Locus 5153

Sequence ID 3L_DroMel_CAF1
Location 14,158,832 – 14,158,945
Length 113
Max. P 0.986857
window8149 window8150

overview

Window 9

Location 14,158,832 – 14,158,945
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 72.77
Mean single sequence MFE -21.44
Consensus MFE -8.21
Energy contribution -9.23
Covariance contribution 1.02
Combinations/Pair 1.21
Mean z-score -1.93
Structure conservation index 0.38
SVM decision value 0.78
SVM RNA-class probability 0.848597
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14158832 113 + 23771897
AGAAAUAAGAUA-AGAA-ACCAAAGAGAGAGAGAGCAGACAAUAUGUGAAAGAAUUCAAUUUGGGGCACG--AACCUGUUUAGAUGGGGUGGGAAAAGCUCU---CAGGAGGGUUGAAUG
............-...(-(((.....(((((...((...(((....((((....))))..)))..))...--..((..(((.....)))..)).....))))---).....))))..... ( -20.90)
>DroSec_CAF1 156527 106 + 1
AAAAAUAAGAAA-AGAA-ACCAAAGAG----AGAGCAGACAGUCUGUGAAAGAAUUCAAUUUGGGGCACA--AUCCUGUUAAGAUGGGGUGGGAAAAGCUCU---CAGGAGGGGU---UG
............-...(-(((.....(----(((((.....((((.((((....)))).....)))).(.--(((((((....))))))).).....)))))---)......)))---). ( -23.40)
>DroSim_CAF1 159622 106 + 1
AAAAAUAAGAAA-AGAA-ACCAAAGAG----AGAGCAGACAGUCUGUGAAAGAAUUCAAUUUGGGGCACA--AGCCUGUUAAGAUGGGGUGGGAAAAGCUCU---CAGGAGGGGU---UG
............-...(-(((.....(----(((((...((.((((((((....)))......((((...--.))))......))))).))......)))))---)......)))---). ( -22.70)
>DroEre_CAF1 157391 100 + 1
AGAAAUACGAAAUAGUAGCCCAAAUGA-----GGGGAG--------AAAAGGAAUUCAAUU-GAGCCAGAAAAGCCUGCUUAGAUGGGGUGAGAAAAGCUGU---AAGAAGGGUU---GG
...............((((((......-----......--------.........(((.((-((((.((......)))))))).)))(((.......)))..---.....)))))---). ( -15.90)
>DroYak_CAF1 164071 98 + 1
AGAACUGAGAAUGAG---UCCAAAUGA-----AGGGAG--------UGAAGGCAUUCAAUU-GUGCCAGU--AGCCUGUUUAGAUGGGGUGGGAAAAGCUCUCAGAAGAAGGGUG---GA
....((((((.(.(.---((((..(((-----(.((.(--------(...(((((......-)))))...--.)))).))))..)))).).).......))))))..........---.. ( -24.30)
>consensus
AGAAAUAAGAAA_AGAA_ACCAAAGAG____AGAGCAGACA_U_UGUGAAAGAAUUCAAUUUGGGGCACA__AGCCUGUUUAGAUGGGGUGGGAAAAGCUCU___CAGGAGGGUU___UG
..................................((...(((....((((....))))..)))..)).....(((((........(((((.......)))))........)))))..... ( -8.21 =  -9.23 +   1.02)

alignment

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secondary structure

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dotplot

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Window 0

Location 14,158,832 – 14,158,945
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 72.77
Mean single sequence MFE -15.31
Consensus MFE -2.52
Energy contribution -2.92
Covariance contribution 0.40
Combinations/Pair 1.15
Mean z-score -2.35
Structure conservation index 0.16
SVM decision value 2.06
SVM RNA-class probability 0.986857
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14158832 113 - 23771897
CAUUCAACCCUCCUG---AGAGCUUUUCCCACCCCAUCUAAACAGGUU--CGUGCCCCAAAUUGAAUUCUUUCACAUAUUGUCUGCUCUCUCUCUCUUUGGU-UUCU-UAUCUUAUUUCU
.....((((.....(---(((((.....................(((.--...)))......((((....))))..........)))))).........)))-)...-............ ( -14.24)
>DroSec_CAF1 156527 106 - 1
CA---ACCCCUCCUG---AGAGCUUUUCCCACCCCAUCUUAACAGGAU--UGUGCCCCAAAUUGAAUUCUUUCACAGACUGUCUGCUCU----CUCUUUGGU-UUCU-UUUCUUAUUUUU
.(---(((......(---(((((......(((...((((.....))))--.)))........((((....))))..........)))))----).....)))-)...-............ ( -16.20)
>DroSim_CAF1 159622 106 - 1
CA---ACCCCUCCUG---AGAGCUUUUCCCACCCCAUCUUAACAGGCU--UGUGCCCCAAAUUGAAUUCUUUCACAGACUGUCUGCUCU----CUCUUUGGU-UUCU-UUUCUUAUUUUU
.(---(((......(---(((((.....................(((.--...)))......((((....))))..........)))))----).....)))-)...-............ ( -18.10)
>DroEre_CAF1 157391 100 - 1
CC---AACCCUUCUU---ACAGCUUUUCUCACCCCAUCUAAGCAGGCUUUUCUGGCUC-AAUUGAAUUCCUUUU--------CUCCCC-----UCAUUUGGGCUACUAUUUCGUAUUUCU
..---.........(---((.((((..............)))).........((((((-((.(((.........--------......-----))).)))))))).......)))..... ( -13.50)
>DroYak_CAF1 164071 98 - 1
UC---CACCCUUCUUCUGAGAGCUUUUCCCACCCCAUCUAAACAGGCU--ACUGGCAC-AAUUGAAUGCCUUCA--------CUCCCU-----UCAUUUGGA---CUCAUUCUCAGUUCU
..---..........(((((((....(((..............((...--.))((((.-.......))))....--------......-----......)))---....))))))).... ( -14.50)
>consensus
CA___AACCCUCCUG___AGAGCUUUUCCCACCCCAUCUAAACAGGCU__UGUGCCCCAAAUUGAAUUCUUUCACA_A_UGUCUGCUCU____CUCUUUGGU_UUCU_UUUCUUAUUUCU
........((.((((...(((...............)))...))))................((((....)))).........................))................... ( -2.52 =  -2.92 +   0.40)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:07 2006