Locus 2892

Sequence ID	X_DroMel_CAF1
Location	7,749,731 – 7,749,907
Length	176
Max. P	0.939433

overview

Window 6

Location	7,749,731 – 7,749,844
Length	113
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	82.34
Mean single sequence MFE	-26.50
Consensus MFE	-16.21
Energy contribution	-18.35
Covariance contribution	2.14
Combinations/Pair	1.14
Mean z-score	-2.32
Structure conservation index	0.61
SVM decision value	0.31
SVM RNA-class probability	0.684429
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7749731 113 + 22224390
UCCGCACCUUACGCCCAAUUCGAGAAAUGAAAGUGGCAAGUAUUCAUUUGCUUCUUGUUCUUGAUCGUGAUUUAUUUCGUUUAAUUGAAUUACUUUUAGGGAUUACGGUUUUG
.....(((.((..(((...(((((((....(((.(((((((....))))))).))).)))))))..((((((((...........)))))))).....)))..)).))).... ( -28.30)
>DroPse_CAF1 9516 91 + 1
UCCUUACCAUAGCUCUAAACUGA--AAAUAAAUCUGCACGUAUUCAAUUGCUUCUUGUUCUUGAUCGUGUUUUAUUUACUUUCACUUUGUUAU--------------------
........(((((...(((.(((--((.(((((..(((((...((((..((.....))..)))).)))))...))))).))))).))))))))-------------------- ( -17.40)
>DroSec_CAF1 9185 113 + 1
UCCGCACCUUACGCCCAAAUCGAGAAAUGAAAGUGGCAAGUAUUCAUUUGCUUCUUGUUCUUGAUCGUGAUUUAUUUCGUUUAAUUGAAUUACUUUUAGGGGUUACGGUUUUG
.....(((..((.(((..((((((((....(((.(((((((....))))))).))).)))))))).((((((((...........)))))))).....)))))...))).... ( -29.60)
>DroSim_CAF1 9349 113 + 1
UCCGCACCUUACGCCCAAAUCGAGAAAUGACAGUGGCAAGUAUUCAUUUGCUUCUUGUUCUUGAUCGUGAUUUAUUUCGUUUAAUUGAAUUACUUUUAGGGAUUACGGUUUUG
.....(((.((..(((..((((((((.....((.(((((((....))))))).))..)))))))).((((((((...........)))))))).....)))..)).))).... ( -26.60)
>DroEre_CAF1 10709 111 + 1
UCCGCACCUGACGCCCAAAUCGAGAAAUGAAAGUGGCAAGUAUUCAUUUGCUUCUUGUUCUUGAUCGUGAUUUAUUUCGUUUAAUUGAAUUACUUUUAGGGGUUUCGAUUU--
........(((.((((..((((((((....(((.(((((((....))))))).))).)))))))).((((((((...........))))))))......)))).)))....-- ( -29.60)
>DroYak_CAF1 10760 113 + 1
UCCUCACCUGACGCCCGAGUCGAGAAAUGAAAGUGGCAAGUAUUCAUUUGCUUCUUGUUCUUGAUCGUGAUUUAUUUCGUUUAAUUGAAUUACUUCAAGUGAUUUCGGUUUUG
...((((.(((.....((.(((((((....(((.(((((((....))))))).))).)))))))))((((((((...........)))))))).))).))))........... ( -27.50)
>consensus
UCCGCACCUUACGCCCAAAUCGAGAAAUGAAAGUGGCAAGUAUUCAUUUGCUUCUUGUUCUUGAUCGUGAUUUAUUUCGUUUAAUUGAAUUACUUUUAGGGAUUACGGUUUUG
.............(((..((((((((....(((.(((((((....))))))).))).)))))))).((((((((...........)))))))).....)))............ (-16.21 = -18.35 +   2.14)

alignment

secondary structure

dotplot

Window 7

Location	7,749,805 – 7,749,907
Length	102
Sequences	3
Columns	108
Reading direction	reverse
Mean pairwise identity	91.51
Mean single sequence MFE	-15.37
Consensus MFE	-12.94
Energy contribution	-12.94
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-3.20
Structure conservation index	0.84
SVM decision value	1.30
SVM RNA-class probability	0.939433
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7749805 102 - 22224390
UGAUUCUUUGAUUGAAAACGGUCCCUAAAAACCAAAAUCAAAAUCGAAAU------UGAAAUCGAAAACCAAAACCGUAAUCCCUAAAAGUAAUUCAAUUAAACGAAA
...(((((((((((((...(((........)))..........((((...------.....))))............................)))))))))).))). ( -14.30)
>DroSec_CAF1 9259 96 - 1
UGAUUCUUUGAUUGAAAACGGUCCCUAAAAACCAAAAUCAAAAUCGA------------AAUCGAAAACCAAAACCGUAACCCCUAAAAGUAAUUCAAUUAAACGAAA
...(((((((((((((...(((........)))..........(((.------------...)))............................)))))))))).))). ( -13.70)
>DroSim_CAF1 9423 108 - 1
UGAUUCUUUGAUUGAAAACGGUCCCUAAAAACCAAAAUCAAAAUCGAAAUCGAAAUCGAAAUCGAAAACCAAAACCGUAAUCCCUAAAAGUAAUUCAAUUAAACGAAA
...(((((((((((((...(((........)))..........((((..(((....)))..))))............................)))))))))).))). ( -18.10)
>consensus
UGAUUCUUUGAUUGAAAACGGUCCCUAAAAACCAAAAUCAAAAUCGAAAU_______GAAAUCGAAAACCAAAACCGUAAUCCCUAAAAGUAAUUCAAUUAAACGAAA
...(((((((((((((...(((........)))..........((((..............))))............................)))))))))).))). (-12.94 = -12.94 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:57 2006