Locus 2649

Sequence ID	3R_DroMel_CAF1
Location	7,132,946 – 7,133,040
Length	94
Max. P	0.993958

overview

Window 6

Location	7,132,946 – 7,133,040
Length	94
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	94.35
Mean single sequence MFE	-29.94
Consensus MFE	-22.68
Energy contribution	-22.68
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.97
Structure conservation index	0.76
SVM decision value	0.22
SVM RNA-class probability	0.639281
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7132946 94 + 27905053
UGCCCUGACCCUGGCCGCAUAAAAAUGGCAGGCCAUCAAGGAAUCGCCCGCCACCAAAUGAAGCGGGCCAGGACGAAGC-AAAGGGGUUAGCCAA
....((((((((((((((.........)).))))...........((((((...........))))))...........-...)))))))).... ( -31.90)
>DroSec_CAF1 65807 90 + 1
UGCCCUGACCCUGGCCGCAUAAAAAUGGCAGGCCAUCAAGGAAUCG----CCACCAAAUGAAGCGGGCCAGGACGAAAC-AAAGGGGUUAGCCAA
.(((((...(((((((((.......(((((..((.....))..).)----))).........)).))))))).......-...)))))....... ( -27.21)
>DroSim_CAF1 73422 90 + 1
UGCCCUGACCCUGGCCGCAUAAAAAUGGCAGGCCAUCAAGGAAUCG----CCACCAAAUGAAGCGGGCCAGGACGAAAC-AAAGGGGUUAGCCAA
.(((((...(((((((((.......(((((..((.....))..).)----))).........)).))))))).......-...)))))....... ( -27.21)
>DroEre_CAF1 67382 90 + 1
UGCCCUGACCCUGGCCGCAUAAAAAUGGCAGGCCAUCAAGGCAUCG----CCACCAAAUGAUGCGGGGCAGGACGAAAC-AAAGGGGUUAGCCAA
....((((((((..((((((.....((((..(((.....)))...)----))).......))))))(......).....-...)))))))).... ( -30.60)
>DroYak_CAF1 69267 91 + 1
UGCCCUGACCCUGGCCGCAUAAAAAUGGCAGGCCAUCAAGGCAUCG----CCACCAAACGAAGCGGGGCAGGACGAAACCGAAGGGGUUAGUCAA
(((((((....(((((((.........)).)))))....(((...)----))...........))))))).(((....((....))....))).. ( -32.80)
>consensus
UGCCCUGACCCUGGCCGCAUAAAAAUGGCAGGCCAUCAAGGAAUCG____CCACCAAAUGAAGCGGGCCAGGACGAAAC_AAAGGGGUUAGCCAA
....((((((((((((((.........)).)))).........(((.......((.........)).......))).......)))))))).... (-22.68 = -22.68 +  -0.00)

alignment

secondary structure

dotplot

Window 7

Location	7,132,946 – 7,133,040
Length	94
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	94.35
Mean single sequence MFE	-37.36
Consensus MFE	-29.92
Energy contribution	-30.16
Covariance contribution	0.24
Combinations/Pair	1.04
Mean z-score	-3.12
Structure conservation index	0.80
SVM decision value	2.44
SVM RNA-class probability	0.993958
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7132946 94 - 27905053
UUGGCUAACCCCUUU-GCUUCGUCCUGGCCCGCUUCAUUUGGUGGCGGGCGAUUCCUUGAUGGCCUGCCAUUUUUAUGCGGCCAGGGUCAGGGCA
..(((..........-)))..(((((((((((((.(((..((((((((((.(((....))).))))))))))...))).)))..)))))))))). ( -46.10)
>DroSec_CAF1 65807 90 - 1
UUGGCUAACCCCUUU-GUUUCGUCCUGGCCCGCUUCAUUUGGUGG----CGAUUCCUUGAUGGCCUGCCAUUUUUAUGCGGCCAGGGUCAGGGCA
...............-.....(((((((((((((.(((..(((((----((...((.....))..)))))))...))).)))..)))))))))). ( -35.40)
>DroSim_CAF1 73422 90 - 1
UUGGCUAACCCCUUU-GUUUCGUCCUGGCCCGCUUCAUUUGGUGG----CGAUUCCUUGAUGGCCUGCCAUUUUUAUGCGGCCAGGGUCAGGGCA
...............-.....(((((((((((((.(((..(((((----((...((.....))..)))))))...))).)))..)))))))))). ( -35.40)
>DroEre_CAF1 67382 90 - 1
UUGGCUAACCCCUUU-GUUUCGUCCUGCCCCGCAUCAUUUGGUGG----CGAUGCCUUGAUGGCCUGCCAUUUUUAUGCGGCCAGGGUCAGGGCA
...............-.....((((((((((((((.....(((((----((..(((.....))).)))))))...)))))....))).)))))). ( -33.30)
>DroYak_CAF1 69267 91 - 1
UUGACUAACCCCUUCGGUUUCGUCCUGCCCCGCUUCGUUUGGUGG----CGAUGCCUUGAUGGCCUGCCAUUUUUAUGCGGCCAGGGUCAGGGCA
..((..((((.....))))))(((((((((.(((.(((..(((((----((..(((.....))).)))))))...))).)))..))).)))))). ( -36.60)
>consensus
UUGGCUAACCCCUUU_GUUUCGUCCUGGCCCGCUUCAUUUGGUGG____CGAUUCCUUGAUGGCCUGCCAUUUUUAUGCGGCCAGGGUCAGGGCA
.....................((((((((((...(((...((............)).)))(((((.((.((....))))))))))))))))))). (-29.92 = -30.16 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:22 2006