Locus 4460

Sequence ID	X_DroMel_CAF1
Location	11,802,772 – 11,802,932
Length	160
Max. P	0.993153

overview

Window 7

Location	11,802,772 – 11,802,892
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	92.61
Mean single sequence MFE	-33.13
Consensus MFE	-28.25
Energy contribution	-28.86
Covariance contribution	0.61
Combinations/Pair	1.11
Mean z-score	-2.31
Structure conservation index	0.85
SVM decision value	1.33
SVM RNA-class probability	0.942391
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11802772 120 + 22224390
GGUCUUCAAUGGGCGUAGUACACGCAAUACCCGAAGCGAUUUAAUAGUCGAUAAAUUUUGUCCAGCGCUGCUACCGCUCAUAUCGAAACCGAAACUAACAGCAGCGCAUAUAACGACCAC
((((.....(((((((.....))))...........(((((....)))))...........)))((((((((..........(((....))).......)))))))).......)))).. ( -32.53)
>DroVir_CAF1 8489 120 + 1
GGUCUUCAAUGGACGCAAUACUCGCAAGACACGAAGCGAUUUUAUAGUUGACAAAUUUUGUCCAGCGCUGCUACCGCUCAUAUCGAAACCGAAACUAACAGCAGCGCAUAUAACGACCAC
((((.....((((((.(((..((....))......((((((....))))).)..))).))))))((((((((..........(((....))).......)))))))).......)))).. ( -33.73)
>DroGri_CAF1 8310 120 + 1
GGUCUUCAAUGGACGCAGUACACGCAAAACACGAAGCGAUUUGAUAGUUGACAAAUUUUGUCCAGCGCUGCUACCGCUCAUAUCGAAACCGAAACUAACAGCAGCGCAUAUAACGACCAC
((((.....(((((........(((..........)))(((((........)))))...)))))((((((((..........(((....))).......)))))))).......)))).. ( -32.63)
>DroWil_CAF1 8903 120 + 1
GGUCUUCAAGGGCCGAAGGACACGCAAUACUCGCAACGAUUUAAUAGUCGAUAAAUUUUGUCCAGCGCUGCUACCGCUCAUAUCGAAACCGAAACUAACAGCAGCGCAUAUAACGACCAC
((((.............(((((.((.......))..(((((....)))))........))))).((((((((..........(((....))).......)))))))).......)))).. ( -34.13)
>DroMoj_CAF1 7103 120 + 1
AGUCUUCAAUGGACGCAGGACGCGCAGCACCCGAAGCGAUUUGAUAGUGGACAAAUUUUGUCCAGCGCUGCUACCGCUCAUAUCGAAACCGAAACUAACAGCAGCGCAUAUAACGACCAC
.((((.....))))...((.(((((..(....)..))).........((((((.....))))))((((((((..........(((....))).......))))))))......)).)).. ( -31.93)
>DroAna_CAF1 5953 120 + 1
GGUCUUUAAUGGACGCAGAACACGCAAUACUCGAAGCGAUUUAAUUGUCGAUAAAUUUUGUCCAGCGCUGCUACCGCUCAUAUCGAAACCGAAACUAACAGCAGCGCAUAUAACGACCAC
((((.(((.(((((((.......))...........((((......)))).........)))))((((((((..........(((....))).......))))))))...))).)))).. ( -33.83)
>consensus
GGUCUUCAAUGGACGCAGUACACGCAAUACACGAAGCGAUUUAAUAGUCGACAAAUUUUGUCCAGCGCUGCUACCGCUCAUAUCGAAACCGAAACUAACAGCAGCGCAUAUAACGACCAC
((((.....(((((((.......))...........(((((....))))).........)))))((((((((..........(((....))).......)))))))).......)))).. (-28.25 = -28.86 +   0.61)

alignment

secondary structure

dotplot

Window 8

Location	11,802,812 – 11,802,932
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	97.44
Mean single sequence MFE	-22.76
Consensus MFE	-21.41
Energy contribution	-21.33
Covariance contribution	-0.08
Combinations/Pair	1.07
Mean z-score	-1.72
Structure conservation index	0.94
SVM decision value	2.38
SVM RNA-class probability	0.993153
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11802812 120 + 22224390
UUAAUAGUCGAUAAAUUUUGUCCAGCGCUGCUACCGCUCAUAUCGAAACCGAAACUAACAGCAGCGCAUAUAACGACCACAGCAUCCAUAAUAUUCCAGAAUUCUCUUAAAUAGCUGCCA
......(((((((.....))))..((((((((..........(((....))).......)))))))).......)))..((((........((((..(((....)))..))))))))... ( -22.83)
>DroVir_CAF1 8529 120 + 1
UUUAUAGUUGACAAAUUUUGUCCAGCGCUGCUACCGCUCAUAUCGAAACCGAAACUAACAGCAGCGCAUAUAACGACCACAGCAUCCAUAAUAUUCCAGAAUUCUCUUAAAUAGCUGCCA
.(((((...((((.....))))..((((((((..........(((....))).......)))))))).)))))......((((........((((..(((....)))..))))))))... ( -22.23)
>DroGri_CAF1 8350 120 + 1
UUGAUAGUUGACAAAUUUUGUCCAGCGCUGCUACCGCUCAUAUCGAAACCGAAACUAACAGCAGCGCAUAUAACGACCACAGCAUCCAUAAUAUUCCAGAAUUCUCUUAAAUAGCUGCCA
......(((((((.....))))..((((((((..........(((....))).......))))))))....))).....((((........((((..(((....)))..))))))))... ( -22.23)
>DroMoj_CAF1 7143 120 + 1
UUGAUAGUGGACAAAUUUUGUCCAGCGCUGCUACCGCUCAUAUCGAAACCGAAACUAACAGCAGCGCAUAUAACGACCACAGCAUCCAUAAUAUUCCAGAAUUCUCUUAAAUAGCUGCCA
.......((((((.....))))))((((((((..........(((....))).......))))))))............((((........((((..(((....)))..))))))))... ( -26.53)
>DroAna_CAF1 5993 120 + 1
UUAAUUGUCGAUAAAUUUUGUCCAGCGCUGCUACCGCUCAUAUCGAAACCGAAACUAACAGCAGCGCAUAUAACGACCACAGCAUCCAUAAUAUUCCAGAAUUCUCUUAAAUAGCUUCCC
......(((((((.....))))..((((((((..........(((....))).......)))))))).......)))..............((((..(((....)))..))))....... ( -19.93)
>DroPer_CAF1 4540 120 + 1
UUAAUAGUCGAUAAAUUUUGUCCAGCGCUGCUACCGCUCAUAUCGAAACCGAAACUAACAGCAGCGCAUAUAACGACCACAGCAUCCAUAAUAUUCCAGAAUUCUCUUAAAUAGCUGCCA
......(((((((.....))))..((((((((..........(((....))).......)))))))).......)))..((((........((((..(((....)))..))))))))... ( -22.83)
>consensus
UUAAUAGUCGACAAAUUUUGUCCAGCGCUGCUACCGCUCAUAUCGAAACCGAAACUAACAGCAGCGCAUAUAACGACCACAGCAUCCAUAAUAUUCCAGAAUUCUCUUAAAUAGCUGCCA
......(((((((.....))))..((((((((..........(((....))).......)))))))).......)))..((((........((((..(((....)))..))))))))... (-21.41 = -21.33 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:35 2006