Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01008194.1 Corchorus capsularis cultivar CVL-1 contig08215, 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: 22775
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Found at i:8117 original size:122 final size:122
Alignment explanation
Indices: 7900--8145 Score: 474
Period size: 122 Copynumber: 2.0 Consensus size: 122
7890 AATGGTTTCT
7900 TGGGTCCTTCATGTATATAAGCTACTCCAACATCCCATCTCTTCATGATGTGGGATGTTCCCTCA
1 TGGGTCCTTCATGTATATAAGCTACTCCAACATCCCATCTCTTCATGATGTGGGATGTTCCCTCA
*
7965 CATGTGAATCCTTTAACAATCTCCCCCATTCGCTTGTGAGTCCTCATCTCTCCCCCG
66 CATGTGAATCCTTTAACAATCTCCCCCATTCACTTGTGAGTCCTCATCTCTCCCCCG
*
8022 TGGGTCCTTCATGTATATAAGCTACTTCAACATCCCATCTCTTCATGATGTGGGATGTTCCCTCA
1 TGGGTCCTTCATGTATATAAGCTACTCCAACATCCCATCTCTTCATGATGTGGGATGTTCCCTCA
8087 CATGTGAATCCTTTAACAATCTCCCCCATTCACTTGTGAGTCCTCATCTCTCCCCCG
66 CATGTGAATCCTTTAACAATCTCCCCCATTCACTTGTGAGTCCTCATCTCTCCCCCG
8144 TG
1 TG
8146 CGGCCCAACC
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 122 1.00
ACGTcount: A:0.20, C:0.32, G:0.15, T:0.33
Consensus pattern (122 bp):
TGGGTCCTTCATGTATATAAGCTACTCCAACATCCCATCTCTTCATGATGTGGGATGTTCCCTCA
CATGTGAATCCTTTAACAATCTCCCCCATTCACTTGTGAGTCCTCATCTCTCCCCCG
Found at i:10438 original size:27 final size:27
Alignment explanation
Indices: 10408--10489 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
10398 TAACTAATTG
10408 TAATCATAACAAACTTAAGCATTCCTC
1 TAATCATAACAAACTTAAGCATTCCTC
* ** *
10435 TAATCTTAATTAAC-T-AG-ACTT--AC
1 TAATCATAACAAACTTAAGCA-TTCCTC
* *
10458 TACTCATAACAAACTTAACCATTCCTC
1 TAATCATAACAAACTTAAGCATTCCTC
10485 TAATC
1 TAATC
10490 TTAATTAACT
Statistics
Matches: 38, Mismatches: 11, Indels: 12
0.62 0.18 0.20
Matches are distributed among these distances:
23 11 0.29
24 2 0.05
25 7 0.18
26 2 0.05
27 16 0.42
ACGTcount: A:0.39, C:0.26, G:0.02, T:0.33
Consensus pattern (27 bp):
TAATCATAACAAACTTAAGCATTCCTC
Found at i:10467 original size:50 final size:50
Alignment explanation
Indices: 10411--10508 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
10401 CTAATTGTAA
*
10411 TCATAACAAACTTAAGCATTCCTCTAATCTTAATTAACTAGACTTACTAC
1 TCATAACAAACTTAACCATTCCTCTAATCTTAATTAACTAGACTTACTAC
10461 TCATAACAAACTTAACCATTCCTCTAATCTTAATTAACTAGACTTACT
1 TCATAACAAACTTAACCATTCCTCTAATCTTAATTAACTAGACTTACT
10509 TAATCATAGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.35
Consensus pattern (50 bp):
TCATAACAAACTTAACCATTCCTCTAATCTTAATTAACTAGACTTACTAC
Found at i:13461 original size:18 final size:18
Alignment explanation
Indices: 13440--13476 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13430 AATTACAAAC
*
13440 AGAAATAGAAGCATTACA
1 AGAAAAAGAAGCATTACA
*
13458 AGAAAAAGTAGCATTACA
1 AGAAAAAGAAGCATTACA
13476 A
1 A
13477 TCTGAGAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.11, G:0.16, T:0.16
Consensus pattern (18 bp):
AGAAAAAGAAGCATTACA
Found at i:20182 original size:332 final size:330
Alignment explanation
Indices: 19392--21098 Score: 1658
Period size: 332 Copynumber: 5.2 Consensus size: 330
19382 CTAGAACGCC
* * * * *
19392 TTTTCTCCTCAATTTTTGGCCATAATACTCATAAAAATATATAATT--ATCGCCAAAAAAAATTG
1 TTTT-TCCTTAATTTTTGGCCAAAACACTCATAAAAATATATAATTCAAT-ACC-AAAAATATTG
* * * * * * * *
19455 AAGGACTTATCACT-CTTCTAATATCGTCTTTCCTACTTTTTTTTCCGAATTAATTTCTAAATAA
63 GACGACTTTTCA-TGCTTCTAATATCAT-TTTCC--CTATTTTTTCTGAATTAATTTCTAATTCA
* * * * * * **
19519 ATC-AAAACAAGATTCAT-ATGCTCGTAAAAACAAATCCTTAAATCAAATGTGGCTGGGATTTAA
124 ATCGAAATC--GGTTTATGATGCTCGTAAAAACAAATCCTCAAATCCAATGTGGCTGAGATTTGG
** * ** * * * *
19582 TTAGAAGAATATATTTATTTCAAGGAATC-TGAACGCAAAAAATGATGCAAAACTGAGT-TGGGG
187 TTAGCTGAATAGAGATATTTCAATGAGTCTTG-ACG-AAAAAATAATGCAAAACTGAGTCAGGGG
* * *
19645 CCTCGGAACACGTTTTTAGCCAAATATCGTGATGGTTAGTACACGATTTCGACTAAACTTTTGCA
250 CC-CGGAACGCGTTTTTAGCCAAATATCGTGATGGTTAGTACACGATTTCGGCTAAATTTTTGCA
19710 AAAATTGACCCGAAATA
314 AAAATTGACCCGAAATA
* *
19727 TTTTTCCTTAATTTTTGGCCAAAACACTCATAAAAATACA-AA--C---GCCAAAAATATTGGAC
1 TTTTTCCTTAATTTTTGGCCAAAACACTCATAAAAATATATAATTCAATACCAAAAATATTGGAC
* ** * * *
19786 GACTTTTCACGCTTCTAATATCATTTTCCCGGTTTTTTCTAAATTAACTTCTATTTCAATCGAAA
66 GACTTTTCATGCTTCTAATATCATTTTCCCTATTTTTTCTGAATTAATTTCTAATTCAATCGAAA
* *
19851 TCGGTTTATGATGGTCGTAAAAACAAATCCTCAAATCCAATGTAGCTGAGATTTGGTTAGCTGAA
131 TCGGTTTATGATGCTCGTAAAAACAAATCCTCAAATCCAATGTGGCTGAGATTTGGTTAGCTGAA
* * * *
19916 TAGAGATATTTCAATGAGTCTTGCCGATAAAAATAATCCAAAACTGAGTCAGGGTCCCGAAACGC
196 TAGAGATATTTCAATGAGTCTTGACGA-AAAAATAATGCAAAACTGAGTCAGGGGCCCGGAACGC
* * * *
19981 GTTTTTAGCCAAATATCGTGATGGGTTAATACAAGATTTCTGCTAAATTTTTGTAAAAATTGACC
260 GTTTTTAGCCAAATATCGTGAT-GGTTAGTACACGATTTCGGCTAAATTTTTGCAAAAATTGACC
*
20046 CAAAATA
324 CGAAATA
* *
20053 TTTTTCCTTAATTTTTGGCCAAAACACTCATCAAAATATATAATTCAATACCAAAAATATTGGAT
1 TTTTTCCTTAATTTTTGGCCAAAACACTCATAAAAATATATAATTCAATACCAAAAATATTGGAC
* * *
20118 GACTTTTCATGCTTCTAATATCTTTTTCCCTATTTTTTCTGTATTAATTTATAATTCAATCGAAA
66 GACTTTTCATGCTTCTAATATCATTTTCCCTATTTTTTCTGAATTAATTTCTAATTCAATCGAAA
* *
20183 TCGGTTTATGATGGTCGTAAATAA-AAATCCTCAAATCCAATGTGGTTGAGATTTGGTTAGCTGA
131 TCGGTTTATGATGCTCGTAAA-AACAAATCCTCAAATCCAATGTGGCTGAGATTTGGTTAGCTGA
* * * * * *
20247 ATAGAGATATTTCAATGAGTCTTGGCGCAAAAAATCAGGCAAAATTGAG-CCGGGGCCCGAAACG
195 ATAGAGATATTTCAATGAGTCTTGACG-AAAAAATAATGCAAAACTGAGTCAGGGGCCCGGAACG
* * * * *
20311 CTTTTTTAGCC--A-A-----A----TAGTACACGATTTCAGCTAAAATTTTGTAAAAATTGATC
259 CGTTTTTAGCCAAATATCGTGATGGTTAGTACACGATTTCGGCTAAATTTTTGCAAAAATTGACC
*
20364 TGAAATA
324 CGAAATA
* * * * * ** *
20371 TTTTTCCTCAATTTTTTGGCTAAAATACTCATAAAAAATAGATAATTTAACGGCGAAAAATATTG
1 TTTTTCCTTAA-TTTTTGGCCAAAACACTCAT-AAAAATATATAATTCAA-TACCAAAAATATTG
* * *
20436 GACGAATTTTCACGCTTCTAATATCGTTTT-CCTATTTTTTCTGAATTAATTTCTATAATTCAAT
63 GACGACTTTTCATGCTTCTAATATCATTTTCCCTATTTTTTCTGAATTAATTTC--TAATTCAAT
* * * * * * * * *
20500 CGAAATCGGTTTCTGATGCACGTAAGAACTATTCCTTAAATCCAATGTGGTTGAAATTTGCTTAG
126 CGAAATCGGTTTATGATGCTCGTAAAAACAAATCCTCAAATCCAATGTGGCTGAGATTTGGTTAG
* * * ** * * * ** *
20565 CTAAATAGATATGTTTCTTTGAGTGTTGAC-ACCAAAAATCATGCAAAACTGAGACAGGTTCCTG
191 CTGAATAGAGATATTTCAATGAGTCTTGACGA--AAAAATAATGCAAAACTGAGTCAGGGGCCCG
* * *
20629 GAACTCGTTTTTAGTCAAATA-CTGTGAATGGTTAGTACACGATTTTCGGCTAAATTTATGCAAA
254 GAACGCGTTTTTAGCCAAATATC-GTG-ATGGTTAGTACACGA-TTTCGGCTAAATTTTTGCAAA
* *
20693 AATTTACCTGAAATA
316 AATTGACCCGAAATA
*
20708 -TTTTCCTTAATTTTTGGCCAAAACACTCATAAAAATATATGATTCAACGTA--AAAAATATTGG
1 TTTTTCCTTAATTTTTGGCCAAAACACTCATAAAAATATATAATTCAA--TACCAAAAATATTGG
*
20770 ACGACTTTTCACT-TTTCTAATATCATTTTCCCTATTTTTCTCTGAATTAATTTCTAATTCAATC
64 ACGACTTTTCA-TGCTTCTAATATCATTTTCCCTATTTTT-TCTGAATTAATTTCTAATTCAATC
* * *
20834 GAAATCGGTTTATGATGCTCGTAAAAAC-AATTCTCAAATCCAATGTAGCTGAGATTTGGTTACC
127 GAAATCGGTTTATGATGCTCGTAAAAACAAATCCTCAAATCCAATGTGGCTGAGATTTGGTTAGC
* * * * *
20898 TGAATAGACATATTTCAATGAGTCTT-AGCGCCAAAAATAATGCAAAACTAAATC-GGAGCCCCG
192 TGAATAGAGATATTTCAATGAGTCTTGA-CG-AAAAAATAATGCAAAACTGAGTCAGG-GGCCCG
* * * ** *
20961 GAACGCGTTTTTAGACAAATATCATGATGGTCAGTGTACAATTTCGGCTAAATTTTTGCAAAAAT
254 GAACGCGTTTTTAGCCAAATATCGTGATGGTTAGTACACGATTTCGGCTAAATTTTTGCAAAAAT
*
21026 TAACCCGAAATA
319 TGACCCGAAATA
* * * *
21038 TTTTTCCTT--TTTTATGGGCAAAA-ATTGTCATAAAAATATACAATTCAACACCAAAAATATT
1 TTTTTCCTTAATTTT-TGGCCAAAACA--CTCATAAAAATATATAATTCAATACCAAAAATATT
21099 TGAATGAGTC
Statistics
Matches: 1139, Mismatches: 179, Indels: 112
0.80 0.13 0.08
Matches are distributed among these distances:
318 49 0.04
319 18 0.02
320 36 0.03
321 39 0.03
322 103 0.09
323 19 0.02
324 6 0.01
325 135 0.12
326 92 0.08
327 7 0.01
328 31 0.03
329 11 0.01
330 41 0.04
331 73 0.06
332 263 0.23
333 76 0.07
334 55 0.05
335 36 0.03
336 19 0.02
337 30 0.03
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.35
Consensus pattern (330 bp):
TTTTTCCTTAATTTTTGGCCAAAACACTCATAAAAATATATAATTCAATACCAAAAATATTGGAC
GACTTTTCATGCTTCTAATATCATTTTCCCTATTTTTTCTGAATTAATTTCTAATTCAATCGAAA
TCGGTTTATGATGCTCGTAAAAACAAATCCTCAAATCCAATGTGGCTGAGATTTGGTTAGCTGAA
TAGAGATATTTCAATGAGTCTTGACGAAAAAATAATGCAAAACTGAGTCAGGGGCCCGGAACGCG
TTTTTAGCCAAATATCGTGATGGTTAGTACACGATTTCGGCTAAATTTTTGCAAAAATTGACCCG
AAATA
Found at i:20714 original size:654 final size:643
Alignment explanation
Indices: 19681--20944 Score: 1664
Period size: 654 Copynumber: 1.9 Consensus size: 643
19671 TCGTGATGGT
* *
19681 TAGTACACGATTTCGACTAAACTTTTGCAAAAATTGACCCGAAATATTTTTCCTTAATTTTTGGC
1 TAGTACACGATTTCGACTAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGC
* *
19746 CAAAACACTCATAAAAATACAAACGCCAAAAATATTGGACGACTTTTCACGCTTCTAATATCATT
66 CAAAACACTCATAAAAATAAAAACGCCAAAAATATTGGACGAATTTTCACGCTTCTAATATCATT
* **
19811 TTCCCGGTTTTTTCTAAATTAACTTCTATTTCAATCGAAATCGGTTTATGATGGTCGTAAAAACA
131 TTCCCGATTTTTTCTAAATTAACTTCTATTTCAATCGAAATCGGTTTATGATGCACGTAAAAACA
* * * *
19876 AATCCTCAAATCCAATGTAGCTGAGATTTGGTTAGCTGAATAGAGATATTTCAATGAGTCTTGCC
196 AATCCTCAAATCCAATGTAGCTGAAATTTGCTTAGCTAAATAGAGATATTTCAATGAGTCTTGAC
* *
19941 GATAAAAATAATCCAAAACTGAGTCAGGGTCCCGAAACGCGTTTTTAGCCAAATATCGTGATGGG
261 GACAAAAATAATCCAAAACTGAGACAGGGTCCCGAAACGCGTTTTTAGCCAAATATCGTGATGGG
* * *
20006 TTAATACAAGATTTCTGCTAAATTTTTGTAAAAATTGACCCAAAATATTTTTCCTTAATTTTTGG
326 TTAATACAAGATTTCGGCTAAATTTATGCAAAAATTGACCCAAAATATTTTTCCTTAATTTTTGG
* *
20071 CCAAAACACTCATCAAAATATATAATTCAA-TACCAAAAATATTGGATGACTTTTCA-TGCTTCT
391 CCAAAACACTCATAAAAATATATAATTCAACTA--AAAAATATTGGACGACTTTTCACT-CTTCT
* * *
20134 AATATCTTTTTCCCTATTTTT-TCTGTATTAATTTATAATTCAATCGAAATCGGTTTATGATGGT
453 AATATCATTTTCCCTATTTTTCTCTGAATTAATTTATAATTCAATCGAAATCGGTTTATGATGCT
* * * *
20198 CGTAAATAAAAATCCTCAAATCCAATGTGGTTGAGATTTGGTTAGCTGAATAGAGATATTTCAAT
518 CGTAAA-AAAAATCCTCAAATCCAATGTAGCTGAGATTTGGTTACCTGAATAGACATATTTCAAT
* *
20263 GAGTCTTGGCGCAAAAAATCAGGCAAAATTGAGCCGGGGCCCGAAACGCTTTTTTAGCCAAA
582 GAGTCTTAGCGCAAAAAATAAGGCAAAATTGAGCCGGGGCCCGAAACGCTTTTTTAGCCAAA
* * *
20325 TAGTACACGATTTC-AGCTAAAATTTTGTAAAAATTGATCTGAAATATTTTTCCTCAATTTTTTG
1 TAGTACACGATTTCGA-CTAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAA-TTTTTG
* * *
20389 GCTAAAATACTCATAAAAAATAGATAATTTAACGGCGAAAAATATTGGACGAATTTTCACGCTTC
64 GCCAAAACACTCAT-AAAAAT--A-AA---AAC-GCCAAAAATATTGGACGAATTTTCACGCTTC
* * * * *
20454 TAATATCGTTTT-CCTATTTTTTCTGAATTAATTTCTATAATTCAATCGAAATCGGTTTCTGATG
121 TAATATCATTTTCCCGATTTTTTCTAAATTAACTTCTAT--TTCAATCGAAATCGGTTTATGATG
* * * * * * * * *
20518 CACGTAAGAACTATTCCTTAAATCCAATGTGGTTGAAATTTGCTTAGCTAAATAGATATGTTTCT
184 CACGTAAAAACAAATCCTCAAATCCAATGTAGCTGAAATTTGCTTAGCTAAATAGAGATATTTCA
* * * * * * * * *
20583 TTGAGTGTTGAC-ACCAAAAATCATGCAAAACTGAGACAGGTTCCTGGAACTCGTTTTTAGTCAA
249 ATGAGTCTTGACGA-CAAAAATAATCCAAAACTGAGACAGGGTCCCGAAACGCGTTTTTAGCCAA
* * * **
20647 ATA-CTGTGAAT-GGTTAGTACACGATTTTCGGCTAAATTTATGCAAAAATTTACCTGAAATA-T
313 ATATC-GTG-ATGGGTTAATACAAGA-TTTCGGCTAAATTTATGCAAAAATTGACCCAAAATATT
*
20709 TTTCCTTAATTTTTGGCCAAAACACTCATAAAAATATATGATTCAACGTAAAAAATATTGGACGA
375 TTTCCTTAATTTTTGGCCAAAACACTCATAAAAATATATAATTCAAC-TAAAAAATATTGGACGA
* *
20774 CTTTTCACTTTTCTAATATCATTTTCCCTATTTTTCTCTGAATTAATTTCTAATTCAATCGAAAT
439 CTTTTCACTCTTCTAATATCATTTTCCCTATTTTTCTCTGAATTAATTTATAATTCAATCGAAAT
* *
20839 CGGTTTATGATGCTCGTAAAAACAATTCTCAAATCCAATGTAGCTGAGATTTGGTTACCTGAATA
504 CGGTTTATGATGCTCGTAAAAAAAATCCTCAAATCCAATGTAGCTGAGATTTGGTTACCTGAATA
* *
20904 GACATATTTCAATGAGTCTTAGCGCCAAAAATAATGCAAAA
569 GACATATTTCAATGAGTCTTAGCGCAAAAAATAAGGCAAAA
20945 CTAAATCGGA
Statistics
Matches: 532, Mismatches: 68, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
643 1 0.00
644 50 0.09
645 18 0.03
646 6 0.01
648 1 0.00
649 1 0.00
652 25 0.05
653 42 0.08
654 307 0.58
655 79 0.15
656 2 0.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (643 bp):
TAGTACACGATTTCGACTAAAATTTTGCAAAAATTGACCCGAAATATTTTTCCTCAATTTTTGGC
CAAAACACTCATAAAAATAAAAACGCCAAAAATATTGGACGAATTTTCACGCTTCTAATATCATT
TTCCCGATTTTTTCTAAATTAACTTCTATTTCAATCGAAATCGGTTTATGATGCACGTAAAAACA
AATCCTCAAATCCAATGTAGCTGAAATTTGCTTAGCTAAATAGAGATATTTCAATGAGTCTTGAC
GACAAAAATAATCCAAAACTGAGACAGGGTCCCGAAACGCGTTTTTAGCCAAATATCGTGATGGG
TTAATACAAGATTTCGGCTAAATTTATGCAAAAATTGACCCAAAATATTTTTCCTTAATTTTTGG
CCAAAACACTCATAAAAATATATAATTCAACTAAAAAATATTGGACGACTTTTCACTCTTCTAAT
ATCATTTTCCCTATTTTTCTCTGAATTAATTTATAATTCAATCGAAATCGGTTTATGATGCTCGT
AAAAAAAATCCTCAAATCCAATGTAGCTGAGATTTGGTTACCTGAATAGACATATTTCAATGAGT
CTTAGCGCAAAAAATAAGGCAAAATTGAGCCGGGGCCCGAAACGCTTTTTTAGCCAAA
Found at i:22620 original size:329 final size:329
Alignment explanation
Indices: 21155--22775 Score: 1906
Period size: 331 Copynumber: 4.9 Consensus size: 329
21145 CGGAATGATA
* * * * * * * * *
21155 TTTTAGCCAAATACCGTGA---T-GTACACGATTTTGTCTAAAATTTTGTAAAGAGTGATCTGAA
1 TTTTAGCCAAATATCGTGATGTTAGTACACGATTTCGGCTAAATTTTTGCAAAAATTGACCCGAA
* * * *
21216 ATATTTTTCCTCAATTTTTGGCAAAAATACTCATAAAAAATAGATAATTCAACACCAAAAATTTT
66 ATATTTTTCCTTAATTTTTGGCCAAAATACTCAT-AAAAATATATAATTCAACACCAAAAATATT
* * *
21281 GGACAACTTTTCACGTTTCTAATATCATTTTCCCTATTTTTTTCTGAATTAATTTCTAATTCAAT
130 GGACGACTTTTCACGCTTCTAATATCGTTTTCCCTA-TTTTTTCTGAATTAATTTCTAATTCAAT
* * * * *
21346 CGAAATCGATTTATAATGCTCGTAAAAACAAATCCTGAAATCCAATGTGGCTGAGATTTGGTTAG
194 CGAAATCGGTTTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTTG
* * * * * * *
21411 CTGAATAGAGATATTTAAATGAGTCTTGGCGCCAAAAATCATGTAAAACTGAGTCGGGGCCTCGG
259 C-GAATAGAGATATTTCAATGAGTCTAGGCGCAAAAAATCATGCAAAACTGAGTCGGAGCCCCAG
21476 AACGTGT
323 AACGTGT
* * *
21483 TTTTAGCCAAATATC--------AGTACACGATTTTGGCTCAATATTTGCAAAAATTGACCCGAA
1 TTTTAGCCAAATATCGTGATGTTAGTACACGATTTCGGCTAAATTTTTGCAAAAATTGACCCGAA
21540 ATATTTTTCCTTAATTTTTGGCCAAAATACTCATAAAAATATATAATTCAACACCAAAAATATTG
66 ATATTTTTCCTTAATTTTTGGCCAAAATACTCATAAAAATATATAATTCAACACCAAAAATATTG
* * * * *
21605 GACGACTTTTGACACTTCTAATATCATTTTCCCTATTTTTTTCTGAATTAATTTATAATCCAATC
131 GACGACTTTTCACGCTTCTAATATCGTTTTCCCTA-TTTTTTCTGAATTAATTTCTAATTCAATC
* * * * **
21670 GAAACCAGTTTCTGATTCTTGTAAAAACAAATCCTTGGATCCAATGTGGCTGAGATTTGGTTTGT
195 GAAATCGGTTTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTTG-
* * * ***
21735 TGAATAGAGATATTACAATGAG-CGTATGCGCAAAAAATCATGCAAAACTGAGTTAAAGCCCCAG
259 CGAATAGAGATATTTCAATGAGTC-TAGGCGCAAAAAATCATGCAAAACTGAGTCGGAGCCCCAG
*
21799 AATGTGT
323 AACGTGT
*
21806 TTTTAGCCAAATATCGTGATGGTTAGTACACGATTTCGGCTAAATTTTTGCAAAAAATTGA-CCT
1 TTTTAGCCAAATATCGTGAT-GTTAGTACACGATTTCGGCTAAATTTTTGC-AAAAATTGACCCG
* * * * *
21870 AAATATTTTTCCTTAATTTTTGGACAAAACAATCAAAAAAATTATATAATTCAACACCCAAAATA
64 AAATATTTTTCCTTAATTTTTGGCCAAAATACTCATAAAAA-TATATAATTCAACACCAAAAATA
* *
21935 TTGGACAGA-TTTTCATGCTTCTAATATCGTTTTCCCT-TTTTTTCTGAATTGATTTCTAATTCA
128 TTGGAC-GACTTTTCACGCTTCTAATATCGTTTTCCCTATTTTTTCTGAATTAATTTCTAATTCA
* * * * *
21998 ATTGAAATCGGTTTATAATGCTCGTAAAAACAAATCCTCAAATCCAATGTGGGTGAGATTTGGTT
192 ATCGAAATCGGTTTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTT
* * * * * * *
22063 AGCTGAATAGAGATATTTCAATGAGTCTTGGTGCCAAAAATCATGTAAAACTAAGTCGGAGCCCT
257 TGC-GAATAGAGATATTTCAATGAGTCTAGGCGCAAAAAATCATGCAAAACTGAGTCGGAGCCCC
*
22128 AGAACGCGT
321 AGAACGTGT
* **
22137 TTTTAGCCAAATATCATGATGGTTAGTACACGATTTCGGCTAAATTTTTGCAAAAATTGACTTG-
1 TTTTAGCCAAATATCGTGAT-GTTAGTACACGATTTCGGCTAAATTTTTGCAAAAATTGACCCGA
** *
22201 AATATTTTTTTTTAAATTTTTGGCCAAAATACTCATAAAAATATACAATTCAACACCAAAAATAT
65 AATATTTTTCCTT-AATTTTTGGCCAAAATACTCATAAAAATATATAATTCAACACCAAAAATAT
* ** * *
22266 TGGACGAATTTTCTTGCTTCTAATATCGTTTTCCCTATTTTTTCAGAATTAATTTCCAATTCAAT
129 TGGACGACTTTTCACGCTTCTAATATCGTTTTCCCTATTTTTTCTGAATTAATTTCTAATTCAAT
* ** * * *
22331 CGAAATCGGTTTCTGATGCTCGTAAGAACAAATAGTTAAATACAATGTGGCTGAAATTTGCTTTG
194 CGAAATCGGTTTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTTG
* * *
22396 ACGAGTAGAGATATTTCAATGAGTCTAGGCGCAAAAAATCATGCAAAACTGAGTTGGAGCCCCGG
259 -CGAATAGAGATATTTCAATGAGTCTAGGCGCAAAAAATCATGCAAAACTGAGTCGGAGCCCCAG
*
22461 AACGAGT
323 AACGTGT
* * * *
22468 TTTTAACCAAATACCGTGAT-TTAGTACACGATTTCGGCTCAATTTTTGCAAGAATTGACCCGAA
1 TTTTAGCCAAATATCGTGATGTTAGTACACGATTTCGGCTAAATTTTTGCAAAAATTGACCCGAA
* * * *
22532 ATATTTTTCCTTAATTTTTGGCCAAAATAGTCATAAAAATTTACAATTCAACACCAAAAGTATTG
66 ATATTTTTCCTTAATTTTTGGCCAAAATACTCATAAAAATATATAATTCAACACCAAAAATATTG
* * * *
22597 GACGAGTTTTCACGCTTCTAATATTGTTTTCCCTATTTTTTCAGAATTAATTTCCAATTCAATCG
131 GACGACTTTTCACGCTTCTAATATCGTTTTCCCTATTTTTTCTGAATTAATTTCTAATTCAATCG
* * * * **
22662 AAATCAGTTTCTGATGCTCGTAAGAACAAATCCTATTTAAATTCAATGTAGCTGAGATTTACTTT
196 AAATCGGTTTCTGATGCTCGTAAAAACAAATCC---TTAAATCCAATGTGGCTGAGATTTGGTTT
**
22727 GATAAATAGAGATATTTCAATGA---T--GC-C-AAAAATCATGCAAAACTGAGTC
258 G-CGAATAGAGATATTTCAATGAGTCTAGGCGCAAAAAATCATGCAAAACTGAGTC
Statistics
Matches: 1115, Mismatches: 152, Indels: 55
0.84 0.11 0.04
Matches are distributed among these distances:
322 1 0.00
323 211 0.19
324 64 0.06
325 21 0.02
326 1 0.00
327 2 0.00
328 14 0.01
329 182 0.16
330 85 0.08
331 361 0.32
332 110 0.10
333 61 0.05
334 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Consensus pattern (329 bp):
TTTTAGCCAAATATCGTGATGTTAGTACACGATTTCGGCTAAATTTTTGCAAAAATTGACCCGAA
ATATTTTTCCTTAATTTTTGGCCAAAATACTCATAAAAATATATAATTCAACACCAAAAATATTG
GACGACTTTTCACGCTTCTAATATCGTTTTCCCTATTTTTTCTGAATTAATTTCTAATTCAATCG
AAATCGGTTTCTGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTTGCG
AATAGAGATATTTCAATGAGTCTAGGCGCAAAAAATCATGCAAAACTGAGTCGGAGCCCCAGAAC
GTGT
Done.