Locus 3386

Sequence ID 2R_DroMel_CAF1
Location 11,446,125 – 11,446,253
Length 128
Max. P 0.892964
window5534 window5535

overview

Window 4

Location 11,446,125 – 11,446,223
Length 98
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 80.06
Mean single sequence MFE -20.58
Consensus MFE -15.72
Energy contribution -15.40
Covariance contribution -0.32
Combinations/Pair 1.12
Mean z-score -1.54
Structure conservation index 0.76
SVM decision value 0.31
SVM RNA-class probability 0.682382
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11446125 98 - 20766785
UGGCUUGAUACCAUUUCUCACAUUUUCCAUUCGGGUCAGUCGCUGGAAACAGCUGUGGGCUGUCCC-CCCAC----------CCCU-UACCAUUCCCUUCUAAAGAGAAU
(((.......))).(((((..............(((.((..((((....)))).(((((.......-)))))----------..))-.))).............))))). ( -23.43)
>DroSec_CAF1 65006 98 - 1
UGGCUUGAUACCAUUUCUCACAUUUUCCAUUCGGGUCAGUCGCUGGAAACAGCUGUGGGCUGUCCC-CCCAC----------CCCU-UACCAUUCCCUUUUAAAGAAAAU
((((((((......................)))))))).((((((....)))).(((((.......-)))))----------....-.................)).... ( -22.15)
>DroSim_CAF1 55010 99 - 1
UGCUUUGAUACCAUUUCUCACAUUUUCCAUUCGGGUCAGUCGCUGGAAACAGCUGUGGGCUGUCCCCCCCAC----------CCCU-UACCAUUCCCUUUUAAAGAAAAU
.....................((((((.....(((......((((....)))).(((((........)))))----------....-.......))).......)))))) ( -20.70)
>DroEre_CAF1 62048 108 - 1
UGGCUUCAUUCCAUUUUUCACAUUUUCUUUUCGGGUCAGUCGCUGGAAACAGCUGUGCGCUGUCCC-UCCACCUCCCUCUACCCCA-CCUCACUACCUUCUAAAGAGAAU
(((.......)))........(((((((((..((((.(((.((((....)))).(((.(.......-.))))..............-....)))))))...))))))))) ( -20.20)
>DroYak_CAF1 60701 102 - 1
UGGCUUUAUUCCGUUUUUCACAUUUUCUUUUCGGGUCAGUCGCUGAAAACAGCUGUGCG--------UCCACCUUCCUCUACCCCAACCCCCAUACCUUCUGAAGAGAAU
........................(((((((((((......((((....)))).(((..--------..)))..........................))))))))))). ( -16.40)
>consensus
UGGCUUGAUACCAUUUCUCACAUUUUCCAUUCGGGUCAGUCGCUGGAAACAGCUGUGGGCUGUCCC_CCCAC__________CCCU_UACCAUUCCCUUCUAAAGAGAAU
................................(((......((((....)))).(((((........)))))..........)))............((((....)))). (-15.72 = -15.40 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 11,446,152 – 11,446,253
Length 101
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 77.50
Mean single sequence MFE -34.75
Consensus MFE -20.98
Energy contribution -22.23
Covariance contribution 1.26
Combinations/Pair 1.36
Mean z-score -1.92
Structure conservation index 0.60
SVM decision value 0.97
SVM RNA-class probability 0.892964
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11446152 101 - 20766785
CGGUUGUCGAGCGUGCUGCGCAUACGCGCUUGGCUUGAUACCAUUUCUCACAUUUUCCAUUCGGGUCAGUCGCU---GGAAACAGCUGUGGGCUGUCCC-CCCAC-----
.(((.(((((((.....((((....))))...))))))))))....................(((.((((((((---(....))))....))))).)))-.....----- ( -39.60)
>DroSec_CAF1 65033 101 - 1
CGGUUGUCGAGCGUGCUGCGCAUACGCGCUUGGCUUGAUACCAUUUCUCACAUUUUCCAUUCGGGUCAGUCGCU---GGAAACAGCUGUGGGCUGUCCC-CCCAC-----
.(((.(((((((.....((((....))))...))))))))))....................(((.((((((((---(....))))....))))).)))-.....----- ( -39.60)
>DroSim_CAF1 55037 102 - 1
CGGUUGUCGAGCGUGCUGCGCAUACGCGCUUGCUUUGAUACCAUUUCUCACAUUUUCCAUUCGGGUCAGUCGCU---GGAAACAGCUGUGGGCUGUCCCCCCCAC-----
.(((.((((((((....((((....)))).))).))))))))....................(((.((((((((---(....))))....))))).)))......----- ( -37.20)
>DroEre_CAF1 62080 106 - 1
CGGUUGUCGAGCGUGCUGCGCAUACGCGCUUGGCUUCAUUCCAUUUUUCACAUUUUCUUUUCGGGUCAGUCGCU---GGAAACAGCUGUGCGCUGUCCC-UCCACCUCCC
.(((.((((((((((.........))))))))))............................(((.((((.(((---(....)))).....)))).)))-...))).... ( -34.90)
>DroYak_CAF1 60734 99 - 1
CGGUGGUCGAGCGUGCUGCGCAUACGCGCUUGGCUUUAUUCCGUUUUUCACAUUUUCUUUUCGGGUCAGUCGCU---GAAAACAGCUGUGCG--------UCCACCUUCC
.(((((....(((.....)))..((((((..((((....((((..................))))..))))(((---(....)))).)))))--------)))))).... ( -31.37)
>DroPer_CAF1 64918 84 - 1
AGGC-UCGGGGCGUGCUGCGCAUACGCGG-UGGUUCCAUUCCGUUU-------------UUCGGGUCACUCUUUUGGGAAAACAGCUGUGUGGU--UCU-UU--------
.((.-..(((((.(((((((....)))))-)))))))...))....-------------...(..((((.(..(((......)))..).)))).--.).-..-------- ( -25.80)
>consensus
CGGUUGUCGAGCGUGCUGCGCAUACGCGCUUGGCUUGAUACCAUUUCUCACAUUUUCCAUUCGGGUCAGUCGCU___GGAAACAGCUGUGGGCUGUCCC_CCCAC_____
.((.((((((((.....((((....))))...))))))))))....................(((.(((((((....(....)....))).)))).)))........... (-20.98 = -22.23 +   1.26)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:18 2006