Locus 4201

Sequence ID	2L_DroMel_CAF1
Location	12,024,370 – 12,024,471
Length	101
Max. P	0.962261

overview

Window 1

Location	12,024,370 – 12,024,471
Length	101
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	79.40
Mean single sequence MFE	-32.98
Consensus MFE	-15.15
Energy contribution	-14.70
Covariance contribution	-0.44
Combinations/Pair	1.24
Mean z-score	-3.23
Structure conservation index	0.46
SVM decision value	1.54
SVM RNA-class probability	0.962261
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12024370 101 + 22407834
AUUACCAGUUCAAGCUGGUUAAGU-UUUCGGUCACGGACGUUUGGAGCCAGUUUUGGCUAGAUUCUAGUAUCCGUCCGUCGAGCGAACAUGUAUGUAUUAUC
...((((((....)))))).....-.((((.(((((((((.....((((......)))).(((......)))))))))).)).))))............... ( -31.50)
>DroSec_CAF1 15759 101 + 1
AUUACCAGUUCAAGCUGGUUACGU-UUUCGGUCACGGACGUUUGGAGCCAGUUUUGACUAGAUUCUAGUGUCCGUCCGUCGAGCGAAAACGUAUGUAUUAUC
...((((((....))))))(((((-(((((.(((((((((.(((((((.(((....))).).))))))....))))))).)).))))))))))......... ( -39.70)
>DroSim_CAF1 15903 101 + 1
AUUACCAGUUCAAGCUGGUUACGU-UUUCGGUCACGGACGUUUGGAGCCAGUUUUGGCUAGAUUCUAGUGUCCGUCCGUCGAGCGAAAACGUAUGUAUUAUC
...((((((....))))))(((((-(((((.(((((((((.....((((......)))).(((......)))))))))).)).))))))))))......... ( -41.80)
>DroEre_CAF1 16174 89 + 1
ACUACCAGUUCAAGCUGGUUGGGU-UUUCGGUCAUGGACGUUUGGAGCCAGUUUAAGCUGGAUUCUAGAGUCCGUCG--------AAC----AUGUAUUACC
.(.((((((....)))))).)(((-...((.((((((((.((((((((((((....))))).))))))))))))).)--------)..----.))....))) ( -32.30)
>DroYak_CAF1 16560 95 + 1
AUUACCAGUUCAAGCUGGUUACGU-UUUCGGUCAUGGACGUUUGGAGCCAGUUUAAGCUGGAUUCUAGAGCCCGUCG--AGAGCGAAC----AUGUAUUAUA
...((((((....))))))(((((-.((((.((.(.((((((((((((((((....))))).)))))))...)))).--))).)))).----)))))..... ( -35.30)
>DroAna_CAF1 18254 83 + 1
UUUACCAGUUCAAGCUGGUAAAAUUUUUUGGUCAUGGACGU-UGGAGCCAGUUAUAGCUAGAUUU-AG-------------ACAUAAC----AUAUAUUUAC
(((((((((....)))))))))............(((.(..-....))))(((((..(((....)-))-------------..)))))----.......... ( -17.30)
>consensus
AUUACCAGUUCAAGCUGGUUACGU_UUUCGGUCACGGACGUUUGGAGCCAGUUUUAGCUAGAUUCUAGUGUCCGUCC__CGAGCGAAC____AUGUAUUAUC
......((((.(((((((((......((((....)))).......))))))))).))))........................................... (-15.15 = -14.70 +  -0.44)

alignment

secondary structure

dotplot

Window 2

Location	12,024,370 – 12,024,471
Length	101
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	79.40
Mean single sequence MFE	-26.30
Consensus MFE	-12.11
Energy contribution	-12.34
Covariance contribution	0.23
Combinations/Pair	1.23
Mean z-score	-2.73
Structure conservation index	0.46
SVM decision value	0.90
SVM RNA-class probability	0.876865
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12024370 101 - 22407834
GAUAAUACAUACAUGUUCGCUCGACGGACGGAUACUAGAAUCUAGCCAAAACUGGCUCCAAACGUCCGUGACCGAAA-ACUUAACCAGCUUGAACUGGUAAU
...............((((.((.((((((((((......))).(((((....))))).....))))))))).)))).-.....(((((......)))))... ( -29.20)
>DroSec_CAF1 15759 101 - 1
GAUAAUACAUACGUUUUCGCUCGACGGACGGACACUAGAAUCUAGUCAAAACUGGCUCCAAACGUCCGUGACCGAAA-ACGUAACCAGCUUGAACUGGUAAU
.........((((((((((.((.(((((((...(((((...)))))......((....))..))))))))).)))))-)))))(((((......)))))... ( -35.50)
>DroSim_CAF1 15903 101 - 1
GAUAAUACAUACGUUUUCGCUCGACGGACGGACACUAGAAUCUAGCCAAAACUGGCUCCAAACGUCCGUGACCGAAA-ACGUAACCAGCUUGAACUGGUAAU
.........((((((((((.((.(((((((((........)).(((((....))))).....))))))))).)))))-)))))(((((......)))))... ( -37.50)
>DroEre_CAF1 16174 89 - 1
GGUAAUACAU----GUU--------CGACGGACUCUAGAAUCCAGCUUAAACUGGCUCCAAACGUCCAUGACCGAAA-ACCCAACCAGCUUGAACUGGUAGU
(((....(((----(..--------((..(((........)))((((......)))).....))..)))))))....-.....(((((......)))))... ( -19.50)
>DroYak_CAF1 16560 95 - 1
UAUAAUACAU----GUUCGCUCU--CGACGGGCUCUAGAAUCCAGCUUAAACUGGCUCCAAACGUCCAUGACCGAAA-ACGUAACCAGCUUGAACUGGUAAU
.....(((..----.((((.((.--.((((.......((..((((......)))).))....))))...)).)))).-..)))(((((......)))))... ( -20.40)
>DroAna_CAF1 18254 83 - 1
GUAAAUAUAU----GUUAUGU-------------CU-AAAUCUAGCUAUAACUGGCUCCA-ACGUCCAUGACCAAAAAAUUUUACCAGCUUGAACUGGUAAA
..........----((((((.-------------..-......(((((....)))))...-.....))))))........((((((((......)))))))) ( -15.73)
>consensus
GAUAAUACAU____GUUCGCUCG__GGACGGACACUAGAAUCUAGCCAAAACUGGCUCCAAACGUCCAUGACCGAAA_ACGUAACCAGCUUGAACUGGUAAU
.............................((((........((((......))))........))))................(((((......)))))... (-12.11 = -12.34 +   0.23)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:18 2006