Locus 7802

Sequence ID	3L_DroMel_CAF1
Location	20,861,364 – 20,861,461
Length	97
Max. P	0.938986

overview

Window 5

Location	20,861,364 – 20,861,461
Length	97
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	69.79
Mean single sequence MFE	-33.73
Consensus MFE	-14.82
Energy contribution	-15.10
Covariance contribution	0.28
Combinations/Pair	1.25
Mean z-score	-2.04
Structure conservation index	0.44
SVM decision value	1.27
SVM RNA-class probability	0.938986
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20861364 97 + 23771897
AUAGCUUGCGCUGGCAGCUGGAAGCCAAAUGGCGGCAUAGACAAAUGGCCCUGGU-GGUAACAUAAAUAACGGCCA--CGGUUC-GGCUUUUGGG------CCG-GGC------------
.......((.(((((..(..((((((.(((.(.(((........(((..((....-))...)))........))).--).))).-))))))..))------)))-)))------------ ( -33.19)
>DroVir_CAF1 145480 85 + 1
AUAGCCUGCGCUGGCAGCUGGAAGCCAAAUGGCGGCAUAGACAAAUGGCCACAGUCGGGCGCAUAAAUAAUGCAGC--CCGUCC-G-C-------------------A------------
...(((......))).((.(((.(((....)))(((.((......))))).....(((((((((.....)))).))--))))))-)-)-------------------.------------ ( -32.00)
>DroPse_CAF1 131034 104 + 1
AUAGCCUGCGCUGGCAGCUGGAAGCCAAAUGGCGGCAUAGACAAAUGGCCCGGGC-GGCCACAUAAAUAACA--CA--AGGCCC-GGCCC---GG------CCC-GACCAAGCCUGUUGU
(((((..((((((.((..(((...)))..)).)))).........(((.((((((-((((............--..--.)))).-.))))---))------.))-).....))..))))) ( -38.06)
>DroGri_CAF1 132207 84 + 1
AUAGCCUGCGCUGGCAGCUGGAAGCCAAAUGGCGGCAUAGACAAAUGGCCAUAGUCAAGCGCAUAAAUAAUGCAC---CCGUCC-G-C-------------------A------------
.........((.(((.(((.((.(((....)))(((.((......)))))....)).)))((((.....))))..---..))).-)-)-------------------.------------ ( -23.00)
>DroWil_CAF1 166501 107 + 1
AUAGCUUGCUCUGGCAGCUGGAAGCCAAAUGGCGGCAUAGACAAAUGGCCAAAGC-GGCCACAUAAAUAACGGCCGACCAACUCCAACUCCAACUAAUUCAACGGGGU------------
..((((.((....))))))(((.(((....)))(((.........(((((.....-)))))...........))).......))).(((((............)))))------------ ( -30.45)
>DroAna_CAF1 118771 98 + 1
AUAGCCUGUGCUGGCAGCUGGAAGCCAAAUGGCGGCAUAGACAAAUGGCUCUGGU-GGCCACAUAAAUAACGGCCC--CAGCUCCAGCUCCAGCU------ACA-GAC------------
.....(((((((((.((((((((((((..((.(......).))..)))))((((.-((((...........)))))--))).)))))))))))).------)))-)..------------ ( -45.70)
>consensus
AUAGCCUGCGCUGGCAGCUGGAAGCCAAAUGGCGGCAUAGACAAAUGGCCAUAGU_GGCCACAUAAAUAACGGCCA__CAGCCC_GGCUC____________C__G_C____________
.((((.(((....)))))))(..(((....)))..).........(((((......)))))........................................................... (-14.82 = -15.10 +   0.28)

alignment

secondary structure

dotplot

Window 6

Location	20,861,364 – 20,861,461
Length	97
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	69.79
Mean single sequence MFE	-37.05
Consensus MFE	-12.27
Energy contribution	-12.30
Covariance contribution	0.03
Combinations/Pair	1.07
Mean z-score	-2.28
Structure conservation index	0.33
SVM decision value	1.22
SVM RNA-class probability	0.932497
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20861364 97 - 23771897
------------GCC-CGG------CCCAAAAGCC-GAACCG--UGGCCGUUAUUUAUGUUACC-ACCAGGGCCAUUUGUCUAUGCCGCCAUUUGGCUUCCAGCUGCCAGCGCAAGCUAU
------------...-.((------(....(((((-(((..(--((((....((..(((...((-....))..)))..))....)))))..))))))))......)))(((....))).. ( -30.50)
>DroVir_CAF1 145480 85 - 1
------------U-------------------G-C-GGACGG--GCUGCAUUAUUUAUGCGCCCGACUGUGGCCAUUUGUCUAUGCCGCCAUUUGGCUUCCAGCUGCCAGCGCAGGCUAU
------------.-------------------(-(-((.(((--((.((((.....))))))))).))))(((.((......)))))(((..(((((........)))))....)))... ( -31.90)
>DroPse_CAF1 131034 104 - 1
ACAACAGGCUUGGUC-GGG------CC---GGGCC-GGGCCU--UG--UGUUAUUUAUGUGGCC-GCCCGGGCCAUUUGUCUAUGCCGCCAUUUGGCUUCCAGCUGCCAGCGCAGGCUAU
......(((.(((.(-((.------((---((((.-.((((.--((--((.....)))).))))-)))))).))....).))).)))(((..(((((........)))))....)))... ( -42.80)
>DroGri_CAF1 132207 84 - 1
------------U-------------------G-C-GGACGG---GUGCAUUAUUUAUGCGCUUGACUAUGGCCAUUUGUCUAUGCCGCCAUUUGGCUUCCAGCUGCCAGCGCAGGCUAU
------------.-------------------(-(-((((((---((((((.....))))))))).....(((((..((.(......).))..))))))))..((((....))))))... ( -28.50)
>DroWil_CAF1 166501 107 - 1
------------ACCCCGUUGAAUUAGUUGGAGUUGGAGUUGGUCGGCCGUUAUUUAUGUGGCC-GCUUUGGCCAUUUGUCUAUGCCGCCAUUUGGCUUCCAGCUGCCAGAGCAAGCUAU
------------.....(((....((((((((((..((..(((.((((...((..((.((((((-.....)))))).))..)).)))))))))..)).))))))))....)))....... ( -36.20)
>DroAna_CAF1 118771 98 - 1
------------GUC-UGU------AGCUGGAGCUGGAGCUG--GGGCCGUUAUUUAUGUGGCC-ACCAGAGCCAUUUGUCUAUGCCGCCAUUUGGCUUCCAGCUGCCAGCACAGGCUAU
------------(((-(((------.((((((((((((.(((--((((((.........)))))-.))))(((((..((.(......).))..)))))))))))).)))))))))))... ( -52.40)
>consensus
____________G_C__G____________GAGCC_GAACCG__GGGCCGUUAUUUAUGUGGCC_ACCAGGGCCAUUUGUCUAUGCCGCCAUUUGGCUUCCAGCUGCCAGCGCAGGCUAU
......................................................................(((((..((.(......).))..)))))...((((((....))).))).. (-12.27 = -12.30 +   0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:17 2006