Locus 2285

Sequence ID	3L_DroMel_CAF1
Location	6,429,812 – 6,429,943
Length	131
Max. P	0.918244

overview

Window 2

Location	6,429,812 – 6,429,912
Length	100
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	76.98
Mean single sequence MFE	-30.03
Consensus MFE	-14.59
Energy contribution	-14.28
Covariance contribution	-0.30
Combinations/Pair	1.18
Mean z-score	-2.35
Structure conservation index	0.49
SVM decision value	1.12
SVM RNA-class probability	0.918244
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6429812 100 + 23771897
G---UGCUGCCAGCGGCAC------AAAAUGCUCGACAUAAAGGGCAAGAGUUCAGGAAAUUGUGACUGUGGCGAAAAAUAUUUUCGCUAUUCUCCACAGUUUUCCAUU
(---(((((....))))))------....(((((........)))))........((((((((((...(((((((((.....)))))))))....)))))))))).... ( -36.50)
>DroVir_CAF1 231499 89 + 1
-AGCAACUGCCUGUGGCAU------A-AAUGCUCGACAUAAAGGGCAAGAGUUCAGCGAGUUGUGACUGUGGCA---AAUGCUU-UGGUAUUCGCCACAGU--------
-.(((((((((...)))..------.-..(((((........)))))...........)))))).((((((((.---(((((..-..))))).))))))))-------- ( -33.20)
>DroPse_CAF1 214550 96 + 1
G---UGCUGCCUGCGGCACAACGGCAAAAUGCUCGACAUAAAGGGCAAGAGUUCAGAAAAUUGUGACUGUGGCAAGAAAUAUUUUCGCUAUUCUCCACA----------
(---(((((....))))))...((.....(((((........)))))(((((...((((((.((..((......))..))))))))...)))))))...---------- ( -24.50)
>DroMoj_CAF1 188143 89 + 1
-AAGUUGUGCCUGUGGCAC------A-AAUGCUCCACAGAAAGGGCAAGAGUUCAGCGAGUUGUGGCUGUGGCA---AACGCUU-CGGCAUUCGCUGCAGU--------
-...(((((((...)))))------)-).(((((........)))))......((((((((....((((.(((.---...))).-))))))))))))....-------- ( -31.90)
>DroAna_CAF1 171203 93 + 1
G---UGCUGCCAGCGGCAC------AAAAUGCUCGACAUAAAGGGCAAGAGUUCAGGAAAUUGUGACUGUGGC--AAAAUAUUUUCGCUAUUCUUCACAGUUU-----U
(---(((((....))))))------....(((((........))))).........((((((((((..(((((--...........)))))...)))))))))-----) ( -29.60)
>DroPer_CAF1 221705 96 + 1
G---UGCUGCCUGCGGCACAACGGCAAAAUGCUCGACAUAAAGGGCAAGAGUUCAGAAAAUUGUGACUGUGGCAAGAAAUAUUUUCGCUAUUCUCCACA----------
(---(((((....))))))...((.....(((((........)))))(((((...((((((.((..((......))..))))))))...)))))))...---------- ( -24.50)
>consensus
G___UGCUGCCUGCGGCAC______AAAAUGCUCGACAUAAAGGGCAAGAGUUCAGAAAAUUGUGACUGUGGCA__AAAUAUUUUCGCUAUUCUCCACAGU________
.......((((.(((((((..........(((((........))))).(....)........))).))))))))................................... (-14.59 = -14.28 +  -0.30)

alignment

secondary structure

dotplot

Window 3

Location	6,429,833 – 6,429,943
Length	110
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	80.81
Mean single sequence MFE	-31.19
Consensus MFE	-12.98
Energy contribution	-14.98
Covariance contribution	2.00
Combinations/Pair	1.04
Mean z-score	-2.83
Structure conservation index	0.42
SVM decision value	0.18
SVM RNA-class probability	0.621736
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6429833 110 + 23771897
GCUCGACAUAAAGGGCAAGAGUUCAGGAAAUUGUGACUGUGGCGAAAAAUAUUUUCGCUAUUCUCCACAGUUUUCCAUUUUUUUCGCUUUUGCCCG-GUGAAACUGUAGCC
(((((.(((...((((((((((...((((((((((...(((((((((.....)))))))))....))))))))))..........)))))))))).-)))....)).))). ( -37.12)
>DroPse_CAF1 214577 86 + 1
GCUCGACAUAAAGGGCAAGAGUUCAGAAAAUUGUGACUGUGGCAAGAAAUAUUUUCGCUAUUCUCCACA------------------------CAG-GAGAAACUGUAGCC
((((........))))....((((((......((((..(((........)))..))))..((((((...------------------------..)-))))).))).))). ( -20.40)
>DroEre_CAF1 172146 109 + 1
GCUCGACAUAAAGGGCAAGAGUUCAGGAAAUUGUGACUGUGGCGAAAAAUAUU-UCGCUAUUCUUCACAGUUUUCCAUUUUUUUCGCUUUUGCCCG-GUGAAACUGUAGCC
(((((.(((...((((((((((...(((((((((((..(((((((((....))-)))))))...)))))))))))..........)))))))))).-)))....)).))). ( -39.22)
>DroYak_CAF1 181388 111 + 1
GCUCGACAUAAAGGGCAAGAGUUCAGGAAAUUGUGACUGUGGCGAAAAAUAUUUUCGCUAUUCUUCACAGUUUUCCAUUUUUUUCGCUUUUGCCCGGGUGAAACUGUAGCC
(((((.(((...((((((((((...(((((((((((..(((((((((.....)))))))))...)))))))))))..........))))))))))..)))....)).))). ( -39.62)
>DroAna_CAF1 171224 102 + 1
GCUCGACAUAAAGGGCAAGAGUUCAGGAAAUUGUGACUGUGGC--AAAAUAUUUUCGCUAUUCUUCACAGUUU-----UUGCUUCGCUUUUCC-CG-UCUGGUCUCUAGCC
(((.(((.....(((.((((((...(((((((((((..(((((--...........)))))...)))))))))-----)).....))))))))-).-....)))...))). ( -30.40)
>DroPer_CAF1 221732 86 + 1
GCUCGACAUAAAGGGCAAGAGUUCAGAAAAUUGUGACUGUGGCAAGAAAUAUUUUCGCUAUUCUCCACA------------------------CAG-GAGAAACUGUAGCC
((((........))))....((((((......((((..(((........)))..))))..((((((...------------------------..)-))))).))).))). ( -20.40)
>consensus
GCUCGACAUAAAGGGCAAGAGUUCAGGAAAUUGUGACUGUGGCGAAAAAUAUUUUCGCUAUUCUCCACAGUUU_____UUUUUUCGCUUUUGCCCG_GUGAAACUGUAGCC
((((........))))....((((((.((((((((...(((((.(((.....))).)))))....))))))))............((....))..........))).))). (-12.98 = -14.98 +   2.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:41 2006