Locus 4582

Sequence ID	2R_DroMel_CAF1
Location	14,968,495 – 14,968,615
Length	120
Max. P	0.998553

overview

Window 9

Location	14,968,495 – 14,968,615
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	92.67
Mean single sequence MFE	-38.52
Consensus MFE	-33.18
Energy contribution	-33.22
Covariance contribution	0.04
Combinations/Pair	1.10
Mean z-score	-2.47
Structure conservation index	0.86
SVM decision value	3.14
SVM RNA-class probability	0.998553
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14968495 120 + 20766785
UGAGCUCCAAGUUCUUGAACUAUAUCAUCAAGGGAGCAUCGUUGCUCAAGCAGCCGCACUUCAACCGAUUGGCCGCUGCCCAAAAGCAGUUUAAACUGCAGCGAUACCGCAUUCUGAUGA
.((((.....))))..........((((((.(((((((....)))))..(((((.((...((....))...)).)))))))....(((((....))))).(((....)))....)))))) ( -39.90)
>DroSec_CAF1 8076 120 + 1
UGAGCUCCAAGUUCUUGAACUAUAUCAUCAAGGGAGCAUCGCUGCUCAAGCAGCCGCACUUCAACCGAUUGGCCAUUGCCCAACGGCAGUUCAAGCUGCAGCGAUACCGCACUCUGAUGA
.((((.....))))..........((((((.(((.((((((((((...(((.((((....((....)).)))).((((((....))))))....)))))))))))...)).))))))))) ( -39.30)
>DroSim_CAF1 8809 120 + 1
UGAGCUCCAAGUUCUUGAACUAUAUCAUCAAGGGAGCAUCGCUGCUCAAGCAGCCGCACUUCAACCGAUUGGCCACUGCCCAACGGCAGUUAAAGCUGCAGCGAUACCGCACUCUGAUGA
.((((.....))))..........((((((.(((.((((((((((...(((.((((....((....)).)))).((((((....))))))....)))))))))))...)).))))))))) ( -41.60)
>DroEre_CAF1 8218 120 + 1
UGAGCUCCAAGUUCUUGAACUAUAUCAUCAAGGGAGCAUCGCUGCUCAAGCAGCCUCACUUCAAUCGACUGGCUAGUGCCCAAAAGCAGUACAAACUGCAGCGAUACCGGGCUCUGAUGA
.((((.((.....(((((.........)))))((((....(((((....)))))....)))).((((.(((((....))).....(((((....)))))))))))...))))))...... ( -37.60)
>DroYak_CAF1 8502 120 + 1
UGAGCUCCAAGUUCCUGAACUACAUCAUCAAGGGAGCAUCGCUGCUCAAGCAGCCACACUUCAACCGAUUGGCCAGUGCCCAAAAGCAGUACAAACUGCAGCGAUACCGCGCUCUGAUGA
.((((.....))))..........((((((...((((...(((((....)))))................(((....))).....(((((....))))).(((....))))))))))))) ( -34.20)
>consensus
UGAGCUCCAAGUUCUUGAACUAUAUCAUCAAGGGAGCAUCGCUGCUCAAGCAGCCGCACUUCAACCGAUUGGCCACUGCCCAAAAGCAGUUCAAACUGCAGCGAUACCGCACUCUGAUGA
.((((.....))))..........((((((.(((.((...(((((....)))))(((.............(((....))).....(((((....))))).))).....)).))))))))) (-33.18 = -33.22 +   0.04)

alignment

secondary structure

dotplot

Window 0

Location	14,968,495 – 14,968,615
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.67
Mean single sequence MFE	-42.92
Consensus MFE	-36.32
Energy contribution	-36.00
Covariance contribution	-0.32
Combinations/Pair	1.13
Mean z-score	-1.75
Structure conservation index	0.85
SVM decision value	1.34
SVM RNA-class probability	0.944135
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14968495 120 - 20766785
UCAUCAGAAUGCGGUAUCGCUGCAGUUUAAACUGCUUUUGGGCAGCGGCCAAUCGGUUGAAGUGCGGCUGCUUGAGCAACGAUGCUCCCUUGAUGAUAUAGUUCAAGAACUUGGAGCUCA
(((((((...(.(((((((..(((((....))))).((..((((((.((...((....))...)).))))))..))...))))))).).)))))))...(((((.........))))).. ( -39.00)
>DroSec_CAF1 8076 120 - 1
UCAUCAGAGUGCGGUAUCGCUGCAGCUUGAACUGCCGUUGGGCAAUGGCCAAUCGGUUGAAGUGCGGCUGCUUGAGCAGCGAUGCUCCCUUGAUGAUAUAGUUCAAGAACUUGGAGCUCA
((((((.((.(.(((((((((((.((((.(((((..(((((.(...).)))))))))).))))((....))....))))))))))).)))))))))...(((((.........))))).. ( -43.90)
>DroSim_CAF1 8809 120 - 1
UCAUCAGAGUGCGGUAUCGCUGCAGCUUUAACUGCCGUUGGGCAGUGGCCAAUCGGUUGAAGUGCGGCUGCUUGAGCAGCGAUGCUCCCUUGAUGAUAUAGUUCAAGAACUUGGAGCUCA
((((((.((.(.(((((((((((.(((...((((((....)))))))))(((.((((((.....)))))).))).))))))))))).)))))))))...(((((.........))))).. ( -48.30)
>DroEre_CAF1 8218 120 - 1
UCAUCAGAGCCCGGUAUCGCUGCAGUUUGUACUGCUUUUGGGCACUAGCCAGUCGAUUGAAGUGAGGCUGCUUGAGCAGCGAUGCUCCCUUGAUGAUAUAGUUCAAGAACUUGGAGCUCA
......((((((((((((((((((((....)))....(..((((...(((...(.......)...)))))))..))))))))))))..(((((.........))))).....)).)))). ( -42.00)
>DroYak_CAF1 8502 120 - 1
UCAUCAGAGCGCGGUAUCGCUGCAGUUUGUACUGCUUUUGGGCACUGGCCAAUCGGUUGAAGUGUGGCUGCUUGAGCAGCGAUGCUCCCUUGAUGAUGUAGUUCAGGAACUUGGAGCUCA
((((((.((.(.((((((((((((((....)))....(..((((...((((..(.......)..))))))))..)))))))))))).)))))))))((.(((((.........))))))) ( -41.40)
>consensus
UCAUCAGAGUGCGGUAUCGCUGCAGUUUGAACUGCUUUUGGGCACUGGCCAAUCGGUUGAAGUGCGGCUGCUUGAGCAGCGAUGCUCCCUUGAUGAUAUAGUUCAAGAACUUGGAGCUCA
(((((((.....(((((((((((.(((.....((((....))))..)))(((.((((((.....)))))).))).)))))))))))...)))))))...(((((.........))))).. (-36.32 = -36.00 +  -0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:44 2006