Locus 6951

Sequence ID	3R_DroMel_CAF1
Location	18,325,335 – 18,325,444
Length	109
Max. P	0.800800

overview

Window 2

Location	18,325,335 – 18,325,444
Length	109
Sequences	6
Columns	115
Reading direction	forward
Mean pairwise identity	82.18
Mean single sequence MFE	-34.58
Consensus MFE	-18.49
Energy contribution	-19.13
Covariance contribution	0.64
Combinations/Pair	1.14
Mean z-score	-2.63
Structure conservation index	0.53
SVM decision value	0.23
SVM RNA-class probability	0.646218
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18325335 109 + 27905053
UAUGUGCUGCAAAAGUUUUGUGGCAAAGUACUUAG----GUGUCAGGAAGAGACGGCUGAAGUCGGGGG--GUUGGACUCAGAAAGUUUUUCAAUCGAUGCCAUAAAAGCAGCAC
...(((((((.....(((((((((.......((((----.((((.......)))).)))).(((((..(--(..(((((.....))))).))..))))))))))))))))))))) ( -37.10)
>DroSec_CAF1 10921 111 + 1
UAUGUGCUGCAAAAGUUUUGUGGCAAAGUACUUAG----GUGUCAGGAGGAGAAGGCUGUGGUCGGGAGCGGGAGUGUUCAGAAAGUUUUUCAAUCGAUGCCAUAAAAGCAGCAC
...(((((((.....((((((((((..((((....----))).)..((...(((((((....((..(((((....))))).)).)))))))...))..))))))))))))))))) ( -33.60)
>DroSim_CAF1 11164 111 + 1
UAUGUGCUGCAAAAGUUUUGUGGCAAAGUACUUAG----GUGUCAGGAGGAGACGGCUGUGGUCGGGAGCGGGAGUGCUCGGAAAGUUUUUCAAUCGUUGCCAUAAAAGCAGCAC
...(((((((.....((((((((((((((((((.(----.(.((....(....)(((....))))).).)..))))))).((((....)))).....)))))))))))))))))) ( -38.10)
>DroEre_CAF1 11214 108 + 1
UAUGUGCUGCAAAAGUUCUGUGGCAAAGUACUUGG----GUGUCAGGAAAAGACGGAUGAGGACGAG---GGGAGUUCCCAGAAAGUUUUUCAAUCGAUGCCAUAAAAGCAGCAC
...(((((((.....((.(((((((.....((((.----....))))......(((.(((((((...---(((....))).....).)))))).))).))))))).))))))))) ( -32.40)
>DroYak_CAF1 11603 108 + 1
UAUGUGCUGCAAAAGUUCUGUGGCAAAGUACUUAG----GUGUCGGGAAAAGACGGAUGGGGACGAG---GGAAGUCCUCAGAAAGUUUUUCAAUCGAUGCCAUAAAAGCAGCAC
...(((((((..((((.((.......)).)))).(----(((((((..((((((...(((((((...---....)))))))....))))))...))))))))......))))))) ( -41.90)
>DroAna_CAF1 37862 101 + 1
UGUGUGCUGGAAAAGUUUUGCGGCUGAGUACUUAGGGGGGUGUCAAAA-AAUAGGGCUG-------------GUUUUCCCAAAAACUUUUUCAAUCGAUGCCAUAAAAGCAGCGC
...((((((((((((((((....((((....))))(((((..(((...-........))-------------)..))))).)))))))))))).....(((.......))))))) ( -24.40)
>consensus
UAUGUGCUGCAAAAGUUUUGUGGCAAAGUACUUAG____GUGUCAGGAAAAGACGGCUGAGGUCGGG___GGGAGUGCUCAGAAAGUUUUUCAAUCGAUGCCAUAAAAGCAGCAC
...(((((((.....((((((((((..((((........))).)..((((((.....((....................)).....))))))......))))))))))))))))) (-18.49 = -19.13 +   0.64)

alignment

secondary structure

dotplot

Window 3

Location	18,325,335 – 18,325,444
Length	109
Sequences	6
Columns	115
Reading direction	reverse
Mean pairwise identity	82.18
Mean single sequence MFE	-24.65
Consensus MFE	-16.72
Energy contribution	-17.22
Covariance contribution	0.50
Combinations/Pair	1.14
Mean z-score	-2.32
Structure conservation index	0.68
SVM decision value	0.62
SVM RNA-class probability	0.800800
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18325335 109 - 27905053
GUGCUGCUUUUAUGGCAUCGAUUGAAAAACUUUCUGAGUCCAAC--CCCCCGACUUCAGCCGUCUCUUCCUGACAC----CUAAGUACUUUGCCACAAAACUUUUGCAGCACAUA
(((((((((((.(((((..(.............(((((((....--.....))).))))..(((.......)))..----.......)..))))).)))).....)))))))... ( -27.60)
>DroSec_CAF1 10921 111 - 1
GUGCUGCUUUUAUGGCAUCGAUUGAAAAACUUUCUGAACACUCCCGCUCCCGACCACAGCCUUCUCCUCCUGACAC----CUAAGUACUUUGCCACAAAACUUUUGCAGCACAUA
(((((((((((.(((((..(...(((.....)))...........(((.........)))................----.......)..))))).)))).....)))))))... ( -19.90)
>DroSim_CAF1 11164 111 - 1
GUGCUGCUUUUAUGGCAACGAUUGAAAAACUUUCCGAGCACUCCCGCUCCCGACCACAGCCGUCUCCUCCUGACAC----CUAAGUACUUUGCCACAAAACUUUUGCAGCACAUA
(((((((((((.((((((.(...............((((......))))............(((.......)))..----.......).)))))).)))).....)))))))... ( -29.00)
>DroEre_CAF1 11214 108 - 1
GUGCUGCUUUUAUGGCAUCGAUUGAAAAACUUUCUGGGAACUCCC---CUCGUCCUCAUCCGUCUUUUCCUGACAC----CCAAGUACUUUGCCACAGAACUUUUGCAGCACAUA
(((((((((((.(((((....(((...........(((....)))---.............(((.......)))..----.)))......))))).)))).....)))))))... ( -27.80)
>DroYak_CAF1 11603 108 - 1
GUGCUGCUUUUAUGGCAUCGAUUGAAAAACUUUCUGAGGACUUCC---CUCGUCCCCAUCCGUCUUUUCCCGACAC----CUAAGUACUUUGCCACAGAACUUUUGCAGCACAUA
(((((((((((.(((((..(...............((((.....)---)))..........(((.......)))..----.......)..))))).)))).....)))))))... ( -28.00)
>DroAna_CAF1 37862 101 - 1
GCGCUGCUUUUAUGGCAUCGAUUGAAAAAGUUUUUGGGAAAAC-------------CAGCCCUAUU-UUUUGACACCCCCCUAAGUACUCAGCCGCAAAACUUUUCCAGCACACA
((((((..((((.((......(..(((((....((((.....)-------------))).....))-)))..).....)).))))....))).)))................... ( -15.60)
>consensus
GUGCUGCUUUUAUGGCAUCGAUUGAAAAACUUUCUGAGAACUCCC___CCCGACCACAGCCGUCUCUUCCUGACAC____CUAAGUACUUUGCCACAAAACUUUUGCAGCACAUA
(((((((((((.(((((......(((.....)))...........................(((.......)))................))))).)))).....)))))))... (-16.72 = -17.22 +   0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:00 2006