Locus 8731

Sequence ID	3R_DroMel_CAF1
Location	23,315,685 – 23,315,833
Length	148
Max. P	0.664362

overview

Window 1

Location	23,315,685 – 23,315,804
Length	119
Sequences	5
Columns	119
Reading direction	reverse
Mean pairwise identity	91.76
Mean single sequence MFE	-34.04
Consensus MFE	-25.68
Energy contribution	-25.88
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.57
Structure conservation index	0.75
SVM decision value	-0.05
SVM RNA-class probability	0.508280
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23315685 119 - 27905053
CUUGGCCACGAAUCUUUGCGUGGCAGCAACGGCCUGAGUGGCAAGCUUCAAGGCUACUUACACUCUAAAAUGCUGUUUUCCUGGAAACAAUUAAGAAGUGAAGAAAUGCAAAUUCUCAG
....((((((........)))))).(((..(((((((((.....))))..))))).(((.((((((.((....((((((....)))))).)).)).)))))))...))).......... ( -31.20)
>DroSec_CAF1 113168 119 - 1
CUUGGCCACGAAUUUGUGCGUGGCAGCAACGGCCUGAGUGGCAAGCUUCAAGGCUACUUACACUCUAAAAUGCUGUUUUCCUGGAAACAAUUAAGAAGUGUAGAAAUGCAACUUCUCAG
....((((((........))))))...((((((..(((((...((((....)))).....)))))......))))))....((....))....(((((((((....))).))))))... ( -36.80)
>DroSim_CAF1 117373 119 - 1
CUUGGCCACGAAUCUGUGCGUGGCAGCAACGGCCUGAGUGGCAAGCUUCAAGGCUACUUACACUCUAAAAUGCUGUUUUCCUGGAAACAAUUAAGAAGUGAAGAAAUGCAACUUCUCAG
....((((((........))))))...((((((..(((((...((((....)))).....)))))......))))))....((....))....((((((..(....)...))))))... ( -33.50)
>DroEre_CAF1 119449 119 - 1
CUUGGCCACGAAUCUGUACGUGGCAGCCAAGGCCUGAGUGGCAUGCUUCAAGGACACUUACACUCCAAAAUGUUGUUUUCCUGGAAACAAUUAUGAAGUGAAGAAAUGCAACUUAACAG
((((((((((........))))))(((....(((.....)))..))).))))....(((.((((.((....((((((((....))))))))..)).)))))))................ ( -33.10)
>DroYak_CAF1 124337 119 - 1
CUUGGCCACGAAUCUGUACGUGGCAGCCAUUGGCUGAGUGGCAGGCUUCAAGGAUGCUUACACUCUAAAAUGUUGUUUUCCUGGAAACAAUUAUGAAGUGUAGAAAUGCAACGUAACAG
....((((((........))))))((((...))))(((((..((((((....)).)))).)))))......((((((((....))))))))((((...((((....)))).)))).... ( -35.60)
>consensus
CUUGGCCACGAAUCUGUGCGUGGCAGCAACGGCCUGAGUGGCAAGCUUCAAGGCUACUUACACUCUAAAAUGCUGUUUUCCUGGAAACAAUUAAGAAGUGAAGAAAUGCAACUUCUCAG
....((((((........)))))).((....(((.....)))..((((((((....)))..............((((((....)))))).....)))))........)).......... (-25.68 = -25.88 +   0.20)

alignment

secondary structure

dotplot

Window 2

Location	23,315,725 – 23,315,833
Length	108
Sequences	6
Columns	118
Reading direction	forward
Mean pairwise identity	78.38
Mean single sequence MFE	-30.43
Consensus MFE	-18.94
Energy contribution	-19.78
Covariance contribution	0.84
Combinations/Pair	1.29
Mean z-score	-1.51
Structure conservation index	0.62
SVM decision value	0.28
SVM RNA-class probability	0.664362
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23315725 108 + 27905053
AAAACAGCAUUUUAGAGUGUAAGUAGCCUUGAAGCUUGCCACUCAGGCCGUUGCUGCCACGCAAAGAUUCGUGGCCAAGUGAGCGUGCAGAUUACU-CAUACUUUC-----UUU----
.............(((((((.((((..((....((.(((((((..(((....)))((((((........))))))..)))).))).))))..))))-.))))))).-----...---- ( -28.50)
>DroSec_CAF1 113208 108 + 1
AAAACAGCAUUUUAGAGUGUAAGUAGCCUUGAAGCUUGCCACUCAGGCCGUUGCUGCCACGCACAAAUUCGUGGCCAAGUGAGAGUGCAGCUUACU-CAUACUUUC-----UUU----
................(.((((((.(((((...(((((.......(((....)))((((((........)))))))))))..))).)).)))))).-)........-----...---- ( -28.90)
>DroSim_CAF1 117413 108 + 1
AAAACAGCAUUUUAGAGUGUAAGUAGCCUUGAAGCUUGCCACUCAGGCCGUUGCUGCCACGCACAGAUUCGUGGCCAAGUGAGCGUGCAGAUUACU-CAUACUUUC-----UUU----
.............(((((((.((((..((....((.(((((((..(((....)))((((((........))))))..)))).))).))))..))))-.))))))).-----...---- ( -28.50)
>DroEre_CAF1 119489 108 + 1
AAAACAACAUUUUGGAGUGUAAGUGUCCUUGAAGCAUGCCACUCAGGCCUUGGCUGCCACGUACAGAUUCGUGGCCAAGUGAGCGUGCAGAUUACC-CAUACUCCC-----CUU----
.............(((((((..(((..((....((((((((((..(((....)))((((((........))))))..)))).))))))))..))).-.))))))).-----...---- ( -38.10)
>DroYak_CAF1 124377 117 + 1
AAAACAACAUUUUAGAGUGUAAGCAUCCUUGAAGCCUGCCACUCAGCCAAUGGCUGCCACGUACAGAUUCGUGGCCAAGUGAGCGUGCAGAUUACU-CAUACUCAUACUUUCUUAAUA
..............((((((..((.((...)).))(((((.(((((((...))))((((((........)))))).....))).).))))......-.)))))).............. ( -31.10)
>DroPer_CAF1 116693 94 + 1
---------------AGUGGCUGUGUUUUUGAAGUUUGCCCCUCUGGCAAUUGUUGCCACGCACAGAUUCCUGCGCAAGUGGGCAUGCAUAAUGCUUCCAACUUUC-----UUC----
---------------..(((..(((((..((.....(((((((.(((((.....))))).((.(((....))).)).)).)))))..)).)))))..)))......-----...---- ( -27.50)
>consensus
AAAACAGCAUUUUAGAGUGUAAGUAGCCUUGAAGCUUGCCACUCAGGCCGUUGCUGCCACGCACAGAUUCGUGGCCAAGUGAGCGUGCAGAUUACU_CAUACUUUC_____UUU____
.............(((((((..((((.((....((.(((((((..(((....)))((((((........))))))..)))).))).)))).))))...)))))))............. (-18.94 = -19.78 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:18:20 2006