Locus 5182

Sequence ID	2L_DroMel_CAF1
Location	14,670,004 – 14,670,148
Length	144
Max. P	0.890983

overview

Window 0

Location	14,670,004 – 14,670,114
Length	110
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	79.41
Mean single sequence MFE	-28.79
Consensus MFE	-16.33
Energy contribution	-16.24
Covariance contribution	-0.08
Combinations/Pair	1.14
Mean z-score	-2.34
Structure conservation index	0.57
SVM decision value	0.96
SVM RNA-class probability	0.890983
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14670004 110 - 22407834
AUUGUCUCAAGUGGCAAUAAUAAAUAAUCGUAGGAUGUUA---------AACAACAUUCACCAUUGU-CGGCAGAUACGUUUUUGGCCAUAUUUGGAUCGGCGAAACCGCCGUUAAACAU
...(((.((((((((........(((((.((.(((((((.---------...))))))))).)))))-...((((......)))))))))..))))))(((((....)))))........ ( -26.40)
>DroPse_CAF1 35168 106 - 1
AUUGUCUCAAGUGGCAAUAAUAAAUAAUCGUAGGAUGUGAACAAAAACUAACAACAUUCACCAUUGUGCGACA------------ACCAUAUUUGGGCCGCCU-GCCCGUCGG-ACAAAU
.((((((((.(((((............(((((.((((((((...............)))).)))).)))))..------------.(((....)))))))).)-)......))-)))).. ( -27.26)
>DroEre_CAF1 24557 110 - 1
AUUGUCUCAAGUGGCAAUAAUAAAUAAUCGUUGGAUGUUA---------AACAACAUUCACCAUUGU-UGGCAUAUACUCUUUUGGCCAUAUUUGGAGCGGCGAAACCGCCGUUAAACAU
((((((......)))))).............((((((((.---------...))))))))(((....-((((.((........))))))....)))(((((((....)))))))...... ( -30.40)
>DroYak_CAF1 24921 110 - 1
AUUGUCUCAAGUGGCAAUAAUAAAUAAUCGUAGGAUGUUA---------AACAACAUUCACCAUUGU-UGGCAGAUACUCUUUUGGCCAUAUUUGGAGCGGCGAAACCGCCGUUAAACAU
((((((......))))))..............(((((((.---------...))))))).(((....-(((((((......))).))))....)))(((((((....)))))))...... ( -31.10)
>DroAna_CAF1 24186 109 - 1
AUUGUUUCAAGUGGCAAUAAUAAAUAAUCGUAGGAUGUAA---------AACAACAUUCACCAUUGU-UGGCAGAUAUGCU-CUGGCCAUAUUGGGCUCGGCGGAACCACCGUUAGACAU
..(((((((((((((.......((((((.((.((((((..---------....)))))))).)))))-)((((....))))-...))))).))))....(((((.....))))).)))). ( -26.40)
>DroPer_CAF1 38394 106 - 1
AUUGUCUCAAGUGGCAAUAAUAAAUAAUCGUAGGAUGUGAACAAAAACUAACAACAUUCACCAUUGUGCGGCA------------ACCAUAUUUGGGCCGCCU-GCCCGUCGG-ACAAAU
.((((((...(.((((.......(((((.((.((((((...............)))))))).)))))(((((.------------.(((....)))))))).)-))))...))-)))).. ( -31.16)
>consensus
AUUGUCUCAAGUGGCAAUAAUAAAUAAUCGUAGGAUGUUA_________AACAACAUUCACCAUUGU_CGGCAGAUAC_CU_UUGGCCAUAUUUGGACCGGCGAAACCGCCGUUAAACAU
((((((......)))))).....(((((.((.((((((...............)))))))).))))).((((..............(((....)))...((.....))))))........ (-16.33 = -16.24 +  -0.08)

alignment

secondary structure

dotplot

Window 1

Location	14,670,044 – 14,670,148
Length	104
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	81.20
Mean single sequence MFE	-21.74
Consensus MFE	-15.53
Energy contribution	-15.39
Covariance contribution	-0.14
Combinations/Pair	1.04
Mean z-score	-1.74
Structure conservation index	0.71
SVM decision value	0.52
SVM RNA-class probability	0.767896
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14670044 104 - 22407834
ACAAUAUACAAUGUGCAAUUGAAUUAUUGACUUUAUUGUCUCAAGUGGCAAUAAUAAAUAAUCGUAGGAUGUUA---------AACAACAUUCACCAUUGU-CGGCAGAUACGU
.(((((..((((.....))))...)))))...((((((((......))))))))........(((((((((((.---------...))))))).((.....-.))....)))). ( -20.40)
>DroPse_CAF1 35201 102 - 1
-----GUGUGUGUUGCAAUUGAAUUAUUGAGUUUAUUGUCUCAAGUGGCAAUAAUAAAUAAUCGUAGGAUGUGAACAAAAACUAACAACAUUCACCAUUGUGCGACA-------
-----.....(((((((..((.((((((....((((((((......))))))))..))))))....((((((...............))))))..))...)))))))------- ( -23.26)
>DroEre_CAF1 24597 104 - 1
ACAAUAUACAAUGUGCAAUUGAAUUAUUGACUUUAUUGUCUCAAGUGGCAAUAAUAAAUAAUCGUUGGAUGUUA---------AACAACAUUCACCAUUGU-UGGCAUAUACUC
..........((((((....((.(((((....((((((((......))))))))..)))))))(.((((((((.---------...)))))))).).....-..)))))).... ( -23.30)
>DroYak_CAF1 24961 99 - 1
-----AUACAAUGUGCAAUUGAAUUAUUGACUUUAUUGUCUCAAGUGGCAAUAAUAAAUAAUCGUAGGAUGUUA---------AACAACAUUCACCAUUGU-UGGCAGAUACUC
-----.....((.(((................((((((((......))))))))..((((((.((.(((((((.---------...))))))))).)))))-).))).)).... ( -20.80)
>DroAna_CAF1 24225 102 - 1
--CAUGUACCAUGUGCAAUUGAAUUAUUGAGUUUAUUGUUUCAAGUGGCAAUAAUAAAUAAUCGUAGGAUGUAA---------AACAACAUUCACCAUUGU-UGGCAGAUAUGC
--(((((.(((...(((((.(.((((((....((((((((......))))))))..))))))....((((((..---------....)))))).).)))))-)))...))))). ( -19.90)
>DroPer_CAF1 38427 100 - 1
-------GUGUGUUGCAAUUGAAUUAUUGAGUUUAUUGUCUCAAGUGGCAAUAAUAAAUAAUCGUAGGAUGUGAACAAAAACUAACAACAUUCACCAUUGUGCGGCA-------
-------...(((((((..((.((((((....((((((((......))))))))..))))))....((((((...............))))))..))...)))))))------- ( -22.76)
>consensus
_____AUACAAUGUGCAAUUGAAUUAUUGACUUUAUUGUCUCAAGUGGCAAUAAUAAAUAAUCGUAGGAUGUUA_________AACAACAUUCACCAUUGU_CGGCAGAUAC_C
..............(((((.(.((((((....((((((((......))))))))..))))))....((((((...............)))))).).)))))............. (-15.53 = -15.39 +  -0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:03 2006