Locus 715

Sequence ID	3R_DroMel_CAF1
Location	2,527,142 – 2,527,342
Length	200
Max. P	0.919199

overview

Window 1

Location	2,527,142 – 2,527,262
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	87.24
Mean single sequence MFE	-26.58
Consensus MFE	-23.56
Energy contribution	-23.08
Covariance contribution	-0.48
Combinations/Pair	1.16
Mean z-score	-1.75
Structure conservation index	0.89
SVM decision value	1.13
SVM RNA-class probability	0.919199
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2527142 120 - 27905053
CGCAAUGCAAAGAGAAUCCCUUUGUUGUUAAUUUUUGUAAUAUAAAACGGAAAUUAUGGGGUCAUGACUUUACUUGCCGGGUGAUAAAUGGCCGGGUGAUAAAAUGGGCCAUCCCGGCCA
.(((..((((((.......)))))))))((((((((((........))))))))))((((((....))))))...((((((......((((((.(.........).)))))))))))).. ( -33.00)
>DroSec_CAF1 55780 95 - 1
CGCAAUGCAAAGAGAAUCCCUUUGUUGUUAAUUUUUGUAAUAUAAAACGGAAAUUAUGGGGUCAUGACUUUACUUGCCGGGUGAUAAAUGGCCCU-------------------------
.(((..((((((.......)))))))))((((((((((........)))))))))).((((((((....(((((.....)))))...))))))))------------------------- ( -25.40)
>DroSim_CAF1 54714 95 - 1
CGCAAUGCAAAGAGAAUCCCUUUGUUGUUAAUUUUUGUAAUAUAAAACGGAAAUUAUGGGGUCAUGACUUUACUUGCCGGGUGAUAAAUGGCCCU-------------------------
.(((..((((((.......)))))))))((((((((((........)))))))))).((((((((....(((((.....)))))...))))))))------------------------- ( -25.40)
>DroEre_CAF1 55576 95 - 1
CGCAAUGCAAGGAGAAUCCCUUUGUUGUUGAUUUUUGUAAUAUAAAACGGAAAUUAUGGGGUCAUGACUUUACUUGCCGGGUGAUAAAUGGCUCU-------------------------
.((((((.((((......))))))))))((((((((((........)))))))))).((((((((....(((((.....)))))...))))))))------------------------- ( -24.10)
>DroYak_CAF1 57098 95 - 1
CGCAAUGCAAAGAGAAUCCCUUUGUUGUUGAUUUCUGUAAUAUAAAACGGAAAUUAUGGGGUCAUGACUUUACUUGUCGGGUGAUAAAUGGUCCU-------------------------
.(((..((((((.......)))))))))((((((((((........)))))))))).(((..(((....(((((.....)))))...)))..)))------------------------- ( -25.00)
>consensus
CGCAAUGCAAAGAGAAUCCCUUUGUUGUUAAUUUUUGUAAUAUAAAACGGAAAUUAUGGGGUCAUGACUUUACUUGCCGGGUGAUAAAUGGCCCU_________________________
.(((..((((((.......)))))))))((((((((((........)))))))))).((((((((....(((((.....)))))...))))))))......................... (-23.56 = -23.08 +  -0.48)

alignment

secondary structure

dotplot

Window 2

Location	2,527,222 – 2,527,342
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.33
Mean single sequence MFE	-32.84
Consensus MFE	-27.22
Energy contribution	-28.06
Covariance contribution	0.84
Combinations/Pair	1.03
Mean z-score	-1.35
Structure conservation index	0.83
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2527222 120 - 27905053
AUCCCCUGUCUGUCUGAAGGGCAGACAAAUUUCUGGGCUUUGUGUCGGUCAUUUCCAUUUAAAUGGCAGGACUCGUCCACCGCAAUGCAAAGAGAAUCCCUUUGUUGUUAAUUUUUGUAA
......((((((((.....))))))))..(((((..((.(((((...(((((((......))))))).(((....)))..))))).))..)))))......................... ( -32.80)
>DroSec_CAF1 55835 120 - 1
AUCCCCUGUCUGUCUGAAGGGCAGACAAAUUUCUGGGCUUUGUGUCGGUCAUUUCCAUUUAAAUGGCAGGACUCGUGCACCGCAAUGCAAAGAGAAUCCCUUUGUUGUUAAUUUUUGUAA
......((((((((.....)))))))).......((((..((.(((.(((((((......)))))))..))).)).)).))(((..((((((.......)))))))))............ ( -31.30)
>DroSim_CAF1 54769 120 - 1
AUCCCCUGUCUGUCUGAAGGGCAGACAAAUUUCUGAGCUUUGUGUCGGUCAUUUCCAUUUAAAUGGCAGGACUCGUCCACCGCAAUGCAAAGAGAAUCCCUUUGUUGUUAAUUUUUGUAA
......((((((((.....))))))))..(((((..((.(((((...(((((((......))))))).(((....)))..))))).))..)))))......................... ( -31.80)
>DroEre_CAF1 55631 120 - 1
AUGCCCUGUCUGUCUGAAGGGCAGACAAAUUUCUGGGCUUUGUGUCGGUCAUUUCCAUUUAAAUGCAAGGACUCGUCCACCGCAAUGCAAGGAGAAUCCCUUUGUUGUUGAUUUUUGUAA
..((((((((((((.....)))))))).......))))........((......)).......((((((((....))).(.((((((.((((......)))))))))).)....))))). ( -32.11)
>DroYak_CAF1 57153 120 - 1
AUCCUCUGUCUGUCUGAAGGGCAGACAAAUUUCUGGGCUUUGUGGCGGUCAUUUCCAUUCAAAUGGAAGAAAUCGUCCACCGCAAUGCAAAGAGAAUCCCUUUGUUGUUGAUUUCUGUAA
......((((((((.....))))))))..(((((..((.((((((.((.(..((((((....))))))(....)).)).)))))).))..)))))......................... ( -36.20)
>consensus
AUCCCCUGUCUGUCUGAAGGGCAGACAAAUUUCUGGGCUUUGUGUCGGUCAUUUCCAUUUAAAUGGCAGGACUCGUCCACCGCAAUGCAAAGAGAAUCCCUUUGUUGUUAAUUUUUGUAA
......((((((((.....))))))))..(((((..((.(((((...(((((((......))))))).(((....)))..))))).))..)))))......................... (-27.22 = -28.06 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:05 2006