Locus 2625

Sequence ID 3L_DroMel_CAF1
Location 7,235,617 – 7,235,778
Length 161
Max. P 0.824600
window4122 window4123

overview

Window 2

Location 7,235,617 – 7,235,712
Length 95
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.76
Mean single sequence MFE -32.16
Consensus MFE -25.05
Energy contribution -25.65
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.73
Structure conservation index 0.78
SVM decision value 0.43
SVM RNA-class probability 0.734459
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7235617 95 + 23771897
AAAACUAGAAACACUUGGCCGCUGGCGUUGGUUUUGAAUUUCUAGCUG---------------CAACUUUUA----------UUGGAUGGCCAGCGUGCUAAGCAUGGCUGGCUUUUAAG
((((((((..(..((((((((((((((((((..........)))))..---------------((.((....----------..)).))))))))).))))))..)..)))).))))... ( -30.70)
>DroSec_CAF1 17168 95 + 1
AAAACUAGAAACACUUGGCCGCUGGCGUUGGUUUUGAAUUUCUAGCUG---------------CAACUUUUA----------UUGGAUGGCCAGAGUGCUAAGCAUGGCUGGCUUUUAAG
((((((((..(..(((((((.((((((((((..........)))))..---------------((.((....----------..)).))))))).).))))))..)..)))).))))... ( -25.00)
>DroSim_CAF1 17170 95 + 1
AAAACUAGAAACACUUGGCCGCUGGCGUUGGUUUUGAAUUUCUAGCUG---------------CAACUUUUA----------UUGGAUGGCCAGCGUGCUAAGCAUGGCUGGCUUUUAAG
((((((((..(..((((((((((((((((((..........)))))..---------------((.((....----------..)).))))))))).))))))..)..)))).))))... ( -30.70)
>DroEre_CAF1 17665 110 + 1
AAAACUAGAAACACUUGGCCGCUGGCGUUGGUUUUGAAUUUCUAGCUGCCGCUGCUGUCCGUGCAACUUUUA----------UUGGAUGGCAAGCGUGCUAAGCAUGGCUGGCUUUUAAA
((((((((..(..((((((((((((((((((..........))))).)))..(((((((((...........----------.))))))))))))).))))))..)..)))).))))... ( -36.80)
>DroYak_CAF1 18732 120 + 1
AAAACUAGAAACACUUGGCCGCUGGCGUUGGUUUUGAAUUUCUAGCUGCCGCCGCUGUCCGUGCAACUUUUAUUGGAUUUUAUUGGAUGGCAAGCGUGCUAAGCAUGGCUGGCUUUUAAG
((((((((..(..((((((((((((((..((((..(.....).))))..))))((((((((.....((......)).......)))))))).)))).))))))..)..)))).))))... ( -37.60)
>consensus
AAAACUAGAAACACUUGGCCGCUGGCGUUGGUUUUGAAUUUCUAGCUG_______________CAACUUUUA__________UUGGAUGGCCAGCGUGCUAAGCAUGGCUGGCUUUUAAG
((((((((..(..((((((((((((((((((..........))))).................((.((................)).))))))))).))))))..)..)))).))))... (-25.05 = -25.65 +   0.60)

alignment

Postscript

secondary structure

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dotplot

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Window 3

Location 7,235,674 – 7,235,778
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.38
Mean single sequence MFE -26.69
Consensus MFE -20.85
Energy contribution -21.65
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.83
Structure conservation index 0.78
SVM decision value 0.69
SVM RNA-class probability 0.824600
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7235674 104 + 23771897
--UUGGAUGGCCAGCGUGCUAAGCAUGGCUGGCUUUUAAGCAUAAACAUGGCCAACGGCGAAGACACGAAGAAAUAGUGCCGAAG--------------AAAAAUCCAACCAACUGAACA
--(((((((((((.(((((...)))))(((........))).......)))))..(((((.................)))))...--------------....))))))........... ( -27.93)
>DroSec_CAF1 17225 104 + 1
--UUGGAUGGCCAGAGUGCUAAGCAUGGCUGGCUUUUAAGCAUAAACAUGGCCAACGGCGAAGACACGAUGAAAUAGUGCCGAAG--------------AAAAAUCCAACCAACUGAACA
--(((((((((((..(((((((((.......))))...))))).....)))))..(((((.................)))))...--------------....))))))........... ( -27.53)
>DroSim_CAF1 17227 104 + 1
--UUGGAUGGCCAGCGUGCUAAGCAUGGCUGGCUUUUAAGCAUAAACAUGGCCAACGGCGAAGACACGAUGAAAUAGUGCCGAAG--------------AAAAAUCCAACCAACUGAACA
--(((((((((((.(((((...)))))(((........))).......)))))..(((((.................)))))...--------------....))))))........... ( -27.93)
>DroEre_CAF1 17737 102 + 1
--UUGGAUGGCAAGCGUGCUAAGCAUGGCUGGCUUUUAAACAUAAACAUCGCCAGCGGCGAAGACACGAAAAAAUAAUGCCGAAG--------------AAAAAUC--ACCAACUGAACA
--((((.(((((..((((((..((...((((((.................)))))).))..)).)))).........)))))..(--------------(....))--.))))....... ( -25.73)
>DroYak_CAF1 18812 118 + 1
UAUUGGAUGGCAAGCGUGCUAAGCAUGGCUGGCUUUUAAGCAUAAACAUCGCCAGCGGCGAAGACACGAAAAAAUAAUACCGAAGACAGAUGAAAAAUGAAAAACC--ACCAACUGAACA
..((((.(((....((((((..((...((((((.................)))))).))..)).))))..................((..(....).)).....))--)))))....... ( -24.33)
>consensus
__UUGGAUGGCCAGCGUGCUAAGCAUGGCUGGCUUUUAAGCAUAAACAUGGCCAACGGCGAAGACACGAAGAAAUAGUGCCGAAG______________AAAAAUCCAACCAACUGAACA
..((((.((((((..(((((((((.......))))...))))).....)))))).(((((.................)))))...........................))))....... (-20.85 = -21.65 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:58 2006