Locus 5976

Sequence ID	X_DroMel_CAF1
Location	15,379,536 – 15,379,675
Length	139
Max. P	0.835307

overview

Window 4

Location	15,379,536 – 15,379,635
Length	99
Sequences	4
Columns	108
Reading direction	forward
Mean pairwise identity	88.89
Mean single sequence MFE	-33.53
Consensus MFE	-28.92
Energy contribution	-29.18
Covariance contribution	0.25
Combinations/Pair	1.00
Mean z-score	-1.74
Structure conservation index	0.86
SVM decision value	0.73
SVM RNA-class probability	0.835307
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15379536 99 + 22224390
---------CAGGGGUGCAGGGUGAUCUCCGGUGAUCCCUGGGUGAAUCAAAUGAUCCCAGUGAUUCCAUGCCGCGCGGUAAUUACCCCUAAAUGCGAAUGGAAACAU
---------.(((((((..(((.....)))((.((((.(((((...(((....)))))))).)))))).((((....))))..)))))))........(((....))) ( -33.00)
>DroSim_CAF1 14891 99 + 1
---------CAGGGGUGCAGGGUGAUCCCCGGUGAUCCCUGGGUGAAUCAAAUGAUCCCAGUGAUUCCAUGCCGCGCGGUAAUUACCCCUAAAUGCGAAUGGAAACAU
---------.(((((((..(((.....)))((.((((.(((((...(((....)))))))).)))))).((((....))))..)))))))........(((....))) ( -35.50)
>DroEre_CAF1 19514 93 + 1
---------------UACAGGGUGAUCGCCAGUGAUCCCUGGGUGAAUCAAAUGAUCCCAGUGAUUCCAUGCCGUGCGGUAAUUACCCCUGAAUGGGAAUGGAAACAU
---------------..(((((((((..((.(..(((.(((((...(((....)))))))).)))..)..((...))))..)))).))))).......(((....))) ( -31.20)
>DroYak_CAF1 11620 108 + 1
AUACAUGCACGGGGGUGCAGGGUGAUCUCCAGUGAUCCCUGGGUGAAUCAAAUGAUCCCAGUGAUUCCAUGCCGUGCGGUAAUUACCCCUAAAUGCGAAUGGAAACAU
.....((((.(((((((((.(((((((......)))).(((((...(((....)))))))).........))).))).......))))))...)))).(((....))) ( -34.41)
>consensus
_________CAGGGGUGCAGGGUGAUCUCCAGUGAUCCCUGGGUGAAUCAAAUGAUCCCAGUGAUUCCAUGCCGCGCGGUAAUUACCCCUAAAUGCGAAUGGAAACAU
...............(((((((((((..((.(..(((.(((((...(((....)))))))).)))..)..((...))))..))))))).....)))).(((....))) (-28.92 = -29.18 +   0.25)

alignment

secondary structure

dotplot

Window 5

Location	15,379,555 – 15,379,675
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	97.64
Mean single sequence MFE	-39.55
Consensus MFE	-37.69
Energy contribution	-37.50
Covariance contribution	-0.19
Combinations/Pair	1.03
Mean z-score	-1.88
Structure conservation index	0.95
SVM decision value	0.58
SVM RNA-class probability	0.790334
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15379555 120 + 22224390
CCGGUGAUCCCUGGGUGAAUCAAAUGAUCCCAGUGAUUCCAUGCCGCGCGGUAAUUACCCCUAAAUGCGAAUGGAAACAUUCUCAUUUUUAUGAGGCACACGCUGGCCGGCGAGACAAUG
..((.((((.(((((...(((....)))))))).)))))).(((((.(((((....)))...(((((.(((((....))))).)))))......(((....))).)))))))........ ( -39.30)
>DroSim_CAF1 14910 120 + 1
CCGGUGAUCCCUGGGUGAAUCAAAUGAUCCCAGUGAUUCCAUGCCGCGCGGUAAUUACCCCUAAAUGCGAAUGGAAACAUUCUCAUUUUUAUGAGGCACACGCUGGCCGGCGAGACAAUG
..((.((((.(((((...(((....)))))))).)))))).(((((.(((((....)))...(((((.(((((....))))).)))))......(((....))).)))))))........ ( -39.30)
>DroEre_CAF1 19527 120 + 1
CCAGUGAUCCCUGGGUGAAUCAAAUGAUCCCAGUGAUUCCAUGCCGUGCGGUAAUUACCCCUGAAUGGGAAUGGAAACAUUCUCAUUUUUAUGAGGCACACGUUGGCCGGCGAGACAAUG
...(..(((.(((((...(((....)))))))).)))..).(((((.(((((....)))((((((((((((((....))))))))))).....))).........)))))))........ ( -41.60)
>DroYak_CAF1 11648 120 + 1
CCAGUGAUCCCUGGGUGAAUCAAAUGAUCCCAGUGAUUCCAUGCCGUGCGGUAAUUACCCCUAAAUGCGAAUGGAAACAUUCUCAUUUUUAUGAGGCACACGCUGGCCGGCGAGACAAUG
(((((((((.(((((...(((....)))))))).)))........(((((((....)))...(((((.(((((....))))).))))).......)))).)))))).............. ( -38.00)
>consensus
CCAGUGAUCCCUGGGUGAAUCAAAUGAUCCCAGUGAUUCCAUGCCGCGCGGUAAUUACCCCUAAAUGCGAAUGGAAACAUUCUCAUUUUUAUGAGGCACACGCUGGCCGGCGAGACAAUG
...(..(((.(((((...(((....)))))))).)))..).(((((.(((((....)))((((((((.(((((....))))).))))).....))).........)))))))........ (-37.69 = -37.50 +  -0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:03 2006