Locus 6620

Sequence ID X_DroMel_CAF1
Location 16,507,198 – 16,507,293
Length 95
Max. P 0.653656
window10813 window10814

overview

Window 3

Location 16,507,198 – 16,507,293
Length 95
Sequences 3
Columns 95
Reading direction forward
Mean pairwise identity 77.78
Mean single sequence MFE -17.21
Consensus MFE -11.21
Energy contribution -12.10
Covariance contribution 0.89
Combinations/Pair 1.13
Mean z-score -1.60
Structure conservation index 0.65
SVM decision value 0.25
SVM RNA-class probability 0.653656
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16507198 95 + 22224390
GCAACAGAAAGACUCAACAAAUUGCAUUAGUUUUAUGCAAUUUGGUGUUUCCACAUUUAUUAAGUACGAUUACCGGAUUUGCCUAACACACACAC
.................((((((((((.......))))))))))(((((..((.((((..(((......)))..)))).))...)))))...... ( -16.80)
>DroSec_CAF1 4007 87 + 1
GCAACAGAAAAACUCAACAAAUUGCAUUAGUUUUACGCAAUUCGGUGUUUCCACAUU---UAAGUACGAUUACCGGAUUUGCUUAACACA-----
((((.................))))....((.(((.(((((((((((.((..((...---...))..)).))))))).)))).))).)).----- ( -15.13)
>DroEre_CAF1 4042 81 + 1
GCAACAGAAA---ACAACGAAUUGCAGUACUUUUAUGCAAUUUGGUGUUUCCACAUU---GAAGUGCUUUUUCUUGAUU-----AGCACACA---
......(.((---(((.(((((((((.........))))))))).))))).).....---...(((((..((...))..-----)))))...--- ( -19.70)
>consensus
GCAACAGAAA_ACUCAACAAAUUGCAUUAGUUUUAUGCAAUUUGGUGUUUCCACAUU___UAAGUACGAUUACCGGAUUUGC_UAACACACA___
.................((((((((((.......))))))))))(((((..((.(((...(((......)))...))).))...)))))...... (-11.21 = -12.10 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 16,507,198 – 16,507,293
Length 95
Sequences 3
Columns 95
Reading direction reverse
Mean pairwise identity 77.78
Mean single sequence MFE -20.10
Consensus MFE -13.15
Energy contribution -13.27
Covariance contribution 0.12
Combinations/Pair 1.19
Mean z-score -1.57
Structure conservation index 0.65
SVM decision value 0.21
SVM RNA-class probability 0.633363
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16507198 95 - 22224390
GUGUGUGUGUUAGGCAAAUCCGGUAAUCGUACUUAAUAAAUGUGGAAACACCAAAUUGCAUAAAACUAAUGCAAUUUGUUGAGUCUUUCUGUUGC
((.((.....)).)).......(((((.(.((((((.....(((....)))((((((((((.......))))))))))))))))....).))))) ( -20.70)
>DroSec_CAF1 4007 87 - 1
-----UGUGUUAAGCAAAUCCGGUAAUCGUACUUA---AAUGUGGAAACACCGAAUUGCGUAAAACUAAUGCAAUUUGUUGAGUUUUUCUGUUGC
-----........((((...(((.......(((((---(..(((....)))((((((((((.......))))))))))))))))....))))))) ( -20.70)
>DroEre_CAF1 4042 81 - 1
---UGUGUGCU-----AAUCAAGAAAAAGCACUUC---AAUGUGGAAACACCAAAUUGCAUAAAAGUACUGCAAUUCGUUGU---UUUCUGUUGC
---...(((((-----...........)))))..(---((((.(((((((.(.(((((((.........))))))).).)))---))))))))). ( -18.90)
>consensus
___UGUGUGUUA_GCAAAUCCGGUAAUCGUACUUA___AAUGUGGAAACACCAAAUUGCAUAAAACUAAUGCAAUUUGUUGAGU_UUUCUGUUGC
............................(((..........(((....)))((((((((((.......))))))))))..............))) (-13.15 = -13.27 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:28 2006