Locus 8713

Sequence ID	3L_DroMel_CAF1
Location	22,635,736 – 22,635,850
Length	114
Max. P	0.999595

overview

Window 4

Location	22,635,736 – 22,635,850
Length	114
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	72.67
Mean single sequence MFE	-20.46
Consensus MFE	-7.20
Energy contribution	-8.52
Covariance contribution	1.32
Combinations/Pair	1.25
Mean z-score	-1.77
Structure conservation index	0.35
SVM decision value	0.25
SVM RNA-class probability	0.652738
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22635736 114 + 23771897
UCCCAUGCAGAAUUACGGAAAAAAUGUACAAUGUAAAAAAUGUGAA------AGGGUCAAUGCGAAUGUCUGAUACCCUCCACGCAUGUGUACGUAACUAGUAAGAAUUCUGCAUAGAAA
....((((((((((.........(((((((.........(((((..------(((((..(.((....)).)...)))))...))))).)))))))..........))))))))))..... ( -27.21)
>DroSec_CAF1 4305 93 + 1
UCCCAUGCAGAAUUACGUAAAAAAUGUACAGUGUAAAAAACGU---------------------AAUGUCUGAUCCCCUCCACACAUAUGUGCAUAAC------GAGUUCCGCAUAGUAA
....((((.(((((.(((.....(((((((((.......))..---------------------.((((.((........)).)))).))))))).))------)))))).))))..... ( -18.60)
>DroSim_CAF1 2653 93 + 1
UCCCAUGCAGAAUUACGGAAAAAAUGUACAGUGUAAAAAACGU---------------------AAUGUCUGAUCCCCUCCACACAUAUGUACAUAAC------GAAUUCCGCAUAGUAA
....((((.(((((.((......(((((((((.......))..---------------------.((((.((........)).)))).)))))))..)------)))))).))))..... ( -17.90)
>DroEre_CAF1 983 111 + 1
UCCCAUGCAGAAUUACAAAAAAAAUGUACAAUGUAAAAAA-GUAAAAACCUAAGGGCCAAUGCGAAUGCCUGAUGCCCUGCACACAUAGAUG--------GUACGAACUCCGCAUAGCAA
.....(((.....((((.......))))..((((......-...........(((((....((....)).....)))))............(--------(........)))))).))). ( -15.20)
>DroYak_CAF1 13711 106 + 1
UCCCAUGCAGAAUUACGAAAAAAAUUUACAAUGUAAAAAAUGUAAC------AGGGCAAAUGCGAAUGCCGGAUCCCCUGCUCACAUAAAUG--------GUAAAAAUUCUGCAUAGAAC
....((((((((((..........(((((...)))))..((((..(------((((...((.((.....)).)).)))))...)))).....--------.....))))))))))..... ( -23.40)
>consensus
UCCCAUGCAGAAUUACGAAAAAAAUGUACAAUGUAAAAAACGU_A_______AGGG__AAUGCGAAUGUCUGAUCCCCUCCACACAUAUGUGC_UAAC__GUA_GAAUUCCGCAUAGAAA
....((((.(((((.........(((((((((((.................................................)))).)))))))..........))))).))))..... ( -7.20 =  -8.52 +   1.32)

alignment

secondary structure

dotplot

Window 5

Location	22,635,736 – 22,635,850
Length	114
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	72.67
Mean single sequence MFE	-29.16
Consensus MFE	-14.95
Energy contribution	-14.79
Covariance contribution	-0.16
Combinations/Pair	1.15
Mean z-score	-2.93
Structure conservation index	0.51
SVM decision value	3.76
SVM RNA-class probability	0.999595
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22635736 114 - 23771897
UUUCUAUGCAGAAUUCUUACUAGUUACGUACACAUGCGUGGAGGGUAUCAGACAUUCGCAUUGACCCU------UUCACAUUUUUUACAUUGUACAUUUUUUCCGUAAUUCUGCAUGGGA
.((((((((((((((............(((((.(((.(((((((((....(.....)......)))).------)))))........))))))))...........)))))))))))))) ( -28.50)
>DroSec_CAF1 4305 93 - 1
UUACUAUGCGGAACUC------GUUAUGCACAUAUGUGUGGAGGGGAUCAGACAUU---------------------ACGUUUUUUACACUGUACAUUUUUUACGUAAUUCUGCAUGGGA
...(((((((((((((------.((.(((((....))))))).)))........((---------------------((((.....................)))))))))))))))).. ( -23.80)
>DroSim_CAF1 2653 93 - 1
UUACUAUGCGGAAUUC------GUUAUGUACAUAUGUGUGGAGGGGAUCAGACAUU---------------------ACGUUUUUUACACUGUACAUUUUUUCCGUAAUUCUGCAUGGGA
...(((((((((((((------(..(((((((...((((((((((...........---------------------...)))))))))))))))))......)).)))))))))))).. ( -28.64)
>DroEre_CAF1 983 111 - 1
UUGCUAUGCGGAGUUCGUAC--------CAUCUAUGUGUGCAGGGCAUCAGGCAUUCGCAUUGGCCCUUAGGUUUUUAC-UUUUUUACAUUGUACAUUUUUUUUGUAAUUCUGCAUGGGA
...(((((((((((...(((--------.......(((((((((((.....((....))....))))..((((....))-))........))))))).......)))))))))))))).. ( -32.64)
>DroYak_CAF1 13711 106 - 1
GUUCUAUGCAGAAUUUUUAC--------CAUUUAUGUGAGCAGGGGAUCCGGCAUUCGCAUUUGCCCU------GUUACAUUUUUUACAUUGUAAAUUUUUUUCGUAAUUCUGCAUGGGA
.((((((((((((((.....--------.....((((((.(((((.(....((....))...).))))------)))))))..(((((...)))))..........)))))))))))))) ( -32.20)
>consensus
UUACUAUGCGGAAUUC_UAC__GUUA_GCACAUAUGUGUGGAGGGGAUCAGACAUUCGCAUU__CCCU_______U_ACAUUUUUUACAUUGUACAUUUUUUCCGUAAUUCUGCAUGGGA
...((((((((((....................((((.((........)).)))).............................((((................)))))))))))))).. (-14.95 = -14.79 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:22:54 2006