Locus 842

Sequence ID	2L_DroMel_CAF1
Location	2,397,546 – 2,397,643
Length	97
Max. P	0.956281

overview

Window 6

Location	2,397,546 – 2,397,643
Length	97
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	83.73
Mean single sequence MFE	-26.60
Consensus MFE	-18.82
Energy contribution	-20.38
Covariance contribution	1.56
Combinations/Pair	1.15
Mean z-score	-2.53
Structure conservation index	0.71
SVM decision value	1.46
SVM RNA-class probability	0.956281
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2397546 97 + 22407834
AGUCCUAAAUGGAGGCAUAUGCUAAUUAGGAUGGGUAAGGCGAUUCCUCCAAGUGGGGUAGUAGUAGGAAACUAUG-GAAAUAUAUGAUAGUUUCAUG
..(((((..((((((.((.((((...............)))))).))))))..))))).....((((....)))).-(((((........)))))... ( -25.16)
>DroSec_CAF1 15505 96 + 1
AGCCCUAAAUGGAGGCAUAUGCUAAUUAGGACGGGCAAGGCGAUUCCUCCAUGUGGUGUAGUAA-ACGAAACUAUG-GAAAUAUAUGAUAGUUUCAUG
.((((...(((((((.((.((((...............)))))).)))))))..)).)).....-..((((((((.-(.......).))))))))... ( -24.06)
>DroSim_CAF1 16264 92 + 1
AGCCCUAAAUGGAGGCAUAUGCUAAUUAGGACGGGCAAGGCGAUUCCUCCAUGUGGGGUAGU-----GAAACUAUG-GAGAUAUAUGAUAGUUUCAUG
.((((((.(((((((.((.((((...............)))))).))))))).)))))).((-----((((((((.-(.......).)))))))))). ( -32.46)
>DroEre_CAF1 16661 95 + 1
--CCCUAAAUGGAGGCAUAUGCUAAUUAGAACGGGUAAAGCAAUCCGUCCAUGUGGGGCGGCAGAGAGAAACUACA-AAAAUAUAUGAUAGUUUCACA
--(((((.((((((((....)))........(((((......)))))))))).))))).........(((((((((-........)).)))))))... ( -27.10)
>DroYak_CAF1 16456 96 + 1
--GCCUAAAUGGAGGCAUAUGCUAAUUAGAACGGGUAAAGCCAUCCGUUCAUGUGGGGUAGUGGAAGAAAACUACGGAAAAUAUAUGAUAGUUUCAUG
--((((......))))((((.((.....((((((((......)))))))).......(((((........)))))))...))))((((.....)))). ( -24.20)
>consensus
AGCCCUAAAUGGAGGCAUAUGCUAAUUAGGACGGGUAAGGCGAUUCCUCCAUGUGGGGUAGUAG_AGGAAACUAUG_GAAAUAUAUGAUAGUUUCAUG
.((((((.(((((((.((.((((...............)))))).))))))).))))))........((((((((............))))))))... (-18.82 = -20.38 +   1.56)

alignment

secondary structure

dotplot

Window 7

Location	2,397,546 – 2,397,643
Length	97
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	83.73
Mean single sequence MFE	-18.92
Consensus MFE	-12.53
Energy contribution	-12.93
Covariance contribution	0.40
Combinations/Pair	1.11
Mean z-score	-2.03
Structure conservation index	0.66
SVM decision value	0.47
SVM RNA-class probability	0.749006
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2397546 97 - 22407834
CAUGAAACUAUCAUAUAUUUC-CAUAGUUUCCUACUACUACCCCACUUGGAGGAAUCGCCUUACCCAUCCUAAUUAGCAUAUGCCUCCAUUUAGGACU
...((((((((..........-.))))))))..........((....((((((....((.................)).....))))))....))... ( -16.33)
>DroSec_CAF1 15505 96 - 1
CAUGAAACUAUCAUAUAUUUC-CAUAGUUUCGU-UUACUACACCACAUGGAGGAAUCGCCUUGCCCGUCCUAAUUAGCAUAUGCCUCCAUUUAGGGCU
.((((((((((..........-.))))))))))-........((..(((((((........(((............)))....)))))))...))... ( -19.70)
>DroSim_CAF1 16264 92 - 1
CAUGAAACUAUCAUAUAUCUC-CAUAGUUUC-----ACUACCCCACAUGGAGGAAUCGCCUUGCCCGUCCUAAUUAGCAUAUGCCUCCAUUUAGGGCU
..(((((((((..........-.))))))))-----)...(((...(((((((........(((............)))....)))))))...))).. ( -22.10)
>DroEre_CAF1 16661 95 - 1
UGUGAAACUAUCAUAUAUUUU-UGUAGUUUCUCUCUGCCGCCCCACAUGGACGGAUUGCUUUACCCGUUCUAAUUAGCAUAUGCCUCCAUUUAGGG--
.(.(((((((.((........-))))))))).).......(((...(((((.((..((((...............))))....)))))))...)))-- ( -21.46)
>DroYak_CAF1 16456 96 - 1
CAUGAAACUAUCAUAUAUUUUCCGUAGUUUUCUUCCACUACCCCACAUGAACGGAUGGCUUUACCCGUUCUAAUUAGCAUAUGCCUCCAUUUAGGC--
.((((.....)))).........(((((........))))).......((((((..........))))))............((((......))))-- ( -15.00)
>consensus
CAUGAAACUAUCAUAUAUUUC_CAUAGUUUCCU_CUACUACCCCACAUGGAGGAAUCGCCUUACCCGUCCUAAUUAGCAUAUGCCUCCAUUUAGGGCU
...((((((((............))))))))...........((..(((((((....((.................)).....)))))))...))... (-12.53 = -12.93 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:53 2006