Locus 6716

Sequence ID	X_DroMel_CAF1
Location	16,743,045 – 16,743,272
Length	227
Max. P	0.660139

overview

Window 5

Location	16,743,045 – 16,743,159
Length	114
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	81.04
Mean single sequence MFE	-40.72
Consensus MFE	-25.86
Energy contribution	-26.22
Covariance contribution	0.36
Combinations/Pair	1.11
Mean z-score	-1.66
Structure conservation index	0.64
SVM decision value	-0.01
SVM RNA-class probability	0.528625
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16743045 114 + 22224390
CAAUGGACCGAUGGAUCUGUGGAUCUCUGGAUCGGCGGAUCGAGGCGGAUGGAAACCAAUUGGGUCCGGCGCAGAGCGGUCUGCCGAUCUCAAAUGUAUCUGUAUCUGUU------UGCG
....((((.((((((((....))))..(((((((((((((((..(((..((((..((....)).)))).)))....))))))))))))).))..........)))).)))------)... ( -43.40)
>DroSec_CAF1 30490 111 + 1
CAAUGGACCGAUGGAUCUGUGGAUCUCU-----GGCGGAUCGAGGCGGAUGGAAACCAAUUGGGUCCGGCGCAGAGCGGUCUGCCGAUCGCAAAUGUAUCUGUAUCUGUAUC----UGUG
......((.((((.((.((((.(((...-----(((((((((..(((..((((..((....)).)))).)))....)))))))))))))))).)).)))).)).........----.... ( -37.00)
>DroSim_CAF1 28720 102 + 1
CGAUGGACCGAUGGAGCUCUGGAUC--------GGCGGAUCGAGGCGGAUGGAAACCAAUUGGGUCCGGCGCAGAGCGGUCUGCCGAUCGCAAAUGUAUCUGUAUCUGUA----------
..(((((...(((((((..((((((--------(((((((((..(((..((((..((....)).)))).)))....))))))))))))).))...)).))))).))))).---------- ( -41.10)
>DroEre_CAF1 21898 112 + 1
CGAUGGAUCGGCGGAUCGGCGGAUC--------GGCGGAUCGAGGCGGAUGGAAACCAAUUGGGUCCGGCGCAGAGCGGUCUGGCGAUCACAAAUGUAUCUGUAUCUGUAUCUGUGUGCG
.((((.(...((((((((...((((--------(.(((((((..(((..((((..((....)).)))).)))....))))))).))))).....)).))))))...).))))........ ( -40.90)
>DroYak_CAF1 21898 90 + 1
CGAUGGAUCGG------------------------CAGAUCGAGGCGGAUGGAAACCAAUUGGGUCCGGCGCAGAGCGGUCUGCCGAUCGCAGAUGUAUCUGUAUCUAU------AUGCG
.(((.((((((------------------------(((((((..(((..((((..((....)).)))).)))....)))))))))))))(((((....))))))))...------..... ( -41.20)
>consensus
CGAUGGACCGAUGGAUCUGUGGAUC________GGCGGAUCGAGGCGGAUGGAAACCAAUUGGGUCCGGCGCAGAGCGGUCUGCCGAUCGCAAAUGUAUCUGUAUCUGUA______UGCG
..(((((..........................(((((((((..(((..((((..((....)).)))).)))....)))))))))(((.((....)))))....)))))........... (-25.86 = -26.22 +   0.36)

alignment

secondary structure

dotplot

Window 6

Location	16,743,159 – 16,743,272
Length	113
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	80.36
Mean single sequence MFE	-23.04
Consensus MFE	-17.30
Energy contribution	-17.90
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-1.55
Structure conservation index	0.75
SVM decision value	0.27
SVM RNA-class probability	0.660139
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16743159 113 - 22224390
ACUACGUCGUCGUUAUCGUCUGCCGC---CGUUCAUUCAUUAAUUCAAUCAAUUAAUAAUGGCUAAGAACAAUUAACACUUGGCCAAACCGCUGUAUAU----AUACAUAGCUUCCUACA
.....((((..((((...(((...((---((((.....(((((((.....)))))))))))))..))).....))))...))))......(((((....----....)))))........ ( -18.50)
>DroSec_CAF1 30601 110 - 1
-------CGUCGUUAUCGUCUGCGGC---CGUUCAUUCAUUAAUUCAAUCAAUUAAUAAUGGCUAAGAACAAUUAACACUUGGCCAAGUCGCUGUAGAUAUACAUACAUAGCUUCCGAGA
-------..........(((((((((---.........(((((((.....)))))))..((((((((...........))))))))....)))))))))..................... ( -24.50)
>DroSim_CAF1 28822 88 - 1
-------CGUCGUUAUCGUCUGCGGC---CGUUCAUUCAUUAAUUCAAUCAAUUAAUAAUGGCUAAGAACAAUUAACACUUGGCCAAGCCGCUGUAGA----------------------
-------...........((((((((---.(((.....(((((((.....)))))))..((((((((...........))))))))))).))))))))---------------------- ( -23.80)
>DroEre_CAF1 22010 108 - 1
UCAUCGUUGUCGUUGUCGUCUGCAGC---CGUUCAUUCAUUAAUUCAAUCAAUUAAUAAUGGCUAAGAACAAUUAACACUUGGCCAAGCCGCAGUAGAUAUA--------GC-UCCAAAA
......(((..(((((.((((((.((---.(((.....(((((((.....)))))))..((((((((...........))))))))))).)).)))))))))--------))-..))).. ( -26.90)
>DroYak_CAF1 21988 120 - 1
AGUUCGUCGUCGUUAUCGUCUGCUGCCGUCGUUCAUUCAUUAAUUCAAUCAAUUAUUAAUGGCUAAGAACAAUUAACACUUGGCCAAGCCGCUGUAGAUAUAUGUAUGUAGCUUCCGAAA
(((((((...(((....((((((.((.((.........((((((..........))))))(((((((...........)))))))..)).)).))))))..))).))).))))....... ( -21.50)
>consensus
____CGUCGUCGUUAUCGUCUGCGGC___CGUUCAUUCAUUAAUUCAAUCAAUUAAUAAUGGCUAAGAACAAUUAACACUUGGCCAAGCCGCUGUAGAUAUA__UA__UAGCUUCCGAAA
.................((((((.((............(((((((.....)))))))..((((((((...........))))))))....)).))))))..................... (-17.30 = -17.90 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:20:37 2006