Locus 6031

Sequence ID	2R_DroMel_CAF1
Location	18,981,790 – 18,981,890
Length	100
Max. P	0.943169

overview

Window 7

Location	18,981,790 – 18,981,890
Length	100
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	74.03
Mean single sequence MFE	-24.89
Consensus MFE	-16.57
Energy contribution	-17.59
Covariance contribution	1.03
Combinations/Pair	1.11
Mean z-score	-1.59
Structure conservation index	0.67
SVM decision value	1.24
SVM RNA-class probability	0.934875
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18981790 100 + 20766785
AACAUUUGGAUGCUUACCUACACGGUGCCGUUCUUUGGUUAUGAAAACGGCACAUAUCACUUCAAGUGAGUAUGGAAAUCAU-UGCCCACUGG--GGGUCUGA-----
........((((.((.(((((...((((((((.(((......)))))))))))...((((.....))))))).)).)).)))-)((((.....--))))....----- ( -27.10)
>DroVir_CAF1 111953 93 + 1
AACAUUUGGAUGCUAACGUACACGGUGCCAUUCUUUGGCUAUGAGAAUGGCAGCUAUCACUUCAAGUAAGUAACA---GCAGAAAA-GUCAAAAACA-----------
....(((((.((((....(((..(.((((((((((.......)))))))))).)....((.....))..)))..)---))).....-.)))))....----------- ( -22.10)
>DroSec_CAF1 80017 102 + 1
AACAUUUGGAUGCUUACCUACACGGUACCGUUCUUCGGGUAUGAGAACGGCACAUAUCACUUCAAGUGAGUACGGAAAUCAA-UGCCCAAUCAAACUAUCUGU-----
.......(((((..((((.....)))).)))))...((((((((...((..((...((((.....)))))).))....)).)-)))))...............----- ( -21.40)
>DroSim_CAF1 84653 102 + 1
AACAUCUGGAUGCUUACCUACACGGUGCCGUUCUUUGGGUAUGAGAACGGCACAUAUCACUUCAAGUGAGUAUGGAUAUCAA-UAUCCAAUCAAAGUAUCUGU-----
.......((((((((...(((...(((((((((((.......)))))))))))...((((.....)))))))((((((....-))))))....))))))))..----- ( -37.20)
>DroWil_CAF1 107014 91 + 1
AAUAUAUGGAUGCUAACCUAUACGGUUCCAUUCUUUGGCUUUGAGAACGGCAGCUAUCAUUUCAAGUAAGUACA--AACCAG-AAU-GAAACAAA-------------
.......(((((..((((.....)))).)))))..((((((((....))).)))))((((((...((.......--.))..)-)))-))......------------- ( -12.70)
>DroYak_CAF1 83203 107 + 1
AACAUUUGGAUGCUCACCUACACGGUGCCGUUCUUUGGGUAUGAGAACGGCACUUACCACUUCAAGUGAGUAUGGAAAUCAU-GGCUUAAUCAAACUAUUGGUAUAUU
...((((..((((((((......((((((((((((.......))))))))))))...........))))))))..))))...-......(((((....)))))..... ( -28.83)
>consensus
AACAUUUGGAUGCUUACCUACACGGUGCCGUUCUUUGGGUAUGAGAACGGCACAUAUCACUUCAAGUGAGUAUGGAAAUCAA_UACCCAAUCAAACUAUCUGU_____
..........(((((((.......(((((((((((.......)))))))))))............))))))).................................... (-16.57 = -17.59 +   1.03)

alignment

secondary structure

dotplot

Window 8

Location	18,981,790 – 18,981,890
Length	100
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	74.03
Mean single sequence MFE	-25.53
Consensus MFE	-16.37
Energy contribution	-15.60
Covariance contribution	-0.77
Combinations/Pair	1.50
Mean z-score	-1.72
Structure conservation index	0.64
SVM decision value	1.33
SVM RNA-class probability	0.943169
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18981790 100 - 20766785
-----UCAGACCC--CCAGUGGGCA-AUGAUUUCCAUACUCACUUGAAGUGAUAUGUGCCGUUUUCAUAACCAAAGAACGGCACCGUGUAGGUAAGCAUCCAAAUGUU
-----(((...((--(....)))..-.)))...((((((((((.....))))...((((((((((.........)))))))))).)))).))..(((((....))))) ( -25.30)
>DroVir_CAF1 111953 93 - 1
-----------UGUUUUUGAC-UUUUCUGC---UGUUACUUACUUGAAGUGAUAGCUGCCAUUCUCAUAGCCAAAGAAUGGCACCGUGUACGUUAGCAUCCAAAUGUU
-----------((((..((((-......((---((((((((.....))))))))))(((((((((.........)))))))))....)).))..)))).......... ( -26.20)
>DroSec_CAF1 80017 102 - 1
-----ACAGAUAGUUUGAUUGGGCA-UUGAUUUCCGUACUCACUUGAAGUGAUAUGUGCCGUUCUCAUACCCGAAGAACGGUACCGUGUAGGUAAGCAUCCAAAUGUU
-----...(((.(((((.(((.((.-.........(((.((((.....)))))))(((((((((((......).)))))))))).)).))).))))))))........ ( -25.80)
>DroSim_CAF1 84653 102 - 1
-----ACAGAUACUUUGAUUGGAUA-UUGAUAUCCAUACUCACUUGAAGUGAUAUGUGCCGUUCUCAUACCCAAAGAACGGCACCGUGUAGGUAAGCAUCCAGAUGUU
-----((..((((......((((((-....))))))...((((.....))))...((((((((((.........)))))))))).))))..)).(((((....))))) ( -29.00)
>DroWil_CAF1 107014 91 - 1
-------------UUUGUUUC-AUU-CUGGUU--UGUACUUACUUGAAAUGAUAGCUGCCGUUCUCAAAGCCAAAGAAUGGAACCGUAUAGGUUAGCAUCCAUAUAUU
-------------.(..((((-(..-..(((.--...)))....)))))..)..(((.(((((((.........)))))))((((.....)))))))........... ( -19.70)
>DroYak_CAF1 83203 107 - 1
AAUAUACCAAUAGUUUGAUUAAGCC-AUGAUUUCCAUACUCACUUGAAGUGGUAAGUGCCGUUCUCAUACCCAAAGAACGGCACCGUGUAGGUGAGCAUCCAAAUGUU
....((((....((((....))))(-(((.......(((.(((.....)))))).((((((((((.........))))))))))))))..))))(((((....))))) ( -27.20)
>consensus
_____ACAGAUAGUUUGAUUGGGCA_AUGAUUUCCAUACUCACUUGAAGUGAUAUGUGCCGUUCUCAUACCCAAAGAACGGCACCGUGUAGGUAAGCAUCCAAAUGUU
...........................((....((((((((((.....))))...((((((((((.........)))))))))).)))).))....)).......... (-16.37 = -15.60 +  -0.77)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:49 2006