Locus 3676

Sequence ID	2L_DroMel_CAF1
Location	10,698,986 – 10,699,089
Length	103
Max. P	0.978551

overview

Window 1

Location	10,698,986 – 10,699,089
Length	103
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	86.39
Mean single sequence MFE	-36.58
Consensus MFE	-26.90
Energy contribution	-28.26
Covariance contribution	1.36
Combinations/Pair	1.08
Mean z-score	-2.86
Structure conservation index	0.74
SVM decision value	1.82
SVM RNA-class probability	0.978551
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10698986 103 + 22407834
GCAGGAAAAGCGCAGCUGAGCGUAGCUGAGCUCCACCCAAAUGCAAAUGGCAAGACAAUGUGGGCUAAGAGCCCAAGAAACUAUAGCUGGCGGAAGGUCGGGC
...(((...((.((((((....)))))).))))).(((...(((.....))).(((....(((((.....)))))...............(....))))))). ( -33.00)
>DroSec_CAF1 30243 103 + 1
GCAGGAAAAGAGCAGCUGAGCGCAGUUGAGCUCCACCCAAAUGCAAAUGGCAAGACAAUGUGGGCUAAGAGCCCAAGAAAGUGGAGCUGGCGGAGGGUGGGCG
((......((..((((((....))))))..))((((((...(((....(((....((...(((((.....)))))......))..))).)))..)))))))). ( -37.00)
>DroSim_CAF1 31037 103 + 1
GCAGGAAAAGCGCAGCUGAGCGCAGCUGAGCUCCACCCAAAUGCAAAUGGCAAGACAAUGUGGGCUAAGAGCCCAAGAAAGUGGAGCUGGCGGAAGGUUGGGC
.........((.(((((...(((.....((((((((.....(((.....)))........(((((.....))))).....)))))))).)))...))))).)) ( -37.80)
>DroEre_CAF1 31047 94 + 1
GCAGGAAAAGCGCAGCUGAGCAGAGCUGAGCUCCACCCAAAUGCAAAUGGCAAGACAAUGUGGGCUAAGAGCCCAAGGAAGUGGAGCUGCCUGG---------
.((((.......(((((......)))))((((((((((...(((.....)))........(((((.....))))).))..)))))))).)))).--------- ( -38.60)
>DroYak_CAF1 29091 94 + 1
GCCGGAAAAGCGCAGCUGAGCAGUGCUGAGCUCCACCCAAAUGCAAAUGGAGAGACAAUGUGGGCUAAGAGCCCCAGAACGUGGAGCUGGCGGG---------
(((.....(((((.((...)).))))).(((((((((((........)))........((.((((.....))))))....)))))))))))...--------- ( -36.50)
>consensus
GCAGGAAAAGCGCAGCUGAGCGCAGCUGAGCUCCACCCAAAUGCAAAUGGCAAGACAAUGUGGGCUAAGAGCCCAAGAAAGUGGAGCUGGCGGA_GGU_GG__
((..........((((((....))))))(((((((((((........)))..........(((((.....))))).....)))))))).))............ (-26.90 = -28.26 +   1.36)

alignment

secondary structure

dotplot

Window 2

Location	10,698,986 – 10,699,089
Length	103
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	86.39
Mean single sequence MFE	-31.69
Consensus MFE	-25.44
Energy contribution	-26.08
Covariance contribution	0.64
Combinations/Pair	1.05
Mean z-score	-2.39
Structure conservation index	0.80
SVM decision value	1.78
SVM RNA-class probability	0.977062
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10698986 103 - 22407834
GCCCGACCUUCCGCCAGCUAUAGUUUCUUGGGCUCUUAGCCCACAUUGUCUUGCCAUUUGCAUUUGGGUGGAGCUCAGCUACGCUCAGCUGCGCUUUUCCUGC
............(((((((...((...(((((((((..(((((...(((..........)))..))))))))))))))..))....))))).))......... ( -29.80)
>DroSec_CAF1 30243 103 - 1
CGCCCACCCUCCGCCAGCUCCACUUUCUUGGGCUCUUAGCCCACAUUGUCUUGCCAUUUGCAUUUGGGUGGAGCUCAACUGCGCUCAGCUGCUCUUUUCCUGC
.((........(((.((((((((.....(((((.....)))))..........(((........))))))))))).....))).......))........... ( -27.56)
>DroSim_CAF1 31037 103 - 1
GCCCAACCUUCCGCCAGCUCCACUUUCUUGGGCUCUUAGCCCACAUUGUCUUGCCAUUUGCAUUUGGGUGGAGCUCAGCUGCGCUCAGCUGCGCUUUUCCUGC
............((.((((((((.....(((((.....)))))..........(((........)))))))))))..)).((((......))))......... ( -33.90)
>DroEre_CAF1 31047 94 - 1
---------CCAGGCAGCUCCACUUCCUUGGGCUCUUAGCCCACAUUGUCUUGCCAUUUGCAUUUGGGUGGAGCUCAGCUCUGCUCAGCUGCGCUUUUCCUGC
---------.((((.(((..........(((((.....)))))................(((.(((((..((((...))))..))))).))))))...)))). ( -34.00)
>DroYak_CAF1 29091 94 - 1
---------CCCGCCAGCUCCACGUUCUGGGGCUCUUAGCCCACAUUGUCUCUCCAUUUGCAUUUGGGUGGAGCUCAGCACUGCUCAGCUGCGCUUUUCCGGC
---------...(((((((((((....((((((.....)))).))........(((........)))))))))))((((........)))).........))) ( -33.20)
>consensus
__CC_ACC_UCCGCCAGCUCCACUUUCUUGGGCUCUUAGCCCACAUUGUCUUGCCAUUUGCAUUUGGGUGGAGCUCAGCUCCGCUCAGCUGCGCUUUUCCUGC
...............((((((((......((((.....))))...........(((........)))))))))))(((((......)))))............ (-25.44 = -26.08 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:27 2006