Locus 3434

Sequence ID	2L_DroMel_CAF1
Location	9,986,331 – 9,986,429
Length	98
Max. P	0.665429

overview

Window 8

Location	9,986,331 – 9,986,429
Length	98
Sequences	5
Columns	107
Reading direction	forward
Mean pairwise identity	86.79
Mean single sequence MFE	-21.73
Consensus MFE	-17.18
Energy contribution	-17.30
Covariance contribution	0.12
Combinations/Pair	1.18
Mean z-score	-1.51
Structure conservation index	0.79
SVM decision value	0.06
SVM RNA-class probability	0.565187
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9986331 98 + 22407834
CAACUGAAUUCGGCAGCAUUGCAGCUGCUCAUCAGAACGCUUCCCCUAGAGCUCCCCCAUCCGCUCCAGAACCCACUCGCAGUCCCU---------CCAGCUCCUCC
...((((....((((((......))))))..))))...(((....((.((((..........)))).)).....((.....))....---------..)))...... ( -18.70)
>DroSec_CAF1 17650 107 + 1
CAACUGGAUUCGGCGGCAUUGCAGCUGCUCAUCAGACCGCUUCCCCUAGAGCUCCCCCAUUCGCUCCAGAACCCACUCCCAGUCCCUUCAAACCCUCCAGCUCCUCC
...(((((...((((((......)))))).....(((.((((......)))).......(((......)))..........)))...........)))))....... ( -20.30)
>DroSim_CAF1 20492 107 + 1
CAACUGGAUUCGGCGGCAUUGCAGCUGCUCAUCAGACCGCUUCCCCUAGAGCUCCCCCAUUCGCUACAGAGCCCACUCCCAGUCCCUCCAAUCCCUCUAGCUCCUCC
...((((....((((((......))))))..))))..........((((((...........(((...(((....)))..)))...........))))))....... ( -19.65)
>DroEre_CAF1 18132 101 + 1
CAACUGGAUUCGGCGGCAUUGCAGCUGUUCAUCAGUCCGCUUC-CCUAGAGCUCCCCCAUCCGCUCCAGAACCCACUCCAAAUCCCUCCAAUCCCUCCAGCG-----
...(((((...(((((.......((((.....)))))))))..-.((.((((..........)))).))..........................)))))..----- ( -20.21)
>DroYak_CAF1 18262 104 + 1
CAACUGGAUUCGGCGGCAUUGCAGCUGCUCAUCAGAGCGCUUCCCCUAGAGCUCCCCCAUCCGCUCCAGAACUCACUCCAAAUGCCUCCAAUCCCUCCAGCUC---C
.....(((((.((.((((((..(((.((((....)))))))....((.((((..........)))).))...........)))))).))))))).........---. ( -29.80)
>consensus
CAACUGGAUUCGGCGGCAUUGCAGCUGCUCAUCAGACCGCUUCCCCUAGAGCUCCCCCAUCCGCUCCAGAACCCACUCCCAGUCCCUCCAAUCCCUCCAGCUCCUCC
...(((((...((((((......))))))................((.((((..........)))).))..........................)))))....... (-17.18 = -17.30 +   0.12)

alignment

secondary structure

dotplot

Window 9

Location	9,986,331 – 9,986,429
Length	98
Sequences	5
Columns	107
Reading direction	reverse
Mean pairwise identity	86.79
Mean single sequence MFE	-35.98
Consensus MFE	-25.58
Energy contribution	-27.54
Covariance contribution	1.96
Combinations/Pair	1.10
Mean z-score	-1.87
Structure conservation index	0.71
SVM decision value	0.28
SVM RNA-class probability	0.665429
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9986331 98 - 22407834
GGAGGAGCUGG---------AGGGACUGCGAGUGGGUUCUGGAGCGGAUGGGGGAGCUCUAGGGGAAGCGUUCUGAUGAGCAGCUGCAAUGCUGCCGAAUUCAGUUG
.....((((((---------((((((.((.......(((((((((..........)))))))))...)))))))..((.(((((......)))))))..))))))). ( -32.10)
>DroSec_CAF1 17650 107 - 1
GGAGGAGCUGGAGGGUUUGAAGGGACUGGGAGUGGGUUCUGGAGCGAAUGGGGGAGCUCUAGGGGAAGCGGUCUGAUGAGCAGCUGCAAUGCCGCCGAAUCCAGUUG
.....(((((((.((((......))))..(.((((.(((((((((..........)))))))))...((((.(((.....)))))))....)))))...))))))). ( -35.90)
>DroSim_CAF1 20492 107 - 1
GGAGGAGCUAGAGGGAUUGGAGGGACUGGGAGUGGGCUCUGUAGCGAAUGGGGGAGCUCUAGGGGAAGCGGUCUGAUGAGCAGCUGCAAUGCCGCCGAAUCCAGUUG
.......................(((((((...(((((((.(........).)))))))..((((..((((.(((.....)))))))....)).))...))))))). ( -31.80)
>DroEre_CAF1 18132 101 - 1
-----CGCUGGAGGGAUUGGAGGGAUUUGGAGUGGGUUCUGGAGCGGAUGGGGGAGCUCUAGG-GAAGCGGACUGAUGAACAGCUGCAAUGCCGCCGAAUCCAGUUG
-----.((((((....((((.((.(((.........(((((((((..........))))))))-)..((((.(((.....)))))))))).)).)))).)))))).. ( -35.80)
>DroYak_CAF1 18262 104 - 1
G---GAGCUGGAGGGAUUGGAGGCAUUUGGAGUGAGUUCUGGAGCGGAUGGGGGAGCUCUAGGGGAAGCGCUCUGAUGAGCAGCUGCAAUGCCGCCGAAUCCAGUUG
.---.(((((((....((((.((((((.(.(((...(((((((((..........))))))))).....((((....)))).))).))))))).)))).))))))). ( -44.30)
>consensus
GGAGGAGCUGGAGGGAUUGGAGGGACUGGGAGUGGGUUCUGGAGCGGAUGGGGGAGCUCUAGGGGAAGCGGUCUGAUGAGCAGCUGCAAUGCCGCCGAAUCCAGUUG
.....(((((((....((((.((.............(((((((((..........)))))))))...((((.(((.....)))))))....)).)))).))))))). (-25.58 = -27.54 +   1.96)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:28 2006