Locus 5127

Sequence ID	2L_DroMel_CAF1
Location	14,563,264 – 14,563,388
Length	124
Max. P	0.926889

overview

Window 5

Location	14,563,264 – 14,563,361
Length	97
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	93.81
Mean single sequence MFE	-26.30
Consensus MFE	-22.98
Energy contribution	-23.90
Covariance contribution	0.92
Combinations/Pair	1.09
Mean z-score	-1.20
Structure conservation index	0.87
SVM decision value	0.06
SVM RNA-class probability	0.562053
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14563264 97 + 22407834
AAGAACGGUACGAAUUUGCAAAGCAGGACUCCAUUUAUCCUUCAGGAUGUCCAGACAAAUUCGACCCACACGGUCGAUGUUUGGAUGGAAAAUCUUU
((((..........(((((...)))))..((((..(((((....)))))((((((((...((((((.....))))))))))))))))))...)))). ( -28.80)
>DroSec_CAF1 94671 97 + 1
AAGAACGGUACGAAUUUGCAGAGCAGGACUCCAUUUGUCCUUCAGGAUGUCCAGACAAAUUCGACCCACACGGUCGAUGUUUGGAUGGAAAAUCUUU
..(((.((.((((((.....(((.....))).)))))))))))(((((.((((..(((((((((((.....)))))).)))))..))))..))))). ( -29.50)
>DroSim_CAF1 82337 97 + 1
AAGAACGGUACGAAUUUGCAGAGCAGGACUCCAUUUGUCCUUCAGGAUGUCCAGACAAAUUCGACCCACACGGUCGAUGUUUGGAUGGAAAAUCUUU
..(((.((.((((((.....(((.....))).)))))))))))(((((.((((..(((((((((((.....)))))).)))))..))))..))))). ( -29.50)
>DroEre_CAF1 89045 97 + 1
AAGAACGGUGCGAAUUUGCAGAGCAGGACUCCAUUUUUCCUUCAGGAUGUCCAGACAAAUGCGGCCCAAACUGUCGAUGUUCGGGUGGAAAAUCUUU
((((.(..((((....))))..)..(((((((............))).)))).........(.((((.(((.......))).)))).)....)))). ( -20.90)
>DroYak_CAF1 86443 97 + 1
UAGAACGGUUCGAAUUUGCAGAGCAGGACUCCAUUUCUCCUUCAGGAUGUCCAGACAAAUUCGGCCCAAGCGAUCGAUGUUUGGAUGGAAAAUCUUU
.(((..((..((((((((.....(.(((((((............))).)))).).))))))))..))...(.(((.(....).))).)....))).. ( -22.80)
>consensus
AAGAACGGUACGAAUUUGCAGAGCAGGACUCCAUUUGUCCUUCAGGAUGUCCAGACAAAUUCGACCCACACGGUCGAUGUUUGGAUGGAAAAUCUUU
((((..........(((((...)))))..((((..(((((....)))))((((((((...((((((.....))))))))))))))))))...)))). (-22.98 = -23.90 +   0.92)

alignment

secondary structure

dotplot

Window 6

Location	14,563,294 – 14,563,388
Length	94
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	92.98
Mean single sequence MFE	-25.60
Consensus MFE	-20.94
Energy contribution	-21.58
Covariance contribution	0.64
Combinations/Pair	1.18
Mean z-score	-1.85
Structure conservation index	0.82
SVM decision value	1.18
SVM RNA-class probability	0.926889
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14563294 94 + 22407834
CCAUUUAUCCUUCAGGAUGUCCAGACAAAUUCGACCCACACGGUCGAUGUUUGGAUGGAAAAUCUUUGUCAAAAAUCGAACCUUUGGUGCUUUC
(((..(((((....)))))((((..(((((((((((.....)))))).)))))..)))).........................)))....... ( -25.40)
>DroSec_CAF1 94701 94 + 1
CCAUUUGUCCUUCAGGAUGUCCAGACAAAUUCGACCCACACGGUCGAUGUUUGGAUGGAAAAUCUUUGUCAAAAAUCGUACCUUUGGGGCUUUC
......(((((..((((((((((..(((((((((((.....)))))).)))))..)))).....(((....)))..))).)))..))))).... ( -29.10)
>DroSim_CAF1 82367 94 + 1
CCAUUUGUCCUUCAGGAUGUCCAGACAAAUUCGACCCACACGGUCGAUGUUUGGAUGGAAAAUCUUUGUCAAAAAUCGUACCUUUGGCGCUUUC
((....((((....))))(((((((((...((((((.....))))))))))))))))).........((((((.........))))))...... ( -28.40)
>DroEre_CAF1 89075 94 + 1
CCAUUUUUCCUUCAGGAUGUCCAGACAAAUGCGGCCCAAACUGUCGAUGUUCGGGUGGAAAAUCUUUGUCAAGAAGCGAACCUUUGGCGCUUUC
(((...(((((((.((....)).((((((..(.((((.(((.......))).)))).)......))))))..)))).)))....)))....... ( -24.30)
>DroYak_CAF1 86473 94 + 1
CCAUUUCUCCUUCAGGAUGUCCAGACAAAUUCGGCCCAAGCGAUCGAUGUUUGGAUGGAAAAUCUUUGUCAAAAAUCGAACCUUUGGCGCUUUC
.......(((....)))(((....))).....((((((((.(.(((((.(((((..((.....))...))))).))))).).))))).)))... ( -20.80)
>consensus
CCAUUUGUCCUUCAGGAUGUCCAGACAAAUUCGACCCACACGGUCGAUGUUUGGAUGGAAAAUCUUUGUCAAAAAUCGAACCUUUGGCGCUUUC
(((..(((((....)))))((((((((...((((((.....))))))))))))))))).........((((((.........))))))...... (-20.94 = -21.58 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:42 2006