Locus 5357

Sequence ID	X_DroMel_CAF1
Location	13,951,963 – 13,952,081
Length	118
Max. P	0.858771

overview

Window 2

Location	13,951,963 – 13,952,081
Length	118
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	93.84
Mean single sequence MFE	-27.80
Consensus MFE	-25.19
Energy contribution	-24.97
Covariance contribution	-0.22
Combinations/Pair	1.03
Mean z-score	-2.21
Structure conservation index	0.91
SVM decision value	0.82
SVM RNA-class probability	0.858771
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13951963 118 + 22224390
--CUUUAGCACACACAGCUGUUGAAAUAAACUUUCUCGCUUUGGGAAAUCUAUUUCUAAUCUAUUUGUUUGCCACUCAAGUGGGAACGCAAGGCCCCCCCUCUGUCCAUCCCUUCAGCUG
--............((((((..((((((...((((((.....))))))..))))))..........((((.((((....))))))))((((((.....))).))).........)))))) ( -25.00)
>DroSec_CAF1 3419 117 + 1
UUUUUUAGC--ACACAGCUGUUGAAAUAAACUUUCUCACUUUGGGAAAUCUAUUUCUAAUCUAUUUGUUUGCCACUCAAGUGGGAUGGCAAGGCCC-CCCUCUGUCCAUCCCUUCAGCUG
.........--...((((((..((((((...((((((.....))))))..))))))......(((((.........)))))((((((((((((...-.))).)).)))))))..)))))) ( -32.60)
>DroSim_CAF1 3814 117 + 1
UUUUUUAGC--GCACAGCUGUUGAAAUAAACUUUCUCACUUUGGGAAAUCUAUUUCUAAUCUAUUUGUUUGCCACUCAAGUGGGAUCACAAGGCCC-CCCUCUGUCCAUCCCUUCAGCUG
.........--...((((((..((((((...((((((.....))))))..))))))......(((((.........)))))(((((.((((((...-.))).)))..)))))..)))))) ( -25.80)
>consensus
UUUUUUAGC__ACACAGCUGUUGAAAUAAACUUUCUCACUUUGGGAAAUCUAUUUCUAAUCUAUUUGUUUGCCACUCAAGUGGGAUCGCAAGGCCC_CCCUCUGUCCAUCCCUUCAGCUG
..............((((((..((((((...((((((.....))))))..))))))......(((((.........)))))((((..((((((.....))).)))...))))..)))))) (-25.19 = -24.97 +  -0.22)

alignment

secondary structure

dotplot

Window 3

Location	13,951,963 – 13,952,081
Length	118
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	93.84
Mean single sequence MFE	-33.07
Consensus MFE	-29.19
Energy contribution	-29.30
Covariance contribution	0.11
Combinations/Pair	1.03
Mean z-score	-2.13
Structure conservation index	0.88
SVM decision value	0.51
SVM RNA-class probability	0.763706
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13951963 118 - 22224390
CAGCUGAAGGGAUGGACAGAGGGGGGGCCUUGCGUUCCCACUUGAGUGGCAAACAAAUAGAUUAGAAAUAGAUUUCCCAAAGCGAGAAAGUUUAUUUCAACAGCUGUGUGUGCUAAAG--
((((((..(..((((((...(((((.((...)).))))).((((..(((.((((.....).(((....))).))).)))...))))...))))))..)..))))))............-- ( -32.90)
>DroSec_CAF1 3419 117 - 1
CAGCUGAAGGGAUGGACAGAGGG-GGGCCUUGCCAUCCCACUUGAGUGGCAAACAAAUAGAUUAGAAAUAGAUUUCCCAAAGUGAGAAAGUUUAUUUCAACAGCUGUGU--GCUAAAAAA
((((((..(((((((...((((.-...)))).))))))).........................(((((((((((.((.....).).)))))))))))..))))))...--......... ( -36.00)
>DroSim_CAF1 3814 117 - 1
CAGCUGAAGGGAUGGACAGAGGG-GGGCCUUGUGAUCCCACUUGAGUGGCAAACAAAUAGAUUAGAAAUAGAUUUCCCAAAGUGAGAAAGUUUAUUUCAACAGCUGUGC--GCUAAAAAA
((((((..(((((.(...((((.-...)))).).))))).........................(((((((((((.((.....).).)))))))))))..))))))...--......... ( -30.30)
>consensus
CAGCUGAAGGGAUGGACAGAGGG_GGGCCUUGCGAUCCCACUUGAGUGGCAAACAAAUAGAUUAGAAAUAGAUUUCCCAAAGUGAGAAAGUUUAUUUCAACAGCUGUGU__GCUAAAAAA
((((((..(((((.(...((((.....)))).).))))).........................(((((((((((.((.....).).)))))))))))..)))))).............. (-29.19 = -29.30 +   0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:01 2006