Locus 7460

Sequence ID	X_DroMel_CAF1
Location	18,634,656 – 18,634,765
Length	109
Max. P	0.828663

overview

Window 4

Location	18,634,656 – 18,634,765
Length	109
Sequences	6
Columns	118
Reading direction	forward
Mean pairwise identity	80.19
Mean single sequence MFE	-31.97
Consensus MFE	-17.50
Energy contribution	-17.28
Covariance contribution	-0.22
Combinations/Pair	1.16
Mean z-score	-2.40
Structure conservation index	0.55
SVM decision value	0.71
SVM RNA-class probability	0.828663
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18634656 109 + 22224390
CACUUGCCUGCUGGGCCAAGUGGUCAGUUAAUGGCUGCACUGG--------UCUUCUCAUUUUCUUGCGACAUUUUUAUGCUCUUGACUUGCAUAAAUAUUUGCG-CAGCCCGCAAAA
...((((..(((((((((.(..((((.....))))..)..)))--------)).............((((.((.(((((((.........))))))).)))))).-))))..)))).. ( -33.20)
>DroPse_CAF1 15105 101 + 1
CACUUGGCUU-AGAGUCAAGUGGCCGGUUAAUGGUGGCAUUGGGGCCUGUCUCUGGGUAUUUUCUUGCGACAUUUUUAUGCUUUCGACUUGCAUAAAUAUUU----------------
((((((((..-...))))))))((((.....))))(((......)))((((.(.(((.....))).).))))..(((((((.........))))))).....---------------- ( -28.30)
>DroSim_CAF1 10957 109 + 1
CACUUGCCUGCUGGGCCAAGUGGUCAGUUAAUGGCUGCACUGG--------UCUUCUCAUUUUCUUGCGACAUUUUUAUGCUCUUGACUUGCAUAAAUAUUUGCG-CAGCCCGCAAAA
...((((..(((((((((.(..((((.....))))..)..)))--------)).............((((.((.(((((((.........))))))).)))))).-))))..)))).. ( -33.20)
>DroEre_CAF1 10921 109 + 1
CACUUGCCUGCUGGGCCAAGUGGUCAGUUAAUGGCUGCACUGG--------UCUUCUCAUUUUCUUGCGACAUUUUUAUGCUCUUGACUUGCAUAAAUAUUUGCG-CAGCCCGCAAAA
...((((..(((((((((.(..((((.....))))..)..)))--------)).............((((.((.(((((((.........))))))).)))))).-))))..)))).. ( -33.20)
>DroYak_CAF1 11415 110 + 1
CACUUGGCUGCUGGGCCAAGUGGUCAGUUAAUGGCUGCACUGG--------UCUUCUCAUUUUCUUGCGACAUUUUUAUGCUCUUGACUUGCAUAAAUAUUUGCCUUGGCCCGCAAAA
........(((.((((((((.(..((((..........)))).--------.).............((((.((.(((((((.........))))))).)))))))))))))))))... ( -33.40)
>DroPer_CAF1 15209 101 + 1
CACUUGGCUU-AGAGUCAAGUGGCCGGUUAAUGGUCGCAUUGGGGCCUGUCUCUGGGUAUUUUCUUGCGACAUUUUUAUGCUUUCGACUUGCAUAAAUAUUU----------------
((((((((..-...))))))))...........((((((.....((((......)))).......))))))...(((((((.........))))))).....---------------- ( -30.50)
>consensus
CACUUGCCUGCUGGGCCAAGUGGUCAGUUAAUGGCUGCACUGG________UCUUCUCAUUUUCUUGCGACAUUUUUAUGCUCUUGACUUGCAUAAAUAUUUGCG_CAGCCCGCAAAA
((((((.((....)).))))))((((.....))))...............................((((.((.(((((((.........))))))).)))))).............. (-17.50 = -17.28 +  -0.22)

alignment

secondary structure

dotplot

Window 5

Location	18,634,656 – 18,634,765
Length	109
Sequences	6
Columns	118
Reading direction	reverse
Mean pairwise identity	80.19
Mean single sequence MFE	-27.97
Consensus MFE	-14.82
Energy contribution	-15.82
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-2.01
Structure conservation index	0.53
SVM decision value	0.05
SVM RNA-class probability	0.561059
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18634656 109 - 22224390
UUUUGCGGGCUG-CGCAAAUAUUUAUGCAAGUCAAGAGCAUAAAAAUGUCGCAAGAAAAUGAGAAGA--------CCAGUGCAGCCAUUAACUGACCACUUGGCCCAGCAGGCAAGUG
.......(((((-(((.....(((((((.........)))))))....((....))...........--------...))))))))..........((((((.((.....)))))))) ( -33.10)
>DroPse_CAF1 15105 101 - 1
----------------AAAUAUUUAUGCAAGUCGAAAGCAUAAAAAUGUCGCAAGAAAAUACCCAGAGACAGGCCCCAAUGCCACCAUUAACCGGCCACUUGACUCU-AAGCCAAGUG
----------------.....(((((((.........)))))))....((....))...............((((..((((....))))....))))(((((.(...-..).))))). ( -18.80)
>DroSim_CAF1 10957 109 - 1
UUUUGCGGGCUG-CGCAAAUAUUUAUGCAAGUCAAGAGCAUAAAAAUGUCGCAAGAAAAUGAGAAGA--------CCAGUGCAGCCAUUAACUGACCACUUGGCCCAGCAGGCAAGUG
.......(((((-(((.....(((((((.........)))))))....((....))...........--------...))))))))..........((((((.((.....)))))))) ( -33.10)
>DroEre_CAF1 10921 109 - 1
UUUUGCGGGCUG-CGCAAAUAUUUAUGCAAGUCAAGAGCAUAAAAAUGUCGCAAGAAAAUGAGAAGA--------CCAGUGCAGCCAUUAACUGACCACUUGGCCCAGCAGGCAAGUG
.......(((((-(((.....(((((((.........)))))))....((....))...........--------...))))))))..........((((((.((.....)))))))) ( -33.10)
>DroYak_CAF1 11415 110 - 1
UUUUGCGGGCCAAGGCAAAUAUUUAUGCAAGUCAAGAGCAUAAAAAUGUCGCAAGAAAAUGAGAAGA--------CCAGUGCAGCCAUUAACUGACCACUUGGCCCAGCAGCCAAGUG
((((((((((....)).....(((((((.........)))))))....))))))))...........--------.((((..........))))..((((((((......)))))))) ( -30.90)
>DroPer_CAF1 15209 101 - 1
----------------AAAUAUUUAUGCAAGUCGAAAGCAUAAAAAUGUCGCAAGAAAAUACCCAGAGACAGGCCCCAAUGCGACCAUUAACCGGCCACUUGACUCU-AAGCCAAGUG
----------------.....(((((((.........)))))))....((....))...............((((..((((....))))....))))(((((.(...-..).))))). ( -18.80)
>consensus
UUUUGCGGGCUG_CGCAAAUAUUUAUGCAAGUCAAGAGCAUAAAAAUGUCGCAAGAAAAUGAGAAGA________CCAGUGCAGCCAUUAACUGACCACUUGGCCCAGCAGCCAAGUG
.......(((...........(((((((.........)))))))....((....))...........................)))..........((((((.(......).)))))) (-14.82 = -15.82 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:28 2006