Locus 605

Sequence ID	3R_DroMel_CAF1
Location	2,251,778 – 2,251,894
Length	116
Max. P	0.906888

overview

Window 9

Location	2,251,778 – 2,251,894
Length	116
Sequences	5
Columns	116
Reading direction	forward
Mean pairwise identity	93.33
Mean single sequence MFE	-28.93
Consensus MFE	-24.77
Energy contribution	-24.81
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-1.59
Structure conservation index	0.86
SVM decision value	1.05
SVM RNA-class probability	0.906888
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2251778 116 + 27905053
CAUAAAGAGAGAUACCUUCGAUUCGUGUUACACCUGGCUAUCUGUGUUAUUGUUCUGACCACAAUUGUGGUCUCUUCUCAAGCAGCUGCAGAUAUUUUUGUGCUGCUGUUGUCGUU
......((((((((((...................)).))))..............((((((....))))))...)))).((((((.(((((....)))))))))))......... ( -30.21)
>DroSec_CAF1 42975 113 + 1
CAUAAAGACAGAUACCUUCGAUUCAUGUUACACCUGGCUAUCUGUGUUAUUGUUCUGACCACAAUUGUAGUCU---CUCAAGCAGCUGCAGAUAUUUUUGUGCUGCUGUUGUCGUU
....((.(((((((((...................)).))))))).))........(((.(((.(((......---..)))(((((.(((((....))))))))))))).)))... ( -26.31)
>DroSim_CAF1 41054 113 + 1
CAUAAAGACAGAUACCUUCGAUUCAUGUUACACCUGGCUAUCUGUGUUAUUGUUCUGACCACAAUUGUAGUCU---CUCAAGCAGCUGCAGAUAUUUUUGUGCUGCUGUUGUCGUU
....((.(((((((((...................)).))))))).))........(((.(((.(((......---..)))(((((.(((((....))))))))))))).)))... ( -26.31)
>DroEre_CAF1 40701 111 + 1
CAUAAAGACAGAUACCUUGGGAUCUUGUUACACCUGGCUAUCUGUGUUAUUGUUCUGACCACAAUUGAAGUC-----UCAAGCAGCUGCAGAUAUUUUUGUGCUGCUGUUGUCGUU
....((.(((((((((..((............)).)).))))))).))........(((.(((.((((....-----))))(((((.(((((....))))))))))))).)))... ( -30.70)
>DroYak_CAF1 37453 111 + 1
CACAAAGACAGAUACCUUGGGAUCAUGUUACACCUGGCUAUCUGUGUUAUUAUUCCGACCACAAUUGUUGUC-----UCAAGCAGCUGCAGAUAUUUUUGUGCUGCUGUUGUCGUU
....((.(((((((((..((............)).)).))))))).)).......((((.(((.(((.....-----.)))(((((.(((((....))))))))))))).)))).. ( -31.10)
>consensus
CAUAAAGACAGAUACCUUCGAUUCAUGUUACACCUGGCUAUCUGUGUUAUUGUUCUGACCACAAUUGUAGUCU___CUCAAGCAGCUGCAGAUAUUUUUGUGCUGCUGUUGUCGUU
....((.(((((((((...................)).))))))).)).......((((.(((.(((...........)))(((((.(((((....))))))))))))).)))).. (-24.77 = -24.81 +   0.04)

alignment

secondary structure

dotplot

Window 0

Location	2,251,778 – 2,251,894
Length	116
Sequences	5
Columns	116
Reading direction	reverse
Mean pairwise identity	93.33
Mean single sequence MFE	-25.20
Consensus MFE	-22.94
Energy contribution	-23.42
Covariance contribution	0.48
Combinations/Pair	1.09
Mean z-score	-1.19
Structure conservation index	0.91
SVM decision value	0.31
SVM RNA-class probability	0.682320
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2251778 116 - 27905053
AACGACAACAGCAGCACAAAAAUAUCUGCAGCUGCUUGAGAAGAGACCACAAUUGUGGUCAGAACAAUAACACAGAUAGCCAGGUGUAACACGAAUCGAAGGUAUCUCUCUUUAUG
.....(((((((.(((..........))).)))).))).(((((((((((....)))))).............(((((.((.(((.........)))...))))))).)))))... ( -26.80)
>DroSec_CAF1 42975 113 - 1
AACGACAACAGCAGCACAAAAAUAUCUGCAGCUGCUUGAG---AGACUACAAUUGUGGUCAGAACAAUAACACAGAUAGCCAGGUGUAACAUGAAUCGAAGGUAUCUGUCUUUAUG
.....(((((((.(((..........))).)))).)))..---.((((((....))))))......((((.(((((((.((.(((.........)))...)))))))))..)))). ( -26.00)
>DroSim_CAF1 41054 113 - 1
AACGACAACAGCAGCACAAAAAUAUCUGCAGCUGCUUGAG---AGACUACAAUUGUGGUCAGAACAAUAACACAGAUAGCCAGGUGUAACAUGAAUCGAAGGUAUCUGUCUUUAUG
.....(((((((.(((..........))).)))).)))..---.((((((....))))))......((((.(((((((.((.(((.........)))...)))))))))..)))). ( -26.00)
>DroEre_CAF1 40701 111 - 1
AACGACAACAGCAGCACAAAAAUAUCUGCAGCUGCUUGA-----GACUUCAAUUGUGGUCAGAACAAUAACACAGAUAGCCAGGUGUAACAAGAUCCCAAGGUAUCUGUCUUUAUG
...(((.((((((((.((........))..)))))(((.-----.....))).))).)))......((((.(((((((.(..((..(......)..))..).)))))))..)))). ( -23.00)
>DroYak_CAF1 37453 111 - 1
AACGACAACAGCAGCACAAAAAUAUCUGCAGCUGCUUGA-----GACAACAAUUGUGGUCGGAAUAAUAACACAGAUAGCCAGGUGUAACAUGAUCCCAAGGUAUCUGUCUUUGUG
..((((.((((((((.((........))..)))))(((.-----.....))).))).)))).....((((.(((((((.(..((..(......)..))..).)))))))..)))). ( -24.20)
>consensus
AACGACAACAGCAGCACAAAAAUAUCUGCAGCUGCUUGAG___AGACUACAAUUGUGGUCAGAACAAUAACACAGAUAGCCAGGUGUAACAUGAAUCGAAGGUAUCUGUCUUUAUG
.....(((((((.(((..........))).)))).)))......((((((....))))))......((((.(((((((.((.(((.........)))...)))))))))..)))). (-22.94 = -23.42 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:12 2006