Locus 2988

Sequence ID	X_DroMel_CAF1
Location	7,951,359 – 7,951,457
Length	98
Max. P	0.989343

overview

Window 0

Location	7,951,359 – 7,951,457
Length	98
Sequences	5
Columns	106
Reading direction	forward
Mean pairwise identity	73.44
Mean single sequence MFE	-20.09
Consensus MFE	-3.73
Energy contribution	-4.49
Covariance contribution	0.76
Combinations/Pair	1.07
Mean z-score	-1.55
Structure conservation index	0.19
SVM decision value	0.07
SVM RNA-class probability	0.568094
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7951359 98 + 22224390
UCGUUUCCAUUUCAACUAGCG--UACAUUGUGCAAUCGCAAUCGCAAUCGCAAUCGCAUUCGGCUGAACAUGAAAAACUGCAAUCGAGACAAU------UGCAGUU
...((((...((((.((.(((--...((((((....)))))))))....((....))....)).))))...))))(((((((((.......))------))))))) ( -21.40)
>DroSec_CAF1 2587 95 + 1
UCGUUUCCAUUUCAACUAGCG--CACAUUGUGCAAUCGCCAUCGCA------AUCGCAUUCG---GAACAUGGAAAACUGCAAUCGAGGCAAUUGCAAUUGCAGUU
...((((((((((.....(((--(((...))))....((....)).------...)).....---))).)))))))((((((((....((....)).)))))))). ( -26.20)
>DroSim_CAF1 2599 95 + 1
UCGUUUCCAUUUCAACUAGCG--CACAUUGUGCAAUAGCCAUCGCA------AUCGCAUUCG---GAACAUGGAAAACUGCAAUCAAGGGAAUUGCAGUUGCAGUU
...((((((((((.....(((--(((...))))....((....)).------...)).....---))).)))))))(((((((((((.....)))..)))))))). ( -24.90)
>DroEre_CAF1 2570 77 + 1
UCGCUGCCAU--CAACUAGCCAUCGCAUUGUGCAAUA------------------UCAUUCC---AAACAUAGAAAACUGCAAUCGAGGCAAU------UGCAAUU
..((((((.(--(.....((....))....((((...------------------...(((.---.......)))...))))...))))))..------.)).... ( -10.70)
>DroYak_CAF1 2594 75 + 1
CCAUUUCCAGUGCAACUAGC----ACAUUGUGCAAUC------------------GCAUUCG---AAACAUAGAAAACAGCAAUCGAGGCAAU------UGCAAUU
.........((((.....))----))....((((((.------------------((.((((---(.................))))))).))------))))... ( -17.23)
>consensus
UCGUUUCCAUUUCAACUAGCG__CACAUUGUGCAAUCGC_AUCGCA______AUCGCAUUCG___GAACAUGGAAAACUGCAAUCGAGGCAAU______UGCAGUU
...............(((...........((((......................))))...........)))..(((((((.................))))))) ( -3.73 =  -4.49 +   0.76)

alignment

secondary structure

dotplot

Window 1

Location	7,951,359 – 7,951,457
Length	98
Sequences	5
Columns	106
Reading direction	reverse
Mean pairwise identity	73.44
Mean single sequence MFE	-26.96
Consensus MFE	-7.75
Energy contribution	-7.15
Covariance contribution	-0.60
Combinations/Pair	1.26
Mean z-score	-2.35
Structure conservation index	0.29
SVM decision value	2.16
SVM RNA-class probability	0.989343
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7951359 98 - 22224390
AACUGCA------AUUGUCUCGAUUGCAGUUUUUCAUGUUCAGCCGAAUGCGAUUGCGAUUGCGAUUGCGAUUGCACAAUGUA--CGCUAGUUGAAAUGGAAACGA
(((((((------((((...)))))))))))((((((.((((((.(..((((..(((((((((....)))))))))...))))--..)..)))))))))))).... ( -33.50)
>DroSec_CAF1 2587 95 - 1
AACUGCAAUUGCAAUUGCCUCGAUUGCAGUUUUCCAUGUUC---CGAAUGCGAU------UGCGAUGGCGAUUGCACAAUGUG--CGCUAGUUGAAAUGGAAACGA
((((((((((((....))...))))))))))((((((....---....((((((------(((....)))))))))((((...--.....))))..)))))).... ( -30.70)
>DroSim_CAF1 2599 95 - 1
AACUGCAACUGCAAUUCCCUUGAUUGCAGUUUUCCAUGUUC---CGAAUGCGAU------UGCGAUGGCUAUUGCACAAUGUG--CGCUAGUUGAAAUGGAAACGA
......((((((((((.....))))))))))((((((.(((---....(((...------.)))..(((((.(((((...)))--)).)))))))))))))).... ( -26.70)
>DroEre_CAF1 2570 77 - 1
AAUUGCA------AUUGCCUCGAUUGCAGUUUUCUAUGUUU---GGAAUGA------------------UAUUGCACAAUGCGAUGGCUAGUUG--AUGGCAGCGA
..((((.------..((((((((((((....(((((....)---))))...------------------((((((.....)))))))).)))))--).)))))))) ( -22.40)
>DroYak_CAF1 2594 75 - 1
AAUUGCA------AUUGCCUCGAUUGCUGUUUUCUAUGUUU---CGAAUGC------------------GAUUGCACAAUGU----GCUAGUUGCACUGGAAAUGG
....(((------((((...)))))))..........((((---(.(.(((------------------((((((((...))----)).))))))).).))))).. ( -21.50)
>consensus
AACUGCA______AUUGCCUCGAUUGCAGUUUUCCAUGUUC___CGAAUGCGAU______UGCGAU_GCGAUUGCACAAUGUG__CGCUAGUUGAAAUGGAAACGA
.((((((.................))))))(((((((((((....))))...........................((((((....))..))))..)))))))... ( -7.75 =  -7.15 +  -0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:25 2006