Locus 6879

Sequence ID	3L_DroMel_CAF1
Location	18,534,985 – 18,535,081
Length	96
Max. P	0.916358

overview

Window 4

Location	18,534,985 – 18,535,081
Length	96
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	82.16
Mean single sequence MFE	-29.86
Consensus MFE	-15.34
Energy contribution	-15.22
Covariance contribution	-0.12
Combinations/Pair	1.10
Mean z-score	-2.73
Structure conservation index	0.51
SVM decision value	1.06
SVM RNA-class probability	0.908656
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18534985 96 + 23771897
AAGUGUAUA----UGUGUGGGUGAGGCU-UUCAGGCUGCGAGUAUGUUUGGUUUGUGCUGUGUACACAUGCAAAUUUGCUAGUCAUAUUUGCAUACAUACA
.........----((((((.....((((-....))))(((((((((.(((((...((((((....))).))).....))))).)))))))))...)))))) ( -29.10)
>DroSec_CAF1 159574 96 + 1
AAGUGUAUA----UGUGUGGGUGAGCCU-UUCAUGCUGCGAGUAUGUUUGGUUUGUGCUGUGUACACAUGCAAAUUUGCUAGUCAUAUUUGCAUACAUACA
..(((((((----(....(.(..((((.-..(((((.....)))))...))))..).).))))))))((((((((.((.....)).))))))))....... ( -29.90)
>DroSim_CAF1 145364 96 + 1
NNNNNNNNN----NNNNNNGGUGAGCCU-UUCAGGCAGCGAGUAUGUUUGGUUUGUGCUGUGUACACAUGCAAAUUUGCUAGUCAUAUUUGCAUACAUACA
.........----.......(((.(((.-....))).(((((((((.(((((...((((((....))).))).....))))).)))))))))...)))... ( -26.20)
>DroEre_CAF1 156533 101 + 1
AAGUGCAAAUGUGUGCGUGAGCGAGCCUUUCCUUCCUGGGAGUGUGUUUGGUUUGAGCUGAGUACACAUGCAAAUUUGCUAGUCAUAUUUGCAUACAUACA
..(((((((((((.((...((((((....((((....))))(((((((..((....))..))))))).......)))))).)))))))))))))....... ( -33.60)
>DroYak_CAF1 161333 100 + 1
AAGUGCAAGUGUGUGUGUGUGUAAGCCU-UCCUUCCUGGGGGUAUGUUUGGUUUGUACUGAGUACACAUGCAAAUUUGCUAGUCAUAUUUGCAUACAUACA
..(((((((((((((((((((((.((((-((......))))))...((..((....))..))))))))))))...........)))))))))))....... ( -30.50)
>consensus
AAGUGCAAA____UGUGUGGGUGAGCCU_UUCAUGCUGCGAGUAUGUUUGGUUUGUGCUGUGUACACAUGCAAAUUUGCUAGUCAUAUUUGCAUACAUACA
.........................................((((((......(((((...))))).((((((((.((.....)).)))))))))))))). (-15.34 = -15.22 +  -0.12)

alignment

secondary structure

dotplot

Window 5

Location	18,534,985 – 18,535,081
Length	96
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	82.16
Mean single sequence MFE	-19.19
Consensus MFE	-15.80
Energy contribution	-15.80
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.99
Structure conservation index	0.82
SVM decision value	1.11
SVM RNA-class probability	0.916358
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18534985 96 - 23771897
UGUAUGUAUGCAAAUAUGACUAGCAAAUUUGCAUGUGUACACAGCACAAACCAAACAUACUCGCAGCCUGAA-AGCCUCACCCACACA----UAUACACUU
.((((((((((((((.((.....)).))))))))((((.....)))).......))))))............-...............----......... ( -17.50)
>DroSec_CAF1 159574 96 - 1
UGUAUGUAUGCAAAUAUGACUAGCAAAUUUGCAUGUGUACACAGCACAAACCAAACAUACUCGCAGCAUGAA-AGGCUCACCCACACA----UAUACACUU
.((((((((((((((.((.....)).))))))))((((.....)))).......))))))..(.(((.....-..)))).........----......... ( -19.10)
>DroSim_CAF1 145364 96 - 1
UGUAUGUAUGCAAAUAUGACUAGCAAAUUUGCAUGUGUACACAGCACAAACCAAACAUACUCGCUGCCUGAA-AGGCUCACCNNNNNN----NNNNNNNNN
.((((((((((((((.((.....)).))))))))((((.....)))).......)))))).....(((....-.)))...........----......... ( -21.50)
>DroEre_CAF1 156533 101 - 1
UGUAUGUAUGCAAAUAUGACUAGCAAAUUUGCAUGUGUACUCAGCUCAAACCAAACACACUCCCAGGAAGGAAAGGCUCGCUCACGCACACAUUUGCACUU
.(((..(((((((((.((.....)).)))))))))..)))...((...............(((......))).......((....))........)).... ( -20.30)
>DroYak_CAF1 161333 100 - 1
UGUAUGUAUGCAAAUAUGACUAGCAAAUUUGCAUGUGUACUCAGUACAAACCAAACAUACCCCCAGGAAGGA-AGGCUUACACACACACACACUUGCACUU
.((((((((((((((.((.....)).)))))))).(((((...)))))......))))))..((.....))(-((((..................)).))) ( -17.57)
>consensus
UGUAUGUAUGCAAAUAUGACUAGCAAAUUUGCAUGUGUACACAGCACAAACCAAACAUACUCGCAGCAUGAA_AGGCUCACCCACACA____UAUACACUU
.(((..(((((((((.((.....)).)))))))))..)))............................................................. (-15.80 = -15.80 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:00 2006