Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01011990.1 Corchorus capsularis cultivar CVL-1 contig12011, 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: 42560
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Found at i:316 original size:2 final size:2
Alignment explanation
Indices: 309--342 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
299 ACTAACAGAG
309 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
343 TACCTTTCGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5186 original size:25 final size:25
Alignment explanation
Indices: 5156--5205 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
5146 CTATTGTGTG
5156 TATGA-TCTTCTTCCCATATGTCTTT
1 TATGATTCTT-TTCCCATATGTCTTT
* *
5181 TATGATTCTTTTTCCATATTTCTTT
1 TATGATTCTTTTCCCATATGTCTTT
5206 CTAAATTCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.16, C:0.20, G:0.06, T:0.58
Consensus pattern (25 bp):
TATGATTCTTTTCCCATATGTCTTT
Found at i:17445 original size:21 final size:24
Alignment explanation
Indices: 17420--17469 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 24
17410 CTAGTATAAT
17420 GGAAAGGAA-AAAGATAGAT-GAA
1 GGAAAGGAAGAAAGATAGATAGAA
*
17442 -GAAA-GAAGAAGGATAGATAGAA
1 GGAAAGGAAGAAAGATAGATAGAA
17464 GGAAAG
1 GGAAAG
17470 AGGCAGTGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
20 3 0.13
21 13 0.57
22 3 0.13
23 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.34, T:0.08
Consensus pattern (24 bp):
GGAAAGGAAGAAAGATAGATAGAA
Found at i:20099 original size:109 final size:112
Alignment explanation
Indices: 19980--20201 Score: 405
Period size: 109 Copynumber: 2.0 Consensus size: 112
19970 ATTGTTTAAG
*
19980 TTTTTATAGTTTTATTTAACTAAAAACTTTATTTTTATTTAATTAAATATAATAT-ATT-TA-TA
1 TTTTTATAGTTTTATTTAACTAAAAACTCTATTTTTATTTAATTAAATATAATATCATTATAGTA
20042 ACTATTTTATTTTACTATTTTACTCAACTAAAAACTCTATTTTTATA
66 ACTATTTTATTTTACTATTTTACTCAACTAAAAACTCTATTTTTATA
*
20089 TTTTTATAGTTTTATTTAACTAAAAACTCTATTTTTATTTAATTAAATATAATATCTTTATAGTA
1 TTTTTATAGTTTTATTTAACTAAAAACTCTATTTTTATTTAATTAAATATAATATCATTATAGTA
20154 ACTATTTTATTTTACTATTTTACTCAACTAAAAACTCTATTTTTATA
66 ACTATTTTATTTTACTATTTTACTCAACTAAAAACTCTATTTTTATA
20201 T
1 T
20202 AATTAAATCT
Statistics
Matches: 108, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
109 54 0.50
110 2 0.02
111 2 0.02
112 50 0.46
ACGTcount: A:0.36, C:0.09, G:0.01, T:0.54
Consensus pattern (112 bp):
TTTTTATAGTTTTATTTAACTAAAAACTCTATTTTTATTTAATTAAATATAATATCATTATAGTA
ACTATTTTATTTTACTATTTTACTCAACTAAAAACTCTATTTTTATA
Found at i:20102 original size:39 final size:39
Alignment explanation
Indices: 20051--20126 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 39
20041 AACTATTTTA
20051 TTTTACTATTTTACTCAACTAAAAACTCTATTTTTATAT
1 TTTTACTATTTTACTCAACTAAAAACTCTATTTTTATAT
* *
20090 TTTTA-TAGTTTTATTTAACTAAAAACTCTATTTTTAT
1 TTTTACTA-TTTTACTCAACTAAAAACTCTATTTTTAT
20127 TTAATTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 2 0.06
39 32 0.94
ACGTcount: A:0.33, C:0.12, G:0.01, T:0.54
Consensus pattern (39 bp):
TTTTACTATTTTACTCAACTAAAAACTCTATTTTTATAT
Found at i:20233 original size:73 final size:74
Alignment explanation
Indices: 20106--20251 Score: 206
Period size: 73 Copynumber: 2.0 Consensus size: 74
20096 AGTTTTATTT
* * *
20106 AACTAAAAACTCTATTTTTATTTAATTAAATATAATATCTTTATAGTAACTATTTT-ATTTTACT
1 AACTAAAAACTCTATTTTTATATAATTAAATATAATATCCTTATACTAACTATTTTCATTTTACT
20170 ATTTTACTC
66 ATTTTACTC
* *
20179 AACTAAAAACTCTATTTTTATATAATTAAATCTAATATCCTTATTACTTA-TATTTTACCATTTT
1 AACTAAAAACTCTATTTTTATATAATTAAATATAATATCCTTA-TACTAACTATTTT--CATTTT
20243 ACTATTTTA
63 ACTATTTTA
20252 ATTAAAAAAC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
73 46 0.72
74 4 0.06
76 14 0.22
ACGTcount: A:0.37, C:0.12, G:0.01, T:0.50
Consensus pattern (74 bp):
AACTAAAAACTCTATTTTTATATAATTAAATATAATATCCTTATACTAACTATTTTCATTTTACT
ATTTTACTC
Found at i:20664 original size:18 final size:18
Alignment explanation
Indices: 20641--20678 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
20631 ATACAATTAC
20641 TTCCTTTGACTTATAAAG
1 TTCCTTTGACTTATAAAG
20659 TTCCTTTGACTTATAAAG
1 TTCCTTTGACTTATAAAG
20677 TT
1 TT
20679 AGAGAGCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (18 bp):
TTCCTTTGACTTATAAAG
Found at i:22674 original size:69 final size:69
Alignment explanation
Indices: 22561--22696 Score: 227
Period size: 69 Copynumber: 2.0 Consensus size: 69
22551 CACCCACCAT
* * *
22561 AACCAGGTGCGCGACGTGGGTCAGATCCGGATTAATCCAAGCAAAGCCCTGGATACCGGATGGGA
1 AACCAGGTGCGCGACGCGGGTCAGATCCGGATTAATCCAAGCAAAGCCATGGATACCGGATAGGA
22626 TATC
66 TATC
* *
22630 AACCAGGTGCGCGACGCGGGTCAGATCCGGATTAGTCCAGGCAAAGCCATGGATACCGGATAGGA
1 AACCAGGTGCGCGACGCGGGTCAGATCCGGATTAATCCAAGCAAAGCCATGGATACCGGATAGGA
22695 TA
66 TA
22697 AAAAAAAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.28, C:0.24, G:0.32, T:0.16
Consensus pattern (69 bp):
AACCAGGTGCGCGACGCGGGTCAGATCCGGATTAATCCAAGCAAAGCCATGGATACCGGATAGGA
TATC
Found at i:25126 original size:21 final size:21
Alignment explanation
Indices: 25084--25127 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
25074 TACCCCGTTA
* *
25084 ATCATCGCCGCAGTCTTATTG
1 ATCATCGCCGCAGGCCTATTG
* *
25105 ATCATCGCCGGAGGCCTGTTG
1 ATCATCGCCGCAGGCCTATTG
25126 AT
1 AT
25128 GTGCGTCGCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.30
Consensus pattern (21 bp):
ATCATCGCCGCAGGCCTATTG
Found at i:28005 original size:2 final size:2
Alignment explanation
Indices: 27998--28025 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27988 GCAAGGCTTA
27998 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
28026 TGCATCGTTA
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:31145 original size:1 final size:1
Alignment explanation
Indices: 31141--31185 Score: 90
Period size: 1 Copynumber: 45.0 Consensus size: 1
31131 AAAAAATTTC
31141 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
31186 CCGTTTTAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:37108 original size:26 final size:27
Alignment explanation
Indices: 37075--38206 Score: 1157
Period size: 26 Copynumber: 43.5 Consensus size: 27
37065 CCAATCTGCA
37075 TTGCATATTCAGTAGGGGC-CATATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
* *
37101 TTGCATATTCAGTAGGAG-ACATATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
*
37127 TTGCATATTCAGTA-GGGTTCATATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
*
37153 TTGCATATTCAGTATGGGC-CATATA-
1 TTGCATATTCAGTAGGGGCTCATATAG
*
37178 --G----TTCAGTA-GGACTCATATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
*
37198 TTGCATATTCAGTAGGGG-ACATATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
* *
37224 TTACATATTCAGTA-GAGCTCATATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
* *
37250 TTGCATATTGAGTA-GGGTTCATATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
37276 TTGCATATTCAGTAGGGGC-CATATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
37302 TTGCATATTCAGTA-GGGCTCATATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
* * *
37328 TTGCATTTTTAGTAGGGGCCTCATATTG
1 TTGCATATTCAGTAGGGG-CTCATATAG
*
37356 TTGCATATTCAGTAGGGG-ACATATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
* *
37382 TTGCATATTCAGTA-GGACTCACATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
*
37408 TTGCATATTCAGTA-GGGCTCACATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
*
37434 TTGCATATTCAGTA-GGGCGCATATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
*
37460 TTGCATATTCAGTAGGGGCCTCGTATAG
1 TTGCATATTCAGTAGGGG-CTCATATAG
*
37488 TTGCATATTCAGTAGGGG-ACATATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
* * *
37514 TTGCATATTTAGTA-GTGCTCACATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
* *
37540 TTGCATATTCAGTA-GGGCGCACATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
*
37566 TTGCATATTCAGTA-GGGCGCATATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
* *
37592 TTGCATATTCAGTAGGGCTCTCGTATAG
1 TTGCATATTCAGTAGGG-GCTCATATAG
* *
37620 TTGCATATTCAGTAGGGG-ACAGATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
*
37646 TTGCATATTCAGTA-GGGCTCACATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
* *
37672 TTGCATATTCAGTAAGGGCTCACATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
* *
37699 TTGCATATTCAGTAAGGGCCTCAGATAG
1 TTGCATATTCAGT-AGGGGCTCATATAG
*
37727 TTGCATATTCAGTAGGGGCCTCAGATAG
1 TTGCATATTCAGTAGGGG-CTCATATAG
37755 TTGCATATTCAGTAGGGGC-C-TATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
* * *
37780 TTGCATATTCAGTATGGG-ACATCTA-
1 TTGCATATTCAGTAGGGGCTCATATAG
* *
37805 --G--T-TTCAGTAGGGG-ACATCTAG
1 TTGCATATTCAGTAGGGGCTCATATAG
37826 TTGCATATTCAGTA-GGGCTCATATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
37852 TTGCATATTCAGTA-GGGCTCATATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
* *
37878 TTGCATGTTCAGTA-TGGCTCATATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
* *
37904 TTGC--ATTCAGTAAGGGCTCACATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
* * * * **
37929 TTGCATTTTCAATA-AGACTCGCATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
37955 TTGCATATTCAGTAGGGGC-C-TATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
* * * *
37980 TTGCATTTTCAGTATGTG-ACATATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
* * *
38006 TTGCATATTCAGTAGGGG-ACAAATAC
1 TTGCATATTCAGTAGGGGCTCATATAG
*
38032 TTGCATATTCAGTA-TGGCTCATATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
*
38058 TTGCATATTCAGTAGGGG-ACATATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
*** *
38084 TTGCATATTCAGTA-GTATTCA-GTAG
1 TTGCATATTCAGTAGGGGCTCATATAG
** *
38109 GGGCCATATAGTTGCTTAGTAGGGG-ACATATAG
1 TTG-C--ATA-TT-C--AGTAGGGGCTCATATAG
38142 TTGCATATTCAGTA-GGGCTCATATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
* *
38168 TTGCATATTCAGTTGGGG-ACATATAG
1 TTGCATATTCAGTAGGGGCTCATATAG
38194 TTGCATATTCAGT
1 TTGCATATTCAGT
38207 TATAGTTGCA
Statistics
Matches: 946, Mismatches: 104, Indels: 112
0.81 0.09 0.10
Matches are distributed among these distances:
18 3 0.00
19 13 0.01
20 17 0.02
21 1 0.00
22 1 0.00
23 3 0.00
24 7 0.01
25 85 0.09
26 609 0.64
27 59 0.06
28 128 0.14
29 4 0.00
30 4 0.00
32 7 0.01
33 5 0.01
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (27 bp):
TTGCATATTCAGTAGGGGCTCATATAG
Found at i:37134 original size:52 final size:52
Alignment explanation
Indices: 37017--38420 Score: 1303
Period size: 52 Copynumber: 27.2 Consensus size: 52
37007 GTCATTCACA
* * * *
37017 TCATATAGTT-CATATTTAGTA-GGG-TCATATGGTT-CATATTCAATAGTG
1 TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGTAGGG
* *
37065 CCA-ATCTGCATTGCATATTCAGTAGGGGC-CATATAGTTGCATATTCAGTAGGAG
1 TCATAT-AG--TTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGTAGG-G
* *
37119 ACATATAGTTGCATATTCAGTA-GGGTTCATATAGTTGCATATTCAGTATGGG
1 TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGTA-GGG
* *
37171 CCATATA---G----TTCAGTA-GGACTCATATAGTTGCATATTCAGTAGGGG
1 TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGTA-GGG
* * * *
37216 ACATATAGTTACATATTCAGTA-GAGCTCATATAGTTGCATATTGAGTAGGG
1 TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGTAGGG
37267 TTCATATAGTTGCATATTCAGTAGGGGC-CATATAGTTGCATATTCAGTAGGG
1 -TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGTAGGG
* * *
37319 CTCATATAGTTGCATTTTTAGTAGGGGCCTCATATTGTTGCATATTCAGTAGGGG
1 -TCATATAGTTGCATATTCAGTAGGGG-CTCATATAGTTGCATATTCAGTA-GGG
* * *
37374 ACATATAGTTGCATATTCAGTA-GGACTCACATAGTTGCATATTCAGTAGGG
1 TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGTAGGG
* *
37425 CTCACATAGTTGCATATTCAGTA-GGGCGCATATAGTTGCATATTCAGTAGGGG
1 -TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGTA-GGG
* * * *
37478 CCTCGTATAGTTGCATATTCAGTAGGGG-ACATATAGTTGCATATTTAGTAGTGC
1 --TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGTAG-GG
* * *
37532 TCACATAGTTGCATATTCAGTA-GGGCGCACATAGTTGCATATTCAGTAGGG
1 TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGTAGGG
* * *
37583 CGCATATAGTTGCATATTCAGTAGGGCTCTCGTATAGTTGCATATTCAGTAGGGG
1 -TCATATAGTTGCATATTCAGTAGGG-GCTCATATAGTTGCATATTCAGTA-GGG
* * *
37638 ACAGATAGTTGCATATTCAGTA-GGGCTCACATAGTTGCATATTCAGTAAGGG
1 TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGT-AGGG
* * *
37690 CTCACATAGTTGCATATTCAGTAAGGGCCTCAGATAGTTGCATATTCAGTAGGGG
1 -TCATATAGTTGCATATTCAGT-AGGGGCTCATATAGTTGCATATTCAGTA-GGG
*
37745 CCTCAGATAGTTGCATATTCAGTAGGGGC-C-TATAGTTGCATATTCAGTATGGG
1 --TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGTA-GGG
* * * *
37798 ACATCTA---G--T-TTCAGTAGGGG-ACATCTAGTTGCATATTCAGTAGGG
1 TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGTAGGG
* *
37843 CTCATATAGTTGCATATTCAGTA-GGGCTCATATAGTTGCATGTTCAGTATGGC
1 -TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGTA-GGG
* * * * **
37896 TCATATAGTTGC--ATTCAGTAAGGGCTCACATAGTTGCATTTTCAATAAGAC
1 TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGT-AGGG
** * *
37947 TCGCATAGTTGCATATTCAGTAGGGGC-C-TATAGTTGCATTTTCAGTATGTG
1 TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGTA-GGG
* * * * *
37998 ACATATAGTTGCATATTCAGTAGGGG-ACAAATACTTGCATATTCAGTATGGC
1 TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGTA-GGG
* **
38050 TCATATAGTTGCATATTCAGTAGGGG-ACATATAGTTGCATATTCAGTAGTAT
1 TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGTAG-GG
* ** *
38102 TCA-GTAGGGGCCATATAGTTGCTTAGTAGGGG-ACATATAGTTGCATATTCAGTAGGG
1 TCATATAGTTG-C--ATA-TT-C--AGTAGGGGCTCATATAGTTGCATATTCAGTAGGG
* *
38159 CTCATATAGTTGCATATTCAGTTGGGG-ACATATAGTTGCATATTC---A--G
1 -TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGTAGGG
*
38206 T--TATAGTTGCATATTCAGTA-GGGCTCATATAGTTGCATATTCAGTTGGGG
1 TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAG-TAGGG
* * * *
38256 ACCACATAGTTGCATATTCAGTAGGGAC-CACATAGTTGCATATTCAGTAGGG
1 -TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGTAGGG
* * *
38308 CTCACATAGTTGCATATTCAGTA-GGGATCACATAGTTGCATATTCAGTAGGG
1 -TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGTAGGG
* * *
38360 TTCATATAATTGCATATTCAG--GTCGGCTAATATAGTTGCATATTCAGTAGGG
1 -TCATATAGTTGCATATTCAGTAG-GGGCTCATATAGTTGCATATTCAGTAGGG
*
38412 CTTATATAG
1 -TCATATAG
38421 GACATTAATT
Statistics
Matches: 1143, Mismatches: 132, Indels: 158
0.80 0.09 0.11
Matches are distributed among these distances:
43 3 0.00
44 35 0.03
45 55 0.05
46 25 0.02
47 3 0.00
48 4 0.00
49 3 0.00
50 12 0.01
51 113 0.10
52 527 0.46
53 118 0.10
54 135 0.12
55 46 0.04
56 25 0.02
58 35 0.03
59 4 0.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (52 bp):
TCATATAGTTGCATATTCAGTAGGGGCTCATATAGTTGCATATTCAGTAGGG
Found at i:37160 original size:78 final size:77
Alignment explanation
Indices: 37018--38411 Score: 1349
Period size: 78 Copynumber: 18.0 Consensus size: 77
37008 TCATTCACAT
* * * * *
37018 CATATAGTT-CATATTTAGTAGGGTCATATGGTT-CATATTCAATAGTGC-CA-ATCTGCATTGC
1 CATATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGGCTCATAT-AG--TTGC
37079 ATATTCAGTAGGGGC
63 ATATTCAGTAGGGGC
* *
37094 CATATAGTTGCATATTCAGTAGGAGACATATAGTTGCATATTCAGTAGGGTTCATATAGTTGCAT
1 CATATAGTTGCATATTCAGTAGG-GTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCAT
*
37159 ATTCAGTATGGGC
65 ATTCAGTAGGGGC
* ** *
37172 CATATA---G----TTCAGTAGGACTCATATAGTTGCATATTCAGTAGGGGACATATAGTTACAT
1 CATATAGTTGCATATTCAGTAGG-GTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCAT
*
37230 ATTCAGTA-GAGC
65 ATTCAGTAGGGGC
*
37242 TCATATAGTTGCATATTGAGTAGGGTTCATATAGTTGCATATTCAGTAGGGGC-CATATAGTTGC
1 -CATATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATTCAGTA-GGGCTCATATAGTTGC
37306 ATATTCAGTA-GGGC
63 ATATTCAGTAGGGGC
* * * **
37320 TCATATAGTTGCATTTTTAGTAGGGGCCTCATATTGTTGCATATTCAGTAGGGGACATATAGTTG
1 -CATATAGTTGCATATTCAGTA-GGG--TCATATAGTTGCATATTCAGTAGGGCTCATATAGTTG
*
37385 CATATTCAGTA-GGAC
62 CATATTCAGTAGGGGC
* * *
37400 TCACATAGTTGCATATTCAGTAGGGCTCACATAGTTGCATATTCAGTAGGGCGCATATAGTTGCA
1 -CATATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCA
37465 TATTCAGTAGGGGCC
64 TATTCAGTAGGGG-C
* * * * *
37480 TCGTATAGTTGCATATTCAGTAGGGGACATATAGTTGCATATTTAGTAGTGCTCACATAGTTGCA
1 -CATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCA
37545 TATTCAGTA-GGGC
64 TATTCAGTAGGGGC
* * *
37558 GCACATAGTTGCATATTCAGTAGGGCGCATATAGTTGCATATTCAGTAGGGCTCTCGTATAGTTG
1 -CATATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATTCAGTAGGG--CTCATATAGTTG
*
37623 CATATTCAGTAGGGGA
62 CATATTCAGTAGGGGC
* * *
37639 CAGATAGTTGCATATTCAGTAGGGCTCACATAGTTGCATATTCAGTAAGGGCTCACATAGTTGCA
1 CATATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATTCAGT-AGGGCTCATATAGTTGCA
*
37704 TATTCAGTAAGGGCC
64 TATTCAGT-AGGGGC
* *
37719 TCAGATAGTTGCATATTCAGTAGGGGCCTCAGATAGTTGCATATTCAGTAGGGGC-C-TATAGTT
1 -CATATAGTTGCATATTCAGTA-GGG--TCATATAGTTGCATATTCAGTA-GGGCTCATATAGTT
* *
37782 GCATATTCAGTATGGGA
61 GCATATTCAGTAGGGGC
* * *
37799 CATCTA---G--T-TTCAGTAGGGGACATCTAGTTGCATATTCAGTAGGGCTCATATAGTTGCAT
1 CATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCAT
37858 ATTCAGTA-GGGC
65 ATTCAGTAGGGGC
* * *
37870 TCATATAGTTGCATGTTCAGTATGGCTCATATAGTTGC--ATTCAGTAAGGGCTCACATAGTTGC
1 -CATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGT-AGGGCTCATATAGTTGC
* * * *
37933 ATTTTCAATA-AGAC
63 ATATTCAGTAGGGGC
** * * * * *
37947 TCGCATAGTTGCATATTCAGTAGGGGCCTATAGTTGCATTTTCAGTATGTG-ACATATAGTTGCA
1 -CATATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTCAGTA-GGGCTCATATAGTTGCA
*
38011 TATTCAGTAGGGGA
64 TATTCAGTAGGGGC
* * * **
38025 CAAATACTTGCATATTCAGTATGGCTCATATAGTTGCATATTCAGTAGGGGACATATAGTTGCAT
1 CATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTG---
38090 ATTCAGTAGTATTCAGTAGGGGC
62 ---C---A-TATTCAGTAGGGGC
*
38113 CATATAGTTGC---TT-AGTAGGGGACATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCAT
1 CATATAGTTGCATATTCAGTA-GGGTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCAT
* *
38174 ATTCAGTTGGGGA
65 ATTCAGTAGGGGC
38187 CATATAGTTGCATATTC---A--GT--TATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATA
1 CATATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATA
*
38245 TTCAGTTGGGGAC
66 TTCAGTAGGGG-C
* * * *
38258 CACATAGTTGCATATTCAGTAGGGACCACATAGTTGCATATTCAGTAGGGCTCACATAGTTGCAT
1 CATATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCAT
**
38323 ATTCAGTAGGGAT
65 ATTCAGTAGGGGC
* * * *
38336 CACATAGTTGCATATTCAGTAGGGTTCATATAATTGCATATTCAGGT-CGGCTAATATAGTTGCA
1 CATATAGTTGCATATTCAGTAGGG-TCATATAGTTGCATATTCA-GTAGGGCTCATATAGTTGCA
38400 TATTCAGTAGGG
64 TATTCAGTAGGG
38412 CTTATATAGG
Statistics
Matches: 1120, Mismatches: 127, Indels: 140
0.81 0.09 0.10
Matches are distributed among these distances:
70 56 0.05
71 99 0.09
72 25 0.02
73 11 0.01
74 26 0.02
75 4 0.00
76 30 0.03
77 102 0.09
78 320 0.29
79 100 0.09
80 201 0.18
81 50 0.04
82 5 0.00
83 25 0.02
84 41 0.04
85 2 0.00
87 1 0.00
88 22 0.02
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (77 bp):
CATATAGTTGCATATTCAGTAGGGTCATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATA
TTCAGTAGGGGC
Found at i:37812 original size:20 final size:20
Alignment explanation
Indices: 37787--37827 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
37777 TAGTTGCATA
*
37787 TTCAGTATGGGACATCTAGT
1 TTCAGTAGGGGACATCTAGT
37807 TTCAGTAGGGGACATCTAGT
1 TTCAGTAGGGGACATCTAGT
37827 T
1 T
37828 GCATATTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (20 bp):
TTCAGTAGGGGACATCTAGT
Found at i:38129 original size:22 final size:24
Alignment explanation
Indices: 38100--38374 Score: 133
Period size: 26 Copynumber: 11.1 Consensus size: 24
38090 ATTCAGTAGT
38100 ATTCAGTAGGGGCCATATAGTTGC
1 ATTCAGTAGGGGCCATATAGTTGC
*
38124 -TT-AGTAGGGGACATATAGTTGC
1 ATTCAGTAGGGGCCATATAGTTGC
38146 ATATTCAGTA-GGGCTCATATAGTTGC
1 --ATTCAGTAGGGGC-CATATAGTTGC
* *
38172 ATATTCAGTTGGGGACATATAGTTGC
1 --ATTCAGTAGGGGCCATATAGTTGC
38198 ATATTCAGT--------TATAGTTGC
1 --ATTCAGTAGGGGCCATATAGTTGC
**
38216 ATATTCAGTAGGGCTCATATAGTTGC
1 --ATTCAGTAGGGGCCATATAGTTGC
* *
38242 ATATTCAGTTGGGGACCACATAGTTGC
1 --ATTCAGTAGGGG-CCATATAGTTGC
* *
38269 ATATTCAGTAGGGACCACATAGTTGC
1 --ATTCAGTAGGGGCCATATAGTTGC
*
38295 ATATTCAGTA-GGGCTCACATAGTTGC
1 --ATTCAGTAGGGGC-CATATAGTTGC
** *
38321 ATATTCAGTAGGGATCACATAGTTGC
1 --ATTCAGTAGGGGCCATATAGTTGC
** *
38347 ATATTCAGTAGGGTTCATATAATTGC
1 --ATTCAGTAGGGGCCATATAGTTGC
38373 AT
1 AT
38375 ATTCAGGTCG
Statistics
Matches: 218, Mismatches: 16, Indels: 34
0.81 0.06 0.13
Matches are distributed among these distances:
18 18 0.08
22 19 0.09
23 2 0.01
24 2 0.01
25 8 0.04
26 142 0.65
27 27 0.12
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (24 bp):
ATTCAGTAGGGGCCATATAGTTGC
Found at i:38145 original size:58 final size:60
Alignment explanation
Indices: 38037--38279 Score: 215
Period size: 70 Copynumber: 4.0 Consensus size: 60
38027 AATACTTGCA
*
38037 TATTCAGTATGGCTCATATAGTTGCATATTCAGTAGGGGACATATAGTTGCATATTCAGTAG
1 TATTCAGTAGGGCTCATATAGTTGC--ATTCAGTAGGGGACATATAGTTGCATATTCAGTAG
38099 TATTCAGTAGGGGC-CATATAGTTGC-TT-AGTAGGGGACATATAGTTG------C---A-
1 TATTCAGTA-GGGCTCATATAGTTGCATTCAGTAGGGGACATATAGTTGCATATTCAGTAG
*
38147 TATTCAGTAGGGCTCATATAGTTGCATATTCAGTTGGGGACATATAGTTGCATATTCAGTTATAG
1 TATTCAGTAGGGCTCATATAGTTGC--ATTCAGTAGGGGACATATAGTTGCATATTCAG---TA-
38212 TTG
60 --G
* *
38215 CATATTCAGTAGGGCTCATATAGTTGCATATTCAGTTGGGGACCACATAGTTGCATATTCAGTAG
1 --TATTCAGTAGGGCTCATATAGTTGC--ATTCAGTAGGGGA-CATATAGTTGCATATTCAGTAG
38280 GGACCACATA
Statistics
Matches: 153, Mismatches: 3, Indels: 47
0.75 0.01 0.23
Matches are distributed among these distances:
47 4 0.03
48 20 0.13
49 1 0.01
51 2 0.01
52 19 0.12
58 20 0.13
59 2 0.01
62 20 0.13
63 3 0.02
64 1 0.01
65 1 0.01
68 2 0.01
70 40 0.26
71 18 0.12
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.35
Consensus pattern (60 bp):
TATTCAGTAGGGCTCATATAGTTGCATTCAGTAGGGGACATATAGTTGCATATTCAGTAG
Found at i:38152 original size:110 final size:113
Alignment explanation
Indices: 37999--38331 Score: 415
Period size: 110 Copynumber: 2.9 Consensus size: 113
37989 CAGTATGTGA
* *
37999 CATATAGTTGCATATTCAGTAGGGGACAAATACTTGCATATTCAGTATGGCTCATATAGTTGCAT
1 CATATAGTTGC--ATTCAGTAGGGGACAAATAGTTGCATATTCAGTAGGGCTCATATAGTTGCAT
38064 ATTCAGTAGGGGACATATAGTTGCATATTCAGTAG-TATTCAGTAGGGGC-
64 ATTCAGTAGGGGACATATAGTTGCATATTCAGTAGATATTCAGTA-GGGCT
*
38113 CATATAGTTGC-TT-AGTAGGGGACATATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATAT
1 CATATAGTTGCATTCAGTAGGGGACAAATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATAT
*
38176 TCAGTTGGGGACATATAGTTGCATATTCAGTTATAGTTGCATATTCAGTAGGGCT
66 TCAGTAGGGGACATATAGTTGCATATTCAG---TA---G-ATATTCAGTAGGGCT
* * *
38231 CATATAGTTGCATATTCAGTTGGGGACCACATAGTTGCATATTCAGTAGGGAC-CACATAGTTGC
1 CATATAGTTGC--ATTCAGTAGGGGA-CAAATAGTTGCATATTCAGTAGGG-CTCATATAGTTGC
** *
38295 ATATTCAGTAGGGCTCACATAGTTGCATATTCAGTAG
62 ATATTCAGTAGGGGACATATAGTTGCATATTCAGTAG
38332 GGATCACATA
Statistics
Matches: 193, Mismatches: 11, Indels: 27
0.84 0.05 0.12
Matches are distributed among these distances:
110 76 0.39
111 2 0.01
113 2 0.01
114 11 0.06
116 1 0.01
117 5 0.03
118 20 0.10
120 2 0.01
121 2 0.01
122 8 0.04
123 63 0.33
124 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.33
Consensus pattern (113 bp):
CATATAGTTGCATTCAGTAGGGGACAAATAGTTGCATATTCAGTAGGGCTCATATAGTTGCATAT
TCAGTAGGGGACATATAGTTGCATATTCAGTAGATATTCAGTAGGGCT
Found at i:38212 original size:18 final size:18
Alignment explanation
Indices: 38189--38224 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
38179 GTTGGGGACA
38189 TATAGTTGCATATTCAGT
1 TATAGTTGCATATTCAGT
38207 TATAGTTGCATATTCAGT
1 TATAGTTGCATATTCAGT
38225 AGGGCTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (18 bp):
TATAGTTGCATATTCAGT
Found at i:38237 original size:26 final size:26
Alignment explanation
Indices: 38207--38420 Score: 272
Period size: 26 Copynumber: 8.2 Consensus size: 26
38197 CATATTCAGT
38207 TATAGTTGCATATTCAGTAGGGCTCA
1 TATAGTTGCATATTCAGTAGGGCTCA
*
38233 TATAGTTGCATATTCAGTTGGGGAC-CA
1 TATAGTTGCATATTCAG-TAGGG-CTCA
*
38260 CATAGTTGCATATTCAGTAGGGAC-CA
1 TATAGTTGCATATTCAGTAGGG-CTCA
*
38286 CATAGTTGCATATTCAGTAGGGCTCA
1 TATAGTTGCATATTCAGTAGGGCTCA
* *
38312 CATAGTTGCATATTCAGTAGGGATCA
1 TATAGTTGCATATTCAGTAGGGCTCA
* *
38338 CATAGTTGCATATTCAGTAGGGTTCA
1 TATAGTTGCATATTCAGTAGGGCTCA
* * *
38364 TATAATTGCATATTCAGGT-CGGCTAA
1 TATAGTTGCATATTCA-GTAGGGCTCA
*
38390 TATAGTTGCATATTCAGTAGGGCTTA
1 TATAGTTGCATATTCAGTAGGGCTCA
38416 TATAG
1 TATAG
38421 GACATTAATT
Statistics
Matches: 170, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
25 3 0.02
26 142 0.84
27 24 0.14
28 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (26 bp):
TATAGTTGCATATTCAGTAGGGCTCA
Found at i:38562 original size:26 final size:26
Alignment explanation
Indices: 38525--38633 Score: 157
Period size: 26 Copynumber: 4.2 Consensus size: 26
38515 TCCATGTAAT
38525 TATAGTTGCATATTCAGTAGGGCTCA
1 TATAGTTGCATATTCAGTAGGGCTCA
*
38551 CATAGTTGCATATTCAGTAGGGCTCA
1 TATAGTTGCATATTCAGTAGGGCTCA
* * *
38577 TATAATTGCATATTCAGGT-CGGCTAA
1 TATAGTTGCATATTCA-GTAGGGCTCA
*
38603 TATAGTTGCATATTCAGTAGGGCTTA
1 TATAGTTGCATATTCAGTAGGGCTCA
38629 TATAG
1 TATAG
38634 GACATTAATT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
25 2 0.03
26 69 0.95
27 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (26 bp):
TATAGTTGCATATTCAGTAGGGCTCA
Found at i:39743 original size:17 final size:17
Alignment explanation
Indices: 39721--39753 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
39711 GGTGTTGAAT
39721 TATATATATATATATAA
1 TATATATATATATATAA
39738 TATATATATATATATA
1 TATATATATATATATA
39754 TAGAATTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATATATATATATAA
Found at i:39774 original size:2 final size:2
Alignment explanation
Indices: 39721--39755 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
39711 GGTGTTGAAT
39721 TA TA TA TA TA TA TA TA -A 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
39756 GAATTCCTTG
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:41009 original size:334 final size:330
Alignment explanation
Indices: 40387--42560 Score: 2564
Period size: 334 Copynumber: 6.6 Consensus size: 330
40377 CCGAAATCAT
* * ** * * *
40387 GAGCCCTGACTCAATTTTTTATGATTTTTGGAGCCAAGACTCCTTGAAATATATATATATTCATC
1 GAGCCCCGGCTCAATTTTGCATGATTTTTGGCGCCGAGACTCCTTG-AAT-TATCTATATTCATC
* ** * * * *
40452 TAAGCACTTCTCAGTCACATTAGATTTAAGGATTTCTTTTAACTAGCTTCTAAATCTTATTTCGA
64 TAACCAAATCTCAGTCACATTGGATTTAAGGATTTCTTTTTACGAGCTTCTGAATCTTATTTCGA
* * *
40517 TTTAATTAAAAATTAATTTAG-AAAAAATATGAAAATAATATTAGAAGCTTGAAAAACTCTTCAA
129 TTTAATTAAAAA-TAATTCAGAAAAAAATAAGAAAATGATATTAGAAGCTTGAAAAACTCTTCAA
* * * *
40581 TATTTTTGGTGTTAAATTATAGATTTTTTACGAGTGTTGCGGACAAAAATTGA-GAAGAATATTT
193 TATTTTTGGTGTTAAATTATAGAGTTTTTATGAGTGTTGTGGCCAAAAATTGAGGAA-AATATTT
**
40645 TTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAACCATCACTATTTTTGGTTAAA
257 TTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAA-CATCAC-ATTTTTGGCAAAA
*
40710 AACACGTTTCG
320 AACGCGTTTCG
* * *
40721 GAG-CCCGGATCAATTTTGCATGATTTTTTTGCGCC-AGGACTACTTGAATTATCTATA-TCTAT
1 GAGCCCCGGCTCAATTTTGCATGA-TTTTTGGCGCCGA-GACTCCTTGAATTATCTATATTC-AT
* * * * * *
40783 CGAACCAAATTTCAGTCACATCGGAATTAATGATTTCTTTTTACGAGCTCCTGAATCTTATTTCG
63 CTAACCAAATCTCAGTCACATTGGATTTAAGGATTTCTTTTTACGAGCTTCTGAATCTTATTTCG
* * * *
40848 ATTGAATTAAAAATAATTTCAGAAAAAAATAAGAAAAACGATTTTAGAAGCGTGAAAAACTCTTC
128 ATTTAATTAAAAATAA-TTCAGAAAAAAATAAG-AAAATGATATTAGAAGCTTGAAAAACTCTTC
* * *
40913 AATATTTTTGGTGTTAAATTATAGAGTTTTTATGAGTGTTGTAGCCAAGAATTCAGGAGAAA-AT
191 AATATTTTTGGTGTTAAATTATAGAGTTTTTATGAGTGTTGTGGCCAAAAATTGAGGA-AAATAT
* * * * * *
40977 TTCTCGGGTGAACTTTTGCAAAATTATAGCCGAAATCATGTACTAACCAACACAGTTTTTTGCAA
255 TTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAA-CATCACA-TTTTTGGCAA
* * *
41042 AAAACGCATTACA
318 AAAACGCGTTTCG
* * * * * *
41055 GAGCCCCGGCTCAATTTTGCTTGATTTTTGGTGCCAAGACTCCTGGAAATATCTATATTTATCTA
1 GAGCCCCGGCTCAATTTTGCATGATTTTTGGCGCCGAGACTCCTTGAATTATCTATATTCATCTA
* *
41120 ACCAATTCTCAGTCACATTGGATTTAAGGATTTCTTTTTACGAGCTTCTGAATCGTATTTCGATT
66 ACCAAATCTCAGTCACATTGGATTTAAGGATTTCTTTTTACGAGCTTCTGAATCTTATTTCGATT
* * * *
41185 TAATTAAAAATTAATT-A-AGAAAAATAAGAAAATAATATTAGAAACTTGATAAACTCTTCAATA
131 TAATTAAAAA-TAATTCAGAAAAAAATAAGAAAATGATATTAGAAGCTTGAAAAACTCTTCAATA
*
41248 TTTTTGGTGTTAAATTATAGATTTTTTATGAGTGTTGTGGCCAAAAATTGAGGAAAATATTTTTC
195 TTTTTGGTGTTAAATTATAGAGTTTTTATGAGTGTTGTGGCCAAAAATTGAGGAAAATATTTTTC
* * *
41313 GGATCAATTTTTGCAAAA-ATTAGCCAAAATCATG--------T-AC-----T----AAAAACGC
260 GGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAACATCACATTTTTGGCAAAAAACGC
41359 GTTTCTG
325 GTTTC-G
* * * * *
41366 G-GTCCCGACTCAATTTTGCATGATTTTTGGCGCCAAGACTCCATGTATTATCTATATTCATCTA
1 GAGCCCCGGCTCAATTTTGCATGATTTTTGGCGCCGAGACTCCTTGAATTATCTATATTCATCTA
41430 ACCAAATCTCAGTCACATTGGATTTAAGGATTTCTTTTTACGAGCTTCTGAATCTTATTTCGATT
66 ACCAAATCTCAGTCACATTGGATTTAAGGATTTCTTTTTACGAGCTTCTGAATCTTATTTCGATT
* * * * *
41495 TAAATAAAAATTAAGTCAGTCAAATAATAAGAAAATGATATTAGAAGCGTGAAAAAACTCTTCAA
131 TAATTAAAAA-TAATTCAG-AAAAAAATAAGAAAATGATATTAGAAGCTTG-AAAAACTCTTCAA
* * *
41560 TAATTTTGGTGTTAAATTATAGAGCTTTTATGAGGGTTGTGGCCAAAAATTGAGGAAAATATTTT
193 TATTTTTGGTGTTAAATTATAGAGTTTTTATGAGTGTTGTGGCCAAAAATTGAGGAAAATATTTT
* *
41625 TCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGCA-T-A-ATCACGTTTTTGGCAAAAAAC
258 TCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAACATCACATTTTTGGCAAAAAAC
41687 GCG-TTCTG
323 GCGTTTC-G
*
41695 GGGCCCCGGCTCAATTTTGCATGATTTTTGGCGCCGAGACTCCTTGAATTATCTATATTCATCTA
1 GAGCCCCGGCTCAATTTTGCATGATTTTTGGCGCCGAGACTCCTTGAATTATCTATATTCATCTA
* * * *
41760 ACCAAATCTCAGTCACATTAGATTGAAGGATTTCTTTTTATGAGCTTCTGAATCTTAATTCGATT
66 ACCAAATCTCAGTCACATTGGATTTAAGGATTTCTTTTTACGAGCTTCTGAATCTTATTTCGATT
* *
41825 TAATTAAAAATCAATTC---AAAAAATAAGGAAATGATATTAGAACCTTGAAAAACTCTTCAATA
131 TAATTAAAAAT-AATTCAGAAAAAAATAAGAAAATGATATTAGAAGCTTGAAAAACTCTTCAATA
* * * * *
41887 GTTTTGGTGTTACATTATAGA-TTATTTATGAGTATTGTGGGCAAAATTTGAGGAAAATATTTTT
195 TTTTTGGTGTTAAATTATAGAGTT-TTTATGAGTGTTGTGGCCAAAAATTGAGGAAAATATTTTT
* * * * *
41951 -AGGTCAATTTTTCCAAAATTTTAGCCGAAATCATGTTCTAACCATCACGGTTTTTGG-TAAAAA
259 CGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAA-CATCAC-ATTTTTGGCAAAAAA
42014 CGCGTTTCG
322 CGCGTTTCG
* * *** * * *
42023 GGGTCCCAAATCAATTTTTCATGATTTTTTGCGCCGAGACTCCTTGAATTATCTATA-TCTAACT
1 GAGCCCCGGCTCAATTTTGCATGATTTTTGGCGCCGAGACTCCTTGAATTATCTATATTC-ATCT
42087 AACCAAATCTCAGTCACATTGGATTTAAGGATTTCTTTTTACGAGCTTCTGAATCTTATTTCGAT
65 AACCAAATCTCAGTCACATTGGATTTAAGGATTTCTTTTTACGAGCTTCTGAATCTTATTTCGAT
* * * ** * *
42152 TTAAATAGAAATTAATTTAGTCCAAAAATAAGAAAATGATATTAGAAGCGTGAAAAACTTTTCAA
130 TTAATTA-AAAATAATTCAG-AAAAAAATAAGAAAATGATATTAGAAGCTTGAAAAACTCTTCAA
* * *
42217 TAATTTTGGTGTTAAATTATAGAGTTTTTAAGAGTGTTGTGGCCAAAAATTGAGGAAAATGTTTT
193 TATTTTTGGTGTTAAATTATAGAGTTTTTATGAGTGTTGTGGCCAAAAATTGAGGAAAATATTTT
* *
42282 TCGGGTCAATTTTTGCACAATTTTAGCCGAAATCATGTACGT--TATCACGATTTTTGGCAAAAA
258 TCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTAC-TAACATCAC-ATTTTTGGC----A
*
42345 AAAAACGC-ATTCTG
317 AAAAACGCGTTTC-G
* *
42359 GGGCCCCGGCTCAATTTTGTATGATTTTTGGCGCCGAGACTCCTTGAATTATCTATATTCATCTA
1 GAGCCCCGGCTCAATTTTGCATGATTTTTGGCGCCGAGACTCCTTGAATTATCTATATTCATCTA
* * * * *
42424 GCTAAATCTCAGTCACATTAGATTGAAGGATTTCTTTTTATGAGCTTCTGAATCTTCA-TTCGAT
66 ACCAAATCTCAGTCACATTGGATTTAAGGATTTCTTTTTACGAGCTTCTGAATCTT-ATTTCGAT
* *
42488 TTAATTAAAAATCAATTCA-AAAGAAATAAGAAAATGATATTAGAACCTTGAAAAACTCTTCAAT
130 TTAATTAAAAAT-AATTCAGAAAAAAATAAGAAAATGATATTAGAAGCTTGAAAAACTCTTCAAT
*
42552 AGTTTTGGT
194 ATTTTTGGT
Statistics
Matches: 1580, Mismatches: 198, Indels: 124
0.83 0.10 0.07
Matches are distributed among these distances:
310 142 0.09
311 2 0.00
313 25 0.02
314 93 0.06
315 14 0.01
320 3 0.00
321 2 0.00
324 34 0.02
325 71 0.04
326 28 0.02
327 2 0.00
328 140 0.09
329 22 0.01
330 157 0.10
331 118 0.07
332 181 0.11
333 66 0.04
334 311 0.20
335 34 0.02
336 132 0.08
337 3 0.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.36
Consensus pattern (330 bp):
GAGCCCCGGCTCAATTTTGCATGATTTTTGGCGCCGAGACTCCTTGAATTATCTATATTCATCTA
ACCAAATCTCAGTCACATTGGATTTAAGGATTTCTTTTTACGAGCTTCTGAATCTTATTTCGATT
TAATTAAAAATAATTCAGAAAAAAATAAGAAAATGATATTAGAAGCTTGAAAAACTCTTCAATAT
TTTTGGTGTTAAATTATAGAGTTTTTATGAGTGTTGTGGCCAAAAATTGAGGAAAATATTTTTCG
GGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTAACATCACATTTTTGGCAAAAAACGCG
TTTCG
Done.