Locus 3210

Sequence ID 3L_DroMel_CAF1
Location 9,364,658 – 9,364,771
Length 113
Max. P 0.803617
window4998 window4999

overview

Window 8

Location 9,364,658 – 9,364,771
Length 113
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 80.75
Mean single sequence MFE -42.50
Consensus MFE -33.12
Energy contribution -33.62
Covariance contribution 0.50
Combinations/Pair 1.13
Mean z-score -1.63
Structure conservation index 0.78
SVM decision value 0.62
SVM RNA-class probability 0.803617
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9364658 113 + 23771897
AGCGGAUUCUGCGGAUCACUCUCGCAGUGGCAGAUGCGGCAGAUGUCGCCGCUGUUCUGCGAUGCCUGGCUGCUGCCCGAACCGAAUCUGGA-AGGG-AUU--AGAGCAGGAUUAGA
....((((((((.((((....((((((.(((((..(((((....)))))..)))))))))))..((((((....)))....(((....))).-))))-)))--...))))))))... ( -44.50)
>DroVir_CAF1 3025 114 + 1
AGCGGAUUCUGUGGAUCGCUCUCGCAGUGGCAGAUGCGGCAAAUGUCGCCGCUAUUCUGUGACGCCUGGCUGCUGCCAGAGCCGAAUCUGCGAAUAA-AUU--UGGACACGAUUAAA
.((((((((((((((....)).))))((.(((((.(((((.......)))))...))))).))(((((((....))))).)).))))))))......-...--.............. ( -46.10)
>DroPse_CAF1 8552 108 + 1
AGAGGGUUCGAAGGAUCACUCUCGCAGUGGCAGAUGCGGCAGAUGUCGCCGCUGUUUUGCGAGGCCUGGCUGCUGCCAGAACCGAAUCUGCA-AUAG-AGC--ACAGAG-AAC----
...(((((((.........((((((((.(((((..(((((....)))))..))))))))))))).(((((....)))))...)))))))((.-....-.))--......-...---- ( -41.40)
>DroMoj_CAF1 3737 114 + 1
AGCGGAUUCUGUGGAUCGCUCUCGCAGUGGCAGAUGCGGCAUAUAUCGCCGCUGUUCUGUGACGCUUGGCUGCUGCCCGAGCCGAAUCUGCA-AUAA-AUU-GUGAGCUCCAUUAUA
.((((((((((((((....)).))))((.(((((.(((((.......)))))...))))).))(((((((....).)))))).)))))))).-....-..(-((((......))))) ( -43.50)
>DroAna_CAF1 2603 109 + 1
AGCGGAUUCUGGGGAUCGCUCUCGCAGUGGCAGAUGCGGCAGAUGUCGCCGCUGUUCUGGGAGGCCUGGCUGCUGCCCGAACCGAACCUGUA-AGGAUAUUUCAGAGAA---U----
......((((((((.((((.(((.(((.(((((..(((((....)))))..)))))))).)))))..(((....))).)).))...((....-.)).....))))))..---.---- ( -38.10)
>DroPer_CAF1 13509 108 + 1
AGAGGGUUCGAAGGAUCACUCUCGCAGUGGCAGAUGCGGCAGAUGUCGCCGCUGUUUUGCGAGGCCUGGCUGCUGCCAGAACCGAAUCUGCA-AUAG-AGC--ACAGAG-AAU----
...(((((((.........((((((((.(((((..(((((....)))))..))))))))))))).(((((....)))))...)))))))((.-....-.))--......-...---- ( -41.40)
>consensus
AGCGGAUUCUGAGGAUCACUCUCGCAGUGGCAGAUGCGGCAGAUGUCGCCGCUGUUCUGCGAGGCCUGGCUGCUGCCAGAACCGAAUCUGCA_AUAA_AUU__AGAGAA_AAU____
.((((((((...((.((....((((((.(((((..(((((....)))))..))))))))))).....(((....))).)).)))))))))).......................... (-33.12 = -33.62 +   0.50)

alignment

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secondary structure

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dotplot

Postscript

Window 9

Location 9,364,658 – 9,364,771
Length 113
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 80.75
Mean single sequence MFE -36.48
Consensus MFE -25.80
Energy contribution -25.80
Covariance contribution 0.00
Combinations/Pair 1.08
Mean z-score -1.34
Structure conservation index 0.71
SVM decision value 0.17
SVM RNA-class probability 0.617986
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9364658 113 - 23771897
UCUAAUCCUGCUCU--AAU-CCCU-UCCAGAUUCGGUUCGGGCAGCAGCCAGGCAUCGCAGAACAGCGGCGACAUCUGCCGCAUCUGCCACUGCGAGAGUGAUCCGCAGAAUCCGCU
.......(((((..--...-(((.-.((......))...))).)))))...(((...(((((...((((((.....)))))).)))))..(((((.((....))))))).....))) ( -39.80)
>DroVir_CAF1 3025 114 - 1
UUUAAUCGUGUCCA--AAU-UUAUUCGCAGAUUCGGCUCUGGCAGCAGCCAGGCGUCACAGAAUAGCGGCGACAUUUGCCGCAUCUGCCACUGCGAGAGCGAUCCACAGAAUCCGCU
..............--...-...(((((((....(((((((((....)))))).))).((((...(((((((...))))))).))))...)))))))((((............)))) ( -38.90)
>DroPse_CAF1 8552 108 - 1
----GUU-CUCUGU--GCU-CUAU-UGCAGAUUCGGUUCUGGCAGCAGCCAGGCCUCGCAAAACAGCGGCGACAUCUGCCGCAUCUGCCACUGCGAGAGUGAUCCUUCGAACCCUCU
----(((-(.....--(((-((..-.((((....(((.(((((....))))))))..(((.....((((((.....))))))...)))..)))).)))))((....))))))..... ( -37.80)
>DroMoj_CAF1 3737 114 - 1
UAUAAUGGAGCUCAC-AAU-UUAU-UGCAGAUUCGGCUCGGGCAGCAGCCAAGCGUCACAGAACAGCGGCGAUAUAUGCCGCAUCUGCCACUGCGAGAGCGAUCCACAGAAUCCGCU
.....((((((((..-...-...(-(((((.....(((..(((....))).)))....((((...((((((.....)))))).))))...))))))))))..))))........... ( -34.40)
>DroAna_CAF1 2603 109 - 1
----A---UUCUCUGAAAUAUCCU-UACAGGUUCGGUUCGGGCAGCAGCCAGGCCUCCCAGAACAGCGGCGACAUCUGCCGCAUCUGCCACUGCGAGAGCGAUCCCCAGAAUCCGCU
----.---...((((.........-..(((((...(((((((..((......))..))).)))).((((((.....)))))))))))....(((....))).....))))....... ( -32.30)
>DroPer_CAF1 13509 108 - 1
----AUU-CUCUGU--GCU-CUAU-UGCAGAUUCGGUUCUGGCAGCAGCCAGGCCUCGCAAAACAGCGGCGACAUCUGCCGCAUCUGCCACUGCGAGAGUGAUCCUUCGAACCCUCU
----(((-(((.((--(..-....-.((((((..(((.(((((....))))))))..........((((((.....)))))))))))))))...))))))................. ( -35.71)
>consensus
____AUC_UGCUCU__AAU_CUAU_UGCAGAUUCGGUUCGGGCAGCAGCCAGGCCUCGCAGAACAGCGGCGACAUCUGCCGCAUCUGCCACUGCGAGAGCGAUCCACAGAAUCCGCU
.............................(((((((.((.(((((..((...))...........((((((.....))))))..)))))...((....)))).))...))))).... (-25.80 = -25.80 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:08 2006