Locus 4663

Sequence ID 2R_DroMel_CAF1
Location 15,240,446 – 15,240,570
Length 124
Max. P 0.579802
window7497 window7498

overview

Window 7

Location 15,240,446 – 15,240,548
Length 102
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.96
Mean single sequence MFE -25.85
Consensus MFE -22.50
Energy contribution -22.50
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -0.86
Structure conservation index 0.87
SVM decision value 0.09
SVM RNA-class probability 0.579802
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15240446 102 + 20766785
---AGGAAAA----AUA--AUUCUUGC---A---CCAGAAUCUACCUAU---UUUAGCAGAGCAAGGUUUCGAUCCUCGGACCUCUGGGUUAUGGGCCCAGCACGCUUCCACUGCGCCAC
---.((.(((----(((--(((((...---.---..))))).....)))---))).(((((((.(((((.((.....)))))))((((((.....))))))...)))....)))).)).. ( -26.20)
>DroSim_CAF1 59447 92 + 1
--------AA----AAA--AUUC---A---A---ACAGAAUCUAC-UA----UUUAGCAGAGCAAGGUUUCGAUCCUCGGACCUCUGGGUUAUGGGCCCAGCACGCUUCCACUGCGCCAC
--------..----...--((((---.---.---...))))....-..----....(((((((.(((((.((.....)))))))((((((.....))))))...)))....))))..... ( -22.70)
>DroEre_CAF1 63882 107 + 1
AAAAGGAGAAAUAAAAA--AUUC---A---CCGCGCGGAAUUUAC-AA----AUUAGCAGAGCAAGGUUUCGAUCCUCGGACCUCUGGGUUAUGGGCCCAGCACGCUUCCACUGCGCCAC
....((.(((.......--.)))---.---))((((((((((...-.)----)))....((((.(((((.((.....)))))))((((((.....))))))...))))...))))))... ( -30.10)
>DroWil_CAF1 160982 106 + 1
---AGAAAAAAAAAAAAAGAAAC---A------CA-GAAGUUUCC-AUACUCCAUAGCAGAGCAAGGUUUCGAUCCUCGGACCUCUGGGUUAUGGGCCCAGCACGCUUCCACUGCGCCAC
---...............(((((---.------..-...))))).-..........(((((((.(((((.((.....)))))))((((((.....))))))...)))....))))..... ( -26.00)
>DroYak_CAF1 67257 108 + 1
AAUAGAAGAAAUAAAAAAGAUUC---A---CCGCGCG-AAUUUAC-AA----UUUAGCAGAGCAAGGUUUCGAUCCUCGGACCUCUGGGUUAUGGGCCCAGCACGCUUCCACUGCGCCAC
.................((((((---.---......)-)))))..-..----....(((((((.(((((.((.....)))))))((((((.....))))))...)))....))))..... ( -24.90)
>DroPer_CAF1 66791 96 + 1
------------A-AAAAGAGCC---GAAAACGAACA-AGU-UUC--A----UUUAGCAGAGCAAGGUUUCGAUCCUCGGACCUCUGGGUUAUGGGCCCAGCACGCUUCCACUGCGCCAC
------------.-....(.((.---((((.(.....-.))-)))--.----....(((((((.(((((.((.....)))))))((((((.....))))))...)))....))))))).. ( -25.20)
>consensus
___AG_A_AA__A_AAA__AUUC___A___A__CACAGAAUUUAC_AA____UUUAGCAGAGCAAGGUUUCGAUCCUCGGACCUCUGGGUUAUGGGCCCAGCACGCUUCCACUGCGCCAC
........................................................(((((((.(((((.((.....)))))))((((((.....))))))...)))....))))..... (-22.50 = -22.50 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 15,240,471 – 15,240,570
Length 99
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.42
Mean single sequence MFE -30.05
Consensus MFE -26.25
Energy contribution -26.42
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -0.77
Structure conservation index 0.87
SVM decision value 0.04
SVM RNA-class probability 0.554584
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15240471 99 + 20766785
UCUACCUAU---UUUAGCAGAGCAAGGUUUCGAUCCUCGGACCUCUGGGUUAUGGGCCCAGCACGCUUCCACUGCGCCACUCUGCUUGUAAAAUGAUGAGCA------------------
......(((---((((((((((..(((((.((.....)))))))((((((.....))))))..(((.......)))...)))))))...)))))).......------------------ ( -28.10)
>DroEre_CAF1 63914 97 + 1
UUUAC-AA----AUUAGCAGAGCAAGGUUUCGAUCCUCGGACCUCUGGGUUAUGGGCCCAGCACGCUUCCACUGCGCCACUCUGCUUGCAGAAAACGGAGCA------------------
.....-..----....(((((((.(((((.((.....)))))))((((((.....))))))...)))....))))((..(((((....))))....)..)).------------------ ( -27.90)
>DroWil_CAF1 161009 110 + 1
UUUCC-AUACUCCAUAGCAGAGCAAGGUUUCGAUCCUCGGACCUCUGGGUUAUGGGCCCAGCACGCUUCCACUGCGCCACUCUGCUUGUUGUGUCAACCGUGUCAGAAACU---------
.....-((((..((.(((((((..(((((.((.....)))))))((((((.....))))))..(((.......)))...)))))))))..)))).................--------- ( -30.70)
>DroYak_CAF1 67290 97 + 1
UUUAC-AA----UUUAGCAGAGCAAGGUUUCGAUCCUCGGACCUCUGGGUUAUGGGCCCAGCACGCUUCCACUGCGCCACUCUGCUUACGAUUCACCGACCG------------------
.....-..----...(((((((..(((((.((.....)))))))((((((.....))))))..(((.......)))...)))))))..((......))....------------------ ( -27.00)
>DroAna_CAF1 59229 116 + 1
UUUAC-AUU---CUUAGCAGAACAAGGUUUCGAUCCUCGGACCUCUGGGUUAUGGGCCCAGCACGCUUCCACUGCGCCACUCUGCUUGUUGAAUUCGCCGCGUUUCAAAGGCUCUCAUGA
.....-(((---(..((((((...(((((.((.....)))))))((((((.....))))))..(((.......)))....))))))....))))..(((..........)))........ ( -30.40)
>DroPer_CAF1 66814 107 + 1
U-UUC--A----UUUAGCAGAGCAAGGUUUCGAUCCUCGGACCUCUGGGUUAUGGGCCCAGCACGCUUCCACUGCGCCACUCUGCUAGCUGAUGUCGCAGCGCGAAAAAGUCUC------
(-(((--.----..((((((((..(((((.((.....)))))))((((((.....))))))..(((.......)))...))))))))((((......))))..)))).......------ ( -36.20)
>consensus
UUUAC_AA____UUUAGCAGAGCAAGGUUUCGAUCCUCGGACCUCUGGGUUAUGGGCCCAGCACGCUUCCACUGCGCCACUCUGCUUGCUGAAUACGCAGCG__________________
...............(((((((..(((((.((.....)))))))((((((.....))))))..(((.......)))...))))))).................................. (-26.25 = -26.42 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:03 2006