Locus 6428

Sequence ID	2R_DroMel_CAF1
Location	20,075,455 – 20,075,557
Length	102
Max. P	0.582564

overview

Window 5

Location	20,075,455 – 20,075,557
Length	102
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	83.50
Mean single sequence MFE	-36.70
Consensus MFE	-26.51
Energy contribution	-26.90
Covariance contribution	0.39
Combinations/Pair	1.22
Mean z-score	-1.61
Structure conservation index	0.72
SVM decision value	-0.02
SVM RNA-class probability	0.522025
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20075455 102 + 20766785
CGAC---UGCACCGGAGCCUCUGCCACCGGGCAAGUUCAUCGACUCGCAUGCGCCAAAGAAGCGGGUUAGCCGCUUCAAGGAGCAGCGAGCCCUUAACAAAACGU
.(((---(((.((((.((....))..)))))).))))......(((((.(((.((...(((((((.....)))))))..)).))))))))............... ( -38.60)
>DroVir_CAF1 2326 102 + 1
CGAC---AGCGCCGGAGCCACUGCCCGAGGGCAAAUAUAUAGAAACGCAUGCGCCCAAGAAGCGGAUCAGUCGCUUUAAGGAGCAACGCUCCAUGAACAAAAUAU
....---......(((((...((((....))))................(((..((..(((((((.....)))))))..)).)))..)))))............. ( -29.30)
>DroGri_CAF1 2249 105 + 1
CGACAACGGCACCGGAGCCGCUGCCUGCGGGCAAAUACAUUGAUGCACAUACGCCAAAGAAGCGCGUUAGCCGCUUCAAGGAACAGCGUUCGCUGAGCAAGACAU
...(((((((......)))).((((....))))......))).(((.......((...(((((((....).))))))..))..((((....)))).)))...... ( -30.50)
>DroSim_CAF1 2151 102 + 1
CGAC---UGCGCCGGAGCCUCUGCCCCCGGGCAAGUUCAUAGACUCGCAUGCGCCCAAGAAGCGGGUUAGCCGCUUCAAGGAGCAGCGAGCCCUUAACAAAACGU
.(((---(((.((((.((....))..)))))).))))......(((((.(((..((..(((((((.....)))))))..)).))))))))............... ( -39.30)
>DroEre_CAF1 2025 102 + 1
CGAC---UGCUGCGGAGCCUCUGCCUCCGGGCAAGUUCAUCGACUCGCAUGCGCCCAAGAAGCGGGUUAGCCGCUUCAAGGAGCAGCGGGCUCUUAACAAAACGU
....---......(((((((((((.(((((((.((((....)))).(....)))))..(((((((.....)))))))..))))))).)))))))........... ( -42.30)
>DroYak_CAF1 2025 102 + 1
CGAC---UGCUCCGGAGCCUCUGCCCUCGGGCAAGUUCAUCGACUCGCAUGCGCCUAGGAAGCGGGUUAGCCGCUUCAAGGAGCAGCGAGCUCUUAACAAAACGU
....---.....((((((...((((....)))).))))...(((((((.(((.(((..(((((((.....))))))).))).)))))))).)).........)). ( -40.20)
>consensus
CGAC___UGCACCGGAGCCUCUGCCCCCGGGCAAGUUCAUCGACUCGCAUGCGCCCAAGAAGCGGGUUAGCCGCUUCAAGGAGCAGCGAGCCCUUAACAAAACGU
........((......))...((((....))))..........(((((.(((.((...(((((((.....)))))))..)).))))))))............... (-26.51 = -26.90 +   0.39)

alignment

secondary structure

dotplot

Window 6

Location	20,075,455 – 20,075,557
Length	102
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	83.50
Mean single sequence MFE	-42.45
Consensus MFE	-29.04
Energy contribution	-29.10
Covariance contribution	0.06
Combinations/Pair	1.24
Mean z-score	-2.00
Structure conservation index	0.68
SVM decision value	0.10
SVM RNA-class probability	0.582564
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20075455 102 - 20766785
ACGUUUUGUUAAGGGCUCGCUGCUCCUUGAAGCGGCUAACCCGCUUCUUUGGCGCAUGCGAGUCGAUGAACUUGCCCGGUGGCAGAGGCUCCGGUGCA---GUCG
.......(((...((((((((((.((..(((((((.....)))))))...)).))).)))))))....)))((((((((.(((....))))))).)))---)... ( -45.90)
>DroVir_CAF1 2326 102 - 1
AUAUUUUGUUCAUGGAGCGUUGCUCCUUAAAGCGACUGAUCCGCUUCUUGGGCGCAUGCGUUUCUAUAUAUUUGCCCUCGGGCAGUGGCUCCGGCGCU---GUCG
.......((...(((((((((((.(((..(((((.......)))))...))).))).))............(((((....)))))..))))))..)).---.... ( -31.40)
>DroGri_CAF1 2249 105 - 1
AUGUCUUGCUCAGCGAACGCUGUUCCUUGAAGCGGCUAACGCGCUUCUUUGGCGUAUGUGCAUCAAUGUAUUUGCCCGCAGGCAGCGGCUCCGGUGCCGUUGUCG
......(((.((((....))))......((((((.(....)))))))...((.(((.(((((....))))).))))))))(((((((((......))))))))). ( -41.80)
>DroSim_CAF1 2151 102 - 1
ACGUUUUGUUAAGGGCUCGCUGCUCCUUGAAGCGGCUAACCCGCUUCUUGGGCGCAUGCGAGUCUAUGAACUUGCCCGGGGGCAGAGGCUCCGGCGCA---GUCG
.......(((..((((((((((((((..(((((((.....)))))))..))).))).))))))))...)))((((((((((.(...).)))))).)))---)... ( -49.80)
>DroEre_CAF1 2025 102 - 1
ACGUUUUGUUAAGAGCCCGCUGCUCCUUGAAGCGGCUAACCCGCUUCUUGGGCGCAUGCGAGUCGAUGAACUUGCCCGGAGGCAGAGGCUCCGCAGCA---GUCG
.((..(((((..(((((..(((((((..(((((((.....)))))))..(((((....)((((......))))))))))).)))).)))))...))))---).)) ( -41.10)
>DroYak_CAF1 2025 102 - 1
ACGUUUUGUUAAGAGCUCGCUGCUCCUUGAAGCGGCUAACCCGCUUCCUAGGCGCAUGCGAGUCGAUGAACUUGCCCGAGGGCAGAGGCUCCGGAGCA---GUCG
..((((......((.((((((((.(((.(((((((.....)))))))..))).))).)))))))...))))(((((((.((((....))))))).)))---)... ( -44.70)
>consensus
ACGUUUUGUUAAGGGCUCGCUGCUCCUUGAAGCGGCUAACCCGCUUCUUGGGCGCAUGCGAGUCGAUGAACUUGCCCGGGGGCAGAGGCUCCGGAGCA___GUCG
..............(((((((((.((..(((((((.....)))))))...)).))).))))))........(((((....)))))..((......))........ (-29.04 = -29.10 +   0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:46 2006