Locus 630

Sequence ID	2R_DroMel_CAF1
Location	3,171,722 – 3,171,882
Length	160
Max. P	0.984631

overview

Window 5

Location	3,171,722 – 3,171,842
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.42
Mean single sequence MFE	-34.04
Consensus MFE	-28.38
Energy contribution	-28.26
Covariance contribution	-0.12
Combinations/Pair	1.13
Mean z-score	-2.13
Structure conservation index	0.83
SVM decision value	1.98
SVM RNA-class probability	0.984631
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3171722 120 - 20766785
UCUUCCUCUACUGGGUGCUGUUGGAGUACUGCUUUGCUGGCUAUUUCAUUUACCAACUCAUCCUGCUCAGCUGGUACCACACCAUUAUUCUGUUCCUGCAGCGCUUCAUCGAGGACCAUG
...(((((....(((((((((.((((.........((((((.......................)).))))((((.....))))........)))).)))))))))....)))))..... ( -33.70)
>DroSec_CAF1 61289 120 - 1
UCUUUCUCUACUGGGUGCUGUUGGAGUACUGCUUUGCUGGCUACUUCGUUUACCAACUGAUCCUGCUCAGCUGGUACCACACCAUUAUUCUGUUCCUGCAGCGCUUCAUCGAGGACCAUG
...(((((....(((((((((.((((....(((.....)))......((.(((((.((((......)))).)))))..))............)))).)))))))))....)))))..... ( -33.70)
>DroSim_CAF1 63127 120 - 1
UCUUCCUCUACUGGGUGCUGUUGGAGUACUGCUUUGCUGGCUACUUCGUUUACCAACUGAUCCUGCUCAGCUGGUACCACACAAUUAUUCUGUUCCUGCAGCGCUUCAUCGAGGACCAUG
...(((((....(((((((((.((((....(((.....)))......((.(((((.((((......)))).)))))..))............)))).)))))))))....)))))..... ( -36.60)
>DroEre_CAF1 60237 120 - 1
UCUUUCUCUACUGGGUGCUGAUGGAGUACUGCUUUGCUGCCUACUUCGUUUACCAACUUAUCCUGCUCAGCUGGUACCACACCAUUAUUUUGUUCCUGCAGCGCCUUAUCGAGGACCAUG
...(((((....((((((((((((((((..((......)).)))))))).(((((.((..........)).)))))......................))))))))....)))))..... ( -30.70)
>DroYak_CAF1 60992 120 - 1
UCUUUCUUUACUGGCUGCUGUUGGAGUACUGCUUUGCAGGGUACUUCGUUUACCAACUGAUCCUGCUCAGCUGGUACCACACCAUUAUCCUGUUCCUCCAGCACUUUAUCGCGGACCAUG
...........(((((((...((((((.(((....((((((((....((.(((((.((((......)))).)))))..)).....)))))))).....))).))))))..)))).))).. ( -35.50)
>consensus
UCUUUCUCUACUGGGUGCUGUUGGAGUACUGCUUUGCUGGCUACUUCGUUUACCAACUGAUCCUGCUCAGCUGGUACCACACCAUUAUUCUGUUCCUGCAGCGCUUCAUCGAGGACCAUG
...(((((....((((((((..(((((((((((..((.((.....................)).))..))).))))).(((.........))))))..))))))))....)))))..... (-28.38 = -28.26 +  -0.12)

alignment

secondary structure

dotplot

Window 6

Location	3,171,762 – 3,171,882
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.00
Mean single sequence MFE	-32.83
Consensus MFE	-30.00
Energy contribution	-30.00
Covariance contribution	0.00
Combinations/Pair	1.07
Mean z-score	-1.22
Structure conservation index	0.91
SVM decision value	0.44
SVM RNA-class probability	0.735884
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3171762 120 + 20766785
GUGGUACCAGCUGAGCAGGAUGAGUUGGUAAAUGAAAUAGCCAGCAAAGCAGUACUCCAACAGCACCCAGUAGAGGAAGAUGGACGAGAGGAAGUAGGGCUUGUACCACAAGGAAUCCAG
(((((((.((((..((.......((((((..........)))))).........(((...((....((......))....))...))).....))..)))).)))))))........... ( -30.90)
>DroSec_CAF1 61329 120 + 1
GUGGUACCAGCUGAGCAGGAUCAGUUGGUAAACGAAGUAGCCAGCAAAGCAGUACUCCAACAGCACCCAGUAGAGAAAGAUGGAGGAGAGGAAGUAGGGCUUGUACCACAAGGAAUCCAG
((((((((((((((......)))))))))..............((((.((..((((((.....(..(((...........)))..)...)).))))..)))))))))))........... ( -34.30)
>DroSim_CAF1 63167 120 + 1
GUGGUACCAGCUGAGCAGGAUCAGUUGGUAAACGAAGUAGCCAGCAAAGCAGUACUCCAACAGCACCCAGUAGAGGAAGAUGGAGGAGAGGAAGUAGGGCUUGUACCACAAGGAAUCCAG
(((((((.((((..((.......((((((..........)))))).........((((..((....((......))....))..)))).....))..)))).)))))))........... ( -35.40)
>DroEre_CAF1 60277 120 + 1
GUGGUACCAGCUGAGCAGGAUAAGUUGGUAAACGAAGUAGGCAGCAAAGCAGUACUCCAUCAGCACCCAGUAGAGAAAGAUGGACGAGAGGAAGUGGGGCUUGUGCCAUAAGGAAUCCAG
.(((((((((((..........)))))))).........((((...((((..(((((((((.................))))))(....)...)))..)))).)))).........))). ( -31.53)
>DroYak_CAF1 61032 120 + 1
GUGGUACCAGCUGAGCAGGAUCAGUUGGUAAACGAAGUACCCUGCAAAGCAGUACUCCAACAGCAGCCAGUAAAGAAAGAUGGACGAGAGGAAGUAGGGCUUGUUCCAUAAGGAUUCCAG
((((((((((((((......))))))))))(((((....((((((...((.((......)).)).((((...........))).)........)))))).)))))))))........... ( -32.00)
>consensus
GUGGUACCAGCUGAGCAGGAUCAGUUGGUAAACGAAGUAGCCAGCAAAGCAGUACUCCAACAGCACCCAGUAGAGAAAGAUGGACGAGAGGAAGUAGGGCUUGUACCACAAGGAAUCCAG
((((((((((((((......)))))))))).............((((.((..((((((.....(..(((...........)))..)...)).))))..)))))).))))........... (-30.00 = -30.00 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:12 2006