Locus 2465

Sequence ID	3L_DroMel_CAF1
Location	6,968,203 – 6,968,318
Length	115
Max. P	0.718888

overview

Window 1

Location	6,968,203 – 6,968,318
Length	115
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	90.64
Mean single sequence MFE	-27.12
Consensus MFE	-24.78
Energy contribution	-24.14
Covariance contribution	-0.64
Combinations/Pair	1.15
Mean z-score	-1.27
Structure conservation index	0.91
SVM decision value	0.39
SVM RNA-class probability	0.718888
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6968203 115 + 23771897
ACUCAAGUACGCCAACUAGCCAUCCUC-----AACUUGGGAUGGCGUGCAUCAAUAUUACCUCAAAGGACACAAUAAUCACGUUUAAUUAGGCUCUAAGUAGUGGCACAGUAAAAGUAGU
.......(((....(((.((((((((.-----.....))))))))((((..........((.....))..........(((......((((...))))...))))))))))....))).. ( -26.20)
>DroSec_CAF1 37613 114 + 1
ACUCAAGUACGCCAACUAGCCAUCCCC-----CACU-GGGAUGGCGUGCAUCAAUAUUACCUCAAAGGACACAAUAAUCACGUUUAAUUAGGCUCUAAGUAGUGGCACAGUAAAUGUAGU
(((((..(((........((((((((.-----....-))))))))((((..........((.....))..........(((......((((...))))...))))))).)))..)).))) ( -29.50)
>DroSim_CAF1 38454 114 + 1
ACUCAAGUACGCCAACUAGCCAUCCCC-----AACU-GGGAUGGCGUGCAUCAAUAUUACCUCAAAGGAUACAAUAAUCACGUUUAAUUAGGCUCUAAGUAGUGGCACAGUAAAAAUAGU
..............((((((((((((.-----....-))))))))((((..........((.....))..........(((......((((...))))...)))))))........)))) ( -27.10)
>DroEre_CAF1 38682 114 + 1
CCUCAAGUACGCCAACUAGCCAUCCCC-----AACU-GGGAUGGCGUGCAUCUUUAUUACCUCAAAGGACACCAUAAUCACGUUUAAUUAGGCUCUAAGUAGUGGCAGAGAACCAGUAGU
..........((((.(((((((((((.-----....-))))))))(((..(((((........))))).)))...........................))))))).............. ( -27.10)
>DroYak_CAF1 39752 119 + 1
CCUCAAGUACGCCAAUUAGCCAUUCCCCCGAAAAUU-GGAAUGGCGUGCAUCAAUAUUACCUCAAAGGACACAUUAAUCACGUUUAAUUAGGCUCUAAGUAGUGGCGGAGAAGAAGUAGU
.......(((((((((((((((((((..........-))))))))(((.((.(((....((.....))....))).)))))...))))).)))(((..((....))..)))....))).. ( -25.70)
>consensus
ACUCAAGUACGCCAACUAGCCAUCCCC_____AACU_GGGAUGGCGUGCAUCAAUAUUACCUCAAAGGACACAAUAAUCACGUUUAAUUAGGCUCUAAGUAGUGGCACAGUAAAAGUAGU
..........((((.(((((((((((...........))))))))(((...........((.....))..........)))..................))))))).............. (-24.78 = -24.14 +  -0.64)

alignment

secondary structure

dotplot

Window 2

Location	6,968,203 – 6,968,318
Length	115
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	90.64
Mean single sequence MFE	-32.58
Consensus MFE	-27.38
Energy contribution	-27.50
Covariance contribution	0.12
Combinations/Pair	1.06
Mean z-score	-1.42
Structure conservation index	0.84
SVM decision value	0.37
SVM RNA-class probability	0.707375
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6968203 115 - 23771897
ACUACUUUUACUGUGCCACUACUUAGAGCCUAAUUAAACGUGAUUAUUGUGUCCUUUGAGGUAAUAUUGAUGCACGCCAUCCCAAGUU-----GAGGAUGGCUAGUUGGCGUACUUGAGU
...((((.....((((..((....)).(((.(((((...(((((((.(((..((.....))..))).)))).)))((((((((.....-----).)))))))))))))))))))..)))) ( -29.80)
>DroSec_CAF1 37613 114 - 1
ACUACAUUUACUGUGCCACUACUUAGAGCCUAAUUAAACGUGAUUAUUGUGUCCUUUGAGGUAAUAUUGAUGCACGCCAUCCC-AGUG-----GGGGAUGGCUAGUUGGCGUACUUGAGU
.....(((((..((((..((....)).(((.(((((...(((((((.(((..((.....))..))).)))).)))((((((((-....-----.)))))))))))))))))))).))))) ( -32.90)
>DroSim_CAF1 38454 114 - 1
ACUAUUUUUACUGUGCCACUACUUAGAGCCUAAUUAAACGUGAUUAUUGUAUCCUUUGAGGUAAUAUUGAUGCACGCCAUCCC-AGUU-----GGGGAUGGCUAGUUGGCGUACUUGAGU
....................((((((.(((.(((((...(((((((.(((..((.....))..))).)))).)))((((((((-....-----.))))))))))))))))....)))))) ( -32.00)
>DroEre_CAF1 38682 114 - 1
ACUACUGGUUCUCUGCCACUACUUAGAGCCUAAUUAAACGUGAUUAUGGUGUCCUUUGAGGUAAUAAAGAUGCACGCCAUCCC-AGUU-----GGGGAUGGCUAGUUGGCGUACUUGAGG
.((...(((....(((((((((((((((((((((((....)))))).))....)))))))...............((((((((-....-----.))))))))))).))))).)))..)). ( -34.50)
>DroYak_CAF1 39752 119 - 1
ACUACUUCUUCUCCGCCACUACUUAGAGCCUAAUUAAACGUGAUUAAUGUGUCCUUUGAGGUAAUAUUGAUGCACGCCAUUCC-AAUUUUCGGGGGAAUGGCUAAUUGGCGUACUUGAGG
....((((.....(((((.....................(((((((((((..((.....))..)))))))).)))((((((((-..........))))))))....))))).....)))) ( -33.70)
>consensus
ACUACUUUUACUGUGCCACUACUUAGAGCCUAAUUAAACGUGAUUAUUGUGUCCUUUGAGGUAAUAUUGAUGCACGCCAUCCC_AGUU_____GGGGAUGGCUAGUUGGCGUACUUGAGU
.....................(((((.(((.(((((...(((((((.(((..((.....))..))).)))).)))((((((((...........))))))))))))))))....))))). (-27.38 = -27.50 +   0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:58 2006