Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01010535.1 Corchorus capsularis cultivar CVL-1 contig10556, 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: 35027
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:5983 original size:12 final size:12
Alignment explanation
Indices: 5966--5992 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5956 AAAACAAGAA
5966 AAGATCAGCAAC
1 AAGATCAGCAAC
5978 AAGATCAGCAAC
1 AAGATCAGCAAC
5990 AAG
1 AAG
5993 CAGAGTCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.22, G:0.19, T:0.07
Consensus pattern (12 bp):
AAGATCAGCAAC
Found at i:6831 original size:2 final size:2
Alignment explanation
Indices: 6824--6856 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
6814 AAGGATTTGC
*
6824 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6857 CACACTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:12328 original size:17 final size:18
Alignment explanation
Indices: 12308--12341 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12298 CTCTGAACTC
*
12308 TTCTCTTTCTG-ATAATT
1 TTCTCCTTCTGAATAATT
12325 TTCTCCTTCTGAATAAT
1 TTCTCCTTCTGAATAAT
12342 CAGCATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.21, G:0.06, T:0.53
Consensus pattern (18 bp):
TTCTCCTTCTGAATAATT
Found at i:13072 original size:33 final size:33
Alignment explanation
Indices: 13030--13097 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
13020 TGATGACCTA
13030 AACAAACAAAAACAAGGAGTCAATAATTATTTG
1 AACAAACAAAAACAAGGAGTCAATAATTATTTG
*
13063 AACAAACAAAAATAAGGAGTCAATAATTATTTG
1 AACAAACAAAAACAAGGAGTCAATAATTATTTG
13096 AA
1 AA
13098 GAGCTAAGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.56, C:0.10, G:0.12, T:0.22
Consensus pattern (33 bp):
AACAAACAAAAACAAGGAGTCAATAATTATTTG
Found at i:31698 original size:255 final size:255
Alignment explanation
Indices: 31222--31898 Score: 869
Period size: 255 Copynumber: 2.6 Consensus size: 255
31212 ATGTCAGACC
* ***
31222 TGGTACTTCAAATGGGGTTACGTTGAGGGAAGGTTCAAGGTGAGTGCGCTGCGTAACCCCATTTG
1 TGGTACTTCGAATGGGGTTACGTTGAGGGAAGGTTCAAGGTGAGTGCGCCATGTAACCCCATTTG
* *
31287 AAGTACGGCCGGGCTGAGTATGAAGTAGGCAATATTATTTCTGAATTTACTCCTTTCA-TTACGT
66 AAGTA----C-GGCTGAGTATGAAGTAAGAAATATTATTTCTGAATTTACTCCTTTCATTTA-GT
* * *
31351 TTTCTAATGTGCTTTATATTTATTTATGTTAACATTTAGGATAAGCGGCTAACATGGAAGCACAA
125 TTTCTAATGTGCTTTATATTCATTTATGGTAACATTTAGAATAAGCGGCTAACATGGAAGCACAA
* * **
31416 ATTCTTTTTGTCTCAGCATATCCCATGGCAGCAAAAGG-TATTCGCACGGAATGTATTGGTCGGA
190 ATTCTTTTTGTCTCAGCATATCCCATGGCAGCAAAAGGAGAAT-GCACGGAATGTATTGGTCACA
31480 CA
254 CA
31482 TGGTACTTCGAATGGGGTTACGTTGAGGGAAGGTTCAAGGTGAGTGCGCCATGTAACCCCATTTG
1 TGGTACTTCGAATGGGGTTACGTTGAGGGAAGGTTCAAGGTGAGTGCGCCATGTAACCCCATTTG
* ** * *
31547 AAGTACGGCTGAGTATGAAGTAAGTAACCTTATTTCTGAGTTTACTCCTTTCATTTAATTTTCTA
66 AAGTACGGCTGAGTATGAAGTAAGAAATATTATTTCTGAATTTACTCCTTTCATTTAGTTTTCTA
* ** *
31612 ATGTGCTTTATATTCATTTATGGTAACATTTAGAATAAGCGGTTAACAT-GAAG-ACACCTTTTT
131 ATGTGCTTTATATTCATTTATGGTAACATTTAGAATAAGCGGCTAACATGGAAGCACA-AATTCT
*
31675 TTTTGTCTCAGCATATCCCCATGGCAGCAAAAGGAGAATGCATGGAATGTATTGGTCACACA
195 TTTTGTCTCAGCATAT-CCCATGGCAGCAAAAGGAGAATGCACGGAATGTATTGGTCACACA
* * *
31737 TGGTACTTCGAATGGGGTTAAGGTGAGTGGGAAGGTTCAAGGTGAGTGCGCCGCT-TAACCCCCA
1 TGGTACTTCGAATGGGGTTACGTTGA--GGGAAGGTTCAAGGTGAGTGCGCC-ATGTAA-CCCCA
* * * *
31801 TCTGAAGTATGGCTGAGTATGCAGTATGCAGTAAGAAATTTTATTTCTGAATGTACTCCTTTCAT
62 TTTGAAGTACGGCTGAGTAT---G-A---AGTAAGAAATATTATTTCTGAATTTACTCCTTTCAT
31866 TTAGTTTTCTAATGTGCTTTATATTCATTTATG
120 TTAGTTTTCTAATGTGCTTTATATTCATTTATG
31899 TTATGTTTGT
Statistics
Matches: 369, Mismatches: 33, Indels: 25
0.86 0.08 0.06
Matches are distributed among these distances:
253 3 0.01
254 23 0.06
255 155 0.42
256 6 0.02
257 27 0.07
258 24 0.07
260 66 0.18
261 1 0.00
262 1 0.00
265 63 0.17
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.34
Consensus pattern (255 bp):
TGGTACTTCGAATGGGGTTACGTTGAGGGAAGGTTCAAGGTGAGTGCGCCATGTAACCCCATTTG
AAGTACGGCTGAGTATGAAGTAAGAAATATTATTTCTGAATTTACTCCTTTCATTTAGTTTTCTA
ATGTGCTTTATATTCATTTATGGTAACATTTAGAATAAGCGGCTAACATGGAAGCACAAATTCTT
TTTGTCTCAGCATATCCCATGGCAGCAAAAGGAGAATGCACGGAATGTATTGGTCACACA
Found at i:34025 original size:321 final size:321
Alignment explanation
Indices: 32379--35027 Score: 3631
Period size: 316 Copynumber: 8.3 Consensus size: 321
32369 CCATTATTCA
* * *
32379 AAAAAAAATTGAAAGGTTTTTCATGTTTACAATATCGTTTTTCAATTTTTTTCGAATTTATTTCT
1 AAAAAAAATTGAAAGGTTTTTCACGCTTACAATATCGTTTTTCCA-TTTTTTCGAATTTATTTCT
* * * * * *
32444 AATTAAATCAAAACAAAATTCAGATTCTCGTAAAAACAAATTCTTAAATCCATGGTCGCTGAGAT
65 AATTAAATCAAAACAAAATTCAGATGCCCGTAAAGACAAATCCTTAAATCCATTGTGGCTGAGAT
* * * * *
32509 TTCGTTCGCTGAACACAGATATTTCAAAGAGGCTTTTAGCCAAAAATCATGCAAAACTGAGTCGG
130 TTCGTTCGATGAATACAGATATTTCAAGGAGGCTTTCAGCCAAAAATCATGCAAAACTGAGCCGG
** ** * *
32574 GTCCCCGAAACATGTTTTTAGCCCAAAAACCGTGATGGTTAATACACGATTTCGACTAAAAAGTG
195 GTCCCCGAAACGCGTTTTTAGCCCCTAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAAGTG
* * * * *
32639 ACCC-AAAA--ATTTTTCTCAAAAATTTGCCACAAAACTCCGAAAAATATATAATTCGATGC
260 ACCCGAAAATTTTTTTTCTCAAAAATTTGCCACAATACTCGGAAAAATATATAATTCAACGC
* * ** * *
32698 AAAAAAAATTTGAATGGTTTTTTACAATTACAATATCGTTTTTCCA-TTATTCTGAATCTATTTC
1 AAAAAAAA-TTGAAAGGTTTTTCACGCTTACAATATCGTTTTTCCATTTTTTC-GAATTTATTTC
*
32762 TAATTAAATCAAAACAAAATTCAGATTGCCCGTAAAGAC-AATCCTTAAATCCATTGTGGTTGAG
64 TAATTAAATCAAAACAAAATTCAGA-TGCCCGTAAAGACAAATCCTTAAATCCATTGTGGCTGAG
* * * * *
32826 ATTTCTTTCGATTAATACATATATTTCAAGGAAGCTTTCTGCCAAAAATCATGGCAAAACTGAGC
128 ATTTCGTTCGATGAATACAGATATTTCAAGGAGGCTTTCAGCCAAAAATCAT-GCAAAACTGAGC
* ** * **
32891 TGGGTCCCCGAAACATGTTTTTAGTCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAA
192 CGGGTCCCCGAAACGCGTTTTTAGCCCCTAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAA
*
32956 GTAACCCG--AATTTTTTTTCCTCAAAAATTTGCCACAATACTCGGAAAAATATATAATTCAACG
257 GTGACCCGAAAATTTTTTTT-CTCAAAAATTTGCCACAATACTCGGAAAAATATATAATTCAACG
33019 C
321 C
*
33020 TAAAGAAAAAAATTGAAAGGTTTTTCACGCTTAAAATATCGTTTTTCCATTTTTTCGAATTTATT
1 ---A-AAAAAAATTGAAAGGTTTTTCACGCTTACAATATCGTTTTTCCATTTTTTCGAATTTATT
* * *
33085 TTTAATTAAATAAAAACAAAATTCAGATGCCC------A-TAA--CTTAAATCCATTGTGGCTGA
62 TCTAATTAAATCAAAACAAAATTCAGATGCCCGTAAAGACAAATCCTTAAATCCATTGTGGCTGA
* *
33141 GATTTCGTTCGATAAATACAGATATTTCAAGGAGGCTTTCAGCCAAAAATCATGTAAAACTGAGC
127 GATTTCGTTCGATGAATACAGATATTTCAAGGAGGCTTTCAGCCAAAAATCATGCAAAACTGAGC
* *
33206 CAGGTCCCCGAAACGCGTTTTTAGCCCCTAAACCGTGATGGTTAATACACGATTTCGGCTAAAAA
192 CGGGTCCCCGAAACGCGTTTTTAGCCCCTAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAA
*
33271 -TGGACCC-AAAATTTTTTTTTTCGAAAAATTTGCCACAATACTCGGAAAAATATATAATTCAAC
257 GT-GACCCGAAAATTTTTTTTCTC-AAAAATTTGCCACAATACTCGGAAAAATATATAATTCAAC
33334 GC
320 GC
* *
33336 AAAAGAAAAAAATTGAAAGGTTTTTCACGCTTAGAATATTGTTTTTCCATTTTTTCGAATTTATT
1 ---A-AAAAAAATTGAAAGGTTTTTCACGCTTACAATATCGTTTTTCCATTTTTTCGAATTTATT
* * * * * * *
33401 TTTACTTAAATGAAAACAAAATTTAGATGCCCATAAAGAAAAATTCTTAAATCCATTGTGGCTGA
62 TCTAATTAAATCAAAACAAAATTCAGATGCCCGTAAAGACAAATCCTTAAATCCATTGTGGCTGA
* * * *
33466 AATTTCGTTCGATGACTATAGATATTTCAAGGAGACTTTCAGCCAAAAATCATGCAAAACTGAGC
127 GATTTCGTTCGATGAATACAGATATTTCAAGGAGGCTTTCAGCCAAAAATCATGCAAAACTGAGC
* * *
33531 CGAGTCCCCGAAACGTGTTTTTA-CCCCTAAACCGTGATTGTTAGTACACGATTTCGGCTAAAAA
192 CGGGTCCCCGAAACGCGTTTTTAGCCCCTAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAA
* * *
33595 GGGACCC-AAAATTTTTTTTTCTCAAAAATTTACCTCAATACTCGGAAAAATATATAATTCAACG
257 GTGACCCGAAAA-TTTTTTTTCTCAAAAATTTGCCACAATACTCGGAAAAATATATAATTCAACG
33659 C
321 C
* * *
33660 AAAAAAATTTGAAAGGTTTTTCACGCTTTCAATATCGTTTTTCCATTGTTTCGAATTTATTTCTA
1 AAAAAAAATTGAAAGGTTTTTCACGCTTACAATATCGTTTTTCCATTTTTTCGAATTTATTTCTA
* * *
33725 ATTAAATGAAAACAAAATTCAGATGGCCGTAAAGACAAATCCTTAAATCCATTGTGGCTGACATT
66 ATTAAATCAAAACAAAATTCAGATGCCCGTAAAGACAAATCCTTAAATCCATTGTGGCTGAGATT
* *
33790 TTGTTCGATGAATACGGATATTTCAAGGAGGCTTTCAGCCAAAAATCATGCAAAACTGAGCCGGG
131 TCGTTCGATGAATACAGATATTTCAAGGAGGCTTTCAGCCAAAAATCATGCAAAACTGAGCCGGG
* *
33855 TCCCTGAAACGCGTTTTTAGCCCTTAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAAGTGA
196 TCCCCGAAACGCGTTTTTAGCCCCTAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAAGTGA
* **
33920 CCCGAAAAATTTTTTTCTCAAAAATTTGCCACAATACTCGGAAAAATATATAATTCGCCGC
261 CCCGAAAATTTTTTTTCTCAAAAATTTGCCACAATACTCGGAAAAATATATAATTCAACGC
*
33981 AAAAAAAATTGAAAGATTTTTCACGCTTACAATATCGTTTTTCCATTTTTTCGAATTTATTTCTA
1 AAAAAAAATTGAAAGGTTTTTCACGCTTACAATATCGTTTTTCCATTTTTTCGAATTTATTTCTA
* * * * *
34046 GTTAAATGAAAACAAAATTCAGATGCCCGTAAACACAAATCCTTAAATCAATTGTGGTTGAGATT
66 ATTAAATCAAAACAAAATTCAGATGCCCGTAAAGACAAATCCTTAAATCCATTGTGGCTGAGATT
* * * * *
34111 TCGCTCGATGATTACAGACATTTCAAGGAGGCTTTCATCCAAAAATTATGCAAAACTGAGCCGGG
131 TCGTTCGATGAATACAGATATTTCAAGGAGGCTTTCAGCCAAAAATCATGCAAAACTGAGCCGGG
*
34176 TCCTCGAAACGCGTTTTTAGCCCCTAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAAGTGA
196 TCCCCGAAACGCGTTTTTAGCCCCTAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAAGTGA
* * * *
34241 CCCGAATGA-TTTTTTTCTCAAAAATTTGCCACAACACTAGGAATAATATATAATT---C-C
261 CCCGAA-AATTTTTTTTCTCAAAAATTTGCCACAATACTCGGAAAAATATATAATTCAACGC
* * * *
34298 ACAAAAAATTGAAAGGTTTTTCATGCTTAGAATATCGTTTTTCCA-TTTTTCAAATTTATTTCTA
1 AAAAAAAATTGAAAGGTTTTTCACGCTTACAATATCGTTTTTCCATTTTTTCGAATTTATTTCTA
* * * *
34362 ATTAAATCAAAACAAAATTTAGATGCCCGTAATGTCAAATCCTTAAATCCATGGTGGCTGAGATT
66 ATTAAATCAAAACAAAATTCAGATGCCCGTAAAGACAAATCCTTAAATCCATTGTGGCTGAGATT
* *
34427 TCGTTAGATGAATACAAATATTTCAAGGAGGCTTTCAGCCAAAAATCATGCAAAACTGAGCCGGG
131 TCGTTCGATGAATACAGATATTTCAAGGAGGCTTTCAGCCAAAAATCATGCAAAACTGAGCCGGG
* * *
34492 TCCCCGAAACGCGTTTTTAACCCTTAAACCGTGATGGTTAGTACACGATTTCGGCGAAAAAGTGA
196 TCCCCGAAACGCGTTTTTAGCCCCTAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAAGTGA
*
34557 CCCGAAAATTTTTTTTCTCAAAAATTTGCCACAACACTCGGAAAAATATATAATTCAACGC
261 CCCGAAAATTTTTTTTCTCAAAAATTTGCCACAATACTCGGAAAAATATATAATTCAACGC
* *
34618 AGAAAAAAAATTGAAAGGTTTTTCACGCTTACAATATCGTTTTTCCTTTTTTTACGAATCTATTT
1 --AAAAAAAATTGAAAGGTTTTTCACGCTTACAATATCGTTTTTCCATTTTTT-CGAATTTATTT
* * ** * *
34683 CTATTTAAATCAAAAGAAAATTCAGATGGACGTAAAGACAAATCATTAACTCCATTGTGGCTGAG
63 CTAATTAAATCAAAACAAAATTCAGATGCCCGTAAAGACAAATCCTTAAATCCATTGTGGCTGAG
* * * * *
34748 ACTTCGTTCAATGAATACAGATATTTAAAGGAGACTTTCAGCAAAAAATCATGCAAAACTGAGCC
128 ATTTCGTTCGATGAATACAGATATTTCAAGGAGGCTTTCAGCCAAAAATCATGCAAAACTGAGCC
* * * ** * *
34813 GAGTCCCTGAAACACGTTTTTAGCCTGTAAATCGTGATGGTTAGTACACGATTTCGGTTAAAAAG
193 GGGTCCCCGAAACGCGTTTTTAGCCCCTAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAAG
* * * * *
34878 TGACCCGAAAATTTTTTTTTCTCAAAAATTTACCTCAATACTTGTAAAAATACATAATTCAACGC
258 TGACCCGAAAA-TTTTTTTTCTCAAAAATTTGCCACAATACTCGGAAAAATATATAATTCAACGC
* *
34943 AAAAAAAATTGAAAGGTTTTTCACGCTTTCAATATCGTTTTTCCATTGTTTCGAATTTATTTCTA
1 AAAAAAAATTGAAAGGTTTTTCACGCTTACAATATCGTTTTTCCATTTTTTCGAATTTATTTCTA
*
35008 ATTAAATGAAAACAAAATTC
66 ATTAAATCAAAACAAAATTC
Statistics
Matches: 2079, Mismatches: 209, Indels: 81
0.88 0.09 0.03
Matches are distributed among these distances:
314 1 0.00
315 75 0.04
316 453 0.22
317 42 0.02
318 9 0.00
319 110 0.05
320 312 0.15
321 388 0.19
322 118 0.06
323 55 0.03
324 282 0.14
325 222 0.11
326 12 0.01
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (321 bp):
AAAAAAAATTGAAAGGTTTTTCACGCTTACAATATCGTTTTTCCATTTTTTCGAATTTATTTCTA
ATTAAATCAAAACAAAATTCAGATGCCCGTAAAGACAAATCCTTAAATCCATTGTGGCTGAGATT
TCGTTCGATGAATACAGATATTTCAAGGAGGCTTTCAGCCAAAAATCATGCAAAACTGAGCCGGG
TCCCCGAAACGCGTTTTTAGCCCCTAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAAGTGA
CCCGAAAATTTTTTTTCTCAAAAATTTGCCACAATACTCGGAAAAATATATAATTCAACGC
Found at i:34885 original size:961 final size:953
Alignment explanation
Indices: 32380--35027 Score: 3737
Period size: 961 Copynumber: 2.8 Consensus size: 953
32370 CATTATTCAA
* * *
32380 AAAAAAATTGAAAGGTTTTTCATGTTTACAATATCGTTTTTCAATTTTTTTCGAATTTATTTCTA
1 AAAAAAATTGAAAGGTTTTTCATGCTTAGAATATCGTTTTTCCA-TTTTTTCGAATTTATTTCTA
* * * * *
32445 ATTAAATCAAAACAAAATTCAGATTCTCGTAAAAACAAATTCTTAAATCCATGGTCGCTGAGATT
65 ATTAAATCAAAACAAAATTTAGATGCCCGTAAAGACAAATTCTTAAATCCATGGTGGCTGAGATT
* * * * *
32510 TCGTTCGCTGAACACAGATATTTCAAAGAGGCTTTTAGCCAAAAATCATGCAAAACTGAGTCGGG
130 TCGTTCGATGAATACAGATATTTCAAGGAGGCTTTCAGCCAAAAATCATGCAAAACTGAGCCGGG
* * * * *
32575 TCCCCGAAACATGTTTTTAGCCCAAAAACCGTGATGGTTAATACACGATTTCGACTAAAAAGTGA
195 TCCCCGAAACGTGTTTTTAACCCATAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAAGTGA
* * * *
32640 CCCAAAA--ATTTTTCTCAAAAATTTGCCACAAAACTCCGAAAAATATATAATTCGATGCAAAAA
260 CCCAAAATTTTTTTTCTCAAAAATTTGCCACAAAACTCGGAAAAATATATAATTCAACGCAAAAA
* * ** * *
32703 AAATTTGAATGGTTTTTTACAATTACAATATCGTTTTTCCATTATTCTGAATCTATTTCTAATTA
325 AAATTTGAAAGGTTTTTCACGCTTACAATATCGTTTTTCCTTTTTTC-GAATCTATTTCTAATTA
* * *
32768 AATCAAAACAAAATTCAGATTGCCCGTAAAGAC-AATCCTTAAATCCATTGTGGTTGAGATTTCT
389 AATCAAAACAAAATTCAGA-TGGCCGTAAAGACAAATCCTTAAATCCATTGTGGCTGAGATTTCG
* * * *
32832 TTCGATTAATACATATATTTCAAGGA-AGCTTTCTGCCAAAAATCATGGCAAAACTGAGCTGGGT
453 TTCGATGAATACAGATATTTCAAGGAGA-CTTTCAGCCAAAAATCAT-GCAAAACTGAGCCGGGT
* * * ** *
32896 CCCCGAAACATGTTTTTAGTCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAAGTAAC
516 CCCTGAAACACGTTTTTAGCCCTTAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAAGTGAC
32961 CCG--AATTTTTTTTCCTCAAAAATTTGCCACAATACTCGGAAAAATATATAATTCAACGCTAAA
581 CCGAAAATTTTTTTT-CTCAAAAATTTGCCACAATACTCGGAAAAATATATAATTCAACGC---A
* *
33024 GAAAAAAATTGAAAGGTTTTTCACGCTTAAAATATCGTTTTTCCATTTTTTCGAATTTATTTTTA
642 -AAAAAAATTGAAAGGTTTTTCACGCTTACAATATCGTTTTTCCATTTTTTCGAATTTATTTCTA
* * * *
33089 ATTAAATAAAAACAAAATTCAGATGCCCATAACTTAAATCCATTGTGGCTGAGATTTCGTTCGAT
706 ATTAAATGAAAACAAAATTCAGATGCCCAAAACTTAAATCAATTGTGGCTGAGATTTCGCTCGAT
* *
33154 AAATACAGATATTTCAAGGAGGCTTTCAGCCAAAAATCATGTAAAACTGAGCCAGGTCCCCGAAA
771 AAATACAGACATTTCAAGGAGGCTTTCAGCCAAAAATCATGCAAAACTGAGCCAGGTCCCCGAAA
33219 CGCGTTTTTAGCCCCTAAACCGTGATGGTTAATACACGATTTCGGCTAAAAATGGACCCAAAATT
836 CGCGTTTTTAGCCCCTAAACCGTGATGGTTAATACACGATTTCGGCTAAAAATGGACCCAAAATT
* * *
33284 TTTTTTTTCGAAAAATTTGCCACAATACTCGGAAAAATATATAATTCAACGCAAAAG
901 TTTTTTCTCGAAAAATTTGCCACAACACTAGGAAAAATATATAATT--ACGC--AAG
* * * *
33341 AAAAAAATTGAAAGGTTTTTCACGCTTAGAATATTGTTTTTCCATTTTTTCGAATTTATTTTTAC
1 AAAAAAATTGAAAGGTTTTTCATGCTTAGAATATCGTTTTTCCATTTTTTCGAATTTATTTCTAA
* * * * *
33406 TTAAATGAAAACAAAATTTAGATGCCCATAAAGAAAAATTCTTAAATCCATTGTGGCTGAAATTT
66 TTAAATCAAAACAAAATTTAGATGCCCGTAAAGACAAATTCTTAAATCCATGGTGGCTGAGATTT
* * * *
33471 CGTTCGATGACTATAGATATTTCAAGGAGACTTTCAGCCAAAAATCATGCAAAACTGAGCCGAGT
131 CGTTCGATGAATACAGATATTTCAAGGAGGCTTTCAGCCAAAAATCATGCAAAACTGAGCCGGGT
* * *
33536 CCCCGAAACGTGTTTTT-ACCCCTAAACCGTGATTGTTAGTACACGATTTCGGCTAAAAAGGGAC
196 CCCCGAAACGTGTTTTTAACCCATAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAAGTGAC
* * *
33600 CCAAAATTTTTTTTTCTCAAAAATTTACCTCAATACTCGGAAAAATATATAATTCAACGC-AAAA
261 CCAAAA-TTTTTTTTCTCAAAAATTTGCCACAAAACTCGGAAAAATATATAATTCAACGCAAAAA
* * *
33664 AAATTTGAAAGGTTTTTCACGCTTTCAATATCGTTTTTCCATTGTTTCGAATTTATTTCTAATTA
325 AAATTTGAAAGGTTTTTCACGCTTACAATATCGTTTTTCC-TTTTTTCGAATCTATTTCTAATTA
* * *
33729 AATGAAAACAAAATTCAGATGGCCGTAAAGACAAATCCTTAAATCCATTGTGGCTGACATTTTGT
389 AATCAAAACAAAATTCAGATGGCCGTAAAGACAAATCCTTAAATCCATTGTGGCTGAGATTTCGT
* *
33794 TCGATGAATACGGATATTTCAAGGAGGCTTTCAGCCAAAAATCATGCAAAACTGAGCCGGGTCCC
454 TCGATGAATACAGATATTTCAAGGAGACTTTCAGCCAAAAATCATGCAAAACTGAGCCGGGTCCC
*
33859 TGAAACGCGTTTTTAGCCCTTAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAAGTGACCCG
519 TGAAACACGTTTTTAGCCCTTAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAAGTGACCCG
* **
33924 AAAAATTTTTTTCTCAAAAATTTGCCACAATACTCGGAAAAATATATAATTCGCCGCAAAAAAAA
584 AAAATTTTTTTTCTCAAAAATTTGCCACAATACTCGGAAAAATATATAATTCAACGCAAAAAAAA
* *
33989 TTGAAAGATTTTTCACGCTTACAATATCGTTTTTCCATTTTTTCGAATTTATTTCTAGTTAAATG
649 TTGAAAGGTTTTTCACGCTTACAATATCGTTTTTCCATTTTTTCGAATTTATTTCTAATTAAATG
*
34054 AAAACAAAATTCAGATGCCCGTAAACACAAATCCTTAAATCAATTGTGGTTGAGATTTCGCTCGA
714 AAAACAAAATTCAGATG-CC-----CA-AAA--CTTAAATCAATTGTGGCTGAGATTTCGCTCGA
* * * * * *
34119 TGATTACAGACATTTCAAGGAGGCTTTCATCCAAAAATTATGCAAAACTGAGCCGGGTCCTCGAA
770 TAAATACAGACATTTCAAGGAGGCTTTCAGCCAAAAATCATGCAAAACTGAGCCAGGTCCCCGAA
* *
34184 ACGCGTTTTTAGCCCCTAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAA-GTGACCC-GAA
835 ACGCGTTTTTAGCCCCTAAACCGTGATGGTTAATACACGATTTCGGCTAAAAATG-GACCCAAAA
*
34247 TGATTTTTTTCTC-AAAAATTTGCCACAACACTAGGAATAATATATAATT-C-C-A-
899 T--TTTTTTTCTCGAAAAATTTGCCACAACACTAGGAAAAATATATAATTACGCAAG
* *
34299 CAAAAAATTGAAAGGTTTTTCATGCTTAGAATATCGTTTTTCCA-TTTTTCAAATTTATTTCTAA
1 AAAAAAATTGAAAGGTTTTTCATGCTTAGAATATCGTTTTTCCATTTTTTCGAATTTATTTCTAA
* * *
34363 TTAAATCAAAACAAAATTTAGATGCCCGTAATGTCAAATCCTTAAATCCATGGTGGCTGAGATTT
66 TTAAATCAAAACAAAATTTAGATGCCCGTAAAGACAAATTCTTAAATCCATGGTGGCTGAGATTT
* *
34428 CGTTAGATGAATACAAATATTTCAAGGAGGCTTTCAGCCAAAAATCATGCAAAACTGAGCCGGGT
131 CGTTCGATGAATACAGATATTTCAAGGAGGCTTTCAGCCAAAAATCATGCAAAACTGAGCCGGGT
* * *
34493 CCCCGAAACGCGTTTTTAACCCTTAAACCGTGATGGTTAGTACACGATTTCGGCGAAAAAGTGAC
196 CCCCGAAACGTGTTTTTAACCCATAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAAGTGAC
*
34558 CCGAAAATTTTTTTTCTCAAAAATTTGCCACAACACTCGGAAAAATATATAATTCAACGCAGAAA
261 CC-AAAATTTTTTTTCTCAAAAATTTGCCACAAAACTCGGAAAAATATATAATTCAACGCA-AAA
* *
34623 AAAAATTGAAAGGTTTTTCACGCTTACAATATCGTTTTTCCTTTTTTTACGAATCTATTTCTATT
324 AAAATTTGAAAGGTTTTTCACGCTTACAATATCGTTTTTCC-TTTTTT-CGAATCTATTTCTAAT
* * * * *
34688 TAAATCAAAAGAAAATTCAGATGGACGTAAAGACAAATCATTAACTCCATTGTGGCTGAGACTTC
387 TAAATCAAAACAAAATTCAGATGGCCGTAAAGACAAATCCTTAAATCCATTGTGGCTGAGATTTC
* * * *
34753 GTTCAATGAATACAGATATTTAAAGGAGACTTTCAGCAAAAAATCATGCAAAACTGAGCCGAGTC
452 GTTCGATGAATACAGATATTTCAAGGAGACTTTCAGCCAAAAATCATGCAAAACTGAGCCGGGTC
* *
34818 CCTGAAACACGTTTTTAG-CCTGTAAATCGTGATGGTTAGTACACGATTTCGGTTAAAAAGTGAC
517 CCTGAAACACGTTTTTAGCCCT-TAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAAGTGAC
* * * * *
34882 CCGAAAATTTTTTTTTCTCAAAAATTTACCTCAATACTTGTAAAAATACATAATTCAACGCAAAA
581 CCGAAAA-TTTTTTTTCTCAAAAATTTGCCACAATACTCGGAAAAATATATAATTCAACGCAAAA
* *
34947 AAAATTGAAAGGTTTTTCACGCTTTCAATATCGTTTTTCCATTGTTTCGAATTTATTTCTAATTA
645 AAAATTGAAAGGTTTTTCACGCTTACAATATCGTTTTTCCATTTTTTCGAATTTATTTCTAATTA
35012 AATGAAAACAAAATTC
710 AATGAAAACAAAATTC
Statistics
Matches: 1502, Mismatches: 158, Indels: 53
0.88 0.09 0.03
Matches are distributed among these distances:
957 233 0.16
958 139 0.09
959 51 0.03
960 285 0.19
961 416 0.28
962 184 0.12
963 3 0.00
964 2 0.00
965 4 0.00
966 176 0.12
967 9 0.01
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (953 bp):
AAAAAAATTGAAAGGTTTTTCATGCTTAGAATATCGTTTTTCCATTTTTTCGAATTTATTTCTAA
TTAAATCAAAACAAAATTTAGATGCCCGTAAAGACAAATTCTTAAATCCATGGTGGCTGAGATTT
CGTTCGATGAATACAGATATTTCAAGGAGGCTTTCAGCCAAAAATCATGCAAAACTGAGCCGGGT
CCCCGAAACGTGTTTTTAACCCATAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAAGTGAC
CCAAAATTTTTTTTCTCAAAAATTTGCCACAAAACTCGGAAAAATATATAATTCAACGCAAAAAA
AATTTGAAAGGTTTTTCACGCTTACAATATCGTTTTTCCTTTTTTCGAATCTATTTCTAATTAAA
TCAAAACAAAATTCAGATGGCCGTAAAGACAAATCCTTAAATCCATTGTGGCTGAGATTTCGTTC
GATGAATACAGATATTTCAAGGAGACTTTCAGCCAAAAATCATGCAAAACTGAGCCGGGTCCCTG
AAACACGTTTTTAGCCCTTAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAAGTGACCCGAA
AATTTTTTTTCTCAAAAATTTGCCACAATACTCGGAAAAATATATAATTCAACGCAAAAAAAATT
GAAAGGTTTTTCACGCTTACAATATCGTTTTTCCATTTTTTCGAATTTATTTCTAATTAAATGAA
AACAAAATTCAGATGCCCAAAACTTAAATCAATTGTGGCTGAGATTTCGCTCGATAAATACAGAC
ATTTCAAGGAGGCTTTCAGCCAAAAATCATGCAAAACTGAGCCAGGTCCCCGAAACGCGTTTTTA
GCCCCTAAACCGTGATGGTTAATACACGATTTCGGCTAAAAATGGACCCAAAATTTTTTTTCTCG
AAAAATTTGCCACAACACTAGGAAAAATATATAATTACGCAAG
Done.