Locus 3369

Sequence ID	X_DroMel_CAF1
Location	8,988,786 – 8,988,897
Length	111
Max. P	0.937854

overview

Window 9

Location	8,988,786 – 8,988,897
Length	111
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	79.88
Mean single sequence MFE	-39.97
Consensus MFE	-22.50
Energy contribution	-24.05
Covariance contribution	1.56
Combinations/Pair	1.17
Mean z-score	-2.69
Structure conservation index	0.56
SVM decision value	1.21
SVM RNA-class probability	0.931592
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8988786 111 + 22224390
GGAAGAUGCC-GGCGGGCGUAGUAAAAAUCAAUCGCCACCACCUGCAGGUGGCGUGAACAAAACGCAGCAUUUGCCCACGCCCAAGGAGCUGGCCAUUCAGGCAUCUAAAAU
...(((((((-...((((((.(((((........((((((.......))))))(((.......)))....)))))..))))))..((......)).....)))))))..... ( -41.70)
>DroPse_CAF1 657 102 + 1
-------GCCGAGUGGCCGUGGGGCCAAUCGUUCGCCACCGGCGCCUGGUAAAAUGCCCAAA---CAACAGCUUCCCACGCCCAAAGAGCUGUCCAUGCAGGCCUCGAUGAU
-------((((.(((((....((((.....)))))))))))))(((((......((......---))(((((((............))))))).....)))))......... ( -31.40)
>DroSec_CAF1 705 111 + 1
CGAAGAUGCC-GGCCGGCGUAGUAAAAACCAAUCGCCACCACCUCCAGGUGGCGCGACCAAAACGCAACAUUUGCCCACGCCCAAGGAGCUGGCCAUUCAGGCAUCUAUAAU
...(((((((-(((((((...(((((........((((((.......))))))(((.......)))....)))))((........)).))))))).....)))))))..... ( -42.90)
>DroSim_CAF1 2449 111 + 1
CGAAGAUGCC-GGCGGGCGUAGUAAAAACCAAUCGCCACCACCUCCAGGUGGCGCGACCAAAACGCAGCAUUUGCCCACGCCCAAGGAGCUGGCCAUUCAGGCAUCUAUAAU
...(((((((-...((((((.(((((........((((((.......))))))(((.......)))....)))))..))))))..((......)).....)))))))..... ( -43.60)
>DroEre_CAF1 717 111 + 1
CGAAGAUGCC-AGCGGACGUGGCAAAAAUCGAUCGCCACCACCUCCAGGUGGCGCGACCAAGCCCCAGCACCUGCCCACGCCCAAGGAGCUCUCUAUUCAGGCAUCUAUAAU
...(((((((-...((.(((((((....(((..(((((((.......))))))))))....((....))...)).))))).))..(((....))).....)))))))..... ( -40.50)
>DroYak_CAF1 2330 111 + 1
CGAAGAUGCC-AGCGGGCGUGGCAAAAAUCGAUCGCCACCACCUCCCGGGGCCGUGAACAAAACCCAGCACCUGCCCACGCCCAAGGAGCUGUCUAUCCAGGCCUCUUUAAU
.(((((.(((-...((((((((........(.((((..((.((....))))..)))).)........((....))))))))))..(((........))).))).)))))... ( -39.70)
>consensus
CGAAGAUGCC_AGCGGGCGUAGUAAAAAUCAAUCGCCACCACCUCCAGGUGGCGCGACCAAAACGCAGCAUCUGCCCACGCCCAAGGAGCUGGCCAUUCAGGCAUCUAUAAU
...(((((((..(((((.((.............(((((((.......))))))).............)).)))))....(((....).))..........)))))))..... (-22.50 = -24.05 +   1.56)

alignment

secondary structure

dotplot

Window 0

Location	8,988,786 – 8,988,897
Length	111
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	79.88
Mean single sequence MFE	-47.52
Consensus MFE	-32.28
Energy contribution	-32.65
Covariance contribution	0.37
Combinations/Pair	1.34
Mean z-score	-2.39
Structure conservation index	0.68
SVM decision value	1.26
SVM RNA-class probability	0.937854
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8988786 111 - 22224390
AUUUUAGAUGCCUGAAUGGCCAGCUCCUUGGGCGUGGGCAAAUGCUGCGUUUUGUUCACGCCACCUGCAGGUGGUGGCGAUUGAUUUUUACUACGCCCGCC-GGCAUCUUCC
.....(((((((......(((.((......((((((((((((........))))))))))))....)).)))(((((((..............)).)))))-)))))))... ( -43.84)
>DroPse_CAF1 657 102 - 1
AUCAUCGAGGCCUGCAUGGACAGCUCUUUGGGCGUGGGAAGCUGUUG---UUUGGGCAUUUUACCAGGCGCCGGUGGCGAACGAUUGGCCCCACGGCCACUCGGC-------
....(((..(((.((...((((((((((.......))).)))))))(---(((((........)))))))).)))..))).(((.(((((....))))).)))..------- ( -41.20)
>DroSec_CAF1 705 111 - 1
AUUAUAGAUGCCUGAAUGGCCAGCUCCUUGGGCGUGGGCAAAUGUUGCGUUUUGGUCGCGCCACCUGGAGGUGGUGGCGAUUGGUUUUUACUACGCCGGCC-GGCAUCUUCG
.....(((((((.....((((..(.....)((((((((((.....)))...(..(((((((((((....)))))).)))))..)......)))))))))))-)))))))... ( -50.60)
>DroSim_CAF1 2449 111 - 1
AUUAUAGAUGCCUGAAUGGCCAGCUCCUUGGGCGUGGGCAAAUGCUGCGUUUUGGUCGCGCCACCUGGAGGUGGUGGCGAUUGGUUUUUACUACGCCCGCC-GGCAUCUUCG
.....(((((((......((((.((((...(((((((.((((........)))).)))))))....)))).))))((((..((((....))))....))))-)))))))... ( -50.00)
>DroEre_CAF1 717 111 - 1
AUUAUAGAUGCCUGAAUAGAGAGCUCCUUGGGCGUGGGCAGGUGCUGGGGCUUGGUCGCGCCACCUGGAGGUGGUGGCGAUCGAUUUUUGCCACGUCCGCU-GGCAUCUUCG
.....(((((((......(((.....)))((((((((.((((.((....))((((((((((((((....)))))).))))))))..))))))))))))...-)))))))... ( -50.00)
>DroYak_CAF1 2330 111 - 1
AUUAAAGAGGCCUGGAUAGACAGCUCCUUGGGCGUGGGCAGGUGCUGGGUUUUGUUCACGGCCCCGGGAGGUGGUGGCGAUCGAUUUUUGCCACGCCCGCU-GGCAUCUUCG
....((((.((((((.....((.(((((.(((((((((((((........))))))))).)))).))))).))(((((((.......)))))))..)))..-))).)))).. ( -49.50)
>consensus
AUUAUAGAUGCCUGAAUGGACAGCUCCUUGGGCGUGGGCAAAUGCUGCGUUUUGGUCACGCCACCUGGAGGUGGUGGCGAUCGAUUUUUACCACGCCCGCC_GGCAUCUUCG
.....(((((((.....((....))...(((((((((.((((........))))....(((((((.......)))))))...........)))))))))...)))))))... (-32.28 = -32.65 +   0.37)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:42 2006