Locus 2132

Sequence ID 3R_DroMel_CAF1
Location 6,098,449 – 6,098,544
Length 95
Max. P 0.613736
window3481 window3482

overview

Window 1

Location 6,098,449 – 6,098,544
Length 95
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 81.36
Mean single sequence MFE -16.63
Consensus MFE -11.69
Energy contribution -11.75
Covariance contribution 0.06
Combinations/Pair 1.17
Mean z-score -1.38
Structure conservation index 0.70
SVM decision value 0.11
SVM RNA-class probability 0.589523
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6098449 95 + 27905053
CUGUGCCUCAUUUCUGGCAAAAUAUGCCACUAAAUCAACACGCCAAGCGCUGCUGCAACCAGCAAAUACACUGAGGGAAAUUAAAACAAA--AAUAA
.....(((((....(((((.....)))))...........(((...))).(((((....))))).......)))))..............--..... ( -18.50)
>DroSec_CAF1 10610 95 + 1
CUGUGCCUCAUUUCUGGCAAAAUAUGCCACUAAAUCAACACGCCAAGCGCUGCAGCAAACAGCAACUACACUGAGAGAAAUUAAAUCAAA--AAUGA
.......((((((.(((((.....)))))((...(((....((...))((((.......))))........))).))............)--))))) ( -14.60)
>DroSim_CAF1 10805 95 + 1
CUGUGCCUCAUUUCUGGCAAAAUAUGCCACUAAAUCAACACGCCAAGCGCUGCAGCAACCAGCAACUACACUGAGAGAAAUUAAAACGAA--AAUCA
.(((.....((((((((((.....))))......(((....((...))((((.......))))........))).))))))....)))..--..... ( -14.40)
>DroEre_CAF1 10566 97 + 1
CUGUGCCUCAUUUCUGGCAAAAUAUGCCACUAAAUCAACACGCCAGGCGCUGCAGCAACCAGCAACUACACUUAGAGAAAUUAAAGCAUGCAAAUAA
..((((...((((((((((.....)))).((((........((...))((((.......))))........))))))))))....))))........ ( -18.30)
>DroYak_CAF1 10830 97 + 1
CUGUGCCUCAUUUCUGGCAAAAUAUGCCACUAAAUCAACACGUCAAGCGCUGCAGCAACCAGCAAGUACACUAAGAGAAAUUAAAACUAAACAAAAA
.(((((........(((((.....)))))...................((((.......))))..)))))........................... ( -14.40)
>DroAna_CAF1 8716 76 + 1
ACCUGCUUCAUUUCUGGCA-AAUAUGCCACUAAAUCAACACGUUCGACGCAGCA-------GCCACUGCACUGGGAGAAACAGG-------------
.((((.(((.(..((((((-....)))))...................((((..-------....))))...)..)))).))))------------- ( -19.60)
>consensus
CUGUGCCUCAUUUCUGGCAAAAUAUGCCACUAAAUCAACACGCCAAGCGCUGCAGCAACCAGCAACUACACUGAGAGAAAUUAAAACAAA__AAUAA
......(((.....(((((.....)))))...................((((.......))))...........))).................... (-11.69 = -11.75 +   0.06)

alignment

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secondary structure

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dotplot

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Window 2

Location 6,098,449 – 6,098,544
Length 95
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 81.36
Mean single sequence MFE -25.01
Consensus MFE -18.10
Energy contribution -17.97
Covariance contribution -0.14
Combinations/Pair 1.14
Mean z-score -1.38
Structure conservation index 0.72
SVM decision value 0.16
SVM RNA-class probability 0.613736
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6098449 95 - 27905053
UUAUU--UUUGUUUUAAUUUCCCUCAGUGUAUUUGCUGGUUGCAGCAGCGCUUGGCGUGUUGAUUUAGUGGCAUAUUUUGCCAGAAAUGAGGCACAG
.....--..............((..(((((...(((((....)))))))))).)).(((((.((((..(((((.....))))).))))..))))).. ( -25.30)
>DroSec_CAF1 10610 95 - 1
UCAUU--UUUGAUUUAAUUUCUCUCAGUGUAGUUGCUGUUUGCUGCAGCGCUUGGCGUGUUGAUUUAGUGGCAUAUUUUGCCAGAAAUGAGGCACAG
(((((--(((((.(((((..(.((.(((((.((.((.....)).)).))))).)).).))))).))).(((((.....))))))))))))....... ( -24.40)
>DroSim_CAF1 10805 95 - 1
UGAUU--UUCGUUUUAAUUUCUCUCAGUGUAGUUGCUGGUUGCUGCAGCGCUUGGCGUGUUGAUUUAGUGGCAUAUUUUGCCAGAAAUGAGGCACAG
.....--...............((.(((((.((.((.....)).)).))))).)).(((((.((((..(((((.....))))).))))..))))).. ( -23.50)
>DroEre_CAF1 10566 97 - 1
UUAUUUGCAUGCUUUAAUUUCUCUAAGUGUAGUUGCUGGUUGCUGCAGCGCCUGGCGUGUUGAUUUAGUGGCAUAUUUUGCCAGAAAUGAGGCACAG
.........(((((((.((((.((((((.....(((..(.(((....))).)..))).....))))))(((((.....))))))))))))))))... ( -28.60)
>DroYak_CAF1 10830 97 - 1
UUUUUGUUUAGUUUUAAUUUCUCUUAGUGUACUUGCUGGUUGCUGCAGCGCUUGACGUGUUGAUUUAGUGGCAUAUUUUGCCAGAAAUGAGGCACAG
..........((((((.((((...(((((.(((....))))))))((((((.....))))))......(((((.....))))))))))))))).... ( -21.30)
>DroAna_CAF1 8716 76 - 1
-------------CCUGUUUCUCCCAGUGCAGUGGC-------UGCUGCGUCGAACGUGUUGAUUUAGUGGCAUAUU-UGCCAGAAAUGAAGCAGGU
-------------((((((((.......((((..((-------..(((.(((((.....))))).)))..))....)-))).......)))))))). ( -26.94)
>consensus
UUAUU__UUUGUUUUAAUUUCUCUCAGUGUAGUUGCUGGUUGCUGCAGCGCUUGGCGUGUUGAUUUAGUGGCAUAUUUUGCCAGAAAUGAGGCACAG
..........................((...(((((........))))).....))(((((.((((..(((((.....))))).))))..))))).. (-18.10 = -17.97 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:12 2006