Locus 2354

Sequence ID 3R_DroMel_CAF1
Location 6,717,120 – 6,717,251
Length 131
Max. P 0.883140
window3799 window3800

overview

Window 9

Location 6,717,120 – 6,717,224
Length 104
Sequences 3
Columns 107
Reading direction reverse
Mean pairwise identity 86.67
Mean single sequence MFE -27.73
Consensus MFE -23.72
Energy contribution -23.50
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -1.87
Structure conservation index 0.86
SVM decision value 0.44
SVM RNA-class probability 0.736951
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6717120 104 - 27905053
U--GGUGGGGUCAGUGCAUGG-GGGCUUUGCUAGCUAGCUAGCUAAGCACUGAUCCACCGUUUAUUAUUCCCUCAUGAACACUAUUCAAACCGAUAACUCAUUUCCA
.--((((((.(((((((.(((-.((((..(....).))))..))).)))))))))))))((((((.........))))))........................... ( -31.00)
>DroSec_CAF1 1485 101 - 1
CUUUGUGAGGUCAGUGCAAGGAGGGCUCUUUU----AGCUAGCUAAGCACUGAUCCACCGUUUAUUAUUCCCUCAUGAGC--UCUUCAAACCGAUAACUUAUUCCCA
....(((.(((((((((..((..((((.....----))))..))..)))))))))))).((((((.........))))))--......................... ( -25.90)
>DroSim_CAF1 1484 101 - 1
CUGUGUGAGGUCAGUGCAAGGAGGGCUCUUGU----AGCUAGCUAAGCACUGAUCCACCGUUUAUUAUUCCCUCAUGAGC--UCUUCAAACCGAUAACUUAUUCCCA
..(.(((.(((((((((..((..((((.....----))))..))..)))))))))))))((((((.........))))))--......................... ( -26.30)
>consensus
CU_UGUGAGGUCAGUGCAAGGAGGGCUCUUCU____AGCUAGCUAAGCACUGAUCCACCGUUUAUUAUUCCCUCAUGAGC__UCUUCAAACCGAUAACUUAUUCCCA
....(((.(((((((((..((..((((.........))))..))..)))))))))))).((((((.........))))))........................... (-23.72 = -23.50 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 6,717,153 – 6,717,251
Length 98
Sequences 3
Columns 101
Reading direction reverse
Mean pairwise identity 89.97
Mean single sequence MFE -33.70
Consensus MFE -30.73
Energy contribution -30.73
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.08
Structure conservation index 0.91
SVM decision value 0.93
SVM RNA-class probability 0.883140
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6717153 98 - 27905053
GAAUGCGAAGAUUCGGGUGAGUACAUGU--GGUGGGGUCAGUGCAUGG-GGGCUUUGCUAGCUAGCUAGCUAAGCACUGAUCCACCGUUUAUUAUUCCCUC
((((......))))(((.(((((....(--((((((.(((((((.(((-.((((..(....).))))..))).)))))))))))))).....)))))))). ( -36.10)
>DroSec_CAF1 1516 97 - 1
GAAUGCGAAGAUUCGGGUGAGUACAUGCUUUGUGAGGUCAGUGCAAGGAGGGCUCUUUU----AGCUAGCUAAGCACUGAUCCACCGUUUAUUAUUCCCUC
((((......))))(((..((((.(((....(((.(((((((((..((..((((.....----))))..))..))))))))))))))).))))...))).. ( -32.50)
>DroSim_CAF1 1515 97 - 1
GAAUGCGAAGAUUCGGGUGAGUACAUGCUGUGUGAGGUCAGUGCAAGGAGGGCUCUUGU----AGCUAGCUAAGCACUGAUCCACCGUUUAUUAUUCCCUC
((((......))))(((..((((.(((....(((.(((((((((..((..((((.....----))))..))..))))))))))))))).))))...))).. ( -32.50)
>consensus
GAAUGCGAAGAUUCGGGUGAGUACAUGCU_UGUGAGGUCAGUGCAAGGAGGGCUCUUCU____AGCUAGCUAAGCACUGAUCCACCGUUUAUUAUUCCCUC
((((......))))(((..((((.(((....(((.(((((((((..((..((((.........))))..))..))))))))))))))).))))...))).. (-30.73 = -30.73 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:16 2006