Locus 7602

Sequence ID X_DroMel_CAF1
Location 18,952,775 – 18,952,974
Length 199
Max. P 0.903704
window12474 window12475

overview

Window 4

Location 18,952,775 – 18,952,895
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.99
Mean single sequence MFE -26.44
Consensus MFE -22.04
Energy contribution -21.72
Covariance contribution -0.32
Combinations/Pair 1.06
Mean z-score -1.94
Structure conservation index 0.83
SVM decision value 1.03
SVM RNA-class probability 0.903704
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18952775 120 + 22224390
ACACGAAAACUCAAUAAAUUUUCAAAUAAAUUCACAUGGGCCGAGCCGAAAGAAGAGAAAUCGAAAAAACGUCCGCCUGGCCUUUUGGUCUAUGUAAAUUUUAUUUGCCAAAGGAUUUUU
....(((((.........)))))....((((((....((((((.(((....)..((....))............)).))))))((((((..(((.......)))..)))))))))))).. ( -24.40)
>DroSec_CAF1 20949 119 + 1
ACACGAAAACUCAAUAAAUUUUCAAAUAAAUUCACAUGGGCCGAGCCGAAAGAAGAGAAAUCGAAAAAA-GUCCGCCUGGCCUUUUGGUCUAUGUAAAUUUUAUUUGCCAAAGGAUUUUU
...............(((((((((((((((...(((((((((....(....)..((....))...((((-(.((....)).))))))))))))))....))))))))....))))))).. ( -24.70)
>DroSim_CAF1 9451 119 + 1
ACACGAAAACUCAAUAAAUUUUCAAAUAAAUUCACAUGGGCCGAGCCGAAAGAAGAGAAAUCGAAAAAA-GUCCGCCUGGCCUUUUGGUCUAUGUAAAUUUUAUUUGCCAAAGGAUUUUU
...............(((((((((((((((...(((((((((....(....)..((....))...((((-(.((....)).))))))))))))))....))))))))....))))))).. ( -24.70)
>DroEre_CAF1 21689 119 + 1
ACACGAAAACUCAAUAAAUUUUCAAAUAAAUUCACAUGGGCCGAGGCACAAGAAGAGAAAUCGAAAAAA-GUCCGCCUGGCCUUUUGGCCCAUGUAAAUUUUAUUUGCCAAAGGAUUUUU
...............(((((((((((((((...((((((((((((((...((..((....))((.....-.))...)).)))))..)))))))))....))))))))....))))))).. ( -31.20)
>DroYak_CAF1 11365 120 + 1
ACACGAAAACUCAAUAAAUUUUCAAAUAAAUUCACAUGGGCCGAGGCGAAAGCAGAGAAAUCGAAAAAACGUCCCCCUGGCCUUUUGGUCUAUGUAAAUUUUAUUUGCCAAAGGAUUUUU
...............(((((((((((((((...((((((((((((((....)).((....)).....................))))))))))))....))))))))....))))))).. ( -27.20)
>consensus
ACACGAAAACUCAAUAAAUUUUCAAAUAAAUUCACAUGGGCCGAGCCGAAAGAAGAGAAAUCGAAAAAA_GUCCGCCUGGCCUUUUGGUCUAUGUAAAUUUUAUUUGCCAAAGGAUUUUU
...............(((((((((((((((...((((((((((((.(....)..................(((.....)))..))))))))))))....))))))))....))))))).. (-22.04 = -21.72 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 18,952,855 – 18,952,974
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 98.49
Mean single sequence MFE -26.44
Consensus MFE -24.26
Energy contribution -23.86
Covariance contribution -0.40
Combinations/Pair 1.08
Mean z-score -1.28
Structure conservation index 0.92
SVM decision value 0.04
SVM RNA-class probability 0.552560
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18952855 119 + 22224390
CCUUUUGGUCUAUGUAAAUUUUAUUUGCCAAAGGAUUUUUCACCAAGUUUCCUGGCUCUGUUGCAUUUAGAUUUAUUCGCAACGUGUGUG-CUAUGUAAAACCUAUUAGGAGCCACUCCA
.((((((((..(((.......)))..))))))))..................((((((((((((..............)))))((...((-(...)))..))......)))))))..... ( -25.44)
>DroSec_CAF1 21028 119 + 1
CCUUUUGGUCUAUGUAAAUUUUAUUUGCCAAAGGAUUUUUCACCAAGUUUCCUGGCUCUGUUGCAUUUAGAUUUAUUCGCAACGUGUGUG-CUAUGUAAAACCUAUUAGGAGCCACUCCA
.((((((((..(((.......)))..))))))))..................((((((((((((..............)))))((...((-(...)))..))......)))))))..... ( -25.44)
>DroSim_CAF1 9530 119 + 1
CCUUUUGGUCUAUGUAAAUUUUAUUUGCCAAAGGAUUUUUCACCAAGUUUCCUGGCUCUGUUGCAUUUAGAUUUAUUCGCAACGUGUGUG-CUAUGUAAAACCUAUUAGGAGCCACUCCA
.((((((((..(((.......)))..))))))))..................((((((((((((..............)))))((...((-(...)))..))......)))))))..... ( -25.44)
>DroEre_CAF1 21768 119 + 1
CCUUUUGGCCCAUGUAAAUUUUAUUUGCCAAAGGAUUUUUCACCAAGUUUCCUGGCUCUGUUGCAUUUAGAUUUAUUCGCAACGUGUGUG-CUAUGUAAAACCUAUUAGGGGCCACUCCA
.....((((((..(((..((((((..((...((((..(((....)))..)))).((.(((((((..............)))))).).)))-)...))))))..)))...))))))..... ( -28.14)
>DroYak_CAF1 11445 120 + 1
CCUUUUGGUCUAUGUAAAUUUUAUUUGCCAAAGGAUUUUUCACCAAGUUUCCUGGCUCUGUUGCAUUUAGAUUUAUUCGCAACGUGUGUGGCUAUGUAAAACCUAUUAGGGGCCACUCCA
.....((((((..(((..((((((..(((..((((..(((....)))..)))).((.(((((((..............)))))).).)))))...))))))..)))...))))))..... ( -27.74)
>consensus
CCUUUUGGUCUAUGUAAAUUUUAUUUGCCAAAGGAUUUUUCACCAAGUUUCCUGGCUCUGUUGCAUUUAGAUUUAUUCGCAACGUGUGUG_CUAUGUAAAACCUAUUAGGAGCCACUCCA
.((((((((..(((.......)))..))))))))..................((((((((((((..............)))))(..((....))..)...........)))))))..... (-24.26 = -23.86 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:03 2006