Locus 5639

Sequence ID	2L_DroMel_CAF1
Location	15,995,143 – 15,995,245
Length	102
Max. P	0.831486

overview

Window 5

Location	15,995,143 – 15,995,245
Length	102
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	82.84
Mean single sequence MFE	-27.14
Consensus MFE	-18.32
Energy contribution	-17.82
Covariance contribution	-0.50
Combinations/Pair	1.06
Mean z-score	-1.81
Structure conservation index	0.67
SVM decision value	0.10
SVM RNA-class probability	0.584134
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15995143 102 + 22407834
GGUUCCUUCGGU------GCCAUUGUCAGCUCAUUUGUAAUUUUUGGCACAACGAUUUCAAAUUAAGCAACCGGAAAUGAGCUGACAUUUUGUAUUCUGU-UUCCCAUU
(((..(....).------)))..(((((((((((((.(((((((((......)))....)))))).........))))))))))))).............-........ ( -22.70)
>DroVir_CAF1 152650 103 + 1
GGGUUCUUGGUUG-UGUUCGCAUUGUCAGCUCAUUUGUAAUUUUU-GCGCUACGAUUUCAAAUUAAGCAACCGGAAAUGAGCUGACAUUUUGCAGCCAGU-GUCCU---
(((..((.(((((-((.......((((((((((((((((.....)-))(((..............)))......)))))))))))))...))))))))).-.))).--- ( -32.94)
>DroGri_CAF1 150135 105 + 1
GGAUUCUUGGUUGCUGUUCGCAUUGUCAGCUCAUUUGUAAUUUUU-GCGCUACGAUUUCAAAUUAAGCAGCCGGAAAUGAGCUGACAUUUUG---CCUGUUGUCCUUGU
((((....((((((.....))).((((((((((((((((.....)-))(((..............)))......)))))))))))))....)---))....)))).... ( -30.44)
>DroEre_CAF1 157162 104 + 1
GGUUCCUUCGGUG-U---GCCAUUGUCAGCUCAUUUGUAAUUUUUGGCACAACGAUUUCAAAUUAAGCAACCGGAAAUGAGCUGACAUUCUGUAUGCUGU-UUCCCAUU
((......(((((-(---((...(((((((((((((.(((((((((......)))....)))))).........)))))))))))))....)))))))).-...))... ( -28.30)
>DroMoj_CAF1 155174 100 + 1
GGGCUCUUGGUUG-UGUUCGCAUUGUCAGCUCAUUUGUAAUUUUU-GCGCAACGAUUUCAAAUUAAGCAACCGGAAAUGAGCUGACAUUUUG---CCAGU-GUUCU---
((((.((.(((((-(....))).(((((((((((((.(.....((-((..................))))..).)))))))))))))....)---)))).-)))).--- ( -28.77)
>DroAna_CAF1 107113 96 + 1
GGUUUCUUUGGUG-U---CCCAUUGUCAGCUCAUUUGUAAUUUUUGGCACAACGAUUUCAAAUUAAGCAACCGGAAAUGAGCUGACAUUUCGUAUUCGGU---------
........(((..-.---.))).(((((((((((((.(((((((((......)))....)))))).........)))))))))))))..(((....))).--------- ( -19.70)
>consensus
GGUUUCUUGGGUG_U___CCCAUUGUCAGCUCAUUUGUAAUUUUU_GCACAACGAUUUCAAAUUAAGCAACCGGAAAUGAGCUGACAUUUUGUAUCCUGU_GUCCU___
.........((........))..(((((((((((((.(........((..................))....).)))))))))))))...................... (-18.32 = -17.82 +  -0.50)

alignment

secondary structure

dotplot

Window 6

Location	15,995,143 – 15,995,245
Length	102
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	82.84
Mean single sequence MFE	-25.12
Consensus MFE	-18.88
Energy contribution	-19.38
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-2.35
Structure conservation index	0.75
SVM decision value	0.72
SVM RNA-class probability	0.831486
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15995143 102 - 22407834
AAUGGGAA-ACAGAAUACAAAAUGUCAGCUCAUUUCCGGUUGCUUAAUUUGAAAUCGUUGUGCCAAAAAUUACAAAUGAGCUGACAAUGGC------ACCGAAGGAACC
....(...-.)...........(((((((((((((.(((((.(.......).)))))..(((........)))))))))))))))).....------............ ( -22.80)
>DroVir_CAF1 152650 103 - 1
---AGGAC-ACUGGCUGCAAAAUGUCAGCUCAUUUCCGGUUGCUUAAUUUGAAAUCGUAGCGC-AAAAAUUACAAAUGAGCUGACAAUGCGAACA-CAACCAAGAACCC
---.((..-..((..((((...(((((((((((((..((((.(.......).))))((((...-.....))))))))))))))))).))))..))-...))........ ( -27.20)
>DroGri_CAF1 150135 105 - 1
ACAAGGACAACAGG---CAAAAUGUCAGCUCAUUUCCGGCUGCUUAAUUUGAAAUCGUAGCGC-AAAAAUUACAAAUGAGCUGACAAUGCGAACAGCAACCAAGAAUCC
....(((.....((---.....(((((((((((((...(((((.............)))))(.-........)))))))))))))).(((.....))).)).....))) ( -26.72)
>DroEre_CAF1 157162 104 - 1
AAUGGGAA-ACAGCAUACAGAAUGUCAGCUCAUUUCCGGUUGCUUAAUUUGAAAUCGUUGUGCCAAAAAUUACAAAUGAGCUGACAAUGGC---A-CACCGAAGGAACC
....(...-.)...........(((((((((((((.(((((.(.......).)))))..(((........)))))))))))))))).(((.---.-..)))........ ( -23.60)
>DroMoj_CAF1 155174 100 - 1
---AGAAC-ACUGG---CAAAAUGUCAGCUCAUUUCCGGUUGCUUAAUUUGAAAUCGUUGCGC-AAAAAUUACAAAUGAGCUGACAAUGCGAACA-CAACCAAGAGCCC
---.....-...((---(....(((((((((((((....((((.((((........)))).))-)).......))))))))))))).((......-)).......))). ( -26.30)
>DroAna_CAF1 107113 96 - 1
---------ACCGAAUACGAAAUGUCAGCUCAUUUCCGGUUGCUUAAUUUGAAAUCGUUGUGCCAAAAAUUACAAAUGAGCUGACAAUGGG---A-CACCAAAGAAACC
---------.............(((((((((((((.(((((.(.......).)))))..(((........)))))))))))))))).(((.---.-..)))........ ( -24.10)
>consensus
___AGGAC_ACAGGAUACAAAAUGUCAGCUCAUUUCCGGUUGCUUAAUUUGAAAUCGUUGCGC_AAAAAUUACAAAUGAGCUGACAAUGCG___A_CAACCAAGAAACC
......................(((((((((((((..((((((.((((........)))).))....))))..)))))))))))))....................... (-18.88 = -19.38 +   0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:10 2006