Locus 2451

Sequence ID	2L_DroMel_CAF1
Location	6,708,138 – 6,708,239
Length	101
Max. P	0.999382

overview

Window 1

Location	6,708,138 – 6,708,239
Length	101
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	91.70
Mean single sequence MFE	-32.46
Consensus MFE	-24.92
Energy contribution	-26.72
Covariance contribution	1.80
Combinations/Pair	1.07
Mean z-score	-1.77
Structure conservation index	0.77
SVM decision value	0.42
SVM RNA-class probability	0.727602
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6708138 101 + 22407834
CUUCCAGGCACUUGAAUAUGGAAUGCACUUCGCACCUGGCCACUUGGCGCACUCAUUUUCCGAGUGAGCGGAGUGUAGCCCAGAUUUUGGCCACACGAA-UA
......(((....((((.(((..((((((((((.....(((....))).(((((.......))))).))))))))))..))).))))..))).......-.. ( -39.20)
>DroSec_CAF1 20805 101 + 1
CUUCCACGCACUUGAAUAUGGAAUGCACUUCGCAACUGGCCACUUGGCGCACUGAUUUUCCGAGUGAGCGGAGUGUAGCCCAUAUUUUGGCCACACGAU-UG
.......((....((((((((..((((((((((.....(((....))).(((((......).)))).))))))))))..))))))))..))........-.. ( -35.60)
>DroSim_CAF1 20615 101 + 1
CUUCCACGCACUUGAAUAUGGAAUGCACUUCGCACCUGGUCACUUGGCGCACUCAUUUUCCGAGUGAGCGGAGUGUAGCCCAGAUUUUGGCCACACGAA-UG
.......((....((((.(((..((((((((((.....(((....))).(((((.......))))).))))))))))..))).))))..))........-.. ( -32.40)
>DroEre_CAF1 21877 99 + 1
CUUCCACGCACUUGAAUAUGGAAUGCACUUCGCACCUGGCCACUUUGCGCAUUCAUUUUCCGAGUGAGCGGA--AUAGCCCAGAUUGUGGCCACACGAU-CC
.((((.(.((((((......((((((.(...((.....))......).))))))......)))))).).)))--).......(((((((....))))))-). ( -29.40)
>DroYak_CAF1 21770 100 + 1
CUUCCACGCACUUGAAUACGGAAUGCACUUCGCACCUGGCCACUUUGCGCAUUCAUUUUCCGAGUGAGCGGC--GUAGCCCAGAUUUUGGCCACACGAAGCA
.......(((.((.......)).))).(((((....((((((....((.(((((.......))))).))(((--...))).......))))))..))))).. ( -25.70)
>consensus
CUUCCACGCACUUGAAUAUGGAAUGCACUUCGCACCUGGCCACUUGGCGCACUCAUUUUCCGAGUGAGCGGAGUGUAGCCCAGAUUUUGGCCACACGAA_UA
.......((....((((.(((..((((((((((.....(((....))).(((((.......))))).))))))))))..))).))))..))........... (-24.92 = -26.72 +   1.80)

alignment

secondary structure

dotplot

Window 2

Location	6,708,138 – 6,708,239
Length	101
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	91.70
Mean single sequence MFE	-36.76
Consensus MFE	-33.46
Energy contribution	-34.46
Covariance contribution	1.00
Combinations/Pair	1.07
Mean z-score	-2.31
Structure conservation index	0.91
SVM decision value	3.56
SVM RNA-class probability	0.999382
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6708138 101 - 22407834
UA-UUCGUGUGGCCAAAAUCUGGGCUACACUCCGCUCACUCGGAAAAUGAGUGCGCCAAGUGGCCAGGUGCGAAGUGCAUUCCAUAUUCAAGUGCCUGGAAG
..-...((((((((........)))))))).(((((((((((.....)))))).....)))))(((((..(((((((.....))).)))..)..)))))... ( -37.30)
>DroSec_CAF1 20805 101 - 1
CA-AUCGUGUGGCCAAAAUAUGGGCUACACUCCGCUCACUCGGAAAAUCAGUGCGCCAAGUGGCCAGUUGCGAAGUGCAUUCCAUAUUCAAGUGCGUGGAAG
..-...((((((((........))))))))(((((.((((.(((.....(((((((...(..(....)..)...))))))).....))).)))).))))).. ( -38.10)
>DroSim_CAF1 20615 101 - 1
CA-UUCGUGUGGCCAAAAUCUGGGCUACACUCCGCUCACUCGGAAAAUGAGUGCGCCAAGUGACCAGGUGCGAAGUGCAUUCCAUAUUCAAGUGCGUGGAAG
..-...((((((((........))))))))(((((.((((.(((....((((((((...((........))...))))))))....))).)))).))))).. ( -39.20)
>DroEre_CAF1 21877 99 - 1
GG-AUCGUGUGGCCACAAUCUGGGCUAU--UCCGCUCACUCGGAAAAUGAAUGCGCAAAGUGGCCAGGUGCGAAGUGCAUUCCAUAUUCAAGUGCGUGGAAG
..-......(((((........)))))(--(((((.((((.(((....((((((((...((........))...))))))))....))).)))).)))))). ( -32.60)
>DroYak_CAF1 21770 100 - 1
UGCUUCGUGUGGCCAAAAUCUGGGCUAC--GCCGCUCACUCGGAAAAUGAAUGCGCAAAGUGGCCAGGUGCGAAGUGCAUUCCGUAUUCAAGUGCGUGGAAG
..((((((((((((........))))))--))(((.((((.(((....((((((((...((........))...))))))))....))).)))).))))))) ( -36.60)
>consensus
CA_UUCGUGUGGCCAAAAUCUGGGCUACACUCCGCUCACUCGGAAAAUGAGUGCGCCAAGUGGCCAGGUGCGAAGUGCAUUCCAUAUUCAAGUGCGUGGAAG
......((((((((........))))))))(((((.((((.(((....((((((((...((........))...))))))))....))).)))).))))).. (-33.46 = -34.46 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:14 2006