Locus 569

Sequence ID	3L_DroMel_CAF1
Location	1,637,312 – 1,637,407
Length	95
Max. P	0.914129

overview

Window 8

Location	1,637,312 – 1,637,407
Length	95
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	79.66
Mean single sequence MFE	-34.22
Consensus MFE	-24.32
Energy contribution	-25.35
Covariance contribution	1.03
Combinations/Pair	1.12
Mean z-score	-2.03
Structure conservation index	0.71
SVM decision value	1.09
SVM RNA-class probability	0.914129
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1637312 95 + 23771897
CUCCUUCAUCUGGGUGGUGUACAUCGCCCAGAAGCGUCGCCGCUUCCAGGACAAGCUGGCCGCCAAAGAGGCAGCCAAAUAGGCUAUAC------GACCCU-------
........((((((((((....))))))))))..(((.(((((((.......))))((((.(((.....))).))))....)))...))------).....------- ( -36.20)
>DroSim_CAF1 8233 95 + 1
CUCCUUCAUCUGGGUGGUAUACAUCGCCCAAAGGCGUCGCCGCUUCCAGGAAAAGCUGGCCGCCAAAGAGGCAGCCAAAUAGGCUAUCU------GACCCU-------
..........((((((((....)))))))).(((.((((((((((.......))))((((.(((.....))).))))....))).....------))))))------- ( -33.50)
>DroEre_CAF1 8243 95 + 1
CUCCUUCAUCUGGGUGGUGUACAUCGCCCAGAGGCGUCGCCGCUUCCAGGAAAAGCAGGCAGCCAAAGAGGCCGCCAAAUAGGCUAUCC------GACCCU-------
........((((((((((....))))))))))((.((((((((((.......)))).(((.(((.....))).))).....))).....------))))).------- ( -38.50)
>DroYak_CAF1 8209 95 + 1
CUCCUUCAUCUGGGUGGUGUACAUCGCCCAGAAGCGUCGCCGAUUCCAGGAGAAGCAGGCUGCCAAAAAGGCCGCCAAAUAGGCCAUCC------GACCCU-------
........((((((((((....))))))))))((.((((((..(((.....)))...))).........((((........))))....------))).))------- ( -34.20)
>DroAna_CAF1 8957 102 + 1
UUCCUUCAUCUGGGUGGUCUACAUCGCCCAGAAGCGCCGCCGCUUCCAGGAGAAACUGGCCGCCGAAAAGGCCACCAAAUAAGCAUUCC------GUCCCCAUCCGGA
........(((((((((...((.((.((..((((((....))))))..)).))...(((((........)))))...............------))..))))))))) ( -34.30)
>DroPer_CAF1 8704 98 + 1
UUCCUUCAUUUGGGUAGUUUACAUUGCCAAGAAGCGUCGUCGCUUCGCGAAUAAGCAGGCUGCUGACAAGUC---GAAAUAAACAUUCCAGUGGGGACCCC-------
.((((.((((.(((..(((((....(((..((((((....))))))((......)).))).(((....))).---....)))))..)))))))))))....------- ( -28.60)
>consensus
CUCCUUCAUCUGGGUGGUGUACAUCGCCCAGAAGCGUCGCCGCUUCCAGGAAAAGCAGGCCGCCAAAAAGGCCGCCAAAUAGGCUAUCC______GACCCU_______
.((((.....((((((((....))))))))((((((....)))))).))))......(((.(((.....))).)))................................ (-24.32 = -25.35 +   1.03)

alignment

secondary structure

dotplot

Window 9

Location	1,637,312 – 1,637,407
Length	95
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	79.66
Mean single sequence MFE	-38.08
Consensus MFE	-26.51
Energy contribution	-27.60
Covariance contribution	1.09
Combinations/Pair	1.25
Mean z-score	-1.75
Structure conservation index	0.70
SVM decision value	0.78
SVM RNA-class probability	0.848874
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1637312 95 - 23771897
-------AGGGUC------GUAUAGCCUAUUUGGCUGCCUCUUUGGCGGCCAGCUUGUCCUGGAAGCGGCGACGCUUCUGGGCGAUGUACACCACCCAGAUGAAGGAG
-------.((((.------(((((......(((((((((.....))))))))).(((.((..((((((....))))))..))))))))))...))))........... ( -44.90)
>DroSim_CAF1 8233 95 - 1
-------AGGGUC------AGAUAGCCUAUUUGGCUGCCUCUUUGGCGGCCAGCUUUUCCUGGAAGCGGCGACGCCUUUGGGCGAUGUAUACCACCCAGAUGAAGGAG
-------.((((.------..((((((....((((((((.....))))))))(((((.....))))))))..((((....))))...)))...))))........... ( -39.60)
>DroEre_CAF1 8243 95 - 1
-------AGGGUC------GGAUAGCCUAUUUGGCGGCCUCUUUGGCUGCCUGCUUUUCCUGGAAGCGGCGACGCCUCUGGGCGAUGUACACCACCCAGAUGAAGGAG
-------.((((.------((...(((.....(((((((.....))))))).(((((.....))))))))..((((....)))).......))))))........... ( -40.60)
>DroYak_CAF1 8209 95 - 1
-------AGGGUC------GGAUGGCCUAUUUGGCGGCCUUUUUGGCAGCCUGCUUCUCCUGGAAUCGGCGACGCUUCUGGGCGAUGUACACCACCCAGAUGAAGGAG
-------.((((.------((.((........(((.(((.....))).)))(((.((.((..(((.((....)).)))..)).)).)))))))))))........... ( -35.90)
>DroAna_CAF1 8957 102 - 1
UCCGGAUGGGGAC------GGAAUGCUUAUUUGGUGGCCUUUUCGGCGGCCAGUUUCUCCUGGAAGCGGCGGCGCUUCUGGGCGAUGUAGACCACCCAGAUGAAGGAA
(((...((((...------((..(((....(((((.(((.....))).)))))..((.((..((((((....))))))..)).)).)))..)).))))......))). ( -42.70)
>DroPer_CAF1 8704 98 - 1
-------GGGGUCCCCACUGGAAUGUUUAUUUC---GACUUGUCAGCAGCCUGCUUAUUCGCGAAGCGACGACGCUUCUUGGCAAUGUAAACUACCCAAAUGAAGGAA
-------(((.(((.....)))..((((((...---((....))....(((.((......))((((((....))))))..)))...))))))..)))........... ( -24.80)
>consensus
_______AGGGUC______GGAUAGCCUAUUUGGCGGCCUCUUUGGCGGCCAGCUUCUCCUGGAAGCGGCGACGCUUCUGGGCGAUGUACACCACCCAGAUGAAGGAG
........((((....................(((.(((.....))).))).((.((.((((((((((....)))))))))).)).)).....))))........... (-26.51 = -27.60 +   1.09)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:32 2006