: 274
Period size: 91 Copynumber: 2.5 Consensus size: 82
24617 GGTCTTATAG
* *
24627 ATTACCCGAAGGATTTATTCATCACGCTCGAAAGACTTACTGATG-A-ATTTGCTTCACTACTCT
1 ATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGCAGATTTGCTTCACTACTCT
24690 TCTGTGAAGGCTTAAAA
66 TCTGTGAAGGCTTAAAA
*
24707 ATTACCCGAAGAATTTAATCATCATGCTCGAAAGACTTACTGATGGCACTCTAACGGATTTGCTT
1 ATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGAT-G----C--A--GATTTGCTT
* *
24772 CACTACTTTTCTGTGAAGGCTTACAA
57 CACTACTCTTCTGTGAAGGCTTAAAA
* *
24798 ATTACCCGAAGGATTTAATCATCATGCTCAAAAGACTTATTGATG
1 ATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
24843 GCACGAAGGA
Statistics
Matches: 117, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
80 41 0.35
81 1 0.01
88 1 0.01
90 1 0.01
91 73 0.62
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (82 bp):
ATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGCAGATTTGCTTCACTACTCT
TCTGTGAAGGCTTAAAA
Found at i:24832 original size:91 final size:91
Alignment explanation
Indices: 24673--24846 Score: 303
Period size: 91 Copynumber: 1.9 Consensus size: 91
24663 TTACTGATGA
*
24673 ATTTGCTTCACTACTCTTCTGTGAAGGCTTAAAAATTACCCGAAGAATTTAATCATCATGCTCGA
1 ATTTGCTTCACTACTCTTCTGTGAAGGCTTAAAAATTACCCGAAGAATTTAATCATCATGCTCAA
24738 AAGACTTACTGATGGCACTCTAACGG
66 AAGACTTACTGATGGCACTCTAACGG
* * *
24764 ATTTGCTTCACTACTTTTCTGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCATGCTCAA
1 ATTTGCTTCACTACTCTTCTGTGAAGGCTTAAAAATTACCCGAAGAATTTAATCATCATGCTCAA
*
24829 AAGACTTATTGATGGCAC
66 AAGACTTACTGATGGCAC
24847 GAAGGACTTA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 78 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (91 bp):
ATTTGCTTCACTACTCTTCTGTGAAGGCTTAAAAATTACCCGAAGAATTTAATCATCATGCTCAA
AAGACTTACTGATGGCACTCTAACGG
Found at i:25162 original size:214 final size:214
Alignment explanation
Indices: 24787--26279 Score: 2377
Period size: 207 Copynumber: 7.1 Consensus size: 214
24777 CTTTTCTGTG
* * * * * *
24787 AAGGCTTACAAATTACCCGAAGGATTTAATCATCATGCTCAAAAGACTTATTGATGGCACGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* * *
24852 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTAGCTTTCAAAAATTTCATCATCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
* *
24917 ATCATTCTCTT-ATTTTCAAATTCA-ATGAAAACATCCTACCCGAAGG-TCTTATGGACGGCCCG
131 ATCATT-T-TTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGCT-TTATGGATGGCCCG
24979 AAGGACTTATCATCTTGCTCTA
193 AAGGACTTATCATCTTGCTCTA
* * *
25001 AAGGCTTACAGATGACCTGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCCGAAGA
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* *
25066 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTTGTTTTCAAAAATTTCATCATCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
* * * *
25131 ATCATTTTTCTTTTTCAAATTCATGTGAAAACATCCTACCTGAAGACTTTATGGATGGCTCGAAG
131 ATCATTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGCTTTATGGATGGCCCGAAG
*
25196 GACTTATCATCATGCTCTA
196 GACTTATCATCTTGCTCTA
*
25215 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGATTTACTGATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
*
25280 ACTTATAAATTGTGAAATTTTGAAAATTGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
*
25345 ATGATTTTTCCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGCTTTATGGATGGCCCGAA
131 ATCATTTTT-CATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGCTTTATGGATGGCCCGAA
25410 GGACTTATCATCTTGCTCTA
195 GGACTTATCATCTTGCTCTA
*
25430 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGATCGAAAGACTTACTGATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* *
25495 ACTTATAAATTGTGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
*
25560 ATCATTTTTCCATTTTCAAATTCATGTGAAAACAACCTACCCGAAGGCTTTATGGATGGCCCGAA
131 ATCATTTTT-CATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGCTTTATGGATGGCCCGAA
25625 GGACTTATCATCTTGCTCTA
195 GGACTTATCATCTTGCTCTA
25645 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
*
25710 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATATTCTT-AAA-
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
* * *
25773 A-C----TTCATTTTCAAATTCATGTAAAAACATCCTATCCGAAGGCTTTATAGATGGCCCGAAG
131 ATCATTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGCTTTATGGATGGCCCGAAG
25833 GACTTATCATCTTGCTCTA
196 GACTTATCATCTTGCTCTA
* * *
25852 AAGGCTTACAGATGACCCGAAAGATTTAAGCATCATGCTCGAAAGACTTACTGATGTCCCGAAAG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* *
25917 ACTTATAAATTGTGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAACTTCATCTTCTT-AAA-
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
25980 A-C----TTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGCTTTATGGATGGCCCGAAG
131 ATCATTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGCTTTATGGATGGCCCGAAG
*
26040 GACTTATCATCTTGCTTTA
196 GACTTATCATCTTGCTCTA
*
26059 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAATG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
*
26124 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCATTTTCAAAAATTTCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
*
26189 --C----TT-ATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGCTTTATAGATGGCCCGAAG
131 ATCATTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGCTTTATGGATGGCCCGAAG
* * *
26247 GACCTATCACCTTTCTCTA
196 GACTTATCATCTTGCTCTA
26266 AAGGCTTACAGATG
1 AAGGCTTACAGATG
26280 GATTTGTTTC
Statistics
Matches: 1208, Mismatches: 65, Indels: 19
0.93 0.05 0.01
Matches are distributed among these distances:
207 470 0.39
208 8 0.01
212 3 0.00
213 14 0.01
214 313 0.26
215 400 0.33
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (214 bp):
AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
ATCATTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGCTTTATGGATGGCCCGAAG
GACTTATCATCTTGCTCTA
Found at i:25451 original size:41 final size:41
Alignment explanation
Indices: 25399--25500 Score: 123
Period size: 42 Copynumber: 2.5 Consensus size: 41
25389 AGGCTTTATG
* * * *
25399 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACA
1 GATGGCCCGAAGGACTTATCATCATGATCGAAAGACTTACA
* * * *
25440 GATGACCCGAAGGATTTAAGCATCATGATCGAAAGACTTACT
1 GATGGCCCGAAGGACTT-ATCATCATGATCGAAAGACTTACA
25482 GATGGCCCGAAGGACTTAT
1 GATGGCCCGAAGGACTTAT
25501 AAATTGTGAA
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
41 16 0.33
42 33 0.67
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTATCATCATGATCGAAAGACTTACA
Found at i:25666 original size:41 final size:41
Alignment explanation
Indices: 25614--25715 Score: 132
Period size: 42 Copynumber: 2.5 Consensus size: 41
25604 AGGCTTTATG
* * *
25614 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACA
1 GATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTTACA
* * * *
25655 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACT
1 GATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGACTTACA
25697 GATGGCCCGAAGGACTTAT
1 GATGGCCCGAAGGACTTAT
25716 AAATTGTGAA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 16 0.32
42 34 0.68
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.25
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTTACA
Found at i:26080 original size:41 final size:41
Alignment explanation
Indices: 26028--26129 Score: 114
Period size: 42 Copynumber: 2.5 Consensus size: 41
26018 AGGCTTTATG
* ** *
26028 GATGGCCCGAAGGACTTATCATCTTGCTTTAAAGGCTTACA
1 GATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTTACA
* * * *
26069 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACT
1 GATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGACTTACA
*
26111 GATGGCCCGAATGACTTAT
1 GATGGCCCGAAGGACTTAT
26130 AAATTGTGAA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
41 16 0.33
42 32 0.67
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTTACA
Found at i:26369 original size:36 final size:36
Alignment explanation
Indices: 26266--26421 Score: 194
Period size: 36 Copynumber: 4.3 Consensus size: 36
26256 CCTTTCTCTA
*
26266 AAGGCTTACAGATGGATTTGTTTCACTACTCTTCGGTG
1 AAGGCTTA-AGATGG-TTTGCTTCACTACTCTTCGGTG
26304 AAGGCTTAAGATGG--TGCTTCACTACTCTTCTGG-G
1 AAGGCTTAAGATGGTTTGCTTCACTACTCTTC-GGTG
26338 AAGGCTTAAGATGGTTTGCTTCACT-CATCTTCGGTG
1 AAGGCTTAAGATGGTTTGCTTCACTAC-TCTTCGGTG
* * * **
26374 AAGGCTTAAAATGGTCTGCTTCACTCCTCTTTAGTG
1 AAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTG
26410 AAGGCTTAAGAT
1 AAGGCTTAAGAT
26422 TGACTTGCCC
Statistics
Matches: 106, Mismatches: 6, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
34 30 0.28
35 5 0.05
36 56 0.53
37 7 0.07
38 8 0.08
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (36 bp):
AAGGCTTAAGATGGTTTGCTTCACTACTCTTCGGTG
Found at i:26977 original size:27 final size:27
Alignment explanation
Indices: 26947--27006 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
26937 ACCGTCTTCA
*
26947 TTTTCTTTCTTTATTTCGGAGAAAGTG
1 TTTTCTTTCTTCATTTCGGAGAAAGTG
26974 TTTTCTTTCTTCATTTCGGAGAAAGTG
1 TTTTCTTTCTTCATTTCGGAGAAAGTG
27001 TTTTCT
1 TTTTCT
27007 CTCTCAACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.17, C:0.13, G:0.17, T:0.53
Consensus pattern (27 bp):
TTTTCTTTCTTCATTTCGGAGAAAGTG
Found at i:28548 original size:2 final size:2
Alignment explanation
Indices: 28537--28567 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
28527 TTGTATACAC
28537 AT AT -T 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
28568 TGTTGGGTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:33370 original size:20 final size:20
Alignment explanation
Indices: 33347--33389 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
33337 AATCCACCAC
*
33347 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
33367 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
33387 ATG
1 ATG
33390 GGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:36172 original size:21 final size:21
Alignment explanation
Indices: 36143--36241 Score: 171
Period size: 21 Copynumber: 4.7 Consensus size: 21
36133 ATTCATGTGT
36143 AATGGTCTTCATGTCTTTATG
1 AATGGTCTTCATGTCTTTATG
* *
36164 AAGGGTCTTCATGACTTTATG
1 AATGGTCTTCATGTCTTTATG
*
36185 AATGGTCTTCATGACTTTATG
1 AATGGTCTTCATGTCTTTATG
36206 AATGGTCTTCATGTCTTTATG
1 AATGGTCTTCATGTCTTTATG
36227 AATGGTCTTCATGTC
1 AATGGTCTTCATGTC
36242 CTTGGTATAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 74 1.00
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.43
Consensus pattern (21 bp):
AATGGTCTTCATGTCTTTATG
Found at i:40561 original size:182 final size:182
Alignment explanation
Indices: 40251--40609 Score: 551
Period size: 182 Copynumber: 2.0 Consensus size: 182
40241 CAACTTTAAA
* *
40251 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGTCCCAAAATGACAA
1 AAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAACCGGTCCCAAAATGACAA
* * * *
40316 ATCCGGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCAACACTTTC
66 AACCGATAAAACACTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCAACACTTT-
* * *
40381 T-GAATTTAAAAGAGAATAAGTTATAGTGCCTAAAAAGTGTCGATACTTTATG
130 TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGATACTTTATG
*
40433 AAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAACCGGTCTCAAAATGACAA
1 AAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAACCGGTCCCAAAATGACAA
** * *
40498 AACCGATAAAGA-ACTATTAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTT
66 AACCGATAAA-ACACTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCAACACTTT
*
40562 TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTATCGATACT
130 TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGATACT
40610 CTTTAAATTT
Statistics
Matches: 160, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
181 1 0.01
182 158 0.99
183 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (182 bp):
AAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAACCGGTCCCAAAATGACAA
AACCGATAAAACACTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCAACACTTTT
GGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGATACTTTATG
Found at i:41101 original size:23 final size:23
Alignment explanation
Indices: 41052--41095 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
41042 GTCTATTTTA
* *
41052 TTATATAAGCGCTACCTATTACT
1 TTATATAAGAGCTACCTAATACT
41075 TTATATAAGAGCTACCTAATA
1 TTATATAAGAGCTACCTAATA
41096 TGTTATTGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
TTATATAAGAGCTACCTAATACT
Found at i:41117 original size:87 final size:87
Alignment explanation
Indices: 40967--41129 Score: 272
Period size: 87 Copynumber: 1.9 Consensus size: 87
40957 AAATGTGTCA
* *
40967 ATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGGTAATATTT
1 ATATAAGCGCTACATATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
41032 CCGGTTAAATGTCTATTTTATT
66 CCGGTTAAATGTCTATTTTATT
* * * *
41054 ATATAAGCGCTACCTATTACTTTATATAAGAGCTACCTAATATGTTATTGTGCTTGATCATATTT
1 ATATAAGCGCTACATATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
41119 CCGGTTAAATG
66 CCGGTTAAATG
41130 GCCGTCCCTT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (87 bp):
ATATAAGCGCTACATATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGTCTATTTTATT
Found at i:43541 original size:19 final size:20
Alignment explanation
Indices: 43512--43567 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
43502 TATTGCTCAT
*
43512 AGTTTGGAAACTTT-GTAAG
1 AGTTTTGAAACTTTAGTAAG
* *
43531 AGTTTTTAAACTTTTATTAAG
1 AGTTTTGAAAC-TTTAGTAAG
43552 AGTTTTGAAACTTTAG
1 AGTTTTGAAACTTTAG
43568 AAAAGTTTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 9 0.30
20 7 0.23
21 14 0.47
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (20 bp):
AGTTTTGAAACTTTAGTAAG
Found at i:53997 original size:41 final size:40
Alignment explanation
Indices: 53889--53999 Score: 195
Period size: 40 Copynumber: 2.8 Consensus size: 40
53879 AGGACACTAA
*
53889 GTGTACATGGTGGGCACGACCTTATGTGTAATACACTTCG
1 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCG
*
53929 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTTG
1 GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCG
53969 GTGTATATGGTGGGGCACGACCTTATGTGTA
1 GTGTATATGGT-GGGCACGACCTTATGTGTA
54000 GCTCTATGGT
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
40 49 0.72
41 19 0.28
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (40 bp):
GTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCG
Found at i:54642 original size:19 final size:19
Alignment explanation
Indices: 54614--54666 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
54604 TTGCTTAAGG
*
54614 GGAACCGATTCCCCTTATA
1 GGAACTGATTCCCCTTATA
54633 GGAACTGATTCCCCTTATA
1 GGAACTGATTCCCCTTATA
54652 GGAA-TCGATTCCCCT
1 GGAACT-GATTCCCCT
54667 ACTGTACACT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 1 0.03
19 31 0.97
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (19 bp):
GGAACTGATTCCCCTTATA
Found at i:66303 original size:21 final size:22
Alignment explanation
Indices: 66274--66316 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
66264 GTAGTAATTG
*
66274 AAATAATTTATCTTTT-ATTTT
1 AAATAATTTACCTTTTAATTTT
*
66295 AAATTATTTACCTTTTAATTTT
1 AAATAATTTACCTTTTAATTTT
66317 GAACTTACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (22 bp):
AAATAATTTACCTTTTAATTTT
Found at i:70122 original size:18 final size:18
Alignment explanation
Indices: 70099--70136 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
70089 CAACGGTCAA
70099 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
70117 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
70135 CG
1 CG
70137 ATCAGGTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.11, C:0.24, G:0.50, T:0.16
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:70136 original size:13 final size:13
Alignment explanation
Indices: 70093--70122 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
70083 GTCGGTCAAC
70093 GGTCAACGGGTCG
1 GGTCAACGGGTCG
70106 GGTCAACGGGTCG
1 GGTCAACGGGTCG
70119 GGTC
1 GGTC
70123 GGGTCAACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.47, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:71587 original size:13 final size:13
Alignment explanation
Indices: 71569--71597 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
71559 TTCTATCAAC
71569 TAAAAATCATATT
1 TAAAAATCATATT
71582 TAAAAATCATATT
1 TAAAAATCATATT
71595 TAA
1 TAA
71598 TTAAAACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAAATCATATT
Found at i:76766 original size:2 final size:2
Alignment explanation
Indices: 76759--76793 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
76749 TACCAAATAC
76759 AT AT AT AT AT AT AT AT AT AT AT A- 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
76794 CAATGCCTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:78134 original size:4 final size:4
Alignment explanation
Indices: 78125--78159 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
78115 CACATTCACA
78125 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
78160 GGAGAAGCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:82613 original size:14 final size:14
Alignment explanation
Indices: 82585--82626 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
82575 TGGACAATTA
*
82585 AAATGAAAATAAAAT
1 AAATAAAAAT-AAAT
*
82600 TAATAAAAATAAAT
1 AAATAAAAATAAAT
82614 AAATAAAAATAAA
1 AAATAAAAATAAA
82627 CAACAATGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:82716 original size:36 final size:37
Alignment explanation
Indices: 82669--82745 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
82659 TTCTACAAAC
* *
82669 TATATAATATATA-TTTTCAAAA-GTATTTTAAAATTA
1 TATATAATATATATTTTTAAAAACGT-TTTCAAAATTA
*
82705 TATATTATATATATTTTTAAAAACGTTTTCAAAATTA
1 TATATAATATATATTTTTAAAAACGTTTTCAAAATTA
82742 TATA
1 TATA
82746 GTTTTCAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 12 0.33
37 22 0.61
38 2 0.06
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (37 bp):
TATATAATATATATTTTTAAAAACGTTTTCAAAATTA
Found at i:82800 original size:65 final size:70
Alignment explanation
Indices: 82675--82839 Score: 177
Period size: 71 Copynumber: 2.4 Consensus size: 70
82665 AAACTATATA
* * * *
82675 ATATATA-TTTTCAAAA-G-TATTTTAAAATTATATATTATATATATTTTTAAAAACGTTTTC-A
1 ATATATAGTTTTCAAAATGTTTTTTTTAAACTATATATTATATATATTTTTAAAAACGATTTCAA
82736 AA-AT
66 AACAT
*
82740 -TATATAGTTTTCAAAATGTTTTTTTTAAACTATATATTATA-AGT-TTTTT-AAAATGATTTCA
1 ATATATAGTTTTCAAAATGTTTTTTTTAAACTATATATTATATA-TATTTTTAAAAACGATTTCA
82801 AAACTAT
65 AAAC-AT
*
82808 AATATATATGTTTTCAAAATGTTTCTTTTAAA
1 -ATATATA-GTTTTCAAAATGTTTTTTTTAAA
82840 AAAATTATAT
Statistics
Matches: 84, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
64 6 0.07
65 18 0.21
66 10 0.12
67 20 0.24
68 2 0.02
70 6 0.07
71 22 0.26
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (70 bp):
ATATATAGTTTTCAAAATGTTTTTTTTAAACTATATATTATATATATTTTTAAAAACGATTTCAA
AACAT
Found at i:82912 original size:104 final size:105
Alignment explanation
Indices: 82735--82935 Score: 243
Period size: 104 Copynumber: 1.9 Consensus size: 105
82725 AAACGTTTTC
* * * * *
82735 AAAATTATATAGTTTTCAAAATGTTTTTTTTAAACTATATATTATAAGTTTTTTAAAATGATTTC
1 AAAATTATATAGTTTTCAAAATGTTTTTTTAAAACCATATAATATAAGTTTTTTAAAACGATTTA
82800 AAAACTATA-ATATATATGT-TTTCAAAATGTTTCTTTTAAA
66 AAAACTATATAT-TATAT-TATTTCAAAATGTTTCTTTTAAA
* *
82840 AAAATTATATTA-TTTT-AAAATGTTTTTTTAAAACCGTATAATAT-A-TTTTCTTAAAAACGTT
1 AAAATTATA-TAGTTTTCAAAATGTTTTTTTAAAACCATATAATATAAGTTTT-TT-AAAACGAT
*
82901 TTAAAAACTATATATTATATTATTTCAAAGTGTTT
63 TTAAAAACTATATATTATATTATTTCAAAATGTTT
82936 TAAAAACTAT
Statistics
Matches: 83, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
102 4 0.05
103 4 0.05
104 58 0.70
105 15 0.18
106 2 0.02
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.48
Consensus pattern (105 bp):
AAAATTATATAGTTTTCAAAATGTTTTTTTAAAACCATATAATATAAGTTTTTTAAAACGATTTA
AAAACTATATATTATATTATTTCAAAATGTTTCTTTTAAA
Found at i:82920 original size:35 final size:34
Alignment explanation
Indices: 82876--82946 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
82866 TTTAAAACCG
*
82876 TATAATATATTTTCTTAAAAACGTTTTAAAAACTA
1 TATAATATATTAT-TTAAAAACGTTTTAAAAACTA
* * **
82911 TATATTATATTATTTCAAAGTGTTTTAAAAACTA
1 TATAATATATTATTTAAAAACGTTTTAAAAACTA
82945 TA
1 TA
82947 ATATATAGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
34 20 0.65
35 11 0.35
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (34 bp):
TATAATATATTATTTAAAAACGTTTTAAAAACTA
Found at i:82936 original size:34 final size:35
Alignment explanation
Indices: 82898--82988 Score: 100
Period size: 34 Copynumber: 2.7 Consensus size: 35
82888 TCTTAAAAAC
*
82898 GTTTTAAAAACTATATATTATATTATTTCAAA-GT
1 GTTTTAAAAACTATATATTATATTATTTCAAATAT
* *
82932 GTTTTAAAAACTATA-ATATATAGATGTTTCAAATAT
1 GTTTTAAAAACTATATAT-TATA-TTATTTCAAATAT
*
82968 GTTTTCAAAA-T-TATATTATAT
1 GTTTTAAAAACTATATATTATAT
82989 ATATATGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
33 2 0.04
34 25 0.52
35 11 0.23
36 10 0.21
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (35 bp):
GTTTTAAAAACTATATATTATATTATTTCAAATAT
Found at i:83754 original size:84 final size:81
Alignment explanation
Indices: 83613--84089 Score: 464
Period size: 81 Copynumber: 5.8 Consensus size: 81
83603 ACCCCGCAGT
* * * * *
83613 TGAGTGTAATCAAACTCG-GGAGTCTTTGG-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAT
1 TGAGTGTAATCGAACTCGAAG-GTCTTTGGTCAGATAGCCCTTCTAGCCTTAAGCTATGCTGCAA
83676 ATGATGTGCCTTGGAGC
65 ATGATGTGCCTTGGAGC
* * * * * *
83693 TGAGCGTAGTCGAACTCGAAGGTCCTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGT
1 TGAGTGTAATCGAACTCGAAGGT-CTTTGGT--CAGATAGCCCTTCTAGCCTTAAGCTATGCTGC
* *
83758 AAATGATGTGCCCTCGAAGC
63 AAATGATGTG-CCTTGGAGC
* ** * *
83778 TGAGTGTAATCGAACTTGGGGGTCTTTGG-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAA
1 TGAGTGTAATCGAACTCGAAGGTCTTTGGTCAGATAGCCCTTCTAGCCTTAAGCTATGCTGCAAA
*
83842 TGATATGCCTTGGAGC
66 TGATGTGCCTTGGAGC
* * * *
83858 TGAGTGTAATCGAACTC-AAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGT
1 TGAGTGTAATCGAACTCGAAGGTC-TTTGGT--CAGATAGCCCTTCTAGCCTTAAGCTATGCTGC
* * *
83922 AAATGCTATGCCCTTGAAGC
63 AAATGATGTG-CCTTGGAGC
* * * *
83942 TGAGTGTAATCGAACT-TAAGGGTCTTTGG-CAGATAGCCCTTCTTGACTTTAAGCTATTCTGCA
1 TGAGTGTAATCGAACTCGAA-GGTCTTTGGTCAGATAGCCCTTCTAG-CCTTAAGCTATGCTGCA
84005 AATGATGTGCCTTGGAGC
64 AATGATGTGCCTTGGAGC
* * * * * *
84023 TGAGCGTAGTCGAACTCGAAGGTC-TTGGTGGCAGGTAGCCCTTCTGGCCTTGAGCTAAGCTGCA
1 TGAGTGTAATCGAACTCGAAGGTCTTTGGT--CAGATAGCCCTTCTAGCCTTAAGCTATGCTGCA
84087 AAT
64 AAT
84090 AGTTTGTTTA
Statistics
Matches: 322, Mismatches: 57, Indels: 34
0.78 0.14 0.08
Matches are distributed among these distances:
79 4 0.01
80 49 0.15
81 82 0.25
82 37 0.11
83 49 0.15
84 72 0.22
85 29 0.09
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (81 bp):
TGAGTGTAATCGAACTCGAAGGTCTTTGGTCAGATAGCCCTTCTAGCCTTAAGCTATGCTGCAAA
TGATGTGCCTTGGAGC
Found at i:83955 original size:164 final size:165
Alignment explanation
Indices: 83568--84048 Score: 741
Period size: 165 Copynumber: 2.9 Consensus size: 165
83558 TGACAAATAG
* * * * * * * *
83568 CCCTTCTTGCCATGAGCTATGTTGTAAATGATATGACCC-CGCAGTTGAGTGTAATCAAACTCGG
1 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG-CCCTCGAAGCTGAGTGTAATCGAACTTGG
* *
83632 GAGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCATATGATGTGCCTTGGAGCTGAG
65 GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAG
*
83697 CGTAGTCGAACTCGAAGGTCCTTTGGTCACAGATAA
130 CGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAA
*
83733 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGGG
1 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGGG
* *
83798 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGT
66 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
83863 GTAATCGAACTC-AAGGTCTTTTGGTCACAGATAA
131 GTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAA
* * **
83897 CCCTTCTAGCCTTGAGTTATGCTGTAAATGCTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
1 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGGG
* *
83962 GGTCTTTGGCAGATAGCCCTTCTTGACTTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAG
66 GGTCTTTGGCAGATAGCCCTTCTCGAC-TTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAG
84027 CGTAGTCGAACTCGAAGGTCTT
130 CGTAGTCGAACTCGAAGGTCTT
84049 GGTGGCAGGT
Statistics
Matches: 288, Mismatches: 25, Indels: 5
0.91 0.08 0.02
Matches are distributed among these distances:
164 110 0.38
165 170 0.59
166 8 0.03
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (165 bp):
CCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGGG
GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
GTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAA
Found at i:90583 original size:14 final size:14
Alignment explanation
Indices: 90555--90596 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
90545 TGGACAATTA
*
90555 AAATGAAAATAAAAT
1 AAATAAAAAT-AAAT
*
90570 TAATAAAAATAAAT
1 AAATAAAAATAAAT
90584 AAATAAAAATAAA
1 AAATAAAAATAAA
90597 CAACAATGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:90686 original size:36 final size:37
Alignment explanation
Indices: 90639--90715 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
90629 TTCTACAAAC
* *
90639 TATATAATATATA-TTTTCAAAA-GTATTTTAAAATTA
1 TATATAATATATATTTTTAAAAACGT-TTTCAAAATTA
*
90675 TATATTATATATATTTTTAAAAACGTTTTCAAAATTA
1 TATATAATATATATTTTTAAAAACGTTTTCAAAATTA
90712 TATA
1 TATA
90716 GTTTTCAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 12 0.33
37 22 0.61
38 2 0.06
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (37 bp):
TATATAATATATATTTTTAAAAACGTTTTCAAAATTA
Found at i:90724 original size:65 final size:64
Alignment explanation
Indices: 90646--90780 Score: 159
Period size: 65 Copynumber: 2.1 Consensus size: 64
90636 AACTATATAA
* *
90646 TATATATTTTCAAAA-G-TATTTTAAAATTATATATTATATA-TATTTTTAAAAACGTTTTCAAA
1 TATATATTTTCAAAATGTTATTTTAAAACTATATATTATA-AGT-TTTTT-AAAACGATTTCAAA
*
90708 AT
63 AC
* * *
90710 TATATAGTTTTCAAAATGTTTTTTTTAAACTATATATTATAAGTTTTTTAAAATGATTTCAAAAC
1 TATATA-TTTTCAAAATGTTATTTTAAAACTATATATTATAAGTTTTTTAAAACGATTTCAAAAC
90775 TATATA
1 TATATA
90781 ATATATGTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
64 6 0.10
65 28 0.46
66 7 0.11
67 20 0.33
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.49
Consensus pattern (64 bp):
TATATATTTTCAAAATGTTATTTTAAAACTATATATTATAAGTTTTTTAAAACGATTTCAAAAC
Found at i:90811 original size:15 final size:15
Alignment explanation
Indices: 90788--90844 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
90778 ATAATATATG
*
90788 TTTTCAAAATGTTCTT
1 TTTTAAAAATGTT-TT
* *
90804 TTTAAAAAATTATATTT
1 TTTTAAAAA-TGT-TTT
90821 ATTTTAAAAATGTTTT
1 -TTTTAAAAATGTTTT
90837 TTTTAAAA
1 TTTTAAAA
90845 CCGTATAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
15 8 0.24
16 10 0.30
17 6 0.18
18 9 0.27
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (15 bp):
TTTTAAAAATGTTTT
Found at i:90880 original size:35 final size:36
Alignment explanation
Indices: 90848--90928 Score: 110
Period size: 36 Copynumber: 2.3 Consensus size: 36
90838 TTTAAAACCG
90848 TATAATATATTT-TCTTAAAAACGTTTTAAAAACTA
1 TATAATATATTTATCTTAAAAACGTTTTAAAAACTA
* * * **
90883 TATATTATATTTATTTTCAAAGTGTTTTAAAAACTA
1 TATAATATATTTATCTTAAAAACGTTTTAAAAACTA
90919 TATAATATAT
1 TATAATATAT
90929 AGATGTTTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
35 11 0.28
36 28 0.72
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (36 bp):
TATAATATATTTATCTTAAAAACGTTTTAAAAACTA
Found at i:90959 original size:38 final size:37
Alignment explanation
Indices: 90865--90972 Score: 128
Period size: 36 Copynumber: 2.9 Consensus size: 37
90855 TATTTTCTTA
* * *
90865 AAAACGTTTTAAAAACTATATATTATATTTAT-TTTC
1 AAAATGTTTTAAAAACTATATAATATATATATGTTTC
* *
90901 AAAGTGTTTTAAAAACTATATAATATATAGATGTTTC
1 AAAATGTTTTAAAAACTATATAATATATATATGTTTC
* * *
90938 AAATATGTTTTCAAAATTATATTATATATATATGT
1 AAA-ATGTTTTAAAAACTATATAATATATATATGT
90973 ATATACAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
36 27 0.45
37 7 0.12
38 26 0.43
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (37 bp):
AAAATGTTTTAAAAACTATATAATATATATATGTTTC
Found at i:91698 original size:81 final size:80
Alignment explanation
Indices: 91590--92067 Score: 483
Period size: 81 Copynumber: 5.8 Consensus size: 80
91580 ACCCCGCAGT
* * *
91590 TGAGTGTAATCGAACTCG-GGAGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCATA
1 TGAGTGTAATCGAACTCGAAG-GTCTTTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAA
91654 TGATGTGCCTTGGAGC
65 TGATGTGCCTTGGAGC
* * * * * * *
91670 TGAGCGTAGTCGAACTCGAAGGTCCTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGT
1 TGAGTGTAATCGAACTCGAAGGT-CTTTGG---CAGATAGCCCTTCTAGACTTAAGCTATGCTGC
* *
91735 AAATGATGTGCCCTCGAAGC
62 AAATGATGTG-CCTTGGAGC
* ** *
91755 TGAGTGTAATCGAACTTGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
1 TGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAAT
*
91820 GATATGCCTTGGAGC
66 GATGTGCCTTGGAGC
* * * * * *
91835 TGAGTGTAATCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGT
1 TGAGTGTAATCGAACTCGAAGGTC-TTTGG---CAGATAGCCCTTCTAGACTTAAGCTATGCTGC
* * *
91900 AAATGCTATGCCCTTGAAGC
62 AAATGATGTG-CCTTGGAGC
* * *
91920 TGAGTGTAATCGAACT-TAAGGGTCTTTGGCAGATAGCCCTTCTTGACTTTAAGCTATTCTGCAA
1 TGAGTGTAATCGAACTCGAA-GGTCTTTGGCAGATAGCCCTTCTAGAC-TTAAGCTATGCTGCAA
91984 ATGATGTGCCTTGGAGC
64 ATGATGTGCCTTGGAGC
* * * * * * *
92001 TGAGCGTAGTCGAACTCGAAGGTCTTGGTGGCAGGTAGCCCTTCTGGCCTTGAGCTAAGCTGCAA
1 TGAGTGTAATCGAACTCGAAGGTCTT--TGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAA
92066 AT
64 AT
92068 AGTTTGTTTA
Statistics
Matches: 324, Mismatches: 58, Indels: 30
0.79 0.14 0.07
Matches are distributed among these distances:
80 45 0.14
81 90 0.28
82 35 0.11
83 18 0.06
84 83 0.26
85 53 0.16
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (80 bp):
TGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTGCAAAT
GATGTGCCTTGGAGC
Found at i:91830 original size:165 final size:165
Alignment explanation
Indices: 91545--92054 Score: 747
Period size: 165 Copynumber: 3.1 Consensus size: 165
91535 TGACAAATAG
* * * * * * *
91545 CCCTTCTTGCCATGAGCTATGTTGTAAATGATATGACCC-CGCAGTTGAGTGTAATCGAACTCGG
1 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG-CCCTCGAAGCTGAGTGTAATCGAACTTGG
* *
91609 GAGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCATATGATGTGCCTTGGAGCTGAG
65 GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAG
91674 CGTAGTCGAACTCGAAGGTCCTTTGGTCACAGATAA
130 CGTAGTCGAACTCGAAGGTCCTTTGGTCACAGATAA
*
91710 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGGG
1 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGGG
* *
91775 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGT
66 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
* * *
91840 GTAATCGAACTCAAAGGTCTTTTGGTCACAGATAA
131 GTAGTCGAACTCGAAGGTCCTTTGGTCACAGATAA
* * **
91875 CCCTTCTAGCCTTGAGTTATGCTGTAAATGCTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
1 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGGG
* *
91940 GGTCTTTGGCAGATAGCCCTTCTTGACTTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAG
66 GGTCTTTGGCAGATAGCCCTTCTCGAC-TTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAG
** * *
92005 CGTAGTCGAACTCGAAGGT-C-TTGGTGGCAGGTAG
130 CGTAGTCGAACTCGAAGGTCCTTTGGTCACAGATAA
*
92039 CCCTTCTGGCCTTGAG
1 CCCTTCTAGCCTTGAG
92055 CTAAGCTGCA
Statistics
Matches: 311, Mismatches: 32, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
164 28 0.09
165 232 0.75
166 51 0.16
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.30
Consensus pattern (165 bp):
CCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGGG
GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
GTAGTCGAACTCGAAGGTCCTTTGGTCACAGATAA
Found at i:91946 original size:85 final size:85
Alignment explanation
Indices: 91545--91946 Score: 362
Period size: 84 Copynumber: 4.8 Consensus size: 85
91535 TGACAAATAG
* * * * * * * **
91545 CCCTTCTTGCCATGAGCTATGTTGTAAATGATATGACCC-CGCAGTTGAGTGTAATCGAAC-TCG
1 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG-CCCTTGAAGCTGAGTGTAATCGAACTTAA
*
91608 GGAGTC-TTTGG---CAGATAG
65 GG-GTCTTTTGGTCACAGATAA
* * * * * * * * * * *
91626 CCCTTCTCGACTTAAGCTATGCTGCATATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAA
1 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAATCGAACT-TAA
*
91690 -GGTCCTTTGGTCACAGATAA
65 GGGTCTTTTGGTCACAGATAA
* * **
91710 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGGG
1 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
*
91775 GGTC-TTTGG---CAGATAG
66 GGTCTTTTGGTCACAGATAA
* * * * * * * *
91791 CCCTTCTCGACTTAAGCTATGCTGCAAATGATATG-CCTTGGAGCTGAGTGTAATCGAACTCAAA
1 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
91855 GGTCTTTTGGTCACAGATAA
66 GGTCTTTTGGTCACAGATAA
*
91875 CCCTTCTAGCCTTGAGTTATGCTGTAAATGCTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
1 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
91940 GGTCTTT
66 GGTCTTT
91947 GGCAGATAGC
Statistics
Matches: 254, Mismatches: 53, Indels: 24
0.77 0.16 0.07
Matches are distributed among these distances:
79 2 0.01
80 46 0.18
81 73 0.29
84 75 0.30
85 58 0.23
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (85 bp):
CCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
GGTCTTTTGGTCACAGATAA
Found at i:97292 original size:19 final size:20
Alignment explanation
Indices: 97256--97293 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
97246 AATGTTAGAT
97256 AAATCAAAAAAAACATAAAA
1 AAATCAAAAAAAACATAAAA
97276 AAAT-AAAAATAAA-ATAAA
1 AAATCAAAAA-AAACATAAA
97294 GTGTCGACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (20 bp):
AAATCAAAAAAAACATAAAA
Found at i:98676 original size:32 final size:34
Alignment explanation
Indices: 98629--98700 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 34
98619 TTCTACAAAC
* *
98629 TATATATATATA-TTTTCAAAA-GTATTTTAAAAT
1 TATATATATATATTTTTAAAAACGT-TTTCAAAAT
98662 TATAT-TATATATTTTTAAAAACGTTTTCAAAAT
1 TATATATATATATTTTTAAAAACGTTTTCAAAAT
98695 TATATA
1 TATATA
98701 GTTTTCAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 6 0.18
33 26 0.76
34 2 0.06
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (34 bp):
TATATATATATATTTTTAAAAACGTTTTCAAAAT
Found at i:98871 original size:35 final size:36
Alignment explanation
Indices: 98839--98919 Score: 110
Period size: 36 Copynumber: 2.3 Consensus size: 36
98829 TTTAAAACCG
98839 TATAATATATTT-TCTTAAAAACGTTTTAAAAACTA
1 TATAATATATTTATCTTAAAAACGTTTTAAAAACTA
* * * **
98874 TATATTATATTTATTTTCAAAGTGTTTTAAAAACTA
1 TATAATATATTTATCTTAAAAACGTTTTAAAAACTA
98910 TATAATATAT
1 TATAATATAT
98920 AGATGTTTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
35 11 0.28
36 28 0.72
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (36 bp):
TATAATATATTTATCTTAAAAACGTTTTAAAAACTA
Found at i:98950 original size:38 final size:37
Alignment explanation
Indices: 98856--98963 Score: 128
Period size: 36 Copynumber: 2.9 Consensus size: 37
98846 TATTTTCTTA
* * *
98856 AAAACGTTTTAAAAACTATATATTATATTTAT-TTTC
1 AAAATGTTTTAAAAACTATATAATATATATATGTTTC
* *
98892 AAAGTGTTTTAAAAACTATATAATATATAGATGTTTC
1 AAAATGTTTTAAAAACTATATAATATATATATGTTTC
* * *
98929 AAATATGTTTTCAAAATTATATTATATATATATGT
1 AAA-ATGTTTTAAAAACTATATAATATATATATGT
98964 ATATACAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
36 27 0.45
37 7 0.12
38 26 0.43
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (37 bp):
AAAATGTTTTAAAAACTATATAATATATATATGTTTC
Found at i:104661 original size:23 final size:21
Alignment explanation
Indices: 104635--104679 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
104625 TAACTTTTGC
*
104635 TCATGTTTATTAAATTTTGCAAT
1 TCAT-TTTATGAAATTTTG-AAT
*
104658 TCATTTTATGATATTTTGAAT
1 TCATTTTATGAAATTTTGAAT
104679 T
1 T
104680 GAGACCATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 12 0.60
23 4 0.20
ACGTcount: A:0.29, C:0.07, G:0.09, T:0.56
Consensus pattern (21 bp):
TCATTTTATGAAATTTTGAAT
Found at i:105831 original size:21 final size:21
Alignment explanation
Indices: 105783--105831 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
105773 TTTTTTTCTC
105783 TTCCTTTCCTTTCGGTTTTGT
1 TTCCTTTCCTTTCGGTTTTGT
* * *
105804 TTGCTTTTCTTTCTGTTGTT-T
1 TTCCTTTCCTTTCGGTT-TTGT
105825 TTCCTTT
1 TTCCTTT
105832 GCTTCCTCTC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.00, C:0.20, G:0.12, T:0.67
Consensus pattern (21 bp):
TTCCTTTCCTTTCGGTTTTGT
Found at i:105865 original size:44 final size:43
Alignment explanation
Indices: 105817--105904 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 43
105807 CTTTTCTTTC
105817 TGTTGTTTTTCCTTTGCTTCCTCTCGTATGGATGCTTCCTTTTT
1 TGTTGTTTTTCCTTTGCTTCCTCTCGTATGGATGC-TCCTTTTT
*
105861 TGTTGTTTTTCCTTTGCTTCCTCTCGTATGGATGCTCTTTTTT
1 TGTTGTTTTTCCTTTGCTTCCTCTCGTATGGATGCTCCTTTTT
105904 T
1 T
105905 TACAGGTTCG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 8 0.19
44 35 0.81
ACGTcount: A:0.05, C:0.22, G:0.16, T:0.58
Consensus pattern (43 bp):
TGTTGTTTTTCCTTTGCTTCCTCTCGTATGGATGCTCCTTTTT
Found at i:105905 original size:44 final size:44
Alignment explanation
Indices: 105807--105905 Score: 155
Period size: 44 Copynumber: 2.2 Consensus size: 44
105797 GTTTTGTTTG
105807 CTTTTCTTTCTGTTGTTTTTCCTTTGCTTCCTCTCGTATGGATGCT
1 CTTTT-TTT-TGTTGTTTTTCCTTTGCTTCCTCTCGTATGGATGCT
*
105853 -TCCTTTTTTGTTGTTTTTCCTTTGCTTCCTCTCGTATGGATGCT
1 CT-TTTTTTTGTTGTTTTTCCTTTGCTTCCTCTCGTATGGATGCT
105897 CTTTTTTTT
1 CTTTTTTTT
105906 ACAGGTTCGT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
44 42 0.86
45 5 0.10
46 2 0.04
ACGTcount: A:0.04, C:0.22, G:0.14, T:0.60
Consensus pattern (44 bp):
CTTTTTTTTGTTGTTTTTCCTTTGCTTCCTCTCGTATGGATGCT
Found at i:112034 original size:3 final size:3
Alignment explanation
Indices: 112026--112085 Score: 84
Period size: 3 Copynumber: 20.0 Consensus size: 3
112016 TTTGATTTAT
* * * *
112026 TTA TTA TTA TTA TTA CTA TAA TTA TTA TTA TTA TAA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
112074 TTA TTA TTA TTA
1 TTA TTA TTA TTA
112086 AATATATTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:112066 original size:12 final size:12
Alignment explanation
Indices: 112051--112094 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
112041 CTATAATTAT
112051 TATTATTATAAA
1 TATTATTATAAA
* *
112063 TATTATTATTAT
1 TATTATTATAAA
112075 TATTATTATTAAA
1 TATTATTA-TAAA
112088 TA-TATTA
1 TATTATTA
112095 AATATATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 23 0.85
13 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTATTATAAA
Found at i:118184 original size:15 final size:15
Alignment explanation
Indices: 118164--118195 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
118154 ATCAATACCT
118164 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
118179 TTTTGCATACATTCA
1 TTTTGCATACATGCA
118194 TT
1 TT
118196 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:125535 original size:10 final size:10
Alignment explanation
Indices: 125520--125578 Score: 66
Period size: 10 Copynumber: 5.9 Consensus size: 10
125510 ATTATGCTTG
125520 AAGAAAAAAA
1 AAGAAAAAAA
125530 AAGAAAAAAAA
1 AAG-AAAAAAA
* *
125541 AAGAGAGAAA
1 AAGAAAAAAA
125551 AAG-AAAAAA
1 AAGAAAAAAA
* *
125560 GAGAAAAAAG
1 AAGAAAAAAA
125570 AAGAAAAAA
1 AAGAAAAAA
125579 GGGGGGTCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
9 6 0.15
10 24 0.60
11 10 0.25
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:125549 original size:15 final size:14
Alignment explanation
Indices: 125523--125568 Score: 67
Period size: 15 Copynumber: 3.3 Consensus size: 14
125513 ATGCTTGAAG
125523 AAAAAAAAAGA-AA
1 AAAAAAAAAGAGAA
*
125536 AAAAAAAGAGAGAA
1 AAAAAAAAAGAGAA
125550 AAAGAAAAAAGAGAA
1 AAA-AAAAAAGAGAA
125565 AAAA
1 AAAA
125569 GAAGAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 10 0.34
14 6 0.21
15 13 0.45
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAGAGAA
Found at i:125559 original size:19 final size:18
Alignment explanation
Indices: 125535--125579 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 18
125525 AAAAAAAGAA
125535 AAAAAAAAGAGAGAAAAAG
1 AAAAAAAAGAGA-AAAAAG
125554 --AAAAAAGAGAAAAAAG
1 AAAAAAAAGAGAAAAAAG
125570 AAGAAAAAAG
1 AA-AAAAAAG
125580 GGGGGTCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 6 0.26
17 10 0.43
19 7 0.30
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAAAAGAGAAAAAAG
Found at i:126863 original size:83 final size:83
Alignment explanation
Indices: 126724--127357 Score: 1124
Period size: 83 Copynumber: 7.6 Consensus size: 83
126714 AACAAATGCC
126724 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
**
126789 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAGGA
* *
126807 ATGTGCTCATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
126872 ATTGAATTTGGAAGAGGA
66 ATTGAATTTGGAAGAGGA
126890 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
**
126955 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAGGA
*
126973 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
127038 ATTGAATTTGGAAGAGGA
66 ATTGAATTTGGAAGAGGA
*
127056 ATGTGATCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
**
127121 ATTGAATTTGGAAGAATA
66 ATTGAATTTGGAAGAGGA
* *
127139 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGATTTGGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
127204 ATTGAATTTGGAAGAGGA
66 ATTGAATTTGGAAGAGGA
* * *
127222 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGTT
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
127287 ATTGAATTTGGAAGAGGA
66 ATTGAATTTGGAAGAGGA
*
127305 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
127358 ATATGAAACC
Statistics
Matches: 525, Mismatches: 26, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 525 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.39
Consensus pattern (83 bp):
ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
ATTGAATTTGGAAGAGGA
Found at i:127914 original size:52 final size:52
Alignment explanation
Indices: 127852--127956 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
127842 TATCGATATC
127852 TGTGAAATCATCTTGAAAGATCACTTCATAATCAGATGAGTTGTTATCAGAA
1 TGTGAAATCATCTTGAAAGATCACTTCATAATCAGATGAGTTGTTATCAGAA
*
127904 TGTGAAATCATCTTGAAAGATCACTTCATAATCAGATGAGTTGTTATCGGAA
1 TGTGAAATCATCTTGAAAGATCACTTCATAATCAGATGAGTTGTTATCAGAA
127956 T
1 T
127957 TAACATGTTG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.33
Consensus pattern (52 bp):
TGTGAAATCATCTTGAAAGATCACTTCATAATCAGATGAGTTGTTATCAGAA
Found at i:128492 original size:116 final size:113
Alignment explanation
Indices: 128254--128804 Score: 736
Period size: 116 Copynumber: 4.8 Consensus size: 113
128244 GCAAAGTTTT
* * *
128254 AAATCCATCACTTGATGGATCAGCTTTTCTAGAGAAAGTTCATAATGAGAAGAACTCATC-TGAA
1 AAATCCATCACTTGATGGATCAACTTTTCCAG-GAGAGTTCATAATGAGAAGAACTCATCTTGAA
* * * *
128318 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGTTT
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
* * * *
128367 GAATTCATCA-TGTGATGGATTAAAATTTT-CAGGTAGAGTTCATAATGAGAAGAACTCATTACT
1 AAATCCATCACT-TGATGGA-TCAACTTTTCCAGG-AGAGTTCATAATGAGAAGAACTCA-T-CT
* * *
128430 TGAAGGAGGTAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
61 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
*
128483 AAATCCATCACTTGATGGATCAGCTTTTCCAGGTAGAGTTCATAATGAGAAGAACTCATTACTTG
1 AAATCCATCACTTGATGGATCAACTTTTCCAGG-AGAGTTCATAATGAGAAGAACTCA-T-CTTG
* *
128548 AAGGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
63 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
*
128599 AAATCCATCACTTGATGGATCAACTTTTCCA-GAGAAGTTCATAATAAGAAGAACTCATC-TGAA
1 AAATCCATCACTTGATGGATCAACTTTTCCAGGAG-AGTTCATAATGAGAAGAACTCATCTTGAA
** *
128662 GAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
* * *
128711 AAATCCATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCAT-TTGAA
1 AAATCCATCACTTGATGGATCAACTTTTCCAG-GAGAGTTCATAATGAGAAGAACTCATCTTGAA
*
128775 GAAGGAAGAAGAAGTTCGTAATGAGAAGAA
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAA
128805 CTCATCTGAA
Statistics
Matches: 393, Mismatches: 33, Indels: 24
0.87 0.07 0.05
Matches are distributed among these distances:
112 79 0.20
113 95 0.24
114 12 0.03
115 29 0.07
116 177 0.45
117 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (113 bp):
AAATCCATCACTTGATGGATCAACTTTTCCAGGAGAGTTCATAATGAGAAGAACTCATCTTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
Found at i:128731 original size:228 final size:230
Alignment explanation
Indices: 128254--128804 Score: 789
Period size: 228 Copynumber: 2.4 Consensus size: 230
128244 GCAAAGTTTT
*
128254 AAATCCATCACTTGATGGATCAGCTTTTCTAGAGAAAGTTCATAATGAGAAGAACTCATC-TGAA
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTTGAA
* * * ** *
128318 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTTAACCTTTTGTTTGAATTCATCATGTGAT
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCATGTGAT
* * *
128383 GGATTAAAATTTTCAGGTAGAGTTCATAATGAGAAGAACTCATTACTTGAAGGAGGTAGAAGAAA
131 GGATTAAAATTTTCAGGTAGAGTTCATAATAAGAAGAACTCATTACTTGAAGAAGGAAGAAGAAA
*
128448 TTCATAATGAGAAGAATTTGTTCAACCTTATGCTC
196 TTCATAATGAGAAGAACTTGTTCAACCTTATGCTC
*
128483 AAATCCATCACTTGATGGATCAGCTTTTCCAG-GTAGAGTTCATAATGAGAAGAACTCATTACTT
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCA-T-CTT
* *
128547 GAAGGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCACT-
63 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCA-TG
* *
128611 TGATGGA-TCAACTTTTCCA-G-AGAAGTTCATAATAAGAAGAACTCA-T-C-TGAAGAAGGAAG
127 TGATGGATTAAAATTTT-CAGGTAG-AGTTCATAATAAGAAGAACTCATTACTTGAAGAAGGAAG
* * *
128670 AAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
190 AAGAAATTCATAATGAGAAGAACTTGTTCAACCTTATGCTC
*
128711 AAATCCATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCAT-TTGAA
1 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTTGAA
*
128775 GAAGGAAGAAGAAGTTCGTAATGAGAAGAA
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAA
128805 CTCATCTGAA
Statistics
Matches: 290, Mismatches: 24, Indels: 20
0.87 0.07 0.06
Matches are distributed among these distances:
225 32 0.11
227 1 0.00
228 102 0.35
229 56 0.19
230 4 0.01
231 30 0.10
232 64 0.22
233 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (230 bp):
AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTTGAA
GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTATGCTCAAATCCATCATGTGAT
GGATTAAAATTTTCAGGTAGAGTTCATAATAAGAAGAACTCATTACTTGAAGAAGGAAGAAGAAA
TTCATAATGAGAAGAACTTGTTCAACCTTATGCTC
Found at i:128833 original size:36 final size:38
Alignment explanation
Indices: 128743--128840 Score: 146
Period size: 40 Copynumber: 2.6 Consensus size: 38
128733 GCTTTTCCAG
*
128743 AGAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGA
1 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
128781 AGAAGAAGTTCGTAATGAGAAGAACTCATCTGAAGAA-GA
1 AG-A-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
128820 AGAAA-TTCATAATGAGAAGAA
1 AGAAAGTTCATAATGAGAAGAA
128841 TTTGTTCAAC
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
36 15 0.27
37 2 0.04
38 3 0.05
39 5 0.09
40 30 0.55
ACGTcount: A:0.49, C:0.08, G:0.23, T:0.19
Consensus pattern (38 bp):
AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
Found at i:128903 original size:148 final size:153
Alignment explanation
Indices: 128631--128951 Score: 490
Period size: 148 Copynumber: 2.1 Consensus size: 153
128621 ACTTTTCCAG
*
128631 AGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTG
1 AGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* * * *
128696 TTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGA
66 TTCAACCTTTTGCTCAAATCCATCACTCAATGGATCAACCTTTACAGAGAAAGTTCATAATGAGA
* *
128761 AGAACTCATTTGAAGAAGGAAGA
131 AGAACTCATCTGAAGAAGAAAGA
* * *
128784 AGAAGTTCGTAATGAGAAGAACTCATCTGAAGAA-GAAG-A-AA-TTCATAATGAGAAGAATTTG
1 AGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* * *
128845 TTCAACC-TTTGTTCAAATTCATCACTTAATGGATCAACCTTTACAGAGAAAGTTCATAATGAGA
66 TTCAACCTTTTGCTCAAATCCATCACTCAATGGATCAACCTTTACAGAGAAAGTTCATAATGAGA
128909 AGAACTCATCTGAAGAAGAAAGA
131 AGAACTCATCTGAAGAAGAAAGA
128932 AGAAGTTCATAATAAGAAGA
1 AGAAGTTCATAATAAGAAGA
128952 GCTTATTCAA
Statistics
Matches: 153, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
148 89 0.58
149 25 0.16
150 2 0.01
151 1 0.01
152 4 0.03
153 32 0.21
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.25
Consensus pattern (153 bp):
AGAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
TTCAACCTTTTGCTCAAATCCATCACTCAATGGATCAACCTTTACAGAGAAAGTTCATAATGAGA
AGAACTCATCTGAAGAAGAAAGA
Found at i:129212 original size:3 final size:3
Alignment explanation
Indices: 129204--129260 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
129194 TTTGATTTAT
* * * *
129204 TTA TTA TTA TTA TTA CTA TAA TTA TTA TTA TTA TAA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
129252 TTA TTA TTA
1 TTA TTA TTA
129261 AATATATTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:129268 original size:15 final size:14
Alignment explanation
Indices: 129208--129269 Score: 56
Period size: 15 Copynumber: 4.4 Consensus size: 14
129198 ATTTATTTAT
*
129208 TATTATTATTACTA
1 TATTATTATTAATA
*
129222 TAATTATTATTATTA
1 T-ATTATTATTAATA
*
129237 TAAATATTATT-AT-
1 T-ATTATTATTAATA
129250 TATTATTATTAAATA
1 TATTATTATT-AATA
129265 TATTA
1 TATTA
129270 AATATATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
12 8 0.20
13 1 0.03
14 4 0.10
15 27 0.68
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (14 bp):
TATTATTATTAATA
Found at i:131495 original size:14 final size:14
Alignment explanation
Indices: 131476--131505 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
131466 TATCGATTGG
131476 TTACAAATGGCCAC
1 TTACAAATGGCCAC
131490 TTACAAATGGCCAC
1 TTACAAATGGCCAC
131504 TT
1 TT
131506 GTTGACAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (14 bp):
TTACAAATGGCCAC
Found at i:135929 original size:14 final size:14
Alignment explanation
Indices: 135910--135943 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
135900 AGAGAATGAA
135910 ACCAGCTTGTTATT
1 ACCAGCTTGTTATT
135924 ACCAGCTTGTTATT
1 ACCAGCTTGTTATT
135938 ACCAGC
1 ACCAGC
135944 ATCTTTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (14 bp):
ACCAGCTTGTTATT
Found at i:147911 original size:5 final size:5
Alignment explanation
Indices: 147896--148204 Score: 96
Period size: 5 Copynumber: 60.0 Consensus size: 5
147886 TTTTTATATA
* *
147896 ATTAT ACTAT ATTAT A-TAT -TATAT ATTAT A-TATT ATTTT A-TAT ACTATAT
1 ATTAT ATTAT ATTAT ATTAT AT-TAT ATTAT ATTA-T ATTAT ATTAT A-T-TAT
* * * * *
147946 ATTAT A-TAGC ATGGTAT ATTAT ATAAA AATATT AT-AT AGTTAT AGTAT
1 ATTAT ATTA-T AT--TAT ATTAT ATTAT ATTA-T ATTAT A-TTAT ATTAT
* * *
147994 AGTATT AT-AT ATTAT GTTAT A-TAT AGTATAT ATTAT ATAAT ATT-T
1 ATTA-T ATTAT ATTAT ATTAT ATTAT A-T-TAT ATTAT ATTAT ATTAT
* * *
148039 A-TATT ATTAT ATTGCAT ATTAT AGTAT -TTAT ATAGTAT ATAAT ATAAT
1 ATTA-T ATTAT ATT--AT ATTAT ATTAT ATTAT AT--TAT ATTAT ATTAT
*
148087 AATTAT ATTAT A-TAT ATTAT A-TAT ATT-T ATATAT ATATAT AGTAT
1 -ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT-TAT AT-TAT ATTAT
* * *
148132 ATGTAT TTTAT -TATAT ATTAT AGTATT ATTAT ATCATAT ATTAT ATTCT
1 AT-TAT ATTAT AT-TAT ATTAT ATTA-T ATTAT AT--TAT ATTAT ATTAT
148181 -TATAT ATTA- ATTTAT ATT-T ATTAT
1 AT-TAT ATTAT A-TTAT ATTAT ATTAT
148205 TTTTTAGGTC
Statistics
Matches: 231, Mismatches: 29, Indels: 88
0.66 0.08 0.25
Matches are distributed among these distances:
3 1 0.00
4 42 0.18
5 126 0.55
6 35 0.15
7 25 0.11
8 2 0.01
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (5 bp):
ATTAT
Found at i:147929 original size:21 final size:21
Alignment explanation
Indices: 147903--148205 Score: 178
Period size: 23 Copynumber: 14.0 Consensus size: 21
147893 ATAATTATAC
147903 TATATTATATATTATATATTA
1 TATATTATATATTATATATTA
*
147924 TATATTAT-T-TTATATACTA
1 TATATTATATATTATATATTA
**
147943 TATATTATATAGCATGGTATATTA
1 TATATTATAT---ATTATATATTA
* * *
147967 TATA-AAAATATTATATAGT-
1 TATATTATATATTATATATTA
*
147986 TATAGTATAGTATTATATATTA
1 TATATTATA-TATTATATATTA
* *
148008 TGT-TATATATAGTATATATTA
1 TATAT-TATATATTATATATTA
* *
148029 TATAATATTTATATTATTATATTG
1 TAT-AT-TATATATTA-TATATTA
* *
148053 CATATTATAGTATTTATATAGTA
1 TATATTATA-TA-TTATATATTA
*
148076 TATAATATAATAATTATAT-TATA
1 TATATTAT-AT-ATTATATAT-TA
*
148099 TATATTATATA-TATTTATATA
1 TATATTATATATTATATAT-TA
*
148120 TATATATAGTATATGTATTTTATTA
1 TATAT-TA-TATAT-TA-TATATTA
*
148145 TATATTATAGTATTATTATATCA
1 TATATTATA-TATTA-TATATTA
*
148168 TATATTATATTCTTATATATTA
1 TATATTATA-TATTATATATTA
148190 -AT-TTATAT-TTAT-TATT
1 TATATTATATATTATATATT
148206 TTTTAGGTCC
Statistics
Matches: 225, Mismatches: 33, Indels: 52
0.73 0.11 0.17
Matches are distributed among these distances:
17 4 0.02
18 4 0.02
19 22 0.10
20 20 0.09
21 43 0.19
22 19 0.08
23 70 0.31
24 29 0.13
25 9 0.04
26 5 0.02
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (21 bp):
TATATTATATATTATATATTA
Found at i:148173 original size:23 final size:22
Alignment explanation
Indices: 147898--148176 Score: 137
Period size: 21 Copynumber: 12.6 Consensus size: 22
147888 TTTATATAAT
147898 TATACTATATTATA-TATTA-TA
1 TATA-TATATTATAGTATTATTA
147919 TATTATATATTAT--T-TTA-TA
1 TA-TATATATTATAGTATTATTA
**
147938 TACTATATATTATA-TAGCATGGTA
1 TA-TATATATTATAGTATTAT--TA
* * *
147962 TAT-TATATAAAAATATTA-TA
1 TATATATATTATAGTATTATTA
*
147982 TAGT-TATAGTATAGTATTA-TA
1 TA-TATATATTATAGTATTATTA
*
148003 TATTATGTTATATATAGTATATATTA
1 TA-TAT-ATAT-TATAGTAT-TATTA
148029 TATA-ATATT-TA-TATTATTA
1 TATATATATTATAGTATTATTA
148048 TAT-TGCATATTATAGTATT-TATA
1 TATAT--ATATTATAGTATTAT-TA
* *
148071 TAGTATATAATATAATAATTA-TA
1 TA-TATATATTATAGT-ATTATTA
*
148094 TTATATATATTATATATATTTATATA
1 -TATATATATTATA-GTA-TTAT-TA
*
148120 TATATATAGTATATGTATT-TTA
1 TATATATATTATA-GTATTATTA
148142 T-TATATATTATAGTATTATTA
1 TATATATATTATAGTATTATTA
148163 TATCATATATTATA
1 TAT-ATATATTATA
148177 TTCTTATATA
Statistics
Matches: 206, Mismatches: 21, Indels: 60
0.72 0.07 0.21
Matches are distributed among these distances:
19 25 0.12
20 14 0.07
21 49 0.24
22 18 0.09
23 49 0.24
24 25 0.12
25 20 0.10
26 6 0.03
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (22 bp):
TATATATATTATAGTATTATTA
Found at i:148187 original size:2 final size:2
Alignment explanation
Indices: 147890--148177 Score: 118
Period size: 2 Copynumber: 153.5 Consensus size: 2
147880 GATTTCTTTT
147890 TA TA TA -A T- TA TA CTA TA T- TA TA TA T- TA TA TA T- 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
* * *
147928 T- TA T- TT TA TA TA CTA TA TA T- TA TA TA GCA TGG TA TA T- TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA T-A TA TA TA TA
* *
147967 TA TA AA AA TA T- TA TA TA GT- TA TA GTA TA GTA T- TA TA TA T-
1 TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA -TA TA TA TA TA TA
* *
148006 TA TG T- TA TA TA TA GTA TA TA T- TA TA TA -A TA TT TA TA T- TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
148045 T- TA TA T- TG CA TA T- TA TA GTA TT TA TA TA GTA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA
*
148085 -A TA -A T- TA TA T- TA TA TA TA T- TA TA TA TA TT 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
* *
148122 TA TA TA GTA TA TG TA T- TT TA T- TA TA TA T- TA TA GTA T- TA T-
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
148161 TA TA TCA TA TA T- TA TA T
1 TA TA T-A TA TA TA TA TA T
148178 TCTTATATAT
Statistics
Matches: 221, Mismatches: 20, Indels: 90
0.67 0.06 0.27
Matches are distributed among these distances:
1 32 0.14
2 166 0.75
3 23 0.10
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (2 bp):
TA
Found at i:149091 original size:64 final size:64
Alignment explanation
Indices: 148907--149103 Score: 201
Period size: 61 Copynumber: 3.1 Consensus size: 64
148897 TTTTCAGAGT
* ** *
148907 GATGCACCAATCCATGCATCGATGCAC-CATGAATTAAATTG-AACATCGAATGCATTTCATGCA
1 GATGCACCAA-CCATGCATCGATGCACTC-TGGA-TATTTTGAAACATCGAATGCATTTGATGCA
148970 TC
63 TC
** ** *
148972 GATGCACTTACCATG---C-ATGCACTGAGGAT-TTTATGAAAACATCGAATGCATTTGATGTAT
1 GATGCACCAACCATGCATCGATGCACTCTGGATATTT-TG-AAACATCGAATGCATTTGATGCAT
149032 C
64 C
* *
149033 GATGCACCAACCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACTTGATGCATC
1 GATGCACCAACCATGCATCGATGCACTCTGGATATTTTGAAACATCGAATGCATTTGATGCATC
149097 GATGCAC
1 GATGCAC
149104 TCTTAGTGCA
Statistics
Matches: 107, Mismatches: 16, Indels: 19
0.75 0.11 0.13
Matches are distributed among these distances:
58 1 0.01
59 3 0.03
60 8 0.07
61 36 0.34
64 36 0.34
65 20 0.19
66 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (64 bp):
GATGCACCAACCATGCATCGATGCACTCTGGATATTTTGAAACATCGAATGCATTTGATGCATC
Found at i:149103 original size:17 final size:19
Alignment explanation
Indices: 149075--149123 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
149065 TATTTTGAAA
149075 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
149093 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
149112 CACCGATGCACT
1 CATCGATGCACT
149124 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:157566 original size:15 final size:15
Alignment explanation
Indices: 157546--157584 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
157536 CCAATGAACC
*
157546 ACCATGCATCGATGT
1 ACCATGAATCGATGT
*
157561 ACCATGAATCGATGC
1 ACCATGAATCGATGT
*
157576 ATCATGAAT
1 ACCATGAAT
157585 TAAATTGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (15 bp):
ACCATGAATCGATGT
Found at i:157670 original size:65 final size:63
Alignment explanation
Indices: 157592--157752 Score: 202
Period size: 65 Copynumber: 2.6 Consensus size: 63
157582 AATTAAATTG
* * * * *
157592 AACATCGAATGCATTTCATGTATCGATGCACTTA-CCATGCACCGATGCACTGAGGATTTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACTCAGCCATGCACCGATGCACTCAGG-TATT-TG-
157656 A
63 A
* *
157657 AACATCGAATGCATTTGATGCATCGATGCAC-CAGCCATGCATCGATGCACTCTGGTATTTGA
1 AACATCGAATGCATTTGATGCATCGATGCACTCAGCCATGCACCGATGCACTCAGGTATTTGA
*
157719 AACATCGAATGCA-CTGATGCATCGATGCACTCAG
1 AACATCGAATGCATTTGATGCATCGATGCACTCAG
157753 TGCACAGATG
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
61 16 0.19
62 17 0.20
63 2 0.02
64 4 0.05
65 47 0.55
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACTCAGCCATGCACCGATGCACTCAGGTATTTGA
Done.