Locus 915

Sequence ID	3L_DroMel_CAF1
Location	2,774,832 – 2,774,962
Length	130
Max. P	0.999479

overview

Window 8

Location	2,774,832 – 2,774,930
Length	98
Sequences	5
Columns	105
Reading direction	reverse
Mean pairwise identity	78.68
Mean single sequence MFE	-32.18
Consensus MFE	-20.31
Energy contribution	-20.31
Covariance contribution	0.00
Combinations/Pair	1.25
Mean z-score	-3.54
Structure conservation index	0.63
SVM decision value	3.64
SVM RNA-class probability	0.999479
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2774832 98 - 23771897
CCGGGCACUCGGAAGGGAAAUCGAUCGAAACCUAA---GG-AUCUCGCUCGAUUU-UUGUUCUGAGUGUACUUA-UUCUAGUGCCUUGCUAAUAUGAACCUCCA-
..((((((((((((.(((((((((.(((..((...---))-...))).)))))))-)).))))))))))..(((-(..((((.....))))..))))....)).- ( -34.40)
>DroSec_CAF1 19990 99 - 1
CCGGUCACUCGGAAAGGAAGUCGAUUGAAAACAUACCUCG-UUCUCGCUCGAUUUUUUGUUCUGAGUGUACUUUUUUCUAGUGCCUUGCUAAUA----CCUCCA-
..((((((((((((((((((((((.(((.(((.......)-)).))).)))))))))).)))))))))..........((((.....))))..)----))....- ( -28.60)
>DroSim_CAF1 10538 97 - 1
CCGGGCACUCGGAAAGGAAGUCGAUUGAAAACAUACCUCG-UUCUCGCUCGAUUU-UUGUUCUGAGUGUACUUA-UUCAAGUGCCUUGCUAAUA----CCUCCA-
...(((((((((((..((((((((.(((.(((.......)-)).))).)))))))-)..))))))))((((((.-...))))))...)))....----......- ( -31.40)
>DroEre_CAF1 21772 97 - 1
CCAGGCACUCGGAA-GGAAAUCGACCGAGAUCCCA---GA-AUCCAGAUCGAUUU-UUGUUCCGGGUGUACAUA-UCCUAGUGCCUUGCUAAUAUGUACCCGCA-
....((((((((((-(((((((((.(..(((....---..-)))..).)))))))-)).))))))))(((((((-(..((((.....))))))))))))..)).- ( -32.80)
>DroYak_CAF1 19404 100 - 1
CCAGGCACUCGUAACGGAAAUCGAUCAGGAUCCUA---GUUCUCCAGUUCGAUUU-UUGUUCUGAGUGUACAUA-UUCUAGUGCCUUACUAAUAUGUACCUGCAU
.((((((((((.((((((((((((...(((.....---....)))...)))))))-))))).))))))((((((-(..(((((...))))))))))))))))... ( -33.70)
>consensus
CCGGGCACUCGGAAAGGAAAUCGAUCGAAAACAUA___GG_AUCUCGCUCGAUUU_UUGUUCUGAGUGUACUUA_UUCUAGUGCCUUGCUAAUAUG_ACCUCCA_
....((((((((((...(((((((.(((................))).)))))))....)))))))))).........((((.....)))).............. (-20.31 = -20.31 +   0.00)

alignment

secondary structure

dotplot

Window 9

Location	2,774,870 – 2,774,962
Length	92
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	83.35
Mean single sequence MFE	-26.96
Consensus MFE	-20.24
Energy contribution	-20.60
Covariance contribution	0.36
Combinations/Pair	1.21
Mean z-score	-1.58
Structure conservation index	0.75
SVM decision value	0.09
SVM RNA-class probability	0.579102
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2774870 92 + 23771897
UCAGAACAA-AAAUCGAGCGAGAU-CC---UUAGGUUUCGAUCGAUUUCCCUUCCGAGUGCCCGGGAGCGGCUGCUCAAAACUCAACGGUACACUCA
...(((...-(((((((.((((((-(.---...))))))).)))))))...))).(((((.(((.((((....)))).........)))..))))). ( -29.00)
>DroSec_CAF1 20025 96 + 1
UCAGAACAAAAAAUCGAGCGAGAA-CGAGGUAUGUUUUCAAUCGACUUCCUUUCCGAGUGACCGGGAGCGGCUGCUCAAAACUCAACGGUACACUCA
.............((((..(((((-((.....)))))))..))))..........(((((((((.((((....)))).........)))).))))). ( -26.80)
>DroSim_CAF1 10572 95 + 1
UCAGAACAA-AAAUCGAGCGAGAA-CGAGGUAUGUUUUCAAUCGACUUCCUUUCCGAGUGCCCGGGAGCGGCUGCUCAAAACUCAACGGUACACUCA
.........-...((((..(((((-((.....)))))))..))))..........(((((.(((.((((....)))).........)))..))))). ( -23.50)
>DroEre_CAF1 21810 91 + 1
CCGGAACAA-AAAUCGAUCUGGAU-UC---UGGGAUCUCGGUCGAUUUCC-UUCCGAGUGCCUGGGAGCUGUUGCUCAAAACUCAACGGUACACUCA
.(((((...-(((((((((.((((-(.---...))))).)))))))))..-))))).((((((((((((....)))).....)))..)))))..... ( -32.60)
>DroYak_CAF1 19443 93 + 1
UCAGAACAA-AAAUCGAACUGGAGAAC---UAGGAUCCUGAUCGAUUUCCGUUACGAGUGCCUGGGAGCGGCUGCUCAAAACUCAACGGUACACUCA
...((....-(((((((.(.(((....---.....))).).)))))))(((((..((((......((((....))))...))))))))).....)). ( -22.90)
>consensus
UCAGAACAA_AAAUCGAGCGAGAA_CC___UAGGAUUUCGAUCGAUUUCCUUUCCGAGUGCCCGGGAGCGGCUGCUCAAAACUCAACGGUACACUCA
...(((....(((((((.((((((..........)))))).)))))))...))).(((((.(((.((((....)))).........)))..))))). (-20.24 = -20.60 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:20 2006