Locus 7716

Sequence ID	3R_DroMel_CAF1
Location	20,719,286 – 20,719,410
Length	124
Max. P	0.994472

overview

Window 7

Location	20,719,286 – 20,719,393
Length	107
Sequences	5
Columns	109
Reading direction	reverse
Mean pairwise identity	88.29
Mean single sequence MFE	-22.14
Consensus MFE	-17.66
Energy contribution	-17.90
Covariance contribution	0.24
Combinations/Pair	1.05
Mean z-score	-2.83
Structure conservation index	0.80
SVM decision value	2.48
SVM RNA-class probability	0.994472
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20719286 107 - 27905053
UCUUGUCUUUUAUUUUCUCUGCAGCUCACUGCUCCGCUGCACAGGAAAAAA-AGCGAGAUAAUAAAUCUAAUAUACAAGCAAUAUAUCAUAUUUUAAAUAUUUAUG-UU
(((((.(((((.((((((.((((((..........)))))).)))))))))-))))))).....................((((((..((((.....)))).))))-)) ( -22.30)
>DroSec_CAF1 15532 108 - 1
UCUUGUCUUUUAUUUUCUCUGCAGCUCACUGCUCCGCUGCACAGGAAAAAAUAGCGAGA-AAUAAAUCUAAUAUACAAGCAAUAUAUCAUAUUUUAAAUAUUUAUCCUU
((((((..(((.((((((.((((((..........)))))).)))))))))..))))))-................................................. ( -20.70)
>DroSim_CAF1 16435 108 - 1
UCUUGUCUUUUAUUUUCUCUGCAGCUCACUGCUCCGCUGCACAGGAAAAAAUAGCGAGA-AAUAAAUCGAAUAUACAAGCAAUAUAUCAUAUUUUAAAUAUUUAUCCUU
((((((..(((.((((((.((((((..........)))))).)))))))))..))))))-................................................. ( -20.70)
>DroEre_CAF1 16495 107 - 1
UCUUGUCUUUUAUUUUCUCUGCAGCUCACUGCUCCGCUGCACAGGAAAAAA-AGCCAGAUACUAAUUCAAGUAUACAAGCAAUAUUGAAUAGUUUGAAUAUUUAUG-GU
(((.(.(((((.((((((.((((((..........)))))).)))))))))-))).))).....((((((((((.(((......))).))).))))))).......-.. ( -24.10)
>DroYak_CAF1 16738 101 - 1
UCUUGUCUUUUAUUUUCUCUGCAGCUCACUGCUCCGCUGCACAGGAAAAAACAAAGAGAUACUAAAUCAAAUAUUAAAGUAA-------UAGCUUAAAUAUUUAUG-UU
...((((((((.((((((.((((((..........)))))).)))))).....)))))))).......(((((((.((((..-------..)))).)))))))...-.. ( -22.90)
>consensus
UCUUGUCUUUUAUUUUCUCUGCAGCUCACUGCUCCGCUGCACAGGAAAAAA_AGCGAGAUAAUAAAUCAAAUAUACAAGCAAUAUAUCAUAUUUUAAAUAUUUAUG_UU
((((((..(((.((((((.((((((..........)))))).)))))))))..)))))).................................................. (-17.66 = -17.90 +   0.24)

alignment

secondary structure

dotplot

Window 8

Location	20,719,318 – 20,719,410
Length	92
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	90.30
Mean single sequence MFE	-23.96
Consensus MFE	-19.34
Energy contribution	-20.62
Covariance contribution	1.28
Combinations/Pair	1.07
Mean z-score	-2.47
Structure conservation index	0.81
SVM decision value	2.16
SVM RNA-class probability	0.989245
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20719318 92 - 27905053
CCACUCGGCUCGGUUUGUCUUGUCUUUUAUUUUCUCUGCAGCUCACUGCUCCGCUGCACAGGAAAAAA-AGCGAGAUAAUAAAUCUAAUAUAC
..............((((((((.(((((.((((((.((((((..........)))))).)))))))))-)))))))))).............. ( -25.30)
>DroSec_CAF1 15565 92 - 1
CGACUCGGCUCGGUUUGUCUUGUCUUUUAUUUUCUCUGCAGCUCACUGCUCCGCUGCACAGGAAAAAAUAGCGAGA-AAUAAAUCUAAUAUAC
...........((((((((((((..(((.((((((.((((((..........)))))).)))))))))..))))))-..))))))........ ( -23.80)
>DroSim_CAF1 16468 92 - 1
CGACUCGGCUCGGUUUGUCUUGUCUUUUAUUUUCUCUGCAGCUCACUGCUCCGCUGCACAGGAAAAAAUAGCGAGA-AAUAAAUCGAAUAUAC
.........((((((((((((((..(((.((((((.((((((..........)))))).)))))))))..))))))-..))))))))...... ( -27.50)
>DroEre_CAF1 16527 92 - 1
CGGCUCGGUUUGUCUUGUCUUGUCUUUUAUUUUCUCUGCAGCUCACUGCUCCGCUGCACAGGAAAAAA-AGCCAGAUACUAAUUCAAGUAUAC
.(((.......))).(((((.(.(((((.((((((.((((((..........)))))).)))))))))-))).)))))............... ( -22.10)
>DroYak_CAF1 16763 93 - 1
CGGCUCGGUUUGUCUUGUCUUGUCUUUUAUUUUCUCUGCAGCUCACUGCUCCGCUGCACAGGAAAAAACAAAGAGAUACUAAAUCAAAUAUUA
......((((((...((((((....(((.((((((.((((((..........)))))).)))))))))....)))))).))))))........ ( -21.10)
>consensus
CGACUCGGCUCGGUUUGUCUUGUCUUUUAUUUUCUCUGCAGCUCACUGCUCCGCUGCACAGGAAAAAA_AGCGAGAUAAUAAAUCAAAUAUAC
.........((((((((((((((..(((.((((((.((((((..........)))))).)))))))))..))))))...))))))))...... (-19.34 = -20.62 +   1.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:52:52 2006