Locus 6687

Sequence ID	2L_DroMel_CAF1
Location	18,723,377 – 18,723,537
Length	160
Max. P	0.998914

overview

Window 0

Location	18,723,377 – 18,723,497
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.67
Mean single sequence MFE	-42.56
Consensus MFE	-38.96
Energy contribution	-38.80
Covariance contribution	-0.16
Combinations/Pair	1.03
Mean z-score	-1.78
Structure conservation index	0.92
SVM decision value	2.03
SVM RNA-class probability	0.986156
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18723377 120 + 22407834
GCGCCGCCGAGUUGCAGAAGCCAGGUGAGAUGGUGGCUCGAUAGGAUCGAUGAUUGGCAACUGGGCUCCAUCGAAAGGUGUGGCCAGGGCAUUGUGAUUGAUCUCGAACACAUUUAGAAU
..(((((((..(..(.........)..)..)))))))((((...(((((((.((..((.....(((..((((....))))..)))...))...)).)))))))))))............. ( -43.00)
>DroSec_CAF1 16006 120 + 1
GCGCCGCCGAGUUGCAGAAGCCAGAUGAGAUGGUUGCUCGAUAGGAUCGAUGAUUGGCAACUGGGCUCCAUCGAAAGGUGUGGCCAGGGCAUUGUGAUUGAUCUCGAACACAUUUAGAAU
..((((((((...(((...((((.......)))))))(((((...)))))...)))))..((((.(..((((....))))..))))))))..((((.(((....))).))))........ ( -41.00)
>DroSim_CAF1 14494 120 + 1
GCGCCGCCGAGUUGCAGAAGCCAGAUGAGAUGGUGGCUCGAUAGGAUCGAUGAUUGGCAACUGGGCUCCAUCGAAAGGUGUGGCCAGGGCAUUGUGAUUGAUCUCGAACACAUUUAGAAU
..(((((((.(((((....))..)))....)))))))((((...(((((((.((..((.....(((..((((....))))..)))...))...)).)))))))))))............. ( -41.30)
>DroEre_CAF1 16113 120 + 1
GCGCCGCGGAGUUGCAGAAGCCAGAUGAGAUGGUUUCUCGACGGGAUCGAUGAUUGGCAACUGGGCUCCAUCGAAAGGUGUGGUCAGGGCAUUGUGAUUGAUCUCGAACACAUUUAGAAU
..........((((.((((((((.......))))))))))))(((((((((.((..((.....(((..((((....))))..)))...))...)).)))))))))............... ( -42.90)
>DroYak_CAF1 16160 120 + 1
GCGCCGCCGAGUUGCAGAAGCCAGAUGAGAUGGUAGCUCGAUAGGAUCGAUGAUUGGCAACUGGGCUCCAUCGAAAGGUGUGGCCAGGGCAUUGUGAUUGAUCUCGAGCACAUUUGGAAU
......((((((.......((((.......)))).((((((...(((((((.((..((.....(((..((((....))))..)))...))...)).)))))))))))))..))))))... ( -44.60)
>consensus
GCGCCGCCGAGUUGCAGAAGCCAGAUGAGAUGGUGGCUCGAUAGGAUCGAUGAUUGGCAACUGGGCUCCAUCGAAAGGUGUGGCCAGGGCAUUGUGAUUGAUCUCGAACACAUUUAGAAU
..(((....((((((.(..((((.......))))..)((((.....))))......)))))).(((..((((....))))..)))..)))..((((.(((....))).))))........ (-38.96 = -38.80 +  -0.16)

alignment

secondary structure

dotplot

Window 1

Location	18,723,417 – 18,723,537
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	98.00
Mean single sequence MFE	-38.74
Consensus MFE	-37.08
Energy contribution	-36.92
Covariance contribution	-0.16
Combinations/Pair	1.03
Mean z-score	-2.23
Structure conservation index	0.96
SVM decision value	3.28
SVM RNA-class probability	0.998914
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18723417 120 + 22407834
AUAGGAUCGAUGAUUGGCAACUGGGCUCCAUCGAAAGGUGUGGCCAGGGCAUUGUGAUUGAUCUCGAACACAUUUAGAAUGUGAUUUAAAUUGAUGAUCUGAUCUCAUCGGUGGCUCUUG
...((((((((.((..((.....(((..((((....))))..)))...))...)).))))))))....(((((.....)))))......((((((((.......))))))))........ ( -37.50)
>DroSec_CAF1 16046 120 + 1
AUAGGAUCGAUGAUUGGCAACUGGGCUCCAUCGAAAGGUGUGGCCAGGGCAUUGUGAUUGAUCUCGAACACAUUUAGAAUGUGAUUUAAAUUGAUGAUCUGAUCUCAUCGGUGGCUCUUG
...((((((((.((..((.....(((..((((....))))..)))...))...)).))))))))....(((((.....)))))......((((((((.......))))))))........ ( -37.50)
>DroSim_CAF1 14534 120 + 1
AUAGGAUCGAUGAUUGGCAACUGGGCUCCAUCGAAAGGUGUGGCCAGGGCAUUGUGAUUGAUCUCGAACACAUUUAGAAUGUGAUUUAAAUUGAUGAUCUGAUCUCAUCGGUGGCUCUUG
...((((((((.((..((.....(((..((((....))))..)))...))...)).))))))))....(((((.....)))))......((((((((.......))))))))........ ( -37.50)
>DroEre_CAF1 16153 120 + 1
ACGGGAUCGAUGAUUGGCAACUGGGCUCCAUCGAAAGGUGUGGUCAGGGCAUUGUGAUUGAUCUCGAACACAUUUAGAAUGUGAUUUAAAUUGAUGAUCUGAUCUCAUCGGUGGCUCUUG
.((((((((((.((..((.....(((..((((....))))..)))...))...)).))))))))))..(((((.....)))))......((((((((.......))))))))........ ( -40.40)
>DroYak_CAF1 16200 120 + 1
AUAGGAUCGAUGAUUGGCAACUGGGCUCCAUCGAAAGGUGUGGCCAGGGCAUUGUGAUUGAUCUCGAGCACAUUUGGAAUGUGAUUUAAAUUGAUGAUCUGAUCUCAUCGGUGGCUCUUU
...((((((((.((..((.....(((..((((....))))..)))...))...)).)))))))).((((((((.....)))).......((((((((.......)))))))).))))... ( -40.80)
>consensus
AUAGGAUCGAUGAUUGGCAACUGGGCUCCAUCGAAAGGUGUGGCCAGGGCAUUGUGAUUGAUCUCGAACACAUUUAGAAUGUGAUUUAAAUUGAUGAUCUGAUCUCAUCGGUGGCUCUUG
...((((((((.((..((.....(((..((((....))))..)))...))...)).))))))))....(((((.....)))))......((((((((.......))))))))........ (-37.08 = -36.92 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:26 2006