Locus 6807

Sequence ID	X_DroMel_CAF1
Location	16,943,512 – 16,943,619
Length	107
Max. P	0.731371

overview

Window 9

Location	16,943,512 – 16,943,619
Length	107
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	91.36
Mean single sequence MFE	-31.53
Consensus MFE	-21.98
Energy contribution	-22.47
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-2.21
Structure conservation index	0.70
SVM decision value	0.03
SVM RNA-class probability	0.546931
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16943512 107 + 22224390
UUACUAUUCGGCCACAAAGCCCAU--------UCCCAGCGACUGGAAUUAU----GUAAAUUGCUCAAAUUGGCAUCGCU-GGGAAUGGCAAGGCCAGUAAAUGAAUAGACCGGCUAAAU
...((((((((((.....(((.((--------(((((((((....((((..----...))))(((......))).)))))-)))))))))..)))).......))))))........... ( -35.41)
>DroSec_CAF1 26448 107 + 1
UUACUAUUCGGCCACAAAGCCCAU--------UCCCAGCGACUGGAAUUAU----GUAAAUUGCUCAAAUUGGCAUCGCU-GGGAAUGGCAAGGCCAGUAAAUGAAUAGACCGGCUAAAU
...((((((((((.....(((.((--------(((((((((....((((..----...))))(((......))).)))))-)))))))))..)))).......))))))........... ( -35.41)
>DroEre_CAF1 13175 112 + 1
UUACUAUUGGGCCACAAAACCCAU--------UCCCAGCGACUGGAAUUAUGUAUGUAAAUUGCUCAAAUUGGCAUCACUUGGGAAUGGCAAGGCCAGUGAAUGAAUAGCCCGGCUAAAU
(((((....((((.......((((--------((((((.((......((((....))))..((((......)))))).).)))))))))...))))))))).....((((...))))... ( -27.10)
>DroYak_CAF1 12804 116 + 1
UUACUAUUGGGCCACAAAACCCAUUCCCCCAUUCCCAGCGACUGGAAUUAU----GUAAAUUGCUCAAAUUGGCAUCACUUGGGAAUGGCAAGGCCAGUAAAUGAAUAGCCCGGCUAAAU
(((((....((((.......((((((((......((((...))))......----......((((......))))......))))))))...))))))))).....((((...))))... ( -28.20)
>consensus
UUACUAUUCGGCCACAAAACCCAU________UCCCAGCGACUGGAAUUAU____GUAAAUUGCUCAAAUUGGCAUCACU_GGGAAUGGCAAGGCCAGUAAAUGAAUAGACCGGCUAAAU
.........((((...................(((((((((......((((....))))..((((......))))))))).)))).((((...))))...............)))).... (-21.98 = -22.47 +   0.50)

alignment

secondary structure

dotplot

Window 0

Location	16,943,512 – 16,943,619
Length	107
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	91.36
Mean single sequence MFE	-35.49
Consensus MFE	-25.32
Energy contribution	-25.32
Covariance contribution	0.00
Combinations/Pair	1.07
Mean z-score	-2.73
Structure conservation index	0.71
SVM decision value	0.43
SVM RNA-class probability	0.731371
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16943512 107 - 22224390
AUUUAGCCGGUCUAUUCAUUUACUGGCCUUGCCAUUCCC-AGCGAUGCCAAUUUGAGCAAUUUAC----AUAAUUCCAGUCGCUGGGA--------AUGGGCUUUGUGGCCGAAUAGUAA
(((..(((((((............))))...((((((((-((((((...((((.((....))...----..))))...))))))))))--------)))).......)))..)))..... ( -37.60)
>DroSec_CAF1 26448 107 - 1
AUUUAGCCGGUCUAUUCAUUUACUGGCCUUGCCAUUCCC-AGCGAUGCCAAUUUGAGCAAUUUAC----AUAAUUCCAGUCGCUGGGA--------AUGGGCUUUGUGGCCGAAUAGUAA
(((..(((((((............))))...((((((((-((((((...((((.((....))...----..))))...))))))))))--------)))).......)))..)))..... ( -37.60)
>DroEre_CAF1 13175 112 - 1
AUUUAGCCGGGCUAUUCAUUCACUGGCCUUGCCAUUCCCAAGUGAUGCCAAUUUGAGCAAUUUACAUACAUAAUUCCAGUCGCUGGGA--------AUGGGUUUUGUGGCCCAAUAGUAA
.....(((((((((.........))))))..(((((((((.(((((...((((..................))))...))))))))))--------)))).......))).......... ( -30.77)
>DroYak_CAF1 12804 116 - 1
AUUUAGCCGGGCUAUUCAUUUACUGGCCUUGCCAUUCCCAAGUGAUGCCAAUUUGAGCAAUUUAC----AUAAUUCCAGUCGCUGGGAAUGGGGGAAUGGGUUUUGUGGCCCAAUAGUAA
......((((((((.........))))))..(((((((((.(((((...((((.((....))...----..))))...))))))))))))))))...((((((....))))))....... ( -36.00)
>consensus
AUUUAGCCGGGCUAUUCAUUUACUGGCCUUGCCAUUCCC_AGCGAUGCCAAUUUGAGCAAUUUAC____AUAAUUCCAGUCGCUGGGA________AUGGGCUUUGUGGCCCAAUAGUAA
.....(((((............)))))..(((...((((.((((((...((((..................))))...)))))))))).........((((((....))))))...))). (-25.32 = -25.32 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:27 2006