Locus 8227

Sequence ID	3R_DroMel_CAF1
Location	22,062,228 – 22,062,374
Length	146
Max. P	0.991215

overview

Window 7

Location	22,062,228 – 22,062,340
Length	112
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.49
Mean single sequence MFE	-25.86
Consensus MFE	-22.80
Energy contribution	-23.08
Covariance contribution	0.28
Combinations/Pair	1.05
Mean z-score	-1.91
Structure conservation index	0.88
SVM decision value	2.25
SVM RNA-class probability	0.991215
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22062228 112 + 27905053
ACAUUAAAAAACCAUUUUCGUAUACCCGCUGAGUAGCAAAACAAAAGUAGA--------AAGAAUGCCAAAUGUCAUUAGAACAGAUUUUGGCAUUUGGCACAGAGGCACAAAUUUCGAU
...........((.(((((........(((....)))...((....)).))--------)))..((((((((((((..(.......)..))))))))))))....))............. ( -21.60)
>DroSec_CAF1 54214 112 + 1
ACAUUAAAAAACCAUUUUCGUAAGCCCGCUGAGCAGCAAGACAAAAGUAGA--------AAGAAUGCCAAAUGUCAUUAGAACAGAUUUUGGCAUUUGGCACAGAGGCACAAAUUUCGAU
.......................(((((((....)))..............--------.....((((((((((((..(.......)..))))))))))))..).)))............ ( -25.20)
>DroSim_CAF1 46915 112 + 1
ACAUUAAAAAACCAUUUUCGUAAGCCCGCUGAGCAGCAAGACAAAAGUAGA--------AAGAAUGCCAAAUGUCAUUAGAACAGAUUUUGGCAUUUGGCACAGAGGCACAAAUUUCGAU
.......................(((((((....)))..............--------.....((((((((((((..(.......)..))))))))))))..).)))............ ( -25.20)
>DroEre_CAF1 48778 112 + 1
ACAUUAAAAAACCAUUUUCGUAAGCCCGCUGAGUUGCGAGACAAGAGUAGA--------AAGAAUGCCAAAUGUCAUUAGAACAGAUUUUGGCAUUUGGCACAGAGGCACAAAUUUCGAU
.......................(((..(((.(((....))).........--------.....((((((((((((..(.......)..))))))))))))))).)))............ ( -25.50)
>DroYak_CAF1 56555 120 + 1
ACAUUAAAAACCCAUUUUUGUAAGCCCGCUGAGUGGCGAGACAAAAGUAGAAAAGUGGAAAGAAUGCCAAAUGUCAUUAGAACAGAUUUUGGCAUUUGGCACAGAGGCACAAAUUUCGAU
.............((((((((..((((.....).)))...)))))))).((((..(((......((((((((((((..(.......)..))))))))))))......).))..))))... ( -31.80)
>consensus
ACAUUAAAAAACCAUUUUCGUAAGCCCGCUGAGUAGCAAGACAAAAGUAGA________AAGAAUGCCAAAUGUCAUUAGAACAGAUUUUGGCAUUUGGCACAGAGGCACAAAUUUCGAU
.......................(((((((....)))...........................((((((((((((..(.......)..))))))))))))..).)))............ (-22.80 = -23.08 +   0.28)

alignment

secondary structure

dotplot

Window 8

Location	22,062,268 – 22,062,374
Length	106
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.21
Mean single sequence MFE	-26.32
Consensus MFE	-19.44
Energy contribution	-19.44
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.12
Structure conservation index	0.74
SVM decision value	0.27
SVM RNA-class probability	0.663604
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22062268 106 + 27905053
ACAAAAGUAGA--------AAGAAUGCCAAAUGUCAUUAGAACAGAUUUUGGCAUUUGGCACAGAGGCACAAAUUUCGAUAUU-UCUUGUUUUAUUCUCAGCACAAGCGUUC-----UAC
......(((((--------(((((((((((((((((..(.......)..)))))))))))...((((((.((((......)))-)..)))))))))))..((....)).)))-----))) ( -26.50)
>DroSec_CAF1 54254 106 + 1
ACAAAAGUAGA--------AAGAAUGCCAAAUGUCAUUAGAACAGAUUUUGGCAUUUGGCACAGAGGCACAAAUUUCGAUAUU-UCUUGUUUUAUACUCAGCACAAGCGUUC-----UAC
......(((((--------(....((((((((((((..(.......)..))))))))))))..(((....((((...((....-))..))))....))).((....)).)))-----))) ( -25.80)
>DroSim_CAF1 46955 106 + 1
ACAAAAGUAGA--------AAGAAUGCCAAAUGUCAUUAGAACAGAUUUUGGCAUUUGGCACAGAGGCACAAAUUUCGAUAUU-UCUUGUUUUAUUCUCAGCACAAGCGUUC-----UAC
......(((((--------(((((((((((((((((..(.......)..)))))))))))...((((((.((((......)))-)..)))))))))))..((....)).)))-----))) ( -26.50)
>DroEre_CAF1 48818 107 + 1
ACAAGAGUAGA--------AAGAAUGCCAAAUGUCAUUAGAACAGAUUUUGGCAUUUGGCACAGAGGCACAAAUUUCGAUAUUUUCUUGUUUUAUUCACAGCACAAGCGGUC-----UAC
....(((((((--------(((((((((((((((((..(.......)..))))))))))))..((((......))))......))))..))))))))...((....))....-----... ( -25.70)
>DroYak_CAF1 56595 120 + 1
ACAAAAGUAGAAAAGUGGAAAGAAUGCCAAAUGUCAUUAGAACAGAUUUUGGCAUUUGGCACAGAGGCACAAAUUUCGAUAUUUUCUUGUUUUAUUCUCAGCACAAGCGGUCUGUUCUAC
..............(((((((((.((((((((((((..(.......)..))))))))))))..((((...((((...((.....))..))))...)))).((....))..))).)))))) ( -27.10)
>consensus
ACAAAAGUAGA________AAGAAUGCCAAAUGUCAUUAGAACAGAUUUUGGCAUUUGGCACAGAGGCACAAAUUUCGAUAUU_UCUUGUUUUAUUCUCAGCACAAGCGUUC_____UAC
...................((((.((((((((((((..(.......)..))))))))))))..((((......)))).......))))............((....))............ (-19.44 = -19.44 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:06:05 2006