Locus 7411

Sequence ID 2L_DroMel_CAF1
Location 20,590,844 – 20,590,965
Length 121
Max. P 0.853138
window11907 window11908 window11909

overview

Window 7

Location 20,590,844 – 20,590,946
Length 102
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 88.62
Mean single sequence MFE -25.60
Consensus MFE -22.96
Energy contribution -22.68
Covariance contribution -0.28
Combinations/Pair 1.08
Mean z-score -1.64
Structure conservation index 0.90
SVM decision value 0.76
SVM RNA-class probability 0.843083
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20590844 102 + 22407834
GGUU----------------UUGUUGCAACGUUGACAUUUACGCAACAUGUCCCUGUUGCAUGUUUGCAAUUUGCAUUUGCAAAUAGUUGCCAAAACGAACAUCAAAUGCGGCUU--GAC
.(((----------------(((..(((((............((((((......)))))).(((((((((.......)))))))))))))))))))).....((((.......))--)). ( -28.20)
>DroPse_CAF1 154578 102 + 1
--CU----------------UUGUUGUAACAUUGACAUUUACGCAACAUGUCCCUGUUGCAUGUUUGCAAUUUGCAUUUGCAAAUAGUUGCAAAAACGAACAUCAAAUGUGGCCCUAGAC
--.(----------------((((((((((............((((((......)))))).(((((((((.......)))))))))))))))...))))).................... ( -23.80)
>DroEre_CAF1 95927 102 + 1
GGCU----------------UUGUUGUAACUUUGACAUUUACGCAACAUGUCCCUGUUGCAUGUUUGCAAUUUGCAUUUGCAAAUAGUUGCCAAAACGAACAUCAAAUGCGGCUU--CGC
.((.----------------..((((((..(((((..(((..((((((......)))))).(((((((((.......)))))))))(((.....))))))..)))))))))))..--.)) ( -24.80)
>DroYak_CAF1 99639 102 + 1
GGUU----------------UUGUUGUAACGUUGACAUUUACGCAACAUGUCCCUGUUGCAUGUUUGCAAUUUGCAUUUGCAAAUAGUUGCCAAAACGAACAUCAAAUGCGGCUU--GAC
.(((----------------(((..(((((............((((((......)))))).(((((((((.......)))))))))))))))))))).....((((.......))--)). ( -26.20)
>DroAna_CAF1 99022 118 + 1
GGUUUAGUUUUUUUCUCCUGUUGUUGUAGCAUUGACAUUUACGCAACAUGUCCCUGUUGCAUGUUUGCAAUUUGCAUUUGCAAAUAGUUGCAAAAACGAACAUCAAAUGCGGCUU--GAC
.(((.((((..........(((.(((((((............((((((......)))))).(((((((((.......)))))))))))))))).)))(.....)......)))).--))) ( -26.80)
>DroPer_CAF1 160703 102 + 1
--CU----------------UUGUUGUAACAUUGACAUUUACGCAACAUGUCCCUGUUGCAUGUUUGCAAUUUGCAUUUGCAAAUAGUUGCAAAAACGAACAUCAAAUGUGGCCCUAGAC
--.(----------------((((((((((............((((((......)))))).(((((((((.......)))))))))))))))...))))).................... ( -23.80)
>consensus
GGCU________________UUGUUGUAACAUUGACAUUUACGCAACAUGUCCCUGUUGCAUGUUUGCAAUUUGCAUUUGCAAAUAGUUGCAAAAACGAACAUCAAAUGCGGCUU__GAC
....................((((((((((............((((((......)))))).(((((((((.......))))))))))))))...)))))..................... (-22.96 = -22.68 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 20,590,844 – 20,590,946
Length 102
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 88.62
Mean single sequence MFE -26.95
Consensus MFE -22.70
Energy contribution -22.70
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.18
Structure conservation index 0.84
SVM decision value 0.80
SVM RNA-class probability 0.853138
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20590844 102 - 22407834
GUC--AAGCCGCAUUUGAUGUUCGUUUUGGCAACUAUUUGCAAAUGCAAAUUGCAAACAUGCAACAGGGACAUGUUGCGUAAAUGUCAACGUUGCAACAA----------------AACC
(((--(((.....))))))....(((((((((...((((((....))))))))).....((((((...(((((.........)))))...)))))).)))----------------))). ( -28.20)
>DroPse_CAF1 154578 102 - 1
GUCUAGGGCCACAUUUGAUGUUCGUUUUUGCAACUAUUUGCAAAUGCAAAUUGCAAACAUGCAACAGGGACAUGUUGCGUAAAUGUCAAUGUUACAACAA----------------AG--
..........(((((.((((((....((((((...((((((....)))))))))))).((((((((......)))))))).)))))))))))........----------------..-- ( -25.30)
>DroEre_CAF1 95927 102 - 1
GCG--AAGCCGCAUUUGAUGUUCGUUUUGGCAACUAUUUGCAAAUGCAAAUUGCAAACAUGCAACAGGGACAUGUUGCGUAAAUGUCAAAGUUACAACAA----------------AGCC
(((--....))).((((.(((...((((((((....(((((((.......))))))).((((((((......))))))))...))))))))..))).)))----------------)... ( -29.40)
>DroYak_CAF1 99639 102 - 1
GUC--AAGCCGCAUUUGAUGUUCGUUUUGGCAACUAUUUGCAAAUGCAAAUUGCAAACAUGCAACAGGGACAUGUUGCGUAAAUGUCAACGUUACAACAA----------------AACC
...--........((((.(((.(((..(((((....(((((((.......))))))).((((((((......))))))))...))))))))..))).)))----------------)... ( -25.40)
>DroAna_CAF1 99022 118 - 1
GUC--AAGCCGCAUUUGAUGUUCGUUUUUGCAACUAUUUGCAAAUGCAAAUUGCAAACAUGCAACAGGGACAUGUUGCGUAAAUGUCAAUGCUACAACAACAGGAGAAAAAAACUAAACC
...--.....(((((.((((((....((((((...((((((....)))))))))))).((((((((......)))))))).)))))))))))............................ ( -28.10)
>DroPer_CAF1 160703 102 - 1
GUCUAGGGCCACAUUUGAUGUUCGUUUUUGCAACUAUUUGCAAAUGCAAAUUGCAAACAUGCAACAGGGACAUGUUGCGUAAAUGUCAAUGUUACAACAA----------------AG--
..........(((((.((((((....((((((...((((((....)))))))))))).((((((((......)))))))).)))))))))))........----------------..-- ( -25.30)
>consensus
GUC__AAGCCGCAUUUGAUGUUCGUUUUGGCAACUAUUUGCAAAUGCAAAUUGCAAACAUGCAACAGGGACAUGUUGCGUAAAUGUCAAUGUUACAACAA________________AACC
..............((((((((.((((..(((...((((((....)))))))))))))((((((((......)))))))).))))))))............................... (-22.70 = -22.70 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 20,590,868 – 20,590,965
Length 97
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.67
Mean single sequence MFE -35.64
Consensus MFE -20.76
Energy contribution -20.52
Covariance contribution -0.25
Combinations/Pair 1.12
Mean z-score -1.95
Structure conservation index 0.58
SVM decision value 0.46
SVM RNA-class probability 0.746442
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20590868 97 + 22407834
ACGCAACAUGUCCCUGUUGCAUGUUUGCAAUUUGCAUUUGCAAAUAGUUGCCAAAACGAACAUCAAAUGCGGCUU--GACAGAGGGGCGGGAU--CUCG----A-------------G--
.(((..(.((((...(((((((((((((((.......)))))))).(((.....))).........)))))))..--))))..)..)))....--....----.-------------.-- ( -27.50)
>DroPse_CAF1 154600 113 + 1
ACGCAACAUGUCCCUGUUGCAUGUUUGCAAUUUGCAUUUGCAAAUAGUUGCAAAAACGAACAUCAAAUGUGGCCCUAGACGG-GGGGCAUAGUGGGUGG----GGGGUAGGGGG--AGUC
((.(..(.(..((((.((((((((((((((.......)))))))))..))))).......((((...((((.((((.....)-))).))))...)))))----)))..).)..)--.)). ( -39.00)
>DroEre_CAF1 95951 103 + 1
ACGCAACAUGUCCCUGUUGCAUGUUUGCAAUUUGCAUUUGCAAAUAGUUGCCAAAACGAACAUCAAAUGCGGCUU--CGCAG-GCGGCAGGAG--CGCG----G-GGGAGGGG-------
......(...(((((((.((.(((((((((.......)))))))))((((((.....(.....)...((((....--)))))-)))))....)--))))----)-)))...).------- ( -35.10)
>DroYak_CAF1 99663 109 + 1
ACGCAACAUGUCCCUGUUGCAUGUUUGCAAUUUGCAUUUGCAAAUAGUUGCCAAAACGAACAUCAAAUGCGGCUU--GACAGAGAGGCAGGAU--CGCA----G-GGGAGGGGGCUAG--
..((..(...((((((((((.(.(((((((.(((((((((......(((.....)))......))))))))).))--).)))).).)))....--.)))----)-)))..)..))...-- ( -34.90)
>DroAna_CAF1 99062 112 + 1
ACGCAACAUGUCCCUGUUGCAUGUUUGCAAUUUGCAUUUGCAAAUAGUUGCAAAAACGAACAUCAAAUGCGGCUU--GACAAGUCAGGGGGUU--CACCAAAAAGGUGACGGGC--GG--
.(((......((((((((((((.((((((((((((....))))...))))))))............))))))).(--((....)))))))).(--((((.....)))))...))--).-- ( -35.42)
>DroPer_CAF1 160725 112 + 1
ACGCAACAUGUCCCUGUUGCAUGUUUGCAAUUUGCAUUUGCAAAUAGUUGCAAAAACGAACAUCAAAUGUGGCCCUAGACGG-GGGGCAUAGUGGGUGG----GGGGUAGGGGG--UG-C
.(((..(.(..((((.((((((((((((((.......)))))))))..))))).......((((...((((.((((.....)-))).))))...)))))----)))..).)..)--))-. ( -41.90)
>consensus
ACGCAACAUGUCCCUGUUGCAUGUUUGCAAUUUGCAUUUGCAAAUAGUUGCAAAAACGAACAUCAAAUGCGGCUU__GACAG_GGGGCAGGAU__CUCG____G_GGGAGGGGG___G__
..((....((((...(((((((((((((((.......)))))))).(((.....))).........)))))))....)))).....))................................ (-20.76 = -20.52 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:07 2006