Locus 902

Sequence ID X_DroMel_CAF1
Location 2,514,233 – 2,514,353
Length 120
Max. P 0.882091
window1461 window1462

overview

Window 1

Location 2,514,233 – 2,514,353
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.68
Mean single sequence MFE -23.10
Consensus MFE -16.58
Energy contribution -17.38
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -2.59
Structure conservation index 0.72
SVM decision value 0.92
SVM RNA-class probability 0.882091
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2514233 120 + 22224390
UUUUUUUUUCUUUUGCACAUCUUUCCAGAUGCCGUUAAGCUGUUGCUUAAUUUAUAAUUCAUUCCUGUUUGAUUUAACACCUCCGCACUUUAGGUCUCUUGAUAAAUAUGUAUGUGCAGU
............(((((((((..((.(((.((((((((((....)))))))...(((.(((........))).)))................))).))).)).......).)))))))). ( -23.40)
>DroSec_CAF1 12532 113 + 1
UUUUUUU---UUUAGCACAUCUCUCCAGAUUCCGUUAAGCUGUUGCUUAAUUUAUAAUUCAUUCCUGUUUUAUUUAACACCUCCGCACUUUAGGUCUCUUGAUAAAUA----UGUGCAGU
.......---....((((((...((.(((..(((((((((....)))))))..............((((......)))).............))..))).)).....)----)))))... ( -20.70)
>DroSim_CAF1 12490 113 + 1
UUUUUUU---UUUAGCACAUCUUUCCAGAUGCCGUUAAGCUGUUGCUUAAUUUAUAAUUCAUUCCUGUUUGAUUUAACACCUCCGCACUUUAGGUCUCUUGAUAAAUA----UGUGCAGU
.......---....((((((...((.(((.((((((((((....)))))))...(((.(((........))).)))................))).))).)).....)----)))))... ( -23.90)
>DroEre_CAF1 13173 108 + 1
-----UU---UUUAGCUCAUAUUUGCAGAUGCCGUUAAGCUGUUGCUUAAUUUAUAAUUCAUUCUUGUUUGAUUUAACACCUCCGCACUUUAGGUCUCUUGAUAAGUA----UGUGCAGU
-----..---....((.((((((((((((.((((((((((....)))))))...(((.(((........))).)))................))).)).)).))))))----)).))... ( -24.80)
>DroYak_CAF1 14398 108 + 1
-----UU---GCUAGCACAUCGUUCCAGAUGCCGUUAAGCUGUUGCUUAAUUUAUAAUUCAUUCUUGUUUAAUUUAACACCUCCGCACUUCAGGUCUCCUGAUAAAUA----UGUGCAGU
-----..---(((.((((((......((.(((.(((((((....)))))))..............((((......)))).....)))))(((((...))))).....)----)))))))) ( -22.70)
>consensus
UUUUUUU___UUUAGCACAUCUUUCCAGAUGCCGUUAAGCUGUUGCUUAAUUUAUAAUUCAUUCCUGUUUGAUUUAACACCUCCGCACUUUAGGUCUCUUGAUAAAUA____UGUGCAGU
..............(((((....((.(((.((((((((((....)))))))..............((((......)))).............))).))).))..........)))))... (-16.58 = -17.38 +   0.80)

alignment

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secondary structure

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dotplot

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Window 2

Location 2,514,233 – 2,514,353
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.68
Mean single sequence MFE -21.03
Consensus MFE -15.97
Energy contribution -16.17
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.71
Structure conservation index 0.76
SVM decision value 0.32
SVM RNA-class probability 0.686607
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2514233 120 - 22224390
ACUGCACAUACAUAUUUAUCAAGAGACCUAAAGUGCGGAGGUGUUAAAUCAAACAGGAAUGAAUUAUAAAUUAAGCAACAGCUUAACGGCAUCUGGAAAGAUGUGCAAAAGAAAAAAAAA
..(((((((.................((........))(((((((...(((........)))........((((((....)))))).)))))))......)))))))............. ( -21.30)
>DroSec_CAF1 12532 113 - 1
ACUGCACA----UAUUUAUCAAGAGACCUAAAGUGCGGAGGUGUUAAAUAAAACAGGAAUGAAUUAUAAAUUAAGCAACAGCUUAACGGAAUCUGGAGAGAUGUGCUAAA---AAAAAAA
...(((((----(.....((.(((..((.............((((......))))...............((((((....)))))).))..))).))...))))))....---....... ( -20.30)
>DroSim_CAF1 12490 113 - 1
ACUGCACA----UAUUUAUCAAGAGACCUAAAGUGCGGAGGUGUUAAAUCAAACAGGAAUGAAUUAUAAAUUAAGCAACAGCUUAACGGCAUCUGGAAAGAUGUGCUAAA---AAAAAAA
.((((((.----......((....))......)))))).(((............................((((((....))))))..((((((....)))))))))...---....... ( -20.92)
>DroEre_CAF1 13173 108 - 1
ACUGCACA----UACUUAUCAAGAGACCUAAAGUGCGGAGGUGUUAAAUCAAACAAGAAUGAAUUAUAAAUUAAGCAACAGCUUAACGGCAUCUGCAAAUAUGAGCUAAA---AA-----
.((((((.----......((....))......))))))(((((((...(((........)))........((((((....)))))).)))))))((........))....---..----- ( -18.82)
>DroYak_CAF1 14398 108 - 1
ACUGCACA----UAUUUAUCAGGAGACCUGAAGUGCGGAGGUGUUAAAUUAAACAAGAAUGAAUUAUAAAUUAAGCAACAGCUUAACGGCAUCUGGAACGAUGUGCUAGC---AA-----
.(((((((----(.....(((((...))))).((((.(...((((......))))...............((((((....))))))).))))........)))))).)).---..----- ( -23.80)
>consensus
ACUGCACA____UAUUUAUCAAGAGACCUAAAGUGCGGAGGUGUUAAAUCAAACAGGAAUGAAUUAUAAAUUAAGCAACAGCUUAACGGCAUCUGGAAAGAUGUGCUAAA___AAAAAAA
.((((((.........................))))))(((((((........((....)).........((((((....)))))).))))))).......................... (-15.97 = -16.17 +   0.20)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:38 2006