Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000503.1 Hibiscus syriacus cultivar Beakdansim tig00000960_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: 93691
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:2988 original size:24 final size:24
Alignment explanation
Indices: 2961--3021 Score: 113
Period size: 24 Copynumber: 2.5 Consensus size: 24
2951 ATTTTACTTT
2961 TGTATGCCCCTTCCAGACATCCAC
1 TGTATGCCCCTTCCAGACATCCAC
*
2985 TGTATCCCCCTTCCAGACATCCAC
1 TGTATGCCCCTTCCAGACATCCAC
3009 TGTATGCCCCTTC
1 TGTATGCCCCTTC
3022 ATTATTCTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.18, C:0.43, G:0.11, T:0.28
Consensus pattern (24 bp):
TGTATGCCCCTTCCAGACATCCAC
Found at i:15994 original size:41 final size:41
Alignment explanation
Indices: 15932--16014 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
15922 AAGTCAAAAT
* * * *
15932 TATCATATGAATAATGTTTATATTTGTTTCAATATATTGAG
1 TATCATATAAATAATGCTTATATTTATTTCAATATATCGAG
*
15973 TATCATATAAATAATGCTTATATTTATTTGAATATATCGAG
1 TATCATATAAATAATGCTTATATTTATTTCAATATATCGAG
16014 T
1 T
16015 GGTTTCGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (41 bp):
TATCATATAAATAATGCTTATATTTATTTCAATATATCGAG
Found at i:18572 original size:13 final size:14
Alignment explanation
Indices: 18554--18582 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18544 TGTTAATAGC
18554 AATGAAGAAGA-TA
1 AATGAAGAAGACTA
18567 AATGAAGAAGACTA
1 AATGAAGAAGACTA
18581 AA
1 AA
18583 GAGAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.62, C:0.03, G:0.21, T:0.14
Consensus pattern (14 bp):
AATGAAGAAGACTA
Found at i:26029 original size:17 final size:17
Alignment explanation
Indices: 26003--26044 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
25993 ACTCCCACTG
*
26003 CTTGTACAATGTCTGGT
1 CTTGTGCAATGTCTGGT
26020 CTTGTGCAATGTCTGGT
1 CTTGTGCAATGTCTGGT
26037 CTTGTGCA
1 CTTGTGCA
26045 TATCATAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.14, C:0.19, G:0.26, T:0.40
Consensus pattern (17 bp):
CTTGTGCAATGTCTGGT
Found at i:31919 original size:17 final size:18
Alignment explanation
Indices: 31885--31920 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
31875 ATATTTTTTG
31885 TAAACTAAAAAATATATT
1 TAAACTAAAAAATATATT
*
31903 TAAATTAAAAAAT-TATT
1 TAAACTAAAAAATATATT
31920 T
1 T
31921 TTAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAACTAAAAAATATATT
Found at i:31923 original size:19 final size:18
Alignment explanation
Indices: 31880--31924 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
31870 ATTTTATATT
31880 TTTTGTAAACTAAAAAATA
1 TTTT-TAAACTAAAAAATA
* *
31899 TATTTAAATTAAAAAATTA
1 TTTTTAAACTAAAAAA-TA
31918 TTTTTAA
1 TTTTTAA
31925 TAATAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
TTTTTAAACTAAAAAATA
Found at i:34345 original size:18 final size:19
Alignment explanation
Indices: 34305--34346 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
34295 ATATTATTTT
34305 TATTTAAATAAAAACAGTA
1 TATTTAAATAAAAACAGTA
* *
34324 -ATTTAATTAAAAATA-TA
1 TATTTAAATAAAAACAGTA
34341 TATTTA
1 TATTTA
34347 GAGGGTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TATTTAAATAAAAACAGTA
Found at i:34513 original size:38 final size:41
Alignment explanation
Indices: 34467--34549 Score: 109
Period size: 39 Copynumber: 2.1 Consensus size: 41
34457 CATCACCTTT
*
34467 AAAAAATCC-ACCCCACTCAATCCGAACC-CAAT-TTTTAA
1 AAAAAATCCGACCCAACTCAATCCGAACCTCAATATTTTAA
* * *
34505 AAAAAATCCGATCTAACTCAATCCGAACCTGAATATTTTAA
1 AAAAAATCCGACCCAACTCAATCCGAACCTCAATATTTTAA
34546 AAAA
1 AAAA
34550 TAAAACTGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 9 0.24
39 16 0.42
40 3 0.08
41 10 0.26
ACGTcount: A:0.46, C:0.27, G:0.05, T:0.23
Consensus pattern (41 bp):
AAAAAATCCGACCCAACTCAATCCGAACCTCAATATTTTAA
Found at i:36172 original size:15 final size:15
Alignment explanation
Indices: 36154--36213 Score: 50
Period size: 15 Copynumber: 3.8 Consensus size: 15
36144 ATTTTTATGT
36154 TAGTATTTTTTTAAA
1 TAGTATTTTTTTAAA
36169 TAGTTATTTTTTATATTAA
1 TAG-TATTTTTT-TA--AA
* *
36188 TA-TATTTATATAAA
1 TAGTATTTTTTTAAA
*
36202 TATTATTTTTTT
1 TAGTATTTTTTT
36214 TATTAAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 4 0.11
15 10 0.28
16 10 0.28
17 8 0.22
19 4 0.11
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
TAGTATTTTTTTAAA
Found at i:36195 original size:14 final size:15
Alignment explanation
Indices: 36173--36246 Score: 51
Period size: 15 Copynumber: 4.7 Consensus size: 15
36163 TTTAAATAGT
* *
36173 TATTTTTTATATTAA
1 TATTATTTATATAAA
36188 TA-TATTTATATAAA
1 TATTATTTATATAAA
*
36202 TATTATTTTTTTTATTAAAA
1 TATTA---TTTATA-T-AAA
* *
36222 TAATATTTATATAAT
1 TATTATTTATATAAA
36237 TATTATTTAT
1 TATTATTTAT
36247 TTAGAATTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
14 12 0.26
15 15 0.33
16 1 0.02
17 5 0.11
18 5 0.11
19 1 0.02
20 7 0.15
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATTTATATAAA
Found at i:36218 original size:32 final size:34
Alignment explanation
Indices: 36165--36249 Score: 111
Period size: 35 Copynumber: 2.5 Consensus size: 34
36155 AGTATTTTTT
36165 TAAATAGTTATTTTTTATATT-AAT-ATATTTATA
1 TAAATA-TTATTTTTTATATTAAATAATATTTATA
*
36198 TAAATATTATTTTTTTTATTAAAATAATATTTATA
1 TAAATATTATTTTTTATATT-AAATAATATTTATA
*
36233 TAATTATTATTTATTTA
1 TAAATATTATTT-TTTA
36250 GAATTATTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
32 13 0.29
33 6 0.13
34 3 0.07
35 20 0.44
36 3 0.07
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (34 bp):
TAAATATTATTTTTTATATTAAATAATATTTATA
Found at i:38006 original size:21 final size:21
Alignment explanation
Indices: 37976--38023 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
37966 GCAGGGGTAC
* *
37976 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
37997 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
38018 ATGCCA
1 ATGCCA
38024 TCTCTGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:38056 original size:21 final size:21
Alignment explanation
Indices: 38029--38120 Score: 132
Period size: 21 Copynumber: 4.4 Consensus size: 21
38019 TGCCATCTCT
38029 GCAGGGTTACATTCCGAGCCC
1 GCAGGGTTACATTCCGAGCCC
*
38050 ACAGGGTTACATTCCGAGCCC
1 GCAGGGTTACATTCCGAGCCC
*
38071 GCAGGGTTACATTCCTAGCCC
1 GCAGGGTTACATTCCGAGCCC
* *
38092 GCCA-GGTTACATGCCTAGCCC
1 G-CAGGGTTACATTCCGAGCCC
38113 GCAGGGTT
1 GCAGGGTT
38121 TTATACTATA
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
20 2 0.03
21 61 0.94
22 2 0.03
ACGTcount: A:0.20, C:0.33, G:0.27, T:0.21
Consensus pattern (21 bp):
GCAGGGTTACATTCCGAGCCC
Found at i:38687 original size:40 final size:39
Alignment explanation
Indices: 38643--38726 Score: 132
Period size: 39 Copynumber: 2.1 Consensus size: 39
38633 AAATGTTTTT
* *
38643 AAAATACAAATTATATTATTCAAAATTTAAATTTAAAATA
1 AAAATAAAAATAATATTATTC-AAATTTAAATTTAAAATA
38683 AAAATAAAAATAATATTATTCAAATTTAAATTTAAAATA
1 AAAATAAAAATAATATTATTCAAATTTAAATTTAAAATA
*
38722 TAAAT
1 AAAAT
38727 TATAGTATTC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 22 0.54
40 19 0.46
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (39 bp):
AAAATAAAAATAATATTATTCAAATTTAAATTTAAAATA
Found at i:38712 original size:33 final size:34
Alignment explanation
Indices: 38671--38745 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 34
38661 TTCAAAATTT
*
38671 AAATTTAAAATAAAAATAAAAATAATATTATTC-
1 AAATTTAAAATAAAAATAAAAATAATAGTATTCG
* * * *
38704 AAATTTAAATTTAAAATATAAATTATAGTATTCG
1 AAATTTAAAATAAAAATAAAAATAATAGTATTCG
38738 AAATTTAA
1 AAATTTAA
38746 CATTAAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 28 0.78
34 8 0.22
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (34 bp):
AAATTTAAAATAAAAATAAAAATAATAGTATTCG
Found at i:38880 original size:14 final size:14
Alignment explanation
Indices: 38861--38890 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
38851 TTTGATCATT
*
38861 AACATATATATTAA
1 AACATATACATTAA
38875 AACATATACATTAA
1 AACATATACATTAA
38889 AA
1 AA
38891 TCAACTTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (14 bp):
AACATATACATTAA
Found at i:39414 original size:128 final size:128
Alignment explanation
Indices: 39145--40151 Score: 1690
Period size: 128 Copynumber: 7.9 Consensus size: 128
39135 TTACATGATT
39145 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATA-T-TC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*** * *
39208 TGACGAAATAATGGAAGGCGCG-CCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATATG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
* * *
39270 TACTGATATATCTAGTGTCCACGAGGGACATGAGGGACATAATAGGACAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*** *
39335 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
*
39398 TACTGATATATCTAGTGTCCTCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
39463 TGACAAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
39526 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*** *
39591 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
39654 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
39719 TGACGAAATAATGGAAGGCGCG-CCCTGGGAACGCGCCTTCATATGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
39781 TACTG--ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
39844 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTTATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
39907 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
39972 TGACGAAATAATGGAAGGCGCGCCCCCGGGAATGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
40035 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
40100 TGACGAAATAATGGAAGGCGCGCCCCTGGGAACGCGCCTTTATGTGAATAGT
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
40152 ACTCCGATTA
Statistics
Matches: 837, Mismatches: 36, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
125 137 0.16
126 44 0.05
127 62 0.07
128 593 0.71
129 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:39855 original size:381 final size:383
Alignment explanation
Indices: 39145--40151 Score: 1749
Period size: 381 Copynumber: 2.6 Consensus size: 383
39135 TTACATGATT
39145 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATA-T-TC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
39208 TGACGAAATAATGGAAGGCGCG-CCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATATGTA
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTA
* * *
39272 CTGATATATCTAGTGTCCACGAGGGACATGAGGGACATAATAGGACAATGATAACATATTCTCTG
131 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
* *** *
39337 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGGTAC
196 ACGAAATAATGGAAGGCGCGCCCCTGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGGTAC
*
39401 TGATATATCTAGTGTCCTCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
260 TGA-ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
39466 CAAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
324 CAAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
39526 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
39591 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTA
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTA
39656 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
131 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
*
39721 ACGAAATAATGGAAGGCGCG-CCCTGGGAACGCGCCTTCATATGAATAGTGAAATAATAGGTACT
196 ACGAAATAATGGAAGGCGCGCCCCTGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACT
*
39785 G-ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACG
261 GAATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACA
* *
39849 AAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTTATGTGAATAGTGAAATAATAGG
326 AAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
39907 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *** *
39972 TGACGAAATAATGGAAGGCGCGCCCCCGGGAATGCGCCTTCATGT-GAATAGTGAAATAATAGGT
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCT-GAGAAATAATAGGT
40036 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
130 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
*
40101 GACGAAATAATGGAAGGCGCGCCCCTGGGAACGCGCCTTTATGTGAATAGT
195 GACGAAATAATGGAAGGCGCGCCCCTGGGAACGCGCCTTCATGTGAATAGT
40152 ACTCCGATTA
Statistics
Matches: 598, Mismatches: 22, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
380 1 0.00
381 384 0.64
382 29 0.05
383 61 0.10
384 123 0.21
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (383 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTA
CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
ACGAAATAATGGAAGGCGCGCCCCTGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACT
GAATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACA
AAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:40102 original size:509 final size:508
Alignment explanation
Indices: 39145--40144 Score: 1736
Period size: 509 Copynumber: 2.0 Consensus size: 508
39135 TTACATGATT
39145 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTG
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTG
* ** *
39210 ACGAAATAATGGAAGGCGCGCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATATGTACTG
66 ACGAAATAATGGAAGGCGCGCCCCGGGAACGCGCCTTCATATCCAATGAGAAATAATAGGTACTG
39275 ATATATCTAGTGTCCACGAGGGACATGAGGGACATAATAGGACAATGATAACATATTCTCTGACG
131 A-ATATCTAGTGTCCACGAGGGACATGAGGGACATAATAGGACAATGATAACATATTCTCTGACG
**
39340 AAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGGTACTGAT
195 AAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCAATGAGAAATAATAGGTACTGAT
*
39405 ATATCTAGTGTCCTCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
260 ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAA
39470 ATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATAT
325 ATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATAT
39535 ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAAT
390 ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAAT
39600 AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGG
455 AATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGG
39654 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATA-T-TC
* * *
39719 TGACGAAATAATGGAAGGCGCGCCCTGGGAACGCGCCTTCATAT-GAATAGTGAAATAATAGGTA
64 TGACGAAATAATGGAAGGCGCGCCCCGGGAACGCGCCTTCATATCCAAT-GAGAAATAATAGGTA
* * *
39783 CTG-ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
128 CTGAATATCTAGTGTCCACGAGGGACATGAGGGACATAATAGGACAATGATAACATATTCTCTGA
* * *
39847 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTTATGT-GAATAGTGAAATAATAGGTACT
193 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCAAT-GAGAAATAATAGGTACT
*
39911 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATATTCTCTGAC
257 GATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC
* * *
39976 GAAATAATGGAAGGCGCGCCCCCGGGAATGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGA
322 AAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGA
40041 TATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGA
387 TATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGA
* *
40106 AATAATGGAAGGCGCGCCCCTGGGAACGCGCCTTTATGT
452 AATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT
40145 GAATAGTACT
Statistics
Matches: 465, Mismatches: 22, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
508 1 0.00
509 402 0.86
510 2 0.00
511 60 0.13
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (508 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTG
ACGAAATAATGGAAGGCGCGCCCCGGGAACGCGCCTTCATATCCAATGAGAAATAATAGGTACTG
AATATCTAGTGTCCACGAGGGACATGAGGGACATAATAGGACAATGATAACATATTCTCTGACGA
AATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCAATGAGAAATAATAGGTACTGATA
TATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAA
TAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATA
TCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATA
ATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTCCCCTGAGAAATAATAGG
Found at i:40235 original size:8 final size:8
Alignment explanation
Indices: 40222--40262 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
40212 TCACAATCTT
40222 TCAAATTC
1 TCAAATTC
40230 TCAAATTC
1 TCAAATTC
* *
40238 CCAAACTC
1 TCAAATTC
40246 T-AAATTC
1 TCAAATTC
40253 TCAAATTC
1 TCAAATTC
40261 TC
1 TC
40263 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:44562 original size:16 final size:16
Alignment explanation
Indices: 44543--44599 Score: 71
Period size: 16 Copynumber: 3.5 Consensus size: 16
44533 TCTTTTATTA
44543 TATTTAATATTTAATT
1 TATTTAATATTTAATT
*
44559 TATTTAAGTATTTAAAT
1 TATTTAA-TATTTAATT
44576 TATTTAATATTGT-ATT
1 TATTTAATATT-TAATT
*
44592 TAATTAAT
1 TATTTAAT
44600 TTTTTTACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (16 bp):
TATTTAATATTTAATT
Found at i:44572 original size:17 final size:16
Alignment explanation
Indices: 44543--44586 Score: 70
Period size: 17 Copynumber: 2.7 Consensus size: 16
44533 TCTTTTATTA
*
44543 TATTTAATATTTAATT
1 TATTTAATATTTAAAT
44559 TATTTAAGTATTTAAAT
1 TATTTAA-TATTTAAAT
44576 TATTTAATATT
1 TATTTAATATT
44587 GTATTTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TATTTAATATTTAAAT
Found at i:46678 original size:12 final size:12
Alignment explanation
Indices: 46658--46688 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
46648 GTAGCTGCTC
46658 ACGACGACGATG
1 ACGACGACGATG
*
46670 ACGATGACGATG
1 ACGACGACGATG
46682 ACGACGA
1 ACGACGA
46689 TGGTGATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.35, C:0.23, G:0.32, T:0.10
Consensus pattern (12 bp):
ACGACGACGATG
Found at i:53884 original size:31 final size:31
Alignment explanation
Indices: 53832--53894 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
53822 TATTCGGTGA
* * *
53832 ATTCCATATGTCCTTCTCACTAGGAACTCCC
1 ATTCAATATGTCATTCCCACTAGGAACTCCC
53863 ATTCAATATGTCATTCCCACTAGGAACTCCC
1 ATTCAATATGTCATTCCCACTAGGAACTCCC
53894 A
1 A
53895 AACTCTTAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.10, T:0.30
Consensus pattern (31 bp):
ATTCAATATGTCATTCCCACTAGGAACTCCC
Found at i:71620 original size:78 final size:78
Alignment explanation
Indices: 71463--71626 Score: 195
Period size: 78 Copynumber: 2.1 Consensus size: 78
71453 ATAAGAAACA
* *
71463 TCTTTTCTTGCAATGCCTGTGCAAGGGCATCTGAGGCATCACCTTTAGTCTCAGCAGTATTTAAA
1 TCTTTTCTTGCAATGCCTGTGCAAGGGCATCTAAGGCATAACCTTTAGTCTCAGCAGTATTTAAA
* **
71528 TCCAGCATGCCCC
66 TACAGCAAACCCC
* * * * *
71541 TCTTTTCTTGCAGTGCCTTTGCAAGGGCTTCTAAGGCACTAAGC-TTAGTCTCAGCAGTATTTGA
1 TCTTTTCTTGCAATGCCTGTGCAAGGGCATCTAAGGCA-TAACCTTTAGTCTCAGCAGTATTTAA
*
71605 ATAGAGCAAATCCCTC
65 ATACAGCAAA-CCC-C
71621 TCTTTT
1 TCTTTT
71627 ACCTCATCTT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
78 59 0.82
79 6 0.08
80 7 0.10
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.34
Consensus pattern (78 bp):
TCTTTTCTTGCAATGCCTGTGCAAGGGCATCTAAGGCATAACCTTTAGTCTCAGCAGTATTTAAA
TACAGCAAACCCC
Found at i:79230 original size:22 final size:22
Alignment explanation
Indices: 79205--79275 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 22
79195 CCACAGTTCG
79205 TAATTTGCACCGAAGTACCACA
1 TAATTTGCACCGAAGTACCACA
79227 TAA-TTGTC-CCGAA-TGACCACA
1 TAATTTG-CACCGAAGT-ACCACA
** * *
79248 TAGGTTGCATCGAAGTGCCACA
1 TAATTTGCACCGAAGTACCACA
79270 T-ATTTG
1 TAATTTG
79276 TCCCTTAGGA
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
20 1 0.03
21 20 0.51
22 17 0.44
23 1 0.03
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (22 bp):
TAATTTGCACCGAAGTACCACA
Found at i:79239 original size:21 final size:21
Alignment explanation
Indices: 79214--79313 Score: 78
Period size: 21 Copynumber: 4.7 Consensus size: 21
79204 GTAATTTGCA
79214 CCGAAGTACCACATAATTGTC
1 CCGAAGTACCACATAATTGTC
*
79235 CCGAA-TGACCACATAGGTTG-C
1 CCGAAGT-ACCACATA-ATTGTC
* * *
79256 ATCGAAGTGCCACATATTTGTC
1 -CCGAAGTACCACATAATTGTC
** * *
79278 CCTTAGGATCACATAATTGTC
1 CCGAAGTACCACATAATTGTC
*
79299 CCGAAGGACCACATA
1 CCGAAGTACCACATA
79314 GACCCTCGAC
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
20 1 0.02
21 43 0.72
22 15 0.25
23 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (21 bp):
CCGAAGTACCACATAATTGTC
Found at i:79291 original size:43 final size:43
Alignment explanation
Indices: 79209--79313 Score: 106
Period size: 43 Copynumber: 2.5 Consensus size: 43
79199 AGTTCGTAAT
*
79209 TTGCACCGAAGTACCACATAATTGTCCCGAATGACCACATAGG
1 TTGCACCGAAGTACCACATAATTGTCCCGAAGGACCACATAGG
* * * ** * *
79252 TTGCATCGAAGTGCCACATATTTGTCCCTTAGGATCACATA-A
1 TTGCACCGAAGTACCACATAATTGTCCCGAAGGACCACATAGG
*
79294 TTGTC-CCGAAGGACCACATA
1 TTG-CACCGAAGTACCACATA
79314 GACCCTCGAC
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
42 15 0.30
43 35 0.70
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
TTGCACCGAAGTACCACATAATTGTCCCGAAGGACCACATAGG
Found at i:79436 original size:41 final size:41
Alignment explanation
Indices: 79379--79463 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
79369 CTTTAATCAA
79379 ATAATTAGGTTCAATCCTTATTCAAAGTGTTTCTTATTCAC
1 ATAATTAGGTTCAATCCTTATTCAAAGTGTTTCTTATTCAC
79420 ATAATTAGGTTCAATCCTTATTCAAAGTGTTTCTTATTCAC
1 ATAATTAGGTTCAATCCTTATTCAAAGTGTTTCTTATTCAC
79461 ATA
1 ATA
79464 GCTCTCTATC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (41 bp):
ATAATTAGGTTCAATCCTTATTCAAAGTGTTTCTTATTCAC
Found at i:79944 original size:54 final size:54
Alignment explanation
Indices: 79864--80006 Score: 234
Period size: 54 Copynumber: 2.6 Consensus size: 54
79854 TCATAACAAG
*
79864 GGGTATCAATACACTCCTCAGTGTACCGATACACAAATTG-CATTCGATGTTTAA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACAAA-TGACATTCGATGTTTAA
* * *
79918 GGGTATTGATACACTCCTCAGCGTACCGATACACAAATGACATTCGATGTTTGA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACAAATGACATTCGATGTTTAA
79972 GGGTATCGATACACTCCTCAGTGTACCGATACACA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACA
80007 CTCATACAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 2 0.02
54 80 0.98
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (54 bp):
GGGTATCGATACACTCCTCAGTGTACCGATACACAAATGACATTCGATGTTTAA
Found at i:84577 original size:73 final size:72
Alignment explanation
Indices: 84483--84619 Score: 220
Period size: 73 Copynumber: 1.9 Consensus size: 72
84473 GAGGATGCTG
* * * *
84483 TGGATTCTGTTCTAGTCTGAGGTTGAGAACTTGAACCTCTACTTTTATTTGATTGCGAAGAACCG
1 TGGATTCTGCTCTAGTATGAGGTTAAAAACTTGAACCTCTAC-TTTATTTGATTGCGAAGAACCG
84548 AACGATGA
65 AACGATGA
*
84556 TGGATTCTGCTCTGGTATGAGGTTAAAAACTTGAACCTCTACTTTATTTGATTGCGAAGAACCG
1 TGGATTCTGCTCTAGTATGAGGTTAAAAACTTGAACCTCTACTTTATTTGATTGCGAAGAACCG
84620 GAGGATGCAC
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
72 22 0.37
73 37 0.63
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (72 bp):
TGGATTCTGCTCTAGTATGAGGTTAAAAACTTGAACCTCTACTTTATTTGATTGCGAAGAACCGA
ACGATGA
Found at i:85772 original size:2 final size:2
Alignment explanation
Indices: 85765--85796 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
85755 ACAAAATACA
85765 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85797 TCAAAATCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:86225 original size:22 final size:22
Alignment explanation
Indices: 86200--86271 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 22
86190 CCACAGCTCG
86200 TAATTTGTACCGAAGTGCCACA
1 TAATTTGTACCGAAGTGCCACA
* *
86222 TAA-TTATCCCGAA-TGACCACA
1 TAATTTGTACCGAAGTG-CCACA
** *
86243 TAGGTTGCACCGAAGTGCCACA
1 TAATTTGTACCGAAGTGCCACA
86265 T-ATTTGT
1 TAATTTGT
86272 CCCATAGGAC
Statistics
Matches: 38, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
20 2 0.05
21 18 0.47
22 16 0.42
23 2 0.05
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (22 bp):
TAATTTGTACCGAAGTGCCACA
Found at i:86234 original size:21 final size:22
Alignment explanation
Indices: 86209--86308 Score: 79
Period size: 21 Copynumber: 4.7 Consensus size: 22
86199 GTAATTTGTA
86209 CCGAAGTG-CCACATAATTATC
1 CCGAAGTGACCACATAATTATC
* *
86230 CCGAA-TGACCACATAGGTT-GC
1 CCGAAGTGACCACATA-ATTATC
* *
86251 ACCGAAGTG-CCACATATTTGTC
1 -CCGAAGTGACCACATAATTATC
86273 CC-ATAG-GACCACATAATTATC
1 CCGA-AGTGACCACATAATTATC
*
86294 CCGTAG-GACCACATA
1 CCGAAGTGACCACATA
86309 GACCCTCGAC
Statistics
Matches: 64, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
20 4 0.06
21 43 0.67
22 15 0.23
23 2 0.03
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (22 bp):
CCGAAGTGACCACATAATTATC
Found at i:86470 original size:21 final size:20
Alignment explanation
Indices: 86441--86487 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
86431 ATAGAGTATA
*
86441 TTCACATTCAATGATTCAAAG
1 TTCATATTCAATGATT-AAAG
* *
86462 TTCATATTCACTTATTAAAG
1 TTCATATTCAATGATTAAAG
86482 TTCATA
1 TTCATA
86488 ACACATAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.40
Consensus pattern (20 bp):
TTCATATTCAATGATTAAAG
Found at i:86894 original size:54 final size:54
Alignment explanation
Indices: 86812--86954 Score: 234
Period size: 54 Copynumber: 2.6 Consensus size: 54
86802 TCATAACAGG
86812 GGGTATCGATACACTCCTCAGTGTACCGATACACAAATTG-CATTCGATGTTTGA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACAAA-TGACATTCGATGTTTGA
* * *
86866 GGGTATCAATACACTCCTCAGTATACCGATACACAAATGACATTTGATGTTTGA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACAAATGACATTCGATGTTTGA
*
86920 GGGTAACGATACACTCCTCAGTGTACCGATACACA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACA
86955 CTCATACAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 2 0.02
54 80 0.98
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (54 bp):
GGGTATCGATACACTCCTCAGTGTACCGATACACAAATGACATTCGATGTTTGA
Found at i:89680 original size:19 final size:19
Alignment explanation
Indices: 89639--89681 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
89629 CTTCTTTGAA
89639 ATCT-TTTTATTTTCTTTC
1 ATCTATTTTATTTTCTTTC
*
89657 TTCTATTTTA-TTTCTCTTC
1 ATCTATTTTATTTTCT-TTC
89676 ATCTAT
1 ATCTAT
89682 AAATACCCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (19 bp):
ATCTATTTTATTTTCTTTC
Found at i:90560 original size:20 final size:21
Alignment explanation
Indices: 90527--90565 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
90517 GCCACTCATA
*
90527 TTTTAAATTAAATAATATATT
1 TTTTAAAATAAATAATATATT
90548 TTTTAAAAT-AATAATATA
1 TTTTAAAATAAATAATATA
90566 ACAATATCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTAAAATAAATAATATATT
Found at i:91360 original size:2 final size:2
Alignment explanation
Indices: 91353--91381 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
91343 TCTAAAACTT
91353 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
91382 TTTGGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Done.