Locus 1620

Sequence ID	X_DroMel_CAF1
Location	4,630,790 – 4,630,898
Length	108
Max. P	0.550594

overview

Window 0

Location	4,630,790 – 4,630,898
Length	108
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	65.09
Mean single sequence MFE	-27.00
Consensus MFE	-8.39
Energy contribution	-8.89
Covariance contribution	0.51
Combinations/Pair	1.50
Mean z-score	-1.82
Structure conservation index	0.31
SVM decision value	0.03
SVM RNA-class probability	0.550594
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4630790 108 + 22224390
AUUGUAUUUUAUAUUGCUGCUGGUGUGUUUAUUUUCACAGCCAGUUUUUAUAACGUAUUUGCCAGCGGCAAGCAGCAAUGGUAAAC--UCGUUAAUAAU---AAUAUGAAGA---A----
......((((((((((..(((((((((........)))).))))).....(((((..(((((((...((.....))..))))))).--.)))))....)---))))))))).---.---- ( -31.70)
>DroVir_CAF1 109431 109 + 1
AUUGUGUUCCUCAUCUCGUCCGCCAUUUAUGUCACAUGUGCCACAUUCUAUCUAAUAUUUGCAUCAGGCAAACGACAAUGGUAAC--------AAUAAA---AAAAUUAAAACUCGAUUC
(((((...((.....((((..(((....(((.((.((((...............)))).)))))..)))..))))....))..))--------)))...---.................. ( -14.96)
>DroSec_CAF1 17214 108 + 1
AUUGUGUUUAAUAUUGCUGCUGCUAUUUUUAUUUUCACCGCCAGUUUUUAUAACGUAUUUGCCAGCGGCAAGCCGCAAUGGUAAAC--UCGUUAAUAAU---AAUAUGAAGA---A----
...(((...((((..((....))......))))..))).....(((.((((((((..(((((((((((....))))..))))))).--.)))).)))).---))).......---.---- ( -23.00)
>DroEre_CAF1 15172 111 + 1
AUUGUGUUUUAUAUAGCCGCCGGCAUAUUUAUUUUCACCGCCAGCUUCUACAACGUAUUUGCCAGCGGCAAGCUGCAAUGGUAAAC--GCGUUAAUAAACUCGUUAGGAAGC---G----
.....(((((...((((.((.(((...............))).))......((((..(((((((((((....))))..))))))).--.)))).........)))).)))))---.---- ( -30.16)
>DroYak_CAF1 15674 102 + 1
AUUGUGCUCUAUAUUGCCGCUGGCAUGUUUGUUUUCACCGCCAGCUUUUACAACGUAUUUGCCAGCGGCAAGCCGCAAUGGUAAGC--UCGUUAAUAA------UAAGAA----------
.......(((.(((((..((((((.((........))..))))))......((((..(((((((((((....))))..))))))).--.))))..)))------))))).---------- ( -31.40)
>DroPer_CAF1 51801 92 + 1
AUUGUCUUUCACAUCGCCGGCGGUGUCUAUAUCUUCUGUGCCACCUUCUACAACCUCUGCGGCAGUGGCAAGCCGCAGUGGUGAAUGGACGU----------------------------
...(((((((((((((....))))))..........................(((.(((((((........))))))).)))))).))))..---------------------------- ( -30.80)
>consensus
AUUGUGUUUUAUAUUGCCGCCGGCAUGUUUAUUUUCACCGCCAGCUUCUACAACGUAUUUGCCAGCGGCAAGCCGCAAUGGUAAAC__UCGUUAAUAA____AAUAUGAAGA________
..................((.(((...............))).))............(((((((((((....))))..)))))))................................... ( -8.39 =  -8.89 +   0.51)

alignment

secondary structure

dotplot

Window 1

Location	4,630,790 – 4,630,898
Length	108
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	65.09
Mean single sequence MFE	-26.95
Consensus MFE	-7.77
Energy contribution	-8.13
Covariance contribution	0.36
Combinations/Pair	1.56
Mean z-score	-1.87
Structure conservation index	0.29
SVM decision value	-0.04
SVM RNA-class probability	0.512552
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4630790 108 - 22224390
----U---UCUUCAUAUU---AUUAUUAACGA--GUUUACCAUUGCUGCUUGCCGCUGGCAAAUACGUUAUAAAAACUGGCUGUGAAAAUAAACACACCAGCAGCAAUAUAAAAUACAAU
----.---..........---.........(.--((((...(((((((((((((...)))))...............(((.((((........)))))))))))))))...)))).)... ( -23.10)
>DroVir_CAF1 109431 109 - 1
GAAUCGAGUUUUAAUUUU---UUUAUU--------GUUACCAUUGUCGUUUGCCUGAUGCAAAUAUUAGAUAGAAUGUGGCACAUGUGACAUAAAUGGCGGACGAGAUGAGGAACACAAU
..................---.....(--------(((.((..(.((((((((((((((....)))))......((((.((....)).))))....))))))))).)...)))))).... ( -23.20)
>DroSec_CAF1 17214 108 - 1
----U---UCUUCAUAUU---AUUAUUAACGA--GUUUACCAUUGCGGCUUGCCGCUGGCAAAUACGUUAUAAAAACUGGCGGUGAAAAUAAAAAUAGCAGCAGCAAUAUUAAACACAAU
----.---..........---...........--(((((..(((((.(((..((((..(.................)..))))..)..............)).)))))..)))))..... ( -20.66)
>DroEre_CAF1 15172 111 - 1
----C---GCUUCCUAACGAGUUUAUUAACGC--GUUUACCAUUGCAGCUUGCCGCUGGCAAAUACGUUGUAGAAGCUGGCGGUGAAAAUAAAUAUGCCGGCGGCUAUAUAAAACACAAU
----.---((.....((((.(((....))).)--))).......)).....((((((((((....((((((....)).))))((....)).....))))))))))............... ( -29.80)
>DroYak_CAF1 15674 102 - 1
----------UUCUUA------UUAUUAACGA--GCUUACCAUUGCGGCUUGCCGCUGGCAAAUACGUUGUAAAAGCUGGCGGUGAAAACAAACAUGCCAGCGGCAAUAUAGAGCACAAU
----------......------..........--((((.((.....)).((((((((((((....((((((....)).))))((....)).....))))))))))))....))))..... ( -32.80)
>DroPer_CAF1 51801 92 - 1
----------------------------ACGUCCAUUCACCACUGCGGCUUGCCACUGCCGCAGAGGUUGUAGAAGGUGGCACAGAAGAUAUAGACACCGCCGGCGAUGUGAAAGACAAU
----------------------------..(((..(((((..(((((((........)))))))..(((((....(((((.................))))).)))))))))).)))... ( -32.13)
>consensus
________UCUUCAUAUU____UUAUUAACGA__GUUUACCAUUGCGGCUUGCCGCUGGCAAAUACGUUAUAAAAGCUGGCGGUGAAAAUAAAAAUACCAGCGGCAAUAUAAAACACAAU
..........................................(((((((((((.....))))....)))))))..(((((.................))))).................. ( -7.77 =  -8.13 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:51 2006