Locus 6511

Sequence ID	2L_DroMel_CAF1
Location	18,315,286 – 18,315,516
Length	230
Max. P	0.994148

overview

Window 9

Location	18,315,286 – 18,315,399
Length	113
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	64.82
Mean single sequence MFE	-19.75
Consensus MFE	-6.94
Energy contribution	-7.92
Covariance contribution	0.98
Combinations/Pair	1.21
Mean z-score	-1.86
Structure conservation index	0.35
SVM decision value	-0.05
SVM RNA-class probability	0.506108
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18315286 113 + 22407834
-UGUGGGUCAAAUAC----GACCUAUUAACGGCUUCUAACUUGUAGAUAUUA--GGUAAAUAAAUACUGUACAAACCCAUACUCAUAAUAUUUAAAUUAGCACCAUGCUAAGAAACUUUA
-.(((((((......----)))))))....((.((((......(((((((((--((((......))))(((........)))...)))))))))...((((.....)))))))).))... ( -19.60)
>DroSec_CAF1 159058 98 + 1
-UGUGGGUCAAAUACAUACAAGCUGUUUACGGCUUAUAACUUGU---------------------ACUUUACAAUCCCAUAAUCAUAAUAAAUAAAUUAGCGCCCUGCUAAAAAACUUUA
-((((((............((((((....)))))).....((((---------------------(...))))).))))))...............(((((.....)))))......... ( -18.50)
>DroSim_CAF1 167578 92 + 1
-UGUGGGUCAAAUACAUACAAGCUGU------CUUAUAACUUGU---------------------ACUUUACAAUCCCAUAAUCAUAAUAAAUAAAUUAGCGCCAUGCUAAAAAACUUUA
-((((((.........((((((.(((------...))).)))))---------------------).........))))))...............(((((.....)))))......... ( -15.77)
>DroEre_CAF1 160654 105 + 1
-UGUGGUUCAAA-------AAGUUGUUACCGGCUUCUGGUAUGUUUAUUCUACAACAAAGUAAAUAAUGAAUUAGGCCAC---AGUCGUAAAUAAAUUAGCACCCUGCUAACAAA----G
-((((((..((.-------..(((((((((((...))))).((((........)))).....))))))...))..)))))---)............(((((.....)))))....----. ( -20.80)
>DroYak_CAF1 170557 116 + 1
AUGUGGGUCAAAUAC----AAGUUGUUAGCGGCUUCUAAUAGGCUUAUUCUACAACGAAGUAAAUAAUUUACUAGGCCAUUUCCAUAAUAAAUAAAUUAGCGCCCUGCUAACAAACUUAG
...............----((((((((((((((..(((((.(((((((((......)))((((.....))))))))))(((.....)))......))))).)))..)))))).))))).. ( -24.10)
>consensus
_UGUGGGUCAAAUAC____AAGCUGUUAACGGCUUCUAACUUGU__AU__UA_____AA_UAAAUACUUUACAAGCCCAUAAUCAUAAUAAAUAAAUUAGCGCCCUGCUAAAAAACUUUA
..(((((............((((((....))))))...............(((......))).............)))))................(((((.....)))))......... ( -6.94 =  -7.92 +   0.98)

alignment

secondary structure

dotplot

Window 0

Location	18,315,399 – 18,315,516
Length	117
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	86.58
Mean single sequence MFE	-31.34
Consensus MFE	-24.63
Energy contribution	-24.39
Covariance contribution	-0.24
Combinations/Pair	1.22
Mean z-score	-2.93
Structure conservation index	0.79
SVM decision value	2.45
SVM RNA-class probability	0.994148
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18315399 117 - 22407834
AACAAACUCAUUAGAGCUUAGCCUGCAUCUCCGGUUUUGAUGACACAUCUAUUUAGGUGGAAAAAUUUAGGUGACUAACGUGUUCUAUUUUCCUUUGCGUCAUAACUGGAGUUCAAA
.............((((.......))..((((((((.(((((.(((((((....)))))(((....((((....))))....)))..........))))))).)))))))).))... ( -29.60)
>DroSec_CAF1 159156 117 - 1
AACAAACUCAUUACAGCUAAGCCUGCAUCUCCGGUUUUGAUGACACAUCUAUUUAGGCGGAAAAUUUUAGGUGACUAAUAUGUUCUAUUUUCCUUUGCGUCAUAACUGGAGAUUAAA
...............((.......))((((((((((.(((((.((..(((....))).(((((((.((((....))))........)))))))..))))))).)))))))))).... ( -30.80)
>DroSim_CAF1 167670 117 - 1
AACAAACUCAUUACAGCUUAGCCUGCAUCUCCGGUUUUGAUGACACAUCUAUUUAGGCGGAAAAUUUUGGGUGACUAACAUGUUCUAUUUUCCUUUGCGUCAUAACUGGAGAUUAAA
...............((.......))((((((((((.(((((.((..(((....))).(((((((.((((....))))........)))))))..))))))).)))))))))).... ( -29.80)
>DroEre_CAF1 160759 112 - 1
AAAAAACUCAUUACAGCUCAGCCUGCAUCUUCCGUUUUGAUGACACAUCUAUUUAUUGGGAAUAACUUAGGUGACUAA-----UCUACUUUUCUUUGUGUCAUCACUGGAGAUCGAA
.......((......((.......))((((.(((...((((((((((((((.....))))......((((....))))-----............)))))))))).))))))).)). ( -25.70)
>DroYak_CAF1 170673 117 - 1
AAUAAAUUCAUUACAGCUCAGGCUGCAUCUCCGGUGUUGAUGACACAUAUUUUUAGGUGGAAAAAUUUAGGUGACUAACGUGUUCUAUUUUUCUGUGCAUCGUCACUGGAGAUUCAA
.............((((....)))).((((((((((.(((((.((((.......((((((((....((((....))))....))))))))...))))))))).)))))))))).... ( -40.80)
>consensus
AACAAACUCAUUACAGCUCAGCCUGCAUCUCCGGUUUUGAUGACACAUCUAUUUAGGCGGAAAAAUUUAGGUGACUAACAUGUUCUAUUUUCCUUUGCGUCAUAACUGGAGAUUAAA
...............((.......))((((((((((.(((((.((.............((((....((((....))))....)))).........))))))).)))))))))).... (-24.63 = -24.39 +  -0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:57 2006