Locus 4519

Sequence ID	3L_DroMel_CAF1
Location	13,016,676 – 13,016,788
Length	112
Max. P	0.974810

overview

Window 0

Location	13,016,676 – 13,016,788
Length	112
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	78.99
Mean single sequence MFE	-31.30
Consensus MFE	-24.14
Energy contribution	-24.25
Covariance contribution	0.11
Combinations/Pair	1.15
Mean z-score	-3.06
Structure conservation index	0.77
SVM decision value	1.74
SVM RNA-class probability	0.974810
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13016676 112 + 23771897
AUGCUAAUUACCGAAAGUAAUUAACUUAAAUAUCGA-AAGGGCUUUGUCGAAGACCGUUUUGCGUGUAGAAUAGUGCGCCGAUUGGUUCAAAACGAAGCCCAAAGCAAUUUUU
.(((((((((.(....))))))).............-..(((((((((....(((((.((.(((..(......)..))).)).)))))....)))))))))...)))...... ( -34.00)
>DroSec_CAF1 548 100 + 1
AUGCUAAU---CGAAAGUAAUUAACUUAA----------UGGCUUUGUCGAAGACCGUUUUGCGUGUAUAAUAGUGCGCCGAUUGGUUCAAAACGAAGCCCAAAGCAAUUUUU
.((((...---...((((.....))))..----------.((((((((....(((((..(((.((((((....))))))))).)))))....))))))))...))))...... ( -27.80)
>DroSim_CAF1 540 109 + 1
AUGCUAAU---CGAAAGUAAUUAACUUAAAUAUCGA-AAGGGCUUUGUCGAAGACCGUUUUGCGUGUAUAAUAGUGCGCCGAUUGGUUCAAAACGAAGCCCAAAGCAAUUUUU
.((((..(---(((((((.....)))).....))))-..(((((((((....(((((..(((.((((((....))))))))).)))))....)))))))))..))))...... ( -34.50)
>DroEre_CAF1 725 113 + 1
AGGAUAAAUAUUGAAUGUUAUCAUCUUAAAUAUCCAAAAGGGCUUUGUCGAAGACCGUUUUGCGUGUAGAAUAGUGCGCCGAUUGGUUCAAAACGAAGCCCAAAGCAAUUUUU
.(((((..((.(((......)))...))..)))))....(((((((((....(((((.((.(((..(......)..))).)).)))))....)))))))))............ ( -32.40)
>DroYak_CAF1 750 113 + 1
AGGAUAAAUAUUGAGUGUUAUCAACAUAAAUAUCAAUAAGGGCUUUGUCGAAGACCGUUUUGCGUGUAGAAUAGUGCGCCGAUUGGUUCAAAACGAAGCCCAAAGCAAUUUUU
........((((((...((((....))))...)))))).(((((((((....(((((.((.(((..(......)..))).)).)))))....)))))))))............ ( -32.20)
>DroAna_CAF1 429 93 + 1
-----------GGAGAGUA--------CAGUGUAUA-GUGGGCUUUGUCGAAGACCGAUCUACGCUCAUAACAAUGUGUUUUUUGGUUCAAAACGAGGCCCAAAGCAAAUUUU
-----------........--------...(((...-.((((((((((....((((((...((((..........))))...))))))....))))))))))..)))...... ( -26.90)
>consensus
AUGCUAAU___CGAAAGUAAUUAACUUAAAUAUCGA_AAGGGCUUUGUCGAAGACCGUUUUGCGUGUAGAAUAGUGCGCCGAUUGGUUCAAAACGAAGCCCAAAGCAAUUUUU
.......................................(((((((((....(((((.((.(((..(......)..))).)).)))))....)))))))))............ (-24.14 = -24.25 +   0.11)

alignment

secondary structure

dotplot

Window 1

Location	13,016,676 – 13,016,788
Length	112
Sequences	6
Columns	113
Reading direction	reverse
Mean pairwise identity	78.99
Mean single sequence MFE	-22.43
Consensus MFE	-14.74
Energy contribution	-14.97
Covariance contribution	0.22
Combinations/Pair	1.06
Mean z-score	-1.44
Structure conservation index	0.66
SVM decision value	0.32
SVM RNA-class probability	0.688424
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13016676 112 - 23771897
AAAAAUUGCUUUGGGCUUCGUUUUGAACCAAUCGGCGCACUAUUCUACACGCAAAACGGUCUUCGACAAAGCCCUU-UCGAUAUUUAAGUUAAUUACUUUCGGUAAUUAGCAU
....((((....((((((.(((..(.(((.....(((............))).....))).)..))).))))))..-.))))......(((((((((.....))))))))).. ( -27.30)
>DroSec_CAF1 548 100 - 1
AAAAAUUGCUUUGGGCUUCGUUUUGAACCAAUCGGCGCACUAUUAUACACGCAAAACGGUCUUCGACAAAGCCA----------UUAAGUUAAUUACUUUCG---AUUAGCAU
.............(((((.(((..(.(((.....(((............))).....))).)..))).))))).----------....(((((((......)---)))))).. ( -19.00)
>DroSim_CAF1 540 109 - 1
AAAAAUUGCUUUGGGCUUCGUUUUGAACCAAUCGGCGCACUAUUAUACACGCAAAACGGUCUUCGACAAAGCCCUU-UCGAUAUUUAAGUUAAUUACUUUCG---AUUAGCAU
......((((..((((((.(((..(.(((.....(((............))).....))).)..))).))))))..-((((.....((((.....)))))))---)..)))). ( -23.30)
>DroEre_CAF1 725 113 - 1
AAAAAUUGCUUUGGGCUUCGUUUUGAACCAAUCGGCGCACUAUUCUACACGCAAAACGGUCUUCGACAAAGCCCUUUUGGAUAUUUAAGAUGAUAACAUUCAAUAUUUAUCCU
............((((((.(((..(.(((.....(((............))).....))).)..))).))))))....(((((..((...(((......))).))..))))). ( -23.40)
>DroYak_CAF1 750 113 - 1
AAAAAUUGCUUUGGGCUUCGUUUUGAACCAAUCGGCGCACUAUUCUACACGCAAAACGGUCUUCGACAAAGCCCUUAUUGAUAUUUAUGUUGAUAACACUCAAUAUUUAUCCU
............((((((.(((..(.(((.....(((............))).....))).)..))).)))))).....((((...(((((((......))))))).)))).. ( -24.00)
>DroAna_CAF1 429 93 - 1
AAAAUUUGCUUUGGGCCUCGUUUUGAACCAAAAAACACAUUGUUAUGAGCGUAGAUCGGUCUUCGACAAAGCCCAC-UAUACACUG--------UACUCUCC-----------
...........(((((...(((((.......)))))...(((((..((.((.....)).))...))))).))))).-.........--------........----------- ( -17.60)
>consensus
AAAAAUUGCUUUGGGCUUCGUUUUGAACCAAUCGGCGCACUAUUAUACACGCAAAACGGUCUUCGACAAAGCCCUU_UCGAUAUUUAAGUUAAUUACUUUCG___AUUAGCAU
............((((((.(((..(.(((.....(((............))).....))).)..))).))))))....................................... (-14.74 = -14.97 +   0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:35 2006