Locus 6597

Sequence ID 3R_DroMel_CAF1
Location 17,361,723 – 17,361,817
Length 94
Max. P 0.827562
window10741 window10742

overview

Window 1

Location 17,361,723 – 17,361,817
Length 94
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 84.60
Mean single sequence MFE -23.79
Consensus MFE -20.13
Energy contribution -21.30
Covariance contribution 1.17
Combinations/Pair 1.00
Mean z-score -1.92
Structure conservation index 0.85
SVM decision value 0.61
SVM RNA-class probability 0.797974
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17361723 94 + 27905053
-----A------UACAUGCAAAAGUGCUGCCACAGCUAAUUUAAUAAUUUAUCAUUUGGCUGCAAGGCAGCAACAAAAGAUUAUUUAAAUUCGCGUGUUACACGG------
-----.------.((((((.....(((((((.(((((((..(((....)))....)))))))...)))))))......((..........)))))))).......------ ( -27.10)
>DroPse_CAF1 15874 106 + 1
UACAA-----UAUACAUGCAAAACUGCUGCCACAGCUAAUUUAAUAAUUUAUCAUUUGGCUGCGAGGCAGCAACAAAAGAUUAUUUAAAUUCGCGUGCUACACGGCCGGGU
.....-----....(((((.....(((((((.(((((((..(((....)))....)))))))...)))))))......((..........))))))).............. ( -25.90)
>DroGri_CAF1 15613 100 + 1
-----------UGACAUGCAAAACUGCCGCCACAGCUAAUUUAAUAAUUUAUCAUUUUGCUGCAGGGCAACAACAAAAGAUUAUUUAAAUUCGCGUAUUACGCAGCCGGGU
-----------......(((....))).(((.(.((((((((((((((((......(((((....))))).......)))))).))))))).(((.....)))))).)))) ( -18.22)
>DroYak_CAF1 20516 100 + 1
-----AUACUCGUACAUGCAAAACUGCUGGCACAGCUAAUUUAAUAAUUUAUCAUUUGGCUGCAAGGCAGCAACAAAAGAUUAUUUAAAUUCGCGUGUUACACGG------
-----.....(((((((((.....(((((.(.(((((((..(((....)))....)))))))...).)))))......((..........))))))))...))).------ ( -24.40)
>DroAna_CAF1 7288 105 + 1
UACAAAGAGAGGUACAUGCAAAACGGCUGCCACAGCUAAUUUAAUAAUUUAUCAUUUGGCUGCAAGGCAACAACAAAAGAUUAUUUAAAUUCGCGUGUUACACGG------
...........((((((((......(.((((.(((((((..(((....)))....)))))))...)))).).......((..........))))))).)))....------ ( -21.20)
>DroPer_CAF1 8681 106 + 1
UACAA-----UACACAUGCAAAACUGCUGCCACAGCUAAUUUAAUAAUUUAUCAUUUGGCUGCGAGGCAGCAACAAAAGAUUAUUUAAAUUCGCGUGCUACACGGCCGGGU
.....-----....(((((.....(((((((.(((((((..(((....)))....)))))))...)))))))......((..........))))))).............. ( -25.90)
>consensus
___________AUACAUGCAAAACUGCUGCCACAGCUAAUUUAAUAAUUUAUCAUUUGGCUGCAAGGCAGCAACAAAAGAUUAUUUAAAUUCGCGUGUUACACGG______
..............(((((.....(((((((.(((((((..(((....)))....)))))))...)))))))......((..........))))))).............. (-20.13 = -21.30 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 17,361,723 – 17,361,817
Length 94
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 84.60
Mean single sequence MFE -25.47
Consensus MFE -22.64
Energy contribution -22.58
Covariance contribution -0.05
Combinations/Pair 1.13
Mean z-score -1.76
Structure conservation index 0.89
SVM decision value 0.70
SVM RNA-class probability 0.827562
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17361723 94 - 27905053
------CCGUGUAACACGCGAAUUUAAAUAAUCUUUUGUUGCUGCCUUGCAGCCAAAUGAUAAAUUAUUAAAUUAGCUGUGGCAGCACUUUUGCAUGUA------U-----
------.(((((((...(((((............)))))(((((((..(((((....(((((...))))).....))))))))))))...)))))))..------.----- ( -24.50)
>DroPse_CAF1 15874 106 - 1
ACCCGGCCGUGUAGCACGCGAAUUUAAAUAAUCUUUUGUUGCUGCCUCGCAGCCAAAUGAUAAAUUAUUAAAUUAGCUGUGGCAGCAGUUUUGCAUGUAUA-----UUGUA
.....((.(((((.((.(((((....(((((....)))))((((((..(((((....(((((...))))).....)))))))))))...))))).))))))-----).)). ( -27.10)
>DroGri_CAF1 15613 100 - 1
ACCCGGCUGCGUAAUACGCGAAUUUAAAUAAUCUUUUGUUGUUGCCCUGCAGCAAAAUGAUAAAUUAUUAAAUUAGCUGUGGCGGCAGUUUUGCAUGUCA-----------
.((((((((((.....))).(((((((...((((((((((((......))))))))).)))......)))))))))))).)).((((........)))).----------- ( -26.90)
>DroYak_CAF1 20516 100 - 1
------CCGUGUAACACGCGAAUUUAAAUAAUCUUUUGUUGCUGCCUUGCAGCCAAAUGAUAAAUUAUUAAAUUAGCUGUGCCAGCAGUUUUGCAUGUACGAGUAU-----
------.(((((((.((...(((((((...(((.((((..(((((...))))))))).)))......))))))).((((...)))).)).))))))).........----- ( -21.90)
>DroAna_CAF1 7288 105 - 1
------CCGUGUAACACGCGAAUUUAAAUAAUCUUUUGUUGUUGCCUUGCAGCCAAAUGAUAAAUUAUUAAAUUAGCUGUGGCAGCCGUUUUGCAUGUACCUCUCUUUGUA
------.(((((((.(((........(((((....)))))((((((..(((((....(((((...))))).....)))))))))))))).))))))).............. ( -23.80)
>DroPer_CAF1 8681 106 - 1
ACCCGGCCGUGUAGCACGCGAAUUUAAAUAAUCUUUUGUUGCUGCCUCGCAGCCAAAUGAUAAAUUAUUAAAUUAGCUGUGGCAGCAGUUUUGCAUGUGUA-----UUGUA
((...(((((((((.(((((((............)))))(((((((..(((((....(((((...))))).....)))))))))))))).))))))).)).-----..)). ( -28.60)
>consensus
______CCGUGUAACACGCGAAUUUAAAUAAUCUUUUGUUGCUGCCUUGCAGCCAAAUGAUAAAUUAUUAAAUUAGCUGUGGCAGCAGUUUUGCAUGUAC___________
.......(((((((.(((((((............)))))(((((((..(((((....(((((...))))).....)))))))))))))).))))))).............. (-22.64 = -22.58 +  -0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:30 2006