Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001215.1 Hibiscus syriacus cultivar Beakdansim tig00002401_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: 98828
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:4498 original size:2 final size:2
Alignment explanation
Indices: 4491--4519 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4481 TTAGCACTGT
4491 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 T
4520 GCATTTATGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20772 original size:30 final size:29
Alignment explanation
Indices: 20729--20800 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
20719 AAATTAAAAA
*
20729 TTAAAAAGTTTAAATTTTGATTATAAT-TAT-T
1 TTAAAAA--TTAAATTTT-A-TAGAATATATAT
20760 TTAAATAATTAAATTTTATAGAATATATAT
1 TTAAA-AATTAAATTTTATAGAATATATAT
20790 TTAAAAATTAA
1 TTAAAAATTAA
20801 TTGATTGAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
28 5 0.14
29 10 0.27
30 15 0.41
31 5 0.14
32 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (29 bp):
TTAAAAATTAAATTTTATAGAATATATAT
Found at i:28788 original size:17 final size:18
Alignment explanation
Indices: 28766--28805 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
28756 AAAAAATGCA
28766 AATAAAAATATA-ATTAT
1 AATAAAAATATATATTAT
*
28783 AATAAAAATATATTTTAT
1 AATAAAAATATATATTAT
28801 AATAA
1 AATAA
28806 CTCACTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAAAAATATATATTAT
Found at i:29818 original size:218 final size:218
Alignment explanation
Indices: 29406--29826 Score: 625
Period size: 218 Copynumber: 1.9 Consensus size: 218
29396 AATTAACCGA
* * *
29406 TATATTTAACATATGTGCTCAACCCAAACTATTTAAAACCTAATTAATAATTTAAAATCCAATAA
1 TATATATAACATATGGGCTCAACCCAAACCATTTAAAACCTAATTAATAATTTAAAATCCAATAA
29471 CTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATATATAAAATTTTATTTTATAATTATAT
66 CTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATATATAAAATTTTATTTTATAATTATAT
* * *
29536 ATCATTTAAATTAATTGTAAACTATTTTTTTGAATTAAAAAATATTTAATTTTTATATAAATTAA
131 ATCATTTAAATTAATCGTAAACTATTTTTTTGAATTAAAAAATATTCAATTTTCATATAAATTAA
29601 CCGAAATTAAATTTTAAATATAT
196 CCGAAATTAAATTTTAAATATAT
* *
29624 TATATATAACATATGGGCTCAGCCCAAACCATTTAAAATCC-AATTAATAATTTAAGATCCAATA
1 TATATATAACATATGGGCTCAACCCAAACCATTTAAAA-CCTAATTAATAATTTAAAATCCAATA
* ***
29688 ACTTTTAAACTTAAATCAATATTAATTAATTAAAATTTTATATAAAATTTTTATTTTATAATTAT
65 ACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATATATAAAA-TTTTATTTTATAATTAT
* * * **
29753 ATATTATTTAAATTAATCGTAAATTGTTTTTTTGAATTAAAAAA-ATTCGGTTAATTCA-A-AAA
129 ATATCATTTAAATTAATCGTAAACTATTTTTTTGAATTAAAAAATATTCAATT--TTCATATAAA
29815 TTAACCGAAATT
192 TTAACCGAAATT
29827 TATTTGGTTC
Statistics
Matches: 182, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
218 119 0.65
219 60 0.33
220 3 0.02
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (218 bp):
TATATATAACATATGGGCTCAACCCAAACCATTTAAAACCTAATTAATAATTTAAAATCCAATAA
CTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATATATAAAATTTTATTTTATAATTATAT
ATCATTTAAATTAATCGTAAACTATTTTTTTGAATTAAAAAATATTCAATTTTCATATAAATTAA
CCGAAATTAAATTTTAAATATAT
Found at i:32005 original size:8 final size:8
Alignment explanation
Indices: 31992--32061 Score: 54
Period size: 8 Copynumber: 8.5 Consensus size: 8
31982 TTAAATTAAA
31992 ATTAAAAT
1 ATTAAAAT
*
32000 ATTAAAAA
1 ATTAAAAT
*
32008 ATATATTAAT
1 AT-TA-AAAT
32018 ATTAAAAT
1 ATTAAAAT
32026 ATTAAAAT
1 ATTAAAAT
32034 A-TAGAAAT
1 ATTA-AAAT
*
32042 A-TAATAT
1 ATTAAAAT
*
32049 TTTAAAAGT
1 ATTAAAA-T
32058 ATTA
1 ATTA
32062 TAATTTTTGA
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
7 5 0.10
8 32 0.65
9 8 0.16
10 4 0.08
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.39
Consensus pattern (8 bp):
ATTAAAAT
Found at i:42328 original size:28 final size:28
Alignment explanation
Indices: 42286--42389 Score: 93
Period size: 28 Copynumber: 3.5 Consensus size: 28
42276 ATTAAGTTGA
* *
42286 AATTTA-ATGTTAAATTTCGAATACTAT
1 AATTTATATTTTAAATTTCGAATAATAT
42313 AATTTATATTTTAAATTTAAATTTCGAATAATAT
1 AATTTATA---T---TTTAAATTTCGAATAATAT
* * *
42347 TATTTTTATTTTAAATTTTGAATAATAT
1 AATTTATATTTTAAATTTCGAATAATAT
*
42375 AATTTGTATTTTAAA
1 AATTTATATTTTAAA
42390 AACATTTATC
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
27 6 0.10
28 32 0.51
31 2 0.03
34 23 0.37
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (28 bp):
AATTTATATTTTAAATTTCGAATAATAT
Found at i:42333 original size:34 final size:34
Alignment explanation
Indices: 42295--42364 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
42285 AAATTTAATG
*
42295 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* *
42329 TTAAATTTCGAATAATATTATTTTTATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
42363 TT
1 TT
42365 TGAATAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:42941 original size:21 final size:20
Alignment explanation
Indices: 42913--42982 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 20
42903 GGTATAAAAC
*
42913 CCTGCGGGCTAGGCATGTAA
1 CCTGCGGGCTAGGAATGTAA
42933 CCTGACGGGCTAGGAATGTAA
1 CCTG-CGGGCTAGGAATGTAA
*
42954 CCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
42975 CCCTGCGG
1 -CCTGCGG
42983 AGATGACATA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 4 0.09
21 38 0.83
22 4 0.09
ACGTcount: A:0.20, C:0.27, G:0.34, T:0.19
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:44798 original size:31 final size:33
Alignment explanation
Indices: 44756--44830 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 33
44746 ATAATTCTAA
* * *
44756 ATAAATAATAATTATATAAAT-ATTATTTTAAT
1 ATAAAAAATAATTATATAAATAAATATATTAAT
* *
44788 A-AAAAAATAA-TATTTACATAAATATATTAAT
1 ATAAAAAATAATTATATAAATAAATATATTAAT
44819 ATAAAAAATAAT
1 ATAAAAAATAAT
44831 AACTATTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 7 0.20
31 18 0.51
32 10 0.29
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
ATAAAAAATAATTATATAAATAAATATATTAAT
Found at i:44809 original size:34 final size:31
Alignment explanation
Indices: 44753--44832 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 31
44743 TTAATAATTC
* *
44753 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTACATAAATA-TA--TTAA
*
44787 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTACATAAATATATTAA
44818 TATAAAAAATAATAA
1 TA-AAAAAATAATAA
44833 CTATTTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 6 0.15
32 11 0.27
33 2 0.05
34 22 0.54
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (31 bp):
TAAAAAAATAATAATTACATAAATATATTAA
Found at i:47576 original size:33 final size:34
Alignment explanation
Indices: 47534--47639 Score: 87
Period size: 33 Copynumber: 3.1 Consensus size: 34
47524 GTGGTAAGAA
* *
47534 ATTTATTTTTATGTTAGTAT-TTT-T-TAAATAGTT
1 ATTT-TTTTTATATTAATATATTTATGTAAATA-TT
47567 ATTATTTTTTATATTAATATATTTATGTAAATATT
1 ATT-TTTTTTATATTAATATATTTATGTAAATATT
* * *
47602 A-TTTTTTTAT-TAAAATAATATTTATATAATTATT
1 ATTTTTTTTATAT-TAAT-ATATTTATGTAAATATT
47636 ATTT
1 ATTT
47640 ATTAGAATTA
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
32 1 0.02
33 27 0.44
34 21 0.34
35 6 0.10
36 6 0.10
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (34 bp):
ATTTTTTTTATATTAATATATTTATGTAAATATT
Found at i:47613 original size:31 final size:34
Alignment explanation
Indices: 47566--47639 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 34
47556 TTTAAATAGT
*
47566 TATTATTTTTTATATT-AAT-ATATTTATGTAAA
1 TATTATTTTTTATATTAAATAATATTTATATAAA
*
47598 TATTATTTTTT-TATTAAAATAATATTTATATAAT
1 TATTATTTTTTATATT-AAATAATATTTATATAAA
47632 TATTATTT
1 TATTATTT
47640 ATTAGAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 4 0.11
32 11 0.30
33 3 0.08
34 19 0.51
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (34 bp):
TATTATTTTTTATATTAAATAATATTTATATAAA
Found at i:47650 original size:16 final size:15
Alignment explanation
Indices: 47565--47652 Score: 52
Period size: 15 Copynumber: 5.4 Consensus size: 15
47555 TTTTAAATAG
* *
47565 TTATTATTTTTTATA
1 TTATTATTTATTAAA
47580 TTAATATATTTATGTAAATA
1 TT-AT-TATTTAT-T-AA-A
*
47600 TTATTTTTTTATTAAA
1 TTA-TTATTTATTAAA
* *
47616 ATAATATTTA-TATAA
1 TTATTATTTATTA-AA
47631 TTATTATTTATTAGAA
1 TTATTATTTATTA-AA
47647 TTATTA
1 TTATTA
47653 ATTTTTTTGC
Statistics
Matches: 56, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
14 2 0.04
15 17 0.30
16 15 0.27
17 8 0.14
18 2 0.04
19 8 0.14
20 4 0.07
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (15 bp):
TTATTATTTATTAAA
Found at i:49402 original size:21 final size:21
Alignment explanation
Indices: 49359--49403 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
49349 GCAGTGGTAC
* *
49359 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
49380 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
49401 ATG
1 ATG
49404 ACATCTCCGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.38, G:0.13, T:0.24
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:49436 original size:21 final size:21
Alignment explanation
Indices: 49410--49503 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
49400 TATGACATCT
* *
49410 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
49431 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
49452 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
49473 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
49494 CCGCAGGGTT
1 CCGCAGGGTT
49504 TTATACCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:50055 original size:28 final size:27
Alignment explanation
Indices: 50023--50116 Score: 89
Period size: 28 Copynumber: 3.2 Consensus size: 27
50013 GATAAATGTT
*
50023 TTTAAAATACAAATTATATTATTCAAAA
1 TTTAAAATAAAAATTATATTATTC-AAA
50051 TTTAAAATAAAAATAAAGATAATATTATTCAAA
1 TTTAAAATAAAAAT-----T-ATATTATTCAAA
* *
50084 TTTAAAATATAAATTATAGTATTCGAAA
1 TTTAAAATAAAAATTATATTATTC-AAA
50112 TTTAA
1 TTTAA
50117 CATTAAATTT
Statistics
Matches: 56, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
27 8 0.14
28 22 0.39
33 17 0.30
34 9 0.16
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.38
Consensus pattern (27 bp):
TTTAAAATAAAAATTATATTATTCAAA
Found at i:50726 original size:126 final size:126
Alignment explanation
Indices: 50499--50979 Score: 899
Period size: 126 Copynumber: 3.8 Consensus size: 126
50489 TTTAAGTTAT
50499 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGAT-A-ATATTCTCTGACGAAATAATGGAAG
50564 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTA
64 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTA
*
50627 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATATTATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
*
50692 GCGCCCCCGGGAACGCGTCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTA
66 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTA
*
50753 TCCCCGAGGGACATGAGTGACATAATATGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
*
50818 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTA
50879 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
*
50944 GTGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAA
66 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAA
50980 CCGATTATAG
Statistics
Matches: 345, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
126 307 0.89
127 1 0.00
128 37 0.11
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (126 bp):
TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTA
Found at i:51060 original size:8 final size:8
Alignment explanation
Indices: 51047--51087 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
51037 TCACAATCTT
51047 TCAAATTC
1 TCAAATTC
51055 TCAAATTC
1 TCAAATTC
* *
51063 CCAAACTC
1 TCAAATTC
51071 T-AAATTC
1 TCAAATTC
51078 TCAAATTC
1 TCAAATTC
51086 TC
1 TC
51088 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:54111 original size:12 final size:13
Alignment explanation
Indices: 54078--54115 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
54068 AAATACATAA
54078 ATATATTTAATAT
1 ATATATTTAATAT
*
54091 ATTTATTTAATAT
1 ATATATTTAATAT
54104 A-ATATTTAATAT
1 ATATATTTAATAT
54116 TATTAGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATATTTAATAT
Found at i:58452 original size:20 final size:22
Alignment explanation
Indices: 58427--58466 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
58417 TGAATTAAGA
58427 AAATTAAAT-A-GAATTCAACC
1 AAATTAAATAACGAATTCAACC
58447 AAATTAAATAACGAATTCAA
1 AAATTAAATAACGAATTCAA
58467 TGAAAATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 1 0.06
22 8 0.44
ACGTcount: A:0.57, C:0.12, G:0.05, T:0.25
Consensus pattern (22 bp):
AAATTAAATAACGAATTCAACC
Found at i:59259 original size:9 final size:9
Alignment explanation
Indices: 59247--59280 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
59237 TAATATTTTG
59247 TATTTAATT
1 TATTTAATT
*
59256 TATTTAA-G
1 TATTTAATT
59264 TATTTAATT
1 TATTTAATT
59273 TATTTAAT
1 TATTTAAT
59281 ATTTTACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TATTTAATT
Found at i:59286 original size:17 final size:17
Alignment explanation
Indices: 59246--59284 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
59236 TTAATATTTT
59246 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
59263 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
59280 -TATTT
1 GTATTT
59285 TACTTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:66757 original size:226 final size:218
Alignment explanation
Indices: 66392--66839 Score: 670
Period size: 223 Copynumber: 2.0 Consensus size: 218
66382 ATTCATATAT
* *
66392 TCGGGTCGGGTCGGGTGAAACTTTATTTTGGTCGGGTTGGGTCGATTTTTTTAAGTGTGATATTC
1 TCGGATCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGATTTTTTTAAGTGTGATATTC
* * *
66457 AGGTTCGGGTTTAGGGTGAAAAATACCCGACCCGAAAATATATATAATTTTACCTTATATATTTA
66 AGGGTCGGGTTTAAGGTGAAAAATACCCGACCCGAAAAAATATATAATTTTACCTTATATATTTA
*
66522 GGAATAATTACAATAATACCTCTCTCTATATATATATTTT-CAATTAAGTCACTGTTTTTATTGA
131 GGAATAATTACAATAATA--TCCCTCTATAT-T-TATTTTCCAATTAAGTCACTGTTTTTATTGA
66586 ATAAAA-ATATTTTTTTATTATTTCGGG
192 ATAAAATA-ATTTTTTTATTATTTCGGG
*
66613 TCGGATCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTTTAAGTGTGATATT
1 TCGGATCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTC-GATTTTTTTAAGTGTGATATT
66678 C-GGGTCGGGTTCAAGTTTAAGGTGAAAAATACCCGACCC-AAAAAATATATAATTTTACCTTAT
65 CAGGGTC-GG-----GTTTAAGGTGAAAAATACCCGACCCGAAAAAATATATAATTTTACCTTAT
* * *
66741 ATATTTATGAATAATTACAGTAATATCCCTCTATATTTTTTTTCCAATTAAGTCACTGTTTTTAT
124 ATATTTAGGAATAATTACAATAATATCCCTCTATATTTATTTTCCAATTAAGTCACTGTTTTTAT
66806 TGAATAAAATAATTTTTTTATTATTTCGGG
189 TGAATAAAATAATTTTTTTATTATTTCGGG
66836 TCGG
1 TCGG
66840 GTTTCTAATT
Statistics
Matches: 208, Mismatches: 10, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
221 45 0.22
222 28 0.13
223 54 0.26
224 11 0.05
226 46 0.22
227 24 0.12
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (218 bp):
TCGGATCGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGATTTTTTTAAGTGTGATATTC
AGGGTCGGGTTTAAGGTGAAAAATACCCGACCCGAAAAAATATATAATTTTACCTTATATATTTA
GGAATAATTACAATAATATCCCTCTATATTTATTTTCCAATTAAGTCACTGTTTTTATTGAATAA
AATAATTTTTTTATTATTTCGGG
Found at i:67282 original size:17 final size:18
Alignment explanation
Indices: 67257--67302 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
67247 TATGGAATTG
*
67257 GATTCCAATTCC-TGACA
1 GATTTCAATTCCTTGACA
*
67274 GATTTCAATTCCTTTACA
1 GATTTCAATTCCTTGACA
*
67292 GATTTTAATTC
1 GATTTCAATTC
67303 TCTCATAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (18 bp):
GATTTCAATTCCTTGACA
Found at i:75705 original size:43 final size:43
Alignment explanation
Indices: 75650--75797 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
75640 TGATAACGAA
* *
75650 AAACGCCGCAATAGGTCACGAGATTTAGCGGCGTTTTTCTCAC
1 AAACACCGCAATAGGTCATGAGATTTAGCGGCGTTTTTCTCAC
** * *
75693 AAACACCGCAATAGGTGTTGAGATTTAGCGACGTTTTTCCCAC
1 AAACACCGCAATAGGTCATGAGATTTAGCGGCGTTTTTCTCAC
* ** * ** * *
75736 AAACGCCATAATAGATGTTGAGATTTAGCGGCATTTTTGGAT-AC
1 AAACACCGCAATAGGTCATGAGATTTAGCGGCGTTTTT--CTCAC
*
75780 AAACACCGCAAAAGGTCA
1 AAACACCGCAATAGGTCA
75798 GATCTATAGT
Statistics
Matches: 82, Mismatches: 21, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
43 69 0.84
44 13 0.16
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (43 bp):
AAACACCGCAATAGGTCATGAGATTTAGCGGCGTTTTTCTCAC
Found at i:75814 original size:43 final size:43
Alignment explanation
Indices: 75761--75959 Score: 247
Period size: 43 Copynumber: 4.7 Consensus size: 43
75751 TGTTGAGATT
*
75761 TAGCGGCATTTTTGGATACAAACACCGCAAAAGGTCAGATCTA
1 TAGCGGCATTTTTGGATACAAACGCCGCAAAAGGTCAGATCTA
* * * *
75804 TAGTGACATTTTTGGATAAAAACGCCGCAAAAGGTTAGATCTA
1 TAGCGGCATTTTTGGATACAAACGCCGCAAAAGGTCAGATCTA
** * *
75847 TAGCGGTGTTTTTGGATACAAACGCCACAAAAGGTTAGATCTA
1 TAGCGGCATTTTTGGATACAAACGCCGCAAAAGGTCAGATCTA
* *** * *
75890 TAGCGGCGTTTTTCTCT-CAAACGCCGCAAAAAGTCATATCTA
1 TAGCGGCATTTTTGGATACAAACGCCGCAAAAGGTCAGATCTA
*
75932 TAGCGGCATTTTTAGATACAAACGCCGC
1 TAGCGGCATTTTTGGATACAAACGCCGC
75960 TAATTACCAT
Statistics
Matches: 132, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
42 34 0.26
43 98 0.74
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (43 bp):
TAGCGGCATTTTTGGATACAAACGCCGCAAAAGGTCAGATCTA
Found at i:79131 original size:41 final size:41
Alignment explanation
Indices: 79049--79473 Score: 370
Period size: 41 Copynumber: 10.3 Consensus size: 41
79039 TTGCGTTTGT
* * * ** *
79049 GCCACTAAAGTACTAGTCTATAACGACGTAAGTATATAAAC
1 GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAAC
* * * * *
79090 GCCACTAAAGTACAAG-CGTATAGTGACATTTTTATACAAAC
1 GCCACTAAAGTACAAGTC-TATAGCGGCGTTTGTATAAAAAC
* * *
79131 GCCACTAAAGTATAAGTGTATAGCGGCGTTTGTATATAAAC
1 GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAAC
* * * * *
79172 GCCACTAAATTACGAGTCTTTAGCGGCGTTTCTAAACACAAAC
1 GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATA-A-AAAC
* *
79215 GCCACTAAAGTACAAGTGTATAGCGACGTTTGTATAAAAAC
1 GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAAC
* ** *
79256 GCCACTAAAGTACAAGTCTTTAGCTTCGTTTGTATAAAAAT
1 GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAAC
*
79297 GCCACTAAAGTACAAGTCTTTAGCGGCGTTTGTATAAAAAC
1 GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAAC
* * * *
79338 GCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTTTAAAAAAAT
1 GCCACTAAAGTACAAGTCTATAGCGGCGTTTG--TATAAAAAC
* * * * * * *
79381 GCCACTAAAATACGAGTCTTTAGCGGCATTTATTTAAAAAAA
1 GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTAT-AAAAAC
** * * * *
79423 GCCACTATGGCT-GAA-CCTATTGCGGCGTTTTTATAAAAAC
1 GCCACTAAAG-TACAAGTCTATAGCGGCGTTTGTATAAAAAC
*
79463 GCCGCTAAAGT
1 GCCACTAAAGT
79474 TAACATTTTG
Statistics
Matches: 314, Mismatches: 62, Indels: 18
0.80 0.16 0.05
Matches are distributed among these distances:
39 1 0.00
40 13 0.04
41 216 0.69
42 14 0.04
43 70 0.22
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (41 bp):
GCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAAC
Found at i:79301 original size:125 final size:123
Alignment explanation
Indices: 79086--79407 Score: 392
Period size: 125 Copynumber: 2.6 Consensus size: 123
79076 GTAAGTATAT
* * * * * * * *
79086 AAACGCCACTAAAGTACAAGCGTATAGTGACATTTTTATACAAACGCCACTAAAGTATAAGTGTA
1 AAACGCCACTAAAGTACAAGTGTATAGCGACGTTTGTATAAAAACGCCACTAAAGTACAAGTCTT
* * *
79151 TAGCGGCGTTTGTATATAAACGCCACTAAATTACGAGTCTTTAGCGGCGTTTCTAAACA
66 TAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTTTAGCGGCGTTTCTAAA-A
79210 CAAACGCCACTAAAGTACAAGTGTATAGCGACGTTTGTATAAAAACGCCACTAAAGTACAAGTCT
1 -AAACGCCACTAAAGTACAAGTGTATAGCGACGTTTGTATAAAAACGCCACTAAAGTACAAGTCT
** * * *
79275 TTAGCTTCGTTTGTATAAAAATGCCACTAAAGTACAAGTCTTTAGCGGCGTTTGTATAA
65 TTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTTTAGCGGCGTTTCTAAAA
* * * * * * * *
79334 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTTTAAAAAAATGCCACTAAAATACGAGTC
1 AAACGCCACTAAAGTACAAGTGTATAGCGACGTTTG--TATAAAAACGCCACTAAAGTACAAGTC
79399 TTTAGCGGC
64 TTTAGCGGC
79408 ATTTATTTAA
Statistics
Matches: 169, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
123 32 0.19
124 1 0.01
125 136 0.80
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (123 bp):
AAACGCCACTAAAGTACAAGTGTATAGCGACGTTTGTATAAAAACGCCACTAAAGTACAAGTCTT
TAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAAGTCTTTAGCGGCGTTTCTAAAA
Found at i:79323 original size:166 final size:166
Alignment explanation
Indices: 79049--79368 Score: 455
Period size: 166 Copynumber: 1.9 Consensus size: 166
79039 TTGCGTTTGT
* *
79049 GCCACTAAAGTACTAGTCTATAACGACGTAAGTATATAAACGCCACTAAAGTACAAGCGTATAGT
1 GCCACTAAAGTACAAGTCTATAACGACGTAAGTATAAAAACGCCACTAAAGTACAAGCGTATAGT
* * * * *
79114 GACATTTTTATACAAACGCCACTAAAGTATAAGTGTATAGCGGCGTTTGTATATAAACGCCACTA
66 GACATTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTA
*
79179 AATTACGAGTCTTTAGCGGCGTTTCTAAACACAAAC
131 AAGTACGAGTCTTTAGCGGCGTTTCTAAACACAAAC
* * ** *
79215 GCCACTAAAGTACAAGTGTATAGCGACGTTTGTATAAAAACGCCACTAAAGTACAAGTC-TTTAG
1 GCCACTAAAGTACAAGTCTATAACGACGTAAGTATAAAAACGCCACTAAAGTACAAG-CGTATAG
* * * *
79279 CT-TCGTTTGTATAAAAATGCCACTAAAGTACAAGTCTTTAGCGGCGTTTGTATAAAAACGCCAC
65 -TGACATTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCAC
79343 TAAAGTACGAGTCTTTAGCGGCGTTT
129 TAAAGTACGAGTCTTTAGCGGCGTTT
79369 GTTTAAAAAA
Statistics
Matches: 135, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
166 133 0.99
167 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (166 bp):
GCCACTAAAGTACAAGTCTATAACGACGTAAGTATAAAAACGCCACTAAAGTACAAGCGTATAGT
GACATTTGTATAAAAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTA
AAGTACGAGTCTTTAGCGGCGTTTCTAAACACAAAC
Found at i:79448 original size:84 final size:83
Alignment explanation
Indices: 79131--79461 Score: 224
Period size: 84 Copynumber: 4.0 Consensus size: 83
79121 TTATACAAAC
* * * * * * * * * **
79131 GCCACTAAAGTATAAGTGTATAGCGGCGTTTGTATATAAACGCCACTAAATTACGAGTCTTTAGC
1 GCCACTAAAATACAAGTCTTTAGCGGCATTTATATAAAAAAGCCACTAAAGTA-GAACCTTTAGC
* * *
79196 GGCGTTTCTA-AACACAAAC
65 GGCGTTTTTATAA-AAAAAT
* * * * * * * * *
79215 GCCACTAAAGTACAAGTGTATAGCGACGTTTGTATAAAAACGCCACTAAAGTACAAGTCTTTAGC
1 GCCACTAAAATACAAGTCTTTAGCGGCATTTATATAAAAAAGCCACTAAAGTAGAA-CCTTTAGC
** *
79280 TTCGTTTGTAT--AAAAAT
65 GGCGTTTTTATAAAAAAAT
* * * * **
79297 GCCACTAAAGTACAAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGC
1 GCCACTAAAATACAAGTCTTTAGCGGCATTTATATAAAAAAGCCACTAAAGTA-GAACCTTTAGC
79362 GGCGTTTGTT-TAAAAAAAT
65 GGCGTTT-TTATAAAAAAAT
* * **
79381 GCCACTAAAATACGAGTCTTTAGCGGCATTTATTTAAAAAAAGCCACTATGGCT-GAACCTATT-
1 GCCACTAAAATACAAGTCTTTAGCGGCATTTATAT-AAAAAAGCCACTAAAG-TAGAACCT-TTA
79444 GCGGCGTTTTTATAAAAA
63 GCGGCGTTTTTATAAAAA
79462 CGCCGCTAAA
Statistics
Matches: 208, Mismatches: 29, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
82 68 0.33
83 5 0.02
84 119 0.57
85 15 0.07
86 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (83 bp):
GCCACTAAAATACAAGTCTTTAGCGGCATTTATATAAAAAAGCCACTAAAGTAGAACCTTTAGCG
GCGTTTTTATAAAAAAAT
Found at i:79460 original size:166 final size:166
Alignment explanation
Indices: 79049--79473 Score: 412
Period size: 166 Copynumber: 2.6 Consensus size: 166
79039 TTGCGTTTGT
* * * * * * * * *
79049 GCCACTAAAGTACTAGTCTATAACGAC-GTAAGTATATAAACGCCACTAAAGTACAAGCGTATAG
1 GCCACTAAAATACAAGTCTATAGCGACATTTA-TATAAAAAAGCCACTAAAGTACAAGCCTTTAG
* * * * * * *
79113 TGACATTTTTATACAAACGCCACTAAAGTATAAGTGTATAGCGGCGTTTGTATATAAACGCCACT
65 CGGCGTTTTTATAAAAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACT
*
79178 AAATTACGAGTCTTTAGCGGCGTTTCTAAACACAAAC
130 AAAGTACGAGTCTTTAGCGGCGTTTCTAAACACAAAC
* * * * * *
79215 GCCACTAAAGTACAAGTGTATAGCGACGTTTGTATAAAAACGCCACTAAAGTACAAGTCTTTAGC
1 GCCACTAAAATACAAGTCTATAGCGACATTTATATAAAAAAGCCACTAAAGTACAAGCCTTTAGC
** * * *
79280 TTCGTTTGTATAAAAATGCCACTAAAGTACAAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTA
66 GGCGTTTTTATAAAAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTA
* *
79345 AAGTACGAGTCTTTAGCGGCGTTTGTTTAAA-A-AAAT
131 AAGTACGAGTCTTTAGCGGCG-TT-TCTAAACACAAAC
* * * * ** *
79381 GCCACTAAAATACGAGTCTTTAGCGGCATTTATTTAAAAAAAGCCACTATGGCT-GAA-CCTATT
1 GCCACTAAAATACAAGTCTATAGCGACATTTATAT-AAAAAAGCCACTAAAG-TACAAGCCT-TT
*
79444 -GCGGCGTTTTTATAAAAACGCCGCTAAAGT
63 AGCGGCGTTTTTATAAAAACGCCACTAAAGT
79474 TAACATTTTG
Statistics
Matches: 211, Mismatches: 42, Indels: 12
0.80 0.16 0.05
Matches are distributed among these distances:
166 184 0.87
167 21 0.10
168 6 0.03
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (166 bp):
GCCACTAAAATACAAGTCTATAGCGACATTTATATAAAAAAGCCACTAAAGTACAAGCCTTTAGC
GGCGTTTTTATAAAAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTA
AAGTACGAGTCTTTAGCGGCGTTTCTAAACACAAAC
Found at i:82963 original size:37 final size:38
Alignment explanation
Indices: 82880--82963 Score: 129
Period size: 36 Copynumber: 2.3 Consensus size: 38
82870 TGAACCCGAC
*
82880 CCCGACCCGA-TCTGACCTGAATATCACACTTAAAAAA
1 CCCGACCCGACTCTGACCCGAATATCACACTTAAAAAA
82917 CCCGA-CCGACTC-GACCCGAATATCACACTTAAAAAA
1 CCCGACCCGACTCTGACCCGAATATCACACTTAAAAAA
*
82953 CCTGACCCGAC
1 CCCGACCCGAC
82964 CCGAACAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
36 31 0.72
37 12 0.28
ACGTcount: A:0.36, C:0.37, G:0.12, T:0.15
Consensus pattern (38 bp):
CCCGACCCGACTCTGACCCGAATATCACACTTAAAAAA
Found at i:83317 original size:263 final size:263
Alignment explanation
Indices: 82823--83447 Score: 995
Period size: 263 Copynumber: 2.4 Consensus size: 263
82813 TATAAGGTAA
*
82823 AATTATATATATTTTTCGGGTCAGTCCGGTTTTTTTCACCCTAAACCTGAACCCGACCCCGACCC
1 AATTATATATA-TTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCTGAACCC-A-----ACCC
82888 GATCTGA-CCTGAATATCACACTT-AAAAAACCCGACCGACTCGACCCGAATATCACACTTAAAA
59 GATCTGACCCT-AATATCACACTTAAAAAAACCCGACCGACTCGACCCGAATATCACACTTAAAA
* *
82951 AACCTGACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAAAAAT
123 AACCCGACCCGACCCGAACAAAATAAAGTTTCATCCAACCCGACCCGAATATATGAATTAAAAAT
* *
83016 CCGACCCGACCCGACCCGAAATAATAAAAAGATATTTTTATTTAATAAAAACAGTGACTTAATTC
188 CCGACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCC
**
83081 GACCCGATTCG
253 GACCCGACCCG
* *
83092 AATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCTGAACCCAACCCGATCTAA
1 AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCTGAACCCAACCCGATCTGA
83157 CCCTAATATCACACTTAAAAAAACCCGACCGACTCGACCCGAATATCACACTTAAAAAACCCGAC
66 CCCTAATATCACACTTAAAAAAACCCGACCGACTCGACCCGAATATCACACTTAAAAAACCCGAC
* *
83222 CCGACCCGAACAAAATAAAGTTTCATTCAACCCGACCCGAATATATGAATTAGAAATCCGA-CCG
131 CCGACCCGAACAAAATAAAGTTTCATCCAACCCGACCCGAATATATGAATTAAAAATCCGACCCG
83286 ACCCGACCCGAAATAATAAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGA
196 ACCCGACCCGAAATAATAAAAAAA-TATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGA
83351 CCCG
260 CCCG
* * * *
83355 AATTATATATATTTTCGGGTCGGTCCGGCTTTTTTCACCCTAAACCCGAACCCAACCCGACCCGA
1 AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCTGAACCCAACCCGATCTGA
* *
83420 CCCGAATATTACACTTAAAAAAACCCGA
66 CCCTAATATCACACTTAAAAAAACCCGA
83448 TCCACCCGAA
Statistics
Matches: 334, Mismatches: 19, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
262 48 0.14
263 234 0.70
267 1 0.00
268 40 0.12
269 11 0.03
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.24
Consensus pattern (263 bp):
AATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCTGAACCCAACCCGATCTGA
CCCTAATATCACACTTAAAAAAACCCGACCGACTCGACCCGAATATCACACTTAAAAAACCCGAC
CCGACCCGAACAAAATAAAGTTTCATCCAACCCGACCCGAATATATGAATTAAAAATCCGACCCG
ACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGAC
CCG
Found at i:87333 original size:12 final size:12
Alignment explanation
Indices: 87316--87340 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87306 AGACAATAAG
87316 TGAAATATTTAT
1 TGAAATATTTAT
87328 TGAAATATTTAT
1 TGAAATATTTAT
87340 T
1 T
87341 ACTGCTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAATATTTAT
Found at i:90573 original size:23 final size:23
Alignment explanation
Indices: 90547--90592 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
90537 CACCACAGCT
*
90547 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
90570 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
90593 TATAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.26, G:0.28, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:90809 original size:149 final size:148
Alignment explanation
Indices: 90567--90872 Score: 533
Period size: 149 Copynumber: 2.1 Consensus size: 148
90557 CACCGAAGTG
*
90567 CCGCGTAGAATTGCACCGTAGTGCCGTATAATAATATCCATAAGGACCACATATTATTCCTTAAG
1 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATATCCATAAGGACCACATATTATTCCTTAAG
*
90632 AATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCCACAGAAT
66 AATCATATACATATACTAGGGATCAAGTATGTGTC-TTCAAGACTTCACACATGTTCCAAAGAAT
* *
90697 ATATATATATC-CTGAAGGA
130 ATACATATATCTC-GAAAGA
*
90716 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAG
1 CCGCGTAGAATTGCACCGTAGTGCCATATAATAATATCCATAAGGACCACATATTATTCCTTAAG
90781 AATCATATACATATACTAGGGATCAAGTATGTGTCTTCAAGACTTCACACATGTTCCAAAGAATA
66 AATCATATACATATACTAGGGATCAAGTATGTGTCTTCAAGACTTCACACATGTTCCAAAGAATA
*
90846 TACATATGTCTCGAAAGA
131 TACATATATCTCGAAAGA
90864 CCGCGTAGA
1 CCGCGTAGA
90873 CCCTCGACTC
Statistics
Matches: 150, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
148 51 0.34
149 99 0.66
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (148 bp):
CCGCGTAGAATTGCACCGTAGTGCCATATAATAATATCCATAAGGACCACATATTATTCCTTAAG
AATCATATACATATACTAGGGATCAAGTATGTGTCTTCAAGACTTCACACATGTTCCAAAGAATA
TACATATATCTCGAAAGA
Found at i:95852 original size:23 final size:23
Alignment explanation
Indices: 95826--95870 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
95816 CACCACAGCT
*
95826 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
95849 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
95871 ATATAATAAT
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:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:96169 original size:149 final size:148
Alignment explanation
Indices: 95838--96148 Score: 513
Period size: 149 Copynumber: 2.1 Consensus size: 148
95828 TATAATTGCA
*
95838 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATCGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
95902 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATATT
65 TTCCTTAAGAATCA-ATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATATT
* * *
95967 TCACAGAATATATATATATC
129 CCAAAGAATATACATATATC
*
95987 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATCGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
*
96052 TCCTTAAGAATC-ATACATATACTA-GGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTCC
66 TCCTTAAGAATCAATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATATTCC
*
96115 AAAGAATATACATATGTC
131 AAAGAATATACATATATC
96133 CCGAA-GACCGCGTAGA
1 CCGAAGGACCGCGTAGA
96149 CCCTCGACTC
Statistics
Matches: 156, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
145 11 0.07
146 57 0.37
147 12 0.08
148 1 0.01
149 75 0.48
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (148 bp):
CCGAAGGACCGCGTAGAATCGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCAATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATATTCC
AAAGAATATACATATATC
Done.