Locus 3938

Sequence ID	X_DroMel_CAF1
Location	10,494,326 – 10,494,443
Length	117
Max. P	0.821461

overview

Window 0

Location	10,494,326 – 10,494,443
Length	117
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	92.71
Mean single sequence MFE	-28.43
Consensus MFE	-23.46
Energy contribution	-24.35
Covariance contribution	0.89
Combinations/Pair	1.06
Mean z-score	-1.85
Structure conservation index	0.83
SVM decision value	0.04
SVM RNA-class probability	0.554949
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10494326 117 + 22224390
GUCCUUUUGUCCAACUGCUUGUGGCGCUUUCGCAAUUUGAUUUAUGUGUUGCC---CCCAAAACAUUCAUUAAGAUAUAAUCAUAACGCAUAGAAAGCGCACACAAACAGGAUGAGUAUG
.....((..(((...((.(((((((((((((((...(((((..((((.(((..---..))).))))..)))))(((...))).....))...)))))))).))))).)))))..)).... ( -30.20)
>DroSec_CAF1 25502 117 + 1
GUCCUUUUGUCCAACAGCUUGUGGCGCUUUCGCAAUUUGAUUUAUGUGUUGCC---CCCAAAACAUUCAUUAAGAUAUAAUCAUAACGCAUAGAAAGCGCACACAAACAGGAUGAGUAUG
.....((..(((....(.(((((((((((((((...(((((..((((.(((..---..))).))))..)))))(((...))).....))...)))))))).))))).).)))..)).... ( -28.50)
>DroSim_CAF1 26014 117 + 1
GUCCUUUUGUCCAACUGCUUGUGGCGCUUUCGCAAUUUGAUUUAUGUGUUGCC---CCCAAAACAUUCAUUAAGAUAUAAUCAUAACGCAUAGAAAGCGCACACAAACAGGAUGAGUAUG
.....((..(((...((.(((((((((((((((...(((((..((((.(((..---..))).))))..)))))(((...))).....))...)))))))).))))).)))))..)).... ( -30.20)
>DroEre_CAF1 27125 117 + 1
GUCCUUUUGUCCAACUGCUUGUGGCGCUUUCGCAAUUUGAUUUAUGUGUUGCC---CCCAAAACAUUCAUUAAGAUAUAAUCAUAACGCAUAGAAAGCGCACACAAACAGGAUGAGUAUG
.....((..(((...((.(((((((((((((((...(((((..((((.(((..---..))).))))..)))))(((...))).....))...)))))))).))))).)))))..)).... ( -30.20)
>DroYak_CAF1 27430 117 + 1
GUCCUUGUGUCCAACUGCUUGUGGCGCUUUCGCAAUUUGAUUUAUGUGUUGCC---CCCAAAACAUUCAUUAAGAUAUAAUCAUAACGCAUAGAAAGCGCACACAAACAGGAUGAGUACG
......(((..((.(((.(((((((((((((((...(((((..((((.(((..---..))).))))..)))))(((...))).....))...)))))))).))))).)))..))..))). ( -32.70)
>DroAna_CAF1 28397 114 + 1
GUCCUUUUGUCCAACUGCUUGUGGCGUUUUCGCAAUUUGAUUUAUGUCCUGGCCCCCCAAAAACAUUCAUUAAGAUAUAAUCAUAACGCAUACAAGGCGCAAACACUCACACUC------
.....(((((((...(((((((((((....)))..((((((..((((..(((....)))...))))..)))))).......))))).))).....)).)))))...........------ ( -18.80)
>consensus
GUCCUUUUGUCCAACUGCUUGUGGCGCUUUCGCAAUUUGAUUUAUGUGUUGCC___CCCAAAACAUUCAUUAAGAUAUAAUCAUAACGCAUAGAAAGCGCACACAAACAGGAUGAGUAUG
..............(((.(((((((((((((((...(((((..((((.(((.......))).))))..)))))(((...))).....))...)))))))).))))).))).......... (-23.46 = -24.35 +   0.89)

alignment

secondary structure

dotplot

Window 1

Location	10,494,326 – 10,494,443
Length	117
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	92.71
Mean single sequence MFE	-33.17
Consensus MFE	-27.50
Energy contribution	-28.87
Covariance contribution	1.36
Combinations/Pair	1.03
Mean z-score	-2.23
Structure conservation index	0.83
SVM decision value	0.68
SVM RNA-class probability	0.821461
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10494326 117 - 22224390
CAUACUCAUCCUGUUUGUGUGCGCUUUCUAUGCGUUAUGAUUAUAUCUUAAUGAAUGUUUUGGG---GGCAACACAUAAAUCAAAUUGCGAAAGCGCCACAAGCAGUUGGACAAAAGGAC
.....((...(((((((((.((((((((...(((...(((((...((.....))((((.(((..---..))).)))).)))))...))))))))))))))))))))...))......... ( -34.90)
>DroSec_CAF1 25502 117 - 1
CAUACUCAUCCUGUUUGUGUGCGCUUUCUAUGCGUUAUGAUUAUAUCUUAAUGAAUGUUUUGGG---GGCAACACAUAAAUCAAAUUGCGAAAGCGCCACAAGCUGUUGGACAAAAGGAC
........(((.(((((((.((((((((...(((...(((((...((.....))((((.(((..---..))).)))).)))))...))))))))))))))))))....)))......... ( -33.20)
>DroSim_CAF1 26014 117 - 1
CAUACUCAUCCUGUUUGUGUGCGCUUUCUAUGCGUUAUGAUUAUAUCUUAAUGAAUGUUUUGGG---GGCAACACAUAAAUCAAAUUGCGAAAGCGCCACAAGCAGUUGGACAAAAGGAC
.....((...(((((((((.((((((((...(((...(((((...((.....))((((.(((..---..))).)))).)))))...))))))))))))))))))))...))......... ( -34.90)
>DroEre_CAF1 27125 117 - 1
CAUACUCAUCCUGUUUGUGUGCGCUUUCUAUGCGUUAUGAUUAUAUCUUAAUGAAUGUUUUGGG---GGCAACACAUAAAUCAAAUUGCGAAAGCGCCACAAGCAGUUGGACAAAAGGAC
.....((...(((((((((.((((((((...(((...(((((...((.....))((((.(((..---..))).)))).)))))...))))))))))))))))))))...))......... ( -34.90)
>DroYak_CAF1 27430 117 - 1
CGUACUCAUCCUGUUUGUGUGCGCUUUCUAUGCGUUAUGAUUAUAUCUUAAUGAAUGUUUUGGG---GGCAACACAUAAAUCAAAUUGCGAAAGCGCCACAAGCAGUUGGACACAAGGAC
.((..(((..(((((((((.((((((((...(((...(((((...((.....))((((.(((..---..))).)))).)))))...)))))))))))))))))))).)))..))...... ( -36.00)
>DroAna_CAF1 28397 114 - 1
------GAGUGUGAGUGUUUGCGCCUUGUAUGCGUUAUGAUUAUAUCUUAAUGAAUGUUUUUGGGGGGCCAGGACAUAAAUCAAAUUGCGAAAACGCCACAAGCAGUUGGACAAAAGGAC
------(..((((.((((((.(((........(((((.(((...))).))))).(((((((.((....)))))))))..........))).))))))))))..)................ ( -25.10)
>consensus
CAUACUCAUCCUGUUUGUGUGCGCUUUCUAUGCGUUAUGAUUAUAUCUUAAUGAAUGUUUUGGG___GGCAACACAUAAAUCAAAUUGCGAAAGCGCCACAAGCAGUUGGACAAAAGGAC
..........(((((((((.((((((((...(((...(((((...((.....))((((.(((.......))).)))).)))))...)))))))))))))))))))).............. (-27.50 = -28.87 +   1.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:18 2006