Locus 6527

Sequence ID	2L_DroMel_CAF1
Location	18,374,694 – 18,374,828
Length	134
Max. P	0.957237

overview

Window 8

Location	18,374,694 – 18,374,812
Length	118
Sequences	6
Columns	119
Reading direction	forward
Mean pairwise identity	83.86
Mean single sequence MFE	-27.83
Consensus MFE	-20.08
Energy contribution	-20.67
Covariance contribution	0.59
Combinations/Pair	1.21
Mean z-score	-2.36
Structure conservation index	0.72
SVM decision value	0.37
SVM RNA-class probability	0.708156
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18374694 118 + 22407834
UAUUCACACUCCUGGAGAUAAUCACUUCUGCACCGGAGUUAUCCUAACCAACCGCCAUGUGCUUACUUCAGCACACUGCAUUACAGAGUGGGUAUAUCAUAUAAUUCUAGUUCAUUAC-
((((((((((((((.(((........))).))..)))))..............((..((((((......))))))..))........)))))))........................- ( -26.30)
>DroSec_CAF1 218516 118 + 1
UAUUCACACUCCUGGAGAUAAUCACUUCUGCACCGGAGUUAUCCUAACCAAUCGCCAUGUGCUUACUUCAGCACACUGCAUUACAGAGUGGGUAUAUCAUAUGUUUAUUAUUCAUUAC-
((((((((((((((.(((........))).))..)))))..............((..((((((......))))))..))........)))))))........................- ( -26.30)
>DroSim_CAF1 227067 118 + 1
UAUUCACACUCCUGGAGAUAAUCACUUCUGCACCGGAGUUAUCCUAACCAAUCGCCAUGUGCUUACUUCAGCACACUGCAUUACAGAGUGGGUAUAUCAUAUGUUUAUUAUUCAUUAC-
((((((((((((((.(((........))).))..)))))..............((..((((((......))))))..))........)))))))........................- ( -26.30)
>DroEre_CAF1 219089 117 + 1
UAUUCACUCUCCUGGAGAUAAUCACUUCUGCACCGGAGUUAUCCUAACCAAUCGCCAUGUGCUUACCUCAGCACACUGCAUUACGGAGUGGGUAUA--AUACAUAUCUAAUACAUUAUU
((((((((((..(((.((((...(((((......)))))))))))).......((..((((((......))))))..)).....))))))))))..--..................... ( -27.90)
>DroYak_CAF1 228983 119 + 1
UAUCCACUCUCCUGGAGAUAAUCACUUCUGCACCGGAGUUAUCCUUACCAAUCGCCAUGUGCUUACUUCAGCACACUGCAUUACGGAGUGGGUAUAUCAUACAUAUCUAAUUCGUUACU
((((((((((..(((.((..((.(((((......))))).))..)).)))...((..((((((......))))))..)).....))))))))))......................... ( -30.50)
>DroAna_CAF1 199288 115 + 1
CGUCCACCAAAAGGGGGAUAACCACUUCUGCACCGGUGUCCUCCUUACAAACCGCCAUAUCCUGACCGCGGCCCACUGCGUUACCGAGUUGGUAUAU--UCAGUUUAAAGCCCA-AAC-
..........((((((((((.((...........)))))))))))).......((..((..((((.(((((....))))).((((.....))))...--))))..))..))...-...- ( -29.70)
>consensus
UAUUCACACUCCUGGAGAUAAUCACUUCUGCACCGGAGUUAUCCUAACCAAUCGCCAUGUGCUUACUUCAGCACACUGCAUUACAGAGUGGGUAUAUCAUAUAUUUAUAAUUCAUUAC_
(((((((.((((((.(((........))).))..))))...............((..((((((......))))))..))........)))))))......................... (-20.08 = -20.67 +   0.59)

alignment

secondary structure

dotplot

Window 9

Location	18,374,734 – 18,374,828
Length	94
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	73.93
Mean single sequence MFE	-19.30
Consensus MFE	-10.30
Energy contribution	-9.66
Covariance contribution	-0.64
Combinations/Pair	1.43
Mean z-score	-2.10
Structure conservation index	0.53
SVM decision value	1.48
SVM RNA-class probability	0.957237
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18374734 94 + 22407834
AUCCUAACCAACCGCCAUGUGCUUACUUCAGCACACUGCAUUACAGAGUGGGUAUAUCAUAUAAUUCUAGUUCAUUAC-----------CUAU--UUUCGA-AUCUAU
.............((..((((((......))))))..)).....((((((((((.....................)))-----------))))--)))...-...... ( -17.70)
>DroSec_CAF1 218556 94 + 1
AUCCUAACCAAUCGCCAUGUGCUUACUUCAGCACACUGCAUUACAGAGUGGGUAUAUCAUAUGUUUAUUAUUCAUUAC-----------CUAU--UUUCGA-AUUUUA
...........((((..((((((......))))))..)).....((((((((((....(((.......)))....)))-----------))))--))).))-...... ( -18.90)
>DroSim_CAF1 227107 95 + 1
AUCCUAACCAAUCGCCAUGUGCUUACUUCAGCACACUGCAUUACAGAGUGGGUAUAUCAUAUGUUUAUUAUUCAUUAC----------CCUAU--UUUCGA-AUUUUA
...........((((..((((((......))))))..))......(((.(((((....(((.......)))....)))----------))...--.)))))-...... ( -17.60)
>DroEre_CAF1 219129 103 + 1
AUCCUAACCAAUCGCCAUGUGCUUACCUCAGCACACUGCAUUACGGAGUGGGUAUA--AUACAUAUCUAAUACAUUAUUUCAUUGUUCACUAU--CCUCGA-AUGUAU
.............((..((((((......))))))..))..((((..(.(((((..--..(((.....((((...))))....)))....)))--)).)..-.)))). ( -17.90)
>DroYak_CAF1 229023 94 + 1
AUCCUUACCAAUCGCCAUGUGCUUACUUCAGCACACUGCAUUACGGAGUGGGUAUAUCAUACAUAUCUAAUUCGUUACUA-----------AU--UUUCGA-AUAUUU
...........((((..((((((......))))))..))...(((((.(((((((.......))))))).))))).....-----------..--....))-...... ( -18.90)
>DroPer_CAF1 266385 96 + 1
AUCAUCUCAGAGCGGCAUGUCCUCACGUCGGGCCACUGCAUCACCAAGUGAGGAUGGGAGAUCCCUUUUCCCCAGU-C-----------CUAUAUCCCCUAUAUCGUU
..........((.(((..((((((((...((............))..))))))))((((((.....))))))..))-)-----------))................. ( -24.80)
>consensus
AUCCUAACCAAUCGCCAUGUGCUUACUUCAGCACACUGCAUUACAGAGUGGGUAUAUCAUAUAUUUCUAAUUCAUUAC___________CUAU__UUUCGA_AUCUUU
.................((((((((((((((....))).......))))))))))).................................................... (-10.30 =  -9.66 +  -0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:25 2006