Locus 5883

Sequence ID	2R_DroMel_CAF1
Location	18,588,118 – 18,588,278
Length	160
Max. P	0.785263

overview

Window 6

Location	18,588,118 – 18,588,238
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	89.58
Mean single sequence MFE	-34.78
Consensus MFE	-28.76
Energy contribution	-27.92
Covariance contribution	-0.84
Combinations/Pair	1.23
Mean z-score	-1.57
Structure conservation index	0.83
SVM decision value	0.57
SVM RNA-class probability	0.785263
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18588118 120 - 20766785
UUUUCCACCCAUUGUUUCGUAUGACGUCAUGCCGAUGAACACGGCGUAUACGUUAUACGCUUGACCUAUCCGCUUCAUUGUUGGUAACCGAAUAGACCGUCUUUGAAGGGUUUCGCAGUC
..................(((((((((.((((((.......))))))..)))))))))((..((((......(((((..(.((((..........)))).)..)))))))))..)).... ( -33.00)
>DroSec_CAF1 6345 120 - 1
UUUUCCACCCAUUGCUUCGUAUGACGUCAUGCCGAUGAACACGGCGUAUACGUUAUACGCUUGACCUAUCCGCUUCAUUGUUGGUAACCGAAUGGACCGCAUUUGAAGGGUUUCGCAGUG
.........((((((..((((((((((.((((((.......))))))..))))))))))..........((.(((((.(((.(((..((....))))))))..)))))))....)))))) ( -38.30)
>DroSim_CAF1 6332 120 - 1
UUUUCCACCCAUUGCUUCGUAUGACGUCAUGCCGAUGAACACGGCGUAUACGUUAUACGCUUGACCUAUCCGCUUCAUUGUUGGUAACCGAAUGGACCGCAUUUGAAGGGUUUCGCAGUG
.........((((((..((((((((((.((((((.......))))))..))))))))))..........((.(((((.(((.(((..((....))))))))..)))))))....)))))) ( -38.30)
>DroEre_CAF1 6275 120 - 1
CUUUCCACCGGUUGCUUCAUAUGACGUCAUGCCGAUGAACACGGCGUAUACGUUAUAUGCUUGACCUAUCCACUUCAUUGUUGGUAACCGACUAAGCCGCCUUUGAUGUGUCUCGUAGUA
.........(((((...((((((((((.((((((.......))))))..))))))))))..)))))....(((.(((..(.((((..........)))).)..))).))).......... ( -31.70)
>DroYak_CAF1 6401 120 - 1
UUUUCCACCAGUUACUUUGUAUGACGUCAUGCCGAUGCACACGGCGUAUACGUUAUACGCUUCACCUAUCCGCCUCAUUGCUGGUAACCGAAUAAACCGCUUGCGAUGGGUUUCGUAGUA
..................(((((((((.((((((.......))))))..))))))))).......((((..(((.((((((((((..........))))...)))))))))...)))).. ( -32.60)
>consensus
UUUUCCACCCAUUGCUUCGUAUGACGUCAUGCCGAUGAACACGGCGUAUACGUUAUACGCUUGACCUAUCCGCUUCAUUGUUGGUAACCGAAUAGACCGCAUUUGAAGGGUUUCGCAGUA
..........(((((..((((((((((.((((((.......))))))..))))))))))...........(.(((((....((((..........))))....))))).)....))))). (-28.76 = -27.92 +  -0.84)

alignment

secondary structure

dotplot

Window 7

Location	18,588,158 – 18,588,278
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.92
Mean single sequence MFE	-30.12
Consensus MFE	-23.69
Energy contribution	-23.37
Covariance contribution	-0.32
Combinations/Pair	1.19
Mean z-score	-1.61
Structure conservation index	0.79
SVM decision value	0.27
SVM RNA-class probability	0.661015
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18588158 120 - 20766785
UAAGCAAGCAAUAUAUCCGAGUAAUCCGCGACUGCCUGAAUUUUCCACCCAUUGUUUCGUAUGACGUCAUGCCGAUGAACACGGCGUAUACGUUAUACGCUUGACCUAUCCGCUUCAUUG
((((((((((((......((....)).((....))...............))))))).(((((((((.((((((.......))))))..))))))))))))))................. ( -28.60)
>DroSec_CAF1 6385 120 - 1
UAAGCAAGCAAUAUAUCCGAGUAAUCCGCGACUGCCUGAAUUUUCCACCCAUUGCUUCGUAUGACGUCAUGCCGAUGAACACGGCGUAUACGUUAUACGCUUGACCUAUCCGCUUCAUUG
((((((((((((......((....)).((....))...............))))))).(((((((((.((((((.......))))))..))))))))))))))................. ( -31.00)
>DroSim_CAF1 6372 120 - 1
UAAGCAAGCAAUAUAUCCGAGUAAUCCGCGACUGCCUGAAUUUUCCACCCAUUGCUUCGUAUGACGUCAUGCCGAUGAACACGGCGUAUACGUUAUACGCUUGACCUAUCCGCUUCAUUG
((((((((((((......((....)).((....))...............))))))).(((((((((.((((((.......))))))..))))))))))))))................. ( -31.00)
>DroEre_CAF1 6315 120 - 1
UAACCAAACAAUAUAUCUGAGUAAGCCUCGACUGCUUGAACUUUCCACCGGUUGCUUCAUAUGACGUCAUGCCGAUGAACACGGCGUAUACGUUAUAUGCUUGACCUAUCCACUUCAUUG
.................(((((((((.......)))))...........(((((...((((((((((.((((((.......))))))..))))))))))..))))).......))))... ( -26.80)
>DroYak_CAF1 6441 120 - 1
UAACCAAGCAAUAUAUCCGAGUAGUCCGCGACUGCUUGAAUUUUCCACCAGUUACUUUGUAUGACGUCAUGCCGAUGCACACGGCGUAUACGUUAUACGCUUCACCUAUCCGCCUCAUUG
.....((((........(((((((((...)))))))))....................(((((((((.((((((.......))))))..))))))))))))).................. ( -33.20)
>consensus
UAAGCAAGCAAUAUAUCCGAGUAAUCCGCGACUGCCUGAAUUUUCCACCCAUUGCUUCGUAUGACGUCAUGCCGAUGAACACGGCGUAUACGUUAUACGCUUGACCUAUCCGCUUCAUUG
....(((((.........(((((((.........................))))))).(((((((((.((((((.......))))))..))))))))))))))................. (-23.69 = -23.37 +  -0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:14 2006