Locus 3567

Sequence ID 2L_DroMel_CAF1
Location 10,397,095 – 10,397,284
Length 189
Max. P 0.993612
window5639 window5640 window5641

overview

Window 9

Location 10,397,095 – 10,397,213
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.99
Mean single sequence MFE -26.98
Consensus MFE -20.94
Energy contribution -21.48
Covariance contribution 0.54
Combinations/Pair 1.15
Mean z-score -1.55
Structure conservation index 0.78
SVM decision value 0.18
SVM RNA-class probability 0.621166
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10397095 118 + 22407834
GAUUUGCCAUAAUUAAUAAACAAUAAAUCACAGCUG--UGGUUUGGUAAAUAAGUGCAGCGUGAACAAUGUACGCUUAUGUACAUAAACACUCGCAUAUGUGUGCGUAUAUAGUGGAUUA
((((..(.(((................((((.((((--((.((........)).))))))))))...((((((((.(((((............))))).)))))))).))).)..)))). ( -29.70)
>DroSec_CAF1 12046 120 + 1
GAUUUGCCAUAAUUAAUAAACAAUAAAUCACAGCUGUGUGGUUUGGUAAAUAAGUGCAGCGUGAAUAAUGUACGCUUAUGUACAUAAACACUCGCAUAUGUGUGCGUAUAUAGUGGAUUA
((((..(.(((................((((.((((..(...((....))...)..))))))))...((((((((.(((((............))))).)))))))).))).)..)))). ( -29.60)
>DroSim_CAF1 11943 120 + 1
GAUUUGCCAUAAUUAAUAAACAAUAAAUCACAGCUGUGUGGUUUGGUAAAUAAGUGCAGCGUGAAUAAUGUACGCUUAUGUACAUAAACACUCGCAUAUGUGUGCGUAUAUAGUGGAUUA
((((..(.(((................((((.((((..(...((....))...)..))))))))...((((((((.(((((............))))).)))))))).))).)..)))). ( -29.60)
>DroEre_CAF1 12642 110 + 1
GAUUUGUCAUUUUUAAUAAACAAUAAAUUGCAACUGUGUGGAUUGGUAAAUAAGUGCAGCGUGAACAUUA----------UACAUAAACACUCGCAUAUGUGUGCGUAUAUAGUGGGUUA
..................(((......(..(..(((..(..(((....)))..)..))).)..).(((((----------((.((..((((........))))..)).))))))).))). ( -18.20)
>DroYak_CAF1 12683 119 + 1
GAUUUGCCACAAAUAAUAAACAAUAAAUUGCAAGUGUGUGGUUUGGUAAAUAAGUGCAGCGUGAACAAUGUACGC-UAUGUACAUAAACAUUCGCAUAUGUGUGCGUAUAUAGUGGGUUA
.((((((((................(((..((....))..)))))))))))..(((((..(....)..)))))((-(((((((.((.((((......)))).)).)))))))))...... ( -27.79)
>consensus
GAUUUGCCAUAAUUAAUAAACAAUAAAUCACAGCUGUGUGGUUUGGUAAAUAAGUGCAGCGUGAACAAUGUACGCUUAUGUACAUAAACACUCGCAUAUGUGUGCGUAUAUAGUGGAUUA
......((((.............(((((((((....)))))))))(((.(((.((((.(.(((....(((((((....)))))))...))).))))).))).))).......)))).... (-20.94 = -21.48 +   0.54)

alignment

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secondary structure

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Window 0

Location 10,397,173 – 10,397,284
Length 111
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 94.32
Mean single sequence MFE -22.14
Consensus MFE -18.60
Energy contribution -18.08
Covariance contribution -0.52
Combinations/Pair 1.17
Mean z-score -1.28
Structure conservation index 0.84
SVM decision value -0.03
SVM RNA-class probability 0.519308
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10397173 111 + 22407834
UACAUAAACACUCGCAUAUGUGUGCGUAUAUAGUGGAUUAACAAAUUGCUGAUGUACACAUAUUAAGUGCUUUUACAAUGCAUACGCAAAUAUCGAUGCAAAUUCUAGUAA
(((.....((((...((((((((((((...(((..(.........)..)))))))))))))))..)))).........(((((.((.......))))))).......))). ( -24.20)
>DroSec_CAF1 12126 111 + 1
UACAUAAACACUCGCAUAUGUGUGCGUAUAUAGUGGAUUAACAAAUUGCUGAUGUACAACUAUUAAGUGAUUUUACAAUGCAUACGCAAAUAUCGAUGCAUAUUCUAGUAA
(((.....((((.((((....))))((((((((..(.........)..)).))))))........))))........((((((.((.......))))))))......))). ( -20.00)
>DroSim_CAF1 12023 111 + 1
UACAUAAACACUCGCAUAUGUGUGCGUAUAUAGUGGAUUAACAAAUUGCUGAUGUACAACUAUUAAGUGGUUUUACAAUGCAUACGCAAAUAUCGAUGUAAAUUCUAGUAA
.......(((.(((.((((...(((((((...((......)).....((...((((.((((((...)))))).))))..))))))))).))))))))))............ ( -23.70)
>DroEre_CAF1 12712 111 + 1
UACAUAAACACUCGCAUAUGUGUGCGUAUAUAGUGGGUUAACAAAUUACGGAUGUACAACUACUAGGUGAUUUUACAAUGCAUACGCAAAUAUCGAUGCAAAUUCUAUGAA
..((((..(((((((((....)))))....((((((....(((.........)))....)))))))))).........(((((.((.......))))))).....)))).. ( -20.60)
>DroYak_CAF1 12762 111 + 1
UACAUAAACAUUCGCAUAUGUGUGCGUAUAUAGUGGGUUAACAAAUUGCUGAUGUACAACUACUAAGUGAUUUUACAAUGCAUACGCAAAUAUCGAUGCAAAUUCUAUGAA
..((((...(((.((((((((.(((((((.((....((....((((..((...(((....)))..))..)))).))..)).))))))).))))..)))).)))..)))).. ( -22.20)
>consensus
UACAUAAACACUCGCAUAUGUGUGCGUAUAUAGUGGAUUAACAAAUUGCUGAUGUACAACUAUUAAGUGAUUUUACAAUGCAUACGCAAAUAUCGAUGCAAAUUCUAGUAA
.............((((((((.(((((.....(((.(((...((((((((...(((....)))..))))))))...))).)))))))).))))..))))............ (-18.60 = -18.08 +  -0.52)

alignment

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secondary structure

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dotplot

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Window 1

Location 10,397,173 – 10,397,284
Length 111
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 94.32
Mean single sequence MFE -23.87
Consensus MFE -21.31
Energy contribution -21.19
Covariance contribution -0.12
Combinations/Pair 1.12
Mean z-score -1.92
Structure conservation index 0.89
SVM decision value 2.41
SVM RNA-class probability 0.993612
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10397173 111 - 22407834
UUACUAGAAUUUGCAUCGAUAUUUGCGUAUGCAUUGUAAAAGCACUUAAUAUGUGUACAUCAGCAAUUUGUUAAUCCACUAUAUACGCACACAUAUGCGAGUGUUUAUGUA
...........(((((.((((((((((((((...(((....((((.......)))).....(((.....)))..............)))..)))))))))))))).))))) ( -24.50)
>DroSec_CAF1 12126 111 - 1
UUACUAGAAUAUGCAUCGAUAUUUGCGUAUGCAUUGUAAAAUCACUUAAUAGUUGUACAUCAGCAAUUUGUUAAUCCACUAUAUACGCACACAUAUGCGAGUGUUUAUGUA
...........(((((.((((((((((((((...((((.......(((((((((((......)))).))))))).........))))....)))))))))))))).))))) ( -24.29)
>DroSim_CAF1 12023 111 - 1
UUACUAGAAUUUACAUCGAUAUUUGCGUAUGCAUUGUAAAACCACUUAAUAGUUGUACAUCAGCAAUUUGUUAAUCCACUAUAUACGCACACAUAUGCGAGUGUUUAUGUA
...........(((((.((((((((((((((...((((.......(((((((((((......)))).))))))).........))))....)))))))))))))).))))) ( -24.19)
>DroEre_CAF1 12712 111 - 1
UUCAUAGAAUUUGCAUCGAUAUUUGCGUAUGCAUUGUAAAAUCACCUAGUAGUUGUACAUCCGUAAUUUGUUAACCCACUAUAUACGCACACAUAUGCGAGUGUUUAUGUA
...........(((((.((((((((((((((...(((.........((((.((((.(((.........)))))))..)))).....)))..)))))))))))))).))))) ( -22.84)
>DroYak_CAF1 12762 111 - 1
UUCAUAGAAUUUGCAUCGAUAUUUGCGUAUGCAUUGUAAAAUCACUUAGUAGUUGUACAUCAGCAAUUUGUUAACCCACUAUAUACGCACACAUAUGCGAAUGUUUAUGUA
...........(((((.((((((((((((((...(((.........((((.((((.(((.........)))))))..)))).....)))..)))))))))))))).))))) ( -23.54)
>consensus
UUACUAGAAUUUGCAUCGAUAUUUGCGUAUGCAUUGUAAAAUCACUUAAUAGUUGUACAUCAGCAAUUUGUUAAUCCACUAUAUACGCACACAUAUGCGAGUGUUUAUGUA
...........(((((.((((((((((((((...((((.......(((((((((((......)))).))))))).........))))....)))))))))))))).))))) (-21.31 = -21.19 +  -0.12)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:50 2006