Locus 4931

Sequence ID 2R_DroMel_CAF1
Location 16,097,307 – 16,097,436
Length 129
Max. P 0.581881
window7902 window7903

overview

Window 2

Location 16,097,307 – 16,097,405
Length 98
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 85.55
Mean single sequence MFE -17.58
Consensus MFE -12.82
Energy contribution -12.98
Covariance contribution 0.16
Combinations/Pair 1.07
Mean z-score -1.59
Structure conservation index 0.73
SVM decision value 0.02
SVM RNA-class probability 0.544336
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16097307 98 - 20766785
UUUUUCCCCACUGUCCACGCUCUAAUGCCUA-AGAGCGUUGGUUCACUAGCUAGUUUAUAGCUAACUUU-UGAAAACUCCGUUUGUUAAAUAAUUAUUCA
.(((((.....((.(((((((((........-)))))).)))..)).((((((.....)))))).....-.)))))........................ ( -19.70)
>DroSec_CAF1 18701 99 - 1
UCUCUCCCCACUGUCCACGCUCUAAUGCCUAAAGAGCGUUGGUUCACUAGCUAGUUUAUAGCUAACUUU-UUAAAACUCCGUUUGUUAAAUAAUUAUUCA
...........((.(((((((((.........)))))).)))..)).((((((.....)))))).....-.............................. ( -17.40)
>DroSim_CAF1 18885 98 - 1
UCUCUCCCCAAUGUCCACGCUCUAAUGCCUA-AGAGCGUUGAUUCACUAGCUAGUUUAUAGCUAACUUU-UUAAAACUCCGUUUGUUAAAUAAUUAUUCA
............(((.(((((((........-))))))).)))....((((((.....)))))).....-.............................. ( -18.10)
>DroEre_CAF1 20047 93 - 1
UCUCUC-CCACUGUCCACGCUCUGAUGCCUA-AGAGAGUUGAUUUCCUAGCUAGUUUAUAGCUAACAUU-UUAAAACU----GUGGUAAAUAAUUAUGCA
......-((((.(((.((.((((........-)))).)).)))....((((((.....)))))).....-........----)))).............. ( -18.40)
>DroYak_CAF1 19245 92 - 1
UCUCUU-CCACUGUCCACGCUCUAAUGCCUA-AGAGGGUUGGUCCCUUAGCUAGUUUGUAGCUAACUUUUUUAAAACU----GU--UACGUACUUAAUUA
......-.....(.((((.((((........-)))).).))).)..(((((((.....))))))).............----..--.............. ( -14.30)
>consensus
UCUCUCCCCACUGUCCACGCUCUAAUGCCUA_AGAGCGUUGGUUCACUAGCUAGUUUAUAGCUAACUUU_UUAAAACUCCGUUUGUUAAAUAAUUAUUCA
.............((.(((((((.........))))))).)).....((((((.....)))))).................................... (-12.82 = -12.98 +   0.16)

alignment

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secondary structure

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dotplot

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Window 3

Location 16,097,329 – 16,097,436
Length 107
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 91.36
Mean single sequence MFE -29.17
Consensus MFE -21.98
Energy contribution -22.38
Covariance contribution 0.40
Combinations/Pair 1.08
Mean z-score -1.66
Structure conservation index 0.75
SVM decision value 0.10
SVM RNA-class probability 0.581881
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16097329 107 - 20766785
GAACAGCCAGGGGCUAGAUGGCGCCUUAGCAUUUUUCCCCACUGUCCACGCUCUAAUGCCUA-AGAGCGUUGGUUCACUAGCUAGUUUAUAGCUAACUUU-UGAAAACU
((((.....((((..(((((.(......))))))..)))).....(.(((((((........-))))))).)))))..((((((.....)))))).....-........ ( -32.40)
>DroSec_CAF1 18723 108 - 1
GAACAGCCAGGGGCUAGCUGGCGCCUUAGCAUCUCUCCCCACUGUCCACGCUCUAAUGCCUAAAGAGCGUUGGUUCACUAGCUAGUUUAUAGCUAACUUU-UUAAAACU
((((.....((((..((...((......))..))..)))).....(.(((((((.........))))))).)))))..((((((.....)))))).....-........ ( -30.70)
>DroSim_CAF1 18907 107 - 1
GAACAGCCAGGGGCUAGCUGGCGCCUUAGCAUCUCUCCCCAAUGUCCACGCUCUAAUGCCUA-AGAGCGUUGAUUCACUAGCUAGUUUAUAGCUAACUUU-UUAAAACU
....(((...(((((((((((.((....)).............(((.(((((((........-))))))).)))...)))))))))))...)))......-........ ( -31.10)
>DroEre_CAF1 20065 106 - 1
GAACAGCCAGGGGAUAGCUAGCACCUUAGCAUCUCUC-CCACUGUCCACGCUCUGAUGCCUA-AGAGAGUUGAUUUCCUAGCUAGUUUAUAGCUAACAUU-UUAAAACU
...(((((((((((.((...((......))..)).))-)).)))......((((........-)))).))))......((((((.....)))))).....-........ ( -24.20)
>DroYak_CAF1 19261 107 - 1
GAACAGCCAGGGGCUAGCUGGCGCCUUAGCAUCUCUU-CCACUGUCCACGCUCUAAUGCCUA-AGAGGGUUGGUCCCUUAGCUAGUUUGUAGCUAACUUUUUUAAAACU
....(((.(.(((((((((((((....(((.......-...........)))....))))..-.(((((.....)))))))))))))).).)))............... ( -27.47)
>consensus
GAACAGCCAGGGGCUAGCUGGCGCCUUAGCAUCUCUCCCCACUGUCCACGCUCUAAUGCCUA_AGAGCGUUGGUUCACUAGCUAGUUUAUAGCUAACUUU_UUAAAACU
....(((...((((((((((((......))..............((.(((((((.........))))))).)).....))))))))))...)))............... (-21.98 = -22.38 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:34 2006