Locus 1495

Sequence ID	X_DroMel_CAF1
Location	4,424,318 – 4,424,477
Length	159
Max. P	0.959536

overview

Window 4

Location	4,424,318 – 4,424,437
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.99
Mean single sequence MFE	-32.88
Consensus MFE	-29.50
Energy contribution	-29.34
Covariance contribution	-0.16
Combinations/Pair	1.03
Mean z-score	-1.23
Structure conservation index	0.90
SVM decision value	0.21
SVM RNA-class probability	0.633965
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4424318 119 + 22224390
UCAAGCAAGUGCCCAUAUCAAAUGGAAUGCACACGGCCAAUGGGAGCAAUGAUGAUAUGUAUCUUUGGGCAAUUGGAGCACAACCGCCCACUGAUAACUGAGCUACCAGAAGGGGUAC-A
........((((((((((((........((.....))((.((....)).)).)))))).((((..(((((..(((.....)))..)))))..)))).(((......)))...))))))-. ( -32.70)
>DroSec_CAF1 26712 120 + 1
UCAAGCAAGUGCCCAUAUCAAAUGGAAUGCACACGGCCAAUGGGAGCAAUGAUGAUAUGUAUCUUUGGGCAAUUGGAGCACAACCGCCCACUGAUAACUGAGCUACCAGAAGGGGUACCA
........((((((((((((........((.....))((.((....)).)).)))))).((((..(((((..(((.....)))..)))))..)))).(((......)))...)))))).. ( -31.80)
>DroSim_CAF1 28050 120 + 1
UCAAGCAAGUGCCCAUAUCAAAUGGAAUGCACACGGCCAAUGGGAGCAAUGAUGAUAUGUAUCUUUGGGCAAUUGGAGCACAACCGCCCACUGAUAACCGAGCUACCAGAAGGGGUACCA
...(((..((((((((.....))))...)))).(((.((.((....)).))........((((..(((((..(((.....)))..)))))..)))).))).))).......((....)). ( -32.10)
>DroEre_CAF1 27723 119 + 1
UCAAGCAAGUGCCCAUAUCAAGUGGAAUGCACACGGCCAAUGGGAGCAAUGAUGAUAUGUAUCUUUGGGCAAUUGGAGCACAACCGCCCACUGAUAACUGAGUAACGAGAAGGGGUAC-A
........((((((((((((.(((.......)))...((.((....)).)).)))))).((((..(((((..(((.....)))..)))))..))))................))))))-. ( -33.90)
>DroYak_CAF1 27311 119 + 1
UCAAGCAAGUGCCUAUAUCAAGUGGAAUGCACACCGCCAAUGGGAGCAAUGAUGAUAUGUAUCUUUGGGCAAUUGGAGCACAACCGCCCACUGAUAACUGACUAACCAGAAAGGGUAC-A
........((((((((((((.((((........))))((.((....)).)).)))))).((((..(((((..(((.....)))..)))))..)))).(((......)))...))))))-. ( -33.90)
>consensus
UCAAGCAAGUGCCCAUAUCAAAUGGAAUGCACACGGCCAAUGGGAGCAAUGAUGAUAUGUAUCUUUGGGCAAUUGGAGCACAACCGCCCACUGAUAACUGAGCUACCAGAAGGGGUAC_A
........((((((((((((........((.....))((.((....)).)).)))))).((((..(((((..(((.....)))..)))))..))))................)))))).. (-29.50 = -29.34 +  -0.16)

alignment

secondary structure

dotplot

Window 5

Location	4,424,358 – 4,424,477
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.32
Mean single sequence MFE	-36.02
Consensus MFE	-31.20
Energy contribution	-31.12
Covariance contribution	-0.08
Combinations/Pair	1.07
Mean z-score	-1.83
Structure conservation index	0.87
SVM decision value	1.50
SVM RNA-class probability	0.959536
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4424358 119 - 22224390
AUUAGCAUGCAGUGCGUCUCAAAGGUAAAACUUUGGAAGGU-GUACCCCUUCUGGUAGCUCAGUUAUCAGUGGGCGGUUGUGCUCCAAUUGCCCAAAGAUACAUAUCAUCAUUGCUCCCA
........((((((..((.(((((......)))))))..((-(((......((((((((...))))))))((((((((((.....))))))))))....))))).....))))))..... ( -36.20)
>DroSec_CAF1 26752 120 - 1
AUUAGCAUGCAGUGCGUCUCAAAGGUAAAACUUUGGAAGGUGGUACCCCUUCUGGUAGCUCAGUUAUCAGUGGGCGGUUGUGCUCCAAUUGCCCAAAGAUACAUAUCAUCAUUGCUCCCA
........(((((...((.(((((......))))))).(((((((......((((((((...))))))))((((((((((.....))))))))))........))))))))))))..... ( -37.60)
>DroSim_CAF1 28090 120 - 1
AUUAGCAUGCAGUGCGUCUCAAAGGUAAAACUUUGGAAGGUGGUACCCCUUCUGGUAGCUCGGUUAUCAGUGGGCGGUUGUGCUCCAAUUGCCCAAAGAUACAUAUCAUCAUUGCUCCCA
........((((((.....(((((......)))))(((((.(....))))))(((((.....((.(((..((((((((((.....))))))))))..))))).))))).))))))..... ( -37.60)
>DroEre_CAF1 27763 119 - 1
AUUAGCAUGCAGUGCGUCUCAAUGGUAAAACUUUGGAAGGU-GUACCCCUUCUCGUUACUCAGUUAUCAGUGGGCGGUUGUGCUCCAAUUGCCCAAAGAUACAUAUCAUCAUUGCUCCCA
........((((((.......((((((.(((...((((((.-.....)))))).))).....((.(((..((((((((((.....))))))))))..))))).))))))))))))..... ( -33.81)
>DroYak_CAF1 27351 119 - 1
AUUAGCAUGCAGUGCGUCUCAAUGGUAAAACUUCGGAAGGU-GUACCCUUUCUGGUUAGUCAGUUAUCAGUGGGCGGUUGUGCUCCAAUUGCCCAAAGAUACAUAUCAUCAUUGCUCCCA
........((((((.......((((((.((((..((((((.-....)))))).)))).....((.(((..((((((((((.....))))))))))..))))).))))))))))))..... ( -34.91)
>consensus
AUUAGCAUGCAGUGCGUCUCAAAGGUAAAACUUUGGAAGGU_GUACCCCUUCUGGUAGCUCAGUUAUCAGUGGGCGGUUGUGCUCCAAUUGCCCAAAGAUACAUAUCAUCAUUGCUCCCA
........((((((..................((((((((.......)))))))).......((.(((..((((((((((.....))))))))))..))))).......))))))..... (-31.20 = -31.12 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:05 2006