Locus 6501

Sequence ID 3R_DroMel_CAF1
Location 17,119,438 – 17,119,528
Length 90
Max. P 0.958966
window10574 window10575

overview

Window 4

Location 17,119,438 – 17,119,528
Length 90
Sequences 3
Columns 90
Reading direction forward
Mean pairwise identity 82.16
Mean single sequence MFE -24.83
Consensus MFE -17.56
Energy contribution -18.22
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.02
Structure conservation index 0.71
SVM decision value 0.61
SVM RNA-class probability 0.800301
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17119438 90 + 27905053
CGAAGCUGCAAGAUACUACCAGAGCAGAUGCAAUUCCUAAGGGACGAUGCGCGAAAAAAUGGGGGAAACUCCCACAACUGCAGGUGCAGA
.....(((((.....(.....).((((..(((..(((....)))...))).........(((((....).))))...))))...))))). ( -24.80)
>DroEre_CAF1 31856 89 + 1
GGAAGCUGCAAGAAGCUGAAAGAGCAGAUGCAAUUCCUUAAGGACGAAUCGCGAAAAAGUGGGG-AAACUCCCACACCUGCAGGUGCAGA
...((((......))))......(((..((((..(((....)))..............((((((-....))))))...))))..)))... ( -25.30)
>DroYak_CAF1 44268 78 + 1
CGAAGCUGCAA----------GAGCAGAUGCAAUUCCUUAAGGACGAACCGCGGAAAAGUAGGG-A-ACUCCCACACCUGCAGGUGCAGA
.....(((((.----------..((((.(((..((((....((.....))..))))..)))(((-.-...)))....))))...))))). ( -24.40)
>consensus
CGAAGCUGCAAGA__CU___AGAGCAGAUGCAAUUCCUUAAGGACGAACCGCGAAAAAGUGGGG_AAACUCCCACACCUGCAGGUGCAGA
.....(((((.............((((.(((...(((....)))......))).....((((((.....))))))..))))...))))). (-17.56 = -18.22 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 17,119,438 – 17,119,528
Length 90
Sequences 3
Columns 90
Reading direction reverse
Mean pairwise identity 82.16
Mean single sequence MFE -26.13
Consensus MFE -22.14
Energy contribution -22.59
Covariance contribution 0.45
Combinations/Pair 1.12
Mean z-score -2.22
Structure conservation index 0.85
SVM decision value 1.50
SVM RNA-class probability 0.958966
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17119438 90 - 27905053
UCUGCACCUGCAGUUGUGGGAGUUUCCCCCAUUUUUUCGCGCAUCGUCCCUUAGGAAUUGCAUCUGCUCUGGUAGUAUCUUGCAGCUUCG
.(((((((.((((..(((((.......)))))........(((...(((....)))..)))..))))...)))........))))..... ( -23.00)
>DroEre_CAF1 31856 89 - 1
UCUGCACCUGCAGGUGUGGGAGUUU-CCCCACUUUUUCGCGAUUCGUCCUUAAGGAAUUGCAUCUGCUCUUUCAGCUUCUUGCAGCUUCC
...((....(((((((((((.....-.)))))......(((((((.(.....).))))))))))))).......((.....)).)).... ( -27.50)
>DroYak_CAF1 44268 78 - 1
UCUGCACCUGCAGGUGUGGGAGU-U-CCCUACUUUUCCGCGGUUCGUCCUUAAGGAAUUGCAUCUGCUC----------UUGCAGCUUCG
.(((((...(((((((((((...-.-.)))))......(((((((.(.....).)))))))))))))..----------.)))))..... ( -27.90)
>consensus
UCUGCACCUGCAGGUGUGGGAGUUU_CCCCACUUUUUCGCGAUUCGUCCUUAAGGAAUUGCAUCUGCUCU___AG__UCUUGCAGCUUCG
.(((((...(((((((((((.......)))))......(((((((.(.....).))))))))))))).............)))))..... (-22.14 = -22.59 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:52 2006