Locus 4967

Sequence ID 2L_DroMel_CAF1
Location 14,272,057 – 14,272,171
Length 114
Max. P 0.822749
window7878 window7879

overview

Window 8

Location 14,272,057 – 14,272,171
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 82.14
Mean single sequence MFE -13.46
Consensus MFE -10.12
Energy contribution -10.16
Covariance contribution 0.04
Combinations/Pair 1.08
Mean z-score -1.59
Structure conservation index 0.75
SVM decision value 0.17
SVM RNA-class probability 0.616417
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14272057 114 + 22407834
UCCAUUCCAUUCAUAUUCCUUUUUU--UUC--U--UUUUCUGUGCACCCAAAGAAUGCCACAACUCCACCUCGACUUCCUAUAGUUUCCCUUUUUUUGCAUUUGGCUUUUCCUGUGGCUA
.........................--...--.--..((((.((....)).)))).((((((..........((((......))))...........((.....))......)))))).. ( -12.60)
>DroSec_CAF1 104692 101 + 1
U-----CCAUUCAUAUUCCUU------UUC--U--UUUUCUGUGCACCCAA---AUGCCACAACUCCACCUCGACUUCCUAUAGUUUCCCUUU-UUCGCAUUUGGCUUUUCCUGUGGCUA
.-----...............------...--.--................---..((((((..........((((......)))).......-...((.....))......)))))).. ( -11.70)
>DroSim_CAF1 96774 104 + 1
U-----CCAUUCAUAUUCCUU------UUC--U--UUUUCUGUGCACCCAAAGCAUGCCACAACUCCACCUCGACUUCCUAUAGUUUCCCUUU-UUCGCAUUUGGCUUUUCCUGUGGCUA
.-----...............------...--.--......((((.......))))((((((..........((((......)))).......-...((.....))......)))))).. ( -14.60)
>DroEre_CAF1 105915 114 + 1
U-----CCGUUCAUACUUCAUUAUUAUCUCGCUUCUUUGUUGUGCCACCAAAGAAUGCCACAACUCCACCUCAACUUCCUAAAGUUUCCCUUU-UUCGCAUUUGGCUUUUCCUGUAGCCA
.-----........................((......((((((.((........)).))))))........(((((....))))).......-...))...(((((........))))) ( -15.60)
>DroYak_CAF1 95535 111 + 1
U-----CCGUUCGUACUUUAAUCCCAUCUCGUUUCUUU--CGUGCACCCAAAGAAUGCCACAACUCCACCUCGACUUCCUCUAGUUUCCCUUU-UU-GCAUUUGGCUUUUCCUGUGGCCA
.-----..........................((((((--.(.....).)))))).((((((..........((((......)))).......-..-((.....))......)))))).. ( -12.80)
>consensus
U_____CCAUUCAUAUUCCUUU_____UUC__U__UUUUCUGUGCACCCAAAGAAUGCCACAACUCCACCUCGACUUCCUAUAGUUUCCCUUU_UUCGCAUUUGGCUUUUCCUGUGGCUA
........................................................((((((..........((((......))))...........((.....))......)))))).. (-10.12 = -10.16 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 14,272,057 – 14,272,171
Length 114
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 82.14
Mean single sequence MFE -20.94
Consensus MFE -16.06
Energy contribution -15.90
Covariance contribution -0.16
Combinations/Pair 1.07
Mean z-score -1.85
Structure conservation index 0.77
SVM decision value 0.69
SVM RNA-class probability 0.822749
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14272057 114 - 22407834
UAGCCACAGGAAAAGCCAAAUGCAAAAAAAGGGAAACUAUAGGAAGUCGAGGUGGAGUUGUGGCAUUCUUUGGGUGCACAGAAAA--A--GAA--AAAAAAGGAAUAUGAAUGGAAUGGA
..(((((((.....(((.............((....))....(....)..)))....))))))).((((((.(.....)....))--)--)))--......................... ( -18.90)
>DroSec_CAF1 104692 101 - 1
UAGCCACAGGAAAAGCCAAAUGCGAA-AAAGGGAAACUAUAGGAAGUCGAGGUGGAGUUGUGGCAU---UUGGGUGCACAGAAAA--A--GAA------AAGGAAUAUGAAUGG-----A
..(((((((......(((....(((.-...((....))........)))...)))..))))))).(---(((......))))...--.--...------...............-----. ( -19.20)
>DroSim_CAF1 96774 104 - 1
UAGCCACAGGAAAAGCCAAAUGCGAA-AAAGGGAAACUAUAGGAAGUCGAGGUGGAGUUGUGGCAUGCUUUGGGUGCACAGAAAA--A--GAA------AAGGAAUAUGAAUGG-----A
..(((((((......(((....(((.-...((....))........)))...)))..))))))).(((.......))).......--.--...------...............-----. ( -19.50)
>DroEre_CAF1 105915 114 - 1
UGGCUACAGGAAAAGCCAAAUGCGAA-AAAGGGAAACUUUAGGAAGUUGAGGUGGAGUUGUGGCAUUCUUUGGUGGCACAACAAAGAAGCGAGAUAAUAAUGAAGUAUGAACGG-----A
(((((........)))))..(((...-.((((....))))................((((((.(((......))).))))))......))).......................-----. ( -24.90)
>DroYak_CAF1 95535 111 - 1
UGGCCACAGGAAAAGCCAAAUGC-AA-AAAGGGAAACUAGAGGAAGUCGAGGUGGAGUUGUGGCAUUCUUUGGGUGCACG--AAAGAAACGAGAUGGGAUUAAAGUACGAACGG-----A
..(((((((.....(((......-..-...((....)).((.....))..)))....))))))).((((((.(.....).--))))))..........................-----. ( -22.20)
>consensus
UAGCCACAGGAAAAGCCAAAUGCGAA_AAAGGGAAACUAUAGGAAGUCGAGGUGGAGUUGUGGCAUUCUUUGGGUGCACAGAAAA__A__GAA_____AAAGGAAUAUGAAUGG_____A
..(((((((.....(((....((.......((....)).......))...)))....)))))))........................................................ (-16.06 = -15.90 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:12 2006