Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01016175.1 Corchorus capsularis cultivar CVL-1 contig16196, 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: 91987
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Found at i:4590 original size:2 final size:2
Alignment explanation
Indices: 4583--4610 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4573 ATAAAGGAGA
4583 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4611 GATAATAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5829 original size:11 final size:11
Alignment explanation
Indices: 5810--5844 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
5800 TTTTTCTGTT
5810 TTTTATTTTTG
1 TTTTATTTTTG
*
5821 TTTTGTTTTTG
1 TTTTATTTTTG
5832 TTTTATTTTTG
1 TTTTATTTTTG
5843 TT
1 TT
5845 GCGCTATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.06, C:0.00, G:0.11, T:0.83
Consensus pattern (11 bp):
TTTTATTTTTG
Found at i:7340 original size:23 final size:21
Alignment explanation
Indices: 7296--7340 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
7286 GTTTCAATGC
* *
7296 ATATATAATATAAAATATAGA
1 ATATATAATATAAAAGAAAGA
7317 ATATATATATATAAAAGGAAAGA
1 ATATATA-ATATAAAA-GAAAGA
7340 A
1 A
7341 CTATTGTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 8 0.40
23 5 0.25
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (21 bp):
ATATATAATATAAAAGAAAGA
Found at i:16279 original size:32 final size:32
Alignment explanation
Indices: 16237--16299 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
16227 TTTAGGTGCT
16237 GGCAACTGTATGAACATGGA-ATTTTAATTTTC
1 GGCAACTGTATGAACAT-GACATTTTAATTTTC
* *
16269 GGCAATTGTATGAACATGACTTTTTAATTTT
1 GGCAACTGTATGAACATGACATTTTAATTTT
16300 AAGAAATTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 2 0.07
32 26 0.93
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.41
Consensus pattern (32 bp):
GGCAACTGTATGAACATGACATTTTAATTTTC
Found at i:23234 original size:2 final size:2
Alignment explanation
Indices: 23227--23261 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
23217 TAGCCCATAC
23227 TA TA TA TA TA -A 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
23262 ATGACAACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:28672 original size:14 final size:14
Alignment explanation
Indices: 28653--28682 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
28643 TTGTTTGAGT
28653 TCTCCCTATTGTTC
1 TCTCCCTATTGTTC
28667 TCTCCCTATTGTTC
1 TCTCCCTATTGTTC
28681 TC
1 TC
28683 GTCTATGAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.37, G:0.07, T:0.50
Consensus pattern (14 bp):
TCTCCCTATTGTTC
Found at i:33745 original size:3 final size:3
Alignment explanation
Indices: 33737--33764 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
33727 GATTGATGTA
33737 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
33765 TGTTGACAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:47446 original size:3 final size:3
Alignment explanation
Indices: 47440--47465 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47430 ACAATGGATT
47440 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
47466 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:50101 original size:19 final size:20
Alignment explanation
Indices: 50063--50101 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
50053 GCTTGGTCCC
* *
50063 TTTGCTTCCAAATTTCAATT
1 TTTGCTACCAAATCTCAATT
50083 TTTGCTACCAAA-CTCAATT
1 TTTGCTACCAAATCTCAATT
50102 CCAACTTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (20 bp):
TTTGCTACCAAATCTCAATT
Found at i:54454 original size:27 final size:27
Alignment explanation
Indices: 54423--54503 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
54413 TTATTAAGAA
54423 CAAAAGTCTCATCATAGATTTATTGAT
1 CAAAAGTCTCATCATAGATTTATTGAT
*
54450 CAAAAGTAC-C-T-A-AGGA---A--GAA
1 CAAAAGT-CTCATCATA-GATTTATTGAT
54470 CAAAAGTCTCATCATAGATTTATTGAT
1 CAAAAGTCTCATCATAGATTTATTGAT
54497 CAAAAGT
1 CAAAAGT
54504 ACCTAAGGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 22
0.63 0.03 0.34
Matches are distributed among these distances:
19 1 0.02
20 10 0.24
21 1 0.02
22 4 0.10
23 1 0.02
24 1 0.02
25 4 0.10
26 1 0.02
27 17 0.41
28 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (27 bp):
CAAAAGTCTCATCATAGATTTATTGAT
Found at i:54474 original size:47 final size:47
Alignment explanation
Indices: 54418--54513 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
54408 TCAAATTATT
54418 AAGAACAAAAGTCTCATCATAGATTTATTGATCAAAAGTACCTAAGG
1 AAGAACAAAAGTCTCATCATAGATTTATTGATCAAAAGTACCTAAGG
54465 AAGAACAAAAGTCTCATCATAGATTTATTGATCAAAAGTACCTAAGG
1 AAGAACAAAAGTCTCATCATAGATTTATTGATCAAAAGTACCTAAGG
54512 AA
1 AA
54514 AAGAAGTATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.25
Consensus pattern (47 bp):
AAGAACAAAAGTCTCATCATAGATTTATTGATCAAAAGTACCTAAGG
Found at i:55868 original size:3 final size:3
Alignment explanation
Indices: 55862--55894 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
55852 TCATTTCCCC
*
55862 CAT CAT CAT CAT CAT CAT CAT CAT TAT CA- CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
55895 TTTGGTGAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:64540 original size:26 final size:28
Alignment explanation
Indices: 64504--64623 Score: 176
Period size: 26 Copynumber: 4.4 Consensus size: 28
64494 ACACCCATTT
64504 ATTTTGGTCATTGTTGCACT-AA-GGGC
1 ATTTTGGTCATTGTTGCACTCAAGGGGC
* *
64530 ATTTTGGTCATTTTTGCATTCAAGGGGC
1 ATTTTGGTCATTGTTGCACTCAAGGGGC
64558 ATTTTGGTCATTGTTGCACT-AA-GGGC
1 ATTTTGGTCATTGTTGCACTCAAGGGGC
* *
64584 ATTTTGGTCATTTTTGCATTCAAGGGGC
1 ATTTTGGTCATTGTTGCACTCAAGGGGC
64612 ATTTTGGTCATT
1 ATTTTGGTCATT
64624 TTAAGTCCAA
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
26 40 0.48
27 6 0.07
28 38 0.45
ACGTcount: A:0.18, C:0.14, G:0.25, T:0.42
Consensus pattern (28 bp):
ATTTTGGTCATTGTTGCACTCAAGGGGC
Found at i:64585 original size:54 final size:54
Alignment explanation
Indices: 64504--64623 Score: 240
Period size: 54 Copynumber: 2.2 Consensus size: 54
64494 ACACCCATTT
64504 ATTTTGGTCATTGTTGCACTAAGGGCATTTTGGTCATTTTTGCATTCAAGGGGC
1 ATTTTGGTCATTGTTGCACTAAGGGCATTTTGGTCATTTTTGCATTCAAGGGGC
64558 ATTTTGGTCATTGTTGCACTAAGGGCATTTTGGTCATTTTTGCATTCAAGGGGC
1 ATTTTGGTCATTGTTGCACTAAGGGCATTTTGGTCATTTTTGCATTCAAGGGGC
64612 ATTTTGGTCATT
1 ATTTTGGTCATT
64624 TTAAGTCCAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.18, C:0.14, G:0.25, T:0.42
Consensus pattern (54 bp):
ATTTTGGTCATTGTTGCACTAAGGGCATTTTGGTCATTTTTGCATTCAAGGGGC
Found at i:66261 original size:19 final size:19
Alignment explanation
Indices: 66237--66275 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
66227 GAGAGATTCA
66237 TTCAAT-GGTTCTCTCACTC
1 TTCAATCGG-TCTCTCACTC
*
66256 TTCAATCGGTCTCTCCCTC
1 TTCAATCGGTCTCTCACTC
66275 T
1 T
66276 CTTAAATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.13, C:0.36, G:0.10, T:0.41
Consensus pattern (19 bp):
TTCAATCGGTCTCTCACTC
Found at i:66277 original size:21 final size:20
Alignment explanation
Indices: 66237--66283 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
66227 GAGAGATTCA
*
66237 TTCAAT-GGTTCTCTCACTC
1 TTCAATCGGTTCTCCCACTC
*
66256 TTCAATCGGTCTCTCCCTCTC
1 TTCAATCGGT-TCTCCCACTC
*
66277 TTAAATC
1 TTCAATC
66284 TCTGAAGCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 6 0.26
20 3 0.13
21 14 0.61
ACGTcount: A:0.17, C:0.34, G:0.09, T:0.40
Consensus pattern (20 bp):
TTCAATCGGTTCTCCCACTC
Found at i:70882 original size:27 final size:28
Alignment explanation
Indices: 70852--70920 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
70842 ACTATCAAAA
* *
70852 CAAGAAACGTTTTTCAAAAAT-TGTTTT
1 CAAGAAAAGTTTTTCAAAAATGAGTTTT
* *
70879 CAAGAAAAGGTTTCCAAAAATGAGTTTT
1 CAAGAAAAGTTTTTCAAAAATGAGTTTT
70907 CAA-AAAAGGTTTTT
1 CAAGAAAA-GTTTTT
70921 GAGTTTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
27 22 0.65
28 12 0.35
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (28 bp):
CAAGAAAAGTTTTTCAAAAATGAGTTTT
Found at i:70920 original size:14 final size:13
Alignment explanation
Indices: 70862--70919 Score: 62
Period size: 14 Copynumber: 4.3 Consensus size: 13
70852 CAAGAAACGT
**
70862 TTTTCAAAAATTG
1 TTTTCAAAAAAGG
70875 TTTTCAAGAAAAGG
1 TTTTCAA-AAAAGG
* *
70889 TTTCCAAAAATGAG
1 TTTTCAAAAAAG-G
70903 TTTTCAAAAAAGG
1 TTTTCAAAAAAGG
70916 TTTT
1 TTTT
70920 TGAGTTTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
13 16 0.43
14 21 0.57
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (13 bp):
TTTTCAAAAAAGG
Found at i:73392 original size:35 final size:35
Alignment explanation
Indices: 73206--73385 Score: 252
Period size: 35 Copynumber: 5.1 Consensus size: 35
73196 AAAAAGTATA
*
73206 AGTTTATTTCTTGTTGACCCAGGGCGGTCTTTCTTC
1 AGTTTATTTC-AGTTGACCCAGGGCGGTCTTTCTTC
* * *
73242 AGTTTATTTCAGTTGATCCAGGGTGGTCTTTCGTC
1 AGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTC
* * *
73277 AATTTATTACAGTTGACCCAGGGTGGTCTTTCTTC
1 AGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTC
* * *
73312 AGTTTATTTCAATTGACCCAGGGAGGTCGTTCTTC
1 AGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTC
*
73347 AGTTTATTTCAGTCGACCCAGGGCGGTCTTTCTTC
1 AGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTC
73382 AGTT
1 AGTT
73386 GTTTTCAAGT
Statistics
Matches: 127, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
35 117 0.92
36 10 0.08
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.41
Consensus pattern (35 bp):
AGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTC
Found at i:73446 original size:71 final size:70
Alignment explanation
Indices: 73354--73612 Score: 378
Period size: 70 Copynumber: 3.7 Consensus size: 70
73344 TTCAGTTTAT
*
73354 TTCAGTCGACCCAGGGCGGTCTTTCTTCAGTTGTTTTCAAGTTTATTCCAAGTTTATGTCAGAAT
1 TTCAGTCGACCCAGGGCGGTCTTTCTTCAGTTGTTTCCAAGTTTA-TCCAAGTTTATGTCAGAAT
73419 GATCGA
65 GATCGA
* *
73425 TTCAGTCGAACCAGGGCGGTCTTTCTTCAGTTGTTTCCAAGTTTATCCAAGTTTGTGTCAGAATG
1 TTCAGTCGACCCAGGGCGGTCTTTCTTCAGTTGTTTCCAAGTTTATCCAAGTTTATGTCAGAATG
73490 ATCGA
66 ATCGA
* * * * *
73495 TTCGGTTGACCCAGGGTGGTCTTTCTTCAGTAGTTTCCACA-TTTATCCAAGTTTAGGTCAGAAT
1 TTCAGTCGACCCAGGGCGGTCTTTCTTCAGTTGTTTCCA-AGTTTATCCAAGTTTATGTCAGAAT
73559 GATCGA
65 GATCGA
* * * *
73565 TTCAGTCGACCCAGGGTGGTTTTTCATCAGTTGTTTCC-AGTTGATCCA
1 TTCAGTCGACCCAGGGCGGTCTTTCTTCAGTTGTTTCCAAGTTTATCCA
73613 GGGTGGTCTT
Statistics
Matches: 170, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
68 1 0.01
69 7 0.04
70 118 0.69
71 44 0.26
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (70 bp):
TTCAGTCGACCCAGGGCGGTCTTTCTTCAGTTGTTTCCAAGTTTATCCAAGTTTATGTCAGAATG
ATCGA
Found at i:73975 original size:63 final size:63
Alignment explanation
Indices: 73894--74698 Score: 947
Period size: 63 Copynumber: 13.0 Consensus size: 63
73884 GTTTAAAAGT
*
73894 TTCATTCTAAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATG
1 TTCATT-TCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATG
*
73958 TTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATA
1 TTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATG
* * * *
74021 TTCATTCCAAATCCTGTTTGAGGTCTTTAGCCGAGAGTTTCTTGTTTCAATTCCAAAATCATG
1 TTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATG
* * * * *
74084 TTCATTTCAAATCCTGTTTGAGATCTTTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCTTA
1 TTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATG
* * * ** *
74147 CTCATTTTAAATCCTGTTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATT-TTAAATCTTG
1 TTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATG
* * ** *
74209 -TC-TTCCAAATCCTGCTCGAGGTCTCTAAACGAAAGTTTCTTGTTTCAATTCC-AAATC-TGG
1 TTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCAT-G
* * * ** * * *
74269 TTCGTTTCAAATCCTACTCGAGGTCTCTAAACCAGAGTTTCTTATTTCAATTCCAAAATCTTG
1 TTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATG
* * * ** *
74332 CTCATTTTAAATCCTGTTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATT-TTAAATCTTG
1 TTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATG
* ** *
74394 -TC-TTCCAAATCCTAATCGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATG
1 TTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATG
* *
74455 TTCATTTCAAATCCTGCTTGAAGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAAT-TTG
1 TTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATG
* * * **
74517 CTCATTTTAAATCCTGTTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATT-TTAAAT-AT-
1 TTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATG
* * ** *
74577 TGTC-TTCCAAATCCTGCTCGAGGTCTCTAAACGAGAGTTTCTTGTTTCAATT-CTAAATC-TGG
1 T-TCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCAT-G
* * * ** *
74639 TCCGTTTCAAATCCTGCTCGAGGTCTCTAAACGAGAGTTTCTTGTTTAAATTCCAAAATC
1 TTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATC
74699 TTGCATGTTT
Statistics
Matches: 649, Mismatches: 77, Indels: 31
0.86 0.10 0.04
Matches are distributed among these distances:
59 1 0.00
60 138 0.21
61 21 0.03
62 159 0.24
63 323 0.50
64 7 0.01
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.40
Consensus pattern (63 bp):
TTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATG
Found at i:74338 original size:185 final size:186
Alignment explanation
Indices: 73894--74702 Score: 1180
Period size: 185 Copynumber: 4.3 Consensus size: 186
73884 GTTTAAAAGT
* * *
73894 TTCATTCTAAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATGT
1 TTCATT-TCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCTTGC
* * **
73959 TCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATAT-T
65 TCATTTTAAATCCTGTTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATT-TTAAATC-T-TGT
* * * **
74023 CATTCCAAATCCTGTTTGAGGTCTTTAGCCGAGAGTTTCTTGTTTCAATTCCAAAATCATG
127 C-TTCCAAATCCTGCTCGAGGTCTCTAAACGAGAGTTTCTTGTTTCAATTCCAAAATCATG
* * * *
74084 TTCATTTCAAATCCTGTTTGAGATCTTTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCTTACT
1 TTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCTTGCT
74149 CATTTTAAATCCTGTTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTTTAAATCTTGTCTTC
66 CATTTTAAATCCTGTTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTTTAAATCTTGTCTTC
*
74214 CAAATCCTGCTCGAGGTCTCTAAACGAAAGTTTCTTGTTTCAATTCC-AAATC-TGG
131 CAAATCCTGCTCGAGGTCTCTAAACGAGAGTTTCTTGTTTCAATTCCAAAATCAT-G
* * * ** * *
74269 TTCGTTTCAAATCCTACTCGAGGTCTCTAAACCAGAGTTTCTTATTTCAATTCCAAAATCTTGCT
1 TTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCTTGCT
74334 CATTTTAAATCCTGTTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTTTAAATCTTGTCTTC
66 CATTTTAAATCCTGTTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTTTAAATCTTGTCTTC
** **
74399 CAAATCCTAATCGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATG
131 CAAATCCTGCTCGAGGTCTCTAAACGAGAGTTTCTTGTTTCAATTCCAAAATCATG
*
74455 TTCATTTCAAATCCTGCTTGAAGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAAT-TTGCT
1 TTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCTTGCT
*
74519 CATTTTAAATCCTGTTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTTTAAATATTGTCTTC
66 CATTTTAAATCCTGTTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTTTAAATCTTGTCTTC
*
74584 CAAATCCTGCTCGAGGTCTCTAAACGAGAGTTTCTTGTTTCAATT-CTAAATC-TGG
131 CAAATCCTGCTCGAGGTCTCTAAACGAGAGTTTCTTGTTTCAATTCCAAAATCAT-G
* * * ** *
74639 TCCGTTTCAAATCCTGCTCGAGGTCTCTAAACGAGAGTTTCTTGTTTAAATTCCAAAATCTTGC
1 TTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCTTGC
74703 ATGTTTATGG
Statistics
Matches: 559, Mismatches: 54, Indels: 17
0.89 0.09 0.03
Matches are distributed among these distances:
183 1 0.00
184 60 0.11
185 281 0.50
186 102 0.18
187 4 0.01
188 5 0.01
189 100 0.18
190 6 0.01
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (186 bp):
TTCATTTCAAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCTTGCT
CATTTTAAATCCTGTTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTTTAAATCTTGTCTTC
CAAATCCTGCTCGAGGTCTCTAAACGAGAGTTTCTTGTTTCAATTCCAAAATCATG
Found at i:74346 original size:248 final size:247
Alignment explanation
Indices: 73903--74698 Score: 996
Period size: 248 Copynumber: 3.2 Consensus size: 247
73893 TTTCATTCTA
*
73903 AAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATGTTCATTTCAA
1 AAATCCTGCTCGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATGTTCATTTCAA
* *
73968 ATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATATTCATTCCAAAT
66 ATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATC-TGTTCATTTCAAAT
* * *
74033 CCTGTTTGAGGTCT-TTAGCCGAGAGTTTCTTGTTTCAATTCCAAAATCATGTTCATTTCAAATC
130 CCTGTTTGAGGTCTCTAAACC-AGAGTTTCTTGTTTCAATTCCAAAATCTTG-TCATTTCAAATC
* * * *
74097 CTGTTTGAGATCTTTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCTTACTCATTTT
193 CTGTTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATT-CTAAATCTT-CTC-TTTC
* * ** * *
74155 AAATCCTGTTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATT-TTAAATCTTG-TC-TTCCAA
1 AAATCCTGCTCGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATGTTCATTTCAA
* ** * *
74217 ATCCTGCTCGAGGTCTCTAAACGAAAGTTTCTTGTTTCAATTCC-AAATCTGGTTCGTTTCAAAT
66 ATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCT-GTTCATTTCAAAT
** * * *
74281 CCTACTCGAGGTCTCTAAACCAGAGTTTCTTATTTCAATTCCAAAATCTTGCTCATTTTAAATCC
130 CCTGTTTGAGGTCTCTAAACCAGAGTTTCTTGTTTCAATTCCAAAATCTTG-TCATTTCAAATCC
* * *
74346 TGTTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTTTAAATCTTGTCTTCC
194 TGTTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCTAAATCTTCTCTTTC
**
74400 AAATCCTAATCGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATGTTCATTTCAA
1 AAATCCTGCTCGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATGTTCATTTCAA
* * * *
74465 ATCCTGCTTGAAGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATTTGCTCATTTTAAATC
66 ATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCTGTTCATTTCAAATC
** * ** * *
74530 CTGTTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATT-TTAAATATTGTC-TTCCAAATCCTG
131 CTGTTTGAGGTCTCTAAACCAGAGTTTCTTGTTTCAATTCCAAAATCTTGTCATTTCAAATCCTG
* * **
74593 CTCGAGGTCTCTAAACGAGAGTTTCTTGTTTCAATTCTAAATCTGGTC-CGTTTC
196 TTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCTAAATCT--TCTC-TTTC
** *
74647 AAATCCTGCTCGAGGTCTCTAAACGAGAGTTTCTTGTTTAAATTCCAAAATC
1 AAATCCTGCTCGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATC
74699 TTGCATGTTT
Statistics
Matches: 467, Mismatches: 68, Indels: 23
0.84 0.12 0.04
Matches are distributed among these distances:
245 92 0.20
246 12 0.03
247 68 0.15
248 189 0.40
249 54 0.12
250 2 0.00
251 7 0.01
252 43 0.09
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.40
Consensus pattern (247 bp):
AAATCCTGCTCGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATGTTCATTTCAA
ATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCTGTTCATTTCAAATC
CTGTTTGAGGTCTCTAAACCAGAGTTTCTTGTTTCAATTCCAAAATCTTGTCATTTCAAATCCTG
TTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCTAAATCTTCTCTTTC
Found at i:74618 original size:370 final size:374
Alignment explanation
Indices: 73903--74702 Score: 1315
Period size: 370 Copynumber: 2.1 Consensus size: 374
73893 TTTCATTCTA
* ** * *
73903 AAATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATGTTCATTTCAA
1 AAATCCTGCTCGAGGTCTCTAAACGAGAGTTTCTTGTTTCAATTCCAAAATCTTGCTCATTTCAA
73968 ATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATATTCATTCCAAAT
66 ATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATATTCATTCCAAAT
** * *
74033 CCTGTTTGAGGTCTTTAGCCGAGAGTTTCTTGTTTCAATTCCAAAATCATGTTCATTTCAAATCC
131 CCTAATCGAGGTCTCTAGCCGAGAGTTTCTTGTTTCAATTCCAAAATCATGTTCATTTCAAATCC
* *
74098 TGTTTGAGATCTTTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCTTACTCATTTTAAATCCTG
196 TGCTTGAGATCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCTTACTCATTTTAAATCCTG
*
74163 TTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTTTAAATCTTGTCTTCCAAATCCTGCTCGA
261 TTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTTTAAATATTGTCTTCCAAATCCTGCTCGA
*
74228 GGTCTCTAAACGAAAGTTTCTTGTTTCAATTCCAAATCTGGTTCGTTTC
326 GGTCTCTAAACGAAAGTTTCTTGTTTCAATTCCAAATCTGGTCCGTTTC
* * * *
74277 AAATCCTACTCGAGGTCTCTAAACCAGAGTTTCTTATTTCAATTCCAAAATCTTGCTCATTTTAA
1 AAATCCTGCTCGAGGTCTCTAAACGAGAGTTTCTTGTTTCAATTCCAAAATCTTGCTCATTTCAA
* **
74342 ATCCTGTTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATT-TTAAATC-T-TGTC-TTCCAAA
66 ATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATAT-TCATTCCAAA
*
74403 TCCTAATCGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATGTTCATTTCAAATC
130 TCCTAATCGAGGTCTCTAGCCGAGAGTTTCTTGTTTCAATTCCAAAATCATGTTCATTTCAAATC
*
74468 CTGCTTGA-AGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAAT-TTGCTCATTTTAAATCC
195 CTGCTTGAGA-TCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCTTACTCATTTTAAATCC
74531 TGTTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTTTAAATATTGTCTTCCAAATCCTGCTC
259 TGTTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTTTAAATATTGTCTTCCAAATCCTGCTC
* *
74596 GAGGTCTCTAAACGAGAGTTTCTTGTTTCAATTCTAAATCTGGTCCGTTTC
324 GAGGTCTCTAAACGAAAGTTTCTTGTTTCAATTCCAAATCTGGTCCGTTTC
*
74647 AAATCCTGCTCGAGGTCTCTAAACGAGAGTTTCTTGTTTAAATTCCAAAATCTTGC
1 AAATCCTGCTCGAGGTCTCTAAACGAGAGTTTCTTGTTTCAATTCCAAAATCTTGC
74703 ATGTTTATGG
Statistics
Matches: 396, Mismatches: 28, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
370 181 0.46
371 110 0.28
372 3 0.01
373 5 0.01
374 97 0.24
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.40
Consensus pattern (374 bp):
AAATCCTGCTCGAGGTCTCTAAACGAGAGTTTCTTGTTTCAATTCCAAAATCTTGCTCATTTCAA
ATCCTGCTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCATATTCATTCCAAAT
CCTAATCGAGGTCTCTAGCCGAGAGTTTCTTGTTTCAATTCCAAAATCATGTTCATTTCAAATCC
TGCTTGAGATCTCTAGTCGAGAGTTTCTTGTTTCAATTCCAAAATCTTACTCATTTTAAATCCTG
TTTGAGGTCTCTAGTCGAGAGTTTCTTGTTTCAATTTTAAATATTGTCTTCCAAATCCTGCTCGA
GGTCTCTAAACGAAAGTTTCTTGTTTCAATTCCAAATCTGGTCCGTTTC
Found at i:74811 original size:14 final size:14
Alignment explanation
Indices: 74792--74820 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
74782 CTCGAGCAGG
74792 TATGGCAATGTAAA
1 TATGGCAATGTAAA
74806 TATGGCAATGTAAA
1 TATGGCAATGTAAA
74820 T
1 T
74821 GCCATAGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (14 bp):
TATGGCAATGTAAA
Found at i:82343 original size:31 final size:31
Alignment explanation
Indices: 82306--82388 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
82296 TCATCACTCA
*
82306 CAATTGATACGAATCTAGTTGGCTCTGATAC
1 CAATTGATACGAATCTAGTTGACTCTGATAC
82337 CAATTGATACGGACAT-TA-TTGACTCTGATAC
1 CAATTGATAC-GA-ATCTAGTTGACTCTGATAC
82368 CAATTGATACGAATCTAGTTG
1 CAATTGATACGAATCTAGTTG
82389 CAATCGGTTC
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
29 2 0.04
30 4 0.09
31 35 0.74
32 4 0.09
33 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (31 bp):
CAATTGATACGAATCTAGTTGACTCTGATAC
Found at i:84571 original size:36 final size:36
Alignment explanation
Indices: 84531--84702 Score: 175
Period size: 36 Copynumber: 4.8 Consensus size: 36
84521 ATGTATTGGA
**
84531 CGACTTAGGCCAGCAGTTTTATAGCCAATTACTGGG
1 CGACTTAGGCCAGCAGCATTATAGCCAATTACTGGG
** * *
84567 CGACTTAGGCCAGTGGCATTATAGCCAAATATTGGG
1 CGACTTAGGCCAGCAGCATTATAGCCAATTACTGGG
* * *
84603 CGACTAAGGCCAAC-GACATTATAGCCAATTACAGGG
1 CGACTTAGGCCAGCAG-CATTATAGCCAATTACTGGG
* * * * *
84639 CAACTAAGGCCAGCAGCATTATAGCCAAGTATTAGG
1 CGACTTAGGCCAGCAGCATTATAGCCAATTACTGGG
* * *
84675 TGACTTAGGCCATCGGCATTATAGCCAA
1 CGACTTAGGCCAGCAGCATTATAGCCAA
84703 AGACAGAGCA
Statistics
Matches: 111, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
35 1 0.01
36 109 0.98
37 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.23
Consensus pattern (36 bp):
CGACTTAGGCCAGCAGCATTATAGCCAATTACTGGG
Found at i:84600 original size:72 final size:71
Alignment explanation
Indices: 84549--84702 Score: 200
Period size: 72 Copynumber: 2.1 Consensus size: 71
84539 GCCAGCAGTT
* * * ** *
84549 TTATAGCCAATTACTGGGCGACTTAGGCCAGTGGCATTATAGCCAAATATTGGGCGACTAAGGCC
1 TTATAGCCAATTACAGGGCAACTAAGGCCAGCAGCATTATAGCCAAATATT-GGCGACTTAGGCC
84614 AACGACA
65 AACGACA
* *
84621 TTATAGCCAATTACAGGGCAACTAAGGCCAGCAGCATTATAGCCAAGTATTAGGTGACTTAGGCC
1 TTATAGCCAATTACAGGGCAACTAAGGCCAGCAGCATTATAGCCAAATATT-GGCGACTTAGGCC
* *
84686 ATCGGCA
65 AACGACA
84693 TTATAGCCAA
1 TTATAGCCAA
84703 AGACAGAGCA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (71 bp):
TTATAGCCAATTACAGGGCAACTAAGGCCAGCAGCATTATAGCCAAATATTGGCGACTTAGGCCA
ACGACA
Found at i:84986 original size:32 final size:31
Alignment explanation
Indices: 84940--85028 Score: 133
Period size: 32 Copynumber: 2.8 Consensus size: 31
84930 AATAGTTTGC
*
84940 CAACACCATGTGGAAGATGGTGTACTTCTTGA
1 CAACACCATATGGAAGA-GGTGTACTTCTTGA
84972 CAACACCATATGGAAGAGGGTGTACTTCTTGA
1 CAACACCATATGGAAGA-GGTGTACTTCTTGA
*
85004 TAACACCATATGGAAGAGGATGTAC
1 CAACACCATATGGAAGAGG-TGTAC
85029 CCTTCGACAT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
31 2 0.04
32 51 0.96
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (31 bp):
CAACACCATATGGAAGAGGTGTACTTCTTGA
Found at i:85139 original size:44 final size:44
Alignment explanation
Indices: 85029--85271 Score: 267
Period size: 44 Copynumber: 5.5 Consensus size: 44
85019 GAGGATGTAC
* * * * *
85029 CCTTCGACATTGGAAG-GAGGTGATAG-TTCGCCAACATCATATA
1 CCTTTGACATTGAAAGAG-GGTGATAGTTTCGCGAACACCATATG
* ** * * **
85072 CTTTTGACATTGGAAA-AATGTGATAATTTCACGAACACTGTATG
1 CCTTTGACATT-GAAAGAGGGTGATAGTTTCGCGAACACCATATG
* * *
85116 TCTTTGACATTGAAAGAGCGTGATAGTTTCGCAAACACCATATG
1 CCTTTGACATTGAAAGAGGGTGATAGTTTCGCGAACACCATATG
* *
85160 CTTTTGACATTGAAAGAGGGTAATAGTTTCGCGAACACCATATG
1 CCTTTGACATTGAAAGAGGGTGATAGTTTCGCGAACACCATATG
* *
85204 CCTTTGACATTGAAAGAGGCTAATAGTTTCGCGAACACCATATG
1 CCTTTGACATTGAAAGAGGGTGATAGTTTCGCGAACACCATATG
*
85248 CCTTTGACATTGGAAGAGGGTGAT
1 CCTTTGACATTGAAAGAGGGTGAT
85272 GATCGCCAAT
Statistics
Matches: 165, Mismatches: 31, Indels: 7
0.81 0.15 0.03
Matches are distributed among these distances:
43 19 0.12
44 146 0.88
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (44 bp):
CCTTTGACATTGAAAGAGGGTGATAGTTTCGCGAACACCATATG
Found at i:85658 original size:37 final size:37
Alignment explanation
Indices: 85621--85789 Score: 191
Period size: 37 Copynumber: 4.6 Consensus size: 37
85611 GTACAACCTT
* * *
85621 TTTTAAGCTACATAGGTTGTAGGCGTTGTAATCCCT-
1 TTTTAAGCTGCATAGGCTGTAGGCGTTGTAAGCCCTC
* * *
85657 TTTTAAGCTGCATAGGCTCTAGTCGTTGTACGCCCTC
1 TTTTAAGCTGCATAGGCTGTAGGCGTTGTAAGCCCTC
* * *
85694 TTTTGAGCTGCATAGGCTATAGGCGTTGTAAGCTCTC
1 TTTTAAGCTGCATAGGCTGTAGGCGTTGTAAGCCCTC
* * *
85731 TTTTAAGTTGTATAGACTGTAGGCGTTGTAAG-CC-C
1 TTTTAAGCTGCATAGGCTGTAGGCGTTGTAAGCCCTC
* *
85766 GTTTAAGCTGCATAGGCTATAGGC
1 TTTTAAGCTGCATAGGCTGTAGGC
85790 ATCAACAAGG
Statistics
Matches: 110, Mismatches: 22, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
35 20 0.18
36 31 0.28
37 59 0.54
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.36
Consensus pattern (37 bp):
TTTTAAGCTGCATAGGCTGTAGGCGTTGTAAGCCCTC
Found at i:85708 original size:73 final size:73
Alignment explanation
Indices: 85603--85789 Score: 207
Period size: 73 Copynumber: 2.6 Consensus size: 73
85593 TTAAGCTACA
* * * * * *
85603 TAGTCGTTGTACAACCTTTTTTAAGCTACATAGGTTGTAGGCGTTGTAATCCCT-TTTTAAGCTG
1 TAGTCGTTGTAC-GCCTCTTTTAAGCTGCATAGGCTATAGGCGTTGTAAGCCCTCTTTTAAGCTG
*
85667 CATAGGCTC
65 CATAGACTC
* * *
85676 TAGTCGTTGTACGCCCTCTTTTGAGCTGCATAGGCTATAGGCGTTGTAAGCTCTCTTTTAAGTTG
1 TAGTCGTTGTACG-CCTCTTTTAAGCTGCATAGGCTATAGGCGTTGTAAGCCCTCTTTTAAGCTG
* *
85741 TATAGACTG
65 CATAGACTC
* * *
85750 TAGGCGTTGTAAGCC-CGTTTAAGCTGCATAGGCTATAGGC
1 TAGTCGTTGTACGCCTCTTTTAAGCTGCATAGGCTATAGGC
85790 ATCAACAAGG
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
72 23 0.24
73 47 0.49
74 26 0.27
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (73 bp):
TAGTCGTTGTACGCCTCTTTTAAGCTGCATAGGCTATAGGCGTTGTAAGCCCTCTTTTAAGCTGC
ATAGACTC
Found at i:85965 original size:75 final size:74
Alignment explanation
Indices: 85881--86106 Score: 344
Period size: 75 Copynumber: 3.0 Consensus size: 74
85871 TATAAATTTT
* *
85881 TTTTAATGGGCTACATAGGCCAGAAGCATCAGCAAGGAAGGCCACTTATGGTTATGATCCTTGCT
1 TTTTAATGGGCTACATAGGCCAGAAGCATCAACAAGGAAGG-CACTTATGGCTATGATCCTTGCT
*
85946 GAGTATAGAA
65 GAGTATGGAA
* * * *
85956 TTTTGATGGGCTACATAGGACAGAAGCATCAACAAGGAAAGACACTTATGGCTATAATCCTTGCT
1 TTTTAATGGGCTACATAGGCCAGAAGCATCAACAAGG-AAGGCACTTATGGCTATGATCCTTGCT
*
86021 GAGTTTGGAA
65 GAGTATGGAA
*
86031 TTTTAATGGGCTACATAGGCCAGAAGCATCAACAAGGAAAGGCACTTATGGCTACGATCCTTGCT
1 TTTTAATGGGCTACATAGGCCAGAAGCATCAACAAGG-AAGGCACTTATGGCTATGATCCTTGCT
86096 GAGTATGGAA
65 GAGTATGGAA
86106 T
1 T
86107 CTTGATGTCA
Statistics
Matches: 136, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
75 133 0.98
76 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (74 bp):
TTTTAATGGGCTACATAGGCCAGAAGCATCAACAAGGAAGGCACTTATGGCTATGATCCTTGCTG
AGTATGGAA
Found at i:87624 original size:29 final size:29
Alignment explanation
Indices: 87565--87626 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
87555 CTTTTGTTGG
* *
87565 AAACAAAATTGTTTAATTTTTTGGCTGAA
1 AAACAAAATTGTTTAATTTTTTGACTCAA
87594 AAACAAAATTGTTT-ATTTATTTGTAC-CAA
1 AAACAAAATTGTTTAATTT-TTTG-ACTCAA
87623 AAAC
1 AAAC
87627 TTGTTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 4 0.14
29 24 0.83
30 1 0.03
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.39
Consensus pattern (29 bp):
AAACAAAATTGTTTAATTTTTTGACTCAA
Done.