Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01009059.1 Corchorus capsularis cultivar CVL-1 contig09080, 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: 30758
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Found at i:1626 original size:2 final size:2
Alignment explanation
Indices: 1621--1664 Score: 70
Period size: 2 Copynumber: 21.5 Consensus size: 2
1611 ACACACACTC
*
1621 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
1664 A
1 A
1665 AAAACAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1851 original size:24 final size:24
Alignment explanation
Indices: 1810--1855 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1800 AGATGAAAGT
1810 AGAATTTTCTAAAAAAAAATAATA
1 AGAATTTTCTAAAAAAAAATAATA
* * *
1834 AGAATTTTGTCAAGAAAAATAA
1 AGAATTTTCTAAAAAAAAATAA
1856 AACGATACAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.59, C:0.04, G:0.09, T:0.28
Consensus pattern (24 bp):
AGAATTTTCTAAAAAAAAATAATA
Found at i:4769 original size:12 final size:12
Alignment explanation
Indices: 4752--4782 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
4742 AGAACAGTGC
4752 TTACTCCCATGG
1 TTACTCCCATGG
4764 TTACTCCCATGG
1 TTACTCCCATGG
4776 TTGACTC
1 TT-ACTC
4783 TTTTCCAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.35
Consensus pattern (12 bp):
TTACTCCCATGG
Found at i:6369 original size:301 final size:301
Alignment explanation
Indices: 5704--6414 Score: 777
Period size: 301 Copynumber: 2.4 Consensus size: 301
5694 CATTTTTTTT
* * * *
5704 AATTAACTTCTAACTAAATCGAAACAAGATTTAAATGCTCGTAAAAA-AAATCCTTCAATCCAAT
1 AATTAATTTCAAATTAAATCGAAACAAGATTCAAATGCTCGTAAAAACAAATCCTTCAATCCAAT
* * * *
5768 ATGCCTGAGATTTGATTAGAT-AATATAGATATTTCAAGGAGTCTCGGTGCCAAAAATCTTGCAA
66 GTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTC-ATGCCAAAAATCATGCAA
* * *
5832 AACTGAGCTGGGTCCCCAGAACGCATTTTTAGCCAAAAACCATAATGGTCAAAATGACCCGAAAA
130 AACAGAGCTGGGTCCCCAGAACACAATTTTAGCCAAAAA-CATAATGGTCAAAATGACCCGAAAA
* * *
5897 ATTTTTCCTCAAATTTTGGCAAAAATATACATAAAATACATATAATTTAACACCAAAATGATTGG
194 ATTTTTCCTCAAATTTTGGCAAAAATATACATAAAAAACATATAATTCAACACCAAAAAGATTGG
* *
5962 TGGACTTTTCACGCTTTTAATATCGTTTTTCATATTTTTTCTG
259 TGGACTTTTAACGCTTTTAATATCGTTTTTCATATTTTTTCCG
* * * * * * *
6005 AATTAATTTCCAATTAAATCTAAACAAGATTCAGATCCACGTAAAACCAAATCCTTAAATCCAAT
1 AATTAATTTCAAATTAAATCGAAACAAGATTCAAATGCTCGTAAAAACAAATCCTTCAATCCAAT
* *
6070 GTGGCTGAGATTTGATAAGATGAATAAAGATATTTCAAGGAGTCT-ATGCCCAAAAATCATGCAA
66 GTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCATG-CCAAAAATCATGCAA
* * * *
6134 AACAGAGTCAT-GG-CCCCAG-ACATAATTTTAG-C-TAAA-AT-TTTG-CAAAAATTGACCCGA
130 AACAGAG-C-TGGGTCCCCAGAACACAATTTTAGCCAAAAACATAATGGTC-AAAA-TGACCCGA
* * * * * * **
6191 AAGATATTTT-CTCAATTTTTTGCTAAAATACT-CATAAAAAATATATAATTCGACGTCAAAAAG
191 AAAAT-TTTTCCTCAAATTTTGGCAAAAATA-TACATAAAAAACATATAATTCAACACCAAAAAG
* ** *
6254 ATTGAG-GGGCTTTTAACG-TTTATAATATTATTTTTTTTCTTATTTTTGTCCG
254 ATTG-GTGGACTTTTAACGCTTT-T-A-A-TATCGTTTTTCATATTTTT-TCCG
* *
6306 AATTAATTTCAAATTGAATCGAAACAAGATTCAAATGCTCGTAAAAACAAATCCTGCAATCCAAT
1 AATTAATTTCAAATTAAATCGAAACAAGATTCAAATGCTCGTAAAAACAAATCCTTCAATCCAAT
* *
6371 GTGGCTGAGATTTGGTTAGATGAATATAGATATTTGAAGGAGTC
66 GTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTC
6415 GCGTCCCAAA
Statistics
Matches: 342, Mismatches: 53, Indels: 30
0.80 0.12 0.07
Matches are distributed among these distances:
295 1 0.00
296 9 0.03
297 70 0.20
298 7 0.02
299 4 0.01
300 17 0.05
301 148 0.43
302 60 0.18
303 25 0.07
304 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (301 bp):
AATTAATTTCAAATTAAATCGAAACAAGATTCAAATGCTCGTAAAAACAAATCCTTCAATCCAAT
GTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCATGCCAAAAATCATGCAAA
ACAGAGCTGGGTCCCCAGAACACAATTTTAGCCAAAAACATAATGGTCAAAATGACCCGAAAAAT
TTTTCCTCAAATTTTGGCAAAAATATACATAAAAAACATATAATTCAACACCAAAAAGATTGGTG
GACTTTTAACGCTTTTAATATCGTTTTTCATATTTTTTCCG
Found at i:7425 original size:329 final size:327
Alignment explanation
Indices: 6669--8007 Score: 1304
Period size: 329 Copynumber: 4.1 Consensus size: 327
6659 TACAATTTTA
* * * * * **
6669 CTGAGGTTTGGTTAGATGAATATAGATATATTTTAAGGAGCCTTGGTGCCAAAAATTGTGCAAAA
1 CTGAGATTTGATTAGATTAATATAG--ATATTTCAAGGAGTCTTGGTG-CAAAAATCATGCAAAA
* ** * * * * * **
6734 CTGACCCGGGGCCCCGGAACGCG-TTTTGGCCAAAAAACCGTGATGG-T---ACATGATTTCAAC
63 CTAAGTCGAGGCCTCGAAACGCGTTTTTAGCC-AAAAACCGTGATGGTTAGGACACGATTTCGGC
* * * * * * * ** *
6794 TAAAATTTTACAACAATTGACCCGAAATATTTTTCCTTAATTTTTAGCCACAA-TACTCATAAAA
127 TAAAATTTTGCAAAAAATGA-CCTAAAT-TTTTTCCTCAATTTATGGTTAAAATTA-TCATAAAA
* * * * *
6858 TATATTTAATTCAACACCAAAAATATTGAAGGACTTCTCACGCTTTTAATATCGTTTTCATATTT
189 TATATATAATTCAACGCCAAAAAGATTGAAGGACTTTTCACGCTTTTAATATCATTTTCATATTT
* * * *
6923 TTCTGAATTAATTTCTAATTAAATCGAAATAAGATTCAGATGCTTGTAAAAACAAATCCTTAAAT
254 TTCTGAATTAATTTCTAATTAAATCAAAACAAGATTCGGATGCTCGTAAAAACAAATCCTTAAAT
*
6988 TCAATGCGG
319 TCAATGTGG
6997 CTGAGATTTGATTAGATTAATATAGATATTTCAAGGAGTCTTGGTGCAAAAAGTCATGCAAAACT
1 CTGAGATTTGATTAGATTAATATAGATATTTCAAGGAGTCTTGGTGCAAAAA-TCATGCAAAACT
* * * *
7062 AAGTCGAGACCTCGAAACGCGGTTTGAACCAAAAACCGTGATGGTTAAGGACACGATTTCGGCTA
65 AAGTCGAGGCCTCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTT-AGGACACGATTTCGGCTA
*
7127 TAATTTTGCAAAAAATGACCTAAATTTTTTCCTCAATTTATGGTTAAAATTATCATAAAATATAT
129 AAATTTTGCAAAAAATGACCTAAATTTTTTCCTCAATTTATGGTTAAAATTATCATAAAATATAT
* *
7192 ATAATTTAACGCCAAAAAGATTGGAA-GACTTTTCATGCTTTTAATATCATTTTCATATTTTTCT
194 ATAATTCAACGCCAAAAAGATT-GAAGGACTTTTCACGCTTTTAATATCATTTTCATATTTTTCT
* *
7256 GAATTAATTTCTAATTAAATCGAAATAAGATTCGGATGCTCGTAAAAACAAATCCTTAAATTCAA
258 GAATTAATTTCTAATTAAATCAAAACAAGATTCGGATGCTCGTAAAAACAAATCCTTAAATTCAA
7321 TGTGG
323 TGTGG
* ** *
7326 CTGAGATTCGATTAGATTAATATAGATATTTCAAGGAGTCTCAGTGCCAAAAATCATGTAAAACT
1 CTGAGATTTGATTAGATTAATATAGATATTTCAAGGAGTCTTGGTG-CAAAAATCATGCAAAACT
* * *
7391 AAGTCGAGGCCTCGAAACGCGTTTTTAGCCAAAAATCGTGATGGTTAGGTCACAATTTCGGCTAA
65 AAGTCGAGGCCTCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGGACACGATTTCGGCTAA
* * *
7456 AATTTTGCAAAAAAATGACCTAAATTTTTTTTTCTCAATTTATGGTTAAAATCATCATAAAATTT
130 AATTTTGC-AAAAAATGACCTAAA--TTTTTTCCTCAATTTATGGTTAAAATTATCATAAAATAT
** * *
7521 ATATAATTTGACTCCAAAAAGATT-AGAGGACTTTTCACACTTTTAATATCATTTTTCATATTTT
192 ATATAATTCAACGCCAAAAAGATTGA-AGGACTTTTCACGCTTTTAATATCA-TTTTCATATTTT
* * * ** * **
7585 CCTAAATTAATTTTTAATTAAATCAAAACAAGATTCTAATGCTCGTAAAAATAAATTATTAAATT
255 TCTGAATTAATTTCTAATTAAATCAAAACAAGATTCGGATGCTCGTAAAAACAAATCCTTAAATT
*
7650 CAATGTAG
320 CAATGTGG
* * * * * * * * * * * *
7658 CTCAAATTTGATAAGATGAATATGGCTATCTCAAAGAGTATTGGCGTCAAAAATCACGCAAAAGT
1 CTGAGATTTGATTAGATTAATATAGATATTTCAAGGAGTCTTGGTG-CAAAAATCATGCAAAACT
* * * * * **
7723 TAGCCG-GGGCTCTAGAACGCGTTTTTAGCCAAAAACCGTGATGATTATTACACGATTTCGGCTA
65 AAGTCGAGGCCTCGA-AACGCGTTTTTAGCCAAAAACCGTGATGGTTAGGACACGATTTCGGCTA
* * * * * * *
7787 AAATTTTTAACAAAAATTGACCCAAAAATTATTCCTCAACTTT-TAGG-CACAA-TACTCATAAA
129 AAA-TTTT-GCAAAAAATGA-CCTAAATTTTTTCCTCAA-TTTAT-GGTTAAAATTA-TCATAAA
* * ** * * * *
7849 A-ATTTTATAATTCAATGCCAAAAAGATTGAAGGGTTTTTCATGCTTCTAATATCTTTTTTCCTA
188 ATA-TATATAATTCAACGCCAAAAAGATTGAAGGACTTTTCACGCTTTTAATATC-ATTTTCATA
* * ***
7913 TTATTTTCCGAATTAATTTCTAATTAAATCAAAACATA-ATTCGGATGCTTGT-TTTACAAATCC
251 -T-TTTTCTGAATTAATTTCTAATTAAATCAAAACA-AGATTCGGATGCTCGTAAAAACAAATCC
* *
7976 TTATATCCAATGTGG
313 TTAAATTCAATGTGG
* *
7991 CAGAGATTTGGTTAGAT
1 CTGAGATTTGATTAGAT
8008 GAATCATGCA
Statistics
Matches: 841, Mismatches: 141, Indels: 53
0.81 0.14 0.05
Matches are distributed among these distances:
325 6 0.01
326 57 0.07
327 6 0.01
328 46 0.05
329 262 0.31
330 18 0.02
331 112 0.13
332 239 0.28
333 48 0.06
334 46 0.05
335 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.34
Consensus pattern (327 bp):
CTGAGATTTGATTAGATTAATATAGATATTTCAAGGAGTCTTGGTGCAAAAATCATGCAAAACTA
AGTCGAGGCCTCGAAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGGACACGATTTCGGCTAAA
ATTTTGCAAAAAATGACCTAAATTTTTTCCTCAATTTATGGTTAAAATTATCATAAAATATATAT
AATTCAACGCCAAAAAGATTGAAGGACTTTTCACGCTTTTAATATCATTTTCATATTTTTCTGAA
TTAATTTCTAATTAAATCAAAACAAGATTCGGATGCTCGTAAAAACAAATCCTTAAATTCAATGT
GG
Found at i:8660 original size:290 final size:287
Alignment explanation
Indices: 8120--8661 Score: 746
Period size: 288 Copynumber: 1.9 Consensus size: 287
8110 CAAGAAATAA
* ** * *
8120 TTTTTCCTCATTTTTTTCTAAAATACTCATAAAATATATATAATTCAACATCAAAAATATTTGAG
1 TTTTTCCTAATTTTTGGCTAAAATACTCATAAAATATATATAATTCAACATCAAAAAGATTGGAG
* * *
8185 GACTTTTCACGCTTTTAATATCGTTTTCCATTTTCTTCTGAATTAATTTATAATTATATCGAAAT
66 GACTTTTCACGCTTTTAATATCATTTTCCATTTTCTTCTGAATTAATTTATAATTAAATCGAAAC
*
8250 AAGATTCAGATGCTCATAAAAAAAATCCTTAAATGCAATGTGACTGAGATTTGATTAGATGCATA
131 AAGATTCAGATGCTCATAAAAAAAATCCTTAAATGCAATGTGACTGAGATTTGATTAGATGAATA
* * ** *
8315 TAGATATTTCAAGGAGTCTCGAAGCCAAAAATCATGCAAAACAAAGTCGGGGCCCTGAAACAAAG
196 TAGATATCTCAAGGAGTCTCGAAGCAAAAAATCATGCAAAACAAACCCAGGGCCCTGAAACAAAG
8380 TCGGGGCCCAAAAAATGTCCCGAAAAT
261 TCGGGGCCCAAAAAATGTCCCGAAAAT
* * ** *
8407 TTTTTCCTTAATTTTTGGCTAAAATACTCATGAAATATATATAATTTAATGTGAAAAAGATTGGA
1 TTTTTCC-TAATTTTTGGCTAAAATACTCATAAAATATATATAATTCAACATCAAAAAGATTGGA
* * * * *
8472 GGACTTTTCACTCTTTTCATATCATTTTTCATATTTTTTCTGAATTAATTTCTAATTAAATCGAA
65 GGACTTTTCACGCTTTTAATATCATTTTCCAT-TTTCTTCTGAATTAATTTATAATTAAATCGAA
* * *
8537 ACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATATCAATGTGGCTGAGATTTGATTAGAT-
129 ACAAGATTCAGATGCTCATAAAAA-AAATCCTTAAAT-GCAATGTGACTGAGATTTGATTAGATG
* * **
8601 AATAT-GAATATCTCAAGGAGTCTTGACGCAAAAAATCATGCAAAACTGACCCAGGGCCCTG
192 AATATAG-ATATCTCAAGGAGTCTCGAAGCAAAAAATCATGCAAAACAAACCCAGGGCCCTG
8662 GATTGCATTT
Statistics
Matches: 219, Mismatches: 31, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
287 7 0.03
288 75 0.34
289 52 0.24
290 61 0.28
291 24 0.11
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (287 bp):
TTTTTCCTAATTTTTGGCTAAAATACTCATAAAATATATATAATTCAACATCAAAAAGATTGGAG
GACTTTTCACGCTTTTAATATCATTTTCCATTTTCTTCTGAATTAATTTATAATTAAATCGAAAC
AAGATTCAGATGCTCATAAAAAAAATCCTTAAATGCAATGTGACTGAGATTTGATTAGATGAATA
TAGATATCTCAAGGAGTCTCGAAGCAAAAAATCATGCAAAACAAACCCAGGGCCCTGAAACAAAG
TCGGGGCCCAAAAAATGTCCCGAAAAT
Found at i:9735 original size:17 final size:17
Alignment explanation
Indices: 9713--9747 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
9703 CAAAAAATTT
9713 TTTCCTCAATTTTTGGA
1 TTTCCTCAATTTTTGGA
9730 TTTCCTCAATTTTTGGA
1 TTTCCTCAATTTTTGGA
9747 T
1 T
9748 AAAATACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (17 bp):
TTTCCTCAATTTTTGGA
Found at i:10966 original size:15 final size:16
Alignment explanation
Indices: 10942--10971 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10932 ATAAATAATA
10942 ATATTATAAT-TAAAT
1 ATATTATAATCTAAAT
10957 ATATTATAATCTAAA
1 ATATTATAATCTAAA
10972 AATAGTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATTATAATCTAAAT
Found at i:15391 original size:2 final size:2
Alignment explanation
Indices: 15384--15411 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15374 ATGGACATAA
15384 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
15412 CTTTGACTTT
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:29354 original size:10 final size:10
Alignment explanation
Indices: 29339--29363 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
29329 CATCCATTTA
29339 AAATATGCAT
1 AAATATGCAT
29349 AAATATGCAT
1 AAATATGCAT
29359 AAATA
1 AAATA
29364 ATTTCGGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (10 bp):
AAATATGCAT
Found at i:30097 original size:328 final size:321
Alignment explanation
Indices: 29607--30727 Score: 1155
Period size: 327 Copynumber: 3.4 Consensus size: 321
29597 CATATTTTTT
* * * *
29607 GAATTAATTTCTAATTAAATCGAAATAAGATTCAGATGCACGTAAAAACAAAT-CTTTAATCCAA
1 GAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATTCAA
* * **
29671 TGTGACTGAGATTTGATTAGATAAATAAAGATATTTCAAGGAGTCTCAGTGC-C--AAAATCATG
66 TGTGGCTGAGATTTGATTAGATAAATATAGATATTTCAAGGAGT-TTTG-GCACAAAAAATCATG
** * * * * * *
29733 CAAAACAAAGCCGTGGCCCCGAAACACGTTTTTAGCCAAAAACTGTGATGGTTAATACATGATTT
129 CAAAACTGAGACG-GGTCCCGGAACGCGTTTTTAGCCAAAAACCGTGATGG----TACACGATTT
* *
29798 CGGCTAAAATTTTGCAAAAATTGACCCGAAAGATATTATCTCAATTTTTTCCTA-AATACTCAAA
189 CGGCTAAAATTTTG-AAAAATTGACCCGAAA-AT-TTTTCTCAATTTTTGCC-ACAATACTCAAA
* * * *
29862 AAAATATATAATTTGACATCAAAAAGATTGAAGGGCTTTTCATGCTTCTAATATTGTTTTTCCAA
250 AAAATATATAATTTAACATCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCTAA
29927 TTTTTCC
315 TTTTTCC
* *
29934 GAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGTAAAAACAAATCCTTAAATACAA
1 GAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATTCAA
* *
29999 TGTGGCTGAGATTTGGTTCGATAAATATAGATATTTCAAGGAGTTTTGGCACAAAAAATCATGCA
66 TGTGGCTGAGATTTGATTAGATAAATATAGATATTTCAAGGAGTTTTGGCACAAAAAATCATGCA
*
30064 AAACTGAGTCGGGTCCCGGAACGCGTTTTTAGCCAAAAAACCGTGATGGTACACGATTTCGGCTA
131 AAACTGAGACGGGTCCCGGAACGCGTTTTTAGCC-AAAAACCGTGATGGTACACGATTTCGGCTA
** * * *
30129 AAATTTTGAAAAATTGACTTGAAATATTTTTCTCAAATTTTAGCCACAATATTCCTAAAAAATAT
195 AAATTTTGAAAAATTGACCCGAAA-ATTTTTCTC-AATTTTTGCCACAATACT-CAAAAAAATAT
* * * **
30194 ATAATTTAACA-CTAAAAAGTTTAAAGGGCTTCTCACGCTTCTAATATCGTTTTTCTTTTTTTTT
257 ATAATTTAACATC-AAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTC--TAATTTT
*
30258 TTC
319 TCC
* * * * *
30261 AAATTAATTTCTAATTAAATCGAAACATGATACAAATGCTCGTAAAAGCAAATCCTTAAATTCAA
1 GAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATTCAA
* * * ** *
30326 TGTGGCTAAGATTAGGTTAGATGAAA-ATAGATATTTCAAGGAGTTTTTCCACCAAAAATCATGC
66 TGTGGCTGAGATTTGATTAGAT-AAATATAGATATTTCAAGGAGTTTTGGCACAAAAAATCATGC
* * * *
30390 AAAACTGACACGGGTCCCGGAATGCATTTTTACCCCAAAAACCGTGATGGTACACGATTTCGGCT
130 AAAACTGAGACGGGTCCCGGAACGCGTTTTTA-GCCAAAAACCGTGATGGTACACGATTTCGGCT
* * *
30455 AAAATTTTGTAAAAATTGAGCCGAAATTTTTTTCCTCAATTTTTAGCCACAATACCCATAATATA
194 AAAATTTTG-AAAAATTGACCCGAAA-ATTTTT-CTCAATTTTT-GCCACAATACTCA-AA-A-A
* * *** * ** * *
30520 TATATATAATTCAATGCCAAAAATATTAGAAGAAC-TTTCACGATTTTAATATCGTTTTT-TATA
252 AATATATAATTTAACATCAAAAAGATT-GAAGGGCTTTTCACGCTTCTAATATCGTTTTTCTA-A
*
30583 TTTTTCT
315 TTTTTCC
* * * *
30590 GAAATAAATTCTAATTAAATCAAAACAATATCATTCAGATGCTCGTAAAAACAAATCCTTAAATT
1 GAATTAATTTCTAATTAAATCGAAAC-A-A-GATTCAGATGCTCGTAAAAACAAATCCTTAAATT
* * * * * * * * *
30655 CAATATGGTTGA-ATTTTGATTAGATGAATATAGATATTTAAAGAAATCTCGGCGCAAAAAATCA
63 CAATGTGGCTGAGA-TTTGATTAGATAAATATAGATATTTCAAGGAGTTTTGGCACAAAAAATCA
30719 TGCAAAACT
127 TGCAAAACT
30728 AAACCGAGGC
Statistics
Matches: 664, Mismatches: 103, Indels: 49
0.81 0.13 0.06
Matches are distributed among these distances:
323 7 0.01
324 30 0.05
325 80 0.12
326 2 0.00
327 237 0.36
328 101 0.15
329 73 0.11
330 2 0.00
331 44 0.07
332 88 0.13
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (321 bp):
GAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATTCAA
TGTGGCTGAGATTTGATTAGATAAATATAGATATTTCAAGGAGTTTTGGCACAAAAAATCATGCA
AAACTGAGACGGGTCCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTACACGATTTCGGCTAA
AATTTTGAAAAATTGACCCGAAAATTTTTCTCAATTTTTGCCACAATACTCAAAAAAATATATAA
TTTAACATCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCTAATTTTTCC
Done.