Locus 2980

Sequence ID	2L_DroMel_CAF1
Location	8,520,956 – 8,521,116
Length	160
Max. P	0.993778

overview

Window 6

Location	8,520,956 – 8,521,076
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.00
Mean single sequence MFE	-40.12
Consensus MFE	-35.56
Energy contribution	-36.68
Covariance contribution	1.12
Combinations/Pair	1.06
Mean z-score	-2.01
Structure conservation index	0.89
SVM decision value	2.42
SVM RNA-class probability	0.993778
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8520956 120 - 22407834
CCCAGCUUAAACAACCAAGGGCAGGUGGUAAAGUGGGCAAAUGGAUACCAAAUCGUUUUGGUCACCGGAAUCGUAUGGUUAUGAUGGAUGCCCAACUUGACCGCCUUCCCAAAGGUGAUG
.............(((..(((.(((((((.(((((((((..(((..((((((....))))))..)))..((((((....))))))...))))).)))).))))))).)))...))).... ( -45.30)
>DroSec_CAF1 30196 120 - 1
CCCAGCUUAAACAACCAAGGGCAGGUGGUAAAGUGGGCAAAUGGAUACCAAAUCGUUUUGGUCACCGGAAUCUUAUGGUUAUGAGCGAUGCCCAACUUGACCGCUUCCCCAAAGGUAAUG
.............(((..(((.(((((((.(((((((((..(((..((((((....))))))..))).((((....))))........))))).)))).))))))).)))...))).... ( -39.80)
>DroSim_CAF1 29529 120 - 1
CCCAGCUUAAACAACCAAGGGCAGGUGGUAAAGUGGGCAAAUGGAUACCAAAUCGUUUUGGUCACCGGAAUCUUAUGGUUAUGAGCGAUGCCCAACUUGACCGCUUCCCCAAAGGUGAUG
.............(((..(((.(((((((.(((((((((..(((..((((((....))))))..))).((((....))))........))))).)))).))))))).)))...))).... ( -39.80)
>DroEre_CAF1 29824 120 - 1
CCGAGCUUGAACAACCAAAGGCUGGUGGUGAAGUGGGCAAAUGGAUACCAAAUCGUUUUGGUCACCGGAAUCUUAUUGUUAUGACAGAUGCCCAACCCGACCCCAUCCCCGUAGGUAACU
.............(((...((.(((.(((....((((((..(((..((((((....))))))..)))........((((....)))).)))))).....))))))...))...))).... ( -30.60)
>DroYak_CAF1 30657 120 - 1
CCCAGCUUGAACAGCCACGGGCAGGUGGUAAAGUGGGCAAAGGGAUACCAAAUCGUUUUGGUCACCGGAAUCUUAUGGUUGUGAUCGAUGCCCAACUUGACCGCUUCCCCGAAGGUGAUG
.((.(((.....)))..((((.(((((((.(((((((((..((....))........((((((((...((((....))))))))))))))))).)))).))))))).))))..))..... ( -45.10)
>consensus
CCCAGCUUAAACAACCAAGGGCAGGUGGUAAAGUGGGCAAAUGGAUACCAAAUCGUUUUGGUCACCGGAAUCUUAUGGUUAUGAGCGAUGCCCAACUUGACCGCUUCCCCAAAGGUGAUG
.............(((..(((.(((((((.(((((((((...((..((((((....))))))..))..((((....))))........))))).)))).))))))).)))...))).... (-35.56 = -36.68 +   1.12)

alignment

secondary structure

dotplot

Window 7

Location	8,520,996 – 8,521,116
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.17
Mean single sequence MFE	-27.46
Consensus MFE	-22.38
Energy contribution	-23.54
Covariance contribution	1.16
Combinations/Pair	1.06
Mean z-score	-1.40
Structure conservation index	0.82
SVM decision value	0.11
SVM RNA-class probability	0.590593
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8520996 120 + 22407834
AACCAUACGAUUCCGGUGACCAAAACGAUUUGGUAUCCAUUUGCCCACUUUACCACCUGCCCUUGGUUGUUUAAGCUGGGUUGCAUAUUUUAUCAUCUGAUUCCUGGUUUCUUCUUCGAU
(((((...((.((.((((((((((....))))))........((((((((.((.(((.......))).))..))).)))))............)))).)).)).)))))........... ( -26.60)
>DroSec_CAF1 30236 120 + 1
AACCAUAAGAUUCCGGUGACCAAAACGAUUUGGUAUCCAUUUGCCCACUUUACCACCUGCCCUUGGUUGUUUAAGCUGGGGUGCAUAUUCUAUCAUCUGAUUCCUGGUUUCUUCUUCGAU
(((((...((.((.(((((............((((......))))............((((((..(((.....)))..))).))).......))))).)).)).)))))........... ( -27.30)
>DroSim_CAF1 29569 120 + 1
AACCAUAAGAUUCCGGUGACCAAAACGAUUUGGUAUCCAUUUGCCCACUUUACCACCUGCCCUUGGUUGUUUAAGCUGGGGUGCAUAUUCUAUCAUCUGAUUCCUGGUUUCUUCUUCGAU
(((((...((.((.(((((............((((......))))............((((((..(((.....)))..))).))).......))))).)).)).)))))........... ( -27.30)
>DroEre_CAF1 29864 120 + 1
AACAAUAAGAUUCCGGUGACCAAAACGAUUUGGUAUCCAUUUGCCCACUUCACCACCAGCCUUUGGUUGUUCAAGCUCGGCUGUAUAUUUUAUCAUCUGAUACCGGGUUACUUCUUUGAU
..(((.(((..(((((((((((((....))))))......................(((((...((((.....)))).))))).................)))))))...)))..))).. ( -26.30)
>DroYak_CAF1 30697 120 + 1
AACCAUAAGAUUCCGGUGACCAAAACGAUUUGGUAUCCCUUUGCCCACUUUACCACCUGCCCGUGGCUGUUCAAGCUGGGCUGCAUAUUUUAUCACCUGAUUCCUGGUUUCUUCUUUGAU
(((((...((.((.((((((((((....))))))........((((((((((((((......)))).))...))).)))))............)))).)).)).)))))........... ( -29.80)
>consensus
AACCAUAAGAUUCCGGUGACCAAAACGAUUUGGUAUCCAUUUGCCCACUUUACCACCUGCCCUUGGUUGUUUAAGCUGGGCUGCAUAUUUUAUCAUCUGAUUCCUGGUUUCUUCUUCGAU
(((((...((.((.((((((((((....))))))........((((((((.((.(((.......))).))..))).)))))............)))).)).)).)))))........... (-22.38 = -23.54 +   1.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:14 2006