Locus 6655

Sequence ID	2L_DroMel_CAF1
Location	18,671,679 – 18,671,896
Length	217
Max. P	0.989950

overview

Window 7

Location	18,671,679 – 18,671,795
Length	116
Sequences	6
Columns	119
Reading direction	forward
Mean pairwise identity	74.76
Mean single sequence MFE	-26.45
Consensus MFE	-12.29
Energy contribution	-13.02
Covariance contribution	0.72
Combinations/Pair	1.29
Mean z-score	-1.86
Structure conservation index	0.46
SVM decision value	0.24
SVM RNA-class probability	0.649696
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18671679 116 + 22407834
UUCGAAUGCUUUCCCUAAGCUUUCCCACCUCCAACUCAUACAUGAGUCCGGAGGAAUACUGCACC---UUUUCAUCCUGCACUGCUUGUACCUCCAGGUCUUGUAGCUCUCUUUUUAUC
...(((.((((.....)))).)))...(((((.(((((....)))))..)))))...........---........(((((..(((((......)))))..)))))............. ( -27.70)
>DroSec_CAF1 24494 116 + 1
UUCUGAUGCUUUCCCUAAGCUUUCCCACCUCCAACUCAUACAUGAGUCCGGAGGAAUACUGCACC---UUUUCAUCCUGCACUGCUUGUACCUCCAGGUCAUGUAGUUCUUUUUUUAUC
...(((.((((.....)))).......(((((.(((((....)))))..)))))...........---...)))..(((((..(((((......)))))..)))))............. ( -26.20)
>DroSim_CAF1 25806 116 + 1
UUCUGAUGCUUUCCCUAAGCUUUCCCACCUCCAACUCAUACAUGAGUCCGGAGGAAUACUGCACC---UUUUCAUCCUGCACUGCUUGAACCUCCAGGUCAUGUAGUUCUUUCUUUAUC
...(((.((((.....)))).......(((((.(((((....)))))..)))))...........---...)))..(((((..(((((......)))))..)))))............. ( -26.70)
>DroEre_CAF1 24826 116 + 1
UUCUAAUGCUAUUCCUAAGCUCUUCCACCUCCAGCGAAUACAUGAGCUGGGAGGAAUGCUGCACC---GAUUCCUCCUGCAAUGCUUGUUCUUCCAGGUCGUGCAGUUCUUUUCUUAUC
.....(((.(((((....(((...........)))))))))))((((((((((((((.(......---))))))))))(((..(((((......)))))..)))))))).......... ( -28.40)
>DroYak_CAF1 24710 116 + 1
UUUCAAUGCUUUGCCUAAGCUUUUCCACCUCCAACGAAUACAUGAGUUCUGAGGAAUGCUGCACC---GAUUCAUCCUGCAAUGCUUGUACCUCCAGGUCGUGGAGUUCUUUUUUUACC
.......((((.....))))..((((((..((...((((......)))).(((((..((((((..---((....)).))))..))...).))))..))..))))))............. ( -23.20)
>DroAna_CAF1 20568 116 + 1
CUCCGAUCAUCUGCUGCAGCCUCUGAAUCUCGUACAAAUACACCGCCUCGGAGUGGAGGUGCACGGCAUUGUCAACGUCACAUGUC---UCCUGCAGGCUGGAUAGUUCUUCACAUAGC
....((....(((.(.(((((((.((.....((((...(((.(((...))).)))...))))..(((((((.......)).)))))---))..).)))))).))))....))....... ( -26.50)
>consensus
UUCUAAUGCUUUCCCUAAGCUUUCCCACCUCCAACUAAUACAUGAGUCCGGAGGAAUACUGCACC___UUUUCAUCCUGCAAUGCUUGUACCUCCAGGUCGUGUAGUUCUUUUUUUAUC
..................((.......(((((.................)))))......))..............(((((..(((((......)))))..)))))............. (-12.29 = -13.02 +   0.72)

alignment

secondary structure

dotplot

Window 8

Location	18,671,795 – 18,671,896
Length	101
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	72.92
Mean single sequence MFE	-34.50
Consensus MFE	-16.75
Energy contribution	-16.87
Covariance contribution	0.11
Combinations/Pair	1.42
Mean z-score	-2.47
Structure conservation index	0.49
SVM decision value	2.19
SVM RNA-class probability	0.989950
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18671795 101 + 22407834
UCCACAUUUCUUUCGUUCAUCCGGGUCAGACGCUGAUCCGUACAGCUUUUAAACCAGUUGAUUUGAUAUCGCGUUUCAAUCGGGUUCAGGGCUGCGGAAGA-------------------
........(((((((......((((((((...))))))))..(((((((.((.((.(((((..((......))..))))).)).)).))))))))))))))------------------- ( -32.40)
>DroSec_CAF1 24610 101 + 1
UCCACAUUUCUUCCAUUCAUCCGGGUCAGACGCUGAUCCGUACAGCUUCUAAACCAGUUGAUUUGAUAUCGCGUUUCAAUCGGGUUCAUCGCUGCGGAAGA-------------------
........((((((.......((((((((...))))))))..((((.......((.(((((..((......))..))))).)).......)))).))))))------------------- ( -31.04)
>DroSim_CAF1 25922 101 + 1
UCCACAUUUCUUCCAUUCAUCCGGGUCAGACGCUGAUCCGUACAGCUCCUAAACCAGUUGAUUUGAUAUCGCGUUUCAAUCGGGUUCAUCGCUGCGGAAGA-------------------
........((((((.......((((((((...))))))))..((((.......((.(((((..((......))..))))).)).......)))).))))))------------------- ( -31.04)
>DroEre_CAF1 24942 101 + 1
UCAUCCUCUCUUCCGUUUAGCCGGCAGAGACGCUGAUCCGUGCAGCUUCUAAUCCAAUUGAUUUGAAAUCGGAUUUCAAUUGGAUCUAGGGCUGCGGAAGG-------------------
(((.(.(((((.(((......))).))))).).)))(((..((((((.(((((((((((((((((....))))..)))))))))).))))))))))))...------------------- ( -38.60)
>DroYak_CAF1 24826 101 + 1
UCCUCCUCUUUUCCGCUUAUCCGGAAGAGACGCUGAUCCGUACAGCUUCUAAUCCAAUUGAUUUGGUAUCGCAUUUCAAUCGGAUCCUGGGCUGCGGAAGG-------------------
.(((..(((((((((......)))))))))......((((..((((((...((((.(((((..((......))..))))).))))...)))))))))))))------------------- ( -34.00)
>DroAna_CAF1 20684 120 + 1
UCAUCCUCCUGGUGGUCCAUGCGCAGGACUCGCUGGUCAGCACAGCUCCUGAUCCAAUUCACUUGGUAGCGCUCCUCGAUGGGGUCAAGUGCUGUGGAAGGCAGAAAUAAGGCCAUUAUA
...(((..(..(((((((.......)))).)))..).((((((.((((((((......)))...)).)))(((((.....)))))...)))))).))).(((.........)))...... ( -39.90)
>consensus
UCCACAUCUCUUCCGUUCAUCCGGGUCAGACGCUGAUCCGUACAGCUUCUAAACCAAUUGAUUUGAUAUCGCGUUUCAAUCGGGUCCAGGGCUGCGGAAGA___________________
........((((((((...........(((.((((.......)))).)))...((.(((((..((......))..))))).))..........))))))))................... (-16.75 = -16.87 +   0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:36 2006