Locus 1596

Sequence ID	2L_DroMel_CAF1
Location	4,282,777 – 4,282,877
Length	100
Max. P	0.998037

overview

Window 3

Location	4,282,777 – 4,282,877
Length	100
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	69.38
Mean single sequence MFE	-24.96
Consensus MFE	-7.58
Energy contribution	-7.58
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.83
Structure conservation index	0.30
SVM decision value	2.99
SVM RNA-class probability	0.998037
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4282777 100 + 22407834
UUAGGUGUUUUCUUAGGUCUCAUUUCUA-CAAGAACAAUUGCUGGAAACAUAUUCCUGGCCUGAAUUACACCGC-AUUUGUUUCGAGUGCACUGCACUCCCC
...(((((....(((((((...((((((-(((......))).)))))).........)))))))...)))))..-.........((((((...))))))... ( -26.30)
>DroSec_CAF1 37154 101 + 1
UUAGGUGUUUUCUUAGGACUCAUUGCUACCAUUAACAAUUGCUGGCAACACAUUCCUGCCCAGAAAUACACCGC-AUUUUUUUCGAGUGCACUGCACUCCCC
...(((((((((((((((....((((((.((........)).)))))).....)))))...))))).)))))..-.........((((((...))))))... ( -29.00)
>DroSim_CAF1 38555 101 + 1
UGAGGUGUUUUCUUAGGACUCAUUGCUAGCAAUAACAAUUGCUGGCAACACAAUCCUGUCCAGAAAUACAACGC-AUUUGUUUCGAGUGCACUGCACUCCCC
.((((((((((..(((((....(((((((((((....))))))))))).....)))))....)))))))...((-(((((...)))))))......)))... ( -33.20)
>DroEre_CAF1 33163 84 + 1
UGAAGGGUUUUCUCUAGUUUU-CUCUUA-CAAACACAAUUGCC---------------UCAUGAAAGGCGCCCU-GUUUUUUUCGAGUGCACUGCACUCCCC
...(((((........((((.-......-.))))......(((---------------(......)))))))))-.........((((((...))))))... ( -20.30)
>DroYak_CAF1 37848 86 + 1
UAAGCGUGUUUCUUUCGCUUUAGUGUUA-CACACACAAUCGCC---------------ACAUGAACUGCACCAAGGUUUUUUUAGAGUGCACUGCACUCCCC
...(((.((((.....((..(.((((..-...)))).)..)).---------------....)))))))...............((((((...))))))... ( -16.00)
>consensus
UGAGGUGUUUUCUUAGGACUCAUUGCUA_CAAAAACAAUUGCUGG_AACA_A_UCCUGUCCUGAAAUACACCGC_AUUUUUUUCGAGUGCACUGCACUCCCC
....................................................................................((((((...))))))... ( -7.58 =  -7.58 +   0.00)

alignment

secondary structure

dotplot

Window 4

Location	4,282,777 – 4,282,877
Length	100
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	69.38
Mean single sequence MFE	-27.24
Consensus MFE	-8.19
Energy contribution	-10.39
Covariance contribution	2.20
Combinations/Pair	1.19
Mean z-score	-2.14
Structure conservation index	0.30
SVM decision value	1.26
SVM RNA-class probability	0.937572
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4282777 100 - 22407834
GGGGAGUGCAGUGCACUCGAAACAAAU-GCGGUGUAAUUCAGGCCAGGAAUAUGUUUCCAGCAAUUGUUCUUG-UAGAAAUGAGACCUAAGAAAACACCUAA
(((((((((...))))))...((((.(-(((((.(.....).))).((((.....)))).))).))))(((..-(....)..)))))).............. ( -25.80)
>DroSec_CAF1 37154 101 - 1
GGGGAGUGCAGUGCACUCGAAAAAAAU-GCGGUGUAUUUCUGGGCAGGAAUGUGUUGCCAGCAAUUGUUAAUGGUAGCAAUGAGUCCUAAGAAAACACCUAA
...((((((...)))))).........-..(((((.(((((....((((...((((((((...........)))))))).....)))).))))))))))... ( -33.20)
>DroSim_CAF1 38555 101 - 1
GGGGAGUGCAGUGCACUCGAAACAAAU-GCGUUGUAUUUCUGGACAGGAUUGUGUUGCCAGCAAUUGUUAUUGCUAGCAAUGAGUCCUAAGAAAACACCUCA
(((((((((...)))))).........-....(((.(((((....((((((.((((((.((((((....)))))).)))))))))))).)))))))).))). ( -33.30)
>DroEre_CAF1 33163 84 - 1
GGGGAGUGCAGUGCACUCGAAAAAAAC-AGGGCGCCUUUCAUGA---------------GGCAAUUGUGUUUG-UAAGAG-AAAACUAGAGAAAACCCUUCA
(((((((((...)))))).....((((-(.((.(((((....))---------------)))..)).))))).-......-..............))).... ( -22.90)
>DroYak_CAF1 37848 86 - 1
GGGGAGUGCAGUGCACUCUAAAAAAACCUUGGUGCAGUUCAUGU---------------GGCGAUUGUGUGUG-UAACACUAAAGCGAAAGAAACACGCUUA
..(((((((...)))))))...........((((...(((...(---------------.((....((((...-..))))....)).)..)))...)))).. ( -21.00)
>consensus
GGGGAGUGCAGUGCACUCGAAAAAAAU_GCGGUGUAUUUCAGGACAGGA_U_UGUU_CCAGCAAUUGUUAUUG_UAGCAAUGAGACCUAAGAAAACACCUAA
...((((((...))))))............(((((.((((.((((...............((....))...............))))...)))))))))... ( -8.19 = -10.39 +   2.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:16 2006