Locus 3184

Sequence ID	2R_DroMel_CAF1
Location	10,879,044 – 10,879,134
Length	90
Max. P	0.986737

overview

Window 0

Location	10,879,044 – 10,879,134
Length	90
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	76.79
Mean single sequence MFE	-28.40
Consensus MFE	-18.33
Energy contribution	-18.22
Covariance contribution	-0.11
Combinations/Pair	1.20
Mean z-score	-2.37
Structure conservation index	0.65
SVM decision value	1.87
SVM RNA-class probability	0.980920
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10879044 90 + 20766785
UUGGUUCG--------------CAGGCUGGCUAUAUUGCCAGUUCAGUUCCCUAGAAGGUGAACUGAUUUUAA-GACUCCACUUUGGAGAUUGAAUUCGGAA--AUA
....((((--------------...((((((......))))))(((((((((.....)).))))))).(((((-..((((.....)))).)))))..)))).--... ( -29.10)
>DroSec_CAF1 10702 90 + 1
UUGGUUCG--------------CAGGCUGGCUUUAUUGCCAGUUCAGUUCUCUAGAAGGUGAACUGAUUUUAA-GACUCCACUUUCGAGAUUGAGUUCGGAA--AUA
.(((.((.--------------...((((((......))))))(((((((.((....)).)))))))......-))..))).(((((((......)))))))--... ( -27.30)
>DroSim_CAF1 7370 80 + 1
UUGGUUCG--------------CAGGCUGGCUUUAUUGCCAGUUCAGUUCUCUAGAAGGUGAACUGAUUUUAA-GACUCCACUUUCGAGAUUGAG------------
.(((.((.--------------...((((((......))))))(((((((.((....)).)))))))......-))..)))..............------------ ( -22.90)
>DroEre_CAF1 7429 92 + 1
UUGGUUCG--------------CAUGCUGGCUUUAUUGCCAGUUCAGUUCUCUAGAAGGUGAACUGAUUUGUAAGACUCUACGUUCGAGAUUACGUUUGGAG-UAUU
.......(--------------((.((((((......))))))(((((((.((....)).)))))))..)))...(((((((((........))))..))))-)... ( -27.90)
>DroYak_CAF1 11416 90 + 1
UUGGUUCG--------------CAGGCUGGCUUUAUUGCCAGUUCAGUUCUCUAGAAGGUGAACUGAUAUGUA-GACUCUACAUUCGAGAUUGCGUUUGGAA--AUA
((.(..((--------------(((((((((......))))))(((((((.((....)).))))))).(((((-(...))))))......)))))..).)).--... ( -28.70)
>DroAna_CAF1 7205 105 + 1
UUGGUUCGGCAAGAAUUGCAAGCAGGCUGGCUUUAUUGCCA-UUUAGUCCUCUAGGAGGUGAAUGAAAUCCUA-AGGGCCACUCCCGAGGAUGAGCCCCCAAACAUA
..((((((((((.....((.((....)).))....))))).-....(((((((((((..(.....)..)))))-.(((.....)))))))))))))).......... ( -34.50)
>consensus
UUGGUUCG______________CAGGCUGGCUUUAUUGCCAGUUCAGUUCUCUAGAAGGUGAACUGAUUUUAA_GACUCCACUUUCGAGAUUGAGUUCGGAA__AUA
.(((.((..................((((((......))))))(((((((.((....)).))))))).......))..))).......................... (-18.33 = -18.22 +  -0.11)

alignment

secondary structure

dotplot

Window 1

Location	10,879,044 – 10,879,134
Length	90
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	76.79
Mean single sequence MFE	-23.50
Consensus MFE	-14.66
Energy contribution	-14.92
Covariance contribution	0.25
Combinations/Pair	1.12
Mean z-score	-2.58
Structure conservation index	0.62
SVM decision value	2.05
SVM RNA-class probability	0.986737
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10879044 90 - 20766785
UAU--UUCCGAAUUCAAUCUCCAAAGUGGAGUC-UUAAAAUCAGUUCACCUUCUAGGGAACUGAACUGGCAAUAUAGCCAGCCUG--------------CGAACCAA
...--.......(((...((((.....))))..-......(((((((.((.....))))))))).(((((......)))))....--------------.))).... ( -24.80)
>DroSec_CAF1 10702 90 - 1
UAU--UUCCGAACUCAAUCUCGAAAGUGGAGUC-UUAAAAUCAGUUCACCUUCUAGAGAACUGAACUGGCAAUAAAGCCAGCCUG--------------CGAACCAA
...--....((.(((.....(....)..)))))-......(((((((.(......).))))))).(((((......)))))....--------------........ ( -20.30)
>DroSim_CAF1 7370 80 - 1
------------CUCAAUCUCGAAAGUGGAGUC-UUAAAAUCAGUUCACCUUCUAGAGAACUGAACUGGCAAUAAAGCCAGCCUG--------------CGAACCAA
------------.......(((.....((....-......(((((((.(......).))))))).(((((......)))))))..--------------)))..... ( -19.10)
>DroEre_CAF1 7429 92 - 1
AAUA-CUCCAAACGUAAUCUCGAACGUAGAGUCUUACAAAUCAGUUCACCUUCUAGAGAACUGAACUGGCAAUAAAGCCAGCAUG--------------CGAACCAA
...(-(((...((((........)))).))))........(((((((.(......).))))))).(((((......)))))....--------------........ ( -20.60)
>DroYak_CAF1 11416 90 - 1
UAU--UUCCAAACGCAAUCUCGAAUGUAGAGUC-UACAUAUCAGUUCACCUUCUAGAGAACUGAACUGGCAAUAAAGCCAGCCUG--------------CGAACCAA
...--.......((((.......((((((...)-))))).(((((((.(......).))))))).(((((......)))))..))--------------))...... ( -24.30)
>DroAna_CAF1 7205 105 - 1
UAUGUUUGGGGGCUCAUCCUCGGGAGUGGCCCU-UAGGAUUUCAUUCACCUCCUAGAGGACUAAA-UGGCAAUAAAGCCAGCCUGCUUGCAAUUCUUGCCGAACCAA
..(((..(.((((...((((((((.....))).-(((((...........)))))))))).....-((((......)))))))).)..)))................ ( -31.90)
>consensus
UAU__UUCCGAACUCAAUCUCGAAAGUGGAGUC_UAAAAAUCAGUUCACCUUCUAGAGAACUGAACUGGCAAUAAAGCCAGCCUG______________CGAACCAA
...................(((..................(((((((.(......).))))))).(((((......)))))..................)))..... (-14.66 = -14.92 +   0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:30 2006