Locus 6125

Sequence ID	X_DroMel_CAF1
Location	15,688,314 – 15,688,474
Length	160
Max. P	0.979355

overview

Window 1

Location	15,688,314 – 15,688,434
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	90.50
Mean single sequence MFE	-36.60
Consensus MFE	-30.04
Energy contribution	-30.76
Covariance contribution	0.72
Combinations/Pair	1.21
Mean z-score	-1.44
Structure conservation index	0.82
SVM decision value	0.28
SVM RNA-class probability	0.665654
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15688314 120 - 22224390
GACCAAUUUGUUGGGCGCAAUGGGAUAACAGCCGCAGAAAGCGGCCUCCAGCAUUGCUACUCCAAAAAACUCAUGGUCGGCAGUUGAUAUCACAAUGUCCCCAGUCAGCAGGGUCUUCAA
((((...((((((((.(((.((.((((...(((((.....)))))...((((..((((...(((.........)))..)))))))).)))).)).))).))))).)))...))))..... ( -39.80)
>DroSec_CAF1 4087 120 - 1
GACCAAUUUGUUGGGCGCAAUGGGAUAACAGCCGCAGAAAGUGGCCUCCAGCAUUGCUACUCCAAAAAACUCAUGGUCGGCAGUUGAUAUCACAAUGUCCCCGGUGAGCAGGGUCUUCAA
((((..((..(((((.(((.((.((((...(((((.....)))))...((((..((((...(((.........)))..)))))))).)))).)).))).)))))..))...))))..... ( -38.50)
>DroSim_CAF1 4186 120 - 1
GACCAAUUUGUUGGGCGCAAUGGGAUAAUUGCCGCAGAAAGUGGCCUCCAGCAUUGCUACUCCAAAAAACUCAUGGUCGGCAGUUGAUAUCACAAUGUCCCCGGUGAGCAGGGUCUUCAA
((((..((..(((((.(((.((.((((...(((((.....)))))...((((..((((...(((.........)))..)))))))).)))).)).))).)))))..))...))))..... ( -38.30)
>DroEre_CAF1 5365 120 - 1
AACCAAUUUAUUGGGCGCAAUUGGAUAGCAGCCACAGAAUGUGGCCUCCAGCAUGGCUACUCCAAAGAACUCAUGGUCGGCAGUUGAAAUCACGAUGUCACCGGUAAGAAGUGUCUUCAA
............((((((..(((((((((.(((((.....)))))(........))))).)))))....((..((((.((((..((....))...))))))))...))..)))))).... ( -32.20)
>DroYak_CAF1 3875 120 - 1
AACCAAUUUAUUGGGCGCAAUGGGGUAACAGCCACAAUAAGUGGCCUCCAGCAUGGCUACUCCAAAGAAUUCAUGGUCGGCCGUUGAAAUCACAAUGUCACCGGUGAGAAGAGUCUUCAA
.......(((((((..(((.(((((((...(((((.....)))))..((.....)).)))))))..((.(((((((....))).)))).))....)))..)))))))((((...)))).. ( -34.20)
>consensus
GACCAAUUUGUUGGGCGCAAUGGGAUAACAGCCGCAGAAAGUGGCCUCCAGCAUUGCUACUCCAAAAAACUCAUGGUCGGCAGUUGAUAUCACAAUGUCCCCGGUGAGCAGGGUCUUCAA
((((..(((((((((.(((.((.((((...(((((.....)))))...((((..((((...(((.........)))..)))))))).)))).)).))).)))))))))...))))..... (-30.04 = -30.76 +   0.72)

alignment

secondary structure

dotplot

Window 2

Location	15,688,354 – 15,688,474
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.17
Mean single sequence MFE	-33.48
Consensus MFE	-28.18
Energy contribution	-29.42
Covariance contribution	1.24
Combinations/Pair	1.09
Mean z-score	-1.99
Structure conservation index	0.84
SVM decision value	1.84
SVM RNA-class probability	0.979355
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15688354 120 + 22224390
CCGACCAUGAGUUUUUUGGAGUAGCAAUGCUGGAGGCCGCUUUCUGCGGCUGUUAUCCCAUUGCGCCCAACAAAUUGGUCUACCCGGAAAUCUACCCAAAGGAAAACCUCUACAACACCU
(((((((...((((.((((.((.((((((..(((((((((.....))))))....))))))))))))))).))))))))).....((........))...)).................. ( -36.50)
>DroSec_CAF1 4127 120 + 1
CCGACCAUGAGUUUUUUGGAGUAGCAAUGCUGGAGGCCACUUUCUGCGGCUGUUAUCCCAUUGCGCCCAACAAAUUGGUCUACCCGGAAAUCUACCCAAAGGAAAACCUCUACAACACCU
(((((((...((((.((((.((.((((((..(((((((.(.....).))))....))))))))))))))).))))))))).....((........))...)).................. ( -31.10)
>DroSim_CAF1 4226 120 + 1
CCGACCAUGAGUUUUUUGGAGUAGCAAUGCUGGAGGCCACUUUCUGCGGCAAUUAUCCCAUUGCGCCCAACAAAUUGGUCUACCCGGAAAUCUACCCAAAGGAAAACCUCUACAACACCU
(((((((...((((.((((.((.((((((..(((.(((.(.....).))).....))))))))))))))).))))))))).....((........))...)).................. ( -31.10)
>DroEre_CAF1 5405 120 + 1
CCGACCAUGAGUUCUUUGGAGUAGCCAUGCUGGAGGCCACAUUCUGUGGCUGCUAUCCAAUUGCGCCCAAUAAAUUGGUUUAUCCGGAAAUCUACCCAAAGGAAAACCUCUACAAUACCG
........(((((((((((.((((.....(((((((((((.....)))))).....((((((..........))))))....)))))....))))))))))))....))).......... ( -35.90)
>DroYak_CAF1 3915 120 + 1
CCGACCAUGAAUUCUUUGGAGUAGCCAUGCUGGAGGCCACUUAUUGUGGCUGUUACCCCAUUGCGCCCAAUAAAUUGGUUUACCCGGAAAUCUACCCAAAGGAAAACCUCUACAACACCU
...........((((((((.((((.....((((((((((.((((((.(((.((.........)))))))))))..))))))..))))....))))))))))))................. ( -32.80)
>consensus
CCGACCAUGAGUUUUUUGGAGUAGCAAUGCUGGAGGCCACUUUCUGCGGCUGUUAUCCCAUUGCGCCCAACAAAUUGGUCUACCCGGAAAUCUACCCAAAGGAAAACCUCUACAACACCU
(((((((...((((.((((.((.((((((..(((((((((.....))))))....))))))))))))))).))))))))).....((........))...)).................. (-28.18 = -29.42 +   1.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:56 2006