Locus 2241

Sequence ID	2R_DroMel_CAF1
Location	8,277,386 – 8,277,543
Length	157
Max. P	0.974973

overview

Window 9

Location	8,277,386 – 8,277,503
Length	117
Sequences	4
Columns	117
Reading direction	forward
Mean pairwise identity	92.45
Mean single sequence MFE	-40.15
Consensus MFE	-33.88
Energy contribution	-35.00
Covariance contribution	1.12
Combinations/Pair	1.08
Mean z-score	-2.85
Structure conservation index	0.84
SVM decision value	1.73
SVM RNA-class probability	0.974243
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8277386 117 + 20766785
UUGAAGAUGACGAUCUUCAGUUUGCCAGUGCAUUCUACAAACGCUUCUCGAAGUGCUCCUUCACGUGCAGACGCCUGGAGGAGUAUUUAAUUAAUUGAACAUGCCUGAUAAGGCGAG
.(((((((....)))))))(((((..((......)).)))))....(((.(((((((((((((.(((....))).)))))))))))))..............((((....))))))) ( -38.70)
>DroSim_CAF1 3736 117 + 1
UUGAAGAUGACGAUCUUCAGUUCGCCCGUACAGUCUACAAACGCUUCUCGAAGUGCUCCUUCACGCGCAGACGCCUGGAGGAGUAUUUAAUUAAUUGAACUAGCGUGAUAAGGCGAG
((((((((....)))))))).(((((.(((.....)))..(((((..((((((((((((((((.(((....))).)))))))))))).......))))...))))).....))))). ( -42.91)
>DroEre_CAF1 4004 117 + 1
UUGAGGAUGGCGAUCUUCAGCUUGCUAGUGCAUUCUACAAACGCUUCUCGAAGUGCUUCUUCACGCGCAGACGCCUGGAGGAGUAUUUCAUUAAUUAAACACGCCUGAUAAGGCGAG
..((((..((((......((..(((....)))..)).....))))))))((((((((((((((.(((....))).))))))))))))))............(((((....))))).. ( -42.70)
>DroYak_CAF1 3718 117 + 1
UUGAAGAUGGCGAUCUUCAGUUUGCUAGUGCAUUCUACAAACGCUUCUCGAAGUGCUUCUUCACGCGCAGACGCCUGUAGGAGUAUUUAAUUAAUUGAACACGCCUGAUAAGGCGAG
.(((((((....)))))))(((((.(((......))))))))........((((((((((.((.(((....))).)).)))))))))).............(((((....))))).. ( -36.30)
>consensus
UUGAAGAUGACGAUCUUCAGUUUGCCAGUGCAUUCUACAAACGCUUCUCGAAGUGCUCCUUCACGCGCAGACGCCUGGAGGAGUAUUUAAUUAAUUGAACACGCCUGAUAAGGCGAG
.(((((((....)))))))(((((.(((......))))))))....(((.(((((((((((((.(((....))).)))))))))))))..............((((....))))))) (-33.88 = -35.00 +   1.12)

alignment

secondary structure

dotplot

Window 0

Location	8,277,426 – 8,277,543
Length	117
Sequences	4
Columns	117
Reading direction	forward
Mean pairwise identity	93.30
Mean single sequence MFE	-36.18
Consensus MFE	-32.74
Energy contribution	-32.43
Covariance contribution	-0.31
Combinations/Pair	1.14
Mean z-score	-2.33
Structure conservation index	0.90
SVM decision value	1.74
SVM RNA-class probability	0.974973
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8277426 117 + 20766785
ACGCUUCUCGAAGUGCUCCUUCACGUGCAGACGCCUGGAGGAGUAUUUAAUUAAUUGAACAUGCCUGAUAAGGCGAGUGCCUCCACACUCGGUGCAUGAUUUCACUUACAAAUUUGA
..........(((((((((((((.(((....))).)))))))))))))...(((.(((((((((((....)).((((((......))))))..)))))..)))).)))......... ( -35.70)
>DroSim_CAF1 3776 117 + 1
ACGCUUCUCGAAGUGCUCCUUCACGCGCAGACGCCUGGAGGAGUAUUUAAUUAAUUGAACUAGCGUGAUAAGGCGAGUGCCUCCACACUCGGUGCUUGAUUUCACUUACAAAUUUGA
..(((..((((((((((((((((.(((....))).)))))))))))).......))))...)))((((.....((((..((.........))..))))...))))............ ( -38.51)
>DroEre_CAF1 4044 117 + 1
ACGCUUCUCGAAGUGCUUCUUCACGCGCAGACGCCUGGAGGAGUAUUUCAUUAAUUAAACACGCCUGAUAAGGCGAGUGCCUCCACACUCGGUGCAUGAUUUCAUUUAUAAAUUUGA
.........((((((((((((((.(((....))).))))))))))))))...(((((..(((((((....))))(((((......))))).)))..)))))................ ( -39.60)
>DroYak_CAF1 3758 117 + 1
ACGCUUCUCGAAGUGCUUCUUCACGCGCAGACGCCUGUAGGAGUAUUUAAUUAAUUGAACACGCCUGAUAAGGCGAGUGUCUCCACGCUUGGUGCAUGAUUUCAUUUAUAAAUUUGA
.(((((....))))).....(((.((((...(((((.((((.((.(((((....))))).)).))))...)))))(((((....)))))..)))).))).................. ( -30.90)
>consensus
ACGCUUCUCGAAGUGCUCCUUCACGCGCAGACGCCUGGAGGAGUAUUUAAUUAAUUGAACACGCCUGAUAAGGCGAGUGCCUCCACACUCGGUGCAUGAUUUCACUUACAAAUUUGA
..((.((...(((((((((((((.(((....))).)))))))))))))..............((((....))))(((((......))))))).))...................... (-32.74 = -32.43 +  -0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:41 2006