Locus 606

Sequence ID	3R_DroMel_CAF1
Location	2,252,032 – 2,252,134
Length	102
Max. P	0.633290

overview

Window 1

Location	2,252,032 – 2,252,134
Length	102
Sequences	5
Columns	104
Reading direction	forward
Mean pairwise identity	85.02
Mean single sequence MFE	-29.10
Consensus MFE	-17.09
Energy contribution	-19.05
Covariance contribution	1.96
Combinations/Pair	1.08
Mean z-score	-2.38
Structure conservation index	0.59
SVM decision value	0.21
SVM RNA-class probability	0.633290
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2252032 102 + 27905053
CUUUGUUUGUUUGCUUUACAUUUUUCGUUAGUUGCGUGAGCGCUGUUGCCAAACUUCAGGCAGCAGCCA--GCCACCGAAUCUUGGCUUCAAUUAAAACAGGUU
.(((((((..(((.....((...((((...(((((....))(((((((((........))))))))).)--))...))))...))....)))...))))))).. ( -30.70)
>DroSec_CAF1 43206 102 + 1
CUUUGUUUGUUUGCUUUACAUUUUUCGUUAGUUGCGUGAGCGCUGUUGCCAAACUUCAGGCAGCAGCCA--GCCACCGAAUCUUGGCUUCAAUUAAAACAGGUU
.(((((((..(((.....((...((((...(((((....))(((((((((........))))))))).)--))...))))...))....)))...))))))).. ( -30.70)
>DroSim_CAF1 41301 102 + 1
CUUUGUUUGUUUGCUUUACAUUUUUCGUUAGUUGCGUGAGCGCUGUUGCCAAACUUCAGGCAGCAGCCA--GCCACCGAAUCUUGGCUUCAAUUAAAACAGGUU
.(((((((..(((.....((...((((...(((((....))(((((((((........))))))))).)--))...))))...))....)))...))))))).. ( -30.70)
>DroEre_CAF1 40947 102 + 1
CUUUGUUUGUUUGCUUUACAUUUCUCGGUAGUUGCGUGAGCGCUGUUGCCAAACUUCAGGCAGCAGCUA--GCCACCGAAUCUGGGCUUCAAUUAAAACAGGUU
.(((((((..(((.....((....(((((.(((((....))(((((((((........))))))))).)--)).)))))...)).....)))...))))))).. ( -34.80)
>DroAna_CAF1 37390 89 + 1
CAU---UUGU----UUUCCUUUU--------CUGGGGGAGCUCUGUUGCCAAACUUCACCCAGACACCACCGCAGCCAAAAGUUAGCUUCAAUUAAAACAGGUU
.((---((((----(((.....(--------(((((((((...((....))..)))).)))))).......(((((.....))).)).......))))))))). ( -18.60)
>consensus
CUUUGUUUGUUUGCUUUACAUUUUUCGUUAGUUGCGUGAGCGCUGUUGCCAAACUUCAGGCAGCAGCCA__GCCACCGAAUCUUGGCUUCAAUUAAAACAGGUU
......((((((((((.((................))))))(((((((((........)))))))))....((((........))))........))))))... (-17.09 = -19.05 +   1.96)

alignment

secondary structure

dotplot

Window 2

Location	2,252,032 – 2,252,134
Length	102
Sequences	5
Columns	104
Reading direction	reverse
Mean pairwise identity	85.02
Mean single sequence MFE	-27.92
Consensus MFE	-16.78
Energy contribution	-18.50
Covariance contribution	1.72
Combinations/Pair	1.11
Mean z-score	-2.24
Structure conservation index	0.60
SVM decision value	0.15
SVM RNA-class probability	0.607092
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2252032 102 - 27905053
AACCUGUUUUAAUUGAAGCCAAGAUUCGGUGGC--UGGCUGCUGCCUGAAGUUUGGCAACAGCGCUCACGCAACUAACGAAAAAUGUAAAGCAAACAAACAAAG
....(((((((..((..((((((.(((((..((--.....))..)).))).))))))..))(((....)))...............)))))))........... ( -27.90)
>DroSec_CAF1 43206 102 - 1
AACCUGUUUUAAUUGAAGCCAAGAUUCGGUGGC--UGGCUGCUGCCUGAAGUUUGGCAACAGCGCUCACGCAACUAACGAAAAAUGUAAAGCAAACAAACAAAG
....(((((((..((..((((((.(((((..((--.....))..)).))).))))))..))(((....)))...............)))))))........... ( -27.90)
>DroSim_CAF1 41301 102 - 1
AACCUGUUUUAAUUGAAGCCAAGAUUCGGUGGC--UGGCUGCUGCCUGAAGUUUGGCAACAGCGCUCACGCAACUAACGAAAAAUGUAAAGCAAACAAACAAAG
....(((((((..((..((((((.(((((..((--.....))..)).))).))))))..))(((....)))...............)))))))........... ( -27.90)
>DroEre_CAF1 40947 102 - 1
AACCUGUUUUAAUUGAAGCCCAGAUUCGGUGGC--UAGCUGCUGCCUGAAGUUUGGCAACAGCGCUCACGCAACUACCGAGAAAUGUAAAGCAAACAAACAAAG
....(((((((.(((.....))).((((((((.--..((((.((((........)))).))))((....))..)))))))).....)))))))........... ( -29.50)
>DroAna_CAF1 37390 89 - 1
AACCUGUUUUAAUUGAAGCUAACUUUUGGCUGCGGUGGUGUCUGGGUGAAGUUUGGCAACAGAGCUCCCCCAG--------AAAAGGAAA----ACAA---AUG
....((((((.((((.(((((.....))))).))))....((((((.((..((((....))))..)).)))))--------).....)))----))).---... ( -26.40)
>consensus
AACCUGUUUUAAUUGAAGCCAAGAUUCGGUGGC__UGGCUGCUGCCUGAAGUUUGGCAACAGCGCUCACGCAACUAACGAAAAAUGUAAAGCAAACAAACAAAG
....(((((((..((..((((((.(((((((((.......)))))).))).))))))..))(((....)))...............)))))))........... (-16.78 = -18.50 +   1.72)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:14 2006