Locus 6627

Sequence ID	X_DroMel_CAF1
Location	16,517,761 – 16,517,927
Length	166
Max. P	0.999668

overview

Window 6

Location	16,517,761 – 16,517,851
Length	90
Sequences	5
Columns	90
Reading direction	reverse
Mean pairwise identity	97.11
Mean single sequence MFE	-18.24
Consensus MFE	-18.18
Energy contribution	-18.22
Covariance contribution	0.04
Combinations/Pair	1.05
Mean z-score	-2.19
Structure conservation index	1.00
SVM decision value	3.86
SVM RNA-class probability	0.999668
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16517761 90 - 22224390
GUUGCAAUGCCGAAGGGCGGGAAAGAAGAGGAGAUUCUAGUUAAUUUAAACAAAUUAAAACCAAAUUAAUUGUGACAUAUAUGAUUUAUU
((..(((((((....)))((...((((.......))))..(((((((....)))))))..))......))))..)).............. ( -19.50)
>DroSec_CAF1 5386 90 - 1
GUUGCAAUGCCGAAGGGCGGGAAAGAAGAGGAGAUUCUAGUUAAUUUAAACAAAUUAAAACCAAAUUAAUUGUGACAUAAAUGAUUUAUU
((..(((((((....)))((...((((.......))))..(((((((....)))))))..))......))))..)).............. ( -19.50)
>DroSim_CAF1 5417 90 - 1
GUUGCAAUGACGAAGGGCGGGAAAGAAGAGGAGAUUCUAGUUAAUUUAAACAAAUUAAAACCAAAUUAAUUGUGACAUAAAUGAUUUAUU
((..((((..(....)..((...((((.......))))..(((((((....)))))))..))......))))..)).............. ( -12.90)
>DroEre_CAF1 5374 90 - 1
GUUGCAAUGCCGAAGGGCGGGAAAGAAGAGAAGAUUCUAGUUAAUUUAAACAAAUUAAAACCAAAUUAAUUGUGACAUUAAUGAUUUAUU
((..(((((((....)))((...((((.......))))..(((((((....)))))))..))......))))..)).............. ( -19.50)
>DroYak_CAF1 5359 90 - 1
GUUGCAAUGCCGAAGGGCGGGAAAGAAGAGGCGAUUCUAGUUAAUUUAAACAAAUUAAAACCAAAUUAGUUGUGACAUUAAUGAUUUAUU
((..(((((((....)))((...((((.......))))..(((((((....)))))))..))......))))..)).............. ( -19.80)
>consensus
GUUGCAAUGCCGAAGGGCGGGAAAGAAGAGGAGAUUCUAGUUAAUUUAAACAAAUUAAAACCAAAUUAAUUGUGACAUAAAUGAUUUAUU
((..(((((((....)))((...((((.......))))..(((((((....)))))))..))......))))..)).............. (-18.18 = -18.22 +   0.04)

alignment

secondary structure

dotplot

Window 7

Location	16,517,822 – 16,517,927
Length	105
Sequences	5
Columns	105
Reading direction	reverse
Mean pairwise identity	92.29
Mean single sequence MFE	-33.88
Consensus MFE	-27.38
Energy contribution	-28.86
Covariance contribution	1.48
Combinations/Pair	1.06
Mean z-score	-1.61
Structure conservation index	0.81
SVM decision value	0.56
SVM RNA-class probability	0.782987
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16517822 105 - 22224390
UGACUGCCAGUCAACGAGUGCAACAGUUGCGCAUCACUGGCUGAUUUGCACACGGUUAUCGAUAAGUGCUUGAUUUGUUGCAAUGCCGAAGGGCGGGAAAGAAGA
...(((((..((...(((((((.....))))).))...(((....(((((.((((..(((((.......)))))))))))))).)))))..)))))......... ( -31.10)
>DroSec_CAF1 5447 105 - 1
UGACUGCCAGUCAGCGAGUGCAACAGUUGCGCAUCACUGGCAGAGGUGCACACGGUUAUCGAUAAGUGCUUGAUUUGUUGCAAUGCCGAAGGGCGGGAAAGAAGA
...(((((.(((((.(((((((.....))))).)).)))))...........((((...((((((((.....))))))))....))))...)))))......... ( -34.60)
>DroSim_CAF1 5478 105 - 1
UGACUGCCAGUCAGCGAGUGCAACAGUUGCGCAUCACUGGCAAAGGUGCACACGGUUAUCGAUAGGUGCUCGAUUUGUUGCAAUGACGAAGGGCGGGAAAGAAGA
...(((((.((((.....(((((((((((.(((((....(((....)))...((.....))...))))).))).)))))))).))))....)))))......... ( -35.30)
>DroEre_CAF1 5435 105 - 1
UGACUGCCAGUCACAGAGUGCAACCGAUGCGCAUCACUGACAGAGUUGCACACGGUUAUCGAUAAGUGUUUGAUUUGUUGCAAUGCCGAAGGGCGGGAAAGAAGA
...(((((..((.....(((((((...((((......)).))..)))))))..(((...((((((((.....))))))))....)))))..)))))......... ( -31.00)
>DroYak_CAF1 5420 105 - 1
UGACUGCCAGGUGCCAAGUGCAACAGUUGCGCAUCACUGGCAGAGUUGCACACAGUUAUCGAUAAGUGAUUGAUUUGUUGCAAUGCCGAAGGGCGGGAAAGAAGA
...((((((((((((((.((...)).))).))))..))))))).((((((.((((..((((((.....))))))))))))))))(((....)))........... ( -37.40)
>consensus
UGACUGCCAGUCACCGAGUGCAACAGUUGCGCAUCACUGGCAGAGUUGCACACGGUUAUCGAUAAGUGCUUGAUUUGUUGCAAUGCCGAAGGGCGGGAAAGAAGA
...((((((((....(((((((.....))))).)))))))))).((((((.((((..(((((.......)))))))))))))))(((....)))........... (-27.38 = -28.86 +   1.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:40 2006