Locus 5911

Sequence ID 2L_DroMel_CAF1
Location 16,694,695 – 16,694,831
Length 136
Max. P 0.980910
window9389 window9390 window9391

overview

Window 9

Location 16,694,695 – 16,694,798
Length 103
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 78.62
Mean single sequence MFE -20.48
Consensus MFE -16.79
Energy contribution -17.29
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.76
Structure conservation index 0.82
SVM decision value 1.18
SVM RNA-class probability 0.927323
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16694695 103 + 22407834
AUUUUAGCUGUAUGGUGUU--UAUGUAUAUUCCAUAGAGCUUUAUUACCAAAAACCAAAUGGUUUCUGCAUUAUGUUUGAGUUGAUUUUAUUUGGUAUU-CUU-UAC
.....((((.(((((.((.--.......)).))))).))))............(((((((((..((.((.(((....))))).))..)))))))))...-...-... ( -22.90)
>DroEre_CAF1 149877 102 + 1
AUUUUAGCUGUAUGGUGUG--UAUGU--GUUCCAUAGAGCUUUAUUACCAAAAACCAAAUGGUUUUUGCAUUAUGCUUGAGUUGAUUUUUUUUCGUUUU-GUUACAU
...((((((((((((((.(--((...--((((....)))).....)))((((((((....))))))))))))))))...))))))..............-....... ( -20.60)
>DroWil_CAF1 252464 104 + 1
AUUUUAGCUGUAUGGUGUA--UGAGCAUAAUCCAUAGAGCUUUAUUACCAAAAACCAAAUGGUUUUUGCAUUUUGCUUGAGUUGUUU-UCUUUCGUAUUGAUUUUGA
.....((((.(((((..((--(....)))..))))).)))).......((((((((....))))))))((...(((..(((......-.)))..))).))....... ( -22.00)
>DroYak_CAF1 149260 95 + 1
AUUUUAGCUGUAUGGUGUGUUUAUGU--GUUCCAUAGAGCUUUAUUACCAAAAACCAAAUGGUUUCUGCAUUAUGCUUGAGUUGAUUUUUUUUCAUU----------
...(((((((((((((((.((((((.--....)))))).............(((((....)))))..)))))))))...))))))............---------- ( -17.70)
>DroMoj_CAF1 76423 91 + 1
AUUUUAGCUGUAUGGUGUG--CGCGU--AUUCCAUAGAGCUUUAUUACCAAAAACCAAAUGGUCUUUGCAU--UGCUUUCUUUUCGUUUAUUCAGUU----------
.....((((.(((((.(((--....)--)).))))).)))).......((((.(((....))).))))...--........................---------- ( -17.40)
>DroAna_CAF1 89532 97 + 1
AUUUUAGCUGUAUGGUGUC--UC-AU--AUUCCAUAGAGCUUUAUUACCAAAAACCAAAUGGUUUUUGCAUUUUUUCUGAGUUGCUUUUGUUGUG-----GUUAUGA
.....((((.(((((....--..-..--...))))).))))((((.((((((((((....)))))))(((.(((....))).))).........)-----)).)))) ( -22.30)
>consensus
AUUUUAGCUGUAUGGUGUG__UAUGU__AUUCCAUAGAGCUUUAUUACCAAAAACCAAAUGGUUUUUGCAUUAUGCUUGAGUUGAUUUUAUUUCGUU____UU_U__
.....((((.(((((................))))).)))).......((((((((....))))))))....................................... (-16.79 = -17.29 +   0.50)

alignment

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secondary structure

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Window 0

Location 16,694,695 – 16,694,798
Length 103
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 78.62
Mean single sequence MFE -18.08
Consensus MFE -17.60
Energy contribution -17.24
Covariance contribution -0.36
Combinations/Pair 1.12
Mean z-score -3.11
Structure conservation index 0.97
SVM decision value 1.87
SVM RNA-class probability 0.980910
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16694695 103 - 22407834
GUA-AAG-AAUACCAAAUAAAAUCAACUCAAACAUAAUGCAGAAACCAUUUGGUUUUUGGUAAUAAAGCUCUAUGGAAUAUACAUA--AACACCAUACAGCUAAAAU
...-...-...............................((((((((....)))))))).......((((.(((((..........--....))))).))))..... ( -17.44)
>DroEre_CAF1 149877 102 - 1
AUGUAAC-AAAACGAAAAAAAAUCAACUCAAGCAUAAUGCAAAAACCAUUUGGUUUUUGGUAAUAAAGCUCUAUGGAAC--ACAUA--CACACCAUACAGCUAAAAU
.......-...............................((((((((....)))))))).......((((.(((((...--.....--....))))).))))..... ( -17.50)
>DroWil_CAF1 252464 104 - 1
UCAAAAUCAAUACGAAAGA-AAACAACUCAAGCAAAAUGCAAAAACCAUUUGGUUUUUGGUAAUAAAGCUCUAUGGAUUAUGCUCA--UACACCAUACAGCUAAAAU
............(....).-...................((((((((....)))))))).......((((.(((((..(((....)--))..))))).))))..... ( -19.90)
>DroYak_CAF1 149260 95 - 1
----------AAUGAAAAAAAAUCAACUCAAGCAUAAUGCAGAAACCAUUUGGUUUUUGGUAAUAAAGCUCUAUGGAAC--ACAUAAACACACCAUACAGCUAAAAU
----------.............................((((((((....)))))))).......((((.(((((...--...........))))).))))..... ( -17.44)
>DroMoj_CAF1 76423 91 - 1
----------AACUGAAUAAACGAAAAGAAAGCA--AUGCAAAGACCAUUUGGUUUUUGGUAAUAAAGCUCUAUGGAAU--ACGCG--CACACCAUACAGCUAAAAU
----------........................--...((((((((....)))))))).......((((.(((((...--.....--....))))).))))..... ( -17.60)
>DroAna_CAF1 89532 97 - 1
UCAUAAC-----CACAACAAAAGCAACUCAGAAAAAAUGCAAAAACCAUUUGGUUUUUGGUAAUAAAGCUCUAUGGAAU--AU-GA--GACACCAUACAGCUAAAAU
.....((-----(.........(((............)))(((((((....)))))))))).....((((.(((((...--..-..--....))))).))))..... ( -18.60)
>consensus
__A_AA____AACGAAAAAAAAUCAACUCAAGCAUAAUGCAAAAACCAUUUGGUUUUUGGUAAUAAAGCUCUAUGGAAU__ACAUA__CACACCAUACAGCUAAAAU
.......................................((((((((....)))))))).......((((.(((((................))))).))))..... (-17.60 = -17.24 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 1

Location 16,694,727 – 16,694,831
Length 104
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 72.51
Mean single sequence MFE -11.95
Consensus MFE -8.52
Energy contribution -8.43
Covariance contribution -0.08
Combinations/Pair 1.12
Mean z-score -1.29
Structure conservation index 0.71
SVM decision value 1.14
SVM RNA-class probability 0.921335
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16694727 104 - 22407834
AAAAUGACAUUGAGAACAAGUAACGCGAGAAAAGUA-AAGAAUACCAAAUAAAAUCAACUCAAAC---AUAAUGCAGAAACCAUUUGGUUUUUGGUAAUAAAGCUCUA
.........(((((.........(....)....(((-.....))).............)))))..---......((((((((....)))))))).............. ( -14.00)
>DroSec_CAF1 149496 104 - 1
AUAAUAACAUUAAGAAAAAGUAACACUAGAAAAGUA-AAUUAUACCAAAUAAAAUCAACUCAAGC---AUAAUGCAGAAACCAUUUGGUUUUUGGUAAUAAAGCUCUA
............(((.........(((.....))).-.....((((.................((---.....))(((((((....))))))))))).......))). ( -12.40)
>DroEre_CAF1 149907 105 - 1
ACAAUAAGAUUAAGAACAAGUAACGUUAGAAAAAUGUAACAAAACGAAAAAAAAUCAACUCAAGC---AUAAUGCAAAAACCAUUUGGUUUUUGGUAAUAAAGCUCUA
............(((.(..((.(((((.....))))).)).........................---......((((((((....))))))))........).))). ( -13.30)
>DroYak_CAF1 149292 94 - 1
CUAAUACCAUUAAAAACAAAUAAAGUUAGAA-----------AAUGAAAAAAAAUCAACUCAAGC---AUAAUGCAGAAACCAUUUGGUUUUUGGUAAUAAAGCUCUA
....((((................(((.((.-----------..(((.......)))..)).)))---.......(((((((....)))))))))))........... ( -11.90)
>DroAna_CAF1 89561 95 - 1
AAAACAAAGU-----AUAAA-AAUCUUAAAAAAUCAUAAC----CACAACAAAAGCAACUCAGAA---AAAAUGCAAAAACCAUUUGGUUUUUGGUAAUAAAGCUCUA
..........-----.....-.................((----(.........(((........---....)))(((((((....))))))))))............ (  -9.90)
>DroPer_CAF1 169704 87 - 1
---AU---UUUGUUGACAAAAAACAUUUUAA---------------AAACAUAAGCAACUCAAGCGAAAAAAUGCAAAAACCAUUUGGGUUUUGGUGAUAAAGCUCUA
---.(---((((((..(((((..(.......---------------........((.......))....(((((.......))))))..)))))..)))))))..... ( -10.20)
>consensus
AAAAUAACAUUAAGAACAAAUAACGUUAGAAAA_UA_AA____ACCAAAAAAAAUCAACUCAAGC___AUAAUGCAAAAACCAUUUGGUUUUUGGUAAUAAAGCUCUA
..........................................................................((((((((....)))))))).............. ( -8.52 =  -8.43 +  -0.08)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:15 2006