Locus 7751

Sequence ID	2L_DroMel_CAF1
Location	21,879,086 – 21,879,203
Length	117
Max. P	0.702686

overview

Window 3

Location	21,879,086 – 21,879,203
Length	117
Sequences	4
Columns	119
Reading direction	forward
Mean pairwise identity	85.31
Mean single sequence MFE	-22.90
Consensus MFE	-14.41
Energy contribution	-13.97
Covariance contribution	-0.44
Combinations/Pair	1.23
Mean z-score	-2.11
Structure conservation index	0.63
SVM decision value	0.36
SVM RNA-class probability	0.702686
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21879086 117 + 22407834
A-GGAAAACUUUUGCAGCCAUUCAUAAUGUUCACCAAGCCAUAAAUAUAAAUAUUUAUGGGUUCGCAAUACAA-UUUUGUACGCCAAAUCGUUACAAAUCGACGUAAAGUGUUCUAAUC
.-((((.((((((((((((.........(((.....)))((((((((....)))))))))))).))))(((..-.((((((((......)).)))))).....))))))).)))).... ( -20.80)
>DroSim_CAF1 112128 117 + 1
A-AGAAAACUUUUGCAGCCAUUCAUAAUGUUCCCCAAGCCAUAAAUAUAAAUAUUUAUGGGCUCGCAAUACAA-UUUUGUACGCCAAAUCGUUACAAAUCGACGCAAAGUGCUCUAAUC
.-(((..(((((.((..(.(((..(((((..........((((((((....))))))))(((..((((.....-..))))..)))....)))))..))).)..)))))))..))).... ( -22.60)
>DroEre_CAF1 129899 118 + 1
AUAGAAAAGUUUUGCAGCCAUUCAUAAUAUUCGCCAAGCCAUAAAUAUAAAUAUUUAUGGAUUCGCAAUACCA-UUUUGUACGCCAAAUCGUUACAAAUCGACGCAAAGUGCUCUAAUC
.((((...(((((((.................((....(((((((((....)))))))))....)).......-.((((((((......)).)))))).....)))))))..))))... ( -22.30)
>DroAna_CAF1 114780 117 + 1
--AGCACACAUUCUUGGCCAUUUAUAACAUUCUGUACAUCAUAAAUAUAAAUAUUUAUGGAUUUGCGAUACAAGUUUCGUAUCCCAAAUCGUUGCAAAUCGACGCAAAGUGCUCUAAUU
--(((((.((....))((.((((.((((...........((((((((....))))))))((((((.(((((.......))))).)))))))))).))))....))...)))))...... ( -25.90)
>consensus
A_AGAAAACUUUUGCAGCCAUUCAUAAUAUUCACCAAGCCAUAAAUAUAAAUAUUUAUGGAUUCGCAAUACAA_UUUUGUACGCCAAAUCGUUACAAAUCGACGCAAAGUGCUCUAAUC
..(((..((.(((((..(.(((..((((..........(((((((((....)))))))))....((((........))))..........))))..))).)..)))))))..))).... (-14.41 = -13.97 +  -0.44)

alignment

secondary structure

dotplot

Window 4

Location	21,879,086 – 21,879,203
Length	117
Sequences	4
Columns	119
Reading direction	reverse
Mean pairwise identity	85.31
Mean single sequence MFE	-30.18
Consensus MFE	-18.21
Energy contribution	-19.65
Covariance contribution	1.44
Combinations/Pair	1.21
Mean z-score	-2.33
Structure conservation index	0.60
SVM decision value	0.34
SVM RNA-class probability	0.694816
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21879086 117 - 22407834
GAUUAGAACACUUUACGUCGAUUUGUAACGAUUUGGCGUACAAAA-UUGUAUUGCGAACCCAUAAAUAUUUAUAUUUAUGGCUUGGUGAACAUUAUGAAUGGCUGCAAAAGUUUUCC-U
.....(((.((((((((((((.(((...))).)))))))).....-((((((..(.((.(((((((((....))))))))).)).)..).(((.....)))..))))))))).))).-. ( -26.10)
>DroSim_CAF1 112128 117 - 1
GAUUAGAGCACUUUGCGUCGAUUUGUAACGAUUUGGCGUACAAAA-UUGUAUUGCGAGCCCAUAAAUAUUUAUAUUUAUGGCUUGGGGAACAUUAUGAAUGGCUGCAAAAGUUUUCU-U
....((((.((((((((.(.(((..(((...((((.....)))).-.(((.((.((((((.(((((((....))))))))))))).)).))))))..))).).))).))))).))))-. ( -31.50)
>DroEre_CAF1 129899 118 - 1
GAUUAGAGCACUUUGCGUCGAUUUGUAACGAUUUGGCGUACAAAA-UGGUAUUGCGAAUCCAUAAAUAUUUAUAUUUAUGGCUUGGCGAAUAUUAUGAAUGGCUGCAAAACUUUUCUAU
...(((((...(((((((((.((((((.((......))))))))(-(((((((((.((.(((((((((....))))))))).)).)).))))))))...)))).)))))....))))). ( -31.60)
>DroAna_CAF1 114780 117 - 1
AAUUAGAGCACUUUGCGUCGAUUUGCAACGAUUUGGGAUACGAAACUUGUAUCGCAAAUCCAUAAAUAUUUAUAUUUAUGAUGUACAGAAUGUUAUAAAUGGCCAAGAAUGUGUGCU--
......(((((((((.(((.(((((.(((((((((.(((((((...))))))).))))))((((((((....))))))))...........))).)))))))))))).....)))))-- ( -31.50)
>consensus
GAUUAGAGCACUUUGCGUCGAUUUGUAACGAUUUGGCGUACAAAA_UUGUAUUGCGAACCCAUAAAUAUUUAUAUUUAUGGCUUGGAGAACAUUAUGAAUGGCUGCAAAAGUUUUCU_U
.....(((.((((((((.(.((((((((...((((.....)))).......((((.((.(((((((((....))))))))).)).))))...)))))))).).)))))).)).)))... (-18.21 = -19.65 +   1.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:06 2006