Locus 7123

Sequence ID X_DroMel_CAF1
Location 17,873,072 – 17,873,217
Length 145
Max. P 0.986228
window11634 window11635 window11636

overview

Window 4

Location 17,873,072 – 17,873,186
Length 114
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 86.13
Mean single sequence MFE -41.52
Consensus MFE -31.69
Energy contribution -31.58
Covariance contribution -0.11
Combinations/Pair 1.13
Mean z-score -2.07
Structure conservation index 0.76
SVM decision value -0.02
SVM RNA-class probability 0.521974
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17873072 114 - 22224390
UU------GGGAAACAGCCGCCAAGAUGACCAUGUGGCAGAGUGGCGGCAUGGGAGGCCAUGGCUCCCAGAACAAUCCAUGGAUGAAGCUGAUGGGCAUCGUCCACAAGGAGCGGCGCCA
..------.((...(.(((((((...((.((....))))...))))))).((((((.(....)))))))......(((.(((((((.(((....))).)))))))...)))..)...)). ( -47.70)
>DroVir_CAF1 188395 105 - 1
---------------AGCCGCCAAGAUGACCAUGUGGCAGAGUGGCGGCAUGGGAGGCCAUGGCUCCCAGAACAAUCCAUGGAUGAAACUGAUGGGAAUCGUGCACAAGGAGCGCCGACA
---------------.(((((((...((.((....))))...)))))))...(..(((.(((..(((((.....(((....)))........)))))..)))((.......)))))..). ( -39.62)
>DroGri_CAF1 163724 105 - 1
---------------AGCCGCCAAGAUGACCAUGUGGCAGAGUGGCGGCAUGGGAGGCCAUGGCUCCCAGAACAAUCCAUGGAUGAAACUGAUGGGCAUCGUGCACAAGGAGCGCCGCCA
---------------.(((((((...((.((....))))...)))))))...((.(((....((((((((....(((....)))....))).((.((.....)).)).)))))))).)). ( -42.00)
>DroWil_CAF1 164536 120 - 1
UAAAGGGUAAAAAAAAGCCGCCAAGAUGACCAUGUGGCAGAGUGGUGGUAUGGGAGGCCAUGGCUCCCAAAAUAAUCCAUGGAUGAAACUAAUGGGCAUUGUCCAUAAGGAGCGGCGACA
....((((........(((((((...((.((....))))...))))))).((((((.(....))))))).....)))).....((...((.((((((...)))))).))...))...... ( -37.70)
>DroMoj_CAF1 207614 111 - 1
---------CGCACCAAACGCCAAGAUGACGAUGUGGCAGAGUGGCGGCAUGGGAGGCCAUGGCUCCCAGAACAAUCCAUGGAUGAAGCUGAUGGGCAUCGUGCACAAGGAGCGACGGCA
---------....(((..(((((...((.(......)))...)))))...)))...(((.(.((((((((....(((....)))....))).((.((.....)).)).))))).).))). ( -36.60)
>DroAna_CAF1 145739 117 - 1
GU---GACGACCAACAGCCGCCAAGAUGACCAUGUGGCAGAGUGGCGGCAUGGGAGGCCAUGGCUCCCAGAACAAUCCAUGGAUGAAGCUGAUGGGCAUUGUCCACAAGGAGCGACGCCA
..---.....(((...(((((((...((.((....))))...))))))).)))..(((..(.((((((((....(((....)))....))).(((((...)))))...))))).).))). ( -45.50)
>consensus
____________AACAGCCGCCAAGAUGACCAUGUGGCAGAGUGGCGGCAUGGGAGGCCAUGGCUCCCAGAACAAUCCAUGGAUGAAACUGAUGGGCAUCGUCCACAAGGAGCGACGCCA
................(((((((...((.((....))))...))))))).((((((.(....)))))))......(((.(((((((..((....))..)))).).)).)))......... (-31.69 = -31.58 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 17,873,112 – 17,873,217
Length 105
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 74.72
Mean single sequence MFE -33.67
Consensus MFE -24.35
Energy contribution -24.80
Covariance contribution 0.45
Combinations/Pair 1.05
Mean z-score -1.82
Structure conservation index 0.72
SVM decision value 1.77
SVM RNA-class probability 0.976202
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17873112 105 + 22224390
AUGGAUUGUUCUGGGAGCCAUGGCCUCCCAUGCCGCCACUCUGCCACAUGGUCAUCUUGGCGGCUGUUUCCC------AAAUCC---GGUUCCGAUCGAAGAAACUG------UGGCAGU
.(((...((..(((((((....).)))))).))..)))..((((((((...((.((((((.(((((..(...------..)..)---))))))))..)).))...))------)))))). ( -35.00)
>DroPse_CAF1 144879 90 + 1
AUGGAUUGUUCUGGGAGCCAUGGCCUCCCAUGCCGCCACUCUGCCACAUAGUCAUCUUGGCGGCUCUCUUUG------CACUCU---G---------------ACUG------UGGCAGU
.(((...((..(((((((....).)))))).))..)))..((((((((..((((.....((((......)))------)....)---)---------------))))------)))))). ( -32.90)
>DroWil_CAF1 164576 100 + 1
AUGGAUUAUUUUGGGAGCCAUGGCCUCCCAUACCACCACUCUGCCACAUGGUCAUCUUGGCGGCUUUUUUUUACCCUUUAAUCC---UUUU-----------AAAAG------UGGCAGU
.(((.......(((((((....).)))))).....)))..(((((((...(((.....)))...............(((((...---..))-----------))).)------)))))). ( -27.10)
>DroYak_CAF1 132415 111 + 1
AUGGAUUGUUCUGGGAGCCAUGGCCUCCCAUGCCGCCACUCUGCCACAUGGUCAUCUUGGCGGCUGUUUCCC------AAAUCC---GUUUCCGAUCGAAGAAACUGUGUCUGUGGCAGU
..(((((....(((((((....).)))))).(((((((...((((....)).))...)))))))........------.)))))---(((((........)))))..(((.....))).. ( -37.00)
>DroAna_CAF1 145779 96 + 1
AUGGAUUGUUCUGGGAGCCAUGGCCUCCCAUGCCGCCACUCUGCCACAUGGUCAUCUUGGCGGCUGUUGGUCGUC---ACCUCCUUGGCCUCGGAUCGA---------------------
.....(((.((((((.((((((((..((...(((((((...((((....)).))...)))))))....))..)))---)......)))))))))).)))--------------------- ( -37.10)
>DroPer_CAF1 148743 90 + 1
AUGGAUUGUUCUGGGAGCCAUGGCCUCCCAUGCCGCCACUCUGCCACAUAGUCAUCUUGGCGGCUCUCUUUG------CACUCU---G---------------ACUG------UGGCAGU
.(((...((..(((((((....).)))))).))..)))..((((((((..((((.....((((......)))------)....)---)---------------))))------)))))). ( -32.90)
>consensus
AUGGAUUGUUCUGGGAGCCAUGGCCUCCCAUGCCGCCACUCUGCCACAUGGUCAUCUUGGCGGCUGUUUUUC______AAAUCC___G_UU____________ACUG______UGGCAGU
..(((......(((((((....).)))))).(((((((...((((....)).))...))))))).................))).................................... (-24.35 = -24.80 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 17,873,112 – 17,873,217
Length 105
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 74.72
Mean single sequence MFE -36.30
Consensus MFE -30.63
Energy contribution -30.47
Covariance contribution -0.16
Combinations/Pair 1.14
Mean z-score -2.47
Structure conservation index 0.84
SVM decision value 2.03
SVM RNA-class probability 0.986228
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17873112 105 - 22224390
ACUGCCA------CAGUUUCUUCGAUCGGAACC---GGAUUU------GGGAAACAGCCGCCAAGAUGACCAUGUGGCAGAGUGGCGGCAUGGGAGGCCAUGGCUCCCAGAACAAUCCAU
.......------..((((((..(((((....)---.)))).------.)))))).(((((((...((.((....))))...))))))).((((((.(....)))))))........... ( -40.60)
>DroPse_CAF1 144879 90 - 1
ACUGCCA------CAGU---------------C---AGAGUG------CAAAGAGAGCCGCCAAGAUGACUAUGUGGCAGAGUGGCGGCAUGGGAGGCCAUGGCUCCCAGAACAAUCCAU
.((((((------((((---------------(---(....(------(..........)).....))))..)))))))).((((..(..((((((.(....)))))))...)...)))) ( -31.80)
>DroWil_CAF1 164576 100 - 1
ACUGCCA------CUUUU-----------AAAA---GGAUUAAAGGGUAAAAAAAAGCCGCCAAGAUGACCAUGUGGCAGAGUGGUGGUAUGGGAGGCCAUGGCUCCCAAAAUAAUCCAU
.......------.....-----------....---((((((..............(((((((...((.((....))))...))))))).((((((.(....)))))))...)))))).. ( -33.20)
>DroYak_CAF1 132415 111 - 1
ACUGCCACAGACACAGUUUCUUCGAUCGGAAAC---GGAUUU------GGGAAACAGCCGCCAAGAUGACCAUGUGGCAGAGUGGCGGCAUGGGAGGCCAUGGCUCCCAGAACAAUCCAU
.(((...))).....((((((..(((((....)---.)))).------.)))))).(((((((...((.((....))))...))))))).((((((.(....)))))))........... ( -43.20)
>DroAna_CAF1 145779 96 - 1
---------------------UCGAUCCGAGGCCAAGGAGGU---GACGACCAACAGCCGCCAAGAUGACCAUGUGGCAGAGUGGCGGCAUGGGAGGCCAUGGCUCCCAGAACAAUCCAU
---------------------..((.(((.((((..((.(..---..)..))..(((((((((...((.((....))))...))))))).))...)))).))).)).............. ( -37.20)
>DroPer_CAF1 148743 90 - 1
ACUGCCA------CAGU---------------C---AGAGUG------CAAAGAGAGCCGCCAAGAUGACUAUGUGGCAGAGUGGCGGCAUGGGAGGCCAUGGCUCCCAGAACAAUCCAU
.((((((------((((---------------(---(....(------(..........)).....))))..)))))))).((((..(..((((((.(....)))))))...)...)))) ( -31.80)
>consensus
ACUGCCA______CAGU____________AA_C___GGAGUU______GAAAAACAGCCGCCAAGAUGACCAUGUGGCAGAGUGGCGGCAUGGGAGGCCAUGGCUCCCAGAACAAUCCAU
....................................(((.................(((((((...((.((....))))...))))))).((((((.(....)))))))......))).. (-30.63 = -30.47 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:44 2006