Locus 7688

Sequence ID 2L_DroMel_CAF1
Location 21,729,278 – 21,729,370
Length 92
Max. P 0.900038
window12349 window12350

overview

Window 9

Location 21,729,278 – 21,729,370
Length 92
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 73.56
Mean single sequence MFE -21.08
Consensus MFE -13.69
Energy contribution -14.08
Covariance contribution 0.39
Combinations/Pair 1.21
Mean z-score -1.09
Structure conservation index 0.65
SVM decision value 0.06
SVM RNA-class probability 0.561361
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21729278 92 + 22407834
UCCUCCGUGGCAGCGGACAUGCGGUACACCGUAUGCUUGCCCUCUACCACCUGA----AAUAUGAAAAUAUAACUAAUUAA-GCAGUACAUUUUU--U--U
......((((.((.((.(((((((....))))))).....)).)).))))....----.((((....))))..........-.............--.--. ( -19.00)
>DroVir_CAF1 5573 92 + 1
UCCUCCGUUGCGGCAGACAUUCGAUACACCGUGUGCUUGCCCUCCACCACCUGC----AGAUAGAGAAGCUAAUCAGUUUC-UGAGU----UGGGUAAAAU
.......((((((((..(((.((......)).)))..)))).....(((.((.(----(((....((......))....))-)))).----)))))))... ( -20.80)
>DroSim_CAF1 104 91 + 1
UCCUCCGUGGCAGCGGACAUGCGGUACACCGUAUGCUUGCCCUCUACCACCUGA----AAUAUGAAAAUAUAACUAAUUAA-GCAGUACAUUUU---U--U
......((((.((.((.(((((((....))))))).....)).)).))))....----.((((....))))..........-............---.--. ( -19.00)
>DroEre_CAF1 120 91 + 1
UCCUCCGUGGCAGCGGACAUACGGUACACCGUAUGCUUGCCCUCUACCACCUGG----AAUAUAAGAAAAUAACUAACUGCACUGCUUCAGUU----U--A
(((...((((.((.((.(((((((....))))))).....)).)).))))..))----)................(((((........)))))----.--. ( -23.00)
>DroYak_CAF1 104 90 + 1
UCCUCCGUGGCAGCGGACAUACGGUACACCGUAUGCUUGCCCUCUACAACCUGG----AAUAGGAAAAAAUAACUAAUUAA-GAAGUACAUUC----U--A
...((((.((((..((.(((((((....))))))))))))))((((.....)))----)...)))...............(-(((.....)))----)--. ( -21.70)
>DroAna_CAF1 120 100 + 1
UCCUCCGUGGCGGCGGACAUGCGGUACACAGUAUGCUUGCCCUCGACCACCUAAUGGUGAAAAGAAGAAAUAAUAUAUUAA-UAACAAGCUUCGAUUAAGA
.....((.(((((((..(((((........)))))..))))......((((....))))......................-......))).))....... ( -23.00)
>consensus
UCCUCCGUGGCAGCGGACAUGCGGUACACCGUAUGCUUGCCCUCUACCACCUGA____AAUAUGAAAAAAUAACUAAUUAA_GAAGUACAUUU____U__A
......((((..(((..(((((((....)))))))..)))...))))...................................................... (-13.69 = -14.08 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 21,729,278 – 21,729,370
Length 92
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 73.56
Mean single sequence MFE -26.15
Consensus MFE -17.74
Energy contribution -17.88
Covariance contribution 0.14
Combinations/Pair 1.21
Mean z-score -1.40
Structure conservation index 0.68
SVM decision value 1.01
SVM RNA-class probability 0.900038
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21729278 92 - 22407834
A--A--AAAAAUGUACUGC-UUAAUUAGUUAUAUUUUCAUAUU----UCAGGUGGUAGAGGGCAAGCAUACGGUGUACCGCAUGUCCGCUGCCACGGAGGA
.--.--.(((((((((((.-.....))).))))))))....((----((..(((((((.(((((.((....((....)))).))))).))))))).)))). ( -28.00)
>DroVir_CAF1 5573 92 - 1
AUUUUACCCA----ACUCA-GAAACUGAUUAGCUUCUCUAUCU----GCAGGUGGUGGAGGGCAAGCACACGGUGUAUCGAAUGUCUGCCGCAACGGAGGA
.......((.----..(((-(...))))...((..(((((((.----......)))))))((((..((..(((....)))..))..))))))...)).... ( -23.90)
>DroSim_CAF1 104 91 - 1
A--A---AAAAUGUACUGC-UUAAUUAGUUAUAUUUUCAUAUU----UCAGGUGGUAGAGGGCAAGCAUACGGUGUACCGCAUGUCCGCUGCCACGGAGGA
.--.---(((((((((((.-.....))).))))))))....((----((..(((((((.(((((.((....((....)))).))))).))))))).)))). ( -28.00)
>DroEre_CAF1 120 91 - 1
U--A----AACUGAAGCAGUGCAGUUAGUUAUUUUCUUAUAUU----CCAGGUGGUAGAGGGCAAGCAUACGGUGUACCGUAUGUCCGCUGCCACGGAGGA
.--.----(((((........)))))...............((----((..(((((((.((....((((((((....)))))))))).))))))))))).. ( -31.30)
>DroYak_CAF1 104 90 - 1
U--A----GAAUGUACUUC-UUAAUUAGUUAUUUUUUCCUAUU----CCAGGUUGUAGAGGGCAAGCAUACGGUGUACCGUAUGUCCGCUGCCACGGAGGA
.--(----(((((.(((..-......))))))))).(((...(----((..((.((((.((....((((((((....)))))))))).)))).)))))))) ( -23.50)
>DroAna_CAF1 120 100 - 1
UCUUAAUCGAAGCUUGUUA-UUAAUAUAUUAUUUCUUCUUUUCACCAUUAGGUGGUCGAGGGCAAGCAUACUGUGUACCGCAUGUCCGCCGCCACGGAGGA
((((.......((((((((-(....)))......((((...(((((....)))))..))))))))))...(((((....((......))...))))))))) ( -22.20)
>consensus
A__A____AAAUGUACUGC_UUAAUUAGUUAUUUUUUCAUAUU____UCAGGUGGUAGAGGGCAAGCAUACGGUGUACCGCAUGUCCGCUGCCACGGAGGA
...................................................(((((((.(((((.((............)).))))).)))))))...... (-17.74 = -17.88 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:48 2006