Locus 2506

Sequence ID	X_DroMel_CAF1
Location	6,665,912 – 6,666,003
Length	91
Max. P	0.597576

overview

Window 6

Location	6,665,912 – 6,666,003
Length	91
Sequences	6
Columns	97
Reading direction	forward
Mean pairwise identity	78.26
Mean single sequence MFE	-33.47
Consensus MFE	-22.55
Energy contribution	-22.63
Covariance contribution	0.08
Combinations/Pair	1.18
Mean z-score	-1.09
Structure conservation index	0.67
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6665912 91 + 22224390
ACUUACCUGUUUGGCGCCUUGUUCGUGCCGCCAUUGUUGGUGGCGUACAUGGCCCGGUUGGCUG--GAGACCUUAGCUCGGCGU----UGGCGGCAA
......(((.(..(((((..(((...(((((((....)))))))......(((((((....)))--).).))..)))..)))))----..))))... ( -35.40)
>DroVir_CAF1 18060 90 + 1
ACUCACCUAUUUGGCGCCUUAUUUGUGCUGCCAUUAUUGGUGGCGUACAUGGCCACGUUAGCUG--AGGUGU--GGC---GUGUUGGCCGGCUGCAA
.............(((((.....(((((.(((((.....)))))))))).((((((((((((..--..)).)--)))---))...))))))).)).. ( -31.30)
>DroPse_CAF1 17525 91 + 1
ACGUACCUGUUUGGCGCCUUAUUCGUGCCGCCAUUGUUGGUGGCGUACAUGGCCAAUGUAGCUC--ACGUGCUCUGCUAUGCGG----CGGCGGCAA
..........(((.((((........(((((((....)))))))((.((((((....(.(((..--....)))).))))))..)----))))).))) ( -33.90)
>DroSec_CAF1 14705 91 + 1
ACUUACCUGUUUGGCGCCUUGUUCGUGCCGCCAUUGUUGGUGGCGUACAUGGCCCGGAUGGCUG--GAGACCUUAGCUCGGUGU----UGGCGGCAA
.....((.((((((.(((.(((...((((((((....)))))))).))).))))))))).((..--(..(((.......))).)----..))))... ( -35.60)
>DroAna_CAF1 17747 92 + 1
AUUUACCUGUUUGGCGCCUUGUUUGUGCCACCGUUAUUGGUGGCGUACAUGUCCCGGUUGACUCACGUGAUCUGAGGU-GGCGG----UGGCGGCAA
.....((.....)).(((.(((...((((((((....)))))))).))).((((((.(...((((.......))))..-).)))----.)))))).. ( -31.60)
>DroPer_CAF1 17841 91 + 1
ACGUACCUGUUUGGCGCCUUAUUCGUGCCGCCAUUGUUGGUGGCGUACAUGGCCAAUGUAGCUC--ACGUGUUCUGCUAUGCGG----CGGCGGCAA
..........(((.((((........(((((((....))))))).......(((...(((((..--.........)))))..))----))))).))) ( -33.00)
>consensus
ACUUACCUGUUUGGCGCCUUAUUCGUGCCGCCAUUGUUGGUGGCGUACAUGGCCAGGUUAGCUC__AAGAGCUCAGCU_GGCGG____CGGCGGCAA
..........(((.((((........(((((((....)))))))......(((.......)))..........................)))).))) (-22.55 = -22.63 +   0.08)

alignment

secondary structure

dotplot

Window 7

Location	6,665,912 – 6,666,003
Length	91
Sequences	6
Columns	97
Reading direction	reverse
Mean pairwise identity	78.26
Mean single sequence MFE	-27.02
Consensus MFE	-17.82
Energy contribution	-17.93
Covariance contribution	0.11
Combinations/Pair	1.13
Mean z-score	-1.26
Structure conservation index	0.66
SVM decision value	0.13
SVM RNA-class probability	0.597576
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6665912 91 - 22224390
UUGCCGCCA----ACGCCGAGCUAAGGUCUC--CAGCCAACCGGGCCAUGUACGCCACCAACAAUGGCGGCACGAACAAGGCGCCAAACAGGUAAGU
(((((((..----..(((.......)))...--..)).....(((((.(((..(((.(((....))).)))....))).))).)).....))))).. ( -26.50)
>DroVir_CAF1 18060 90 - 1
UUGCAGCCGGCCAACAC---GCC--ACACCU--CAGCUAACGUGGCCAUGUACGCCACCAAUAAUGGCAGCACAAAUAAGGCGCCAAAUAGGUGAGU
........(((......---)))--....((--((.(((..(((((.......)))))......((((.((.(......)))))))..))).)))). ( -26.20)
>DroPse_CAF1 17525 91 - 1
UUGCCGCCG----CCGCAUAGCAGAGCACGU--GAGCUACAUUGGCCAUGUACGCCACCAACAAUGGCGGCACGAAUAAGGCGCCAAACAGGUACGU
..(((((((----((((........))..((--(.(((((((.....))))).))))).......))))))........)))(((.....))).... ( -27.90)
>DroSec_CAF1 14705 91 - 1
UUGCCGCCA----ACACCGAGCUAAGGUCUC--CAGCCAUCCGGGCCAUGUACGCCACCAACAAUGGCGGCACGAACAAGGCGCCAAACAGGUAAGU
(((((((..----..(((.......)))...--..)).....(((((.(((..(((.(((....))).)))....))).))).)).....))))).. ( -26.20)
>DroAna_CAF1 17747 92 - 1
UUGCCGCCA----CCGCC-ACCUCAGAUCACGUGAGUCAACCGGGACAUGUACGCCACCAAUAACGGUGGCACAAACAAGGCGCCAAACAGGUAAAU
(((((....----.((((-.(((......((....)).....)))........((((((......))))))........)))).......))))).. ( -28.50)
>DroPer_CAF1 17841 91 - 1
UUGCCGCCG----CCGCAUAGCAGAACACGU--GAGCUACAUUGGCCAUGUACGCCACCAACAAUGGCGGCACGAAUAAGGCGCCAAACAGGUACGU
.((((((((----(......)).......((--(.(((((((.....))))).))))).......)))))))........(..((.....))..).. ( -26.80)
>consensus
UUGCCGCCA____ACGCC_AGCUAAGCACGC__CAGCCAACCGGGCCAUGUACGCCACCAACAAUGGCGGCACGAACAAGGCGCCAAACAGGUAAGU
(((.((((...........................(((.....))).......(((.((......)).)))........)))).))).......... (-17.82 = -17.93 +   0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:28 2006