Locus 5803

Sequence ID	2R_DroMel_CAF1
Location	18,375,145 – 18,375,252
Length	107
Max. P	0.807161

overview

Window 6

Location	18,375,145 – 18,375,252
Length	107
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	81.93
Mean single sequence MFE	-30.38
Consensus MFE	-18.23
Energy contribution	-19.12
Covariance contribution	0.89
Combinations/Pair	1.09
Mean z-score	-1.89
Structure conservation index	0.60
SVM decision value	0.01
SVM RNA-class probability	0.538684
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18375145 107 + 20766785
GUGCG-AGGACGAGGGAGGGCCGCAGGGGAAAAGGACGCCUGCCUCCAUGUGGCUGACAUAAUGAAACAUUAUUAAGAGCCACGACGUCAAAGCGGCAAAAGGUAUCU
.(((.-..((((..((((....(((((.(.......).))))))))).(((((((...((((((...))))))....))))))).))))...)))............. ( -35.00)
>DroSec_CAF1 11956 90 + 1
G---------------GGGGCCGCAGGGGAAAAGGACGC--GCCUCCAUGUGGCUGACAUAAUGAAACAUUAUUAAGAGCCACGACGUCAAAGCGGCAA-AGGUAUCU
.---------------...(((((.((((..........--..)))).(((((((...((((((...))))))....)))))))........)))))..-........ ( -26.90)
>DroSim_CAF1 13119 93 + 1
G---------------GGGGCCGCAGGGGAAAAGGACGCCUGCCUCCAUGUGGCUGACAUAAUGAAACAUUAUUAAGAGCCACGACGUCAAAGCGGCAAAAGGUAUCU
.---------------...(((((.((((...(((...)))..)))).(((((((...((((((...))))))....)))))))........)))))........... ( -29.90)
>DroEre_CAF1 12306 99 + 1
GG------GGCGU---AGGAGGGCAGGGUAGAAGGACGCCUGCCUCCAUGUGGCUGACAUAAUGAAACAUUAUUAAGAGCCACGACGUCAAAGCGGCAAAAGGUAUCU
..------(((((---.(((((.((((((......)).))))))))).(((((((...((((((...))))))....))))))))))))................... ( -35.10)
>DroWil_CAF1 21602 93 + 1
GA--------------GGGGAAGGGAUGCAGCUAGA-GGCAGCGUCUAUGUGGCUGACAUAAUGAAACAUUAUUAAGAGCCACGACGUCAAAGCUGCAAAAGGUAUCU
..--------------..........(((((((...-.(..(((((...((((((...((((((...))))))....))))))))))))..))))))).......... ( -26.00)
>DroAna_CAF1 10886 102 + 1
GC---CCGGGAGG---AGGGCCGAAAGAGAGACGAAUGCCUGCCUCCAUGUGGCUGACAUAAUGAAACAUUAUUAAGAGCCACGACGUCAAAGCUGCAAAAGGUAUCU
((---(..(((((---.(((((....)..........)))).))))).(((((((...((((((...))))))....))))))).................))).... ( -29.40)
>consensus
G_______________AGGGCCGCAGGGGAAAAGGACGCCUGCCUCCAUGUGGCUGACAUAAUGAAACAUUAUUAAGAGCCACGACGUCAAAGCGGCAAAAGGUAUCU
...................(((((.........(((.(....).))).(((((((...((((((...))))))....)))))))........)))))........... (-18.23 = -19.12 +   0.89)

alignment

secondary structure

dotplot

Window 7

Location	18,375,145 – 18,375,252
Length	107
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	81.93
Mean single sequence MFE	-27.90
Consensus MFE	-20.00
Energy contribution	-20.28
Covariance contribution	0.28
Combinations/Pair	1.19
Mean z-score	-2.08
Structure conservation index	0.72
SVM decision value	0.64
SVM RNA-class probability	0.807161
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18375145 107 - 20766785
AGAUACCUUUUGCCGCUUUGACGUCGUGGCUCUUAAUAAUGUUUCAUUAUGUCAGCCACAUGGAGGCAGGCGUCCUUUUCCCCUGCGGCCCUCCCUCGUCCU-CGCAC
..............((...(((...((((((....((((((...))))))...))))))...((((.(((.((((.........).)))))).)))))))..-.)).. ( -30.70)
>DroSec_CAF1 11956 90 - 1
AGAUACCU-UUGCCGCUUUGACGUCGUGGCUCUUAAUAAUGUUUCAUUAUGUCAGCCACAUGGAGGC--GCGUCCUUUUCCCCUGCGGCCCC---------------C
........-..(((((.....(((.((((((....((((((...))))))...)))))))))((((.--....)))).......)))))...---------------. ( -25.30)
>DroSim_CAF1 13119 93 - 1
AGAUACCUUUUGCCGCUUUGACGUCGUGGCUCUUAAUAAUGUUUCAUUAUGUCAGCCACAUGGAGGCAGGCGUCCUUUUCCCCUGCGGCCCC---------------C
...........(((((...((((((((((((....((((((...))))))...)))))).((....))))))))..........)))))...---------------. ( -27.92)
>DroEre_CAF1 12306 99 - 1
AGAUACCUUUUGCCGCUUUGACGUCGUGGCUCUUAAUAAUGUUUCAUUAUGUCAGCCACAUGGAGGCAGGCGUCCUUCUACCCUGCCCUCCU---ACGCC------CC
..............((.........((((((....((((((...))))))...))))))..(((((((((.((......)))))).))))).---..)).------.. ( -30.00)
>DroWil_CAF1 21602 93 - 1
AGAUACCUUUUGCAGCUUUGACGUCGUGGCUCUUAAUAAUGUUUCAUUAUGUCAGCCACAUAGACGCUGCC-UCUAGCUGCAUCCCUUCCCC--------------UC
..........(((((((..((((((((((((....((((((...))))))...))))))...)))).....-)).)))))))..........--------------.. ( -26.10)
>DroAna_CAF1 10886 102 - 1
AGAUACCUUUUGCAGCUUUGACGUCGUGGCUCUUAAUAAUGUUUCAUUAUGUCAGCCACAUGGAGGCAGGCAUUCGUCUCUCUUUCGGCCCU---CCUCCCGG---GC
(((.((....(((.(((((..(((.((((((....((((((...))))))...))))))))))))))..)))...)).)))......((((.---......))---)) ( -27.40)
>consensus
AGAUACCUUUUGCCGCUUUGACGUCGUGGCUCUUAAUAAUGUUUCAUUAUGUCAGCCACAUGGAGGCAGGCGUCCUUCUCCCCUGCGGCCCC_______________C
...........(((((.........((((((....((((((...))))))...))))))..(((.(....).))).........)))))................... (-20.00 = -20.28 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:50 2006