Locus 993

Sequence ID	3L_DroMel_CAF1
Location	2,962,903 – 2,963,030
Length	127
Max. P	0.875101

overview

Window 2

Location	2,962,903 – 2,963,000
Length	97
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	82.11
Mean single sequence MFE	-28.77
Consensus MFE	-20.63
Energy contribution	-21.78
Covariance contribution	1.16
Combinations/Pair	1.30
Mean z-score	-2.56
Structure conservation index	0.72
SVM decision value	0.89
SVM RNA-class probability	0.875101
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2962903 97 + 23771897
AUCCCCAGU----CACGCUGUGCGUGCUAGAAUGGUCAACAGUUUUAUUGUCCGGCAAAGGACUCUGGAAACAAAUGUUGAUU-UCUGCGCACAGAAAAGAA
.........----....((((((((...((((..((((((((((((...((((......))))....)))))...))))))))-)))))))))))....... ( -31.30)
>DroVir_CAF1 243196 94 + 1
ACACCCGUUCCGCGACCCAGCUC-AACCGAAAUGAACAAAAGUUUUAUUGUGUUGCA-UGAACUCUUAGCAGAAACGUUGAUU-UC---GCAUUCACAA-A-
...........((((..((((.(-((((((...((((....))))..))).))))..-.....(((....)))...))))...-))---))........-.- ( -13.90)
>DroSec_CAF1 191519 96 + 1
AUCCCCAGU----CACGCUGUGCGUGCUGGAAUGGUCAACAGUUUUAUUGUCCGACAAAGGACUCUGGAAACAAAUGUUGAUU-UCUGCGCACAGAAAA-AA
....((((.----(((((...)))))))))....((((((((((((...((((......))))....)))))...)))))))(-((((....)))))..-.. ( -32.20)
>DroSim_CAF1 177638 96 + 1
AUCCCCAGU----CACGCUGUGCGUGCUGGAAUGGUCAACAGUUUUAUUGUCCGGCAAAGGACUCUGGAAACAAAUGUUGAUU-UCUGCGCACAGAAAA-AA
....((((.----(((((...)))))))))....((((((((((((...((((......))))....)))))...)))))))(-((((....)))))..-.. ( -32.20)
>DroEre_CAF1 199537 94 + 1
AUCCCCAGG----CACGCAGCGCGUGCAGGAAUGGUCAACAGUUUUAUUGUCCGGCAAAGGACUCUAGAAACAAAUGUUGAUU-UCUGCGCACA--AAA-AA
........(----(.....))(.((((((((...(((((((.(((((..((((......))))..))))).....))))))))-))))))).).--...-.. ( -29.30)
>DroYak_CAF1 203770 97 + 1
AUUCCCAGU----CACGCUGUGCGUGCUGGAAUGGUCAACAGUUUUAUUGUCCGGCAAAGGACUCUAGAAACAAAUGUUGAUUUUCAGCGCACAGAAAA-AA
.........----....((((((..(((((((..(((((((.(((((..((((......))))..))))).....))))))))))))))))))))....-.. ( -33.70)
>consensus
AUCCCCAGU____CACGCUGUGCGUGCUGGAAUGGUCAACAGUUUUAUUGUCCGGCAAAGGACUCUGGAAACAAAUGUUGAUU_UCUGCGCACAGAAAA_AA
.................((((((((...((...((((((((.(((((..((((......))))..))))).....)))))))).)).))))))))....... (-20.63 = -21.78 +   1.16)

alignment

secondary structure

dotplot

Window 3

Location	2,962,928 – 2,963,030
Length	102
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	80.63
Mean single sequence MFE	-22.95
Consensus MFE	-14.38
Energy contribution	-15.17
Covariance contribution	0.78
Combinations/Pair	1.37
Mean z-score	-1.48
Structure conservation index	0.63
SVM decision value	-0.03
SVM RNA-class probability	0.519481
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2962928 102 + 23771897
GAAUGGUCAACAGUUUUAUUGUCCGGCAAAGGACUCUGGAAACAAAUGUUGAUU-UCUGCGCACAGAAAAGAAAAGGAUUUUUUAGAGGUUUUUUAUGUGU-----UU
(((..((((((((((((...((((......))))....)))))...))))))))-))...(((((.((((((....((....)).....)))))).)))))-----.. ( -22.90)
>DroVir_CAF1 243224 98 + 1
AAAUGAACAAAAGUUUUAUUGUGUUGCA-UGAACUCUUAGCAGAAACGUUGAUU-UC---GCAUUCACAA-A--U-AUU-UUUGGUACAUUAUGUUCAAGUUAUUUUC
.((((..(((((((....(((((.(((.-.(((...(((((......))))).)-))---)))..)))))-.--.-)))-))))...))))................. ( -15.20)
>DroSec_CAF1 191544 101 + 1
GAAUGGUCAACAGUUUUAUUGUCCGACAAAGGACUCUGGAAACAAAUGUUGAUU-UCUGCGCACAGAAAA-AAAAGAAUGUUUUAGAGGUUUUUUAUGUGC-----UU
(((..((((((((((((...((((......))))....)))))...))))))))-)).(((((.((((((-.....((....)).....)))))).)))))-----.. ( -24.70)
>DroSim_CAF1 177663 101 + 1
GAAUGGUCAACAGUUUUAUUGUCCGGCAAAGGACUCUGGAAACAAAUGUUGAUU-UCUGCGCACAGAAAA-AAAGGAUGUUUUUAGAGGUUUUUUAUGUGC-----UU
(((..((((((((((((...((((......))))....)))))...))))))))-))...(((((.....-(((((((.((....)).))))))).)))))-----.. ( -25.80)
>DroEre_CAF1 199562 99 + 1
GAAUGGUCAACAGUUUUAUUGUCCGGCAAAGGACUCUAGAAACAAAUGUUGAUU-UCUGCGCACA--AAA-AAAGGAUUUUUUUAGAGGUUUUUUAUGAGC-----UU
(((..(((((((.(((((..((((......))))..))))).....))))))))-))...((.((--...-((((((((((....)))))))))).)).))-----.. ( -22.00)
>DroYak_CAF1 203795 101 + 1
GAAUGGUCAACAGUUUUAUUGUCCGGCAAAGGACUCUAGAAACAAAUGUUGAUUUUCAGCGCACAGAAAA-AAAGGAUU-UUUUAGAGGUUUUUUAUGUGC-----UU
(((.((((((((.(((((..((((......))))..))))).....)))))))))))((((((.((((((-....((..-..)).....)))))).)))))-----). ( -27.10)
>consensus
GAAUGGUCAACAGUUUUAUUGUCCGGCAAAGGACUCUGGAAACAAAUGUUGAUU_UCUGCGCACAGAAAA_AAAGGAUUUUUUUAGAGGUUUUUUAUGUGC_____UU
....((((((((.(((((..((((......))))..))))).....))))))))......(((((......((((((((........)))))))).)))))....... (-14.38 = -15.17 +   0.78)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:19 2006