Locus 5193

Sequence ID	2L_DroMel_CAF1
Location	14,693,670 – 14,693,802
Length	132
Max. P	0.947921

overview

Window 4

Location	14,693,670 – 14,693,762
Length	92
Sequences	6
Columns	94
Reading direction	reverse
Mean pairwise identity	84.53
Mean single sequence MFE	-26.00
Consensus MFE	-21.78
Energy contribution	-21.12
Covariance contribution	-0.66
Combinations/Pair	1.29
Mean z-score	-1.59
Structure conservation index	0.84
SVM decision value	0.17
SVM RNA-class probability	0.614787
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14693670 92 - 22407834
AAGACUGUCAGACGUCGAUUUGCGGCAUUUUUCGU-UGGCUUUUCU-UCGUUUUGUUGCUGCCGAAUGAAAAUUGUUCGCAGGUGGUUUCCGUU
..........((((.(.((((((((((.(((((((-((((....(.-.......).....))).)))))))).)).)))))))).)....)))) ( -24.30)
>DroSim_CAF1 50083 92 - 1
AAGACUGUCAGACGUCGAUUUGCGGCAUUUUUCGU-UGGCUUUUCU-UCGUUUUGUUGCUGCCGAAUGAAAAUUGUUCGCAGGUGGUUUCCGUU
..........((((.(.((((((((((.(((((((-((((....(.-.......).....))).)))))))).)).)))))))).)....)))) ( -24.30)
>DroEre_CAF1 49490 92 - 1
AAGACUGUCAGACGUCGAUUUGCGGCAUUUUUCGUUUGGCUUUUCU-UCGUU-UGCUGCUGCCGAAUGAAAAUUGUUCGCAGGUGGUUUCCGUU
..........((((.(.((((((((((.((((((((((((......-.....-.......)))))))))))).)).)))))))).)....)))) ( -28.67)
>DroYak_CAF1 48145 92 - 1
AAGACUGUCAGACGUCGAUUUGCGGCAUUUUUCGU-UGGCUUUUCU-UCGUUUUGUUGCUGCCGAAUGAAAAUUGUUCGCAGGUGGUUUCCGUU
..........((((.(.((((((((((.(((((((-((((....(.-.......).....))).)))))))).)).)))))))).)....)))) ( -24.30)
>DroMoj_CAF1 56841 85 - 1
UAGACUGUCAGCCGUCGAUUUGCGGCGUUUUUCAC-GAGUUUUUUUUUCGAGU--------CUUAUGGGAAAUUGUUCGCAGGUGGCUGCCGUC
..(((.(.(((((....(((((((((((((..((.-.((.(((......))).--------))..))..))).)).)))))))))))))).))) ( -25.70)
>DroAna_CAF1 47215 92 - 1
AAGCCCGACAGUCUGCGAUUUGCGGCAUUUUUCGU-UGGCUUUUCU-UGUAUCUGAAGCUGCUGAAUGAAAAUUGCUCGCAGGUGGUUUCCGUU
......(((.(...((.((((((((((.(((((((-((((.((((.-.......))))..))).)))))))).))).))))))).))..).))) ( -28.70)
>consensus
AAGACUGUCAGACGUCGAUUUGCGGCAUUUUUCGU_UGGCUUUUCU_UCGUUUUGUUGCUGCCGAAUGAAAAUUGUUCGCAGGUGGUUUCCGUU
..(((........))).((((((((((.(((((((.((((....................)))).))))))).))).))))))).......... (-21.78 = -21.12 +  -0.66)

alignment

secondary structure

dotplot

Window 5

Location	14,693,687 – 14,693,802
Length	115
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	76.74
Mean single sequence MFE	-34.93
Consensus MFE	-23.96
Energy contribution	-23.02
Covariance contribution	-0.94
Combinations/Pair	1.32
Mean z-score	-1.84
Structure conservation index	0.69
SVM decision value	1.38
SVM RNA-class probability	0.947921
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14693687 115 - 22407834
AGUCCGCGAAUCGCUGCCAAAUUGGUACCAGUACCAGCCAAAGACUGUCAGACGUCGAUUUGCGGCAUUUUUCGU-UGGCUUUUCU-UCGUU---UUGUUGCUGCCGAAUGAAAAUUGUU
...(((((((((((((....((((....))))..))))....(((........))))))))))))((.(((((((-((((....(.-.....---..).....))).)))))))).)).. ( -33.20)
>DroPse_CAF1 63341 111 - 1
AGUCCGCGAAUCGCCGCCAAAUUGGUACCAGA---CGCCGAAGACUGUCAGACGUCGAUUUGCGGCAUUUUUCCU-UGGCUUUU---UCGUUGCCUGUUUUUUGCCU--GGAAAAUUGUU
...(((((((((...(((.....)))....((---(((.((......)).).)))))))))))))((.((((((.-.(((....---................))).--)))))).)).. ( -32.35)
>DroEre_CAF1 49507 115 - 1
AGUCCGCGAAUCGCUGCCAAAUUGGUACCAGUACCAGCCAAAGACUGUCAGACGUCGAUUUGCGGCAUUUUUCGUUUGGCUUUUCU-UCGUU----UGCUGCUGCCGAAUGAAAAUUGUU
...(((((((((((((....((((....))))..))))....(((........))))))))))))((.((((((((((((......-.....----.......)))))))))))).)).. ( -37.57)
>DroMoj_CAF1 56858 102 - 1
AGCGCGCGAAUCGACGGCAAAUUGGUAC------CAGCCAUAGACUGUCAGCCGUCGAUUUGCGGCGUUUUUCAC-GAGUUUUUUUUUCGAG---U--------CUUAUGGGAAAUUGUU
.((.((((((((((((((....((((..------..))))..(.....).))))))))))))))))((((..((.-.((.(((......)))---.--------))..))..)))).... ( -39.20)
>DroAna_CAF1 47232 109 - 1
AGUCCGCGAAUCGCCGCCAAAUUGGUAC------CAGGCGAAGCCCGACAGUCUGCGAUUUGCGGCAUUUUUCGU-UGGCUUUUCU-UGUAU---CUGAAGCUGCUGAAUGAAAAUUGCU
....((((((((((.(((.....)))..------.((((...........))))))))))))))(((.(((((((-((((.((((.-.....---..))))..))).)))))))).))). ( -36.40)
>DroPer_CAF1 71335 111 - 1
AGUCCGCGAAUCGCCGCCAAAUUGGUACCAGA---CGCCGAAGACUGUCAGACGUCGAUUUGCGGCAUUUUUUCU-UGGCUUUU---UCGUUGCCUGUUUUUUGCCU--GGAAAAUUGUU
.(.(((((((((...(((.....)))....((---(((.((......)).).))))))))))))))...((((((-.(((....---................))).--))))))..... ( -30.85)
>consensus
AGUCCGCGAAUCGCCGCCAAAUUGGUACCAG___CAGCCAAAGACUGUCAGACGUCGAUUUGCGGCAUUUUUCGU_UGGCUUUUCU_UCGUU___UUGUUGCUGCCGAAGGAAAAUUGUU
....((((((((.........(((((..........))))).(((........)))))))))))(((.((((((...(((.......................)))...)))))).))). (-23.96 = -23.02 +  -0.94)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:16 2006