Locus 1187

Sequence ID	3L_DroMel_CAF1
Location	3,375,790 – 3,375,947
Length	157
Max. P	0.704075

overview

Window 0

Location	3,375,790 – 3,375,909
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.31
Mean single sequence MFE	-29.60
Consensus MFE	-28.02
Energy contribution	-28.22
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.10
Structure conservation index	0.95
SVM decision value	0.17
SVM RNA-class probability	0.618145
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3375790 119 - 23771897
CUAACCGAUCCCAUCCGAUCCCUGGUUCGGUGGAAUCGACAAAAGAGCUCCACGCAUGCGCACACUUAACGAACGCUUAACGGAUGUUUCGGCUGCC-CUCCCUCCGGUUUAUAAAAAAU
....((((...((((((.......((((((((((.((.......))..)))))((....))........)))))......))))))..))))..(((-........)))........... ( -30.32)
>DroSec_CAF1 42911 119 - 1
CUAACCGAUCCCAUCCGAUCCCUGGUUCGGUGGAAUCGACAAAAGAGCUCCACGCAUGCGCACACUUAACGAACGCUUAACGGAUGUUUCGGCUGCC-CUCCCUCCAGUUUAUAAAAAAU
....((((...((((((.......((((((((((.((.......))..)))))((....))........)))))......))))))..)))).....-...................... ( -29.42)
>DroSim_CAF1 40644 119 - 1
CUAACCGAUCCCAUCCGAUCCCUGGUUCGGUGGAAUCGACAAAAGAGCUCCACGCAUGCGCACACUUAACGAACGCUUAACGGAUGUUUCGGCUGCC-CUCCCUCCAGUUUAUAAAAAAU
....((((...((((((.......((((((((((.((.......))..)))))((....))........)))))......))))))..)))).....-...................... ( -29.42)
>DroEre_CAF1 42354 117 - 1
CCGACCGAUCCCAUCCGAUCCCUGGUUCGGUGGAAUCGACAA-AGAGCUCCACGCAUGCGCACACUUAGCGAACGCUUAACGGAUGUUUCGGCUUCC-CACCCUCCGGUUUAUAAA-AAU
..(.((((...((((((.......((((((((((.((.....-.))..)))))((....))........)))))......))))))..)))))....-.(((....))).......-... ( -30.52)
>DroYak_CAF1 41862 120 - 1
CUAACAGAUUCCAUCCGAUCCCUGGUUCGGUGGAAUCGACAAAAGAGCUCCACGCAUGCGCACACUUAACGAACGCUUAACGGAUGUUUCGGCUUCCCCUCCCGCCACUUUAUAAAAAAU
......((...((((((.......((((((((((.((.......))..)))))((....))........)))))......))))))..))(((..........))).............. ( -28.32)
>consensus
CUAACCGAUCCCAUCCGAUCCCUGGUUCGGUGGAAUCGACAAAAGAGCUCCACGCAUGCGCACACUUAACGAACGCUUAACGGAUGUUUCGGCUGCC_CUCCCUCCAGUUUAUAAAAAAU
....((((...((((((.......((((((((((.((.......))..)))))((....))........)))))......))))))..))))............................ (-28.02 = -28.22 +   0.20)

alignment

secondary structure

dotplot

Window 1

Location	3,375,829 – 3,375,947
Length	118
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	89.55
Mean single sequence MFE	-39.96
Consensus MFE	-32.42
Energy contribution	-32.70
Covariance contribution	0.28
Combinations/Pair	1.07
Mean z-score	-1.53
Structure conservation index	0.81
SVM decision value	0.36
SVM RNA-class probability	0.704075
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3375829 118 + 23771897
UUAAGCGUUCGUUAAGUGUGCGCAUGCGUGGAGCUCUUUUGUCGAUUCCACCGAACCAGGGAUCGGAUGGGAUCGGUUAGGAUCUGCCCAGAUGGAGG--GGCAUAUAGUAAGCAGUAUA
....(((..(.....)..)))((.(((.....(((((((..(((((((((((((.(....).)))).)))))))(((........)))..))..))))--))).....))).))...... ( -40.90)
>DroSec_CAF1 42950 116 + 1
UUAAGCGUUCGUUAAGUGUGCGCAUGCGUGGAGCUCUUUUGUCGAUUCCACCGAACCAGGGAUCGGAUGGGAUCGGUUAGGAUCGGCCCAGAUGGAGGGAGGCAUAUA----GCAGUAUA
....((((.((.....)).)))).(((.....(((((((..(((((((((((((.(....).)))).)))))))((((......))))..))..))))..))).....----)))..... ( -37.10)
>DroSim_CAF1 40683 116 + 1
UUAAGCGUUCGUUAAGUGUGCGCAUGCGUGGAGCUCUUUUGUCGAUUCCACCGAACCAGGGAUCGGAUGGGAUCGGUUAGGAUCGGCCCAGAUGGAGGGAGGCAUAUA----GCAGUAUA
....((((.((.....)).)))).(((.....(((((((..(((((((((((((.(....).)))).)))))))((((......))))..))..))))..))).....----)))..... ( -37.10)
>DroEre_CAF1 42392 104 + 1
UUAAGCGUUCGCUAAGUGUGCGCAUGCGUGGAGCUCU-UUGUCGAUUCCACCGAACCAGGGAUCGGAUGGGAUCGGUCGGGAUCGG-CCAGAUGGAGGG--G------------AGUACU
....((((.(((.......))).))))(((...((((-(..(((((((((((((.(....).)))).)))))))(((((....)))-)).))..)))))--.------------..))). ( -43.80)
>DroYak_CAF1 41902 110 + 1
UUAAGCGUUCGUUAAGUGUGCGCAUGCGUGGAGCUCUUUUGUCGAUUCCACCGAACCAGGGAUCGGAUGGAAUCUGUUAGGAUCGGUCCAGAUGGAGGG--GCAGA--------AGUACU
....((((.(((.......))).)))).....(((((((..(((((((((((((.(....).)))).))))))).....(((....))).))..)))))--))...--------...... ( -40.90)
>consensus
UUAAGCGUUCGUUAAGUGUGCGCAUGCGUGGAGCUCUUUUGUCGAUUCCACCGAACCAGGGAUCGGAUGGGAUCGGUUAGGAUCGGCCCAGAUGGAGGG_GGCAUAUA____GCAGUAUA
....((((.(((.......))).)))).....(((((((..(((((((((((((.(....).)))).))))))).....((......)).))..)))))..))................. (-32.42 = -32.70 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:35 2006