Locus 2434

Sequence ID	3R_DroMel_CAF1
Location	6,771,087 – 6,771,206
Length	119
Max. P	0.997398

overview

Window 0

Location	6,771,087 – 6,771,206
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.14
Mean single sequence MFE	-33.52
Consensus MFE	-30.38
Energy contribution	-30.02
Covariance contribution	-0.36
Combinations/Pair	1.15
Mean z-score	-2.01
Structure conservation index	0.91
SVM decision value	2.85
SVM RNA-class probability	0.997398
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6771087 119 + 27905053
-UUCCAGCUUUCCCCUCUUCAGACAUCGUUGUUUGACGCGGUUUUUCGCGAUGUAUUGUUUCCUUUGCUUGUCAACAACAGUCGGCGAAUUUCUGUCAUAUUGGCAUUUGAGGAGCAAUU
-.............(((((((((..((((((.(((.(((((....))))).....(((((..(.......)..)))))))).)))))).....((((.....)))))))))))))..... ( -29.30)
>DroSec_CAF1 35356 119 + 1
-UUCCAGCUUUCCCCUCUUCAGACAUCGUUGUUUGACGCGGUUUUUCGCGAUGUAUUGUUUCCUUUGCUUGUCAACGACAGUUGGCAAAUUUCUGUCAUAUUGGCAUGUGGGGAGCAAUU
-.................(((((((....)))))))(((((....)))))....((((((((((..((.((((((.(((((..(.....)..)))))...)))))).)))))))))))). ( -35.50)
>DroSim_CAF1 39916 119 + 1
-UUCCAGCUUUCCCCUCUUCAGACAUCGUUGUUUGACGCGGUUUUUCGCGAUGUAUUGUUUCCUUUGCUUGUCAACGACAGUUGGCAAAUUUCUGUCAUAUUGGCAUGUGGGGAGCAAUU
-.................(((((((....)))))))(((((....)))))....((((((((((..((.((((((.(((((..(.....)..)))))...)))))).)))))))))))). ( -35.50)
>DroEre_CAF1 20288 119 + 1
-UUUCAGCUUUCCCCUCUUCAGACAUCGUUGUUUGACGCGGUUUUUCGCAAUGUAUUGUUUCCUUUGCCUGUCAACGACAGUUGGCGAAUUUCUAUCAAAUGGGCAUGUGGGGAGUGAUU
-..(((...((((((.(.(((((((....))))))).((((....))))................(((((((((((....))))))((.......))....))))).).))))))))).. ( -34.50)
>DroYak_CAF1 32361 120 + 1
UUUUCAGAUUUCCCCUCUUCAGACAUCGUUGUUUGACGCGGUUUUUCGCGAUGUAUUGUUUCCUUUGCUUGUCAACGACAGUUGGCGAAUUUCUGUCAUAUUGGCAUGUGGGAAGUAAUU
.......(((((((....(((((((....)))))))(((((....)))))................((.((((((.(((((..(.....)..)))))...)))))).))))))))).... ( -32.80)
>consensus
_UUCCAGCUUUCCCCUCUUCAGACAUCGUUGUUUGACGCGGUUUUUCGCGAUGUAUUGUUUCCUUUGCUUGUCAACGACAGUUGGCGAAUUUCUGUCAUAUUGGCAUGUGGGGAGCAAUU
..................(((((((....)))))))(((((....)))))....((((((((((.(((((((((((....)))))))...............))))...)))))))))). (-30.38 = -30.02 +  -0.36)

alignment

secondary structure

dotplot

Window 1

Location	6,771,087 – 6,771,206
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.14
Mean single sequence MFE	-27.54
Consensus MFE	-25.48
Energy contribution	-24.88
Covariance contribution	-0.60
Combinations/Pair	1.19
Mean z-score	-1.66
Structure conservation index	0.93
SVM decision value	2.07
SVM RNA-class probability	0.987206
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6771087 119 - 27905053
AAUUGCUCCUCAAAUGCCAAUAUGACAGAAAUUCGCCGACUGUUGUUGACAAGCAAAGGAAACAAUACAUCGCGAAAAACCGCGUCAAACAACGAUGUCUGAAGAGGGGAAAGCUGGAA-
.....((((((....((.(((.........))).)).(((((((((((((.......(....)........(((......)))))).)))))))..)))....))))))..........- ( -27.60)
>DroSec_CAF1 35356 119 - 1
AAUUGCUCCCCACAUGCCAAUAUGACAGAAAUUUGCCAACUGUCGUUGACAAGCAAAGGAAACAAUACAUCGCGAAAAACCGCGUCAAACAACGAUGUCUGAAGAGGGGAAAGCUGGAA-
....(((((((.((((....)))).((((..(((((((((....))))....)))))(....)....(((((((......)))((......))))))))))....)))))..)).....- ( -28.90)
>DroSim_CAF1 39916 119 - 1
AAUUGCUCCCCACAUGCCAAUAUGACAGAAAUUUGCCAACUGUCGUUGACAAGCAAAGGAAACAAUACAUCGCGAAAAACCGCGUCAAACAACGAUGUCUGAAGAGGGGAAAGCUGGAA-
....(((((((.((((....)))).((((..(((((((((....))))....)))))(....)....(((((((......)))((......))))))))))....)))))..)).....- ( -28.90)
>DroEre_CAF1 20288 119 - 1
AAUCACUCCCCACAUGCCCAUUUGAUAGAAAUUCGCCAACUGUCGUUGACAGGCAAAGGAAACAAUACAUUGCGAAAAACCGCGUCAAACAACGAUGUCUGAAGAGGGGAAAGCUGAAA-
......(((((.((........))........((..((..((((((((...(((...(....)........(((......))))))...))))))))..))..))))))).........- ( -27.00)
>DroYak_CAF1 32361 120 - 1
AAUUACUUCCCACAUGCCAAUAUGACAGAAAUUCGCCAACUGUCGUUGACAAGCAAAGGAAACAAUACAUCGCGAAAAACCGCGUCAAACAACGAUGUCUGAAGAGGGGAAAUCUGAAAA
......(((((...(((....(((((((...........)))))))......)))..(....)...((((((((......)))((......)))))))........)))))......... ( -25.30)
>consensus
AAUUGCUCCCCACAUGCCAAUAUGACAGAAAUUCGCCAACUGUCGUUGACAAGCAAAGGAAACAAUACAUCGCGAAAAACCGCGUCAAACAACGAUGUCUGAAGAGGGGAAAGCUGGAA_
......(((((...(((....(((((((...........)))))))......)))..(....)...((((((((......)))((......))))))).......))))).......... (-25.48 = -24.88 +  -0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:57 2006