Locus 7432

Sequence ID	3L_DroMel_CAF1
Location	19,983,898 – 19,983,999
Length	101
Max. P	0.872563

overview

Window 5

Location	19,983,898 – 19,983,999
Length	101
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	94.06
Mean single sequence MFE	-22.31
Consensus MFE	-16.58
Energy contribution	-16.78
Covariance contribution	0.20
Combinations/Pair	1.07
Mean z-score	-2.00
Structure conservation index	0.74
SVM decision value	0.06
SVM RNA-class probability	0.566038
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19983898 101 + 23771897
UAUUCACAUUAUCAGAAUUUUAAUCGAAUUCCGGCUUGUGCAAUGAGGUGUUAAUUUCAUUUGGACAGGUAAUCAGUUUCCCGGCCUCACUUUCACCUCAA
....((((...((.((((((.....)))))).))..))))...(((((((............((...((.((.....)).))..)).......))))))). ( -18.41)
>DroSec_CAF1 74121 101 + 1
AAUUCACAUUAUCAGAAUUUUAAUCGAAUUCCGGUUUGUGCAAUGAGGUGUUAAUUUCAUUUGGACAGGCAAUCAGUUUCCCAGCCUCAUUUUCACCUCAA
....((((..(((.((((((.....)))))).))).))))...(((((((..(((.....((((..((((.....)))).))))....)))..))))))). ( -22.50)
>DroSim_CAF1 32783 101 + 1
AAUUCACAUUAUCAGAAUUUUAAUCGAAUUCCGGUUUGUGCAAUGAGGUGUUAAUUUCAUUUGGACAGGCAAUCAGUUUCCCAGCCUCAUUUUCACCUCAA
....((((..(((.((((((.....)))))).))).))))...(((((((..(((.....((((..((((.....)))).))))....)))..))))))). ( -22.50)
>DroEre_CAF1 24687 101 + 1
UAUUCACAUUAUCAGAAUUUUAAUCGAAUUCCGGUAUGUGCAAUGAGGUGUUAAUUUCAUUUUGACAGGUAAUCAGUUUCCCAGCCUGAUUUUCACCUCCA
.((((((((.(((.((((((.....)))))).)))))))).)))((((((..(((.((.....))(((((.............))))))))..)))))).. ( -23.72)
>DroYak_CAF1 25676 101 + 1
AAUUCACAUUAUCGGAAUUUUAAUCGAAUUCCGGUAUGUUCAAUGGGGUGUUAAUUUCAUUUUGACAGGUAAUCAGUUCCCCAGCCUCAUUUUCACCUCAA
.....((((.((((((((((.....))))))))))))))..(((((((((((((.......))))).((..(.....)..)).)))))))).......... ( -24.40)
>consensus
AAUUCACAUUAUCAGAAUUUUAAUCGAAUUCCGGUUUGUGCAAUGAGGUGUUAAUUUCAUUUGGACAGGUAAUCAGUUUCCCAGCCUCAUUUUCACCUCAA
....((((...((.((((((.....)))))).))..))))...(((((((..(((.((.....)).((((.............)))).)))..))))))). (-16.58 = -16.78 +   0.20)

alignment

secondary structure

dotplot

Window 6

Location	19,983,898 – 19,983,999
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	94.06
Mean single sequence MFE	-22.92
Consensus MFE	-19.14
Energy contribution	-19.22
Covariance contribution	0.08
Combinations/Pair	1.08
Mean z-score	-1.64
Structure conservation index	0.84
SVM decision value	0.88
SVM RNA-class probability	0.872563
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19983898 101 - 23771897
UUGAGGUGAAAGUGAGGCCGGGAAACUGAUUACCUGUCCAAAUGAAAUUAACACCUCAUUGCACAAGCCGGAAUUCGAUUAAAAUUCUGAUAAUGUGAAUA
.(((((((...((((...(((....))).))))...((.....))......)))))))...((((...(((((((.......)))))))....)))).... ( -23.50)
>DroSec_CAF1 74121 101 - 1
UUGAGGUGAAAAUGAGGCUGGGAAACUGAUUGCCUGUCCAAAUGAAAUUAACACCUCAUUGCACAAACCGGAAUUCGAUUAAAAUUCUGAUAAUGUGAAUU
.(((((((......((((.((....))....)))).((.....))......)))))))...((((...(((((((.......)))))))....)))).... ( -25.00)
>DroSim_CAF1 32783 101 - 1
UUGAGGUGAAAAUGAGGCUGGGAAACUGAUUGCCUGUCCAAAUGAAAUUAACACCUCAUUGCACAAACCGGAAUUCGAUUAAAAUUCUGAUAAUGUGAAUU
.(((((((......((((.((....))....)))).((.....))......)))))))...((((...(((((((.......)))))))....)))).... ( -25.00)
>DroEre_CAF1 24687 101 - 1
UGGAGGUGAAAAUCAGGCUGGGAAACUGAUUACCUGUCAAAAUGAAAUUAACACCUCAUUGCACAUACCGGAAUUCGAUUAAAAUUCUGAUAAUGUGAAUA
..((((((.....((((.(((....)))....))))((.....))......))))))....(((((..(((((((.......)))))))...))))).... ( -24.60)
>DroYak_CAF1 25676 101 - 1
UUGAGGUGAAAAUGAGGCUGGGGAACUGAUUACCUGUCAAAAUGAAAUUAACACCCCAUUGAACAUACCGGAAUUCGAUUAAAAUUCCGAUAAUGUGAAUU
..................(((((...((((.....))))...((.......)))))))....((((..(((((((.......)))))))...))))..... ( -16.50)
>consensus
UUGAGGUGAAAAUGAGGCUGGGAAACUGAUUACCUGUCCAAAUGAAAUUAACACCUCAUUGCACAAACCGGAAUUCGAUUAAAAUUCUGAUAAUGUGAAUU
..((((((......(((.(((....)))....))).((.....))......))))))....((((...(((((((.......)))))))....)))).... (-19.14 = -19.22 +   0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:46:56 2006