Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01010336.1 Corchorus capsularis cultivar CVL-1 contig10357, 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: 83121
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Found at i:42037 original size:19 final size:20
Alignment explanation
Indices: 41991--42038 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
41981 TGTGGCACGC
*
41991 CACATGTACCAAAAAGTCGTGC
1 CACATGTACCAAAAA--CGTGA
42013 CACATGTACCAAAAA-GTGA
1 CACATGTACCAAAAACGTGA
42032 CACATGT
1 CACATGT
42039 CACGCCACGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 10 0.40
22 15 0.60
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CACATGTACCAAAAACGTGA
Found at i:42044 original size:53 final size:53
Alignment explanation
Indices: 41959--42060 Score: 150
Period size: 53 Copynumber: 1.9 Consensus size: 53
41949 ACGTGGCACA
* **
41959 CCACGTGTACAAAAAAGTGACATGTGGCACGCCACATGTACCAAAAAGTCGTG
1 CCACATGTACAAAAAAGTGACACATGGCACGCCACATGTACCAAAAAGTCGTG
* * *
42012 CCACATGTACCAAAAAGTGACACATGTCACGCCACGTGTACCAAAAAGT
1 CCACATGTACAAAAAAGTGACACATGGCACGCCACATGTACCAAAAAGT
42061 GACACGTGGC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.17
Consensus pattern (53 bp):
CCACATGTACAAAAAAGTGACACATGGCACGCCACATGTACCAAAAAGTCGTG
Found at i:42077 original size:31 final size:31
Alignment explanation
Indices: 42010--42108 Score: 117
Period size: 31 Copynumber: 3.2 Consensus size: 31
42000 CAAAAAGTCG
* *
42010 TGCCACATGTACCAAAAAGTGACACATGTCA
1 TGCCACATGTACCAAAAAGTGACACGTGGCA
* *
42041 CGCCACGTGTACCAAAAAGTGACACGTGGCA
1 TGCCACATGTACCAAAAAGTGACACGTGGCA
** * * *
42072 TGCCACATGTTTCAAAAAATGGCACGTTGCA
1 TGCCACATGTACCAAAAAGTGACACGTGGCA
42103 TGCCAC
1 TGCCAC
42109 GTGCACAAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.19
Consensus pattern (31 bp):
TGCCACATGTACCAAAAAGTGACACGTGGCA
Found at i:44212 original size:20 final size:20
Alignment explanation
Indices: 44187--44229 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
44177 TGAAAAGCTG
44187 AAACCCTTCTTTTGCTGTCA
1 AAACCCTTCTTTTGCTGTCA
*
44207 AAACCCTTTTTTTGCTGTCA
1 AAACCCTTCTTTTGCTGTCA
44227 AAA
1 AAA
44230 AGTGCTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (20 bp):
AAACCCTTCTTTTGCTGTCA
Found at i:48215 original size:6 final size:6
Alignment explanation
Indices: 48201--48238 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
48191 TAATCCACTT
*
48201 GGTGGA GGTGCA GGTGGA GGTGGA GGTGGA GGTGGA GG
1 GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GG
48239 GTTTGGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.16, C:0.03, G:0.66, T:0.16
Consensus pattern (6 bp):
GGTGGA
Found at i:56943 original size:24 final size:24
Alignment explanation
Indices: 56889--56940 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
56879 CATTATCACA
*
56889 CTTTTTTTCCTCTTTCAATTTCTT
1 CTTTATTTCCTCTTTCAATTTCTT
**
56913 CTTTATTTCTCTCTTTCGTTTTCTT
1 CTTTATTTC-CTCTTTCAATTTCTT
56938 CTT
1 CTT
56941 ATTACTTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.06, C:0.25, G:0.02, T:0.67
Consensus pattern (24 bp):
CTTTATTTCCTCTTTCAATTTCTT
Found at i:63023 original size:29 final size:29
Alignment explanation
Indices: 62991--63046 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
62981 TTTAAACTTA
62991 TCTATCATTCTTTTATTCACAATCCCCTT
1 TCTATCATTCTTTTATTCACAATCCCCTT
* *
63020 TCTATCATTTTTTTTTTCACAATCCCC
1 TCTATCATTCTTTTATTCACAATCCCC
63047 CGGCACACGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.20, C:0.30, G:0.00, T:0.50
Consensus pattern (29 bp):
TCTATCATTCTTTTATTCACAATCCCCTT
Found at i:67405 original size:15 final size:16
Alignment explanation
Indices: 67374--67405 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
67364 ACTACTTCAG
67374 TTTCACTTCTCTGTTT
1 TTTCACTTCTCTGTTT
67390 TTTC-CTTCT-TGTTT
1 TTTCACTTCTCTGTTT
67404 TT
1 TT
67406 GCCTTTATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 5 0.31
16 4 0.25
ACGTcount: A:0.03, C:0.22, G:0.06, T:0.69
Consensus pattern (16 bp):
TTTCACTTCTCTGTTT
Found at i:79286 original size:332 final size:331
Alignment explanation
Indices: 78125--81109 Score: 2775
Period size: 332 Copynumber: 9.1 Consensus size: 331
78115 TCGGGTCAAT
** * * * * * * * * *
78125 TTTTAGCCGAAATTATGTACTGATCATCACAGTTTTTTTGCTAAAAACGCTTTCCGGGCCCCGAC
1 TTTTAGCCGAAATCGTGTACTAATCATCAC-GGTTTCTGGCTGAAAACGCGTTCCGGACCCTGGC
* * * * *
78190 TCAGTTTTGCATGATTTTTGGC-GCAAAGACTCCTTGAAATATCTATATTTATCGAA-CAAAATG
65 TCAGTTTTGCATGATTTTTGGCATC-GAGATTCCTTGAAATATCTATATTCATCTAATC-AAAT-
* * * * * * *
78253 CT-GGCCACATTCGAT-TCAACGATTTGCTTTTACGAGCATTTGAATCTTGTTTCGATTTGATTA
127 CTCAGCCACATTCGATGT-AAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATCA
* * ** ** * * * *
78316 GAAATTAATTAAGAAAAAAA-ATGGAAAAACGATATTAGAAGCGCGAAAAACCCTTCAACCGTTT
191 GAAATTAATT-TGAAAAAAATA-GGAAAAACCATATTTCAAGCATGAAAAGCCCATAAATC-TTT
* * ** * *
78380 TGGCA-TTGAATTATATATTTTTTCTGAGTATTGT-GGCAAAAAATTGA-GAAAAAAATTTTCGG
253 TTGAAGTTGAATTATATATTTTTAATGAGTATTGTAGTC-AAAAATTGAGGAAAAATA-TTTCGG
*
78442 GTCAATTTTT-----A
316 TTCAATTTTTGCAAAA
* * * * * * * *
78453 ----A-CCGAAATCGTGTACTAATTATCACGATTTTTTTGCT-AAACCACTTTCCAGG-GCCTCG
1 TTTTAGCCGAAATCGTGTACTAATCATCACG-GTTTCTGGCTGAAAACGCGTTCC-GGACCCT-G
* * * ** * * *
78511 ACTCAGTTTTGCATGGTTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATC
63 GCTCAGTTTTGCATGATTTTTGGCATCGAGATTCCTTGAAATATCTATATTCATCTAATCAAATC
* * * * * *
78576 CCAGCCACATTCGCTTTAACGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGA
128 TCAGCCACATTCGATGTAAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATCAGA
* ** *** * * * * *
78641 AATTAATTCGAAAAAAAT-GG-AAAACGGGTATAAAAAGCGTGAAAAAAG-CCTTCAACCGTTTT
193 AATTAATTTGAAAAAAATAGGAAAAAC-CATATTTCAAGCATG--AAAAGCCCATAAATCTTTTT
* * ** * * * * *
78703 GGA-TTGAATTATGTATTTTTTTTCTAAGTATTGT-GGCAAAAAATTGAGAAAAAAT-TTTTGGG
255 GAAGTTGAATTA--TATATTTTTAATGAGTATTGTAGTC-AAAAATTGAGGAAAAATATTTCGGT
78765 TCAATTTTT-C----
317 TCAATTTTTGCAAAA
* * * * * * * * *
78775 -----GCAGAAATTGTGTATTAA-CTATCACAGTTTTTTTTTGCTAAAAAGGCTTTCC-GACGCC
1 TTTTAGCCGAAATCGTGTACTAATC-ATCAC-G--GTTTCTGGCTGAAAACGCGTTCCGGA--CC
* ** * * * ** * * * * *
78833 CCGATTCAGTTTTACAAGATTTTTGGCGTAAAGACTCTTTGAAATATTTATATTCATCGAACCAA
60 CTGGCTCAGTTTTGCATGATTTTTGGCATCGAGATTCCTTGAAATATCTATATTCATCTAATCAA
* * * * * * *
78898 ATCCCAGCCAAATTTGATGTAACGATTTGTTTTTTCGAGCATTTGAATCTTGTTTCGATTTAATC
125 ATCTCAGCCACATTCGATGTAAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATC
* * *
78963 AGAAATTAATTTG-AAAAAACAGGAAAAACCATATTTCAAACATGAAAAGCCCATAAATCTTTAT
190 AGAAATTAATTTGAAAAAAATAGGAAAAACCATATTTCAAGCATGAAAAGCCCATAAATCTTTTT
* * * *
79027 GACGTTGAATTATATATTTTTAATGAGTATAT-TAGTCAAAAATTGAGAAAAAAACATATCGAG-
255 GAAGTTGAATTATATATTTTTAATGAGTAT-TGTAGTCAAAAATTGAG-GAAAAATATTTCG-GT
79090 TCAATTTTTTTGCAAAA
317 TCAA--TTTTTGCAAAA
* * *
79107 TTTTAGCCGAAATCGTGTACAAACCATCACGGTTTCTGGCTAAAAACGCGTTCCGG-CCCTGGCT
1 TTTTAGCCGAAATCGTGTACTAATCATCACGGTTTCTGGCTGAAAACGCGTTCCGGACCCTGGCT
* * * *
79171 CAGTTTAGCATAATTTTTGGCATTGAGATTTCTTGAAATATCTATATTCATCTAATCAAATCTCA
66 CAGTTTTGCATGATTTTTGGCATCGAGATTCCTTGAAATATCTATATTCATCTAATCAAATCTCA
* *
79236 GCCATATTCGATGTAAAGATTTATTTTTACGAGCATCTAAATCTTGTTTCGATTTAATCAGAAAT
131 GCCACATTCGATGTAAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATCAGAAAT
* * * * *
79301 TAATTTGAAAAAAATAGGAAAAACCATATTTGAAGCATGAAAAGCCTATAAATCCTTATGATG-T
196 TAATTTGAAAAAAATAGGAAAAACCATATTTCAAGCATGAAAAGCCCATAAATCTTTTTGAAGTT
* * * *
79365 GAATTATATATTTGTAATGAGTATTTTAGTCAAAAATTGA-GAAAAATCATATCGGGTCAATTTT
261 GAATTATATATTTTTAATGAGTATTGTAGTCAAAAATTGAGGAAAAAT-ATTTCGGTTCAA-TTT
*
79429 TTACAAAA
324 TTGCAAAA
* * * * * ** *
79437 TTTCAGCCGAAATCGTGAACAAACCATCACGGTTTCTGGATGAAAACGCGTTATGAGGTCCC-GG
1 TTTTAGCCGAAATCGTGTACTAATCATCACGGTTTCTGGCTGAAAACGCG-T-TCCGGACCCTGG
* *
79501 CTCAGTTTTGCATGATTTTTGGCGTCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCT
64 CTCAGTTTTGCATGATTTTTGGCATCGAGATTCCTTGAAATATCTATATTCATCTAATCAAATCT
* * * *
79566 AAGCCATATTCGATGTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAA
129 CAGCCACATTCGATGTAAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATCAGAA
*
79631 ATTAATTTGAAAAAAAAAGGAAAAA--ATATTTCAAGCATGAAAAGCCCATAAATCTTTTTGAAG
194 ATTAATTTGAAAAAAATAGGAAAAACCATATTTCAAGCATGAAAAGCCCATAAATCTTTTTGAAG
* * * * * * *
79694 TTGAATTGTACATTTTTTATGAGTATTGTGGCCAAAAATTGAAGAAAAATATTTTGGTTCAATTT
259 TTGAATTATATATTTTTAATGAGTATTGTAGTCAAAAATTGAGGAAAAATATTTCGGTTCAATTT
79759 TTGCAAAA
324 TTGCAAAA
* * * * *
79767 TTTTAGCCGAAATCGTGTACTAATCATCACGGTTTCTCGCTGAAAACGCGGTACGAGGCCCTGAC
1 TTTTAGCCGAAATCGTGTACTAATCATCACGGTTTCTGGCTGAAAACGCGTTCCG-GACCCTGGC
* * *
79832 TTAGTTTTGCATGATTTTTGGCATCGAGATTCCTTCAAATATCTATATTCATCTAATTAAATCTC
65 TCAGTTTTGCATGATTTTTGGCATCGAGATTCCTTGAAATATCTATATTCATCTAATCAAATCTC
* * * * * * *
79897 AGCCACATTGGATTTAAAGATTTATTTTTATGAACATCTCAATCATGTTTCGATTTAATCAGAAA
130 AGCCACATTCGATGTAAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATCAGAAA
** * *
79962 TTAATTTGCAAAAAAAATAGGTTAAAGCATATTTAAAGCATGAAAAGCCCATAAATCTTTTTGAA
195 TTAATTTG--AAAAAAATAGGAAAAACCATATTTCAAGCATGAAAAGCCCATAAATCTTTTTGAA
* * * * *
80027 TTTG-ATTATATATTTTTTATGACTATTGT-GGCTAAAAATTTAGGAAAAATATTTCGGTTCAAT
258 GTTGAATTATATATTTTTAATGAGTATTGTAGTC-AAAAATTGAGGAAAAATATTTCGGTTCAAT
*
80090 TTTTGCAATA
322 TTTTGCAAAA
* ** * * *
80100 TTTTAGACGAAATCGCATACTAATCATCACGGTTTCTGGCTGAAAATGAGTTCCGGGACACT-GC
1 TTTTAGCCGAAATCGTGTACTAATCATCACGGTTTCTGGCTGAAAACGCGTTCC-GGACCCTGGC
* * * *
80164 TCAGTTTTGCATGATTTTTGGCGTAC-AGACTT-TTTGAAATATATATATTCATCTAATCAAATA
65 TCAGTTTTGCATGATTTTTGGCAT-CGAGA-TTCCTTGAAATATCTATATTCATCTAATCAAATC
* * * * *
80227 TCAGCAATATTCGATGTAAGGATTTGTTTTTATGAGCATCTAAATCTTGTTTCGATTTAATAAGA
128 TCAGCCACATTCGATGTAAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATCAGA
** * *
80292 AATTAATTTG-AAAAAATAGGAAAAAAAATATTTCAAGCATGAAAAGCCCATAAATATTTTTGAT
193 AATTAATTTGAAAAAAATAGGAAAAACCATATTTCAAGCATGAAAAGCCCATAAATCTTTTTGAA
* * * *
80356 GTTGAATTAT-TCATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAATATTTTGGTTCAAT
258 GTTGAATTATAT-ATTTTTAATGAGTATTGTAGTCAAAAATTGAGGAAAAATATTTCGGTTCAAT
80420 TTTTGCAAAA
322 TTTTGCAAAA
* * * * *
80430 TTTTAGCCGAAATCGTGAACTAATCATCACAGTTTCTGGCTGAAAACGCGGTACGGGGCCCTGGC
1 TTTTAGCCGAAATCGTGTACTAATCATCACGGTTTCTGGCTGAAAACGC-GTTCCGGACCCTGGC
* * * * *
80495 TCAGTTTTGCATGATTTTTGGTATCGAGATTCCTTCAAATATCTATATTCATTTAATTAAATCTA
65 TCAGTTTTGCATGATTTTTGGCATCGAGATTCCTTGAAATATCTATATTCATCTAATCAAATCTC
* * * * *
80560 AGCCACATTGGATTTAAGGATTTGTTTTTATGAGCATCTCAATCTTGTTTCGATTTAATCAGAAA
130 AGCCACATTCGATGTAAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATCAGAAA
* *
80625 TTAATTTGGAAAAAATAGGAAAAACCATATTTAAAGCATGAAAAGCCCATAAATCTTTTTGAAGT
195 TTAATTTGAAAAAAATAGGAAAAACCATATTTCAAGCATGAAAAGCCCATAAATCTTTTTGAAGT
* * *
80690 TG-ATTATATATTTCTT-ATGAGTATTGT-GGCTAAAAATTGAAGAAAAATATTTTGGTTCAATT
260 TGAATTATATATTT-TTAATGAGTATTGTAGTC-AAAAATTGAGGAAAAATATTTCGGTTCAATT
80752 TTTGCAAAA
323 TTTGCAAAA
* * * *
80761 ATTTAGCCGAAATCGCGTACGAATCATCACGGTTTCTGGCTGAAAACGCGTTCCGGGACCCCGGC
1 TTTTAGCCGAAATCGTGTACTAATCATCACGGTTTCTGGCTGAAAACGCGTTCC-GGACCCTGGC
* * ** * * *
80826 TCAGTTTTGCATGACTTTCGGTGTCGAGACTCCTTCAAATATCTATATTCTTCTAATCAAATCTC
65 TCAGTTTTGCATGATTTTTGGCATCGAGATTCCTTGAAATATCTATATTCATCTAATCAAATCTC
* * * *
80891 AGCCACATTGGAT-TTAAGTATTTGTTTTTACGAGCATC-AGAATCTTGTTTCGGTTTAATCAGT
130 AGCCACATTCGATGTAAAG-ATTTGTTTTTACGAGCATCTA-AATCTTGTTTCGATTTAATCAGA
* * * * * * *
80954 AATTAACTTGAAAAAAATAGGAAAAACCATACTTGAAGCACGAAAAG-CCATCAATCTTTATGAT
193 AATTAATTTGAAAAAAATAGGAAAAACCATATTTCAAGCATGAAAAGCCCATAAATCTTTTTGAA
* * * * *
81018 GTTGAATTATATATTTTGAAAGA-TGATTTTA-TCCAAAAATTGA-GAAAAATCATATCGGGTCA
258 GTTGAATTATATATTTTTAATGAGT-ATTGTAGT-CAAAAATTGAGGAAAAAT-ATTTCGGTTCA
81080 ATTTTTTGCAAAA
320 A-TTTTTGCAAAA
81093 TTTTAGCCGAAATCGTG
1 TTTTAGCCGAAATCGTG
81110 ACCCCGGCTC
Statistics
Matches: 2262, Mismatches: 309, Indels: 168
0.83 0.11 0.06
Matches are distributed among these distances:
320 5 0.00
321 26 0.01
322 65 0.03
323 222 0.10
324 43 0.02
325 161 0.07
326 8 0.00
327 5 0.00
328 3 0.00
329 55 0.02
330 418 0.18
331 478 0.21
332 530 0.23
333 163 0.07
334 58 0.03
335 1 0.00
336 1 0.00
337 19 0.01
338 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (331 bp):
TTTTAGCCGAAATCGTGTACTAATCATCACGGTTTCTGGCTGAAAACGCGTTCCGGACCCTGGCT
CAGTTTTGCATGATTTTTGGCATCGAGATTCCTTGAAATATCTATATTCATCTAATCAAATCTCA
GCCACATTCGATGTAAAGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATCAGAAAT
TAATTTGAAAAAAATAGGAAAAACCATATTTCAAGCATGAAAAGCCCATAAATCTTTTTGAAGTT
GAATTATATATTTTTAATGAGTATTGTAGTCAAAAATTGAGGAAAAATATTTCGGTTCAATTTTT
GCAAAA
Found at i:80274 original size:994 final size:991
Alignment explanation
Indices: 78512--81107 Score: 3099
Period size: 994 Copynumber: 2.6 Consensus size: 991
78502 AGGGCCTCGA
* ** * * *
78512 CTCAGTTTTGCATGGTTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCC
1 CTCAGTTTTGCATGATTTTTGGCGTCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCT
* * * *
78577 CAGCCACATTCGCTTTAACGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAA
66 AAGCCACATTCGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAA
* * ** ** * * * * * *
78642 ATTAATTCGAAAAAAATGGAAAACGGGTATAAAAAGCGTGAAAAAAG-CCTTCAACCGTTTTGGA
131 ATTAATTTGAAAAAAAAGGAAAA--AATATTTAAAGCATG--AAAAGCCCATAAATCTTTTTGAA
* * * *
78706 -TTGAATTATGTATTTTTTTTCTAAGTATTGTGGCAAAAAATTG-AGAAAAA-ATTTTTGGGTCA
192 GTTGAA-T-TGTATATTTTTTATGAGTATTGTGGCAAAAAATTGAAGAAAAATA-TTTTGGTTCA
* * * * * * * * *
78768 ATTTTT-C--------GCAGAAATTGTGTATTAA-CTATCACAGTTTTTTTTTGCTAAAAAGGCT
254 ATTTTTGCAAAATTTAGCCGAAATCGTGTACTAATC-ATCAC-G--GTTTCTCGCTGAAAACGCG
* * * ** * * *
78823 TTCCGACGCCCCGA-TTCAGTTTTACAAGATTTTTGGCGTAAAGACTCTTTGAAATATTTATATT
315 TTCCGAGGCCCCGACTT-AGTTTTGCATGATTTTTGGCGTCGAGACTCCTTCAAATATCTATATT
* * * * * * * *
78887 CATCGAACCAAATCCCAGCCAAATTTGATGTAACGATTTGTTTTT-TCGAGCATTTGAATCTTGT
379 CATCTAATCAAATCTCAGCCACATTGGATTTAAAGATTTGTTTTTAT-GAGCATCTGAATCTTGT
*
78951 TTCGATTTAATCAGAAATTAATTTG-AAAAAACAGGAAAAACCATATTTCAAA-CATGAAAAGCC
443 TTCGATTTAATCAGAAATTAATTTGAAAAAAATAGGAAAAACCATATTT-AAAGCATGAAAAGCC
** *
79014 CATAAATCTTTATGACGTTGAATTATATATTTTTAATGAGTATATTAGTCAAAAATTGAGAAAAA
507 CATAAATCTTTATGAATTTGAATTATATATTTTTAATGACTATATTAGTCAAAAATTGAGAAAAA
* **
79079 AACATATCGAGTCAATTTTTTTGCAAAATTTTAGCCGAAATCGTGTACAAACCATCACGGTTTCT
572 AACATATCGAGTCAA-TTTTTTGCAAAATTTTAGACGAAATCGCATACAAACCATCACGGTTTCT
* * **
79144 GGCTAAAAACGCGTTCCGGCCCTGGCTCAGTTTAGCATAATTTTTGGCATTGAGATTTCTTGAAA
636 GGCTAAAAACGAGTTCCGGCACTGGCTCAGTTTAGCATAATTTTTGGCATACAGATTTCTTGAAA
* * *
79209 TATCTATATTCATCTAATCAAATCTCAGCCATATTCGATGTAAAGATTTATTTTTACGAGCATCT
701 TATATATATTCATCTAATCAAATATCAGCAATATTCGATGTAAAGATTTATTTTTACGAGCATCT
* ** *
79274 AAATCTTGTTTCGATTTAATCAGAAATTAATTTGAAAAAAATAGGAAAAACCATATTTGAAGCAT
766 AAATCTTGTTTCGATTTAATAAGAAATTAATTTG-AAAAAATAGGAAAAAAAATATTTCAAGCAT
* * * *
79339 GAAAAGCCTATAAATCCTTATGATG-TGAATTATAT-ATTTGTAATGAGTATTTTAGTCAAAAAT
830 GAAAAGCCCATAAATACTTATGATGTTGAATTAT-TCATTTGTAATGAGTATTGTAGCCAAAAAT
79402 TGA-GAAAAATCATATCGGGTCAATTTTTTACAAAATTTCAGCCGAAATCGTGAACAAACCATCA
894 TGAGGAAAAAT-ATATCGGGTCAA-TTTTTACAAAATTTCAGCCGAAATCGTGAACAAACCATCA
* * * *
79466 CGGTTTCTGGATGAAAACGCGTTATGAGGTCCC-GG
957 CAGTTTCTGGATGAAAACGCGGTACG-GGGCCCTGG
79501 CTCAGTTTTGCATGATTTTTGGCGTCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCT
1 CTCAGTTTTGCATGATTTTTGGCGTCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCT
* *
79566 AAGCCATATTCGATGTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAA
66 AAGCCACATTCGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAA
*
79631 ATTAATTTGAAAAAAAAAGGAAAAAATATTTCAAGCATGAAAAGCCCATAAATCTTTTTGAAGTT
131 ATTAATTTG-AAAAAAAAGGAAAAAATATTTAAAGCATGAAAAGCCCATAAATCTTTTTGAAGTT
* *
79696 GAATTGTACATTTTTTATGAGTATTGTGGCCAAAAATTGAAGAAAAATATTTTGGTTCAATTTTT
195 GAATTGTATATTTTTTATGAGTATTGTGGCAAAAAATTGAAGAAAAATATTTTGGTTCAATTTTT
* *
79761 GCAAAATTTTAGCCGAAATCGTGTACTAATCATCACGGTTTCTCGCTGAAAACGCGGTACGAGGC
260 GCAAAA-TTTAGCCGAAATCGTGTACTAATCATCACGGTTTCTCGCTGAAAACGCGTTCCGAGGC
* * * *
79826 CCTGACTTAGTTTTGCATGATTTTTGGCATCGAGATTCCTTCAAATATCTATATTCATCTAATTA
324 CCCGACTTAGTTTTGCATGATTTTTGGCGTCGAGACTCCTTCAAATATCTATATTCATCTAATCA
* * * *
79891 AATCTCAGCCACATTGGATTTAAAGATTTATTTTTATGAACATCTCAATCATGTTTCGATTTAAT
389 AATCTCAGCCACATTGGATTTAAAGATTTGTTTTTATGAGCATCTGAATCTTGTTTCGATTTAAT
** *
79956 CAGAAATTAATTTGCAAAAAAAATAGGTTAAAGCATATTTAAAGCATGAAAAGCCCATAAATCTT
454 CAGAAATTAATTTG--AAAAAAATAGGAAAAACCATATTTAAAGCATGAAAAGCCCATAAATCTT
* * * * * * *
80021 TTTGAATTTG-ATTATATATTTTTTATGACTAT-TGT-GGCTAAAAATTTAG-GAAAAATATTTC
517 TATGAATTTGAATTATATATTTTTAATGACTATAT-TAGTC-AAAAATTGAGAAAAAAACATATC
* * * *
80082 G-GTTCAA-TTTTTGCAATATTTTAGACGAAATCGCATACTAATCATCACGGTTTCTGGCTGAAA
580 GAG-TCAATTTTTTGCAAAATTTTAGACGAAATCGCATACAAACCATCACGGTTTCTGGCTAAAA
* * * *
80145 ATGAGTTCCGGGACACT-GCTCAGTTTTGCATGATTTTTGGCGTACAGACTTT-TTGAAATATAT
644 ACGAGTTCC-GG-CACTGGCTCAGTTTAGCATAATTTTTGGCATACAGA-TTTCTTGAAATATAT
* * *
80208 ATATTCATCTAATCAAATATCAGCAATATTCGATGTAAGGATTTGTTTTTATGAGCATCTAAATC
706 ATATTCATCTAATCAAATATCAGCAATATTCGATGTAAAGATTTATTTTTACGAGCATCTAAATC
80273 TTGTTTCGATTTAATAAGAAATTAATTTGAAAAAATAGGAAAAAAAATATTTCAAGCATGAAAAG
771 TTGTTTCGATTTAATAAGAAATTAATTTGAAAAAATAGGAAAAAAAATATTTCAAGCATGAAAAG
* * * * *
80338 CCCATAAATATTTTTGATGTTGAATTATTCATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAA
836 CCCATAAATACTTATGATGTTGAATTATTCATTTGTAATGAGTATTGTAGCCAAAAATTGAGGAA
* * * * * * *
80403 AAATATTTTGGTTCAATTTTTGCAAAATTTTAGCCGAAATCGTGAACTAATCATCACAGTTTCTG
901 AAATATATCGGGTCAATTTTTACAAAATTTCAGCCGAAATCGTGAACAAACCATCACAGTTTCTG
*
80468 GCTGAAAACGCGGTACGGGGCCCTGG
966 GATGAAAACGCGGTACGGGGCCCTGG
** * * * *
80494 CTCAGTTTTGCATGATTTTTGGTATCGAGATTCCTTCAAATATCTATATTCATTTAATTAAATCT
1 CTCAGTTTTGCATGATTTTTGGCGTCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCT
* * * *
80559 AAGCCACATTGGATTTAAGGATTTGTTTTTATGAGCATCTCAATCTTGTTTCGATTTAATCAGAA
66 AAGCCACATTCGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAA
*
80624 ATTAATTTGGAAAAAATAGGAAAAACCATATTTAAAGCATGAAAAGCCCATAAATCTTTTTGAAG
131 ATTAATTT-GAAAAAAAAGGAAAAA--ATATTTAAAGCATGAAAAGCCCATAAATCTTTTTGAAG
* * *
80689 TTG-ATTATATATTTCTTATGAGTATTGTGGCTAAAAATTGAAGAAAAATATTTTGGTTCAATTT
193 TTGAATTGTATATTTTTTATGAGTATTGTGGCAAAAAATTGAAGAAAAATATTTTGGTTCAATTT
* * *
80753 TTGCAAAAATTTAGCCGAAATCGCGTACGAATCATCACGGTTTCTGGCTGAAAACGCGTTCCG-G
258 TTGC-AAAATTTAGCCGAAATCGTGTACTAATCATCACGGTTTCTCGCTGAAAACGCGTTCCGAG
* * * * * *
80817 GACCCCGGCTCAGTTTTGCATGACTTTCGGTGTCGAGACTCCTTCAAATATCTATATTCTTCTAA
322 G-CCCCGACTTAGTTTTGCATGATTTTTGGCGTCGAGACTCCTTCAAATATCTATATTCATCTAA
* * *
80882 TCAAATCTCAGCCACATTGGATTT-AAGTATTTGTTTTTACGAGCATCAGAATCTTGTTTCGGTT
386 TCAAATCTCAGCCACATTGGATTTAAAG-ATTTGTTTTTATGAGCATCTGAATCTTGTTTCGATT
* * * * * *
80946 TAATCAGTAATTAACTTGAAAAAAATAGGAAAAACCATACTTGAAGCACGAAAAG-CCATCAATC
450 TAATCAGAAATTAATTTGAAAAAAATAGGAAAAACCATATTTAAAGCATGAAAAGCCCATAAATC
* * * *
81010 TTTATG-ATGTTGAATTATATATTTTGAAAGA-TGATTTTA-TCCAAAAATTGAG-AAAAATCAT
515 TTTATGAAT-TTGAATTATATATTTTTAATGACT-ATATTAGT-CAAAAATTGAGAAAAAAACAT
* *
81071 ATCGGGTCAATTTTTTGCAAAATTTTAGCCGAAATCG
577 ATCGAGTCAATTTTTTGCAAAATTTTAGACGAAATCG
81108 TGACCCCGGC
Statistics
Matches: 1374, Mismatches: 187, Indels: 88
0.83 0.11 0.05
Matches are distributed among these distances:
986 35 0.03
987 35 0.03
988 16 0.01
989 126 0.09
990 15 0.01
991 17 0.01
992 76 0.06
993 337 0.25
994 538 0.39
995 77 0.06
996 34 0.02
997 67 0.05
998 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.36
Consensus pattern (991 bp):
CTCAGTTTTGCATGATTTTTGGCGTCGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCT
AAGCCACATTCGATTTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATTTAATTAGAA
ATTAATTTGAAAAAAAAGGAAAAAATATTTAAAGCATGAAAAGCCCATAAATCTTTTTGAAGTTG
AATTGTATATTTTTTATGAGTATTGTGGCAAAAAATTGAAGAAAAATATTTTGGTTCAATTTTTG
CAAAATTTAGCCGAAATCGTGTACTAATCATCACGGTTTCTCGCTGAAAACGCGTTCCGAGGCCC
CGACTTAGTTTTGCATGATTTTTGGCGTCGAGACTCCTTCAAATATCTATATTCATCTAATCAAA
TCTCAGCCACATTGGATTTAAAGATTTGTTTTTATGAGCATCTGAATCTTGTTTCGATTTAATCA
GAAATTAATTTGAAAAAAATAGGAAAAACCATATTTAAAGCATGAAAAGCCCATAAATCTTTATG
AATTTGAATTATATATTTTTAATGACTATATTAGTCAAAAATTGAGAAAAAAACATATCGAGTCA
ATTTTTTGCAAAATTTTAGACGAAATCGCATACAAACCATCACGGTTTCTGGCTAAAAACGAGTT
CCGGCACTGGCTCAGTTTAGCATAATTTTTGGCATACAGATTTCTTGAAATATATATATTCATCT
AATCAAATATCAGCAATATTCGATGTAAAGATTTATTTTTACGAGCATCTAAATCTTGTTTCGAT
TTAATAAGAAATTAATTTGAAAAAATAGGAAAAAAAATATTTCAAGCATGAAAAGCCCATAAATA
CTTATGATGTTGAATTATTCATTTGTAATGAGTATTGTAGCCAAAAATTGAGGAAAAATATATCG
GGTCAATTTTTACAAAATTTCAGCCGAAATCGTGAACAAACCATCACAGTTTCTGGATGAAAACG
CGGTACGGGGCCCTGG
Found at i:80710 original size:331 final size:332
Alignment explanation
Indices: 78180--82326 Score: 3701
Period size: 331 Copynumber: 12.7 Consensus size: 332
78170 AACGCTTTCC
* * * * * * * *
78180 GGGCCCCGACTCAGTTTTGCATGATTTTTGGC-GCAAAGACTCCTTGAAATATCTATATTTATCG
1 GGGCCCTGGCTCAGTTTTGCATGATTTTTGGCATC-GAGATTCCTTCAAATATCTATATTCATCT
* * * * * * * *
78244 AA-CAAAATGCT-GGCCACATTCGATTCAACGATTTGCTTTTACGAGCATTTGAATCTTGTTTCG
65 AATC-AAAT-CTCAGCCACATTGGATTTAAGGATTTGTTTTTATGAGCATCTAAATCTTGTTTCG
* * * * ** * *
78307 ATTTGATTAGAAATTAATTAAGAAAAAAA-ATGGAAAAACGATA-TTAGAAGCGCGAAAAACCCT
128 ATTTAATCAGAAATTAATT-TGAAAAAAATA-GGAAAAACCATATTTA-AAGCATGAAAAGCCCA
* * * * * *
78370 TCAACCGTTTTGGCA-TTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGA-GAAAAA
190 TAAATC-TTTTTGAAGTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAA
* * * * * * *
78433 AATTTTCGGGTCAATTTTT-----A----A-CCGAAATCGTGTACTAATTATCACGATTTTTTTG
254 TA-TTTCGGTTCAATTTTTGCAAAATTTTAGCCGAAATCGTGAACTAATCATCACG-GTTTCTGG
* * ** * *
78488 CT-AAACCACTTTCCA
317 CTGAAAACGCGGTACG
* * * ** * * *
78503 GGG-CCTCGACTCAGTTTTGCATGGTTTTTGGCGTAAAGACTCCTTGAAATATCTATATTCATCG
1 GGGCCCT-GGCTCAGTTTTGCATGATTTTTGGCATCGAGATTCCTTCAAATATCTATATTCATCT
* * * * * * *
78567 AACCAAATCCCAGCCACATTCGCTTTAACGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGAT
65 AATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTATGAGCATCTAAATCTTGTTTCGAT
* * ** ** * * *
78632 TTAATTAGAAATTAATTCGAAAAAAAT-GG-AAAACGGGTATAAAAAGCGTGAAAAAAG-CCTTC
130 TTAATCAGAAATTAATTTGAAAAAAATAGGAAAAAC-CATATTTAAAGCATG--AAAAGCCCATA
* * * * * * * *
78694 AACCGTTTTGGA-TTGAATTATGTATTTTTTTTCTAAGTATTGTGGCAAAAAATTGAGAAAAAAT
192 AATCTTTTTGAAGTTGAATTA--TATATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAAT
* * * * * * *
78758 -TTTTGGGTCAATTTTTCGCAGAAA--TT-G-TG-TAT--T-AACT-ATCA-CA-GTTTTTTTTT
255 ATTTCGGTTCAATTTTT-GCA-AAATTTTAGCCGAAATCGTGAACTAATCATCACG--GTTTCTG
* * ** *
78811 GCTAAAAAGGCTTTCCG
316 GCTGAAAACGCGGTACG
** * ** * * * ** * * * * *
78828 ACGCCCCGATTCAGTTTTACAAGATTTTTGGCGTAAAGACTCTTTGAAATATTTATATTCATCGA
1 GGGCCCTGGCTCAGTTTTGCATGATTTTTGGCATCGAGATTCCTTCAAATATCTATATTCATCTA
* * * * * * * *
78893 ACCAAATCCCAGCCAAATTTGATGTAACGATTTGTTTTT-TCGAGCATTTGAATCTTGTTTCGAT
66 ATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTAT-GAGCATCTAAATCTTGTTTCGAT
*
78957 TTAATCAGAAATTAATTTG-AAAAAACAGGAAAAACCATATTTCAAA-CATGAAAAGCCCATAAA
130 TTAATCAGAAATTAATTTGAAAAAAATAGGAAAAACCATATTT-AAAGCATGAAAAGCCCATAAA
* * * * * * *
79020 TCTTTATGACGTTGAATTATATATTTTTAATGAGTATAT-TAGTCAAAAATTGAGAAAAAAACAT
194 TCTTTTTGAAGTTGAATTATATATTTTTTATGAGTAT-TGTGGCCAAAAATTGAG-GAAAAATAT
* * * *
79084 ATCGAG-TCAATTTTTTTGCAAAATTTTAGCCGAAATCGTGTACAAACCATCACGGTTTCTGGCT
257 TTCG-GTTCAA--TTTTTGCAAAATTTTAGCCGAAATCGTGAACTAATCATCACGGTTTCTGGCT
* *
79148 AAAAACGC-GTTC-
319 GAAAACGCGGTACG
* * * * * *
79160 CGGCCCTGGCTCAGTTTAGCATAATTTTTGGCATTGAGATTTCTTGAAATATCTATATTCATCTA
1 GGGCCCTGGCTCAGTTTTGCATGATTTTTGGCATCGAGATTCCTTCAAATATCTATATTCATCTA
* * * * * *
79225 ATCAAATCTCAGCCATATTCGATGTAAAGATTTATTTTTACGAGCATCTAAATCTTGTTTCGATT
66 ATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTATGAGCATCTAAATCTTGTTTCGATT
* *
79290 TAATCAGAAATTAATTTGAAAAAAATAGGAAAAACCATATTTGAAGCATGAAAAGCCTATAAATC
131 TAATCAGAAATTAATTTGAAAAAAATAGGAAAAACCATATTTAAAGCATGAAAAGCCCATAAATC
* * * * * * * * *
79355 CTTATGATG-TGAATTATATATTTGTAATGAGTATTTTAGTCAAAAATTGA-GAAAAATCATATC
196 TTTTTGAAGTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAAT-ATTTC
* * * * * *
79418 GGGTCAATTTTTTACAAAATTTCAGCCGAAATCGTGAACAAACCATCACGGTTTCTGGATGAAAA
260 GGTTCAA-TTTTTGCAAAATTTTAGCCGAAATCGTGAACTAATCATCACGGTTTCTGGCTGAAAA
* *
79483 CGCGTTATG
324 CGCGGTACG
* * * *
79492 AGGTCCC-GGCTCAGTTTTGCATGATTTTTGGCGTCGAGACTCCTTGAAATATCTATATTCATCT
1 -GGGCCCTGGCTCAGTTTTGCATGATTTTTGGCATCGAGATTCCTTCAAATATCTATATTCATCT
* * * * *
79556 AATCAAATCTAAGCCATATTCGATGTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGAT
65 AATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTATGAGCATCTAAATCTTGTTTCGAT
* * *
79621 TTAATTAGAAATTAATTTGAAAAAAAAAGGAAAAA--ATATTTCAAGCATGAAAAGCCCATAAAT
130 TTAATCAGAAATTAATTTGAAAAAAATAGGAAAAACCATATTTAAAGCATGAAAAGCCCATAAAT
* * * *
79684 CTTTTTGAAGTTGAATTGTACATTTTTTATGAGTATTGTGGCCAAAAATTGAAGAAAAATATTTT
195 CTTTTTGAAGTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAATATTTC
* *
79749 GGTTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAATCATCACGGTTTCTCGCTGAAAAC
260 GGTTCAATTTTTGCAAAATTTTAGCCGAAATCGTGAACTAATCATCACGGTTTCTGGCTGAAAAC
79814 GCGGTACG
325 GCGGTACG
* * *
79822 AGGCCCTGACTTAGTTTTGCATGATTTTTGGCATCGAGATTCCTTCAAATATCTATATTCATCTA
1 GGGCCCTGGCTCAGTTTTGCATGATTTTTGGCATCGAGATTCCTTCAAATATCTATATTCATCTA
* * * * * *
79887 ATTAAATCTCAGCCACATTGGATTTAAAGATTTATTTTTATGAACATCTCAATCATGTTTCGATT
66 ATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTATGAGCATCTAAATCTTGTTTCGATT
** *
79952 TAATCAGAAATTAATTTGCAAAAAAAATAGGTTAAAGCATATTTAAAGCATGAAAAGCCCATAAA
131 TAATCAGAAATTAATTTG--AAAAAAATAGGAAAAACCATATTTAAAGCATGAAAAGCCCATAAA
* * * *
80017 TCTTTTTGAATTTG-ATTATATATTTTTTATGACTATTGTGGCTAAAAATTTAGGAAAAATATTT
194 TCTTTTTGAAGTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAATATTT
* * *
80081 CGGTTCAATTTTTGCAATATTTTAGACGAAATCG-CATACTAATCATCACGGTTTCTGGCTGAAA
259 CGGTTCAATTTTTGCAAAATTTTAGCCGAAATCGTGA-ACTAATCATCACGGTTTCTGGCTGAAA
* * * *
80145 ATGAGTTCCG
323 ACGCGGTACG
* * * * * *
80155 GGACACT-GCTCAGTTTTGCATGATTTTTGGCGTAC-AGACTT-TTTGAAATATATATATTCATC
1 GGGCCCTGGCTCAGTTTTGCATGATTTTTGGCAT-CGAGA-TTCCTTCAAATATCTATATTCATC
* * * * *
80217 TAATCAAATATCAGCAATATTCGATGTAAGGATTTGTTTTTATGAGCATCTAAATCTTGTTTCGA
64 TAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTATGAGCATCTAAATCTTGTTTCGA
* ** *
80282 TTTAATAAGAAATTAATTTG-AAAAAATAGGAAAAAAAATATTTCAAGCATGAAAAGCCCATAAA
129 TTTAATCAGAAATTAATTTGAAAAAAATAGGAAAAACCATATTTAAAGCATGAAAAGCCCATAAA
* *
80346 TATTTTTGATGTTGAATTAT-TCATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAATATT
194 TCTTTTTGAAGTTGAATTATAT-ATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAATATT
* *
80410 TTGGTTCAATTTTTGCAAAATTTTAGCCGAAATCGTGAACTAATCATCACAGTTTCTGGCTGAAA
258 TCGGTTCAATTTTTGCAAAATTTTAGCCGAAATCGTGAACTAATCATCACGGTTTCTGGCTGAAA
80475 ACGCGGTACG
323 ACGCGGTACG
* *
80485 GGGCCCTGGCTCAGTTTTGCATGATTTTTGGTATCGAGATTCCTTCAAATATCTATATTCATTTA
1 GGGCCCTGGCTCAGTTTTGCATGATTTTTGGCATCGAGATTCCTTCAAATATCTATATTCATCTA
* * *
80550 ATTAAATCTAAGCCACATTGGATTTAAGGATTTGTTTTTATGAGCATCTCAATCTTGTTTCGATT
66 ATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTATGAGCATCTAAATCTTGTTTCGATT
*
80615 TAATCAGAAATTAATTTGGAAAAAATAGGAAAAACCATATTTAAAGCATGAAAAGCCCATAAATC
131 TAATCAGAAATTAATTTGAAAAAAATAGGAAAAACCATATTTAAAGCATGAAAAGCCCATAAATC
* * * *
80680 TTTTTGAAGTTG-ATTATATATTTCTTATGAGTATTGTGGCTAAAAATTGAAGAAAAATATTTTG
196 TTTTTGAAGTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAATATTTCG
* * * *
80744 GTTCAATTTTTGCAAAAATTTAGCCGAAATCGCGTACGAATCATCACGGTTTCTGGCTGAAAACG
261 GTTCAATTTTTGCAAAATTTTAGCCGAAATCGTGAACTAATCATCACGGTTTCTGGCTGAAAACG
* *
80809 CGTTCCG
326 CGGTACG
* * * * ** * *
80816 GGACCCCGGCTCAGTTTTGCATGACTTTCGGTGTCGAGACTCCTTCAAATATCTATATTCTTCTA
1 GGGCCCTGGCTCAGTTTTGCATGATTTTTGGCATCGAGATTCCTTCAAATATCTATATTCATCTA
* * *
80881 ATCAAATCTCAGCCACATTGGATTTAAGTATTTGTTTTTACGAGCATC-AGAATCTTGTTTCGGT
66 ATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTATGAGCATCTA-AATCTTGTTTCGAT
* * * * * *
80945 TTAATCAGTAATTAACTTGAAAAAAATAGGAAAAACCATACTTGAAGCACGAAAAG-CCATCAAT
130 TTAATCAGAAATTAATTTGAAAAAAATAGGAAAAACCATATTTAAAGCATGAAAAGCCCATAAAT
* * ** * * ** *
81009 CTTTATGATGTTGAATTATATATTTTGAAAGA-TGATTTTATCCAAAAATTGA-GAAAAATCATA
195 CTTTTTGAAGTTGAATTATATATTTTTTATGAGT-ATTGTGGCCAAAAATTGAGGAAAAAT-ATT
* * ****
81072 TCGGGTCAATTTTTTGCAAAATTTTAGCCGAAATCGTGACCCCGGC-TCA--GTTT-T-GCATGA
258 TCGGTTCAA-TTTTTGCAAAATTTTAGCCGAAATCGTGAACTAATCATCACGGTTTCTGGC-TGA
****
81132 TTTTTG-GCGT-CG
321 -AAACGCG-GTACG
* * * ** * * * ** * * * *
81144 AGACTCCT---TGAAATAT-C-T-A-TATT--CATCTA-A-TCAAATC-TA-AGCCATATTTGAT
1 GGGC-CCTGGCTCAGTTTTGCATGATTTTTGGCATCGAGATTC-CTTCAAATATCTATA-TTCAT
* ** ** * **** * * * *
81196 GTAAGGATTTGT-TTTTACGA--GCATCTAA--ATCTTGTTTCGCTT-T-A--ATCAGAAAT-TA
63 CTAATCAAATCTCAGCCAC-ATTGGATTTAAGGAT-TTGTTT---TTATGAGCATC-TAAATCTT
* ** * * * *
81251 ATTT-GATAAAAAAT-AGGAA--AA-----------------AAA--ATATTTCAAGCCTGAAAG
122 GTTTCGAT--TTAATCAGAAATTAATTTGAAAAAAATAGGAAAAACCATATTTAAAGCATGAAAA
* * *
81293 GCCCATAAATCTTTTTGAAGTTGAATTATACATTTTCTATGAGTATTGTGGCCAAAAATTGAAGA
185 GCCCATAAATCTTTTTGAAGTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGAGGA
* * *
81358 AAAATATTTTGGTTCAATTTTTGCAAAGTTTTAGCCGAAATCGTGTACTAATCATCACGGTTTCT
250 AAAATATTTCGGTTCAATTTTTGCAAAATTTTAGCCGAAATCGTGAACTAATCATCACGGTTTCT
*
81423 CGCTGAAAACGCGGTACG
315 GGCTGAAAACGCGGTACG
* *
81441 GGGCCCTGACTTAGTTTTGCATGATTTTTGGCATCGAGATTCCTTCAAATATCTATATTCATCTA
1 GGGCCCTGGCTCAGTTTTGCATGATTTTTGGCATCGAGATTCCTTCAAATATCTATATTCATCTA
* *
81506 ATTAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTATGAGCATCTCAATCTTGTTTCGATT
66 ATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTATGAGCATCTAAATCTTGTTTCGATT
** *
81571 TAATCAGAAATTAATTTGCAAAAAAAATAGGTTAAACCATATTTAAAGCATG-AAAGCTCATAAA
131 TAATCAGAAATTAATTTG--AAAAAAATAGGAAAAACCATATTTAAAGCATGAAAAGCCCATAAA
* * * *
81635 TCTTTTTGAATTTG-ATTATATATTTTTTATGAGTATTGTGGCTAAAAATTTAGGGAAAATATTT
194 TCTTTTTGAAGTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAATATTT
* * *
81699 CGGTTCAATTTTTGCAATATTTTAGACGAAATCG-CATACTAATCATCACGGTTTCTGGCTGAAA
259 CGGTTCAATTTTTGCAAAATTTTAGCCGAAATCGTGA-ACTAATCATCACGGTTTCTGGCTGAAA
* * *
81763 ACGAGTTCCG
323 ACGCGGTACG
* * * * * * *
81773 GGACACT-GCTCAGTTTTGCATGATTTTTGGCGTAGAGACTCCTTGAAATATATATATTCATCTA
1 GGGCCCTGGCTCAGTTTTGCATGATTTTTGGCATCGAGATTCCTTCAAATATCTATATTCATCTA
* * * * *
81837 ATCAAATCTCAGCAATATTCGATCTAAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGATT
66 ATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTATGAGCATCTAAATCTTGTTTCGATT
* *
81902 TATTCAGAAATTAATTTGAAAAAAATAGGGAAAAA--ATATTTCAAGCATGAAAAGCCCATAAAT
131 TAATCAGAAATTAATTTGAAAAAAATA-GGAAAAACCATATTTAAAGCATGAAAAGCCCATAAAT
* * * *
81965 ATTTTTGATGTTGAATTAT-TCATTTTTTATGACTATTGTGGCCAAAAATTGAGGGAAAATATTT
195 CTTTTTGAAGTTGAATTATAT-ATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAATATTT
* * *
82029 TGGTTCAATTTTTGCAAAATTTTAGCCGAAATCGTGAACCAATCATCACGGTTTCTGACTGAAAA
259 CGGTTCAATTTTTGCAAAATTTTAGCCGAAATCGTGAACTAATCATCACGGTTTCTGGCTGAAAA
*
82094 CGCGGTACA
324 CGCGGTACG
* * * * *
82103 AGGCCCCGGCTCAGTTTTGCATGATTTTTGGTATCGAGATTCCGTCAAATATCTATATTCATCTG
1 GGGCCCTGGCTCAGTTTTGCATGATTTTTGGCATCGAGATTCCTTCAAATATCTATATTCATCTA
* * * *
82168 ATTAAATCTAAGCCACATTGGATTTAAGGATATGTTTTTATGAGCATCTCAATCTTGTTTCGATT
66 ATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTATGAGCATCTAAATCTTGTTTCGATT
82233 TAATCAGAAATTAATTTGGAAAAAAAATAGGAAAAACCATATTTAAAGCATGAAAAGCCCATAAA
131 TAATCAGAAATTAATTT-G-AAAAAAATAGGAAAAACCATATTTAAAGCATGAAAAGCCCATAAA
82298 TCTTTTTGAAGTTG-ATTATATATTTTTTA
194 TCTTTTTGAAGTTGAATTATATATTTTTTA
82327 GGTTGCGTTT
Statistics
Matches: 3152, Mismatches: 507, Indels: 320
0.79 0.13 0.08
Matches are distributed among these distances:
293 43 0.01
294 60 0.02
295 11 0.00
296 10 0.00
297 9 0.00
298 2 0.00
299 4 0.00
300 1 0.00
301 1 0.00
302 1 0.00
303 3 0.00
305 5 0.00
306 3 0.00
307 16 0.01
308 8 0.00
309 7 0.00
310 12 0.00
311 13 0.00
312 5 0.00
313 4 0.00
314 13 0.00
315 12 0.00
316 8 0.00
317 7 0.00
318 15 0.00
319 3 0.00
320 8 0.00
321 24 0.01
322 38 0.01
323 195 0.06
324 42 0.01
325 166 0.05
326 21 0.01
327 10 0.00
328 24 0.01
329 99 0.03
330 536 0.17
331 739 0.23
332 650 0.21
333 214 0.07
334 107 0.03
335 2 0.00
336 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.36
Consensus pattern (332 bp):
GGGCCCTGGCTCAGTTTTGCATGATTTTTGGCATCGAGATTCCTTCAAATATCTATATTCATCTA
ATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTATGAGCATCTAAATCTTGTTTCGATT
TAATCAGAAATTAATTTGAAAAAAATAGGAAAAACCATATTTAAAGCATGAAAAGCCCATAAATC
TTTTTGAAGTTGAATTATATATTTTTTATGAGTATTGTGGCCAAAAATTGAGGAAAAATATTTCG
GTTCAATTTTTGCAAAATTTTAGCCGAAATCGTGAACTAATCATCACGGTTTCTGGCTGAAAACG
CGGTACG
Done.