Locus 5839

Sequence ID 2R_DroMel_CAF1
Location 18,494,145 – 18,494,295
Length 150
Max. P 0.915552
window9360 window9361

overview

Window 0

Location 18,494,145 – 18,494,256
Length 111
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 81.96
Mean single sequence MFE -27.84
Consensus MFE -19.94
Energy contribution -20.34
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.15
Structure conservation index 0.72
SVM decision value 1.10
SVM RNA-class probability 0.915552
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18494145 111 - 20766785
ACAAAGCCGCUCUAAGCGAAAAGAAUCGAUGCGGCUGCUUAAAUUAUACUUUAUAAUUUGGGCAUAUA---------UGUGGAUUACCCCAAUUGGCAAUUGAACGUAUAAUAGUUCGGU
....((((((......(((......)))..))))))((((((((((((...)))))))))))).....---------(((.((((.....)))).)))(((((((........))))))) ( -31.10)
>DroSec_CAF1 12854 108 - 1
GCAAAGCCGCUCUAAGCGAAAAGAAUCGAUUCGGCUGCUUAAAUUAUACUUUAUAAUUUGGGCAUAUA---------UGUGGAUUACCU---AUGGCAAUUGAACGUAUAAUAGUUCGGU
.....(((((.....))......((((.((.....(((((((((((((...)))))))))))))....---------.)).))))....---..))).(((((((........))))))) ( -27.00)
>DroSim_CAF1 1429 94 - 1
GCAAAGCCGCUCUAAGCGAAAAGAAUCGAUGCGGCUGCUUAAAUUAUACUUUAUAAUUUGGGCAUAUA---------UGUGGAUUACC---------AAUUGAACG--------UUUGGU
(((.((((((......(((......)))..))))))((((((((((((...)))))))))))).....---------))).....(((---------((.......--------.))))) ( -26.80)
>DroEre_CAF1 18241 110 - 1
GUAAAGCCGCUCUAAGCGAAAAGAAUCGAUGCGGCUGCUUAAAUUAUACUUUAUAAUUUGGGCAUAUAC---UCGUCUGUGGAUUACCA---ACUGCAAUUGGGAAUGUAUUAGUU----
....((((((......(((......)))..))))))((((((((((((...))))))))))))((((.(---(((..((..(.......---.)..))..)))).)))).......---- ( -30.70)
>DroYak_CAF1 20006 113 - 1
GUAAAGCCGCUCUAAGCGAAAAGAAUCGAUGCGGCUGCUUAAAUUAUACUUUAUAAUUUGGCCAUAUAUGUAUGUUAUGUGGAUUACCA---UUUGCAAUUGAAAAUAUAAUAGUU----
....((((((......(((......)))..))))))((((((((((((...))))))))))(((((((.......))))))).......---...))...................---- ( -23.60)
>consensus
GCAAAGCCGCUCUAAGCGAAAAGAAUCGAUGCGGCUGCUUAAAUUAUACUUUAUAAUUUGGGCAUAUA_________UGUGGAUUACCA___AUGGCAAUUGAACGUAUAAUAGUU_GGU
....((((((......(((......)))..))))))((((((((((((...))))))))))))......................................................... (-19.94 = -20.34 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 18,494,185 – 18,494,295
Length 110
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.23
Mean single sequence MFE -31.09
Consensus MFE -25.52
Energy contribution -25.40
Covariance contribution -0.12
Combinations/Pair 1.06
Mean z-score -1.57
Structure conservation index 0.82
SVM decision value 0.61
SVM RNA-class probability 0.799362
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18494185 110 - 20766785
UAAUGGCUGGUGAGUUUUGUCUCAAAUCGGAGGA-CGGGUACAAAGCCGCUCUAAGCGAAAAGAAUCGAUGCGGCUGCUUAAAUUAUACUUUAUAAUUUGGGCAUAUA---------UGU
....((((((((.((((((((((...((....))-.))).))))))))))......(((......)))...)))))((((((((((((...)))))))))))).....---------... ( -28.30)
>DroSec_CAF1 12891 110 - 1
UAAUGGCUGGUGAGUUUUGUCUCAAAUCGGAGGA-CGGGUGCAAAGCCGCUCUAAGCGAAAAGAAUCGAUUCGGCUGCUUAAAUUAUACUUUAUAAUUUGGGCAUAUA---------UGU
....((((((((((......))))..(((.((..-(((.(....).)))..))...)))...........))))))((((((((((((...)))))))))))).....---------... ( -29.00)
>DroSim_CAF1 1452 110 - 1
UAAUGGCUGGUGAGUUUUGUCUCAAAUCGGAGGA-CGGGUGCAAAGCCGCUCUAAGCGAAAAGAAUCGAUGCGGCUGCUUAAAUUAUACUUUAUAAUUUGGGCAUAUA---------UGU
....(((((.((((......))))..(((.((..-(((.(....).)))..))...)))............)))))((((((((((((...)))))))))))).....---------... ( -28.70)
>DroEre_CAF1 18274 116 - 1
UAAUGGCUGGUGAAUUUUGUCUCAAAUCAGAGGA-CGGGUGUAAAGCCGCUCUAAGCGAAAAGAAUCGAUGCGGCUGCUUAAAUUAUACUUUAUAAUUUGGGCAUAUAC---UCGUCUGU
......(((((..............))))).(((-((((((((.((((((......(((......)))..))))))((((((((((((...)))))))))))).)))))---)))))).. ( -40.34)
>DroYak_CAF1 20039 120 - 1
UAAUGGCUGGUGAGUUUUGUCUCAAAUCGGGGGAGUGGGUGUAAAGCCGCUCUAAGCGAAAAGAAUCGAUGCGGCUGCUUAAAUUAUACUUUAUAAUUUGGCCAUAUAUGUAUGUUAUGU
..(((((((((..((.(((..((...(((..(((((((.(....).)))))))...)))...))..))).)).)))....((((((((...))))))))))))))............... ( -29.10)
>consensus
UAAUGGCUGGUGAGUUUUGUCUCAAAUCGGAGGA_CGGGUGCAAAGCCGCUCUAAGCGAAAAGAAUCGAUGCGGCUGCUUAAAUUAUACUUUAUAAUUUGGGCAUAUA_________UGU
....(((((.(((.(((((((((......)))((.(((.(....).))).))...))))))....)))...)))))((((((((((((...))))))))))))................. (-25.52 = -25.40 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:52 2006