Locus 4403

Sequence ID	X_DroMel_CAF1
Location	11,597,095 – 11,597,240
Length	145
Max. P	0.904525

overview

Window 0

Location	11,597,095 – 11,597,212
Length	117
Sequences	6
Columns	118
Reading direction	forward
Mean pairwise identity	80.86
Mean single sequence MFE	-32.55
Consensus MFE	-24.14
Energy contribution	-25.50
Covariance contribution	1.36
Combinations/Pair	1.12
Mean z-score	-2.22
Structure conservation index	0.74
SVM decision value	1.04
SVM RNA-class probability	0.904525
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11597095 117 + 22224390
UUUUCCC-UAUUUUCAGAUCCGAUCGCCACGCCCACAGCGCCAACAUGUGGAGCCCACAAAAAGGCCCUACACGACUGUGGGACCUUAGGUUUAGUAGCUGUAUAUUUAUCUUACACU
.......-......(((....((((......(((((((((......(((((.(((........))).))))))).)))))))......))))......)))................. ( -26.90)
>DroVir_CAF1 34973 116 + 1
-CGCUUU-CUUUUGCAGAUAUAGCCGCAGCGCCCACAUCGCCAGCAUGUGGAGCCCACAAAAAGGUCCUACACGGCUGUGGGACCUUAGAUUUAGUAGCUGUAUAUUUAUUUUACAUU
-.((...-.....))..(((((((..(.(.(((((((((....).)))))).)).).....(((((((((((....))))))))))).......)..))))))).............. ( -38.90)
>DroGri_CAF1 41936 113 + 1
-CA---C-CCAUUCCAGAUAUAGGCGAAGCGCCCACAUCGCCAGCAUGUGGAGCCCACAAAAAGGUCCUACACGGCUGUGGGACCUUAGACUUAGUAGCUGUAUAUUUAUCUUACAUU
-..---.-.......((((((((((((.(......).)))))(((.(((((...)))))..(((((((((((....)))))))))))..........))).))))))).......... ( -35.70)
>DroWil_CAF1 59036 117 + 1
-UUCAUCUCGUUCUCAGAUCUAGACGCAGCGCCCACAUUGCCAAUAUGUGGAGUCCACAAAAAGGUCCUACACGUCUGUGGGACAUUAGAUUUAGUAGCUGUAUAUUUAUUUUACAUU
-........(((((.((((((((.....(.((((((((.......)))))).)).)........((((((((....)))))))).)))))))))).)))((((.........)))).. ( -28.80)
>DroMoj_CAF1 40131 116 + 1
-UCUUCU-UCUUUGCAGAUAUAGCCGCAGCGUCCACAUCUCCAGCAUGUGGAGCCCACAAAAAGGUCCUACACGGCUGUGGGACCUUAGACUUAGUAGCUGUAUAUUUAUUUUACAUU
-......-.........(((((((..(.((.((((((((....).))))))))).......(((((((((((....))))))))))).......)..))))))).............. ( -37.40)
>DroAna_CAF1 40364 116 + 1
-CUUUUU-UAAUUUCAGUUUCGAUUGCCACUUCCACAGAACCAAUAUGUGGAGUCCACAGAAGGGCCCUACACGACUGUGGGACCUUAGGUUUAGUAGCUGUAUAUUUAUCUUACACC
-......-......(((((.(....(((..(((((((.........))))))).......((((..((((((....)))))).)))).)))...).)))))................. ( -27.60)
>consensus
_CUUUUC_CAUUUUCAGAUAUAGCCGCAGCGCCCACAUCGCCAACAUGUGGAGCCCACAAAAAGGUCCUACACGGCUGUGGGACCUUAGAUUUAGUAGCUGUAUAUUUAUCUUACAUU
.........................(((((((((((((.......)))))).)).......(((((((((((....)))))))))))..........)))))................ (-24.14 = -25.50 +   1.36)

alignment

secondary structure

dotplot

Window 1

Location	11,597,132 – 11,597,240
Length	108
Sequences	6
Columns	110
Reading direction	forward
Mean pairwise identity	83.01
Mean single sequence MFE	-27.68
Consensus MFE	-21.54
Energy contribution	-21.18
Covariance contribution	-0.36
Combinations/Pair	1.17
Mean z-score	-2.19
Structure conservation index	0.78
SVM decision value	0.68
SVM RNA-class probability	0.821504
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11597132 108 + 22224390
CGCCAACAUGUGGAGCCCACAAAAAGGCCCUACACGACUGUGGGACCUUAGGUUUAGUAGCUGUAUAUUUAUCUUACACUUAAUGGUAAGUAAGCA--AAAUCAAAUUGU
.(((....(((((...)))))..((((.((((((....)))))).)))).)))........(((.((((((((...........)))))))).)))--............ ( -26.40)
>DroVir_CAF1 35009 104 + 1
CGCCAGCAUGUGGAGCCCACAAAAAGGUCCUACACGGCUGUGGGACCUUAGAUUUAGUAGCUGUAUAUUUAUUUUACAUUUAAUGGUGAGUACAAUUUGAAA---G---U
(((((((.(((((...)))))..(((((((((((....)))))))))))..........))((((.........)))).....)))))..............---.---. ( -30.30)
>DroGri_CAF1 41969 104 + 1
CGCCAGCAUGUGGAGCCCACAAAAAGGUCCUACACGGCUGUGGGACCUUAGACUUAGUAGCUGUAUAUUUAUCUUACAUUUAAUGGUGAGUAUAACUAACAU---A---U
...((((.(((((...)))))..(((((((((((....)))))))))))..........))))((((((((((...........))))))))))........---.---. ( -33.90)
>DroWil_CAF1 59073 105 + 1
UGCCAAUAUGUGGAGUCCACAAAAAGGUCCUACACGUCUGUGGGACAUUAGAUUUAGUAGCUGUAUAUUUAUUUUACAUUUAACGGUAAGUCAAAU--AAAU--AAUU-A
((((....(((((...))))).....((((((((....))))))))..........((((..(((....))).)))).......))))........--....--....-. ( -21.70)
>DroYak_CAF1 29933 93 + 1
CCCCAACAUGUGGAGCCCACAAAAAGGCCCUACACGACUGUGGGACCUUAGGUUUAGUAGCUGUAUAUUUAUCUUACACUUAAUGGUAAGUA-----------------U
..((....(((((...)))))..((((.((((((....)))))).)))).))............(((((((((...........))))))))-----------------) ( -22.40)
>DroMoj_CAF1 40167 106 + 1
CUCCAGCAUGUGGAGCCCACAAAAAGGUCCUACACGGCUGUGGGACCUUAGACUUAGUAGCUGUAUAUUUAUUUUACAUUUAAUGGUAAGU-CACUUUGAAUCAUA---U
(((((.....)))))....(((((((((((((((....))))))))))).((((((.((..((((.........)))).....)).)))))-)..)))).......---. ( -31.40)
>consensus
CGCCAACAUGUGGAGCCCACAAAAAGGUCCUACACGGCUGUGGGACCUUAGAUUUAGUAGCUGUAUAUUUAUCUUACAUUUAAUGGUAAGUAAAAU__AAAU___A___U
.....((((((((...)))))..(((((((((((....)))))))))))............)))........(((((........))))).................... (-21.54 = -21.18 +  -0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:08 2006