Locus 628

Sequence ID 2L_DroMel_CAF1
Location 1,853,373 – 1,853,478
Length 105
Max. P 0.644548
window1027 window1028

overview

Window 7

Location 1,853,373 – 1,853,478
Length 105
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 80.64
Mean single sequence MFE -18.08
Consensus MFE -15.46
Energy contribution -16.06
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.43
Structure conservation index 0.86
SVM decision value 0.23
SVM RNA-class probability 0.644548
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1853373 105 + 22407834
UCAACUGAACCCUUCUCUCACACCACCCG----CCCUGGCACCUUCUCACCUUUUAUUUCAUUUCUUCGAAUCCUGUCUCGCAGGAUUCGCCGGCGAGCUGUGCAACUU
....................(((..(.((----((..(((...............(......).....((((((((.....))))))))))))))).)..)))...... ( -22.50)
>DroSec_CAF1 21484 109 + 1
UCAACUGAACCCUUCUCACCCCCUGCCCACUGCCCCUGCCACCGUCUCACCUCUUAUUUCAUUUCUUCGCAUCCUGUCUCGCAGGAUUCGCCGGCGAGCUGUGCAACUU
...........................(((.((...((((...(.....).................((.((((((.....)))))).))..)))).)).)))...... ( -16.90)
>DroSim_CAF1 21716 109 + 1
UCAACUGAACCCUUCUCACCCCCUGCCCACUGCCCCUGCCACCUUCUCACCUCUUAUUUCAUUUCUUCGCAUCCUGUCUCGCAGGAUUCGCCGGCGAGCUGUGCAACUU
................(((..(.((((....((....))............................((.((((((.....)))))).))..)))).)..)))...... ( -15.90)
>DroEre_CAF1 21592 91 + 1
UCAACUGAACCCUUCCCCCA------------------UCUCGAACUCACCUUUUAUUUCAUUUCUUCGAAUCCUGUCUCGCAGGAUUCGCCGGCGAGCUGUGCAACUU
....................------------------..............................((((((((.....))))))))(((((....))).))..... ( -18.10)
>DroYak_CAF1 22084 91 + 1
UCAACUGAACCCUUCCCCCA------------------AUUGCUUUGCACCUUUUAUUUCAUUUCUUGGAUUCCUGUCUCGCAGGAUUCGCCGGCGAACUGUGCAACUU
....................------------------......((((((.......((((.....)))).(((((.....)))))((((....))))..))))))... ( -17.00)
>consensus
UCAACUGAACCCUUCUCACAC_C__CCC_____CCCUGCCACCUUCUCACCUUUUAUUUCAUUUCUUCGAAUCCUGUCUCGCAGGAUUCGCCGGCGAGCUGUGCAACUU
....................................................................((((((((.....))))))))(((((....))).))..... (-15.46 = -16.06 +   0.60)

alignment

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secondary structure

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dotplot

Postscript

Window 8

Location 1,853,373 – 1,853,478
Length 105
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 80.64
Mean single sequence MFE -27.06
Consensus MFE -17.94
Energy contribution -19.42
Covariance contribution 1.48
Combinations/Pair 1.05
Mean z-score -1.67
Structure conservation index 0.66
SVM decision value 0.15
SVM RNA-class probability 0.607124
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1853373 105 - 22407834
AAGUUGCACAGCUCGCCGGCGAAUCCUGCGAGACAGGAUUCGAAGAAAUGAAAUAAAAGGUGAGAAGGUGCCAGGG----CGGGUGGUGUGAGAGAAGGGUUCAGUUGA
...(..(((.(((((((..(((((((((.....)))))))))................(((........)))..))----))))).)))..)................. ( -36.20)
>DroSec_CAF1 21484 109 - 1
AAGUUGCACAGCUCGCCGGCGAAUCCUGCGAGACAGGAUGCGAAGAAAUGAAAUAAGAGGUGAGACGGUGGCAGGGGCAGUGGGCAGGGGGUGAGAAGGGUUCAGUUGA
..((..(....((((((..((.((((((.....)))))).)).(....).........))))))...)..)).....((((((((..............))))).))). ( -26.64)
>DroSim_CAF1 21716 109 - 1
AAGUUGCACAGCUCGCCGGCGAAUCCUGCGAGACAGGAUGCGAAGAAAUGAAAUAAGAGGUGAGAAGGUGGCAGGGGCAGUGGGCAGGGGGUGAGAAGGGUUCAGUUGA
..((..(....((((((..((.((((((.....)))))).)).(....).........))))))...)..)).....((((((((..............))))).))). ( -26.64)
>DroEre_CAF1 21592 91 - 1
AAGUUGCACAGCUCGCCGGCGAAUCCUGCGAGACAGGAUUCGAAGAAAUGAAAUAAAAGGUGAGUUCGAGA------------------UGGGGGAAGGGUUCAGUUGA
..........(((((((..(((((((((.....))))))))).(....).........)))))))((((..------------------((((.......)))).)))) ( -23.90)
>DroYak_CAF1 22084 91 - 1
AAGUUGCACAGUUCGCCGGCGAAUCCUGCGAGACAGGAAUCCAAGAAAUGAAAUAAAAGGUGCAAAGCAAU------------------UGGGGGAAGGGUUCAGUUGA
...((((((..((((....))))(((((.....))))).....................))))))..((((------------------((((.......)))))))). ( -21.90)
>consensus
AAGUUGCACAGCUCGCCGGCGAAUCCUGCGAGACAGGAUUCGAAGAAAUGAAAUAAAAGGUGAGAAGGUGGCAGGG_____GGG__G_GUGGGAGAAGGGUUCAGUUGA
......(((..((((((..(((((((((.....))))))))).(....).........))))))...)))....................................... (-17.94 = -19.42 +   1.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:23 2006