Locus 6035

Sequence ID	3R_DroMel_CAF1
Location	15,902,216 – 15,902,333
Length	117
Max. P	0.541038

overview

Window 5

Location	15,902,216 – 15,902,307
Length	91
Sequences	6
Columns	97
Reading direction	reverse
Mean pairwise identity	90.32
Mean single sequence MFE	-28.62
Consensus MFE	-24.47
Energy contribution	-24.72
Covariance contribution	0.25
Combinations/Pair	1.15
Mean z-score	-1.50
Structure conservation index	0.85
SVM decision value	0.01
SVM RNA-class probability	0.541038
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15902216 91 - 27905053
AAAGUGUUGCCCUGUCUGAGGCAGGCACUUGGCUGGCGGCCAAGCAAAUCCAUGGGCUGCACAUA------AACACAUUCAUUUCCGCUGCCAAGUG
...((((.((((((((((...))))))((((((.....)))))).........)))).))))...------..............((((....)))) ( -29.90)
>DroSec_CAF1 9528 97 - 1
AAAGUGUUGGCCUGUCUGAGGCAGGCACUUGGCUGGCGGCCAAGCAAAUCCAUGGCCUGCACAUAAACAUAAACACAUUCAUUUCCGCUGCCAAGUG
.........((((((.....))))))(((((((.((((((((.(......).)))))((........)).................)))))))))). ( -31.80)
>DroSim_CAF1 9567 91 - 1
AAAGUGUUGGCCUGUCUGAGGCAGGCACUUGGCUGGCGGCCAAGCAAAUCCAUGGCCUGCACAUA------AACACAUUCAUUUCCGCUGCCAAGUG
.........((((((.....))))))(((((((.((((((((.(......).)))))((......------..))...........)))))))))). ( -31.70)
>DroEre_CAF1 9037 90 - 1
AAAGUGUUGGCCUGUCUGAGGCAGGCACUUGGCUGGCGGCCAAGCAAAUCCACGGC-UACACAUA------AACAAGUUCAUUUCCGCUGCCAAUUG
.((((((..((((.....))))..))))))(((.(((((...(((.........))-)..((...------.....))......))))))))..... ( -26.30)
>DroYak_CAF1 10318 91 - 1
AAAGUGUUGGCCUGUCUGAGGCAGGCACUUGGCUGGCGGCCAAGCAAAUCCAUGGCCUGCACAUA------AACACAUUCAUUUCCGCUGCCAAGUG
.........((((((.....))))))(((((((.((((((((.(......).)))))((......------..))...........)))))))))). ( -31.70)
>DroAna_CAF1 3629 85 - 1
AAAGUGUUGGCCUGUCUGAGGCAGAAACUUGGCUGGCGGCCAAGCAUAUCCAUGAGAUACACAUA------AACACAUUCAUUUC------CAAGUA
...(((((.(..(((((.(((......((((((.....)))))).....)).).)))))..)...------))))).........------...... ( -20.30)
>consensus
AAAGUGUUGGCCUGUCUGAGGCAGGCACUUGGCUGGCGGCCAAGCAAAUCCAUGGCCUGCACAUA______AACACAUUCAUUUCCGCUGCCAAGUG
...((((.((((((((((...))))))((((((.....)))))).........)))).))))................................... (-24.47 = -24.72 +   0.25)

alignment

secondary structure

dotplot

Window 6

Location	15,902,242 – 15,902,333
Length	91
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	80.75
Mean single sequence MFE	-32.85
Consensus MFE	-22.57
Energy contribution	-22.82
Covariance contribution	0.25
Combinations/Pair	1.14
Mean z-score	-1.23
Structure conservation index	0.69
SVM decision value	-0.03
SVM RNA-class probability	0.517222
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15902242 91 - 27905053
--------------UGCUGUUGCCGGGCAAACAAUGAAGAAAAGUGUUGCCCUGUCUGAGGCAGGCACUUGGCUGGCGGCCAAG-CAAAUCCAUGGGCU---------GCACAUA-----
--------------((.(((.(((((((((...((........)).))))))((((((...))))))((((((.....))))))-..........))).---------)))))..----- ( -30.30)
>DroSec_CAF1 9555 110 - 1
UUUGCUUUUGCUGUUGCUGUUGCCGGGCAAACAAUGAAGAAAAGUGUUGGCCUGUCUGAGGCAGGCACUUGGCUGGCGGCCAAG-CAAAUCCAUGGCCU---------GCACAUAAACAU
...(((..((...(((((((((((((.(((.(((((........)))))((((((.....))))))..))).))))))))..))-)))...)).)))..---------............ ( -36.60)
>DroSim_CAF1 9593 105 - 1
UUUGCUUUUGCUGUUGCUGUUGCCGGGCAAACAAUGAAGAAAAGUGUUGGCCUGUCUGAGGCAGGCACUUGGCUGGCGGCCAAG-CAAAUCCAUGGCCU---------GCACAUA-----
...(((..((...(((((((((((((.(((.(((((........)))))((((((.....))))))..))).))))))))..))-)))...)).)))..---------.......----- ( -36.60)
>DroYak_CAF1 10344 96 - 1
---------GCUGUUGCUGUUGCCGGGCAAACAAUGAAGAAAAGUGUUGGCCUGUCUGAGGCAGGCACUUGGCUGGCGGCCAAG-CAAAUCCAUGGCCU---------GCACAUA-----
---------..(((.((....(((((.(((.(((((........)))))((((((.....))))))..))).)))))(((((.(-......).))))).---------)))))..----- ( -35.20)
>DroAna_CAF1 3649 97 - 1
U--------AUUGUUGUUGUUGCGAAGCAAACAAUGAAGAAAAGUGUUGGCCUGUCUGAGGCAGAAACUUGGCUGGCGGCCAAG-CAUAUCCAUGAGAU---------ACACAUA-----
.--------.(..((((((((....))).)))))..)......(((((.((((.....)))).....((((((.....))))))-...........)))---------)).....----- ( -24.60)
>DroPer_CAF1 16558 106 - 1
-------UUCUUCUUGUUGCUG--GGGAAAACAAUAGAGCAAAGUGUUGGCCUGUCUGAGGCAGGCACUUGGCUGGCGGCCAAGGCAAAUGCAUGAGCCACUCCGUACACACAUA-----
-------.......((((((.(--(((..........(((.((((((..((((.....))))..)))))).)))...(((((..((....)).)).))).))))))).)))....----- ( -33.80)
>consensus
_________GCUGUUGCUGUUGCCGGGCAAACAAUGAAGAAAAGUGUUGGCCUGUCUGAGGCAGGCACUUGGCUGGCGGCCAAG_CAAAUCCAUGGCCU_________GCACAUA_____
.............(((((.......))))).............((((..((((((.....)))))).((((((.....))))))........................))))........ (-22.57 = -22.82 +   0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:59 2006