Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006758.1 Hibiscus syriacus cultivar Beakdansim tig00017052_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: 87331
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Found at i:2159 original size:43 final size:42
Alignment explanation
Indices: 2080--2470 Score: 427
Period size: 42 Copynumber: 9.2 Consensus size: 42
2070 ATGGTAATTA
* * *
2080 GCGGCGTTTGTACCCAAAACGCCGCTATAGATCTGACCTTTC
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTT
*
2122 GCGGCGTTTGTGTCCAAAAATGCCGCTATAGATCTGACCTTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGACC-TTTT
* * *
2166 GCGGCGTTTGTATCCAAAAGCGCCGCAAATA-ATCTAACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGC-TATAGATCTGACCTTTT
*
2209 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGACTTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTT
* * * **
2251 ACGACGTTTGTGTCCAATAATACCGCTATAGATCTCGACC-TTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCT-GACCTTTT
* * *
2294 GCGACGTTTGTTCCAAAAACGCCACTATA-ATCTCGACATTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCT-GACCTTTT
*
2336 GCGGCGTTTGTTCCAAAAACGCCGCTATATATCTCGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCT-GACCTTTT
*
2379 GCGGCG-TTGTT--ATAAAACGCCGCTATAGATATCGACC-TTT
1 GCGGCGTTTGTTCCA-AAAACGCCGCTATAGATCT-GACCTTTT
* * * * *
2419 GCGGCGTTTGTTCCAAAAACGCTGTTATAGATATTGACCTATG
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGAT-CTGACCTTTT
2462 GCGGCGTTT
1 GCGGCGTTT
2471 TTTGTTCTCA
Statistics
Matches: 300, Mismatches: 35, Indels: 27
0.83 0.10 0.07
Matches are distributed among these distances:
40 10 0.03
41 38 0.13
42 111 0.37
43 102 0.34
44 36 0.12
45 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (42 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTT
Found at i:2304 original size:85 final size:83
Alignment explanation
Indices: 2080--2470 Score: 409
Period size: 85 Copynumber: 4.6 Consensus size: 83
2070 ATGGTAATTA
* * *
2080 GCGGCGTTTGTACCCAAAACGCCGCTATAGATCTGACCTTTCGCGGCGTTTGTGTCCAAAAATGC
1 GCGGCGTTTGT-TCCAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGT-TCCAAAAACGC
2145 CGCTATAGATCTGACCTTTTT
64 CGCTATAGATCTGA-CTTTTT
* *
2166 GCGGCGTTTGTATCCAAAAGCGCCGCAAATA-ATCTAACCTTTTGCGGCGTTTGTTCCAAAAACG
1 GCGGCGTTTGT-TCCAAAA-CGCCGC-TATAGATCTGACCTTTTGCGGCGTTTGTTCCAAAAACG
2230 CCGCTATAGATCTGACTTTTT
63 CCGCTATAGATCTGACTTTTT
* * ** *
2251 ACGACGTTTGTGTCCAATAATACCGCTATAGATCTCGACC-TTTGCGACGTTTGTTCCAAAAACG
1 GCGGCGTTTGT-TCCAA-AACGCCGCTATAGATCT-GACCTTTTGCGGCGTTTGTTCCAAAAACG
* *
2315 CCACTATA-ATCTCGACATTTT
63 CCGCTATAGATCT-GACTTTTT
*
2336 GCGGCGTTTGTTCCAAAAACGCCGCTATATATCTCGACCTTTTGCGGCG-TTGTT--ATAAAACG
1 GCGGCGTTTGTTCC-AAAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTTGTTCCA-AAAACG
* *
2398 CCGCTATAGATATCGAC-CTTT
63 CCGCTATAGATCT-GACTTTTT
* * * * *
2419 GCGGCGTTTGTTCCAAAAACGCTGTTATAGATATTGACCTATGGCGGCGTTT
1 GCGGCGTTTGTTCC-AAAACGCCGCTATAGAT-CTGACCTTTTGCGGCGTTT
2471 TTTGTTCTCA
Statistics
Matches: 263, Mismatches: 30, Indels: 26
0.82 0.09 0.08
Matches are distributed among these distances:
82 1 0.00
83 57 0.22
84 44 0.17
85 84 0.32
86 47 0.18
87 27 0.10
88 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (83 bp):
GCGGCGTTTGTTCCAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCCAAAAACGCCG
CTATAGATCTGACTTTTT
Found at i:5724 original size:3 final size:3
Alignment explanation
Indices: 5716--5807 Score: 177
Period size: 3 Copynumber: 31.0 Consensus size: 3
5706 GCATTGATAT
5716 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5764 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5808 TGAGAATCGA
Statistics
Matches: 88, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 86 0.98
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6512 original size:21 final size:21
Alignment explanation
Indices: 6486--6588 Score: 100
Period size: 21 Copynumber: 4.9 Consensus size: 21
6476 TCGAGGGTTC
6486 TATGTGGTCCTTCGGGACATA
1 TATGTGGTCCTTCGGGACATA
* * *
6507 TATGTGATCCTTTGGAACATA
1 TATGTGGTCCTTCGGGACATA
* *
6528 TATGCGGTCCTTCGAGACATA
1 TATGTGGTCCTTCGGGACATA
* * * *
6549 TATTTGAT-CATCTGGAACATA
1 TATGTGGTCCTTC-GGGACATA
*
6570 TATGTGGTCCTTAGGGACA
1 TATGTGGTCCTTCGGGACA
6589 ATTCTATATG
Statistics
Matches: 61, Mismatches: 19, Indels: 4
0.73 0.23 0.05
Matches are distributed among these distances:
20 3 0.05
21 56 0.92
22 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.34
Consensus pattern (21 bp):
TATGTGGTCCTTCGGGACATA
Found at i:6550 original size:42 final size:42
Alignment explanation
Indices: 6486--6581 Score: 147
Period size: 42 Copynumber: 2.3 Consensus size: 42
6476 TCGAGGGTTC
* * *
6486 TATGTGGTCCTTCGGGACATATATGTGATCCTTTGGAACATA
1 TATGTGGTCCTTCGAGACATATATGTGATCATCTGGAACATA
* *
6528 TATGCGGTCCTTCGAGACATATATTTGATCATCTGGAACATA
1 TATGTGGTCCTTCGAGACATATATGTGATCATCTGGAACATA
6570 TATGTGGTCCTT
1 TATGTGGTCCTT
6582 AGGGACAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (42 bp):
TATGTGGTCCTTCGAGACATATATGTGATCATCTGGAACATA
Found at i:7401 original size:19 final size:20
Alignment explanation
Indices: 7366--7428 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 20
7356 CTGTTAACTC
* *
7366 GTTGACCTA-ATCGTTGACT
1 GTTGACCTAGACCATTGACT
*
7385 GTTGACC-AGGCCATTGACT
1 GTTGACCTAGACCATTGACT
*
7404 -TTGACCTTGACCATTGACCT
1 GTTGACCTAGACCATTGA-CT
7424 GTTGA
1 GTTGA
7429 TCGTTGACTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 7 0.20
19 22 0.63
20 2 0.06
21 4 0.11
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (20 bp):
GTTGACCTAGACCATTGACT
Found at i:19962 original size:31 final size:32
Alignment explanation
Indices: 19892--19965 Score: 98
Period size: 31 Copynumber: 2.3 Consensus size: 32
19882 TATATATCAA
* *
19892 ATTAACTATTTTATCAAAAATATAAATAACAT
1 ATTAAATATTTTATCAAAAACATAAATAACAT
*
19924 ATCAAATATTTTATC-AAAACATAAAT-ACAT
1 ATTAAATATTTTATCAAAAACATAAATAACAT
19954 CATTAAATATTT
1 -ATTAAATATTT
19966 CAAAAATAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 4 0.11
31 20 0.54
32 13 0.35
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (32 bp):
ATTAAATATTTTATCAAAAACATAAATAACAT
Found at i:20286 original size:2 final size:2
Alignment explanation
Indices: 20279--20310 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
20269 AGACTATTAA
*
20279 AT AT AT AT AC 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
20311 TTTAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:22252 original size:20 final size:20
Alignment explanation
Indices: 22214--22252 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22204 ATGAAGAACA
*
22214 AGTATCGATATTATTCCTGT
1 AGTATCGATATTATACCTGT
*
22234 AGTATCGATATTCTACCTG
1 AGTATCGATATTATACCTG
22253 CAAAAGTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (20 bp):
AGTATCGATATTATACCTGT
Found at i:24941 original size:30 final size:30
Alignment explanation
Indices: 24905--24962 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
24895 GAATGACCTA
*
24905 TCCATATTTCCCGAA-GAACATAGGTAACTG
1 TCCATATGTCCCGAATG-ACATAGGTAACTG
*
24935 TCCATATGTCCCGAATGAGATAGGTAAC
1 TCCATATGTCCCGAATGACATAGGTAAC
24963 CCTCGACTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (30 bp):
TCCATATGTCCCGAATGACATAGGTAACTG
Found at i:25792 original size:17 final size:17
Alignment explanation
Indices: 25752--25808 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
25742 AAAATCGGGT
*
25752 ATCCGGGTACCC-G-AC
1 ATCCGGGTACCCGGAAA
* * *
25767 ATACGGGTATCCGTAAA
1 ATCCGGGTACCCGGAAA
*
25784 ATCCGGGTACCCGGAAC
1 ATCCGGGTACCCGGAAA
25801 ATCCGGGT
1 ATCCGGGT
25809 CGGGACACGG
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
15 10 0.31
17 22 0.69
ACGTcount: A:0.25, C:0.30, G:0.28, T:0.18
Consensus pattern (17 bp):
ATCCGGGTACCCGGAAA
Found at i:27686 original size:15 final size:15
Alignment explanation
Indices: 27666--27696 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27656 TATTTTTCAT
27666 ATATGACACCAATAC
1 ATATGACACCAATAC
*
27681 ATATGACACCTATAC
1 ATATGACACCAATAC
27696 A
1 A
27697 CATTTTCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.26, G:0.06, T:0.23
Consensus pattern (15 bp):
ATATGACACCAATAC
Found at i:43154 original size:29 final size:29
Alignment explanation
Indices: 43133--43188 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
43123 TCACTTAATC
* *
43133 TCATATCATATAACATGTATCACATAGGT
1 TCATATCATATAACATATATCACATAGAT
*
43162 TCATATCATGTAACATATATCACATAG
1 TCATATCATATAACATATATCACATAG
43189 CACATAGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (29 bp):
TCATATCATATAACATATATCACATAGAT
Found at i:44430 original size:13 final size:13
Alignment explanation
Indices: 44395--44441 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
44385 ACTCTTTCAT
44395 ATAATTT-ATATA
1 ATAATTTCATATA
* **
44407 GTAATACCATATA
1 ATAATTTCATATA
*
44420 CTAATTTCATATA
1 ATAATTTCATATA
44433 ATAATTTCA
1 ATAATTTCA
44442 CCTGACTATA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
12 4 0.15
13 23 0.85
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.43
Consensus pattern (13 bp):
ATAATTTCATATA
Found at i:51769 original size:18 final size:21
Alignment explanation
Indices: 51732--51773 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 21
51722 AATTTATTTA
51732 TTTTTTATTTGTTTATAATAT
1 TTTTTTATTTGTTTATAATAT
51753 TTTTTTA-TT-TTTA-AATAT
1 TTTTTTATTTGTTTATAATAT
51771 TTT
1 TTT
51774 AGATGGCGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 4 0.19
20 2 0.10
21 7 0.33
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTTTATTTGTTTATAATAT
Found at i:56086 original size:28 final size:28
Alignment explanation
Indices: 56055--56117 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
56045 TTTTTGCGTA
56055 TAATTTAGTCACATTATTAAAAAGATTT
1 TAATTTAGTCACATTATTAAAAAGATTT
* ****
56083 TAATTTTATTTTTTTTATTAAAAAGATTT
1 TAA-TTTAGTCACATTATTAAAAAGATTT
56112 TAATTT
1 TAATTT
56118 GATTTATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (28 bp):
TAATTTAGTCACATTATTAAAAAGATTT
Found at i:56132 original size:28 final size:29
Alignment explanation
Indices: 56068--56132 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
56058 TTTAGTCACA
* *
56068 TTATTAAAAAGATTTTAATTTTATTTTTT
1 TTATTAAAAAGATTTTAATTTGATTTATT
56097 TTATTAAAAAGATTTTAATTTGATTTATT
1 TTATTAAAAAGATTTTAATTTGATTTATT
56126 TT-TTAAA
1 TTATTAAA
56133 TTTTTTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.15
29 29 0.85
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (29 bp):
TTATTAAAAAGATTTTAATTTGATTTATT
Found at i:56465 original size:11 final size:11
Alignment explanation
Indices: 56425--56468 Score: 61
Period size: 12 Copynumber: 3.8 Consensus size: 11
56415 TATTTAAACG
*
56425 GGTATTGGGCTA
1 GGTATTGGG-TC
56437 GGTATTGGGTC
1 GGTATTGGGTC
56448 GGGTATTGGGTC
1 -GGTATTGGGTC
56460 GGTATTGGG
1 GGTATTGGG
56469 CTGGGAATCG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 10 0.33
12 20 0.67
ACGTcount: A:0.11, C:0.07, G:0.48, T:0.34
Consensus pattern (11 bp):
GGTATTGGGTC
Found at i:56467 original size:23 final size:24
Alignment explanation
Indices: 56423--56468 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
56413 ATTATTTAAA
56423 CGGGTATTGGGCTAGGTATTGGGT
1 CGGGTATTGGGCTAGGTATTGGGT
*
56447 CGGGTATTGGG-TCGGTATTGGG
1 CGGGTATTGGGCTAGGTATTGGG
56469 CTGGGAATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.11, C:0.09, G:0.48, T:0.33
Consensus pattern (24 bp):
CGGGTATTGGGCTAGGTATTGGGT
Found at i:56546 original size:24 final size:25
Alignment explanation
Indices: 56486--56546 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
56476 TCGGGCCGGG
56486 TATATA-TATA-TATTTAAATTAAA
1 TATATATTATATTATTTAAATTAAA
*
56509 TATATATT-TTTTATTTAAATTAAA
1 TATATATTATATTATTTAAATTAAA
56533 T-T-TATTAATATTAT
1 TATATATT-ATATTAT
56547 ATATATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 4 0.12
23 8 0.25
24 20 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATATATTATATTATTTAAATTAAA
Found at i:56640 original size:13 final size:13
Alignment explanation
Indices: 56584--56627 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
56574 TTTAATATTT
*
56584 ATCGGGTCGGGT-
1 ATCGGGGCGGGTA
56596 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
56609 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
56622 ATCGGG
1 ATCGGG
56628 TAATCGGGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 11 0.37
13 19 0.63
ACGTcount: A:0.14, C:0.16, G:0.52, T:0.18
Consensus pattern (13 bp):
ATCGGGGCGGGTA
Found at i:56702 original size:6 final size:6
Alignment explanation
Indices: 56691--56715 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
56681 AAATGGATTT
56691 TCCCCG TCCCCG TCCCCG TCCCCG T
1 TCCCCG TCCCCG TCCCCG TCCCCG T
56716 TTATTATCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.64, G:0.16, T:0.20
Consensus pattern (6 bp):
TCCCCG
Found at i:58332 original size:262 final size:261
Alignment explanation
Indices: 57802--58746 Score: 1158
Period size: 263 Copynumber: 3.6 Consensus size: 261
57792 CATATATTAT
* * *
57802 GGGCGCAACCGTTTCTATTTTGATTAATCGCAATACTTTGTGCTCTTAACCTATTTGATTGTCGC
1 GGGCGCAACCATTTCTATTTTGCTTAATCGTAATACTTTGTGCTCTTAACCTATTTGATTGTCGC
* * * * * *
57867 GGGGAACACCAATGCTTCATCGGCTAAAACTTTCTTAATACTTTAGGTGCAATCACTTTTATTTT
66 GAGGAACACCAAGGCTTCATCGACTAAAACTTTCATAATACTTTAAGCGCAATCACTTTTATTTT
* * * * ** *
57932 TTAAAATGATAATATTTCAGATTGTAACGTGCTTTCTTTGGAGACCATGACACTCTGGGCGTAAT
131 TTAAAATGATAATATTCCAGATTGCAACATGCTTTCTTTGGGGGTCATGACACTCTGGGCGCAAT
* * * *
57997 CTATTCTATTAATACACAAGTTGACATTACAAGTCGCGATCTATTTCTTTTAGAGCTGTGATATT
196 CTATTCTATTAATACACAAGTTGACATTATAAGTCGC-AACTATTTC-TTTAGAACCGTGATATT
58062 TT-
259 TTG
** * * *
58064 GGGCGCAACTGTTCCTATTTTTCTTAATCGTAATACTTTGTGCTCTTAACCTATTTGATTATCGC
1 GGGCGCAACCATTTCTATTTTGCTTAATCGTAATACTTTGTGCTCTTAACCTATTTGATTGTCGC
*** ** * ** **
58129 GAGGAATGTCAAGGCTTCATCGGTTAAAACTTTCATAATACTTTAGGCTTAATTGCTTTTA-TTT
66 GAGGAACACCAAGGCTTCATCGACTAAAACTTTCATAATACTTTAAGCGCAATCACTTTTATTTT
* * *
58193 TTAAAATGATAATATTCCAGATTGCAATATGATTTATTTGGGGGTCATGACACTCTGGGCGCAAT
131 TTAAAATGATAATATTCCAGATTGCAACATGCTTTCTTTGGGGGTCATGACACTCTGGGCGCAAT
* * * *
58258 CTATTATATTAATACACAACTTGACATTATAAGTCGCAACATATTTCTATTAAAACCATGATATT
196 CTATTCTATTAATACACAAGTTGACATTATAAGTCGCAAC-TATTTCT-TTAGAACCGTGATATT
58323 TTG
259 TTG
* * * *
58326 GGGCGCAACTATTTTTATTTTG-TCTAATCGTAATATTTTGTGCTCTTAACCTATTTGATTGTCA
1 GGGCGCAACCATTTCTATTTTGCT-TAATCGTAATACTTTGTGCTCTTAACCTATTTGATTGTCG
* * * * * *
58390 TGAGTAACGCCAAGGCTCCATCGATTAAAACTTTCATAATATTTTAAGCGCAATCACTTTTATTT
65 CGAGGAACACCAAGGCTTCATCGACTAAAACTTTCATAATACTTTAAGCGCAATCACTTTTATTT
* * * * *
58455 TTTAAAATGATAATATTCAAGATTGCAACATGCTTTCTTTAGGAGTCATGACACTATGGGTGCAA
130 TTTAAAATGATAATATTCCAGATTGCAACATGCTTTCTTTGGGGGTCATGACACTCTGGGCGCAA
* * *
58520 TCTATTCTATTAATACACAAGTTGTCATTATAAGTCGCAACCTATTTTCTCTAGAACCGTAATAT
195 TCTATTCTATTAATACACAAGTTGACATTATAAGTCGCAA-CTA-TTTCTTTAGAACCGTGATAT
*
58585 TCTG
258 TTTG
* * *
58589 GGGCGCAACCATTTCTATTTTGCATAATCGTAATACTTTGTGCTCTTAACCTATTTGATTGTTGT
1 GGGCGCAACCATTTCTATTTTGCTTAATCGTAATACTTTGTGCTCTTAACCTATTTGATTGTCGC
* ** * * * *
58654 GAGGAACACCAAGACTTTGTCGACTAAAAATTTCATAATATTTTAAGCGTAATCACTTTTAATTT
66 GAGGAACACCAAGGCTTCATCGACTAAAACTTTCATAATACTTTAAGCGCAATCACTTTTATTTT
*
58719 TTAAAATGATAATATTTCAGATTGCAAC
131 TTAAAATGATAATATTCCAGATTGCAAC
58747 GTGATTTTAA
Statistics
Matches: 586, Mismatches: 89, Indels: 15
0.85 0.13 0.02
Matches are distributed among these distances:
260 3 0.01
261 113 0.19
262 213 0.36
263 251 0.43
264 6 0.01
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (261 bp):
GGGCGCAACCATTTCTATTTTGCTTAATCGTAATACTTTGTGCTCTTAACCTATTTGATTGTCGC
GAGGAACACCAAGGCTTCATCGACTAAAACTTTCATAATACTTTAAGCGCAATCACTTTTATTTT
TTAAAATGATAATATTCCAGATTGCAACATGCTTTCTTTGGGGGTCATGACACTCTGGGCGCAAT
CTATTCTATTAATACACAAGTTGACATTATAAGTCGCAACTATTTCTTTAGAACCGTGATATTTT
G
Found at i:59344 original size:20 final size:20
Alignment explanation
Indices: 59314--59372 Score: 91
Period size: 20 Copynumber: 2.9 Consensus size: 20
59304 ATTACAGGTA
*
59314 CAAATATGACAAAATCGGTCC
1 CAAA-ATGACAAAACCGGTCC
59335 CAAAATGACAAAACCGGTCC
1 CAAAATGACAAAACCGGTCC
*
59355 CAAAATGATAAAACCGGT
1 CAAAATGACAAAACCGGT
59373 AAAACGCTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 32 0.89
21 4 0.11
ACGTcount: A:0.46, C:0.24, G:0.15, T:0.15
Consensus pattern (20 bp):
CAAAATGACAAAACCGGTCC
Found at i:59720 original size:182 final size:182
Alignment explanation
Indices: 59396--60170 Score: 1083
Period size: 182 Copynumber: 4.2 Consensus size: 182
59386 ATATGTGTCG
*
59396 AGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
1 AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
* * *
59461 TATAAAGTGTCGATACTTTA-AAAAAAATATCGATCCACAACAATATAACAGGTAAAAATATGAT
66 TAAAAAGTGTCGACACTTTATAAAAATATATCGATCCACAACAATATAACAGGTAAAAATATGAT
*
59525 AAAA-TTGGTCTCAAAAATGACAAAACCGAAAAAAGTTACTGGATATATTGAA
131 AAAACAT-GTCTCAAAAATGACAAAACCGAAAAAAGTTACTGGATATATTGAA
* *
59577 AGTGCCGATAATTTAATATTAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
1 AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
* * ** * *
59642 TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCTTACCAATGTAACAGGTAAAAATATGAT
66 TAAAAAGTGTCGACACTTTATAAAAATATATCGATCCACAACAATATAACAGGTAAAAATATGAT
** * * *
59707 AAAACATGTCTCAAAAATGACAAAACCGGGAAAAGTTACCGGATATGTTAAA
131 AAAACATGTCTCAAAAATGACAAAACCGAAAAAAGTTACTGGATATATTGAA
* *
59759 AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAAAAGTTATTA-CGG
1 AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTA-TAGCGC
* * * *
59823 TTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGA
65 CTAAAAAGTGTCGACACTTTATAAAAATATATCGATCCACAACAATATAACAGGTAAAAATATGA
* *
59888 TAAAACATGTCTCAAAATTGACAAAACC-AATAAAACGCTACTGGATATATTGAA
130 TAAAACATGTCTCAAAAATGACAAAACCGAA-AAAA-GTTACTGGATATATTGAA
* *
59942 AGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAGAAGTTATAGTGCC
1 AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
* * * *
60007 TATAAAGTGTCGATACTTTAAAAAAATATATCGATCCACAACAATATAACAGGTAAAAATATAAT
66 TAAAAAGTGTCGACACTTTATAAAAATATATCGATCCACAACAATATAACAGGTAAAAATATGAT
* * ** * * *
60072 AAAACAGGTCCCAAAAATTGACAAAACCAGTCAAACGATA-TCGGATATGTTGAA
131 AAAACATGTCTCAAAAA-TGACAAAACC-GAAAAAAGTTACT-GGATATATTGAA
* *
60126 AGTGTCGATAATTTAATATAAGTATCAACACTTTCTGAAATTAAA
1 AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAA
60171 CTAAAAAGTG
Statistics
Matches: 528, Mismatches: 56, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
181 80 0.15
182 232 0.44
183 147 0.28
184 66 0.12
185 3 0.01
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.28
Consensus pattern (182 bp):
AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
TAAAAAGTGTCGACACTTTATAAAAATATATCGATCCACAACAATATAACAGGTAAAAATATGAT
AAAACATGTCTCAAAAATGACAAAACCGAAAAAAGTTACTGGATATATTGAA
Found at i:60389 original size:530 final size:532
Alignment explanation
Indices: 59339--60670 Score: 1767
Period size: 530 Copynumber: 2.5 Consensus size: 532
59329 CGGTCCCAAA
* * * * * * *
59339 ATGACAAAACCGGTC-CCAAAATGATAAAACCGGTAAAACGCTACCGGATATGTGTCG--AGTGT
1 ATGATAAAACAGGTCTCAAAAATGACAAAACC-GAAAAAAGCTACCGGATATAT-T-GAAAGTGT
59401 CGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAA
63 CGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAA
*
59466 AGTGTCGATACTTTAAAAAAA-ATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAAT
128 AGTGTCGATACTTTAAAAAAATATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAAC
* * * * *
59530 TGGTCTCAAAAATGACAAAACCGAAAAAAGTTACTGGATATATTGAAAGTGCCGATAATTTAATA
193 AGGTCTCAAAAATGACAAAACCG-TAAAAGATAC-GGATATGTTGAAAGTGTCGATAATTTAATA
* * *
59595 TTAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTT
256 TAAGTATCAACACTTTC-----TT-----AGAAGAAGTTATA--GACTAAAAAGTGTCGACACTT
* * * *
59660 TATGAAAATGTATCGATCCTTACCAATGTAACAGGTAAAAATATGATAAAACATGTCTCAAAAAT
309 TATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACATGTCTCAAAAAT
* * *
59725 GACAAAACCGGGAAAAGTTACCGGATATGTTAAAAGTGTCGATAATTTAATATAAGTATCGACAC
374 GACAAAACCAGAAAAAGTTACCGGATATATTAAAAGTGTCGATAATTTAATATAAGTATCGACAC
*
59790 TTTCTGAATTTAAAAGAGAAAAAGTTATTACGGTTAAAAAGTGTCGACACTTTATGAAAATGTAT
439 TTTCTGAATTTAAAAGAGAAAAAGTTATTACGCTTAAAAAGTGTCGACACTTTATGAAAATGTAT
59855 CGATCCATAACAATATAACAGGTAAAAAT
504 CGATCCATAACAATATAACAGGTAAAAAT
* * *
59884 ATGATAAAACATGTCTCAAAATTGACAAAACC-AATAAAACGCTACTGGATATATTGAAAGTGTC
1 ATGATAAAACAGGTCTCAAAAATGACAAAACCGAA-AAAA-GCTACCGGATATATTGAAAGTGTC
*
59948 GATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAGAAGTTATAGTGCCTATAAA
64 GATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAA
*
60013 GTGTCGATACTTTAAAAAAATATATCGATCCACAACAATATAACAGGTAAAAATATAATAAAACA
129 GTGTCGATACTTTAAAAAAATATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAACA
* *
60078 GGTCCCAAAAATTGACAAAACCAGTCAAACGATATCGGATATGTTGAAAGTGTCGATAATTTAAT
194 GGTCTCAAAAA-TGACAAAACC-GT-AAAAGATA-CGGATATGTTGAAAGTGTCGATAATTTAAT
60143 ATAAGTATCAACACTTTC-T-G-A-AA-TTA-A-ACTAAAAAGTGTCGACACTTTATAAAAATGT
255 ATAAGTATCAACACTTTCTTAGAAGAAGTTATAGACTAAAAAGTGTCGACACTTTATAAAAATGT
* *
60201 ATCGATCCATAACAATATAACATGTAAAAATATGATAAAA-TTGGTCTCAAAAATGACAAAACCA
320 ATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAT-GTCTCAAAAATGACAAAACCA
* * * *
60265 GAAAAAGTTATCGGATATATTGAAAGTGTTGATAATTTAATATTAGTATCGACACTTTCTGAATT
384 GAAAAAGTTACCGGATATATTAAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATT
* * *
60330 TAAAAGAGAAGAAGTTA-TAGCGCTTAAAAAGTGTCGACACTTTATTAAAATGTATCGATCCTTA
449 TAAAAGAGAAAAAGTTATTA-CGCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATA
*
60394 CCAATATAACAGGTAAAAAT
513 ACAATATAACAGGTAAAAAT
* * * *
60414 ATGATAAAACGGGTCTCAAAAATGACAAAACCGGAAAAAGTTACCGGATATGTTGAAAGTGTCGA
1 ATGATAAAACAGGTCTCAAAAATGACAAAACCGAAAAAAGCTACCGGATATATTGAAAGTGTCGA
* * * * *
60479 TAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAACACTTAAAAAGT
66 TAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGT
* ** * * *
60544 GTCGACACTTTATGAAAATGTATCGATCCAGAACAATATAACAGGTAAAAATATGATAAAACCGG
131 GTCGATACTTTAAAAAAATATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAACAGG
** * *
60609 TCTC-AAAATGACAAAACCGATAAATAGATACCATATATGTTGAGAGTGTCGATACTTTAATA
196 TCTCAAAAATGACAAAACCG-TAAA-AGATA-CGGATATGTTGAAAGTGTCGATAATTTAATA
60671 AGTACGCGTA
Statistics
Matches: 704, Mismatches: 68, Indels: 48
0.86 0.08 0.06
Matches are distributed among these distances:
526 4 0.01
527 42 0.06
528 4 0.01
529 146 0.21
530 253 0.36
531 1 0.00
533 1 0.00
534 3 0.00
535 2 0.00
536 1 0.00
537 1 0.00
543 1 0.00
544 2 0.00
545 16 0.02
546 115 0.16
547 51 0.07
548 10 0.01
549 50 0.07
550 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (532 bp):
ATGATAAAACAGGTCTCAAAAATGACAAAACCGAAAAAAGCTACCGGATATATTGAAAGTGTCGA
TAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGT
GTCGATACTTTAAAAAAATATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAACAGG
TCTCAAAAATGACAAAACCGTAAAAGATACGGATATGTTGAAAGTGTCGATAATTTAATATAAGT
ATCAACACTTTCTTAGAAGAAGTTATAGACTAAAAAGTGTCGACACTTTATAAAAATGTATCGAT
CCATAACAATATAACAGGTAAAAATATGATAAAACATGTCTCAAAAATGACAAAACCAGAAAAAG
TTACCGGATATATTAAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGA
GAAAAAGTTATTACGCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATA
ACAGGTAAAAAT
Found at i:60483 original size:182 final size:181
Alignment explanation
Indices: 60172--60670 Score: 775
Period size: 182 Copynumber: 2.7 Consensus size: 181
60162 GAAATTAAAC
*
60172 TAAAAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGAT
1 TAAAAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAT
** * * *
60237 AAAATTGGTCTCAAAAATGACAAAACCAGAAAAAGTTATCGGATATATTGAAAGTGTTGATAATT
66 AAAACCGGTCTCAAAAATGACAAAACC-GAAAAAGTTACCGGATATGTTGAAAGTGTCGATAATT
* * *
60302 TAATATTAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCT
130 TAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAACACT
* * *
60354 TAAAAAGTGTCGACACTTTATTAAAATGTATCGATCCTTACCAATATAACAGGTAAAAATATGAT
1 TAAAAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAT
*
60419 AAAACGGGTCTCAAAAATGACAAAACCGGAAAAAGTTACCGGATATGTTGAAAGTGTCGATAATT
66 AAAACCGGTCTCAAAAATGACAAAACC-GAAAAAGTTACCGGATATGTTGAAAGTGTCGATAATT
60484 TAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAACACT
130 TAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAACACT
* *
60536 TAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCAGAACAATATAACAGGTAAAAATATGAT
1 TAAAAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAT
* ** * *
60601 AAAACCGGTCTC-AAAATGACAAAACCGATAAATAGATACCATATATGTTGAGAGTGTCGATACT
66 AAAACCGGTCTCAAAAATGACAAAACCGA-AAA-AGTTACCGGATATGTTGAAAGTGTCGATAAT
60665 TTAATA
129 TTAATA
60671 AGTACGCGTA
Statistics
Matches: 292, Mismatches: 23, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
180 2 0.01
181 17 0.06
182 273 0.93
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (181 bp):
TAAAAAGTGTCGACACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAT
AAAACCGGTCTCAAAAATGACAAAACCGAAAAAGTTACCGGATATGTTGAAAGTGTCGATAATTT
AATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAACACT
Found at i:61080 original size:18 final size:19
Alignment explanation
Indices: 61057--61101 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
61047 TAGTTAATAT
61057 TTATAGGTA-AAAATGATA
1 TTATAGGTAGAAAATGATA
61075 TTATAGGTAGAAAATGATA
1 TTATAGGTAGAAAATGATA
*
61094 TTTTAGGT
1 TTATAGGT
61102 TGTATAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (19 bp):
TTATAGGTAGAAAATGATA
Found at i:61387 original size:18 final size:18
Alignment explanation
Indices: 61352--61390 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
61342 TTGAAATGGT
61352 AATTGGATTAAAACTTTA
1 AATTGGATTAAAACTTTA
*
61370 AATT-GATTACAAATTTTA
1 AATTGGATTA-AAACTTTA
61388 AAT
1 AAT
61391 ATTGACAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (18 bp):
AATTGGATTAAAACTTTA
Found at i:62406 original size:19 final size:20
Alignment explanation
Indices: 62341--62404 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 20
62331 TGAGTTGAAG
62341 AATGATAACTTTTA-TATAA
1 AATGATAACTTTTATTATAA
62360 AATGATAA-TATAGTTATTATATAA
1 AATGATAACT-T--TTA-T-TATAA
62384 AATGATAACTTTTATTATAA
1 AATGATAACTTTTATTATAA
62404 A
1 A
62405 TGCAGGTTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
18 1 0.03
19 9 0.24
20 6 0.16
21 4 0.11
22 3 0.08
24 14 0.37
25 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (20 bp):
AATGATAACTTTTATTATAA
Found at i:64572 original size:19 final size:19
Alignment explanation
Indices: 64546--64594 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
64536 AAATGCATGG
64546 TTAA-TTTGTATA-AGATTT
1 TTAATTTTGTATACA-ATTT
64564 TTAATTTTGTATACAATTT
1 TTAATTTTGTATACAATTT
*
64583 ATAATTTTGTAT
1 TTAATTTTGTAT
64595 CTGAATGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 4 0.14
19 23 0.82
20 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (19 bp):
TTAATTTTGTATACAATTT
Found at i:65299 original size:169 final size:172
Alignment explanation
Indices: 65020--65376 Score: 576
Period size: 169 Copynumber: 2.1 Consensus size: 172
65010 CATTTATAAC
* * *
65020 AAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTAGCAATATAAT
1 AAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATATAATAGGTAAATTAACAATATAAC
65085 CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCG-A-C-ACAAGTGTCGA
66 CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGAATCAACAAGTGTCGA
*
65147 TACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCACTAAA
131 TACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAA
*
65189 AAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATATAATAGGTAAATTAACAATATAAC
1 AAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATATAATAGGTAAATTAACAATATAAC
*
65254 CGGTCTAAATATACCGGTTTTTGAGAAAACCGGTGTACAAAAAGTATCGACACAAATCGAACAAG
66 CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCG-----AATC-AACAAG
*
65319 TGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGTACTAAA
125 TGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAA
65367 AAGTGTCGAT
1 AAGTGTCGAT
65377 ACATTTATAA
Statistics
Matches: 172, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
169 109 0.63
175 1 0.01
176 1 0.01
178 61 0.35
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (172 bp):
AAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATATAATAGGTAAATTAACAATATAAC
CGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGAATCAACAAGTGTCGA
TACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAAA
Found at i:65839 original size:15 final size:15
Alignment explanation
Indices: 65819--65876 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
65809 TTTCTCAGAT
65819 CTCTTCTCAACCCAC
1 CTCTTCTCAACCCAC
* *
65834 CTCTTCCCAACCCAG
1 CTCTTCTCAACCCAC
*
65849 TTCTTCTCAACCACAAC
1 CTCTTCTCAACC-C-AC
65866 CTCCTTCTCAA
1 CT-CTTCTCAA
65877 ACAATCGCCC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
15 23 0.68
16 1 0.03
17 2 0.06
18 8 0.24
ACGTcount: A:0.22, C:0.48, G:0.02, T:0.28
Consensus pattern (15 bp):
CTCTTCTCAACCCAC
Found at i:68776 original size:199 final size:199
Alignment explanation
Indices: 68431--69283 Score: 1124
Period size: 199 Copynumber: 4.3 Consensus size: 199
68421 ACAAAATGTA
* * *
68431 TCGATACAAATAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGT
1 TCGATACATATATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATAGGT
* **
68496 AAATTATTCATGTAAAAGGTCTAAATATACCAATTTTTGAGAAAACAGGTGTACAAAAAGTATCG
66 AAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCG
* * *
68561 ACACAAATCTAACAAGTGTCGATACTTTTTCTCCAGACTGTATTTCAAAACCAAGTGCACTAAAA
131 ACACAAATATAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCACTAAAA
68626 AGTG
196 AGTG
68630 TCGATACATATATAACAAGTGTCGATCCCAAAAACATC-AAAAACCATAATTATAATGTAATAGG
1 TCGATACATATATAACAAGTGTCGATCCCAAAAACATCGAAAAA-CATAATTATAATGTAATAGG
* * * * * * *
68694 TAAATTA-GCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTATAGACAGTAT
65 TAAATTATTC-ATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTAT
* * * *
68758 CGACACAAATAGAACAAGTGTAGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCACGT-
129 CGACACAAATATAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCAC-TA
68822 AAAAGTG
193 AAAAGTG
* * * * * * * **
68829 TCAATACATTTAAAACAAATGTCAATCCCGAAAATATCGAAAAACATAATTATAATGTAATAAAT
1 TCGATACATATATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATAGGT
*
68894 AAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTTCAAAAAGTATCG
66 AAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCG
* * *
68959 ACACAAATATAACAAGTGTTGATACTTTTTTTCCATAATGTATTTCAAAACCAAGTGCACTAAAA
131 ACACAAATATAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCACTAAAA
69024 AGTG
196 AGTG
*
69028 TCGATACATTTATAACAAGTGTCGATCCCAAAAACATCG-AAAACTATAATTATAATGTAATAGG
1 TCGATACATATATAACAAGTGTCGATCCCAAAAACATCGAAAAAC-ATAATTATAATGTAATAGG
* * * * ** * **
69092 TAAATTA-ACAATGTAACCGGTCTAAATGTACCGGTTTATGAGAAAACATATATACATGAAGTAT
65 TAAATTATTC-ATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTAT
* * * * * *
69156 CGACACAAATACATCAAGTTTCGATACATTTTTGTCCAGACTATATTTTAAAAACCAAGTGCAC-
129 CGACACAAATATAACAAGTGTCGATAC-TTTTTGTCCAGAATGTA-TTTCAAAACCAAGTGCACT
*
69220 AACAAAGTT
192 AA-AAAGTG
* *
69229 TCGATACATGTATAACAATTGTCGATCCCAAAAACATCGAAAAACATAATTATAA
1 TCGATACATATATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAA
69284 CCAAATATCT
Statistics
Matches: 569, Mismatches: 73, Indels: 22
0.86 0.11 0.03
Matches are distributed among these distances:
198 13 0.02
199 460 0.81
200 22 0.04
201 69 0.12
202 5 0.01
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.28
Consensus pattern (199 bp):
TCGATACATATATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAATAGGT
AAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCG
ACACAAATATAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCACTAAAA
AGTG
Found at i:72318 original size:198 final size:194
Alignment explanation
Indices: 71779--72485 Score: 651
Period size: 198 Copynumber: 3.6 Consensus size: 194
71769 ATACATATGT
* * * * *
71779 AAGAAT-ATGTGTCGATACATTTTCAAAA-AGTATCGACCCCAAAAATATCGAAACAAATAATTA
1 AAGAATAAAGTGTCGATACA-TTT-AAAATTGTATCGA-TCCAAAAACATCGAAACGAATAATTA
** * * * * * * *
71842 TAATGTAATATTTAAATTAACAATGTAACC-AGTATACATATACCGGTTAATTATAAAACAGGTC
63 TAATGTAATAGGTAAATTTACAATGTAACCGA-TATAAATATACCGTTTTATGAGAAAATAGGTC
* * * *
71906 AACATAAAGTATCGACACTTTTTAAGTTTGTGTCGATACTTTTTTCCAAAAGAAA-GCACAAAC-
127 AA-ATAAAGTATCGACACTTTATAA-TTTGTGTCGATACTTTTTTCCATAATAAATGC-CCAACG
*
71969 AGGTTC
189 AGGTGC
* * *** *
71975 ACGCATAAAGTGTCGATACATTTAAAATCCCATGGATCACAAAAACATCGAAACCG-ATAATTAT
1 AAGAATAAAGTGTCGATACATTTAAAATTGTATCGATC-CAAAAACATCGAAA-CGAATAATTAT
* * * * * * *
72039 AATGTAATAAGTCAATTTACAATGTAACCGGTTTAAATTTATA-GGTTTTATGAGAGAATAAGTC
64 AATGTAATAGGTAAATTTACAATGTAACCGATATAAA--TATACCGTTTTATGAGAAAATAGGTC
*
72103 AGAATAAAGTATCGACACTTGTGTAATTTGTGTCGATA-TATTTTGTCCATAATAAATGCCCAAC
127 A-AATAAAGTATCGACACTT-TATAATTTGTGTCGATACT-TTTT-TCCATAATAAATGCCCAAC
72167 GAGGTGC
188 GAGGTGC
* * * *
72174 AAAAATTACGTGTCGATACATTTAAAATTGTATCGATCCTAAAAACATCGAAACGAA-AATTACA
1 AAGAATAAAGTGTCGATACATTTAAAATTGTATCGATCC-AAAAACATCGAAACGAATAATTATA
* *
72238 ATGTTATAGGTAAATTTACAATGTACCCGATATAAATATACCGATTTTATGAGAAAATAGGTCTA
65 ATGTAATAGGTAAATTTACAATGTAACCGATATAAATATACCG-TTTTATGAGAAAATAGGTC-A
* *
72303 AATAATGTATCGACACCTTTATAGTTTGTGTCGATACTTTTTTCCAGAATGAATTAGGAATGCCC
128 AATAAAGTATCGACA-CTTTATAATTTGTGTCGATACTTTTTTCC---AT-AA-TA--AATGCCC
72368 AACGAGGTGC
185 AACGAGGTGC
* * * *
72378 AAGTATAAAGTGTCGATACATTTAAAATTGTATCGAACCAAAAAACAACGAAACTAATAATTATA
1 AAGAATAAAGTGTCGATACATTTAAAATTGTATCGATCC-AAAAACATCGAAACGAATAATTATA
** * *
72443 ATACAATAGGTAAATTTACTATGCT-ACCGGTATAAATATACCG
65 ATGTAATAGGTAAATTTACAATG-TAACCGATATAAATATACCG
72486 GTTAAATGCT
Statistics
Matches: 415, Mismatches: 67, Indels: 49
0.78 0.13 0.09
Matches are distributed among these distances:
195 5 0.01
196 66 0.16
197 64 0.15
198 111 0.27
199 55 0.13
200 2 0.00
201 2 0.00
202 2 0.00
204 66 0.16
205 41 0.10
206 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (194 bp):
AAGAATAAAGTGTCGATACATTTAAAATTGTATCGATCCAAAAACATCGAAACGAATAATTATAA
TGTAATAGGTAAATTTACAATGTAACCGATATAAATATACCGTTTTATGAGAAAATAGGTCAAAT
AAAGTATCGACACTTTATAATTTGTGTCGATACTTTTTTCCATAATAAATGCCCAACGAGGTGC
Found at i:72522 original size:23 final size:23
Alignment explanation
Indices: 72496--72552 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
72486 GTTAAATGCT
* *
72496 TATTTTATTATATAAGTGCTACC
1 TATTATATTATATAAGCGCTACC
* *
72519 TATTACATTATATAAGCGTTACC
1 TATTATATTATATAAGCGCTACC
*
72542 TAATATATTAT
1 TATTATATTAT
72553 TGTGCTTGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (23 bp):
TATTATATTATATAAGCGCTACC
Done.