Locus 2018

Sequence ID 2L_DroMel_CAF1
Location 5,472,695 – 5,472,818
Length 123
Max. P 0.857410
window3248 window3249

overview

Window 8

Location 5,472,695 – 5,472,789
Length 94
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 84.45
Mean single sequence MFE -22.90
Consensus MFE -13.83
Energy contribution -14.50
Covariance contribution 0.67
Combinations/Pair 1.16
Mean z-score -3.27
Structure conservation index 0.60
SVM decision value 0.21
SVM RNA-class probability 0.635727
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5472695 94 + 22407834
CACAAUUGCAACCGCACAAAAUUUGUGCCACAUGUGG---UGCCACAAGUA-GUGUUUACU--CUACUAAAAUAAUGGAAACAUGUUGUAAAAAAGUAUA
.....(((((((.(((((.....)))))....((((.---...))))((((-(.(....).--)))))......(((....))))))))))......... ( -23.80)
>DroPse_CAF1 109298 95 + 1
CACAAUUGUAACCGCACAAA---UGUGCCACAUGUGGCAGUGCCACAUCCCUGUUUAUAUA--CUACUAAAAUAAUGGAAACAUGUAGUAAAAAAGUAUA
......(((((.(((((...---.))))...(((((((...)))))))....).)))))((--((((.......(((....))))))))).......... ( -21.91)
>DroSec_CAF1 91948 94 + 1
CACAAUUGCAACCGCACAAAAUUUGUGCCACAUGUGG---UGCCACAAGUA-GUAUUUCCU--CUACUAAAAUAAUGGAAACAUGUUGUAAAAAAGUAUA
.....(((((((.(((((.....)))))....((((.---...))))((((-(........--)))))......(((....))))))))))......... ( -23.10)
>DroEre_CAF1 93055 94 + 1
CACAAUUGCAGCCGUACAGAAUUUGUGCCACAUGUGG---UGGCACUAGUA-GUGUUUACU--CUACUAAAAUAAUGGAAACAUGUUGUAAAAAAGUAUA
.....(((((((............(((((((.....)---))))))(((((-(.(....).--)))))).....(((....))))))))))......... ( -27.80)
>DroAna_CAF1 99827 84 + 1
CACAAUUGCAACCGCACAAA---UGUGCCACAUGUGG---C---------U-GUGUUUACUCACUACUAAAAUAAUGGAAACAUGUUGUAAAAAAGUAUA
.....(((((((.(((((..---...((((....)))---)---------)-))))..................(((....))))))))))......... ( -18.90)
>DroPer_CAF1 110028 95 + 1
CACAAUUGUAACCGCACAAA---UGUGCCACAUGUGGCAGUGCCACAUCCAUGUUUAUAUA--CUACUAAAAUAAUGGAAACAUGUAGUAAAAAAGUAUA
......(((((.(((((...---.))))...(((((((...)))))))....).)))))((--((((.......(((....))))))))).......... ( -21.91)
>consensus
CACAAUUGCAACCGCACAAA___UGUGCCACAUGUGG___UGCCACAAGUA_GUGUUUACU__CUACUAAAAUAAUGGAAACAUGUUGUAAAAAAGUAUA
.....(((((((.(((((.....))))).....((((.....))))............................(((....))))))))))......... (-13.83 = -14.50 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 5,472,724 – 5,472,818
Length 94
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 79.95
Mean single sequence MFE -19.02
Consensus MFE -8.85
Energy contribution -9.97
Covariance contribution 1.11
Combinations/Pair 1.05
Mean z-score -2.79
Structure conservation index 0.47
SVM decision value 0.81
SVM RNA-class probability 0.857410
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5472724 94 + 22407834
ACAUGUGG-------UGCCACAAGUA-GUGUUUACU--CUACUAA-AAUAAUGGAAACAUGUUGUAAAAAAGUAUAAAUUUACUAUGUAAACAACAAUGAAAUUG
...((((.-------...))))((((-(.(....).--)))))..-....(((....)))(((((.....((((......))))......))))).......... ( -18.50)
>DroVir_CAF1 135219 93 + 1
ACAUGUGGAAUGUUUUGCGAC-------UGUUUAUUAACUACUAAAAAUAAUGGAAACAAGUAGUAAA-AAGUAUAAAUUUACUAUGUAAACAACAAUGAG----
.((((..((....))..)...-------(((((((..((((((........((....))))))))...-.((((......))))..)))))))...)))..---- ( -15.10)
>DroPse_CAF1 109324 98 + 1
ACAUGUGGCA----GUGCCACAUCCCUGUUUAUAUA--CUACUAA-AAUAAUGGAAACAUGUAGUAAAAAAGUAUAAAUUUACUAUGUAAACAACAAUGAAAUUG
..(((((((.----..)))))))...(((((((((.--.(((((.-....(((....))).)))))....((((......)))))))))))))............ ( -24.40)
>DroMoj_CAF1 149735 93 + 1
ACAUGUGGCGUGUAUUGCGAC-------UGUUUAUUAACUACUAAAAAUAAUGGAAACAAGUAGUAAA-AAGUAUAAAUUUACUAUGUAAACAACAAUGAG----
.(((((.(((.....))).))-------(((((((..((((((........((....))))))))...-.((((......))))..)))))))...)))..---- ( -18.20)
>DroAna_CAF1 99853 87 + 1
ACAUGUGG-------C---------U-GUGUUUACUCACUACUAA-AAUAAUGGAAACAUGUUGUAAAAAAGUAUAAAUUUACUAUGUAAACAACAACGAAAUUG
...(((..-------.---------.-.(((((((....(((.((-....(((....))).)))))....((((......))))..)))))))...)))...... ( -13.30)
>DroPer_CAF1 110054 98 + 1
ACAUGUGGCA----GUGCCACAUCCAUGUUUAUAUA--CUACUAA-AAUAAUGGAAACAUGUAGUAAAAAAGUAUAAAUUUACUAUGUAAACAACAAUGAAAUUG
..(((((((.----..)))))))...(((((((((.--.(((((.-....(((....))).)))))....((((......)))))))))))))............ ( -24.60)
>consensus
ACAUGUGGCA_____UGCCAC______GUGUUUAUU__CUACUAA_AAUAAUGGAAACAUGUAGUAAAAAAGUAUAAAUUUACUAUGUAAACAACAAUGAAAUUG
............................(((((((....(((((......(((....))).)))))....((((......))))..)))))))............ ( -8.85 =  -9.97 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:15 2006