Locus 329

Sequence ID	2R_DroMel_CAF1
Location	2,144,345 – 2,144,438
Length	93
Max. P	0.999869

overview

Window 8

Location	2,144,345 – 2,144,438
Length	93
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	92.40
Mean single sequence MFE	-40.30
Consensus MFE	-34.84
Energy contribution	-36.28
Covariance contribution	1.44
Combinations/Pair	1.03
Mean z-score	-3.62
Structure conservation index	0.86
SVM decision value	4.32
SVM RNA-class probability	0.999869
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2144345 93 + 20766785
UGACCUGUGUGCAUGUGCAUGUUGUCAUGUGCUUGUGUGCGCGCGAGAGUGAGCGCAUGACA-----GGCACACAUCA-CGGAUAGUAAGUCCAAUUGG
(((..(((((((..(..((((....))))..)(..(((((.(((....))).)))))..)..-----.))))))))))-.((((.....))))...... ( -37.80)
>DroSec_CAF1 122943 98 + 1
UGACCUGUGUGUAUGUGCGUGCUGUCAUGUGCUUGUGUGCGCUCGAGAGUGAGCGCAUGACAGAACGGGCACACAUCA-CGGAUAGUAAGUCCAAUUGG
...((.((((((.(((.(((.((((((((((((..(...(....)...)..)))))))))))).))).))).))).))-)((((.....))))....)) ( -42.40)
>DroSim_CAF1 126851 98 + 1
UGACCUGUGUGUAUGUGCGUGCUGUCAUGUGCUUGUGUGCGCGCGAGAGUGAGCGCAUGACAGAACGGGCACACAUCA-CGGAUAGUAAGUCCAAUUGG
...((.((((((.(((.(((.((((((((((((..(.....(....).)..)))))))))))).))).))).))).))-)((((.....))))....)) ( -43.10)
>DroEre_CAF1 121261 99 + 1
UGACCUGUGUGUAUGUGCGUGCUGUCAUGUGCUUGUGUGCGCGGGAGAGUGAGCGCAUGACAGAACGGGCACACAUCAUAAGAAAGUAAGUCCAAUUGG
...(.(((((((.(((.(((.((((((((((((..(...(......).)..)))))))))))).))).))).))).)))).)................. ( -36.70)
>DroYak_CAF1 122564 99 + 1
UGACCUGUGUGUAUGUGCGUUGUGUCAUGUGCUUGUGUGCGCGAGAGAGUGAGCGCAUGACAGAACGGGCACACAUCAACGGAAAGUUAGUCCAAUUGG
((((((((((((.(((.((((.(((((((((((..(...(....)...)..))))))))))).)))).))).))))..))))...)))).......... ( -41.50)
>consensus
UGACCUGUGUGUAUGUGCGUGCUGUCAUGUGCUUGUGUGCGCGCGAGAGUGAGCGCAUGACAGAACGGGCACACAUCA_CGGAUAGUAAGUCCAAUUGG
...(((((((((.....(((.((((((((((((..(...(....)...)..)))))))))))).))).))))))).....((((.....))))....)) (-34.84 = -36.28 +   1.44)

alignment

secondary structure

dotplot

Window 9

Location	2,144,345 – 2,144,438
Length	93
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	92.40
Mean single sequence MFE	-31.09
Consensus MFE	-24.09
Energy contribution	-24.57
Covariance contribution	0.48
Combinations/Pair	1.07
Mean z-score	-3.57
Structure conservation index	0.77
SVM decision value	2.44
SVM RNA-class probability	0.993974
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2144345 93 - 20766785
CCAAUUGGACUUACUAUCCG-UGAUGUGUGCC-----UGUCAUGCGCUCACUCUCGCGCGCACACAAGCACAUGACAACAUGCACAUGCACACAGGUCA
((....(((.......)))(-((.(((((((.-----((((((((((........))))((......))..))))))....))))))))))...))... ( -28.70)
>DroSec_CAF1 122943 98 - 1
CCAAUUGGACUUACUAUCCG-UGAUGUGUGCCCGUUCUGUCAUGCGCUCACUCUCGAGCGCACACAAGCACAUGACAGCACGCACAUACACACAGGUCA
((....(((.......)))(-((.((((((..(((.((((((((.((((......))))((......)).)))))))).)))..))))))))).))... ( -36.70)
>DroSim_CAF1 126851 98 - 1
CCAAUUGGACUUACUAUCCG-UGAUGUGUGCCCGUUCUGUCAUGCGCUCACUCUCGCGCGCACACAAGCACAUGACAGCACGCACAUACACACAGGUCA
((....(((.......)))(-((.((((((..(((.(((((((((((........))))((......))..))))))).)))..))))))))).))... ( -34.90)
>DroEre_CAF1 121261 99 - 1
CCAAUUGGACUUACUUUCUUAUGAUGUGUGCCCGUUCUGUCAUGCGCUCACUCUCCCGCGCACACAAGCACAUGACAGCACGCACAUACACACAGGUCA
.......(((((....((....))((((((..(((.((((((((.(((..................))).)))))))).)))..))))))...))))). ( -28.67)
>DroYak_CAF1 122564 99 - 1
CCAAUUGGACUAACUUUCCGUUGAUGUGUGCCCGUUCUGUCAUGCGCUCACUCUCUCGCGCACACAAGCACAUGACACAACGCACAUACACACAGGUCA
((....(((.......)))((((.(((((((..(((.(((((((.(((..................))).))))))).)))))))))))).)).))... ( -26.47)
>consensus
CCAAUUGGACUUACUAUCCG_UGAUGUGUGCCCGUUCUGUCAUGCGCUCACUCUCGCGCGCACACAAGCACAUGACAGCACGCACAUACACACAGGUCA
((....(((.......)))..((.(((((((..((.((((((((.(((..................))).)))))))).)))))))))))....))... (-24.09 = -24.57 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:35:42 2006