Locus 7365

Sequence ID	2L_DroMel_CAF1
Location	20,515,820 – 20,515,998
Length	178
Max. P	0.949917

overview

Window 5

Location	20,515,820 – 20,515,918
Length	98
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	78.74
Mean single sequence MFE	-31.28
Consensus MFE	-8.92
Energy contribution	-9.32
Covariance contribution	0.40
Combinations/Pair	1.37
Mean z-score	-1.92
Structure conservation index	0.29
SVM decision value	0.06
SVM RNA-class probability	0.561900
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20515820 98 - 22407834
AAUUGCCUGGAAAGCACAUGGGUGGAUA--------------UCCUGCUUGAAUAUUGUUUGUGUGGG---GCUGCUCAUUUUG---UAGUCCAAAGGAUAUCGCCCACACA--AAGCGA
..((((((....))....((((((.(((--------------((((......((((.....)))).((---(((((.......)---))))))..)))))))))))))....--..)))) ( -31.30)
>DroSec_CAF1 37201 98 - 1
AAUUGCCUGGAAAGCACAUGGGUGGAUA--------------UCCUGCUCGAAUAUUGUUUGUGUGGG---GCUGCUCAUUUUG---UAGUCCAAAGGAUAUCGCCCACACA--AAGCGA
..((((((....))....((((((.(((--------------((((((.(((((...))))).)).((---(((((.......)---))))))..)))))))))))))....--..)))) ( -33.80)
>DroSim_CAF1 38013 98 - 1
AAUUGCCUGGAAAGCACAUGGGUGGAUA--------------UCCUGCUCGAAUAUUGUUUGUGUGGG---GCUGCUCAUUUUG---UAGUCCAAAGGAUAUCGUUCACACA--AAGCGA
..(((..((((...(((....)))((((--------------((((((.(((((...))))).)).((---(((((.......)---))))))..)))))))).))))..))--)..... ( -28.40)
>DroYak_CAF1 32426 101 - 1
AAUUGCCUGGAAAUCACAAGGGUAGAUA--------------UCCUGCUCGAAUAUUGUUUGUGUGGGGGCGCUGCUCAAUUUG---UAGCCCAAAGGAUAUCGCACACACA--AAGCGA
...(((((.(....)....)))))((((--------------((((((((..((((.....))))..))))(((((.......)---))))....))))))))((.......--..)).. ( -29.30)
>DroAna_CAF1 25028 115 - 1
AAUUGCCUGGAAAGCACAUGGGUGGAUACGUCCCUACAUGUAUCCUGCCCCA-CAUUGU----CUGGAAACAUUUUUGCCUUUGUGAUAUCCGCAUGGAUAUCGCACACACACUGAGAAA
...(((.(....))))...((((((((((((......)))))))).))))..-((.(((----.((....))..........((((((((((....))))))))))...))).))..... ( -33.60)
>consensus
AAUUGCCUGGAAAGCACAUGGGUGGAUA______________UCCUGCUCGAAUAUUGUUUGUGUGGG___GCUGCUCAUUUUG___UAGUCCAAAGGAUAUCGCACACACA__AAGCGA
..((((.............((((((...................))))))...........(((((((....((......................))......))))))).....)))) ( -8.92 =  -9.32 +   0.40)

alignment

secondary structure

dotplot

Window 6

Location	20,515,890 – 20,515,998
Length	108
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	75.83
Mean single sequence MFE	-26.22
Consensus MFE	-13.55
Energy contribution	-14.08
Covariance contribution	0.53
Combinations/Pair	1.24
Mean z-score	-2.26
Structure conservation index	0.52
SVM decision value	1.40
SVM RNA-class probability	0.949917
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20515890 108 - 22407834
GCGCGACUUCCCCACCUUUCUGUUGUCUCGUGUUUAUUGAAAUUUCGUUUUACGACUUUCAAUAUAAAAUUUAAUUAGGCAAUUGCCUGGAAAGCACAUGGGUGGAUA------------
...........((((((...((((.((.......((((((((..(((.....))).))))))))...........(((((....))))))).))))...))))))...------------ ( -28.00)
>DroPse_CAF1 72013 91 - 1
------CUUCCCUGGCCUUCU--------GUGCUUAUUGAAAUUUCCUUUUACGACAUUCGAUAUAAAAUUUAAUUAGGCAAUUGCCUGGAAAGCACAUGGGU---UA------------
------......((((((..(--------((((((((((((...((.......))..))))))...........((((((....)))))).))))))).))))---))------------ ( -22.80)
>DroEre_CAF1 30924 101 - 1
G-----CUUCGCCACCUUUUG-CUGUCUCGUGUUUAUUGAGAUCUCGUUUUACGACUUUCGGUGUAAAAUUUAAUUAGGCAAUUGCCUG-ACAGCACACGGGUGGAUG------------
.-----.....((((((..((-(((((.......((((((((..(((.....))).))))))))............((((....)))))-))))))...))))))...------------ ( -33.50)
>DroYak_CAF1 32499 108 - 1
CCCCCACUUCACCACCUUUUGGUUGUCUCAUGUUUAUUGAAAUUUCGUUUUACGACUUUCAAUAUAAAAUUUAAUUAGGCAAUUGCCUGGAAAUCACAAGGGUAGAUA------------
.............(((((((((((..........((((((((..(((.....))).))))))))..........((((((....)))))).))))).)))))).....------------ ( -22.90)
>DroAna_CAF1 25103 120 - 1
UCCGCAUUUUACCCACUUUGUGUUGUCUUUUGCUUAUUGAAAUUUGGUUUUACGACAUUCGAUAUAAAAUUUAAUUAGGCAAUUGCCUGGAAAGCACAUGGGUGGAUACGUCCCUACAUG
..((...((((((((...((((((.((.......(((((((..(((......)))..)))))))...........(((((....))))))).))))))))))))))..)).......... ( -29.10)
>DroPer_CAF1 78135 91 - 1
------CUUCCCUGGCUUUCU--------GUGCUUAUUGAAAUUUCCUUUUACGACAUUCGAUAUAAAAUUUAAUUAGGCAAUUGCCUCGAAAGCACAUGGGU---UA------------
------...(((((((((((.--------.....(((((((...((.......))..)))))))............((((....)))).)))))).)).))).---..------------ ( -21.00)
>consensus
______CUUCCCCACCUUUCU_UUGUCUCGUGCUUAUUGAAAUUUCGUUUUACGACAUUCGAUAUAAAAUUUAAUUAGGCAAUUGCCUGGAAAGCACAUGGGUGGAUA____________
.............................((((((((((((...(((.....)))..)))))))..........((((((....))))))..)))))....................... (-13.55 = -14.08 +   0.53)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:52 2006