Locus 7649

Sequence ID	2L_DroMel_CAF1
Location	21,273,701 – 21,273,821
Length	120
Max. P	0.804194

overview

Window 0

Location	21,273,701 – 21,273,821
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	91.67
Mean single sequence MFE	-31.02
Consensus MFE	-24.38
Energy contribution	-24.25
Covariance contribution	-0.12
Combinations/Pair	1.07
Mean z-score	-1.90
Structure conservation index	0.79
SVM decision value	0.45
SVM RNA-class probability	0.741136
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21273701 120 + 22407834
AGUCAAGAAUCUAGGCACUAAUUGCUGCUUUGCGUAUUUAUUGGUUGCCGGUUGCCCAUUUCUUGUAUAAAAAUAUGCUCAUCAGGCAUUUUGUACAAUUAGUGCUGAGCAGUUAGCAAA
....(((((....(((((((((...(((.....)))...))))).))))((....))..)))))(((((((...(((((.....))))))))))))......((((((....)))))).. ( -27.50)
>DroSim_CAF1 14020 120 + 1
AGUCAAGAAUCUAGGCACUAAUUGCUGCUUUGCGUAUUUAUUGGUUGUCGGCUGCCCAUUUCUUGUAUAAAAAUAUGCUUAUUAGGCAUUUUGUACAAUUAGUGCUGAGCAGUUUGCAGA
.((.(((......((((.....)))).))).))...........((((..((((((((((..(((((((((...(((((.....))))))))))))))..))))..).)))))..)))). ( -29.20)
>DroEre_CAF1 12402 119 + 1
AGUCAAGAAUUUAGGCACUAAUUGCUGCUUUGCGGAUUUAUUGGUUGCCGGCUGCCCAUUUCUUGUAUAAAAAUAUGCUUAUUAGGCAUUUUGUACAAUUAGUGCUGCACAGU-UCUCGA
..((.((((((..(((((((((..((((...))))....))))).))))...(((.((((..(((((((((...(((((.....))))))))))))))..))))..))).)))-))).)) ( -33.30)
>DroYak_CAF1 10968 120 + 1
AGUCAAGAGUUUAGGCACUAAUUGCUGCUUUGCGAAUUUAUUGUUUGCCGGCUGCCCAUUUCUUGUAUAAAAAUAUGCUUAUUAGUCAUUUUGUACAAUUAGUGCUGCACAGUUUCUUGA
..(((((((....((((((((((((.(((..((((((.....)))))).))).)).........((((((((....(((....)))..)))))))))))))))))).......))))))) ( -34.10)
>consensus
AGUCAAGAAUCUAGGCACUAAUUGCUGCUUUGCGUAUUUAUUGGUUGCCGGCUGCCCAUUUCUUGUAUAAAAAUAUGCUUAUUAGGCAUUUUGUACAAUUAGUGCUGAACAGUUUCCAGA
.............((((((((((((.(((..(((...........))).))).)).........(((((((...(((((.....)))))))))))))))))))))).............. (-24.38 = -24.25 +  -0.12)

alignment

secondary structure

dotplot

Window 1

Location	21,273,701 – 21,273,821
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	91.67
Mean single sequence MFE	-26.59
Consensus MFE	-20.25
Energy contribution	-20.75
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-2.28
Structure conservation index	0.76
SVM decision value	0.63
SVM RNA-class probability	0.804194
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21273701 120 - 22407834
UUUGCUAACUGCUCAGCACUAAUUGUACAAAAUGCCUGAUGAGCAUAUUUUUAUACAAGAAAUGGGCAACCGGCAACCAAUAAAUACGCAAAGCAGCAAUUAGUGCCUAGAUUCUUGACU
...((.....))...(((((((((((......((((..........((((((.....))))))((....))))))............((...)).))))))))))).............. ( -26.90)
>DroSim_CAF1 14020 120 - 1
UCUGCAAACUGCUCAGCACUAAUUGUACAAAAUGCCUAAUAAGCAUAUUUUUAUACAAGAAAUGGGCAGCCGACAACCAAUAAAUACGCAAAGCAGCAAUUAGUGCCUAGAUUCUUGACU
....(((....((..(((((((((((......((((((.......(((....))).......))))))...................((...)).)))))))))))..))....)))... ( -22.94)
>DroEre_CAF1 12402 119 - 1
UCGAGA-ACUGUGCAGCACUAAUUGUACAAAAUGCCUAAUAAGCAUAUUUUUAUACAAGAAAUGGGCAGCCGGCAACCAAUAAAUCCGCAAAGCAGCAAUUAGUGCCUAAAUUCUUGACU
((((((-(.......(((((((((((......((((......((.(((((((.....))))))).))....))))............((...)).))))))))))).....))))))).. ( -29.20)
>DroYak_CAF1 10968 120 - 1
UCAAGAAACUGUGCAGCACUAAUUGUACAAAAUGACUAAUAAGCAUAUUUUUAUACAAGAAAUGGGCAGCCGGCAAACAAUAAAUUCGCAAAGCAGCAAUUAGUGCCUAAACUCUUGACU
((((((....((...(((((((((((................((.(((((((.....))))))).)).((..((.............))...)).)))))))))))....)))))))).. ( -27.32)
>consensus
UCUACAAACUGCGCAGCACUAAUUGUACAAAAUGCCUAAUAAGCAUAUUUUUAUACAAGAAAUGGGCAGCCGGCAACCAAUAAAUACGCAAAGCAGCAAUUAGUGCCUAAAUUCUUGACU
...............(((((((((((......((((......((.(((((((.....))))))).))....))))............((...)).))))))))))).............. (-20.25 = -20.75 +   0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:54 2006