Locus 7165

Sequence ID X_DroMel_CAF1
Location 17,975,083 – 17,975,278
Length 195
Max. P 0.992608
window11705 window11706

overview

Window 5

Location 17,975,083 – 17,975,203
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.73
Mean single sequence MFE -22.50
Consensus MFE -18.02
Energy contribution -18.22
Covariance contribution 0.20
Combinations/Pair 1.14
Mean z-score -2.67
Structure conservation index 0.80
SVM decision value 2.34
SVM RNA-class probability 0.992608
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17975083 120 - 22224390
AAAGUCAUGGGAAUUUAUUGCUGUGCUGUGAGCAAACAAAAAGAAAGAAAUAUCAUACAAACAGUUCACUUUAAUAGCUUACACUAGCAAAUAAUUCCCCAAAGCCAUAAAUAUGUACAU
........(((((((..((((((.(.(((((((.........((.(....).))........((....))......))))))))))))))..)))))))..................... ( -23.80)
>DroSec_CAF1 5984 112 - 1
AAAGUCAUGGGAAUUUAUUGCUGUGCUGUGGGCAAACAAAAAGAAAGAAAUAUCAUACAAACAGUUCACUUUAAUAGCUUACACUAGCAAAUAAUUCCCCAAAGCCAUACA--------U
........(((((((..((((((.(.(((((((.........((.(....).))........((....))......))))))))))))))..)))))))............--------. ( -23.00)
>DroSim_CAF1 5673 116 - 1
AAAGUCAUGGGAAUUUAUUGCUGUGCUGUGAGCAAACAAAAAGAAAGAAAUAUCAUACAAACAGUUCACUUUAAUAGCUUACACUAGCAAAUAAUUCCCCAAAGCCAUACAU----ACAU
........(((((((..((((((.(.(((((((.........((.(....).))........((....))......))))))))))))))..))))))).............----.... ( -23.80)
>DroEre_CAF1 7683 117 - 1
AAAGUCAUGGAAAUUUAUUGCUGUGCUGUGAGCAAACAAAAUGAAACAAAUACCAUACAAACAGUUCACUUUAAUGGCUUACACUAGUAAAUAGUUCC-CAAAACCAUAUA--AGUUCAC
...((..(((.((((..((((((.(.(((((((....(((.((((...................)))).)))....))))))))))))))..)))).)-))..))......--....... ( -18.21)
>DroYak_CAF1 5115 117 - 1
AAAGUCAUGGGAAUUUAUUGCUGUGCUGUGAACAAACAAAAAGAAAGAAAUAUCAUACAAACAGUUCACUUUAAUAGCGUACACUAGCAAAUAAUUCC-CAAAGCCAUAUA--CAUACAU
...((..((((((((..((((((((((((((((.........((.(....).)).........))))))......)))).....))))))..))))))-))..))......--....... ( -23.67)
>consensus
AAAGUCAUGGGAAUUUAUUGCUGUGCUGUGAGCAAACAAAAAGAAAGAAAUAUCAUACAAACAGUUCACUUUAAUAGCUUACACUAGCAAAUAAUUCCCCAAAGCCAUACA____UACAU
...((..((((((((..((((((.(.(((((((.........((.(....).))........((....))......))))))))))))))..)))))).))..))............... (-18.02 = -18.22 +   0.20)

alignment

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secondary structure

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dotplot

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Window 6

Location 17,975,163 – 17,975,278
Length 115
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.26
Mean single sequence MFE -23.66
Consensus MFE -20.08
Energy contribution -20.72
Covariance contribution 0.64
Combinations/Pair 1.04
Mean z-score -1.30
Structure conservation index 0.85
SVM decision value 0.17
SVM RNA-class probability 0.614746
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17975163 115 - 22224390
CAGUUUCCAGCCUGCCAAUGACCGCAGAAAUACAA----AAAAAAACAGCG-AAUGGAAGGAGAAAUUAUAGAGCAAACGAAAGUCAUGGGAAUUUAUUGCUGUGCUGUGAGCAAACAAA
..(((..((((((((........))))........----......(((((.-((((((..((....))......((.((....))..))....)))))))))))))))..)))....... ( -24.60)
>DroSec_CAF1 6056 113 - 1
CAGUUUCCAGCCUGCCAAUGACCGCAGAAAUACAG----A--AAAACAGCG-AAUGGAAGGAGAAAUUAUAGAGCAAACGAAAGUCAUGGGAAUUUAUUGCUGUGCUGUGGGCAAACAAA
..((((((...((((........))))...(((((----.--...(((((.-((((((..((....))......((.((....))..))....))))))))))).))))))).))))... ( -25.50)
>DroSim_CAF1 5749 113 - 1
CAGUUUCCAGCCUGCCAAUGACCGCAGAAAUACAG----A--AAAACAGCG-AAUGGAAGGAGAAAUUAUAGAGCAAACGAAAGUCAUGGGAAUUUAUUGCUGUGCUGUGAGCAAACAAA
..(((..((((((((........))))........----.--...(((((.-((((((..((....))......((.((....))..))....)))))))))))))))..)))....... ( -24.60)
>DroEre_CAF1 7760 117 - 1
CGGAUUCCAGCCUGCGAAUGACCGCAGAAAUAAAGCGAAA--AAAACAGCG-AAUGGAAGGAGAAAUUAUAGAGCAAACGAAAGUCAUGGAAAUUUAUUGCUGUGCUGUGAGCAAACAAA
..(.((((((((((((......))))).............--...(((((.-((((((..((....))......((.((....))..))....))))))))))))))).))))....... ( -24.80)
>DroYak_CAF1 5192 114 - 1
CAGAUUCCAGCCUGCCAAUGACCGCAGAAAUACAG----A--AAAACAGAAAAAAGGAAGGAGAAAUUAUAGCGCAAACGAAAGUCAUGGGAAUUUAUUGCUGUGCUGUGAACAAACAAA
....((((...((((........)))).......(----.--....)........)))).......(((((((((..((....))...((.((....)).)))))))))))......... ( -18.80)
>consensus
CAGUUUCCAGCCUGCCAAUGACCGCAGAAAUACAG____A__AAAACAGCG_AAUGGAAGGAGAAAUUAUAGAGCAAACGAAAGUCAUGGGAAUUUAUUGCUGUGCUGUGAGCAAACAAA
..(((..((((((((........))))..................(((((..((((((..((....))......((.((....))..))....)))))))))))))))..)))....... (-20.08 = -20.72 +   0.64)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:46 2006