Locus 3540

Sequence ID	2L_DroMel_CAF1
Location	10,333,736 – 10,333,895
Length	159
Max. P	0.998314

overview

Window 6

Location	10,333,736 – 10,333,855
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.98
Mean single sequence MFE	-32.92
Consensus MFE	-32.32
Energy contribution	-31.92
Covariance contribution	-0.40
Combinations/Pair	1.14
Mean z-score	-1.84
Structure conservation index	0.98
SVM decision value	3.06
SVM RNA-class probability	0.998314
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10333736 119 - 22407834
AAUUACCAAACGAGGGCUCCAGCGAUAGUCGCGUUAGCUGCAUGAUUCAUCUCGGCAUCGCGAUAAAUCAGUGAUUAUGCUAAUGUGCU-UCUGUGAUAAAACAUCAAGGCUAUUGCAAC
.....((......))......(((((((((((((((((..(((((((.(((.((....)).))).))))).)).....))))))))...-....((((.....)))).)))))))))... ( -33.10)
>DroSec_CAF1 1674 119 - 1
AAUUACCAAACGAGGGCUCCAGCGAUAGUCGCGUUAGCUGCAUGAUUCAUCUCGGCAUCGCGAUAAAUCAGUGAUUAUGCUAAUGUGAU-UCUGUGAUAAAACAUCAAGGCUAUUGCAAC
.....((......))......(((((((((((((((((..(((((((.(((.((....)).))).))))).)).....))))))))...-....((((.....)))).)))))))))... ( -33.10)
>DroSim_CAF1 1743 119 - 1
AAUUACCAAACGAGGGCUCCAGCGAUAGUCGCGUUAGCUGCAUGAUUCAUCUCGGCAUCGCGAUAAAUCAGUGAUUAUGCUAACGUGAU-UCUGUGAUAAAACAUCAAGGCUAUUGCAAC
.....((......))......(((((((((((((((((..(((((((.(((.((....)).))).))))).)).....))))))))...-....((((.....)))).)))))))))... ( -34.90)
>DroEre_CAF1 1783 119 - 1
AAUUACCAAACGAGGGCUCCAGCGAUAGUCGCGUUAGCUGCAUGAUUCAUCUUGGCAUCGCGAUAAAUCAGUGAUUAUGCUAAUGCGUU-UCUGUGAUAAAACAUCAAGGCUAUUGCAAC
.....((......))......(((((((((((((((((..(((((((.(((.((....)).))).))))).)).....))))))))...-....((((.....)))).)))))))))... ( -33.40)
>DroYak_CAF1 1737 120 - 1
AAUUACCAAACGAGGGCUCCAGCGAUAGUCGCAUUAGAUGCAUGGUUCAUCUCGGCAUCGCUAUAAAUCAGUGAUUAUGCUAAUGUAUUUUGUGUGAUAAAACAUCAAGGCUAUUGCAAC
.....((......))......(((((((((((((.((((((((((......))(((((((((.......)))))...)))).)))))))).))))(((.....)))..)))))))))... ( -30.10)
>consensus
AAUUACCAAACGAGGGCUCCAGCGAUAGUCGCGUUAGCUGCAUGAUUCAUCUCGGCAUCGCGAUAAAUCAGUGAUUAUGCUAAUGUGAU_UCUGUGAUAAAACAUCAAGGCUAUUGCAAC
.....((......))......(((((((((((((((((..(((((((.(((.((....)).))).))))).)).....))))))))........((((.....)))).)))))))))... (-32.32 = -31.92 +  -0.40)

alignment

secondary structure

dotplot

Window 7

Location	10,333,775 – 10,333,895
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.67
Mean single sequence MFE	-34.08
Consensus MFE	-32.40
Energy contribution	-32.64
Covariance contribution	0.24
Combinations/Pair	1.03
Mean z-score	-1.39
Structure conservation index	0.95
SVM decision value	0.94
SVM RNA-class probability	0.885639
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10333775 120 + 22407834
GCAUAAUCACUGAUUUAUCGCGAUGCCGAGAUGAAUCAUGCAGCUAACGCGACUAUCGCUGGAGCCCUCGUUUGGUAAUUUGAACGGGAAACUAGAUCAAAUGAGCGAAAAAUCUGUGGC
......((((.(((((.((((..((((.((((((....(.((((.............)))).)....))))))))))((((((.(((....)).).))))))..)))).))))).)))). ( -34.52)
>DroSec_CAF1 1713 120 + 1
GCAUAAUCACUGAUUUAUCGCGAUGCCGAGAUGAAUCAUGCAGCUAACGCGACUAUCGCUGGAGCCCUCGUUUGGUAAUUUGAACGGGAAACUAGAUCAAAUGAGCGAAAAAUCUGUGGC
......((((.(((((.((((..((((.((((((....(.((((.............)))).)....))))))))))((((((.(((....)).).))))))..)))).))))).)))). ( -34.52)
>DroSim_CAF1 1782 120 + 1
GCAUAAUCACUGAUUUAUCGCGAUGCCGAGAUGAAUCAUGCAGCUAACGCGACUAUCGCUGGAGCCCUCGUUUGGUAAUUUGAACGGGAAACUAGAUCAAAUGAGCGAAAAAUCUGUGGC
......((((.(((((.((((..((((.((((((....(.((((.............)))).)....))))))))))((((((.(((....)).).))))))..)))).))))).)))). ( -34.52)
>DroEre_CAF1 1822 120 + 1
GCAUAAUCACUGAUUUAUCGCGAUGCCAAGAUGAAUCAUGCAGCUAACGCGACUAUCGCUGGAGCCCUCGUUUGGUAAUUUGAACGGGAAACUAGAUCAAAUGAGCGACAAAUCUGUGAC
......((((.(((((.((((..(((((.(((((....(.((((.............)))).)....))))))))))((((((.(((....)).).))))))..)))).))))).)))). ( -35.42)
>DroYak_CAF1 1777 120 + 1
GCAUAAUCACUGAUUUAUAGCGAUGCCGAGAUGAACCAUGCAUCUAAUGCGACUAUCGCUGGAGCCCUCGUUUGGUAAUUUGAACGGGAAACUAGAUCAAAUGAGCGAAAAAUCUGUGGC
......((((.(((((.(((((((((..(((((.......)))))...))....)))))))....(((((((((((.........((....))..)))))))))).)..))))).)))). ( -31.40)
>consensus
GCAUAAUCACUGAUUUAUCGCGAUGCCGAGAUGAAUCAUGCAGCUAACGCGACUAUCGCUGGAGCCCUCGUUUGGUAAUUUGAACGGGAAACUAGAUCAAAUGAGCGAAAAAUCUGUGGC
......((((.(((((.((((..((((.((((((....(.((((.............)))).)....))))))))))((((((.(((....)).).))))))..)))).))))).)))). (-32.40 = -32.64 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:56 2006