Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000775.1 Hibiscus syriacus cultivar Beakdansim tig00001508_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: 101862
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:3363 original size:27 final size:30
Alignment explanation
Indices: 3294--3363 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
3284 GGTTCTTCGG
* *
3294 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
3324 GACCTCTGGATAGTTACCGAGGATC-TT-T
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
3352 -ACCTCTGGATAG
1 GACCTCTGGATAG
3364 GTCCTTCGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 12 0.32
28 1 0.03
29 2 0.05
30 23 0.61
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:10531 original size:21 final size:21
Alignment explanation
Indices: 10505--10547 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
10495 TTACACTTAC
10505 ATGAAAATTACACCAACTAAG
1 ATGAAAATTACACCAACTAAG
10526 ATGAAAATTACACCAACTAAG
1 ATGAAAATTACACCAACTAAG
10547 A
1 A
10548 AGATTTTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.19, G:0.09, T:0.19
Consensus pattern (21 bp):
ATGAAAATTACACCAACTAAG
Found at i:20196 original size:2 final size:2
Alignment explanation
Indices: 20174--20290 Score: 122
Period size: 2 Copynumber: 60.5 Consensus size: 2
20164 TATTTTTATG
*
20174 TA TA GTA TA TT TA TA TA -A TA TA T- TA TA TA TA CTA TA -A TA T-
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * *
20214 TA TT TA TT TA T- TA TA T- TA TA GTA TT TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
20255 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20291 TGTGAGCACC
Statistics
Matches: 97, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
1 7 0.07
2 84 0.87
3 6 0.06
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.54
Consensus pattern (2 bp):
TA
Found at i:20229 original size:33 final size:34
Alignment explanation
Indices: 20174--20290 Score: 141
Period size: 33 Copynumber: 3.4 Consensus size: 34
20164 TATTTTTATG
* *
20174 TATAGTATATTTATATAATATATTATATATACTATA
1 TATA-TATATATATATATTATATTATATATA-TATA
* * *
20210 -ATAT-TATTTATTTATTATATTATAGTATTTATA
1 TATATATATATATATATTATATTATA-TATATATA
20243 TATATATATATATATATTATA-TATATATATATA
1 TATATATATATATATATTATATTATATATATATA
20276 TATATATATATATAT
1 TATATATATATATAT
20291 TGTGAGCACC
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
33 44 0.61
34 12 0.17
35 16 0.22
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.54
Consensus pattern (34 bp):
TATATATATATATATATTATATTATATATATATA
Found at i:22234 original size:12 final size:12
Alignment explanation
Indices: 22219--22287 Score: 59
Period size: 12 Copynumber: 5.4 Consensus size: 12
22209 TTTAGGTTTA
22219 TTTTATTTTATT
1 TTTTATTTTATT
22231 TTTTATTTTATGT
1 TTTTATTTTAT-T
22244 TATTT-TTTTATT
1 T-TTTATTTTATT
* *
22256 TTTTCTTTCTTTCT
1 TTTTATTT-TAT-T
*
22270 TTATTGTTTTATT
1 TT-TTATTTTATT
22283 TTTTA
1 TTTTA
22288 ATTAAGTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
11 3 0.06
12 18 0.38
13 13 0.28
14 8 0.17
15 5 0.11
ACGTcount: A:0.13, C:0.04, G:0.03, T:0.80
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:22256 original size:8 final size:8
Alignment explanation
Indices: 22215--22286 Score: 56
Period size: 8 Copynumber: 8.2 Consensus size: 8
22205 TATATTTAGG
22215 TTTATTTT
1 TTTATTTT
22223 ATTT-TATTT
1 -TTTAT-TTT
22232 TTTATTTT
1 TTTATTTT
22240 ATGTTATTTT
1 -T-TTATTTT
22250 TTTATTTT
1 TTTATTTT
*
22258 TTCTTTCTTT
1 TT-TAT-TTT
*
22268 CTTTATTGT
1 -TTTATTTT
22277 TTTATTTT
1 TTTATTTT
22285 TT
1 TT
22287 AATTAAGTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
8 25 0.48
9 13 0.25
10 12 0.23
11 2 0.04
ACGTcount: A:0.12, C:0.04, G:0.03, T:0.81
Consensus pattern (8 bp):
TTTATTTT
Found at i:24731 original size:20 final size:19
Alignment explanation
Indices: 24703--24823 Score: 103
Period size: 18 Copynumber: 6.6 Consensus size: 19
24693 GGTGTCGACA
24703 TATATTATATTATTATATGT
1 TATATTATATTATTATAT-T
*
24723 TATAGTATA-T-TTATA-T
1 TATATTATATTATTATATT
*
24739 TATA-TAGTA-TA-TATATA
1 TATATTA-TATTATTATATT
24756 TATATTATATTATTATATT
1 TATATTATATTATTATATT
* *
24775 TATTTTATATATAATATATT
1 TATATTATAT-TATTATATT
* * *
24795 TATATTATA-TAGTGTATA
1 TATATTATATTATTATATT
24813 TATATTATATT
1 TATATTATATT
24824 TATTTGTTTT
Statistics
Matches: 84, Mismatches: 9, Indels: 17
0.76 0.08 0.15
Matches are distributed among these distances:
15 2 0.02
16 12 0.14
17 6 0.07
18 24 0.29
19 16 0.19
20 24 0.29
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (19 bp):
TATATTATATTATTATATT
Found at i:24751 original size:2 final size:2
Alignment explanation
Indices: 24702--24822 Score: 77
Period size: 2 Copynumber: 65.0 Consensus size: 2
24692 CGGTGTCGAC
* *
24702 AT AT AT -T AT AT -T AT -T AT AT GT -T AT AGT AT AT TT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
*
24740 AT AT AGT AT AT AT AT AT AT AT -T AT AT -T AT -T AT AT TT AT -T
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
24779 TT AT AT AT A- AT AT AT TT AT AT -T AT AT AGT GT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
24819 AT AT
1 AT AT
24823 TTATTTGTTT
Statistics
Matches: 94, Mismatches: 10, Indels: 30
0.70 0.07 0.22
Matches are distributed among these distances:
1 12 0.13
2 77 0.82
3 5 0.05
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (2 bp):
AT
Found at i:24795 original size:61 final size:61
Alignment explanation
Indices: 24705--24827 Score: 178
Period size: 61 Copynumber: 2.0 Consensus size: 61
24695 TGTCGACATA
* *
24705 TATTATATTATTATATGTTATAGTATATTTATATTATATAGTATATATATA-TATATTATAT
1 TATTATATTATTATATGATATAATATATTTATATTATATAGTATATATATATTATATT-TAT
* *
24766 TATTATATTTATTTTAT-ATATAATATATTTATATTATATAGTGTATATATATTATATTTAT
1 TATTATA-TTATTATATGATATAATATATTTATATTATATAGTATATATATATTATATTTAT
24827 T
1 T
24828 TGTTTTTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
61 42 0.75
62 14 0.25
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (61 bp):
TATTATATTATTATATGATATAATATATTTATATTATATAGTATATATATATTATATTTAT
Found at i:24804 original size:39 final size:41
Alignment explanation
Indices: 24703--24802 Score: 71
Period size: 43 Copynumber: 2.3 Consensus size: 41
24693 GGTGTCGACA
* *
24703 TATATTATATTATTATATGTTATAGTATAT-TTATATTATATA
1 TATATTATATTATTATAT-TTATATTATATAGTATA-TATATA
**
24745 GTATATATATATATATTATATTATTATATT-TATTTTATATATA-A
1 -TATAT-TATAT-TATTATA-T-TTATATTATATAGTATATATATA
24789 TATATTTATATTAT
1 TATA-TTATATTAT
24803 ATAGTGTATA
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
42 3 0.06
43 14 0.28
44 7 0.14
45 14 0.28
46 12 0.24
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (41 bp):
TATATTATATTATTATATTTATATTATATAGTATATATATA
Found at i:25364 original size:27 final size:25
Alignment explanation
Indices: 25315--25366 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 25
25305 CAAAGCCACA
*
25315 AACCGAAAGCAAAAATAATCAAAGC
1 AACCGAAAGCAAAAATAAACAAAGC
25340 AACCGAAAGCAAAAAAATAAACAAAGC
1 AACCGAAAGC--AAAAATAAACAAAGC
25367 TTGGGGCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 10 0.42
27 14 0.58
ACGTcount: A:0.63, C:0.19, G:0.12, T:0.06
Consensus pattern (25 bp):
AACCGAAAGCAAAAATAAACAAAGC
Found at i:27380 original size:21 final size:19
Alignment explanation
Indices: 27342--27387 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
27332 AATTAATCCT
27342 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
27362 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
27383 A-TAAT
1 ACTAAT
27388 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:37030 original size:21 final size:19
Alignment explanation
Indices: 36992--37037 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
36982 AATTAATCCT
36992 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
37012 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
37033 A-TAAT
1 ACTAAT
37038 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:44867 original size:23 final size:23
Alignment explanation
Indices: 44841--44922 Score: 110
Period size: 23 Copynumber: 3.6 Consensus size: 23
44831 CACCACAGCT
* *
44841 CGTATAAATGCACCGAAGTGCTG
1 CGTAGAAATGCACCGAAGTGCCG
* *
44864 CGTAGAAATGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCG
**
44887 CGTAGAGTTGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
44910 CGTAGAAATGCAC
1 CGTAGAAATGCAC
44923 TGTAGTTTCA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.29, C:0.24, G:0.28, T:0.18
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:47166 original size:47 final size:44
Alignment explanation
Indices: 47094--47219 Score: 153
Period size: 47 Copynumber: 2.8 Consensus size: 44
47084 TATAAAATCT
*
47094 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
47139 CTTACCATTTAAATTCTATAAGCTCGTAAGCTTATTTTTCCAATATA
1 CTTACCA-TT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
47186 CTTGCCATTATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTATTCCATAAGCTCGTAAGCTTATTT
47220 GCATGGTTAC
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
44 22 0.31
45 10 0.14
46 2 0.03
47 37 0.52
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (44 bp):
CTTACCATTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:47402 original size:30 final size:30
Alignment explanation
Indices: 47333--47402 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
47323 ACCTGCACCG
*
47333 TAGTGCTAAAACTGCACTAAGCTTACGCCA
1 TAGTGCTAATACTGCACTAAGCTTACGCCA
*
47363 TAGTGCTAATTCTGCACTAAGCTTACGCCA
1 TAGTGCTAATACTGCACTAAGCTTACGCCA
47393 TAGTGCTAAT
1 TAGTGCTAAT
47403 CCGAACAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (30 bp):
TAGTGCTAATACTGCACTAAGCTTACGCCA
Found at i:54286 original size:47 final size:45
Alignment explanation
Indices: 54214--54339 Score: 139
Period size: 47 Copynumber: 2.8 Consensus size: 45
54204 TATAAAATCT
54214 CTTACCATTTATCTCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATCTCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
54259 CTTACCATTTAAAT-TCTATAAGCTCGTAAGCTTATTTTTCCAATATA
1 CTTACCATTT--ATCTC-ATAAGCTCGTAAGCTTATTTTACCAAAATA
* ** * * *
54306 TTTGTCA-TTATTTCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTATCTCATAAGCTCGTAAGCTTATTT
54340 GCACGGTTAC
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
44 20 0.29
45 12 0.17
46 4 0.06
47 34 0.49
ACGTcount: A:0.30, C:0.19, G:0.08, T:0.43
Consensus pattern (45 bp):
CTTACCATTTATCTCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:66410 original size:20 final size:20
Alignment explanation
Indices: 66385--66468 Score: 62
Period size: 20 Copynumber: 4.0 Consensus size: 20
66375 TTTTGGTGCA
*
66385 GAGGGAATCGATCCCCCCCT
1 GAGGGAACCGATCCCCCCCT
* **
66405 GAGGGAACCGATTCCCCTTT
1 GAGGGAACCGATCCCCCCCT
*
66425 GAAGGGGAACCGATTCCCCCCACA
1 G-A-GGGAACCGA-TCCCCCC-CT
* *
66449 G-GGGAATCGATACCCCCCT
1 GAGGGAACCGATCCCCCCCT
66468 G
1 G
66469 GGGTTCTGCT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
19 2 0.04
20 23 0.47
21 9 0.18
22 9 0.18
23 5 0.10
24 1 0.02
ACGTcount: A:0.23, C:0.36, G:0.26, T:0.15
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCCT
Found at i:66453 original size:21 final size:21
Alignment explanation
Indices: 66427--66466 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
66417 TCCCCTTTGA
*
66427 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
66448 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
66467 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:69269 original size:23 final size:21
Alignment explanation
Indices: 69217--69275 Score: 100
Period size: 21 Copynumber: 2.7 Consensus size: 21
69207 TTTTACACTT
69217 AGGGAACCGATTCCCTATGAG
1 AGGGAACCGATTCCCTATGAG
69238 AGGGAACCGATTCCCTATGAG
1 AGGGAACCGATTCCCTATGAG
69259 AGGGGGAACCGATTCCC
1 A--GGGAACCGATTCCC
69276 CCACGCTCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 22 0.61
23 14 0.39
ACGTcount: A:0.27, C:0.25, G:0.31, T:0.17
Consensus pattern (21 bp):
AGGGAACCGATTCCCTATGAG
Found at i:70541 original size:2 final size:2
Alignment explanation
Indices: 70514--70727 Score: 212
Period size: 2 Copynumber: 113.5 Consensus size: 2
70504 AGTTTTTATG
*
70514 TA TA GTA TA TT TA TA TA -A TA TA -A TA TA TA TA TA TA T- TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
70554 -A TA T- TA TT TA TA T- TA TA TA -A TA CTA T- TA TA TG T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
70591 GTA TA CT- TA TA T- TA TA TA GTA TA TA TA TA TA TA TA TA TA TA
1 -TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
70632 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
70674 TA TA T- TA AA T- TA T- TA TA T- TA T- TT TA TA T- TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
70709 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
70728 TTGTTTGTTG
Statistics
Matches: 181, Mismatches: 8, Indels: 46
0.77 0.03 0.20
Matches are distributed among these distances:
1 18 0.10
2 154 0.85
3 9 0.05
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:71257 original size:25 final size:25
Alignment explanation
Indices: 71229--71293 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
71219 CAAAGCCACA
* *
71229 AACCGAAAGTAAAAATAAGCAAAGC
1 AACCGAAAGCAAAAATAAACAAAGC
71254 AACCGAAAGCAAAAATAAACAAAGC
1 AACCGAAAGCAAAAATAAACAAAGC
*
71279 AATCGAAAGCAAAAA
1 AACCGAAAGCAAAAA
71294 AAAAAAACTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.63, C:0.17, G:0.14, T:0.06
Consensus pattern (25 bp):
AACCGAAAGCAAAAATAAACAAAGC
Found at i:71291 original size:15 final size:15
Alignment explanation
Indices: 71245--71291 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
71235 AAGTAAAAAT
*
71245 AAGCAAAGCAACCGA
1 AAGCAAAGCAATCGA
71260 AAGCAAA--AAT--A
1 AAGCAAAGCAATCGA
71271 AA-CAAAGCAATCGA
1 AAGCAAAGCAATCGA
71285 AAGCAAA
1 AAGCAAA
71292 AAAAAAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 10
0.70 0.03 0.27
Matches are distributed among these distances:
10 4 0.15
11 3 0.12
12 3 0.12
13 2 0.08
14 3 0.12
15 11 0.42
ACGTcount: A:0.62, C:0.19, G:0.15, T:0.04
Consensus pattern (15 bp):
AAGCAAAGCAATCGA
Found at i:72120 original size:9 final size:9
Alignment explanation
Indices: 72106--72163 Score: 62
Period size: 9 Copynumber: 6.0 Consensus size: 9
72096 TTCTTCAGTT
*
72106 TTTTTTTTG
1 TTTTTTTTA
72115 TTTTTTTTA
1 TTTTTTTTA
72124 TTTTATTATTA
1 TTTT-TT-TTA
*
72135 TTTCTTTTA
1 TTTTTTTTA
72144 TCTTTATTTTA
1 T-TTT-TTTTA
72155 TTTTTTTTA
1 TTTTTTTTA
72164 ACCTTTTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
9 21 0.50
10 9 0.21
11 12 0.29
ACGTcount: A:0.14, C:0.03, G:0.02, T:0.81
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:72127 original size:20 final size:20
Alignment explanation
Indices: 72104--72163 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
72094 CATTCTTCAG
*
72104 TTTTTTTTTTGTTTTTTTTA
1 TTTTTTTTTTATTTTTTTTA
* * *
72124 TTTTATTATTATTTCTTTTA
1 TTTTTTTTTTATTTTTTTTA
* *
72144 TCTTTATTTTATTTTTTTTA
1 TTTTTTTTTTATTTTTTTTA
72164 ACCTTTTTTA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.13, C:0.03, G:0.02, T:0.82
Consensus pattern (20 bp):
TTTTTTTTTTATTTTTTTTA
Found at i:72128 original size:5 final size:5
Alignment explanation
Indices: 72105--72163 Score: 52
Period size: 5 Copynumber: 12.0 Consensus size: 5
72095 ATTCTTCAGT
* * *
72105 TTTTT TTTTG TTTT- TTTTA TTTTA TTATTA -TTTC TTTTA TCTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA T-TTTA TTTTA
72155 TTTT- TTTTA
1 TTTTA TTTTA
72164 ACCTTTTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
4 10 0.22
5 28 0.61
6 8 0.17
ACGTcount: A:0.14, C:0.03, G:0.02, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:72169 original size:21 final size:21
Alignment explanation
Indices: 72125--72169 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
72115 TTTTTTTTAT
*
72125 TTTATTATTATTTCTTTTATC
1 TTTATTATTATTTCTTTTACC
*
72146 TTTATT-TTATTTTTTTTAACC
1 TTTATTATTATTTCTTTT-ACC
72167 TTT
1 TTT
72170 TTTAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTATTATTATTTCTTTTACC
Found at i:75243 original size:43 final size:43
Alignment explanation
Indices: 75212--75455 Score: 364
Period size: 43 Copynumber: 5.7 Consensus size: 43
75202 TAACAATATA
* * *
75212 TAGCGGCGTTTGTCCAACAAACGCCGTAATAGGTGTTGATATT
1 TAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATT
* *
75255 TAACGGCGTTTTTCCAACAAACGTCGCAATAGGTGTTGAGATT
1 TAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATT
* *
75298 TAGCGGAGTTTTTCCCACAAACGCCGCAATAGGTGTTGAGATT
1 TAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATT
*
75341 TAGCGGCGTTTTTCCCACAAACGCCGCAATAGGTGTTGAGATT
1 TAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATT
* *
75384 TAGCGGCGTTTTTTCC-ACAAACGCCGTAATAGGTCTTGAGATT
1 TAGCGGCG-TTTTTCCAACAAACGCCGCAATAGGTGTTGAGATT
* *
75427 TAGCGGCGTTTTTCCCACAAACACCGCAA
1 TAGCGGCGTTTTTCCAACAAACGCCGCAA
75456 AAGATCTGGT
Statistics
Matches: 185, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
42 7 0.04
43 171 0.92
44 7 0.04
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATT
Found at i:75482 original size:43 final size:42
Alignment explanation
Indices: 75212--75504 Score: 282
Period size: 43 Copynumber: 6.8 Consensus size: 42
75202 TAACAATATA
* * * * * *
75212 TAGCGGCGTTTGTCCAACAAACGCCGTAATAGGTGTTGATATT
1 TAGCGGCGTTTTTCCCACAAACGCCGCAAAAGGT-CTGAGATT
* * * * *
75255 TAACGGCGTTTTTCCAACAAACGTCGCAATAGGTGTTGAGATT
1 TAGCGGCGTTTTTCCCACAAACGCCGCAAAAGGT-CTGAGATT
* * *
75298 TAGCGGAGTTTTTCCCACAAACGCCGCAATAGGTGTTGAGATT
1 TAGCGGCGTTTTTCCCACAAACGCCGCAAAAGGT-CTGAGATT
* *
75341 TAGCGGCGTTTTTCCCACAAACGCCGCAATAGGTGTTGAGATT
1 TAGCGGCGTTTTTCCCACAAACGCCGCAAAAGGT-CTGAGATT
* * *
75384 TAGCGGCGTTTTTTCCACAAACGCCGTAATAGGTCTTGAGATT
1 TAGCGGCGTTTTTCCCACAAACGCCGCAAAAGGTC-TGAGATT
* * *
75427 TAGCGGCGTTTTTCCCACAAACACCGCAAAAGATCTG-GTATA
1 TAGCGGCGTTTTTCCCACAAACGCCGCAAAAGGTCTGAG-ATT
* ***
75469 TAGAGGCGTTTTTTAGAACAAACGCCGCAAAAGGTC
1 TAGCGGCG-TTTTTCCCACAAACGCCGCAAAAGGTC
75505 ATATCTATAG
Statistics
Matches: 222, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
41 1 0.00
42 11 0.05
43 210 0.95
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (42 bp):
TAGCGGCGTTTTTCCCACAAACGCCGCAAAAGGTCTGAGATT
Found at i:75482 original size:129 final size:130
Alignment explanation
Indices: 75208--75503 Score: 384
Period size: 129 Copynumber: 2.3 Consensus size: 130
75198 TAGGTAACAA
* * *
75208 TATATAGCGGCGTTTGTCCAACAAACGCCGTAATAGGTGTTGATATTTAACGGCGTTTTTCCAAC
1 TATATAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATTTAACGGCGTTTTTCCAAC
* * * * * *
75273 AAACGTCGCAATAGGTGTTGAGATTTAGCGGAGTTTTTCCCACAAACGCCGCAATAGGTGTTGAG
66 AAACGCCGCAATAGGTCTTGAGATTTAGCGGAGTTTTTCCCACAAACACCGCAAAAGATGCTGAG
* * *
75338 -ATTTAGCGGCGTTTTTCCCACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTTCC-A
1 TATATAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATTTAACGGCG-TTTTTCCAA
* *
75401 CAAACGCCGTAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCACAAACACCGCAAAAGAT-CTG-
65 CAAACGCCGCAATAGGTCTTGAGATTTAGCGGAGTTTTTCCCACAAACACCGCAAAAGATGCTGA
75464 G
130 G
* ** *
75465 TATATAGAGGCGTTTTTTAGAACAAACGCCGCAAAAGGT
1 TATATAGCGGCG-TTTTTCCAACAAACGCCGCAATAGGT
75504 CATATCTATA
Statistics
Matches: 143, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
127 1 0.01
128 11 0.08
129 124 0.87
130 7 0.05
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (130 bp):
TATATAGCGGCGTTTTTCCAACAAACGCCGCAATAGGTGTTGAGATTTAACGGCGTTTTTCCAAC
AAACGCCGCAATAGGTCTTGAGATTTAGCGGAGTTTTTCCCACAAACACCGCAAAAGATGCTGAG
Found at i:75490 original size:86 final size:86
Alignment explanation
Indices: 75212--75504 Score: 356
Period size: 86 Copynumber: 3.4 Consensus size: 86
75202 TAACAATATA
* * * * * * *
75212 TAGCGGCGTTTGTCCAACAAACGCCGTAATAGGTGTTGATATTTAACGGCGTTTTTCCAACAAAC
1 TAGCGGCGTTTTTTCAACAAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCACAAAC
*
75277 GTCGCAATAGGTGTTGAGATT
66 GCCGCAATAGGTGTTGAGATT
* * * *
75298 TAGCGGAGTTTTTCCCACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCACAAAC
1 TAGCGGCGTTTTTTCAACAAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCACAAAC
75363 GCCGCAATAGGTGTTGAGATT
66 GCCGCAATAGGTGTTGAGATT
* *
75384 TAGCGGCGTTTTTTCCACAAACGCCGTAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCACAAAC
1 TAGCGGCGTTTTTTCAACAAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCACAAAC
* * * * *
75449 ACCGCAAAAGAT-CTG-GTATA
66 GCCGCAATAGGTGTTGAG-ATT
* * *
75469 TAGAGGCGTTTTTTAGAACAAACGCCGCAAAAGGTC
1 TAGCGGCGTTTTTT-CAACAAACGCCGCAATAGGTC
75505 ATATCTATAG
Statistics
Matches: 183, Mismatches: 22, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
84 1 0.01
85 17 0.09
86 165 0.90
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (86 bp):
TAGCGGCGTTTTTTCAACAAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCACAAAC
GCCGCAATAGGTGTTGAGATT
Found at i:75675 original size:21 final size:21
Alignment explanation
Indices: 75650--75711 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
75640 CATTTCCAAT
*
75650 AAACTTGACATCCATAATAAC
1 AAACTTGAAATCCATAATAAC
* * *
75671 AAACTTAAAATCCATAACAAG
1 AAACTTGAAATCCATAATAAC
**
75692 AAAAATGAAATCCATAATAA
1 AAACTTGAAATCCATAATAA
75712 TAAATCAAAG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.56, C:0.18, G:0.05, T:0.21
Consensus pattern (21 bp):
AAACTTGAAATCCATAATAAC
Found at i:80969 original size:25 final size:25
Alignment explanation
Indices: 80910--80970 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
80900 TGGGCAATAA
* *
80910 GAAAAAGGGAATCGTGGGAATAGAT
1 GAAAAAGGGGATCGTGGGAACAGAT
80935 GAAAAAGGGGATCGTGGGAACAGAT
1 GAAAAAGGGGATCGTGGGAACAGAT
*
80960 GGAAAAGGGGA
1 GAAAAAGGGGA
80971 ATGGGATTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.43, C:0.05, G:0.41, T:0.11
Consensus pattern (25 bp):
GAAAAAGGGGATCGTGGGAACAGAT
Found at i:81278 original size:81 final size:82
Alignment explanation
Indices: 81193--81381 Score: 210
Period size: 81 Copynumber: 2.3 Consensus size: 82
81183 AAAAATACCA
*
81193 CTAAAGTACTAATCTGTTGTGGCGTTTGTATAAAAACGCCACTATAG-A-TGGAC-CTATTACGG
1 CTAAAGTACTAATCT-TTGTGGCGTTTGTATAAAAACGCCACTAAAGTACT--ACTCTATTACGG
*
81255 CGTTTGTAT-AAAAACGCCG
63 CGTTTGTATAAAAAACGACG
* * * * * *
81274 CTAAAGTACTACTCTATTGCGGTGTTTATATAAAAACGCCGCTAAAGTACTACTCTATTGCGGCG
1 CTAAAGTACTAATCT-TTGTGGCGTTTGTATAAAAACGCCACTAAAGTACTACTCTATTACGGCG
*
81339 TTTGTTTAAAAAACGACG
65 TTTGTATAAAAAACGACG
*
81357 CTAAAGTA-TCAT-TTTGTGGCGTTTG
1 CTAAAGTACTAATCTTTGTGGCGTTTG
81382 GATAGTAAAA
Statistics
Matches: 89, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
80 9 0.10
81 43 0.48
82 19 0.21
83 18 0.20
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (82 bp):
CTAAAGTACTAATCTTTGTGGCGTTTGTATAAAAACGCCACTAAAGTACTACTCTATTACGGCGT
TTGTATAAAAAACGACG
Found at i:81364 original size:42 final size:41
Alignment explanation
Indices: 81193--81364 Score: 206
Period size: 41 Copynumber: 4.2 Consensus size: 41
81183 AAAAATACCA
* * * *
81193 CTAAAGTACTAATCTGTTGTGGCGTTTGTATAAAAACGCCA
1 CTAAAGTACTACTCTATTGCGGCGTTTGTATAAAAACGCCG
* *
81234 CTATAG-A-TGGAC-CTATTACGGCGTTTGTATAAAAACGCCG
1 CTAAAGTACT--ACTCTATTGCGGCGTTTGTATAAAAACGCCG
* *
81274 CTAAAGTACTACTCTATTGCGGTGTTTATATAAAAACGCCG
1 CTAAAGTACTACTCTATTGCGGCGTTTGTATAAAAACGCCG
* *
81315 CTAAAGTACTACTCTATTGCGGCGTTTGTTTAAAAAACGACG
1 CTAAAGTACTACTCTATTGCGGCGTTTGTAT-AAAAACGCCG
81357 CTAAAGTA
1 CTAAAGTA
81365 TCATTTTGTG
Statistics
Matches: 111, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
39 1 0.01
40 32 0.29
41 60 0.54
42 18 0.16
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (41 bp):
CTAAAGTACTACTCTATTGCGGCGTTTGTATAAAAACGCCG
Found at i:89094 original size:31 final size:30
Alignment explanation
Indices: 89058--89116 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
89048 TCGGGTATCA
*
89058 GGTTGGGTCAATATC-GACTCGATTGATTTCG
1 GGTTGGATCAA-ATCAGA-TCGATTGATTTCG
*
89089 GGTTGGATTAAATCAGATCGATTGATTT
1 GGTTGGATCAAATCAGATCGATTGATTT
89117 TTAGGTCAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (30 bp):
GGTTGGATCAAATCAGATCGATTGATTTCG
Found at i:89945 original size:60 final size:60
Alignment explanation
Indices: 89806--89971 Score: 187
Period size: 60 Copynumber: 2.8 Consensus size: 60
89796 GTATTATACG
* * **
89806 TCCCTAAATTATGACTCTCATT-TCAAAGTAGTCCTTAAACTTTTAAATATTTTAATTTCA
1 TCCCTAAATTATGACTCTCATTCT-AAATTAGTCCTTAAACTTTTAAACATTAAAATTTCA
* *
89866 TCCTTAAACTT-TGACTCTCATTCTAAATTAGTCCTTAAACTTTTGAACATTCAAAATTT-A
1 TCCCTAAA-TTATGACTCTCATTCTAAATTAGTCCTTAAACTTTTAAACATT-AAAATTTCA
* * * *
89926 TCCCCAAATTATGAATCTCATTCTAAATTGGTTCTT-AACTTTTAAA
1 TCCCTAAATTATGACTCTCATTCTAAATTAGTCCTTAAACTTTTAAA
89972 TCTTTCAATT
Statistics
Matches: 90, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
59 11 0.12
60 71 0.79
61 8 0.09
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.42
Consensus pattern (60 bp):
TCCCTAAATTATGACTCTCATTCTAAATTAGTCCTTAAACTTTTAAACATTAAAATTTCA
Found at i:91995 original size:20 final size:19
Alignment explanation
Indices: 91972--92018 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
91962 CGATATAACA
91972 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
91992 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
92012 GGTAAAA
1 GGTAAAA
92019 TGATACCGGA
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:92020 original size:17 final size:19
Alignment explanation
Indices: 91981--92023 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
91971 AGGTAAAAAT
91981 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
92001 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
92018 ATGATA
1 ATGATA
92024 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:94292 original size:21 final size:21
Alignment explanation
Indices: 94245--94309 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
94235 AAGACAATCA
* *
94245 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
94267 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
94287 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
94308 AG
1 AG
94310 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:96209 original size:18 final size:18
Alignment explanation
Indices: 96186--96230 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
96176 AGTAGGGTTA
96186 ATTTTGTATAAGATTTAT
1 ATTTTGTATAAGATTTAT
*
96204 ATTTTGTATACGATTTAT
1 ATTTTGTATAAGATTTAT
96222 ATTTTGTAT
1 ATTTTGTAT
96231 GTGAATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.58
Consensus pattern (18 bp):
ATTTTGTATAAGATTTAT
Found at i:96783 original size:190 final size:193
Alignment explanation
Indices: 96349--97296 Score: 1626
Period size: 190 Copynumber: 4.9 Consensus size: 193
96339 CAATATGGCC
* * *
96349 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
*
96414 CCAAAAGTATAATATAATATGT-ATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT---A
*
96478 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGAT-TTTTTTTCCAGAATGAATGG
127 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGG
96542 AA
192 AA
96544 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
96609 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGG-TTT-T-ATAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATAATAT
96671 GTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAA
131 GTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAA
96734 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
96799 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGG-TTT-T-ATAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATAATAT
96861 GTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAA
131 GTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAA
96924 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
96989 C-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA--T---
*
97053 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
126 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATG
97118 GAA
191 GAA
*
97121 AACAGGGTGCACCCATAAAGAGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
97186 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACATTTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT-----
*
97251 AATATGTCTAAATAATGTGTCGACACTAATAGAGTTTGTGTCGATA
126 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
97297 CTAATTTAAA
Statistics
Matches: 731, Mismatches: 9, Indels: 23
0.96 0.01 0.03
Matches are distributed among these distances:
189 96 0.13
190 280 0.38
193 2 0.00
194 26 0.04
195 91 0.12
196 1 0.00
197 131 0.18
198 104 0.14
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (193 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATAATAT
GTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAA
Found at i:97157 original size:387 final size:383
Alignment explanation
Indices: 96349--97296 Score: 1620
Period size: 387 Copynumber: 2.4 Consensus size: 383
96339 CAATATGGCC
* * *
96349 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
*
96414 CCAAAAGTATAATATAATATGT-ATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT---A
*
96478 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGAT-TTTTTTTCCAGAATGAATGG
127 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGG
96542 AAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAA
192 AAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAA
96607 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATATG
257 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATATG
96672 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAA
322 TCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAA
96734 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
96799 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGG-TTT-T-ATAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATAATAT
96861 GTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAA
131 GTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAA
96926 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCC-
196 CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
96990 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAA
261 AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGG--TT-T-T----A
*
97055 TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGA
318 TATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGA
97120 A
383 A
*
97121 AACAGGGTGCACCCATAAAGAGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
97186 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACATTTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT-----
*
97251 AATATGTCTAAATAATGTGTCGACACTAATAGAGTTTGTGTCGATA
126 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
97297 CTAATTTAAA
Statistics
Matches: 536, Mismatches: 9, Indels: 26
0.94 0.02 0.05
Matches are distributed among these distances:
379 96 0.18
380 87 0.16
381 2 0.00
382 1 0.00
383 2 0.00
384 26 0.05
385 91 0.17
387 183 0.34
388 3 0.01
389 1 0.00
395 44 0.08
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (383 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATAATAT
GTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAA
CAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCA
AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATATGTCTA
AATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAA
Found at i:98778 original size:3 final size:3
Alignment explanation
Indices: 98759--98838 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
98749 TGAAGCTGAC
* * * * ** *
98759 GAT GA- GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
98806 GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
98839 CCAAACAAGT
Statistics
Matches: 59, Mismatches: 17, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.35, C:0.06, G:0.35, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:98779 original size:12 final size:12
Alignment explanation
Indices: 98755--98838 Score: 89
Period size: 12 Copynumber: 7.1 Consensus size: 12
98745 AAGATGAAGC
98755 TGACGATGA-GA
1 TGACGATGATGA
98766 TGACGATGATGA
1 TGACGATGATGA
* *
98778 TGACGATGAAGC
1 TGACGATGATGA
* *
98790 TGGCGATGAAGA
1 TGACGATGATGA
* *
98802 TGATGACGATGA
1 TGACGATGATGA
*
98814 TGATGATGATGA
1 TGACGATGATGA
*
98826 TGAAGATGATGA
1 TGACGATGATGA
98838 T
1 T
98839 CCAAACAAGT
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
11 9 0.15
12 53 0.85
ACGTcount: A:0.35, C:0.07, G:0.35, T:0.24
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:100619 original size:183 final size:181
Alignment explanation
Indices: 100294--100805 Score: 854
Period size: 183 Copynumber: 2.8 Consensus size: 181
100284 TATTATATAA
* *
100294 AATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAAC
1 AATA-GTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAAC
100359 CTATATCGAACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCG
65 CTATATCG-ACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCG
100424 ATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGT
129 ATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCA-AATTATAATGT
100478 AATAGATAATTTTGTAATATAACCCGGTATAAAATATACCGGTTTTATGCGCGAATAGGTCTACA
1 AATAG-TAATTTTGTAATATAA-CCGGTAT-AAATATACCGGTTTTATGCGCGAATAGGTCTACA
100543 ACCTATATCGACACTTTTTAATA-TGTGTCGGT-CTTTATGTCCATATTGGAAGAAAAATGTGTC
63 ACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTC
* *
100606 GATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGATTATAATGT
128 GATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCAAATTATAATGT
* *
100660 AATAGTAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCG-ATAGGTCTACAACC
1 AATAGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACC
* *
100724 TATATCGACACTTTATAATATTGTGTC-GTACTTTATGTCCAGATTGGAAG-AAAATGTGTCGAT
66 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGAT
*
100787 ACCATTTAAAAAAGTGTCG
131 ACGATTTAAAAAAGTGTCG
100806 GTAATTTAAG
Statistics
Matches: 313, Mismatches: 10, Indels: 16
0.92 0.03 0.05
Matches are distributed among these distances:
178 65 0.21
179 45 0.14
180 7 0.02
181 16 0.05
182 15 0.05
183 74 0.24
184 27 0.09
185 20 0.06
186 44 0.14
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (181 bp):
AATAGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACC
TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGAT
ACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCAAATTATAATGT
Done.