Locus 2850

Sequence ID	3R_DroMel_CAF1
Location	7,661,194 – 7,661,362
Length	168
Max. P	0.994720

overview

Window 6

Location	7,661,194 – 7,661,285
Length	91
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	90.91
Mean single sequence MFE	-21.36
Consensus MFE	-18.08
Energy contribution	-18.44
Covariance contribution	0.36
Combinations/Pair	1.14
Mean z-score	-2.30
Structure conservation index	0.85
SVM decision value	2.50
SVM RNA-class probability	0.994720
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7661194 91 - 27905053
ACG--GGUGGCGCAUCUCAAGUCUCUGGAGUGCAAUCAAAGUGCAACAAUAGAGGAAAGCGGAAAGUGUUUGAGAUGAGAAAAGAAAGAUGAU
...--.....(.(((((((((((((((...((((.......))))....))))))...((.....)).))))))))).).............. ( -20.10)
>DroSec_CAF1 16645 93 - 1
ACGAGGGUGGCGCAUCUCAAGUCUCUGGAGUGCAAUCAAAGUGCAACAAUAGAGGAAAGCGAAAAGUGUUUGAGAUGGGAAAAGAUAGAUGAA
..........(.(((((((((((((((...((((.......))))....))))))...((.....)).))))))))).).............. ( -21.70)
>DroSim_CAF1 16225 93 - 1
ACGAGGGUGGCGCAUCUCAAGUCUCUGGAGUGCAAUCAAAGUGCAACAAUAGAGGAAAGCGAAAAGUGUUUGAGAUGGGAAAAGAUAGAUGAA
..........(.(((((((((((((((...((((.......))))....))))))...((.....)).))))))))).).............. ( -21.70)
>DroEre_CAF1 16552 91 - 1
ACG--GGUAGCGAGUCUCAAGCCUCUGGAGUGCAAUCAAAGUGCAACAAUAGAGGACAGGGAAAUGCGUUUGAAAUGAGAAAAGAUAGAUGAA
...--....(((..((((...((((((...((((.......))))....))))))...))))..))).......................... ( -21.30)
>DroYak_CAF1 15727 91 - 1
ACG--GGUAGCGCAUCUCAAGCCUCUGGAGUGCAAUCAAAGAGCAACAAUAGAGGAAAGGGAAUUGCGUUUGAGAUGAGAAAAGAUAGAUGAA
.((--...((((((((((...((((((...(((.........)))....))))))...))))..)))))).....))................ ( -22.00)
>consensus
ACG__GGUGGCGCAUCUCAAGUCUCUGGAGUGCAAUCAAAGUGCAACAAUAGAGGAAAGCGAAAAGUGUUUGAGAUGAGAAAAGAUAGAUGAA
..........(.(((((((((((((((...((((.......))))....))))))...((.....)).))))))))).).............. (-18.08 = -18.44 +   0.36)

alignment

secondary structure

dotplot

Window 7

Location	7,661,263 – 7,661,362
Length	99
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	80.87
Mean single sequence MFE	-32.55
Consensus MFE	-21.01
Energy contribution	-21.27
Covariance contribution	0.25
Combinations/Pair	1.17
Mean z-score	-2.07
Structure conservation index	0.65
SVM decision value	0.65
SVM RNA-class probability	0.811552
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7661263 99 - 27905053
CACUUCACU---GUCCUCGGGCGACUUUUCGUCCUCUUUGCUUUCAAAUUAGUUGGCCUGUCAAAAACUUAACGAGGCCAACG--GGUGGCGCAUCUCAA----------------GUCU
.........---((((((((((((....)))))).................((((((((((.((....)).)).)))))))))--)).))).........----------------.... ( -28.20)
>DroSec_CAF1 16714 104 - 1
CCCCUCACUCGGGUCCUCGGGCGACUUUUCGUCCUUUUUGCUUUCAAAUUAGUUGGCCUGUCAAAAACUUAACGAGGCCAACGAGGGUGGCGCAUCUCAA----------------GUCU
.(((......)))(((((((((((....)))))).................((((((((((.((....)).)).))))))))))))).(((.........----------------))). ( -33.50)
>DroSim_CAF1 16294 104 - 1
CCCUUCACUCGGGUCCUCGGGCGACUUUUCGUCCUUUUUGCUUUCAAAUUAGUUGGCCUGUCAAAAACUUAACGAGGCCAACGAGGGUGGCGCAUCUCAA----------------GUCU
(((.......)))(((((((((((....)))))).................((((((((((.((....)).)).))))))))))))).(((.........----------------))). ( -32.70)
>DroEre_CAF1 16621 99 - 1
CCCUUCGCU---GUCCUCGGGCGACUUUUCGUCCUUUUUGCUUUCAAAUUAGUUGGCCUGUCAAAAACUUAACGAGGCCAACG--GGUAGCGAGUCUCAA----------------GCCU
...((((((---..((..((((((....)))))).................((((((((((.((....)).)).)))))))))--)..))))))......----------------.... ( -35.50)
>DroYak_CAF1 15796 99 - 1
CCCUUCACU---GGCCUCCGGCGACUUUUCGUCCUCUCUGCUUUCAAAUUAGUUGGCCUGUCAAAAACUUAACGAGGCCAACG--GGUAGCGCAUCUCAA----------------GCCU
.........---(((....(((((....)))))......(((.((......((((((((((.((....)).)).)))))))).--)).))).........----------------))). ( -25.20)
>DroAna_CAF1 19578 114 - 1
AUUUUGCCU---GUCCUCAGGCCACUUUU-GUCCUUUUCGCACCGAAAUUAGUUGGCCUGUCAGAGAGUUAACGAGGCCAGCG--AGUGGCCGAAGUUGACUGCAAUGAUGGUGCUGACC
.....((((---(....))))).......-.....(((((...)))))...((..((((((((..((((((((..(((((...--..)))))...))))))).)..)))))).))..)). ( -40.20)
>consensus
CCCUUCACU___GUCCUCGGGCGACUUUUCGUCCUUUUUGCUUUCAAAUUAGUUGGCCUGUCAAAAACUUAACGAGGCCAACG__GGUGGCGCAUCUCAA________________GUCU
..................((((((....)))))).....(((.((......((((((((((.((....)).)).))))))))...)).)))............................. (-21.01 = -21.27 +   0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:13 2006