Locus 4646

Sequence ID	3L_DroMel_CAF1
Location	13,184,901 – 13,185,011
Length	110
Max. P	0.921545

overview

Window 0

Location	13,184,901 – 13,185,011
Length	110
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	93.55
Mean single sequence MFE	-26.28
Consensus MFE	-22.50
Energy contribution	-22.50
Covariance contribution	0.00
Combinations/Pair	1.13
Mean z-score	-1.56
Structure conservation index	0.86
SVM decision value	0.97
SVM RNA-class probability	0.893118
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13184901 110 + 23771897
AUGAGCUAUUAACAGUUAAUUGAGAACAUUUAUGGCCAGCUAAAAGCCUCUAUAAACUCAGUGACAAUAGGGGAUUUGUGAGAUGGCCAUUAAUGAGCCCUCCAAAACUU
.............((((....(((..((((.(((((((.((.(((.(((((((.............))))))).)))...)).))))))).))))....)))...)))). ( -25.72)
>DroSec_CAF1 36447 110 + 1
AUGAGCUAUUAACAGUUAAUUGAGAACAUUUAUGGCCAGCUAAAAGCCUCUAUAAACUGAGUGACAAUAGGGGAUUUGUGAGAUAGCCAUUAAUGAGAGUUCCAAAAAUU
..(((((.....(((....)))....((((.(((((...((.(((.(((((((.............))))))).)))...))...))))).))))..)))))........ ( -22.32)
>DroSim_CAF1 34689 110 + 1
AUGAGCUAUUAACAGUUAAUUGAGAACAUUUAUGGCCAGCUAAAAGCCUCUAUAAACUGAGUGACAAUAGGGGAUUUGUGAGAUGGCCAUUAAUGAGCGUUCCAAAACUU
....(((.....(((....)))....((((.(((((((.((.(((.(((((((.............))))))).)))...)).))))))).)))))))............ ( -26.52)
>DroEre_CAF1 39928 110 + 1
AUGAGCUAUUAACACUUAAUUGAGUGCAUUUAUGGCCAGCUAAAAGCCACUGUAAACUGAGUGACAAUAGGGGAUUUGUGAGAUGGCCAUUAAUGAGCCCUCCAAAAGUU
....(((.....(((((....)))))((((.(((((((.((......((((........))))((((........)))).)).))))))).)))))))............ ( -26.10)
>DroYak_CAF1 35630 110 + 1
ACGAGCUAUUAACAGUUAAUUGAGUACAUUUAUGGCCAGCUAAAAGCCACUAUAAACUGAGUGACAAUAGGGGACUUGUGAGCUGGCCAUUAAUGAGCCCUCCUAAACUU
..(.(((.....(((....)))....((((.((((((((((..(((((.((((.............)))).)).)))...)))))))))).))))))).).......... ( -30.72)
>consensus
AUGAGCUAUUAACAGUUAAUUGAGAACAUUUAUGGCCAGCUAAAAGCCUCUAUAAACUGAGUGACAAUAGGGGAUUUGUGAGAUGGCCAUUAAUGAGCCCUCCAAAACUU
.............((((....(((..((((.(((((((.((..((((((((((.............))))))).)))...)).))))))).))))....)))...)))). (-22.50 = -22.50 +   0.00)

alignment

secondary structure

dotplot

Window 1

Location	13,184,901 – 13,185,011
Length	110
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	93.55
Mean single sequence MFE	-24.81
Consensus MFE	-20.70
Energy contribution	-20.94
Covariance contribution	0.24
Combinations/Pair	1.10
Mean z-score	-1.74
Structure conservation index	0.83
SVM decision value	1.14
SVM RNA-class probability	0.921545
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13184901 110 - 23771897
AAGUUUUGGAGGGCUCAUUAAUGGCCAUCUCACAAAUCCCCUAUUGUCACUGAGUUUAUAGAGGCUUUUAGCUGGCCAUAAAUGUUCUCAAUUAACUGUUAAUAGCUCAU
.((((...((((((..(((.(((((((.((...(((..((((((...(.....)...)))).))..))))).))))))).)))))))))....))))............. ( -25.10)
>DroSec_CAF1 36447 110 - 1
AAUUUUUGGAACUCUCAUUAAUGGCUAUCUCACAAAUCCCCUAUUGUCACUCAGUUUAUAGAGGCUUUUAGCUGGCCAUAAAUGUUCUCAAUUAACUGUUAAUAGCUCAU
.....(((((((....(((.(((((((.((...(((..((((((...(.....)...)))).))..))))).))))))).))))))).)))................... ( -17.20)
>DroSim_CAF1 34689 110 - 1
AAGUUUUGGAACGCUCAUUAAUGGCCAUCUCACAAAUCCCCUAUUGUCACUCAGUUUAUAGAGGCUUUUAGCUGGCCAUAAAUGUUCUCAAUUAACUGUUAAUAGCUCAU
.(((((((((((....(((.(((((((.((...(((..((((((...(.....)...)))).))..))))).))))))).))))))).)))..))))............. ( -21.10)
>DroEre_CAF1 39928 110 - 1
AACUUUUGGAGGGCUCAUUAAUGGCCAUCUCACAAAUCCCCUAUUGUCACUCAGUUUACAGUGGCUUUUAGCUGGCCAUAAAUGCACUCAAUUAAGUGUUAAUAGCUCAU
..........(((((.(((((((((((.............(((..((((((........))))))...))).)))))))....(((((......)))))))))))))).. ( -27.14)
>DroYak_CAF1 35630 110 - 1
AAGUUUAGGAGGGCUCAUUAAUGGCCAGCUCACAAGUCCCCUAUUGUCACUCAGUUUAUAGUGGCUUUUAGCUGGCCAUAAAUGUACUCAAUUAACUGUUAAUAGCUCGU
.((((...(((....((((.((((((((((...(((.((.((((...(.....)...)))).)))))..)))))))))).))))..)))....))))............. ( -33.50)
>consensus
AAGUUUUGGAGGGCUCAUUAAUGGCCAUCUCACAAAUCCCCUAUUGUCACUCAGUUUAUAGAGGCUUUUAGCUGGCCAUAAAUGUUCUCAAUUAACUGUUAAUAGCUCAU
.((((...(((....((((.(((((((.((...(((..((((((...(.....)...)))).))..))))).))))))).))))..)))....))))............. (-20.70 = -20.94 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:28 2006