Locus 2053

Sequence ID	2L_DroMel_CAF1
Location	5,553,383 – 5,553,503
Length	120
Max. P	0.683465

overview

Window 1

Location	5,553,383 – 5,553,503
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	90.92
Mean single sequence MFE	-45.16
Consensus MFE	-41.60
Energy contribution	-41.44
Covariance contribution	-0.16
Combinations/Pair	1.15
Mean z-score	-1.18
Structure conservation index	0.92
SVM decision value	0.13
SVM RNA-class probability	0.597662
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5553383 120 + 22407834
ACCGAUAGUAUCUUGUUCAAGUUGAGCAGCUCGCGGGCCUUGAACUCCAGAAGAACUGGGUCCCUGUUCGUCGGCGACAGGAGGUCGCUGAACAGGCCCACGUGUGCCAGCUUCGGCCUA
.((((.(((....(((((.....)))))((.((.((((((.(((((((((.....))))).....)))).((((((((.....))))))))..)))))).)).))....))))))).... ( -47.50)
>DroSec_CAF1 5547 120 + 1
ACCGAGAGUAUCUUGUUCAAAUUGAGCAGCUCGCGGGCCUUGAACUCCAGAAGCACUGGGUCCCUGUUCGUCGGCGGCAGGAGGUCGCUGAAGAGGCCCACGUGUGCCAGCUUCGGCCUA
.((((.(((....(((((.....)))))((.((.((((((((((((((((.....))))).....)))).((((((((.....)))))))).))))))).)).))....))))))).... ( -48.80)
>DroSim_CAF1 5663 120 + 1
ACCGAGAGUAUCUUGUUCAAGUUAAGCAGCUCGCGGGCCUUGAACUCCAGAAGCACUGGGUCCCUGUUCGUCGGCGCCAGGAGGUCGCUGAAGAGGCCCACGUGUGCCAGCUUUGGCCUA
((((.((((..((((.......))))..))))..((((((((((((((((.....))))).....)))).((((((((....)).)))))).))))))).)).))(((......)))... ( -43.60)
>DroEre_CAF1 5737 120 + 1
ACCGAUAGAAUCUUGUUCAAGUUGAGCAGCUCGCGGGCCUUGAACUCCAGAAGCACUGGAUCGCAGUUCGUCGGCGACAUGAGAUCGCUGAACAGGCCCACGUGUGCCAUCUUCGGCCUA
.((((.(((....(((((.....)))))((.((.((((((.(((((((((.....))))).....)))).((((((((....).)))))))..)))))).)).))....))))))).... ( -44.70)
>DroYak_CAF1 5876 120 + 1
ACCGAAAGAAUCUUGUUCAAGUUGAGCAGCUCGCGGGCCUUGAACUCCAGAAGCACUGGGUCCGUGUUCGUCGGGGGCAACAAAUCGCUGAACAGGCCCACAUGCGCCAUUUUUGGUCUA
((((((((.....(((((.....)))))((..(.(((((..(.((.((((.....)))))).).((((((.(((.(....)...))).))))))))))).)..))....))))))))... ( -41.20)
>consensus
ACCGAGAGUAUCUUGUUCAAGUUGAGCAGCUCGCGGGCCUUGAACUCCAGAAGCACUGGGUCCCUGUUCGUCGGCGACAGGAGGUCGCUGAACAGGCCCACGUGUGCCAGCUUCGGCCUA
.((((.(((....(((((.....)))))((.((.((((((.(((((((((.....))))).....)))).((((((((.....))))))))..)))))).)).))....))))))).... (-41.60 = -41.44 +  -0.16)

alignment

secondary structure

dotplot

Window 2

Location	5,553,383 – 5,553,503
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	90.92
Mean single sequence MFE	-44.64
Consensus MFE	-37.00
Energy contribution	-37.00
Covariance contribution	-0.00
Combinations/Pair	1.14
Mean z-score	-1.42
Structure conservation index	0.83
SVM decision value	0.31
SVM RNA-class probability	0.683465
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5553383 120 - 22407834
UAGGCCGAAGCUGGCACACGUGGGCCUGUUCAGCGACCUCCUGUCGCCGACGAACAGGGACCCAGUUCUUCUGGAGUUCAAGGCCCGCGAGCUGCUCAACUUGAACAAGAUACUAUCGGU
...((((((((.(((...(((((((((((((.(((((.....)))))....))))..((((((((.....)))).)))).))))))))).))))))...(((....)))......))))) ( -49.20)
>DroSec_CAF1 5547 120 - 1
UAGGCCGAAGCUGGCACACGUGGGCCUCUUCAGCGACCUCCUGCCGCCGACGAACAGGGACCCAGUGCUUCUGGAGUUCAAGGCCCGCGAGCUGCUCAAUUUGAACAAGAUACUCUCGGU
...((((((((.(((...((((((((((.((.(((.........))).)).))....((((((((.....)))).))))..)))))))).))))))..((((.....))))....))))) ( -42.00)
>DroSim_CAF1 5663 120 - 1
UAGGCCAAAGCUGGCACACGUGGGCCUCUUCAGCGACCUCCUGGCGCCGACGAACAGGGACCCAGUGCUUCUGGAGUUCAAGGCCCGCGAGCUGCUUAACUUGAACAAGAUACUCUCGGU
...(((.((((.(((...((((((((((.((.(((.((....))))).)).))....((((((((.....)))).))))..)))))))).)))))))..(((....)))........))) ( -45.40)
>DroEre_CAF1 5737 120 - 1
UAGGCCGAAGAUGGCACACGUGGGCCUGUUCAGCGAUCUCAUGUCGCCGACGAACUGCGAUCCAGUGCUUCUGGAGUUCAAGGCCCGCGAGCUGCUCAACUUGAACAAGAUUCUAUCGGU
...((((((((((((((.(((((((((..((.(((((.....))))).)).((((.....(((((.....))))))))).))))))))).).))).)).(((....)))..))).))))) ( -46.30)
>DroYak_CAF1 5876 120 - 1
UAGACCAAAAAUGGCGCAUGUGGGCCUGUUCAGCGAUUUGUUGCCCCCGACGAACACGGACCCAGUGCUUCUGGAGUUCAAGGCCCGCGAGCUGCUCAACUUGAACAAGAUUCUUUCGGU
...(((.....((((((.(((((((((.....(.(.(((((((....)))))))).)((((((((.....)))).)))).))))))))).)).)).)).(((....)))........))) ( -40.30)
>consensus
UAGGCCGAAGCUGGCACACGUGGGCCUGUUCAGCGACCUCCUGCCGCCGACGAACAGGGACCCAGUGCUUCUGGAGUUCAAGGCCCGCGAGCUGCUCAACUUGAACAAGAUACUAUCGGU
...(((((....(((((.(((((((((..((.(((.........))).)).......((((((((.....)))).)))).))))))))).).))))...(((....)))......))))) (-37.00 = -37.00 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:06 2006