Locus 5477

Sequence ID	3L_DroMel_CAF1
Location	14,978,005 – 14,978,115
Length	110
Max. P	0.998992

overview

Window 5

Location	14,978,005 – 14,978,115
Length	110
Sequences	5
Columns	112
Reading direction	forward
Mean pairwise identity	77.44
Mean single sequence MFE	-25.12
Consensus MFE	-16.01
Energy contribution	-16.45
Covariance contribution	0.44
Combinations/Pair	1.05
Mean z-score	-2.23
Structure conservation index	0.64
SVM decision value	1.70
SVM RNA-class probability	0.972953
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14978005 110 + 23771897
AUGUCUGUCUGU--UCAACAAUUUAAAUGUAUUUAACAUUAAAUUUUGAAACCAUUUAGAUAUUUUUUGCACUGCCUGUCUGUGGCAGUGUCAAAGCGCAUACCAAAGCAGG
(((((((..(((--((((.(((((((.(((.....)))))))))))))))..))..))))))).((((((((((((.......))))))).))))).((........))... ( -28.80)
>DroSec_CAF1 30163 89 + 1
AUGUCUGUUUUUUUUUUAACAUUAAAAUGU-----------------------AUUCAGAUAUUUUUUGCACUGCCUGUCUGUGGCAGUGUCAAAGCGCAUACCAAAACAGG
(((((((..(...(((((....)))))...-----------------------)..))))))).((((((((((((.......))))))).)))))................ ( -22.00)
>DroSim_CAF1 31160 88 + 1
AUGUCUGUUUUU-UUCAAAAAUUAAAAUGU-----------------------AUUCAGAUAUUUUUUGCACUGCCUGUCUGUGGCAGUGUCAAAGCGCAUACCAAAACAGG
....(((((((.-...........((((((-----------------------......))))))(((((((((((.......))))))).)))).........))))))). ( -21.50)
>DroEre_CAF1 30215 108 + 1
AUUUCUGACUUU--UUAACUAUUA-AAUGUGUUCAACAUACAA-UCAGAAACCAUUCAGAUAUUUUUUGCACUGCCUGUCUGUGGCAGUGUCAAAGCGCAUACCAAAGCAGG
.(((((((...(--(((.....))-))(((((.....))))).-)))))))((...........((((((((((((.......))))))).))))).((........)).)) ( -24.70)
>DroYak_CAF1 31916 109 + 1
AUGUCUGACUGU--UCAGCUAUUAAAAUGUAUGCAACAUGCAAGUGAGAAACCAUUCACAUAUUUCUUGCACUGCC-GUCUGUGGCAGUGUCAAAGCGCAUACCAAAGCAGG
........((((--(..(((((......))).))...((((..(((((......))))).......((((((((((-(....)))))))).)))...)))).....))))). ( -28.60)
>consensus
AUGUCUGUCUUU__UCAACAAUUAAAAUGU_U__AACAU__AA_U__GAAACCAUUCAGAUAUUUUUUGCACUGCCUGUCUGUGGCAGUGUCAAAGCGCAUACCAAAGCAGG
(((((((.................................................))))))).((((((((((((.......))))))).)))))................ (-16.01 = -16.45 +   0.44)

alignment

secondary structure

dotplot

Window 6

Location	14,978,005 – 14,978,115
Length	110
Sequences	5
Columns	112
Reading direction	reverse
Mean pairwise identity	77.44
Mean single sequence MFE	-27.36
Consensus MFE	-17.44
Energy contribution	-17.88
Covariance contribution	0.44
Combinations/Pair	1.11
Mean z-score	-3.04
Structure conservation index	0.64
SVM decision value	3.32
SVM RNA-class probability	0.998992
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14978005 110 - 23771897
CCUGCUUUGGUAUGCGCUUUGACACUGCCACAGACAGGCAGUGCAAAAAAUAUCUAAAUGGUUUCAAAAUUUAAUGUUAAAUACAUUUAAAUUGUUGA--ACAGACAGACAU
.(((((..(((((....((((.(((((((.......)))))))))))..)))))......((((...((((((((((.....))).)))))))...))--)))).))).... ( -26.70)
>DroSec_CAF1 30163 89 - 1
CCUGUUUUGGUAUGCGCUUUGACACUGCCACAGACAGGCAGUGCAAAAAAUAUCUGAAU-----------------------ACAUUUUAAUGUUAAAAAAAAAACAGACAU
.((((((((((((....((((.(((((((.......)))))))))))..))))).....-----------------------((((....)))).......))))))).... ( -23.80)
>DroSim_CAF1 31160 88 - 1
CCUGUUUUGGUAUGCGCUUUGACACUGCCACAGACAGGCAGUGCAAAAAAUAUCUGAAU-----------------------ACAUUUUAAUUUUUGAA-AAAAACAGACAU
.((((((((((((....((((.(((((((.......)))))))))))..))))).....-----------------------...(((((.....))))-)))))))).... ( -23.30)
>DroEre_CAF1 30215 108 - 1
CCUGCUUUGGUAUGCGCUUUGACACUGCCACAGACAGGCAGUGCAAAAAAUAUCUGAAUGGUUUCUGA-UUGUAUGUUGAACACAUU-UAAUAGUUAA--AAAGUCAGAAAU
((......(((((....((((.(((((((.......)))))))))))..))))).....))(((((((-((...(((((((....))-))))).....--..))))))))). ( -28.90)
>DroYak_CAF1 31916 109 - 1
CCUGCUUUGGUAUGCGCUUUGACACUGCCACAGAC-GGCAGUGCAAGAAAUAUGUGAAUGGUUUCUCACUUGCAUGUUGCAUACAUUUUAAUAGCUGA--ACAGUCAGACAU
.........((((((..((((.(((((((......-))))))))))).((((((..(.(((....))).)..)))))))))))).........(((((--....)))).).. ( -34.10)
>consensus
CCUGCUUUGGUAUGCGCUUUGACACUGCCACAGACAGGCAGUGCAAAAAAUAUCUGAAUGGUUUC__A_UU__AUGUU__A_ACAUUUUAAUAGUUGA__AAAGACAGACAU
.((((((((((((....((((.(((((((.......)))))))))))..))))).(((((.......................)))))............)))).))).... (-17.44 = -17.88 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:21 2006