Locus 7323

Sequence ID	3R_DroMel_CAF1
Location	19,364,802 – 19,364,898
Length	96
Max. P	0.856816

overview

Window 6

Location	19,364,802 – 19,364,898
Length	96
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	77.05
Mean single sequence MFE	-19.34
Consensus MFE	-4.16
Energy contribution	-5.64
Covariance contribution	1.48
Combinations/Pair	1.18
Mean z-score	-1.69
Structure conservation index	0.22
SVM decision value	0.11
SVM RNA-class probability	0.588137
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19364802 96 + 27905053
UUUUGUUUUCUAAAUUUUAACCAGAUGGCGAUACACCAAAAUUUUUUGUUUGUACCUUG-ACUUCAUAUUUUUUAUGGAUCUUAGACAUAAUUAUAG
..((((..(((...........)))..))))........((((...((((((......(-(.((((((.....)))))))).)))))).)))).... (  -9.40)
>DroSec_CAF1 14673 96 + 1
UUUUGUUUUCUAAAUUUUAACCAGAGGGCGGUACACCCACAUU-UUGGUUUGUACCGUGUAUUUCCUAUUUUUUAUAGAUCUUUGACAUAAUUAUAG
.....................((((((((((((((.(((....-.)))..)))))))).......((((.....)))).))))))............ ( -19.70)
>DroSim_CAF1 19993 96 + 1
UUUUGUUUUCUAAAUUUUAACCAGAGGGCGGUACAUCCAAAUU-UUGGUUUGUACCGUGUAUUUCAUUUUUUUUAUGGAUCUUAGACAUAAUUAUAG
....(((((((...........)))))))((((((.(((....-.)))..))))))((.((.(((((.......)))))...)).)).......... ( -19.30)
>DroEre_CAF1 18136 84 + 1
UUUUGUUUUUUAAAUUUUAGCCAGAGGGCGGCACAUCUACACU-UU--UGUGUUCGGUGUUUUCCAUACUU-U---------UGGCCACAAUUAUAG
...................((((((((..((.(((((.((((.-..--.))))..)))))...))...)))-)---------))))........... ( -20.70)
>DroYak_CAF1 18183 95 + 1
UUAUGAUUUCCAAAUUGCAAACAGAGGGCGACACAUCUUAAUU-UUGGUGUGUACCGUGCUUUCCAUACUU-UUAUGGCUCUUAGCCGCAAUUAUGG
.........(((((((((.....((((((((((((((......-..)))))))....))))))).......-....(((.....))))))))).))) ( -27.60)
>consensus
UUUUGUUUUCUAAAUUUUAACCAGAGGGCGGUACAUCCAAAUU_UUGGUUUGUACCGUGUAUUUCAUAUUUUUUAUGGAUCUUAGACAUAAUUAUAG
...........................((((((((.(((......)))..))))))))....................................... ( -4.16 =  -5.64 +   1.48)

alignment

secondary structure

dotplot

Window 7

Location	19,364,802 – 19,364,898
Length	96
Sequences	5
Columns	97
Reading direction	reverse
Mean pairwise identity	77.05
Mean single sequence MFE	-17.18
Consensus MFE	-3.76
Energy contribution	-4.36
Covariance contribution	0.60
Combinations/Pair	1.26
Mean z-score	-1.98
Structure conservation index	0.22
SVM decision value	0.81
SVM RNA-class probability	0.856816
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19364802 96 - 27905053
CUAUAAUUAUGUCUAAGAUCCAUAAAAAAUAUGAAGU-CAAGGUACAAACAAAAAAUUUUGGUGUAUCGCCAUCUGGUUAAAAUUUAGAAAACAAAA
...........((((((((.((((.....))))..))-)..((((((..((((....)))).))))))(((....)))......)))))........ ( -12.90)
>DroSec_CAF1 14673 96 - 1
CUAUAAUUAUGUCAAAGAUCUAUAAAAAAUAGGAAAUACACGGUACAAACCAA-AAUGUGGGUGUACCGCCCUCUGGUUAAAAUUUAGAAAACAAAA
(((.((((.((....((((((((.....))))).......(((((((..(((.-....))).)))))))...)))...)).)))))))......... ( -15.10)
>DroSim_CAF1 19993 96 - 1
CUAUAAUUAUGUCUAAGAUCCAUAAAAAAAAUGAAAUACACGGUACAAACCAA-AAUUUGGAUGUACCGCCCUCUGGUUAAAAUUUAGAAAACAAAA
...........((((((........................((((((..(((.-....))).))))))(((....))).....))))))........ ( -14.70)
>DroEre_CAF1 18136 84 - 1
CUAUAAUUGUGGCCA---------A-AAGUAUGGAAAACACCGAACACA--AA-AGUGUAGAUGUGCCGCCCUCUGGCUAAAAUUUAAAAAACAAAA
....((((.((((((---------.-.((..(((...(((.(..((((.--..-.)))).).))).)))..)).)))))).))))............ ( -17.90)
>DroYak_CAF1 18183 95 - 1
CCAUAAUUGCGGCUAAGAGCCAUAA-AAGUAUGGAAAGCACGGUACACACCAA-AAUUAAGAUGUGUCGCCCUCUGUUUGCAAUUUGGAAAUCAUAA
(((.((((((((...(((((((((.-...))))).......((((((((.(..-......).))))).)))))))..)))))))))))......... ( -25.30)
>consensus
CUAUAAUUAUGUCUAAGAUCCAUAAAAAAUAUGAAAUACACGGUACAAACCAA_AAUUUAGAUGUACCGCCCUCUGGUUAAAAUUUAGAAAACAAAA
(((.((((.................................((((((..(((......))).))))))(((....)))...)))))))......... ( -3.76 =  -4.36 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:08 2006