Locus 6685

Sequence ID	3R_DroMel_CAF1
Location	17,577,128 – 17,577,231
Length	103
Max. P	0.925309

overview

Window 0

Location	17,577,128 – 17,577,231
Length	103
Sequences	6
Columns	118
Reading direction	forward
Mean pairwise identity	75.55
Mean single sequence MFE	-28.12
Consensus MFE	-18.13
Energy contribution	-19.13
Covariance contribution	1.00
Combinations/Pair	1.32
Mean z-score	-1.72
Structure conservation index	0.64
SVM decision value	1.17
SVM RNA-class probability	0.925309
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17577128 103 + 27905053
UA---AUUUG-----UAAUU-------UCGAUUACAGGCCUAUCCCGAGUGGGACAUUUUCCAGACCUUCCACGCUGGAUCGUACCAGAGCGCUCUGGUGAAUGAUGCCAGCGCUAAU
..---...((-----((((.-------...))))))(((.........((((((..((.....))..))))))((((((((((((((((....))))))..))))).))))))))... ( -33.60)
>DroVir_CAF1 15391 107 + 1
UA---ACUUC--AAUUGAUUU------UCUGUCCAAGGCCUAUCCAGAAUGGGAUAUAUUCCAAACCUUCCAUGCUGGCUCUUAUCAGAGCGCUCUCAUUGCUGAUGCCAACCCCAAU
..---.....--.........------.........(((..((((((.((((((.............)))))).)))(((((....)))))((.......)).))))))......... ( -19.32)
>DroPse_CAF1 12309 110 + 1
AG---CUUUA-----UAAUUAUACCAAUCUAUUGCAGGCCUAUCCGGAAUGGGACAUUUUCCAGAUCUUCCAUGCCGGCUCCUACCAAAGCGCCCUGAUCAACGACGCCACUCCCACU
.(---((((.-----.........(((....))).(((.....((((.((((((.(((.....))).)))))).))))..)))...)))))........................... ( -18.60)
>DroEre_CAF1 11674 108 + 1
UA---AUUAGUCCAUUAAUG-------UCCACUACAGGCCUAUCCCGAGUGGGACAUUUUCCAGACCUUCCACGCUGGAUCCUACCAGAGCGCUCUGGUCAACGAUGCCAGCGCCAAU
..---....(((....((((-------((((((...((......)).))).))))))).....)))......(((((((((..((((((....))))))....))).))))))..... ( -35.00)
>DroYak_CAF1 14377 103 + 1
UA---AUUUG-----UAAUU-------UCGAUUACAGGCCUAUCCCGAGUGGGAUAUUUUCCAAACCUUCCAUGCUGGUUCCUACCAGAGCGCUCUGGUCAAUGAUGCCAGCGCCAAU
..---...((-----((((.-------...))))))(((.((((((....)))))).................((((((..(.((((((....))))))....)..)))))))))... ( -33.70)
>DroAna_CAF1 18479 103 + 1
UAUUCGUUUG-----UACGU-------U---UCGUAGGCCUAUCCCGAGUGGGACAUCUUCCAGACCUUCCAUGCCGGCUCCUACCAAAGCGCUCUGGUAUACGAUGCCAGUGCCAGU
..........-----...((-------(---(.(((((......(((.((((((..((.....))..))))))..)))..)))))..))))((.(((((((...))))))).)).... ( -28.50)
>consensus
UA___AUUUG_____UAAUU_______UCGAUUACAGGCCUAUCCCGAGUGGGACAUUUUCCAGACCUUCCAUGCUGGCUCCUACCAGAGCGCUCUGGUCAACGAUGCCAGCGCCAAU
....................................(((.........((((((..((.....))..))))))((((((((..((((((....))))))....)).)))))))))... (-18.13 = -19.13 +   1.00)

alignment

secondary structure

dotplot

Window 1

Location	17,577,128 – 17,577,231
Length	103
Sequences	6
Columns	118
Reading direction	reverse
Mean pairwise identity	75.55
Mean single sequence MFE	-33.50
Consensus MFE	-20.35
Energy contribution	-19.77
Covariance contribution	-0.58
Combinations/Pair	1.29
Mean z-score	-1.72
Structure conservation index	0.61
SVM decision value	0.91
SVM RNA-class probability	0.880063
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17577128 103 - 27905053
AUUAGCGCUGGCAUCAUUCACCAGAGCGCUCUGGUACGAUCCAGCGUGGAAGGUCUGGAAAAUGUCCCACUCGGGAUAGGCCUGUAAUCGA-------AAUUA-----CAAAU---UA
....(((((((.(((....((((((....))))))..))))))))))...((((((.......(((((....)))))))))))(((((...-------.))))-----)....---.. ( -36.91)
>DroVir_CAF1 15391 107 - 1
AUUGGGGUUGGCAUCAGCAAUGAGAGCGCUCUGAUAAGAGCCAGCAUGGAAGGUUUGGAAUAUAUCCCAUUCUGGAUAGGCCUUGGACAGA------AAAUCAAUU--GAAGU---UA
(((((.((((((.(((....)))..))(((((....)))))))))..((...(((..((((.......))))..)))...)).........------...))))).--.....---.. ( -25.80)
>DroPse_CAF1 12309 110 - 1
AGUGGGAGUGGCGUCGUUGAUCAGGGCGCUUUGGUAGGAGCCGGCAUGGAAGAUCUGGAAAAUGUCCCAUUCCGGAUAGGCCUGCAAUAGAUUGGUAUAAUUA-----UAAAG---CU
.........(((....(..(((..(((.(((....))).))).(((.((...((((((((.........))))))))...)))))....)))..)(((....)-----))..)---)) ( -26.50)
>DroEre_CAF1 11674 108 - 1
AUUGGCGCUGGCAUCGUUGACCAGAGCGCUCUGGUAGGAUCCAGCGUGGAAGGUCUGGAAAAUGUCCCACUCGGGAUAGGCCUGUAGUGGA-------CAUUAAUGGACUAAU---UA
.((.(((((((.(((....((((((....))))))..)))))))))).)).((((((...(((((((.(((((((.....)))).))))))-------))))..))))))...---.. ( -47.40)
>DroYak_CAF1 14377 103 - 1
AUUGGCGCUGGCAUCAUUGACCAGAGCGCUCUGGUAGGAACCAGCAUGGAAGGUUUGGAAAAUAUCCCACUCGGGAUAGGCCUGUAAUCGA-------AAUUA-----CAAAU---UA
...((((((((..((....((((((....))))))..)).))))).................((((((....)))))).)))((((((...-------.))))-----))...---.. ( -34.10)
>DroAna_CAF1 18479 103 - 1
ACUGGCACUGGCAUCGUAUACCAGAGCGCUUUGGUAGGAGCCGGCAUGGAAGGUCUGGAAGAUGUCCCACUCGGGAUAGGCCUACGA---A-------ACGUA-----CAAACGAAUA
.(((...(((((.((...(((((((....))))))).)))))))..))).((((((.......(((((....)))))))))))....---.-------.(((.-----...))).... ( -30.31)
>consensus
AUUGGCGCUGGCAUCAUUGACCAGAGCGCUCUGGUAGGAGCCAGCAUGGAAGGUCUGGAAAAUGUCCCACUCGGGAUAGGCCUGUAAUAGA_______AAUUA_____CAAAU___UA
.........(((........(((((.(.((((((......))))...))..).)))))....((((((....)))))).))).................................... (-20.35 = -19.77 +  -0.58)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:34 2006