Locus 7573

Sequence ID	3R_DroMel_CAF1
Location	20,304,408 – 20,304,506
Length	98
Max. P	0.712053

overview

Window 7

Location	20,304,408 – 20,304,506
Length	98
Sequences	6
Columns	99
Reading direction	forward
Mean pairwise identity	76.12
Mean single sequence MFE	-21.75
Consensus MFE	-10.23
Energy contribution	-10.82
Covariance contribution	0.59
Combinations/Pair	1.25
Mean z-score	-1.99
Structure conservation index	0.47
SVM decision value	0.38
SVM RNA-class probability	0.712053
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20304408 98 + 27905053
GCUAUAUGGUUAUAUAGCUACACAGCUAUAGUACGGCCGCACAUUCACAAAGCACCAAU-GCACACCGAGGGCAAACAAUAAACAGCAAGUGCAGAAAG
.......((((.(((((((....)))))))....))))((((.........(((....)-)).........((............))..))))...... ( -19.20)
>DroPse_CAF1 130503 82 + 1
GCUAUAUGGCUAUAUAUGU----AGCUACAUCGGAGCCG-------------CAGUACUCGUACACCGACGGCAAACAAUAAACAGCAAGUGCAGAAAG
((((((((......)))))----)))....((...((((-------------(.(((....)))...).))))............((....)).))... ( -17.10)
>DroSec_CAF1 113241 95 + 1
GCUAUAUGGCUAUAUAGCUACACUGCUAU---ACAGCCACACAUCCACAAAGCACCACU-GCACACCGAGGGCAAACAAUAAACAGCAAGUGCAGAAAG
......(((((.((((((......)))))---).)))))..................((-((((.(....)((............))..)))))).... ( -25.10)
>DroSim_CAF1 121670 95 + 1
GCUAUAUGGCUAUAUAGCUACACUGCUAU---ACUGCCGCACAUCCACAAAGCACCACU-GCACACCGAGGGCAAACAAUAAACAGCAAGUGCAGAAAG
(((....(((..((((((......)))))---)..)))(........)..)))....((-((((.(....)((............))..)))))).... ( -23.70)
>DroAna_CAF1 117351 95 + 1
GCUAUACAGCUAUAGAGCUAUAUAGCUAU---AUAGCUAUGGAGCUUCAAAGAGCCGCU-GCACACCGAGGGCAAACAAUAAACAGCAAGUGCAGAAAG
((((((.(((((((......))))))).)---)))))...((..((....))..)).((-((((.(....)((............))..)))))).... ( -28.30)
>DroPer_CAF1 137029 82 + 1
GCUAUAUGGCUAUAUAUGU----AGCUACAUCGGAGCCG-------------CAGUACUCGUACACCGACGGCAAACAAUAAACAGCAAGUGCAGAAAG
((((((((......)))))----)))....((...((((-------------(.(((....)))...).))))............((....)).))... ( -17.10)
>consensus
GCUAUAUGGCUAUAUAGCUACACAGCUAU___ACAGCCGCACAUCCACAAAGCACCACU_GCACACCGAGGGCAAACAAUAAACAGCAAGUGCAGAAAG
.......((((..(((((......))))).....))))......................((((.(....)((............))..))))...... (-10.23 = -10.82 +   0.59)

alignment

secondary structure

dotplot

Window 8

Location	20,304,408 – 20,304,506
Length	98
Sequences	6
Columns	99
Reading direction	reverse
Mean pairwise identity	76.12
Mean single sequence MFE	-27.06
Consensus MFE	-11.90
Energy contribution	-13.90
Covariance contribution	2.00
Combinations/Pair	1.23
Mean z-score	-2.04
Structure conservation index	0.44
SVM decision value	0.24
SVM RNA-class probability	0.647751
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20304408 98 - 27905053
CUUUCUGCACUUGCUGUUUAUUGUUUGCCCUCGGUGUGC-AUUGGUGCUUUGUGAAUGUGCGGCCGUACUAUAGCUGUGUAGCUAUAUAACCAUAUAGC
.....(((((..(((((..............(((((..(-(((.(.......).))))..).))))....))))).)))))(((((((....))))))) ( -24.37)
>DroPse_CAF1 130503 82 - 1
CUUUCUGCACUUGCUGUUUAUUGUUUGCCGUCGGUGUACGAGUACUG-------------CGGCUCCGAUGUAGCU----ACAUAUAUAGCCAUAUAGC
............(((((.(((((...((((.(((((......)))))-------------))))..)))))..(((----(......))))...))))) ( -19.50)
>DroSec_CAF1 113241 95 - 1
CUUUCUGCACUUGCUGUUUAUUGUUUGCCCUCGGUGUGC-AGUGGUGCUUUGUGGAUGUGUGGCUGU---AUAGCAGUGUAGCUAUAUAGCCAUAUAGC
......(((((.(((((.(((((........))))).))-))))))))........(((((((((((---(((((......)))))))))))))))).. ( -38.60)
>DroSim_CAF1 121670 95 - 1
CUUUCUGCACUUGCUGUUUAUUGUUUGCCCUCGGUGUGC-AGUGGUGCUUUGUGGAUGUGCGGCAGU---AUAGCAGUGUAGCUAUAUAGCCAUAUAGC
......(((((.(((((.(((((........))))).))-))))))))........((((.(((.((---(((((......))))))).))).)))).. ( -29.80)
>DroAna_CAF1 117351 95 - 1
CUUUCUGCACUUGCUGUUUAUUGUUUGCCCUCGGUGUGC-AGCGGCUCUUUGAAGCUCCAUAGCUAU---AUAGCUAUAUAGCUCUAUAGCUGUAUAGC
............(((((.(((((........))))).))-)))((((......)))).....(((((---(((((((((......)))))))))))))) ( -30.60)
>DroPer_CAF1 137029 82 - 1
CUUUCUGCACUUGCUGUUUAUUGUUUGCCGUCGGUGUACGAGUACUG-------------CGGCUCCGAUGUAGCU----ACAUAUAUAGCCAUAUAGC
............(((((.(((((...((((.(((((......)))))-------------))))..)))))..(((----(......))))...))))) ( -19.50)
>consensus
CUUUCUGCACUUGCUGUUUAUUGUUUGCCCUCGGUGUGC_AGUGGUGCUUUGUGGAUGUGCGGCUGU___AUAGCUGUGUAGCUAUAUAGCCAUAUAGC
......(((((.(((((.(((((........))))).)).)))))))).............((((((...(((((......)))))))))))....... (-11.90 = -13.90 +   2.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:17 2006