Locus 7104

Sequence ID X_DroMel_CAF1
Location 17,819,481 – 17,819,593
Length 112
Max. P 0.995794
window11598 window11599

overview

Window 8

Location 17,819,481 – 17,819,593
Length 112
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 82.93
Mean single sequence MFE -39.67
Consensus MFE -30.02
Energy contribution -30.13
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -3.29
Structure conservation index 0.76
SVM decision value 2.19
SVM RNA-class probability 0.989901
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17819481 112 + 22224390
GGCUGGAAGGGGGGGGGUGGGUUGGCAAGAAAAGCCUUUUGGCUUGAUGGGAAUACCCUGCAAGUAGGGGAUAAUCCCAGUGUUAGCUCCACC---UCUGUGGAAGCUAACGAUA
((((......(.(((((((((((((((....(((((....)))))..(((((...(((((....))))).....))))).))))))).)))))---))).)...))))....... ( -46.20)
>DroSec_CAF1 77324 98 + 1
GGGGGGA-------GG-------GGCAAGAAAAGCCUUUUGGCUUGAUGGGAAUACCCUGCAAGUAGGGGAUAAUCCCAGUGUUAGCUCCUCC---UCUGUGGAAGCUAACGAUA
.((((((-------((-------(((.....(((((....)))))..(((((...(((((....))))).....)))))......))))))))---)))................ ( -42.70)
>DroYak_CAF1 77272 96 + 1
GGGG-------------------GGCAAGAAAAGCCUUUUGGCUUGAUGGGAAUACCCUGCAAGUAGGGGAUAAUCCCGGUGUUAGCUCCUUCUCUUCUGUGCAAGCUAACGAUA
((((-------------------(((.....(((((....)))))..(((((...(((((....))))).....)))))......)))))))....................... ( -30.10)
>consensus
GGGGGGA_______GG_______GGCAAGAAAAGCCUUUUGGCUUGAUGGGAAUACCCUGCAAGUAGGGGAUAAUCCCAGUGUUAGCUCCUCC___UCUGUGGAAGCUAACGAUA
........................((.....(((((....)))))..(((((...(((((....))))).....)))))))(((((((((...........)).))))))).... (-30.02 = -30.13 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 17,819,481 – 17,819,593
Length 112
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 82.93
Mean single sequence MFE -30.10
Consensus MFE -27.73
Energy contribution -28.07
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.93
Structure conservation index 0.92
SVM decision value 2.62
SVM RNA-class probability 0.995794
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17819481 112 - 22224390
UAUCGUUAGCUUCCACAGA---GGUGGAGCUAACACUGGGAUUAUCCCCUACUUGCAGGGUAUUCCCAUCAAGCCAAAAGGCUUUUCUUGCCAACCCACCCCCCCCCUUCCAGCC
....(((((((.((((...---.))))))))))).((((((..........((((..(((....)))..))))......(((.......)))...............)))))).. ( -34.20)
>DroSec_CAF1 77324 98 - 1
UAUCGUUAGCUUCCACAGA---GGAGGAGCUAACACUGGGAUUAUCCCCUACUUGCAGGGUAUUCCCAUCAAGCCAAAAGGCUUUUCUUGCC-------CC-------UCCCCCC
....((((((((((.....---.).)))))))))..(((((.(((((..........))))).)))))..(((((....)))))........-------..-------....... ( -29.90)
>DroYak_CAF1 77272 96 - 1
UAUCGUUAGCUUGCACAGAAGAGAAGGAGCUAACACCGGGAUUAUCCCCUACUUGCAGGGUAUUCCCAUCAAGCCAAAAGGCUUUUCUUGCC-------------------CCCC
....((((((((.(........)...))))))))...((((.(((((..........))))).))))...(((((....)))))........-------------------.... ( -26.20)
>consensus
UAUCGUUAGCUUCCACAGA___GGAGGAGCUAACACUGGGAUUAUCCCCUACUUGCAGGGUAUUCCCAUCAAGCCAAAAGGCUUUUCUUGCC_______CC_______UCCCCCC
....(((((((((..(......)..)))))))))...((((.(((((..........))))).))))...(((((....)))))............................... (-27.73 = -28.07 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:12 2006