Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01010520.1 Corchorus capsularis cultivar CVL-1 contig10541, 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: 205443
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Found at i:18971 original size:3 final size:3
Alignment explanation
Indices: 18965--19076 Score: 52
Period size: 3 Copynumber: 37.3 Consensus size: 3
18955 AGGAGGAAAT
* * * * *
18965 TGC TGC TGC TGC TG- TGGT TGT TGT TGC TGC TGC TGC TG- TGGT TGT
1 TGC TGC TGC TGC TGC T-GC TGC TGC TGC TGC TGC TGC TGC T-GC TGC
* * * *
19010 TGC TGC TGC TGC TG- TGGT TGT TGT TGT TGC TGC TGC TGC TGC TG-
1 TGC TGC TGC TGC TGC T-GC TGC TGC TGC TGC TGC TGC TGC TGC TGC
* * *
19054 TGGT TGT TGT TGC TGC TGC TGC T
1 T-GC TGC TGC TGC TGC TGC TGC T
19077 CAAGTGGTGG
Statistics
Matches: 97, Mismatches: 4, Indels: 16
0.83 0.03 0.14
Matches are distributed among these distances:
2 4 0.04
3 89 0.92
4 4 0.04
ACGTcount: A:0.00, C:0.19, G:0.37, T:0.45
Consensus pattern (3 bp):
TGC
Found at i:19059 original size:21 final size:21
Alignment explanation
Indices: 18964--19044 Score: 117
Period size: 21 Copynumber: 3.7 Consensus size: 21
18954 TAGGAGGAAA
18964 TTGCTGCTGCTGCTGTGGTTGTTG
1 TTGCTGCTGCTGCTGT-G--GTTG
18988 TTGCTGCTGCTGCTGTGGTTG
1 TTGCTGCTGCTGCTGTGGTTG
19009 TTGCTGCTGCTGCTGTGGTTG
1 TTGCTGCTGCTGCTGTGGTTG
* *
19030 TTGTTGTTGCTGCTG
1 TTGCTGCTGCTGCTG
19045 CTGCTGCTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
21 38 0.69
23 1 0.02
24 16 0.29
ACGTcount: A:0.00, C:0.17, G:0.37, T:0.46
Consensus pattern (21 bp):
TTGCTGCTGCTGCTGTGGTTG
Found at i:19084 original size:27 final size:24
Alignment explanation
Indices: 18964--19076 Score: 165
Period size: 24 Copynumber: 4.6 Consensus size: 24
18954 TAGGAGGAAA
18964 TTGCTGCTGCTGCTGTGGTTGTTG
1 TTGCTGCTGCTGCTGTGGTTGTTG
18988 TTGCTGCTGCTGCTGTGGTTGTTG
1 TTGCTGCTGCTGCTGTGGTTGTTG
*
19012 CTGCTGCTGCTG-TGGTTGTTGTTGTTG
1 TTGCTGCTGCTGCT-G-TG--GTTGTTG
*
19039 CTGCTGCTGCTGCTGTGGTTGTTG
1 TTGCTGCTGCTGCTGTGGTTGTTG
19063 TTGCTGCTGCTGCT
1 TTGCTGCTGCTGCT
19077 CAAGTGGTGG
Statistics
Matches: 82, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
23 1 0.01
24 56 0.68
25 2 0.02
26 2 0.02
27 20 0.24
28 1 0.01
ACGTcount: A:0.00, C:0.19, G:0.36, T:0.45
Consensus pattern (24 bp):
TTGCTGCTGCTGCTGTGGTTGTTG
Found at i:19087 original size:30 final size:27
Alignment explanation
Indices: 18965--19076 Score: 141
Period size: 27 Copynumber: 4.4 Consensus size: 27
18955 AGGAGGAAAT
18965 TGCTGCTGCTGCT-GTGGTTGTTGTTGC
1 TGCTGCTGCTG-TGGTGGTTGTTGTTGC
18992 TGCTGCTGC--T-GT-G--GTTGTTGC
1 TGCTGCTGCTGTGGTGGTTGTTGTTGC
*
19013 TGCTGCTGCTGTGGTTGTTGTTGTTGC
1 TGCTGCTGCTGTGGTGGTTGTTGTTGC
19040 TGCTGCTGCTGCT-GTGGTTGTTGTTGC
1 TGCTGCTGCTG-TGGTGGTTGTTGTTGC
19067 TGCTGCTGCT
1 TGCTGCTGCT
19077 CAAGTGGTGG
Statistics
Matches: 77, Mismatches: 1, Indels: 14
0.84 0.01 0.15
Matches are distributed among these distances:
21 17 0.22
23 2 0.03
24 5 0.06
25 1 0.01
27 51 0.66
28 1 0.01
ACGTcount: A:0.00, C:0.19, G:0.37, T:0.45
Consensus pattern (27 bp):
TGCTGCTGCTGTGGTGGTTGTTGTTGC
Found at i:21640 original size:12 final size:12
Alignment explanation
Indices: 21623--21648 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21613 AGACGCTATT
21623 TGCTGCTGTTGC
1 TGCTGCTGTTGC
21635 TGCTGCTGTTGC
1 TGCTGCTGTTGC
21647 TG
1 TG
21649 TTGTACCGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.23, G:0.35, T:0.42
Consensus pattern (12 bp):
TGCTGCTGTTGC
Found at i:30985 original size:13 final size:13
Alignment explanation
Indices: 30969--31008 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
30959 TTACTCCTTA
30969 TTATTATTATTTT
1 TTATTATTATTTT
*
30982 TTATTATTATTAT
1 TTATTATTATTTT
*
30995 ATATTA-TATTTT
1 TTATTATTATTTT
31007 TT
1 TT
31009 GACCACGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTATTATTTT
Found at i:31001 original size:16 final size:16
Alignment explanation
Indices: 30966--31001 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
30956 CTATTACTCC
* *
30966 TTATTATTATTATTTT
1 TTATTATTATTATATA
30982 TTATTATTATTATATA
1 TTATTATTATTATATA
30998 TTAT
1 TTAT
31002 ATTTTTTGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTATTATTATATA
Found at i:42810 original size:21 final size:21
Alignment explanation
Indices: 42785--42827 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
42775 TAGATGTTGA
42785 TGATGAATTGATGATTATTCT
1 TGATGAATTGATGATTATTCT
42806 TGATGAATTGATGATTATTCT
1 TGATGAATTGATGATTATTCT
42827 T
1 T
42828 TTCTTTATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.05, G:0.19, T:0.49
Consensus pattern (21 bp):
TGATGAATTGATGATTATTCT
Found at i:51010 original size:14 final size:13
Alignment explanation
Indices: 50985--51014 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
50975 CAACCCATTG
50985 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
50998 TTTTCTCTTTTCTT
1 TTTTCT-TTTTCTT
51012 TTT
1 TTT
51015 CCATTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTTTTTCTT
Found at i:54605 original size:21 final size:21
Alignment explanation
Indices: 54579--54621 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
54569 GCTTGCATTT
54579 CATCTATTTCATCTTTAAAAA
1 CATCTATTTCATCTTTAAAAA
54600 CATCTATTTCATCTTTAAAAA
1 CATCTATTTCATCTTTAAAAA
54621 C
1 C
54622 TAGGGTTCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (21 bp):
CATCTATTTCATCTTTAAAAA
Found at i:66377 original size:1 final size:1
Alignment explanation
Indices: 66371--66409 Score: 78
Period size: 1 Copynumber: 39.0 Consensus size: 1
66361 TATTTATGTT
66371 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
66410 CTACTTGTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:67351 original size:12 final size:13
Alignment explanation
Indices: 67329--67357 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
67319 TATTGAGAGA
67329 TCAATTCTCAATC
1 TCAATTCTCAATC
67342 TCAA-TCTCAATC
1 TCAATTCTCAATC
67354 TCAA
1 TCAA
67358 CATCATTGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (13 bp):
TCAATTCTCAATC
Found at i:71543 original size:74 final size:74
Alignment explanation
Indices: 71465--71621 Score: 237
Period size: 74 Copynumber: 2.1 Consensus size: 74
71455 TGGTCTTTTC
* *
71465 ACACTTTTCAGG-TGACTAAAAAGGCCCTCTATGAGTTTC-CCCTATTCCTTTTCCTTCTACCCT
1 ACACTTTTC-GGATGACTAAAAAGCCCCTCTATGAGTTTCTCCC-ATTCCTTTTCCTTCTACCAT
71528 TTTTCGTAATT
64 TTTTCGTAATT
* *
71539 ACACTTTTCGGATGACTAAAAATCCCCTCTATGAGTTTCTCCCATTCCTTTTGCTTCTACCATTT
1 ACACTTTTCGGATGACTAAAAAGCCCCTCTATGAGTTTCTCCCATTCCTTTTCCTTCTACCATTT
71604 TTCGTAATT
66 TTCGTAATT
*
71613 ACACATTTC
1 ACACTTTTC
71622 CCCTCCTTAA
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
73 2 0.03
74 71 0.93
75 3 0.04
ACGTcount: A:0.22, C:0.28, G:0.10, T:0.41
Consensus pattern (74 bp):
ACACTTTTCGGATGACTAAAAAGCCCCTCTATGAGTTTCTCCCATTCCTTTTCCTTCTACCATTT
TTCGTAATT
Found at i:73757 original size:28 final size:29
Alignment explanation
Indices: 73725--73786 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
73715 ACTTGTAATG
* * *
73725 TTTGGACGTTTTGCCC-CTGAACTTCAAT
1 TTTGGACATTTTACCCTCTAAACTTCAAT
73753 TTTGGACATTTTACCCTCTAAACTTCAAT
1 TTTGGACATTTTACCCTCTAAACTTCAAT
73782 TTTGG
1 TTTGG
73787 GATATTCAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 14 0.47
29 16 0.53
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (29 bp):
TTTGGACATTTTACCCTCTAAACTTCAAT
Found at i:75196 original size:45 final size:45
Alignment explanation
Indices: 75125--75210 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
75115 AGAACCTGTA
* *
75125 GAATCAGATGAAGTTTTGGAGGCGGCGATGGAAGAAAGCGCCGAG
1 GAATCAGATGAAGATTTGGAGACGGCGATGGAAGAAAGCGCCGAG
* *
75170 GAATTAGATGAAGATTTGGAGACGGCGGTGGAAGAAAGCGC
1 GAATCAGATGAAGATTTGGAGACGGCGATGGAAGAAAGCGC
75211 GCCAAAACCT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.33, C:0.12, G:0.40, T:0.16
Consensus pattern (45 bp):
GAATCAGATGAAGATTTGGAGACGGCGATGGAAGAAAGCGCCGAG
Found at i:100492 original size:1 final size:1
Alignment explanation
Indices: 100486--100513 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
100476 CTTTAGAATT
100486 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
100514 GTAACGAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:105120 original size:14 final size:14
Alignment explanation
Indices: 105101--105130 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
105091 TGACCAAAAT
105101 TGTTCTTCTGAATA
1 TGTTCTTCTGAATA
*
105115 TGTTCTTCTTAATA
1 TGTTCTTCTGAATA
105129 TG
1 TG
105131 AATCAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (14 bp):
TGTTCTTCTGAATA
Found at i:111958 original size:42 final size:42
Alignment explanation
Indices: 111899--111982 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
111889 CCCCCTGCTA
111899 CTCCAGATCTAAAAACCACATTCATAGCATTCAGAATTTCTT
1 CTCCAGATCTAAAAACCACATTCATAGCATTCAGAATTTCTT
*
111941 CTCCAGATCTTAAAACCACATTCATAGCATTCAGAATTTCTT
1 CTCCAGATCTAAAAACCACATTCATAGCATTCAGAATTTCTT
111983 TTCTAGAATC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (42 bp):
CTCCAGATCTAAAAACCACATTCATAGCATTCAGAATTTCTT
Found at i:116584 original size:24 final size:25
Alignment explanation
Indices: 116547--116594 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
116537 ACTCAGCTTA
116547 TATATATATATAA-TATAATAATAAT
1 TATATATATATAATTA-AATAATAAT
116572 TATATA-ATATAATTAAATAATAA
1 TATATATATATAATTAAATAATAA
116595 CTAGTAAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
TATATATATATAATTAAATAATAAT
Found at i:116585 original size:13 final size:13
Alignment explanation
Indices: 116544--116593 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
116534 CCAACTCAGC
116544 TTATAT-ATATATA
1 TTATATAATATA-A
*
116557 TAATATAATAATAA
1 TTATATAAT-ATAA
116571 TTATATAATATAA
1 TTATATAATATAA
*
116584 TTAAATAATA
1 TTATATAATA
116594 ACTAGTAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 18 0.56
14 11 0.34
15 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTATATAATATAA
Found at i:116779 original size:15 final size:16
Alignment explanation
Indices: 116759--116789 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
116749 TAGTGTACAG
116759 TGGAAT-AAAATTAAA
1 TGGAATAAAAATTAAA
116774 TGGAATAAAAATTAAA
1 TGGAATAAAAATTAAA
116790 CCAAAGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.26
Consensus pattern (16 bp):
TGGAATAAAAATTAAA
Found at i:118308 original size:22 final size:22
Alignment explanation
Indices: 118266--118308 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
118256 TTGGCATTGG
* *
118266 ATTAGAATACAAAAGGAAAAAC
1 ATTAAAATACAAAAGAAAAAAC
118288 ATTAAAATA-AAAAGAAGAAAA
1 ATTAAAATACAAAAGAA-AAAA
118309 TAGTGGTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.70, C:0.05, G:0.12, T:0.14
Consensus pattern (22 bp):
ATTAAAATACAAAAGAAAAAAC
Found at i:118552 original size:17 final size:19
Alignment explanation
Indices: 118525--118560 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
118515 AAAATACATT
118525 ATTAGAAAAATAA-TCAAA
1 ATTAGAAAAATAATTCAAA
118543 ATTA-AAAAATAATTCAAA
1 ATTAGAAAAATAATTCAAA
118561 TACAAAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.25
Consensus pattern (19 bp):
ATTAGAAAAATAATTCAAA
Found at i:126390 original size:2 final size:2
Alignment explanation
Indices: 126383--126418 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
126373 ATTTACATTG
126383 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
126419 AATTTAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:163971 original size:43 final size:43
Alignment explanation
Indices: 163924--164069 Score: 107
Period size: 43 Copynumber: 3.1 Consensus size: 43
163914 ACTCACTCCT
163924 CTAAATCGAGATTATTTAATTAAGTTCAATATTCCTTAATCTA
1 CTAAATCGAGATTATTTAATTAAGTTCAATATTCCTTAATCTA
* * * * * *
163967 CTAAATACTAAACCACTCTATATATATTAAAAGTTTGCAA-ATTAACTCACTCCT-
1 CTAAAT-C--GA-GA-T-TATTTA-ATT--AAG-TT-CAATATT-CCTTAAT-CTA
164021 CTAAATCGAGATTATTTAATTAAGTTCAATATTCCTTAATCTA
1 CTAAATCGAGATTATTTAATTAAGTTCAATATTCCTTAATCTA
164064 CTAAAT
1 CTAAAT
164070 ACTAAACGAC
Statistics
Matches: 76, Mismatches: 12, Indels: 30
0.64 0.10 0.25
Matches are distributed among these distances:
42 2 0.03
43 19 0.25
44 6 0.08
45 3 0.04
46 1 0.01
47 4 0.05
48 6 0.08
49 6 0.08
50 4 0.05
51 1 0.01
52 3 0.04
53 6 0.08
54 13 0.17
55 2 0.03
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.38
Consensus pattern (43 bp):
CTAAATCGAGATTATTTAATTAAGTTCAATATTCCTTAATCTA
Found at i:163993 original size:97 final size:97
Alignment explanation
Indices: 163883--164076 Score: 388
Period size: 97 Copynumber: 2.0 Consensus size: 97
163873 AAATATATAA
163883 CACTCTATATATATTAAAAGTTTGCAAATTAACTCACTCCTCTAAATCGAGATTATTTAATTAAG
1 CACTCTATATATATTAAAAGTTTGCAAATTAACTCACTCCTCTAAATCGAGATTATTTAATTAAG
163948 TTCAATATTCCTTAATCTACTAAATACTAAAC
66 TTCAATATTCCTTAATCTACTAAATACTAAAC
163980 CACTCTATATATATTAAAAGTTTGCAAATTAACTCACTCCTCTAAATCGAGATTATTTAATTAAG
1 CACTCTATATATATTAAAAGTTTGCAAATTAACTCACTCCTCTAAATCGAGATTATTTAATTAAG
164045 TTCAATATTCCTTAATCTACTAAATACTAAAC
66 TTCAATATTCCTTAATCTACTAAATACTAAAC
164077 GACTTTCATG
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (97 bp):
CACTCTATATATATTAAAAGTTTGCAAATTAACTCACTCCTCTAAATCGAGATTATTTAATTAAG
TTCAATATTCCTTAATCTACTAAATACTAAAC
Found at i:164684 original size:2 final size:2
Alignment explanation
Indices: 164677--164714 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
164667 GCTTGTAGGA
164677 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
164715 GTCGTCCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:171402 original size:8 final size:8
Alignment explanation
Indices: 171389--171414 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
171379 GAGAATTCGG
171389 TTAAGTTC
1 TTAAGTTC
171397 TTAAGTTC
1 TTAAGTTC
171405 TTAAGTTC
1 TTAAGTTC
171413 TT
1 TT
171415 TATGTTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.54
Consensus pattern (8 bp):
TTAAGTTC
Found at i:183473 original size:1 final size:1
Alignment explanation
Indices: 183467--183509 Score: 86
Period size: 1 Copynumber: 43.0 Consensus size: 1
183457 TTCAAAGATG
183467 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
183510 AAAGCCAATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:186866 original size:1 final size:1
Alignment explanation
Indices: 186856--186885 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
186846 TGTGTATGTG
*
186856 TTTTTGTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
186886 GCTTGCCTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Found at i:198781 original size:79 final size:79
Alignment explanation
Indices: 198650--198808 Score: 284
Period size: 79 Copynumber: 2.0 Consensus size: 79
198640 TGTGTTCCTC
*
198650 GGAATTGAATTTGCTAATCTTCAAATTAGACTTTAGATTTAGCATAGAGAATCTAACCAAAGGCC
1 GGAATTGAATTTGCTAATCTTCAAATTAGACTTTAGATTTAGCATAGAGAATCTAACCAAAGACC
198715 TTTCCATGAATCCA
66 TTTCCATGAATCCA
*
198729 GGAATTGAATTTGCTAATCTTCAAGTTAGACTTT-GAATTTAGCATAGAGAATCTAACCAAAGAC
1 GGAATTGAATTTGCTAATCTTCAAATTAGACTTTAG-ATTTAGCATAGAGAATCTAACCAAAGAC
198793 CTTTCCATGAATCCA
65 CTTTCCATGAATCCA
198808 G
1 G
198809 ATATTCCCTC
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
78 1 0.01
79 76 0.99
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (79 bp):
GGAATTGAATTTGCTAATCTTCAAATTAGACTTTAGATTTAGCATAGAGAATCTAACCAAAGACC
TTTCCATGAATCCA
Found at i:200336 original size:22 final size:22
Alignment explanation
Indices: 200311--200937 Score: 236
Period size: 22 Copynumber: 29.0 Consensus size: 22
200301 ATAATCCCAT
200311 TATGAAATTTTGATAACCTTCC
1 TATGAAATTTTGATAACCTTCC
** *** *
200333 TATGAAATTTCAATAATGATAC
1 TATGAAATTTTGATAACCTTCC
* * **
200355 TATGGAATTTTGAGAACCTTTT
1 TATGAAATTTTGATAACCTTCC
* * *
200377 TAT-AATTTTTTCA-AACCTTCT
1 TATGAA-ATTTTGATAACCTTCC
* *
200398 TATGAAATTTTGTTAACCTCCC
1 TATGAAATTTTGATAACCTTCC
* * *
200420 TAAGGAATTTTGA-AGACC-TCAG
1 TATGAAATTTTGATA-ACCTTC-C
200442 TATGAAATTTTGATAA-CTTCCC
1 TATGAAATTTTGATAACCTT-CC
* *
200464 AATGAAATTTTGATAA-CTAACAC
1 TATGAAATTTTGATAACCT-TC-C
* *
200487 TATGAGATATTGATAACC-TCC
1 TATGAAATTTTGATAACCTTCC
* * * *
200508 ATATGATATATTGATAACC-ACGT
1 -TATGAAATTTTGATAACCTTC-C
* *
200531 TATGAAAATTT-AAAGACC-TCC
1 TATGAAATTTTGATA-ACCTTCC
* * *
200552 ATATG-AATTGTT-AGTAATCATAC
1 -TATGAAATT-TTGA-TAACCTTCC
* * *
200575 TCTGAAATTTTGATAATC-ACAC
1 TATGAAATTTTGATAACCTTC-C
*
200597 TATGAAATTTTAATAACC-TCGC
1 TATGAAATTTTGATAACCTTC-C
*
200619 TATGAAATTTTGATAAATCTTCC
1 TATGAAATTTTGAT-AACCTTCC
* *
200642 TATAAAATTTTGATAAACCTCCC
1 TATGAAATTTTGAT-AACCTTCC
* * *
200665 TATAAAATTTTGATAACTTTCT
1 TATGAAATTTTGATAACCTTCC
*
200687 TATGAAATCTTGATAA-----C
1 TATGAAATTTTGATAACCTTCC
* *
200704 TA-CAAATTTTGATAACCTCCC
1 TATGAAATTTTGATAACCTTCC
** *
200725 TATGATTTTTTGATAACC-TCAT
1 TATGAAATTTTGATAACCTTC-C
* * *
200747 TATGAAATTTTGTTAATCTCCC
1 TATGAAATTTTGATAACCTTCC
*** * *
200769 TATGAAATTTTGATCTGCATAC
1 TATGAAATTTTGATAACCTTCC
* *
200791 TATGAAATTTTGATAACCCTCT
1 TATGAAATTTTGATAACCTTCC
* **
200813 TATGAAATTTTGA-AAACTAAAC
1 TATGAAATTTTGATAACCT-TCC
* *
200835 TATAAAATTTTGATATCC-TCC
1 TATGAAATTTTGATAACCTTCC
* *
200856 -CTGAAATTTTGAT-ATCTTCC
1 TATGAAATTTTGATAACCTTCC
* *
200876 ATAAT-AAAATTTAATAACCTT-C
1 -T-ATGAAATTTTGATAACCTTCC
* * *
200898 T-T--AA-TTTGCTAACCATAC
1 TATGAAATTTTGATAACCTTCC
200916 TATGAAATTTTGATAACCTTCC
1 TATGAAATTTTGATAACCTTCC
200938 CAGAAATATC
Statistics
Matches: 442, Mismatches: 120, Indels: 86
0.68 0.19 0.13
Matches are distributed among these distances:
16 11 0.02
17 11 0.02
18 4 0.01
19 3 0.01
20 14 0.03
21 35 0.08
22 291 0.66
23 70 0.16
24 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (22 bp):
TATGAAATTTTGATAACCTTCC
Found at i:200649 original size:23 final size:23
Alignment explanation
Indices: 200618--200702 Score: 100
Period size: 23 Copynumber: 3.7 Consensus size: 23
200608 AATAACCTCG
*
200618 CTATGAAATTTTGATAAATCTTC
1 CTATAAAATTTTGATAAATCTTC
* *
200641 CTATAAAATTTTGATAAACCTCC
1 CTATAAAATTTTGATAAATCTTC
*
200664 CTATAAAATTTTGATAACT-TTC
1 CTATAAAATTTTGATAAATCTTC
* * *
200686 TTATGAAATCTTGATAA
1 CTATAAAATTTTGATAA
200703 CTACAAATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
22 16 0.30
23 37 0.70
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (23 bp):
CTATAAAATTTTGATAAATCTTC
Found at i:201026 original size:22 final size:22
Alignment explanation
Indices: 200976--201140 Score: 90
Period size: 22 Copynumber: 7.6 Consensus size: 22
200966 TCACATTCTG
*
200976 AAAA-TTTGATAACCTCTTTCT
1 AAAATTTTGATAACCTCTTTAT
*
200997 TAAATTTTGATAACCTCTTTAT
1 AAAATTTTGATAACCTCTTTAT
* *
201019 AAAATTTTGTTGATCC-CTTTAT
1 AAAATTTTGAT-AACCTCTTTAT
* * * *
201041 AAAATTCTGATAATCACATTAT
1 AAAATTTTGATAACCTCTTTAT
** * *
201063 GTAATTTTGATAACATCGCTT-T
1 AAAATTTTGATAACCTC-TTTAT
** ** *
201085 GGAATTTTGATAACAACATTAT
1 AAAATTTTGATAACCTCTTTAT
*
201107 GAAATTTTGATAA--TCTTCCTAT
1 AAAATTTTGATAACCTCTT--TAT
201129 -AAATTTTGATAA
1 AAAATTTTGATAA
201141 TCTGATCTCT
Statistics
Matches: 114, Mismatches: 23, Indels: 14
0.75 0.15 0.09
Matches are distributed among these distances:
20 2 0.02
21 19 0.17
22 88 0.77
23 5 0.04
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (22 bp):
AAAATTTTGATAACCTCTTTAT
Found at i:201158 original size:25 final size:22
Alignment explanation
Indices: 201104--201203 Score: 82
Period size: 21 Copynumber: 4.5 Consensus size: 22
201094 ATAACAACAT
201104 TATGAAATTTTGATAATCTTCC
1 TATGAAATTTTGATAATCTTCC
201126 TAT-AAATTTTGATAATCTGATCTC
1 TATGAAATTTTGATAATCT--TC-C
* * *
201150 TATGGAATTTCGATAAT-TACTC
1 TATGAAATTTTGATAATCTTC-C
* *
201172 TATGAGA-TTTGATAACCTT-C
1 TATGAAATTTTGATAATCTTCC
*
201192 TATCAAATTTTG
1 TATGAAATTTTG
201204 GTACTCCTTA
Statistics
Matches: 62, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
20 6 0.10
21 26 0.42
22 12 0.19
23 2 0.03
24 5 0.08
25 11 0.18
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (22 bp):
TATGAAATTTTGATAATCTTCC
Found at i:201255 original size:22 final size:20
Alignment explanation
Indices: 201226--201561 Score: 119
Period size: 22 Copynumber: 15.5 Consensus size: 20
201216 AAATTAAGAC
*
201226 TTTTATAACCTTCATATGAAA
1 TTTTATAACC-TCCTATGAAA
*
201247 TTTTGATAACCTCCCCATGAAA
1 TTTT-ATAACCT-CCTATGAAA
*
201269 TATTAGTAACCTCCTAATGAAA
1 TTTTA-TAACCTCCT-ATGAAA
* *
201291 TTTTGTTAACCACACTATGAAA
1 TTTT-ATAACCTC-CTATGAAA
*
201313 TTCTTATAACCTCGCTATGACA
1 TT-TTATAACCTC-CTATGAAA
* *
201335 TTTTGATAATCT-CTTTGATAA
1 TTTT-ATAACCTCCTATGA-AA
* * *
201356 CCTTTCTATAA-AT-TTGTGAAA
1 --TTT-TATAACCTCCTATGAAA
* *
201377 --AT-TAACCACCCTATGAAA
1 TTTTATAACC-TCCTATGAAA
*
201395 TTTTAATAACCAACCTAAT-AAA
1 TTTT-ATAACC-TCCT-ATGAAA
201417 TTTTAATAACCTGATCCTATGAAA
1 TTTT-ATAACC---TCCTATGAAA
* *
201441 TTTTGGTAACCACACTATGAAA
1 TTTT-ATAACCTC-CTATGAAA
**
201463 TTTTGATAAGTTCCATATGAAA
1 TTTT-ATAACCTCC-TATGAAA
* * *
201485 TTTTGGTAACCACGCTATGGAA
1 TTTT-ATAACCTC-CTATGAAA
201507 TTTTGATAACCTCCTTATGAAA
1 TTTT-ATAACCTCC-TATGAAA
* *
201529 TTATAATAACCATCTTATGAAA
1 TT-TTATAACC-TCCTATGAAA
201551 TTTTGATAACC
1 TTTT-ATAACC
201562 ACATAGAGAC
Statistics
Matches: 242, Mismatches: 43, Indels: 59
0.70 0.12 0.17
Matches are distributed among these distances:
15 3 0.01
16 1 0.00
18 6 0.02
20 6 0.02
21 17 0.07
22 173 0.71
23 19 0.08
24 17 0.07
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (20 bp):
TTTTATAACCTCCTATGAAA
Found at i:201562 original size:22 final size:22
Alignment explanation
Indices: 201379--201562 Score: 162
Period size: 22 Copynumber: 8.3 Consensus size: 22
201369 TTGTGAAAAT
* *
201379 TAACCACCCTATGAAATTTTAA
1 TAACCATCCTATGAAATTTTGA
* *
201401 TAACCAACCTAAT-AAATTTTAA
1 TAACCATCCT-ATGAAATTTTGA
*
201423 TAACCTGATCCTATGAAATTTTGG
1 TAACC--ATCCTATGAAATTTTGA
201447 TAACCA-CACTATGAAATTTTGA
1 TAACCATC-CTATGAAATTTTGA
** *
201469 TAA-GTTCCATATGAAATTTTGG
1 TAACCATCC-TATGAAATTTTGA
*
201491 TAACCA-CGCTATGGAATTTTGA
1 TAACCATC-CTATGAAATTTTGA
* *
201513 TAACC-TCCTTATGAAATTATAA
1 TAACCATCC-TATGAAATTTTGA
*
201535 TAACCATCTTATGAAATTTTGA
1 TAACCATCCTATGAAATTTTGA
201557 TAACCA
1 TAACCA
201563 CATAGAGACA
Statistics
Matches: 132, Mismatches: 18, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
21 3 0.02
22 106 0.80
23 7 0.05
24 16 0.12
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (22 bp):
TAACCATCCTATGAAATTTTGA
Found at i:201759 original size:19 final size:20
Alignment explanation
Indices: 201728--201765 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
201718 TATTGACATT
201728 TAAAAATTGAAATT-AAAAG
1 TAAAAATTGAAATTCAAAAG
201747 TAAAATATT-AAATTCAAAA
1 TAAAA-ATTGAAATTCAAAA
201766 ACTAATAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (20 bp):
TAAAAATTGAAATTCAAAAG
Found at i:201912 original size:15 final size:15
Alignment explanation
Indices: 201892--201940 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
201882 ATAATCTAAT
201892 ATAATTAATAATGGA
1 ATAATTAATAATGGA
* *
201907 ATAATTTATAAT-TA
1 ATAATTAATAATGGA
201921 A-AA--AATAATGGA
1 ATAATTAATAATGGA
201933 ATAATTAA
1 ATAATTAA
201941 AATATTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
11 5 0.19
12 2 0.08
13 4 0.15
14 2 0.08
15 13 0.50
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (15 bp):
ATAATTAATAATGGA
Found at i:201995 original size:32 final size:32
Alignment explanation
Indices: 201959--202025 Score: 93
Period size: 31 Copynumber: 2.1 Consensus size: 32
201949 TTAGTAATGG
*
201959 CAATTTAGAAATATGTTTTTAAAAA-AGGGGTA
1 CAATTTAGAAATATG-TTTTAAAAATAAGGGTA
*
201991 CAA-TTGGAAATATGTTTTAAAAATAAGGGTA
1 CAATTTAGAAATATGTTTTAAAAATAAGGGTA
202022 CAAT
1 CAAT
202026 CGGAAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 9 0.29
31 19 0.61
32 3 0.10
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.33
Consensus pattern (32 bp):
CAATTTAGAAATATGTTTTAAAAATAAGGGTA
Found at i:202011 original size:30 final size:32
Alignment explanation
Indices: 201966--202031 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 32
201956 TGGCAATTTA
* *
201966 GAAATATGTTTTTAAAAA-AGGGGTACAATTG
1 GAAATATGTTTTTAAAAATAAGGGTACAATCG
201997 GAAATATG-TTTTAAAAATAAGGGTACAATCG
1 GAAATATGTTTTTAAAAATAAGGGTACAATCG
202028 GAAA
1 GAAA
202032 ATATAAAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 9 0.28
31 23 0.72
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (32 bp):
GAAATATGTTTTTAAAAATAAGGGTACAATCG
Found at i:203899 original size:321 final size:322
Alignment explanation
Indices: 203101--205439 Score: 2773
Period size: 324 Copynumber: 7.3 Consensus size: 322
203091 TGATATTAAC
* * * * * *
203101 GTACACAATTTCGGCTAAAAACTTACCTGAAAATTTTTTTTTCTCAATTTTTTGCAACAATATAA
1 GTACACGATTTCGGCTAAAAACTGACCGGAAAA-TTTTTTTTCTCAATTTTTTGCCACAATACAC
* *
203166 ATAAAAAATATATAATTCAACTCCAAAAAGATTGAAGGGTTTTTCACGCTTTTAATATCGTTTTT
65 ATAAAAAATATATAATTCAACTCCAAAAAGATTAAAGGGTTTTTCACGCTTCTAATATCGTTTTT
*
203231 TCAATTTTTTTCCGAATTAATTTCTAATTAAATCGAAATAACATTCAGATGCTCGTAAAAACAAA
130 CCAA-TTTTTTCCGAATTAATTTCTAATTAAATCGAAATAACATTCAGATGCTCGTAAAAACAAA
* * * * *
203296 TCGTTAAATCCAATGTGGGTGGAATTTGGTTCGATGAATATAAATATTTCAAGGAGTCTATACGC
194 TCGTTAAATCCAATGTGGCTGGAATTTTGTTTGATGAATATAGATATTTCAAGGAGTCTTTACGC
* * * * * *
203361 AAAAAATCATGCAAACCTGAGCCGGCGCCCCAAAATGCGTTTTTAGCCCAAAATCGTAATGGTTA
259 CAAAAATCATGCAAAGCTGAGCCGGGGCCCCGAAATGCGTTTTTAGCCCAAAACCGTGATGG-TA
* *
203426 GTACACGATTTCGGCTAAAAACTGACCGGAAAATTTTTTTTCTCAATTTTCTGCCACAATACTCA
1 GTACACGATTTCGGCTAAAAACTGACCGGAAAATTTTTTTTCTCAATTTTTTGCCACAATACACA
* * *
203491 TAAAAAATATATAATTCAACTCCAAAAAGATTAATGGGGTTTTCACGCTTCTAATATCGTGTTTC
66 TAAAAAATATATAATTCAACTCCAAAAAGATTAAAGGGTTTTTCACGCTTCTAATATCGTTTTTC
*
203556 CATTTTTTTCCGAATTAATTTCTAATTAAATCGAAATAACATTCAGATGCTCGTAAAAACAAATC
131 CAATTTTTTCCGAATTAATTTCTAATTAAATCGAAATAACATTCAGATGCTCGTAAAAACAAATC
* * * *
203621 GCTAAATCCAATGTCGCTGGAATTTTGTTTGATGAATATAGATATTTTAAGGAATCTTTACGCCA
196 GTTAAATCCAATGTGGCTGGAATTTTGTTTGATGAATATAGATATTTCAAGGAGTCTTTACGCCA
* * *
203686 AATATTATGCAAAGCTGAGCCGGGGCCCCGAAATGCGTTTTTAGCCCAAAACCGTGATAG-A
261 AAAATCATGCAAAGCTGAGCCGGGGCCCCGAAATGCGTTTTTAGCCCAAAACCGTGATGGTA
* *
203747 GTGCACGATTTCGGCTAAAAATTGACCGGAAAATTTTTTTTCTCAATTTTTTGCCACAATACACA
1 GTACACGATTTCGGCTAAAAACTGACCGGAAAATTTTTTTTCTCAATTTTTTGCCACAATACACA
*
203812 TAAAAAATATATAATTAAACTCCAAAAAGATTAAAGGGTTTTTCACGCTTCTAATATCGTTTTTC
66 TAAAAAATATATAATTCAACTCCAAAAAGATTAAAGGGTTTTTCACGCTTCTAATATCGTTTTTC
* * * * *
203877 CAATTTTTTCCCAATTAATTTCTAATTAAATCGATACAAGATTCAGATGATCGTAAAAACAAATC
131 CAATTTTTTCCGAATTAATTTCTAATTAAATCGAAATAACATTCAGATGCTCGTAAAAACAAATC
* * * *
203942 ATTAAATCCAAAGTGGCTGGAATTTGGTTTCATGAATATAGATATTTCAAGGAGTCTTTACGCCA
196 GTTAAATCCAATGTGGCTGGAATTTTGTTTGATGAATATAGATATTTCAAGGAGTCTTTACGCCA
* * * *
204007 AATATCATGCAAAGCTGAGTCGGGG-CCCGCAATGCGTTTTTAGCCCAAAACCGTGATGGTTG
261 AAAATCATGCAAAGCTGAGCCGGGGCCCCGAAATGCGTTTTTAGCCCAAAACCGTGATGG-TA
* *
204069 GTACACGATTTCGGCTAAAAACTGACC-TAAAATTTTTTTTTCTCAATTTTTTGCCACAATACTC
1 GTACACGATTTCGGCTAAAAACTGACCGGAAAA-TTTTTTTTCTCAATTTTTTGCCACAATACAC
* * *
204133 ATAAAAAATATAAAATTCAACTCTAAAACGATTAAAGGGTTTTTCACGCTTCTAATATCGTTTTT
65 ATAAAAAATATATAATTCAACTCCAAAAAGATTAAAGGGTTTTTCACGCTTCTAATATCGTTTTT
* * * * * * *
204198 CC-AGTTTTTCCCAATTAATTTCTAATTAAATCGATACAAGATTCAGATGATCATAAAAACAAAT
130 CCAATTTTTTCCGAATTAATTTCTAATTAAATCGAAATAACATTCAGATGCTCGTAAAAACAAAT
* *
204262 CGTTAAATCCAATGTGGCTGGAATTTTGGTTTCATGAATATAGATATTTCAAGGACTCTTTACGC
195 CGTTAAATCCAATGTGGCTGGAATTTT-GTTTGATGAATATAGATATTTCAAGGAGTCTTTACGC
* * *
204327 CAAATATCATGCAAAGCTGAGCCGGGACCCCGAAATGCGTTTTTAGCCCAAAACCGTGTTGGTAA
259 CAAAAATCATGCAAAGCTGAGCCGGGGCCCCGAAATGCGTTTTTAGCCCAAAACCGTGATGGT-A
** * * * *
204392 CGTACACGATTTCGGCTAAAAACTGA-CATAAAACTTGTTTTTCTCAATTTTTTGCAACAAAATA
1 -GTACACGATTTCGGCTAAAAACTGACCGGAAAA-TTTTTTTTCTCAATTTTTTGCCACAATACA
* * * *
204456 AATAAAAAATATATAATTCAACTCCAAAAAAATTGAAGGGGTTTTCACGCTT-TAAATATCGTTT
64 CATAAAAAATATATAATTCAACTCCAAAAAGATTAAAGGGTTTTTCACGCTTCT-AATATCGTTT
* *
204520 TTTCATTTTTTTCCGAATTAATTTCTAATTAAATCGAAATAACATTCAGATGCTCGTAAAAACAA
128 TTCCAATTTTTTCCGAATTAATTTCTAATTAAATCGAAATAACATTCAGATGCTCGTAAAAACAA
* * * * * * * *
204585 ATCGTTAAATCCAATGTGGGTGGAACTTGGTTCGATGAATATAAATATTTCAAGGAATCTATACA
193 ATCGTTAAATCCAATGTGGCTGGAATTTTGTTTGATGAATATAGATATTTCAAGGAGTCTTTACG
* * * * * *
204650 CAAAAAATCATGCAAAACCTGAGCCGGCGCCCCAAAATGCGTTTTTAGCCCAAAATCGTAATGGT
258 CCAAAAATCATGC-AAAGCTGAGCCGGGGCCCCGAAATGCGTTTTTAGCCCAAAACCGTGATGG-
204715 TA
321 TA
* * **
204717 GTACACGATTTCGACTAAAAACT-ATCCGGAAAATTTTTTTTCTCAATTTTCTGCCACAATACTG
1 GTACACGATTTCGGCTAAAAACTGA-CCGGAAAATTTTTTTTCTCAATTTTTTGCCACAATACAC
* *
204781 ATAAAAAATATATAATTCAACTCCAAAAAGATTGACA-GGTTTTTCACACTTCTAATATCGTTTT
65 ATAAAAAATATATAATTCAACTCCAAAAAGATT-AAAGGGTTTTTCACGCTTCTAATATCGTTTT
* * * * * * *
204845 TCCATTTTTTTCTGAATTAATTTATAATTAAATCGAAATAAGATTCAAATGCTCTTATAAACAAA
129 TCCAATTTTTTCCGAATTAATTTCTAATTAAATCGAAATAACATTCAGATGCTCGTAAAAACAAA
* * * * ** *
204910 TCCTTATATCCAATGTGGCT--AACGTTTGACTCAATTAATATAGATATTTCAA-GATGTCTTTA
194 TCGTTAAATCCAATGTGGCTGGAA-TTTTG-TTTGATGAATATAGATATTTCAAGGA-GTCTTTA
* ** ** * * * * *
204972 CCCCAAAAATCATGCAAAAATTGAGCCGGGGCTTCG-AATGTGTGTTTAGCCAAAAACCATAATG
256 CGCCAAAAATCATGC-AAAGCTGAGCCGGGGCCCCGAAATGCGTTTTTAGCCCAAAACCGTGATG
205036 GTTA
320 G-TA
* * * * *
205040 GAACACGATTTCGGCTAAAAATTGACCCGAAAA-TTTTTTTCTCGATTTTTTTCCACAAT--ACA
1 GTACACGATTTCGGCTAAAAACTGACCGGAAAATTTTTTTTCTCAATTTTTTGCCACAATACACA
* * ** *
205102 T--AAAATATATAATTCAACGCCAAAAATATTCACAA--ACTTTTCATGCTTCTAATATCGTTTT
66 TAAAAAATATATAATTCAACTCCAAAAAGATT-A-AAGGGTTTTTCACGCTTCTAATATCGTTTT
** * * * * *
205163 TCC-ATTTTTTCCGAACAAATTTCTAATTAAATCGAAACAATATTGACATGCTCGAAAAAACAAA
129 TCCAATTTTTTCCGAATTAATTTCTAATTAAATCGAAATAACATTCAGATGCTCGTAAAAACAAA
* * * * * * *
205227 TCCTTATATCCAATATTGG-T-GAGA-TTTGTTTCGATAAATATAGATATTTCATGGAGGCTTTG
194 TCGTTAAATCCAAT-GTGGCTGGA-ATTTTGTTT-GATGAATATAGATATTTCAAGGAGTCTTTA
* * * * * * * * *
205289 CGTCAAAAATCATGCAAAACTGAGTCGGGGCTCCGGAATGTGCTTTTAGTCAAAAACCGTGATGG
256 CGCCAAAAATCATGCAAAGCTGAGCCGGGGCCCCGAAATGCGTTTTTAGCCCAAAACCGTGATGG
205354 TTA
321 -TA
* * * * * * ** * * *
205357 GTACACAATTTTGGCAAAAAATTGACCCGAAAA-GTACTTTCTCAGTTTTTTGCTACAATACTCA
1 GTACACGATTTCGGCTAAAAACTGACCGGAAAATTTTTTTTCTCAATTTTTTGCCACAATACACA
* *
205421 GAAAAAATATATAACTCAA
66 TAAAAAATATATAATTCAA
205440 TGTC
Statistics
Matches: 1757, Mismatches: 226, Indels: 66
0.86 0.11 0.03
Matches are distributed among these distances:
316 18 0.01
317 178 0.10
318 59 0.03
319 4 0.00
320 34 0.02
321 365 0.21
322 205 0.12
323 263 0.15
324 471 0.27
325 159 0.09
326 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (322 bp):
GTACACGATTTCGGCTAAAAACTGACCGGAAAATTTTTTTTCTCAATTTTTTGCCACAATACACA
TAAAAAATATATAATTCAACTCCAAAAAGATTAAAGGGTTTTTCACGCTTCTAATATCGTTTTTC
CAATTTTTTCCGAATTAATTTCTAATTAAATCGAAATAACATTCAGATGCTCGTAAAAACAAATC
GTTAAATCCAATGTGGCTGGAATTTTGTTTGATGAATATAGATATTTCAAGGAGTCTTTACGCCA
AAAATCATGCAAAGCTGAGCCGGGGCCCCGAAATGCGTTTTTAGCCCAAAACCGTGATGGTA
Done.