Locus 4971

Sequence ID	2R_DroMel_CAF1
Location	16,202,447 – 16,202,540
Length	93
Max. P	0.948847

overview

Window 6

Location	16,202,447 – 16,202,540
Length	93
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	82.70
Mean single sequence MFE	-28.12
Consensus MFE	-18.62
Energy contribution	-20.54
Covariance contribution	1.92
Combinations/Pair	1.12
Mean z-score	-3.00
Structure conservation index	0.66
SVM decision value	0.82
SVM RNA-class probability	0.858401
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16202447 93 + 20766785
AAGGAGUGGAAAAGCUGUCAGAUUAAAUGCCAUAAUCCAUGGGAUUAUGGCCAAGCUGGCAAAAGUUGUUAAUGCCCGGUGACAGAGCUCAAC--
...((((.......(((((.........((((((((((...))))))))))...(((((((...........)).)))))))))).))))...-- ( -30.00)
>DroSec_CAF1 16698 93 + 1
AAGGAGUGGAAAAGCUGUCAGAUUAAAUGCCAUAAUCCAUGGGAUUAUGGCCAAGCUGGCAAAAGUUGUUAAUGCCCGGUGACAGAGCUCAAC--
...((((.......(((((.........((((((((((...))))))))))...(((((((...........)).)))))))))).))))...-- ( -30.00)
>DroSim_CAF1 16583 93 + 1
AAGGAGUGGAAAAGCUGUCAGAUUAAAUGCCAUAAUCCAUGGGAUUAUGGCCAAGCUGGCAAAAGUUGUUAAUGCCCGGUGACAGAGCUCAAC--
...((((.......(((((.........((((((((((...))))))))))...(((((((...........)).)))))))))).))))...-- ( -30.00)
>DroEre_CAF1 16830 92 + 1
AACGGGUGGAAGAGCUGUCAGAUUAAAUGCCAUAAUCCUAUGGAUUAUGGCCAAGCUGG-AAAAGUUGUUAAUACCCGGUGACAGAGCUCAAC--
..((((((.((.((((.((((.......((((((((((...))))))))))....))))-...)))).))..))))))...............-- ( -31.30)
>DroYak_CAF1 17403 93 + 1
AACGGGUGGAAAAGCUGUCAGAUUAAAUGCCAUAAUCCAUGGGAUUAUGGCCAAGCUGGUAAAAGUUGUUAAUGCCCGGUGACAGAGCUCAAC--
..((((((....((((.((((.......((((((((((...))))))))))....))))....)))).....))))))...............-- ( -28.40)
>DroPer_CAF1 19816 82 + 1
AAGC-CAGAGAGAG-----AGAAAAAAUGGAUGUAUCCAGGGGAUUUUGGCAAGGGUGACAGAAGU-------ACCUGGUGACAGGCCUCAAAAG
..((-(((((....-----........((((....)))).....)))))))...(....)......-------.((((....))))......... ( -19.03)
>consensus
AAGGAGUGGAAAAGCUGUCAGAUUAAAUGCCAUAAUCCAUGGGAUUAUGGCCAAGCUGGCAAAAGUUGUUAAUGCCCGGUGACAGAGCUCAAC__
...((((.......(((((.........((((((((((...))))))))))...(((((................)))))))))).))))..... (-18.62 = -20.54 +   1.92)

alignment

secondary structure

dotplot

Window 7

Location	16,202,447 – 16,202,540
Length	93
Sequences	6
Columns	95
Reading direction	reverse
Mean pairwise identity	82.70
Mean single sequence MFE	-25.07
Consensus MFE	-19.99
Energy contribution	-21.38
Covariance contribution	1.39
Combinations/Pair	1.17
Mean z-score	-3.26
Structure conservation index	0.80
SVM decision value	1.39
SVM RNA-class probability	0.948847
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16202447 93 - 20766785
--GUUGAGCUCUGUCACCGGGCAUUAACAACUUUUGCCAGCUUGGCCAUAAUCCCAUGGAUUAUGGCAUUUAAUCUGACAGCUUUUCCACUCCUU
--((.(((..((((((...((((...........))))......((((((((((...))))))))))........))))))...))).))..... ( -28.60)
>DroSec_CAF1 16698 93 - 1
--GUUGAGCUCUGUCACCGGGCAUUAACAACUUUUGCCAGCUUGGCCAUAAUCCCAUGGAUUAUGGCAUUUAAUCUGACAGCUUUUCCACUCCUU
--((.(((..((((((...((((...........))))......((((((((((...))))))))))........))))))...))).))..... ( -28.60)
>DroSim_CAF1 16583 93 - 1
--GUUGAGCUCUGUCACCGGGCAUUAACAACUUUUGCCAGCUUGGCCAUAAUCCCAUGGAUUAUGGCAUUUAAUCUGACAGCUUUUCCACUCCUU
--((.(((..((((((...((((...........))))......((((((((((...))))))))))........))))))...))).))..... ( -28.60)
>DroEre_CAF1 16830 92 - 1
--GUUGAGCUCUGUCACCGGGUAUUAACAACUUUU-CCAGCUUGGCCAUAAUCCAUAGGAUUAUGGCAUUUAAUCUGACAGCUCUUCCACCCGUU
--...(((((..((((.(((((.............-...)))))((((((((((...))))))))))........)))))))))........... ( -26.59)
>DroYak_CAF1 17403 93 - 1
--GUUGAGCUCUGUCACCGGGCAUUAACAACUUUUACCAGCUUGGCCAUAAUCCCAUGGAUUAUGGCAUUUAAUCUGACAGCUUUUCCACCCGUU
--(..(((((..((((.(((((.................)))))((((((((((...))))))))))........)))))))))..)........ ( -26.63)
>DroPer_CAF1 19816 82 - 1
CUUUUGAGGCCUGUCACCAGGU-------ACUUCUGUCACCCUUGCCAAAAUCCCCUGGAUACAUCCAUUUUUUCU-----CUCUCUCUG-GCUU
......(((((((.((...(((-------((....)).)))..)).))........((((....))))........-----........)-)))) ( -11.40)
>consensus
__GUUGAGCUCUGUCACCGGGCAUUAACAACUUUUGCCAGCUUGGCCAUAAUCCCAUGGAUUAUGGCAUUUAAUCUGACAGCUUUUCCACUCCUU
.....(((((..((((.(((((.................)))))((((((((((...))))))))))........)))))))))........... (-19.99 = -21.38 +   1.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:25 2006