Locus 3088

Sequence ID	2R_DroMel_CAF1
Location	10,577,422 – 10,577,533
Length	111
Max. P	0.684382

overview

Window 0

Location	10,577,422 – 10,577,533
Length	111
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	78.00
Mean single sequence MFE	-25.25
Consensus MFE	-13.10
Energy contribution	-13.30
Covariance contribution	0.20
Combinations/Pair	1.11
Mean z-score	-1.84
Structure conservation index	0.52
SVM decision value	0.10
SVM RNA-class probability	0.581460
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10577422 111 + 20766785
GCGUCACGGGAGCAACGAACGGCCAACGAAAUCAAUUAAUGAAUUGGUAAAAAUUAAGUGCUUCAAUCGCAUGAAAUUGAUUUCGA-GCAGUUAUUUUCAGCACGAACGAUG
.((((...((((((.....((.....))..(((((((....)))))))..........))))))....((.(((((.(((((....-..))))).)))))))......)))) ( -22.80)
>DroVir_CAF1 59418 100 + 1
----GAG-----CAG--CAGCGGCAGCGAAAUCAAUUAAUGAAUUGGUAAAAAUUAAGUGCUUCAAUUGUAUGAAAUUGAUUUCGA-GUAAUAAUUUUCAGCUUGAGCGCCG
----..(-----(..--..))(((..(((((((((((.(((((((((...............)))))).)))..))))))))))).-.............((....))))). ( -22.86)
>DroPse_CAF1 56236 106 + 1
----GAGUGGUGCAACGAAUGGCGAACGAAAUCAAUUAAUGAAUUGGUACAAAUUAAGUGCUUCAAUCGCAAGAAAUUGAUUUCGA-GCAGAAAUUUGCAGCACGAGCAAU-
----..(((.(((((......((...(((((((((((..(((...(((((.......)))))))).((....))))))))))))).-))......))))).))).......- ( -33.10)
>DroGri_CAF1 53032 100 + 1
----GAG-----CGG--UGGUGGCAGCAAAAUCAAUUAAUGAAUUGGUAAAAAUUAAGUGCUUCAAUUGUACGAAAUUGAUUUCGA-GUAAUAAUUUUCAGUUCGAGCGACG
----..(-----(((--(..((....))..)))......((((((((.....((((..((..((((((......))))))...)).-.)))).....)))))))).)).... ( -18.10)
>DroWil_CAF1 55156 107 + 1
GGAUCAGG--GACUUGGUGCAGGCAACGAAAUCAAUUAAUGAAUUGGUAAAAAUUAAGUGCUUCAAUUGCAUGAAAUUGAUUUCGAGGCAGUAAUUUUCAGCUCGAGAG---
(.(((((.--...))))).)..((..(((((((((((.(((((((((...............)))))).)))..)))))))))))..))......((((.....)))).--- ( -24.66)
>DroPer_CAF1 57139 106 + 1
----GAGUGGUGCAACGAAUGGAGAACGAAAUCAAUUAAUGAAUUGGUACAAAUUAAGUGCUUCAAUCGCAAGAAAUUGAUUUCGA-GCAGAAAUUUGCAGCACGAGCAAU-
----..((.((((.............(((((((((((..(((...(((((.......)))))))).((....))))))))))))).-((((....)))).))))..))...- ( -30.00)
>consensus
____GAG____GCAACGAACGGGCAACGAAAUCAAUUAAUGAAUUGGUAAAAAUUAAGUGCUUCAAUCGCAUGAAAUUGAUUUCGA_GCAGUAAUUUUCAGCACGAGCGAU_
..........................(((((((((((....((((......))))..((((.......))))..)))))))))))........................... (-13.10 = -13.30 +   0.20)

alignment

secondary structure

dotplot

Window 1

Location	10,577,422 – 10,577,533
Length	111
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	78.00
Mean single sequence MFE	-20.30
Consensus MFE	-11.20
Energy contribution	-10.81
Covariance contribution	-0.39
Combinations/Pair	1.12
Mean z-score	-1.81
Structure conservation index	0.55
SVM decision value	0.31
SVM RNA-class probability	0.684382
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10577422 111 - 20766785
CAUCGUUCGUGCUGAAAAUAACUGC-UCGAAAUCAAUUUCAUGCGAUUGAAGCACUUAAUUUUUACCAAUUCAUUAAUUGAUUUCGUUGGCCGUUCGUUGCUCCCGUGACGC
....(..((.((..(..........-.(((((((((((..(((.(((((.................)))))))).))))))))))))..))))..)((..(....)..)).. ( -22.33)
>DroVir_CAF1 59418 100 - 1
CGGCGCUCAAGCUGAAAAUUAUUAC-UCGAAAUCAAUUUCAUACAAUUGAAGCACUUAAUUUUUACCAAUUCAUUAAUUGAUUUCGCUGCCGCUG--CUG-----CUC----
.(((((....)).............-.(((((((((((......(((((.................)))))....)))))))))))..)))((..--..)-----)..---- ( -18.93)
>DroPse_CAF1 56236 106 - 1
-AUUGCUCGUGCUGCAAAUUUCUGC-UCGAAAUCAAUUUCUUGCGAUUGAAGCACUUAAUUUGUACCAAUUCAUUAAUUGAUUUCGUUCGCCAUUCGUUGCACCACUC----
-.......(((.(((((......((-.(((((((((((...((.(((((..(((.......)))..)))))))..)))))))))))...))......))))).)))..---- ( -27.40)
>DroGri_CAF1 53032 100 - 1
CGUCGCUCGAACUGAAAAUUAUUAC-UCGAAAUCAAUUUCGUACAAUUGAAGCACUUAAUUUUUACCAAUUCAUUAAUUGAUUUUGCUGCCACCA--CCG-----CUC----
.((.((((.....))..........-.(((((((((((......(((((.................)))))....)))))))))))..)).))..--...-----...---- (  -9.23)
>DroWil_CAF1 55156 107 - 1
---CUCUCGAGCUGAAAAUUACUGCCUCGAAAUCAAUUUCAUGCAAUUGAAGCACUUAAUUUUUACCAAUUCAUUAAUUGAUUUCGUUGCCUGCACCAAGUC--CCUGAUCC
---.((..(..((..........((..(((((((((((..(((.(((((.................)))))))).)))))))))))..))........))..--)..))... ( -18.70)
>DroPer_CAF1 57139 106 - 1
-AUUGCUCGUGCUGCAAAUUUCUGC-UCGAAAUCAAUUUCUUGCGAUUGAAGCACUUAAUUUGUACCAAUUCAUUAAUUGAUUUCGUUCUCCAUUCGUUGCACCACUC----
-.......(((.(((((......(.-.(((((((((((...((.(((((..(((.......)))..)))))))..)))))))))))..)........))))).)))..---- ( -25.24)
>consensus
_AUCGCUCGAGCUGAAAAUUACUGC_UCGAAAUCAAUUUCAUGCAAUUGAAGCACUUAAUUUUUACCAAUUCAUUAAUUGAUUUCGUUGCCCAUUCGUUGC____CUC____
...........................(((((((((((......(((((.................)))))....))))))))))).......................... (-11.20 = -10.81 +  -0.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:16 2006