Locus 653

Sequence ID	2R_DroMel_CAF1
Location	3,245,571 – 3,245,676
Length	105
Max. P	0.734939

overview

Window 8

Location	3,245,571 – 3,245,676
Length	105
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	75.90
Mean single sequence MFE	-30.38
Consensus MFE	-15.36
Energy contribution	-15.69
Covariance contribution	0.33
Combinations/Pair	1.06
Mean z-score	-1.69
Structure conservation index	0.51
SVM decision value	-0.05
SVM RNA-class probability	0.507051
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3245571 105 + 20766785
GGUCUCAUUCAGCGAUUGUUGU---U---CUU---------GUCGUGCCUGGCCAACUCCAAUGACCCCAAUAAGCUGGCCAACUGCCCGAACAAUAACUCCAGUUUGUGGGGCGGCUUG
.(((((((.....(((((..((---(---.((---------((((.((.((((((.((....((....))...)).))))))...)).)).)))).)))..))))).)))))))...... ( -29.60)
>DroSec_CAF1 14715 94 + 1
GGUCACAUUCAGCGAUUGUUGU---U---UUU---------GUCGUGCCUGGCCAGCUCCAAUGACCCCAAUAAGCUGGCCAACUGGCCGAACAAUAGCUCC-----------CAGUUUG
.............(((((..((---(---.((---------((((.((((((((((((....((....))...)))))))))...))))).)))).)))...-----------))))).. ( -29.70)
>DroSim_CAF1 21511 94 + 1
CGUACCAUUCAGCGAUUGUUGU---U---CUU---------GUCGUGCCUGGCCAGCUCCAAUGACCCCAAUAAGCUGGCCAACUGCCCGAACAAUAGCUCC-----------CAGUUUG
...........(.(((((((((---(---(..---------((.((...(((((((((....((....))...))))))))))).))..))))))))).)).-----------)...... ( -26.60)
>DroEre_CAF1 14371 102 + 1
GGUCUCAUUCAGCGAUUGUUGU---U---CUG---------GUCGUGCCUGGCCAGCUCCAAUGACCCCAAUAAGCUGGCCGACUACCCGAACAAUAACUCCAGCUUG--AUGCGGCCU-
((((.((((.((((((((((((---(---(.(---------((.((...(((((((((....((....))...))))))))))).))).))))))))).))..))).)--))).)))).- ( -42.50)
>DroYak_CAF1 14669 111 + 1
GGACUCAUUCUGCGAUUGUUGU---U---CUUGUUGUUAUUGUCGUGACUGGCCAGCUCCGAUGACCCCAAUAAGCUGGCCGACUGCCCAAACAAUAACUCCAGUUUG--AUGCGGCUU-
.(..(((..(((.(((((((((---(---...((.(((...((....)).((((((((....((....))...))))))))))).))...)))))))).)))))..))--)..).....- ( -30.00)
>DroAna_CAF1 12328 98 + 1
UGUUCCAUUU--CGAUUAUUGCCGCUUUGGUU---------GUCGUGCUCGGCCAGCUCCAAUGACCCCAAUAAGCUGGCCA--------AACAAUAACUCCACUGUU--AUGCCAAAU-
((((......--((((....(((.....))).---------)))).....((((((((....((....))...)))))))).--------))))(((((......)))--)).......- ( -23.90)
>consensus
GGUCUCAUUCAGCGAUUGUUGU___U___CUU_________GUCGUGCCUGGCCAGCUCCAAUGACCCCAAUAAGCUGGCCAACUGCCCGAACAAUAACUCCAGUUUG__AUGCGGCUU_
...........(((((.........................)))))...(((((((((....((....))...)))))))))...................................... (-15.36 = -15.69 +   0.33)

alignment

secondary structure

dotplot

Window 9

Location	3,245,571 – 3,245,676
Length	105
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	75.90
Mean single sequence MFE	-32.73
Consensus MFE	-19.96
Energy contribution	-20.13
Covariance contribution	0.17
Combinations/Pair	1.14
Mean z-score	-1.50
Structure conservation index	0.61
SVM decision value	0.43
SVM RNA-class probability	0.734939
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3245571 105 - 20766785
CAAGCCGCCCCACAAACUGGAGUUAUUGUUCGGGCAGUUGGCCAGCUUAUUGGGGUCAUUGGAGUUGGCCAGGCACGAC---------AAG---A---ACAACAAUCGCUGAAUGAGACC
...(((((((.((((((....))..))))..))))...((((((((((..((....))...))))))))))))).....---------...---.---...................... ( -31.90)
>DroSec_CAF1 14715 94 - 1
CAAACUG-----------GGAGCUAUUGUUCGGCCAGUUGGCCAGCUUAUUGGGGUCAUUGGAGCUGGCCAGGCACGAC---------AAA---A---ACAACAAUCGCUGAAUGUGACC
.......-----------..(((.(((((((((((...((((((((((..((....))...))))))))))))).))).---------...---.---...))))).))).......... ( -31.80)
>DroSim_CAF1 21511 94 - 1
CAAACUG-----------GGAGCUAUUGUUCGGGCAGUUGGCCAGCUUAUUGGGGUCAUUGGAGCUGGCCAGGCACGAC---------AAG---A---ACAACAAUCGCUGAAUGGUACG
...((((-----------..(((.((((((((.((...((((((((((..((....))...)))))))))).)).))).---------...---.---...))))).)))...))))... ( -31.30)
>DroEre_CAF1 14371 102 - 1
-AGGCCGCAU--CAAGCUGGAGUUAUUGUUCGGGUAGUCGGCCAGCUUAUUGGGGUCAUUGGAGCUGGCCAGGCACGAC---------CAG---A---ACAACAAUCGCUGAAUGAGACC
-.((.(.(((--..(((..((....((((((.(((.((((((((((((..((....))...))))))))).)))...))---------).)---)---))))...)))))..))).).)) ( -37.90)
>DroYak_CAF1 14669 111 - 1
-AAGCCGCAU--CAAACUGGAGUUAUUGUUUGGGCAGUCGGCCAGCUUAUUGGGGUCAUCGGAGCUGGCCAGUCACGACAAUAACAACAAG---A---ACAACAAUCGCAGAAUGAGUCC
-.....((.(--((..(((..(((((((((..(((....(((((((((..((....))...))))))))).)))..))))))))).....(---(---.......)).)))..))))).. ( -32.30)
>DroAna_CAF1 12328 98 - 1
-AUUUGGCAU--AACAGUGGAGUUAUUGUU--------UGGCCAGCUUAUUGGGGUCAUUGGAGCUGGCCGAGCACGAC---------AACCAAAGCGGCAAUAAUCG--AAAUGGAACA
-..((.((..--....)).))(((..((((--------((((((((((..((....))...)))))))))))))).)))---------..(((...(((......)))--...))).... ( -31.20)
>consensus
_AAGCCGCAU__CAAACUGGAGUUAUUGUUCGGGCAGUUGGCCAGCUUAUUGGGGUCAUUGGAGCUGGCCAGGCACGAC_________AAG___A___ACAACAAUCGCUGAAUGAGACC
.........................((((((((......(((((((((..((....))...))))))))).....(((...........................))))))))))).... (-19.96 = -20.13 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:46 2006