Locus 2416

Sequence ID	3L_DroMel_CAF1
Location	6,794,049 – 6,794,144
Length	95
Max. P	0.764637

overview

Window 4

Location	6,794,049 – 6,794,144
Length	95
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	83.26
Mean single sequence MFE	-35.13
Consensus MFE	-22.79
Energy contribution	-22.82
Covariance contribution	0.03
Combinations/Pair	1.05
Mean z-score	-2.36
Structure conservation index	0.65
SVM decision value	0.22
SVM RNA-class probability	0.639453
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6794049 95 + 23771897
G-----GCGAUUUAUGCGAUUGCCGCUCGCCAAGUGGCAUAGUGGCUGC-CACUUGAGGAAACACGCGAGCCAAAUUAGCGUGCCGCU------GCUAGAUACUUUA-------
(-----((((((.....)))))))(((((((((((((((.......)))-)))))).(....)..))))))....((((((......)------)))))........------- ( -39.30)
>DroVir_CAF1 80702 94 + 1
------CGUAUUUAUGCGAUUGCCGCACCGCAAGUGGCAUAGUGGCUGC-CACUUGAGGAAACACGCGAACAAAAUUAGCGUGCCGCCU------UGCAAUAUUUUA-------
------((((....))))(((((.((.((.(((((((((.......)))-)))))).))...(((((...........)))))..))..------.)))))......------- ( -32.10)
>DroGri_CAF1 67550 103 + 1
C-----UGUAUUUAUGCGAUUGCCGCGCCGCAAGUGGCAUAGUGGCUGCCCACUUGAGGAAACACGCGAACAAAAUUAGCGUGCCGCCU------UGCUAUAUUUUAUAGUGCU
(-----((((..(((((...((((((.......)))))).(((((....))))).((((...(((((...........)))))...)))------))).)))...))))).... ( -30.70)
>DroWil_CAF1 88110 101 + 1
G-----AGUAUUUAUGCGAUUGCCGCCCGGCAAGUGGCAUAGUGACUGC-CACUUGAGGAAACACGCGAGCAAAAUUAGCGUGCCGCCUGUUUUGCUAGAUAUUUUA-------
(-----(((((((.((((...(((....)))((((((((.......)))-)))))..(....).))))((((((((..(((...)))..))))))))))))))))..------- ( -36.20)
>DroMoj_CAF1 73591 100 + 1
CGAGCUCGUAUUUAUGCGAUUGCCGCGCCGCAAGUGGCAUAGUGGCUGC-CACUUGAGGAAACACGCGAGCAAAAUUAGCGUGCCGCCU------UGCAAUAUUUUA-------
...((((((......(((.....))).((.(((((((((.......)))-)))))).))......))))))(((((..(((........------)))...))))).------- ( -33.60)
>DroAna_CAF1 65694 101 + 1
G-----GGUAUUUAUGCGAUUGCCGCUCGGCAAGUGGCAUAGUGACUGC-CACUUGAGGAAACACGCGAGCCAAAUUAGCGUGCCGCCUUUACGGCUAGAUACUUUA-------
(-----(((((((((((((((...(((((.(((((((((.......)))-)))))).(....)...)))))..)))).))))((((......)))).))))))))..------- ( -38.90)
>consensus
G_____CGUAUUUAUGCGAUUGCCGCGCCGCAAGUGGCAUAGUGGCUGC_CACUUGAGGAAACACGCGAGCAAAAUUAGCGUGCCGCCU______CGAGAUAUUUUA_______
...............(((.....)))....(((((((((.......))).))))))(((...(((((...........)))))...)))......................... (-22.79 = -22.82 +   0.03)

alignment

secondary structure

dotplot

Window 5

Location	6,794,049 – 6,794,144
Length	95
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	83.26
Mean single sequence MFE	-32.58
Consensus MFE	-24.67
Energy contribution	-25.00
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.13
Structure conservation index	0.76
SVM decision value	0.51
SVM RNA-class probability	0.764637
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6794049 95 - 23771897
-------UAAAGUAUCUAGC------AGCGGCACGCUAAUUUGGCUCGCGUGUUUCCUCAAGUG-GCAGCCACUAUGCCACUUGGCGAGCGGCAAUCGCAUAAAUCGC-----C
-------.............------.(((((((((...........)))))).((.(((((((-(((.......)))))))))).))(((.....)))......)))-----. ( -30.60)
>DroVir_CAF1 80702 94 - 1
-------UAAAAUAUUGCA------AGGCGGCACGCUAAUUUUGUUCGCGUGUUUCCUCAAGUG-GCAGCCACUAUGCCACUUGCGGUGCGGCAAUCGCAUAAAUACG------
-------........(((.------(((..((((((.(((...))).))))))..))).(((((-(((.......)))))))))))(((((.....))))).......------ ( -32.50)
>DroGri_CAF1 67550 103 - 1
AGCACUAUAAAAUAUAGCA------AGGCGGCACGCUAAUUUUGUUCGCGUGUUUCCUCAAGUGGGCAGCCACUAUGCCACUUGCGGCGCGGCAAUCGCAUAAAUACA-----G
.((.(((((...)))))..------(((..((((((.(((...))).))))))..)))(((((((.((.......)))))))))..))(((.....))).........-----. ( -28.80)
>DroWil_CAF1 88110 101 - 1
-------UAAAAUAUCUAGCAAAACAGGCGGCACGCUAAUUUUGCUCGCGUGUUUCCUCAAGUG-GCAGUCACUAUGCCACUUGCCGGGCGGCAAUCGCAUAAAUACU-----C
-------..........(((((((..((((...))))..))))))).((((((..(((((((((-(((.......)))))))))..)))..)))..))).........-----. ( -34.30)
>DroMoj_CAF1 73591 100 - 1
-------UAAAAUAUUGCA------AGGCGGCACGCUAAUUUUGCUCGCGUGUUUCCUCAAGUG-GCAGCCACUAUGCCACUUGCGGCGCGGCAAUCGCAUAAAUACGAGCUCG
-------.......((((.------..(((((((((...........))))))..((.((((((-(((.......))))))))).))))).))))(((........)))..... ( -33.40)
>DroAna_CAF1 65694 101 - 1
-------UAAAGUAUCUAGCCGUAAAGGCGGCACGCUAAUUUGGCUCGCGUGUUUCCUCAAGUG-GCAGUCACUAUGCCACUUGCCGAGCGGCAAUCGCAUAAAUACC-----C
-------...........(((((..(((..((((((...........))))))..)))((((((-(((.......)))))))))....)))))...............-----. ( -35.90)
>consensus
_______UAAAAUAUCGAA______AGGCGGCACGCUAAUUUUGCUCGCGUGUUUCCUCAAGUG_GCAGCCACUAUGCCACUUGCCGAGCGGCAAUCGCAUAAAUACC_____C
.........................(((..((((((...........))))))..)))((((((.(((.......)))))))))....(((.....)))............... (-24.67 = -25.00 +   0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:54 2006