Locus 7039

Sequence ID	3L_DroMel_CAF1
Location	19,064,989 – 19,065,093
Length	104
Max. P	0.980020

overview

Window 7

Location	19,064,989 – 19,065,093
Length	104
Sequences	6
Columns	104
Reading direction	forward
Mean pairwise identity	77.50
Mean single sequence MFE	-35.95
Consensus MFE	-17.17
Energy contribution	-18.40
Covariance contribution	1.23
Combinations/Pair	1.25
Mean z-score	-2.02
Structure conservation index	0.48
SVM decision value	0.24
SVM RNA-class probability	0.647045
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19064989 104 + 23771897
UGCAGCCACUUGCUGAGCAUUUCCAGCAAGAGCUCCAAGUCGUUUUGGGUCAAAUGGAGCAGGGUGCUCAGGAGGGGCUGCUGAUUCCGGCAGAAUUCCUUCCA
.(((.((.(((((((........))))))).((((((.................)))))).)).)))...(((((((((((((....))))))...))))))). ( -45.33)
>DroVir_CAF1 32195 104 + 1
UGCAGCCACUUGCACAGCAAUUCCAGCAAGAGCUCCAAAUCGCUUUGGCUCAGGCGCAGCAGAGUGCUCAGCAGCGGCUGCUGCGUCCGGCAGAAUUCCAGCCA
((.((((((((((............)))))(((........))).)))))))((((((((((..((((....)))).)))))))))).(((.........))). ( -39.90)
>DroGri_CAF1 39693 104 + 1
UGCAACCACUUGCUGAGCAUCUCCAGCAACAGUUCCAAAUCACUUUGGCUCAGACGGAGCAGCGUGCUCAGCAGCGGCUGCUGUUCGCGACAGAACUGCUGCCA
.........((((((((((((((((((....)))(((((....))))).......))))....))))))))))).(((.((.((((......)))).)).))). ( -37.80)
>DroMoj_CAF1 4518 104 + 1
UGCAGCCAUUUGCUAAGCAUCUCUAGCAACAGCUCUAAAUCGCUUUGACUGAGCCGCAGCAAAAUACUCAGCAGCGGCUGCUGUGUGCGACAGAAUUCCUGCCA
.((((..((((.....((((...((((..(((.((...........)))))((((((.((..........)).)))))))))).))))....))))..)))).. ( -29.30)
>DroAna_CAF1 5393 104 + 1
UGCAGCCACUUGCUCAGCAUUUCCAGCAAGUGCUCCAAAUCACUUUGGCUCAGAUGCAGCAUUGUGCUCAACAGUGGUUCGAACUGCUGGCAAAACUCCUUCCA
.........((((.(((((.(((..(((..((..(((((....)))))..))..)))..((((((.....))))))....))).)))))))))........... ( -28.00)
>DroPer_CAF1 15354 104 + 1
UGCAGCCACUGGCUGAGCAUCUCCAGCAGAUACUCCAAAUCGCUCUGGCUCAAGUGCAACAGGGUGCUAAGCAGUGGCAGCUUCUCGCGGCAGAAUGCCUCCCA
.((.(((((((.((.(((((((.(((..(((.......)))...)))((......))....))))))).))))))))).)).......(((.....)))..... ( -35.40)
>consensus
UGCAGCCACUUGCUGAGCAUCUCCAGCAAGAGCUCCAAAUCGCUUUGGCUCAGACGCAGCAGAGUGCUCAGCAGCGGCUGCUGCUUCCGGCAGAAUUCCUGCCA
.((((((.((.(((.(((((....(((....)))(((((....)))))...............))))).))))).))))))....................... (-17.17 = -18.40 +   1.23)

alignment

secondary structure

dotplot

Window 8

Location	19,064,989 – 19,065,093
Length	104
Sequences	6
Columns	104
Reading direction	reverse
Mean pairwise identity	77.50
Mean single sequence MFE	-41.55
Consensus MFE	-25.42
Energy contribution	-26.07
Covariance contribution	0.65
Combinations/Pair	1.37
Mean z-score	-2.55
Structure conservation index	0.61
SVM decision value	1.85
SVM RNA-class probability	0.980020
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19064989 104 - 23771897
UGGAAGGAAUUCUGCCGGAAUCAGCAGCCCCUCCUGAGCACCCUGCUCCAUUUGACCCAAAACGACUUGGAGCUCUUGCUGGAAAUGCUCAGCAAGUGGCUGCA
.((.((.....)).)).......((((((.((.(((((((....((((((.(((........)))..))))))(((....)))..)))))))..)).)))))). ( -36.30)
>DroVir_CAF1 32195 104 - 1
UGGCUGGAAUUCUGCCGGACGCAGCAGCCGCUGCUGAGCACUCUGCUGCGCCUGAGCCAAAGCGAUUUGGAGCUCUUGCUGGAAUUGCUGUGCAAGUGGCUGCA
.(((.((....)))))((.((((((((..(((....)))...))))))))))..(((((.((((((((.(.((....))).)))))))).......)))))... ( -41.90)
>DroGri_CAF1 39693 104 - 1
UGGCAGCAGUUCUGUCGCGAACAGCAGCCGCUGCUGAGCACGCUGCUCCGUCUGAGCCAAAGUGAUUUGGAACUGUUGCUGGAGAUGCUCAGCAAGUGGUUGCA
.(((((.....))))).......(((((((((((((((((.....(((((.(.(..(((((....)))))..)....).))))).)))))))).))))))))). ( -47.20)
>DroMoj_CAF1 4518 104 - 1
UGGCAGGAAUUCUGUCGCACACAGCAGCCGCUGCUGAGUAUUUUGCUGCGGCUCAGUCAAAGCGAUUUAGAGCUGUUGCUAGAGAUGCUUAGCAAAUGGCUGCA
.(((((.....))))).......(((((((.(((((((((((((((.(((((((((((.....))))..))))))).))..)))))))))))))..))))))). ( -49.00)
>DroAna_CAF1 5393 104 - 1
UGGAAGGAGUUUUGCCAGCAGUUCGAACCACUGUUGAGCACAAUGCUGCAUCUGAGCCAAAGUGAUUUGGAGCACUUGCUGGAAAUGCUGAGCAAGUGGCUGCA
.(((.(.(((..((((((((((.......))))))).)))....))).).)))...(((((....)))))((((((((((.(......).))))))).)))... ( -34.70)
>DroPer_CAF1 15354 104 - 1
UGGGAGGCAUUCUGCCGCGAGAAGCUGCCACUGCUUAGCACCCUGUUGCACUUGAGCCAGAGCGAUUUGGAGUAUCUGCUGGAGAUGCUCAGCCAGUGGCUGCA
.....(((.....))).......((.(((((((((.(((((((....(((..((..(((((....)))))..))..))).)).).)))).)).))))))).)). ( -40.20)
>consensus
UGGCAGGAAUUCUGCCGCAAGCAGCAGCCGCUGCUGAGCACCCUGCUGCAUCUGAGCCAAAGCGAUUUGGAGCUCUUGCUGGAAAUGCUCAGCAAGUGGCUGCA
(((.((.....)).)))......((((((((((((.((((.......(((...(..(((((....)))))..)...)))......)))).))).))))))))). (-25.42 = -26.07 +   0.65)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:12 2006