Locus 5035

Sequence ID	2L_DroMel_CAF1
Location	14,437,877 – 14,437,973
Length	96
Max. P	0.995152

overview

Window 4

Location	14,437,877 – 14,437,973
Length	96
Sequences	6
Columns	97
Reading direction	forward
Mean pairwise identity	93.22
Mean single sequence MFE	-25.42
Consensus MFE	-21.72
Energy contribution	-22.42
Covariance contribution	0.70
Combinations/Pair	1.04
Mean z-score	-1.89
Structure conservation index	0.85
SVM decision value	0.73
SVM RNA-class probability	0.835018
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14437877 96 + 22407834
UUUUUUUUGCCCGUUUUAAUAACAGGACUCUUGCGGCGCU-UUUCGCAAUUAGCUGUCAUUCAUCAAAAUGGGACAGCUUAAUUGUGCGGUUGCUAU
.........((.(((.....))).))......(((((.(.-...((((((((((((((...(((....))).)))))).)))))))).))))))... ( -24.60)
>DroSec_CAF1 28131 93 + 1
UU---UUUGCCCGUUUUAAUAACAGGACUCUUGCGGCGCU-UUUCGCAAUUAGCUGUCAUUCAUCAACAUGGGACAGCUUAAUUGUGCGGUUGCUAU
..---....((.(((.....))).))......(((((.(.-...((((((((((((((...(((....))).)))))).)))))))).))))))... ( -24.50)
>DroSim_CAF1 30611 93 + 1
UU---UUUGCCCGUUUUAAUAACAGGACUCUUGCGGCGCU-UUUCGCAAUUAGCUGUCAUUCAUCAAAAUGGGACAGCUUAAUUGUGCGGUUGCUAU
..---....((.(((.....))).))......(((((.(.-...((((((((((((((...(((....))).)))))).)))))))).))))))... ( -24.60)
>DroEre_CAF1 30521 93 + 1
UU---UUUGCCCGCUUUAAUAACAGGACUCUCCAGGCGCU-UUUCGCAAUUAGCUGUCAUUCAUCAAAAUGGGACAGCUUAAUUGUGCGGUUGCCAU
..---...................((.....)).((((((-...((((((((((((((...(((....))).)))))).)))))))).)).)))).. ( -26.00)
>DroYak_CAF1 30073 93 + 1
UU---UUUGCCCGUUUUAAUAACAGGACUCUGCAGGCGCU-UUUCGCAAUUAGCUGUCAUUCAUCAAAACGGGACAGCUUAAUUGUGCGGUUGCUAU
..---....((.(((.....))).)).....((((.(((.-....(((((((((((((..............)))))).)))))))))).))))... ( -25.94)
>DroAna_CAF1 20972 94 + 1
UU---UUUGCCGGCUUUAAUAACAGGACUCUCGAGGCGCUCUUUCGCAAUUAGCUGUCAUUCAUCAAAAUGGGACAGCUUAAUUGGAAGGUGGCUAU
..---...(((((((((...............)))))...(((((.((((((((((((...(((....))).)))))).)))))))))))))))... ( -26.86)
>consensus
UU___UUUGCCCGUUUUAAUAACAGGACUCUUGAGGCGCU_UUUCGCAAUUAGCUGUCAUUCAUCAAAAUGGGACAGCUUAAUUGUGCGGUUGCUAU
.........((.(((.....))).))........((((((....((((((((((((((...(((....))).)))))).)))))))).))).))).. (-21.72 = -22.42 +   0.70)

alignment

secondary structure

dotplot

Window 5

Location	14,437,877 – 14,437,973
Length	96
Sequences	6
Columns	97
Reading direction	reverse
Mean pairwise identity	93.22
Mean single sequence MFE	-23.97
Consensus MFE	-21.93
Energy contribution	-21.60
Covariance contribution	-0.33
Combinations/Pair	1.12
Mean z-score	-2.12
Structure conservation index	0.92
SVM decision value	2.55
SVM RNA-class probability	0.995152
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14437877 96 - 22407834
AUAGCAACCGCACAAUUAAGCUGUCCCAUUUUGAUGAAUGACAGCUAAUUGCGAAA-AGCGCCGCAAGAGUCCUGUUAUUAAAACGGGCAAAAAAAA
...((.....(.((((((.((((((.(((....)))...)))))))))))).)...-.))..(....).(.((((((.....)))))))........ ( -23.40)
>DroSec_CAF1 28131 93 - 1
AUAGCAACCGCACAAUUAAGCUGUCCCAUGUUGAUGAAUGACAGCUAAUUGCGAAA-AGCGCCGCAAGAGUCCUGUUAUUAAAACGGGCAAA---AA
...((.....(.((((((.((((((.(((....)))...)))))))))))).)...-.))..(....).(.((((((.....)))))))...---.. ( -23.60)
>DroSim_CAF1 30611 93 - 1
AUAGCAACCGCACAAUUAAGCUGUCCCAUUUUGAUGAAUGACAGCUAAUUGCGAAA-AGCGCCGCAAGAGUCCUGUUAUUAAAACGGGCAAA---AA
...((.....(.((((((.((((((.(((....)))...)))))))))))).)...-.))..(....).(.((((((.....)))))))...---.. ( -23.40)
>DroEre_CAF1 30521 93 - 1
AUGGCAACCGCACAAUUAAGCUGUCCCAUUUUGAUGAAUGACAGCUAAUUGCGAAA-AGCGCCUGGAGAGUCCUGUUAUUAAAGCGGGCAAA---AA
..(((.....(.((((((.((((((.(((....)))...)))))))))))).)...-...)))......(.((((((.....)))))))...---.. ( -24.80)
>DroYak_CAF1 30073 93 - 1
AUAGCAACCGCACAAUUAAGCUGUCCCGUUUUGAUGAAUGACAGCUAAUUGCGAAA-AGCGCCUGCAGAGUCCUGUUAUUAAAACGGGCAAA---AA
...(((..(((.((((((.((((((..((((....)))))))))))))))).....-.)))..)))...(.((((((.....)))))))...---.. ( -25.40)
>DroAna_CAF1 20972 94 - 1
AUAGCCACCUUCCAAUUAAGCUGUCCCAUUUUGAUGAAUGACAGCUAAUUGCGAAAGAGCGCCUCGAGAGUCCUGUUAUUAAAGCCGGCAAA---AA
...(((.(.(((((((((.((((((.(((....)))...)))))))))))).))).)((((...(....)...)))).........)))...---.. ( -23.20)
>consensus
AUAGCAACCGCACAAUUAAGCUGUCCCAUUUUGAUGAAUGACAGCUAAUUGCGAAA_AGCGCCGCAAGAGUCCUGUUAUUAAAACGGGCAAA___AA
...((.....(.((((((.((((((.(((....)))...)))))))))))).).....)).........(.((((((.....)))))))........ (-21.93 = -21.60 +  -0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:12 2006