Locus 5264

Sequence ID	X_DroMel_CAF1
Location	13,768,723 – 13,768,850
Length	127
Max. P	0.971497

overview

Window 6

Location	13,768,723 – 13,768,828
Length	105
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	80.68
Mean single sequence MFE	-20.34
Consensus MFE	-16.09
Energy contribution	-15.98
Covariance contribution	-0.11
Combinations/Pair	1.14
Mean z-score	-1.92
Structure conservation index	0.79
SVM decision value	0.93
SVM RNA-class probability	0.884256
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13768723 105 + 22224390
ACCCACACAUUGAUAAGCCCCACCAACGCCCCAC----CCCCUUUCCGCGGGCACUUUCAAACUGUUUGCUGGCAAACAAAAGGAAGUGCACAAAUUGUUGAAAUUUUC
.........(..((((..........(((.....----.........))).((((((((....((((((....))))))...)))))))).....))))..)....... ( -21.24)
>DroSec_CAF1 79257 109 + 1
ACCCGCACAUUGAUAAGCCCCCUCAACGCCCCUCUCCACCCAUUUCCGCGGGCACUUUUAAACUGUUUGCUGGCAAACAAAAGAAAGUGCACAAAUUGUUGAAAUUUUC
......................(((((............((........))((((((((....((((((....))))))...)))))))).......)))))....... ( -21.40)
>DroSim_CAF1 85469 109 + 1
ACCCGCACAUUGAUAAGCCCCCUCACCGCCCCCCUCCGCCCAUUUCCGCGGGCACUUUCAAACUGUUUGCUGGCAAACAAAAGAAAGUGCACAAAUUGUUGAAAUUUUC
.........(..((((...................((((........))))((((((((....((((((....))))))...)))))))).....))))..)....... ( -25.90)
>DroEre_CAF1 80318 99 + 1
CCCC-CCCUUAGAUGAGCUCCUUCAC-------CGC--CCCCUUCCCCGCGGCACUUUCAAACUGUUUGCUGGCAAACAAAAGAAAGUGCACAAAUUGUUGAAAUUUUC
....-................((((.-------(((--..........)))((((((((....((((((....))))))...)))))))).........))))...... ( -20.50)
>DroYak_CAF1 88467 106 + 1
ACCC-CCCUUUGAUAAACCCCUUUACGCCCACCCCC--CACCUUCCCGAUGGCACUUUCAAACUGUUUGCUGGCAAACAAAAGAAAGUGCACAAAUUGUUGAAAUUUUC
....-...((..((((....................--((.(.....).))((((((((....((((((....))))))...)))))))).....))))..))...... ( -19.20)
>DroAna_CAF1 86394 100 + 1
UCCCCUAGAUUAGCCAUCCCCCUCAUCCCUCCCC---------ACCCCCCGCCACUUUCAAACUGUUUGCUGGCAAACAAAAGAAAGUGCACAAAUUGUUGAAAUUUUC
..................................---------.......((.((((((....((((((....))))))...))))))))................... ( -13.80)
>consensus
ACCC_CACAUUGAUAAGCCCCCUCACCGCCCCCC_C__CCCCUUCCCGCGGGCACUUUCAAACUGUUUGCUGGCAAACAAAAGAAAGUGCACAAAUUGUUGAAAUUUUC
...................................................((((((((....((((((....))))))...))))))))................... (-16.09 = -15.98 +  -0.11)

alignment

secondary structure

dotplot

Window 7

Location	13,768,752 – 13,768,850
Length	98
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	84.27
Mean single sequence MFE	-23.52
Consensus MFE	-20.48
Energy contribution	-21.20
Covariance contribution	0.72
Combinations/Pair	1.08
Mean z-score	-2.83
Structure conservation index	0.87
SVM decision value	1.68
SVM RNA-class probability	0.971497
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13768752 98 + 22224390
CCCAC----CCCCUUUCCGCGGGCACUUUCAAACUGUUUGCUGGCAAACAAAAGGAAGUGCACAAAUUGUUGAAAUUUUCUUAGCGAAAUCAGCAACAAA---CG
.....----..((.......))((((((((....((((((....))))))...)))))))).....((((((....((((.....))))....)))))).---.. ( -24.80)
>DroSim_CAF1 85498 102 + 1
CCCCCUCCGCCCAUUUCCGCGGGCACUUUCAAACUGUUUGCUGGCAAACAAAAGAAAGUGCACAAAUUGUUGAAAUUUUCUUAGCGAAAUCAGCAACAAA---CG
......((((........))))((((((((....((((((....))))))...)))))))).....((((((....((((.....))))....)))))).---.. ( -30.70)
>DroEre_CAF1 80343 96 + 1
----CGC--CCCCUUCCCCGCGGCACUUUCAAACUGUUUGCUGGCAAACAAAAGAAAGUGCACAAAUUGUUGAAAUUUUCUUAGCGAAAUCAGCAACAAA---CG
----(((--..........)))((((((((....((((((....))))))...)))))))).....((((((....((((.....))))....)))))).---.. ( -26.40)
>DroYak_CAF1 88495 100 + 1
CACCCCC--CACCUUCCCGAUGGCACUUUCAAACUGUUUGCUGGCAAACAAAAGAAAGUGCACAAAUUGUUGAAAUUUUCUUGGCGAAAUCAGCAACAAA---CG
.......--...........((((((((((....((((((....))))))...)))))))).))..((((((....((((.....))))....)))))).---.. ( -25.40)
>DroAna_CAF1 86423 93 + 1
UCCCC---------ACCCCCCGCCACUUUCAAACUGUUUGCUGGCAAACAAAAGAAAGUGCACAAAUUGUUGAAAUUUUCUUAGCGAAAUCAGCAACAAA---CG
.....---------.......((.((((((....((((((....))))))...)))))))).....((((((....((((.....))))....)))))).---.. ( -21.40)
>DroPer_CAF1 92154 93 + 1
CAAAC----CCCCUC--------CCUCCUCAAACAGUUUGCUCGCAAACAAAAGAAAGUGCACAAAUUGUUGAAAUUUUCUUAGCGAAAUCAGCAACAAAAACCG
.....----......--------............(((((....))))).................((((((....((((.....))))....))))))...... ( -12.40)
>consensus
CCCCC____CCCCUUCCCGCCGGCACUUUCAAACUGUUUGCUGGCAAACAAAAGAAAGUGCACAAAUUGUUGAAAUUUUCUUAGCGAAAUCAGCAACAAA___CG
......................((((((((....((((((....))))))...)))))))).....((((((....((((.....))))....))))))...... (-20.48 = -21.20 +   0.72)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:34 2006