Locus 2250

Sequence ID	3L_DroMel_CAF1
Location	6,244,981 – 6,245,076
Length	95
Max. P	0.532154

overview

Window 8

Location	6,244,981 – 6,245,076
Length	95
Sequences	6
Columns	99
Reading direction	forward
Mean pairwise identity	85.39
Mean single sequence MFE	-23.77
Consensus MFE	-17.29
Energy contribution	-17.88
Covariance contribution	0.59
Combinations/Pair	1.27
Mean z-score	-2.23
Structure conservation index	0.73
SVM decision value	-0.03
SVM RNA-class probability	0.519543
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6244981 95 + 23771897
AAAUUAAACUUUGCAUUCGAAUUGCCAUUUCUAUUUGUUUG-CCUGACAACGGAAUCAUGUAGAACAGCAAAAAGUUGGCAACUCGAAAGGAGUUG---
......((((((...(((((.((((((...((.((((((((-(.(((........))).)))....)))))).)).)))))).))))).)))))).--- ( -24.90)
>DroSec_CAF1 10898 95 + 1
AAAUUAAACUUUGCAUUCGAAUUGCCAUUUCUAUUUGUUUG-CCUGACAACGGAAUCAUGUAGAACAGCAAAAAGUUGGCAACUCGAAAGGAGUUG---
......((((((...(((((.((((((...((.((((((((-(.(((........))).)))....)))))).)).)))))).))))).)))))).--- ( -24.90)
>DroSim_CAF1 10923 95 + 1
AAAUUAAACUUUGCAUUCGAAUUGCCAUUUCUAUUUGUUUG-CCUGACAACGGAAUCAUGUAGAACAGCAAAAAGUUGGCAACUCGAAAGGAGUUG---
......((((((...(((((.((((((...((.((((((((-(.(((........))).)))....)))))).)).)))))).))))).)))))).--- ( -24.90)
>DroEre_CAF1 11019 94 + 1
AAAUUAAACUUUGCAUUCGAAUUGCCAUUUCUAUUUGUUAG-CCUGACAACGGAGUCAUGUAGAACAGCAGA-ACUUGGCAACUCGAAAGGCGUUU---
............((.(((((.((((((.((((..(((((.(-(.((((......)))).))..))))).)))-)..)))))).)))))..))....--- ( -26.70)
>DroWil_CAF1 12512 85 + 1
AAAUUAAACUUUGCAUUUAAAUUGCCAUUUCUAUUUGUUUGUCCAGACAACAG-------UUGAGC-------AGUUGGCAGGUUGGAAAGGCCCAGGA
........((((.((......((((((.((((..(((((.((....)))))))-------...)).-------)).))))))..)).))))........ ( -16.00)
>DroYak_CAF1 11527 95 + 1
AAAUGAAACUUUGCAUUCGAAUUGCCAUUUCUAUUUGUUUG-CCUGACAACGAAAUCAUGUAGAACAGCAAAAAGUUGGCAACUCGAAAGGAGUUU---
.....(((((((...(((((.((((((...((.((((((((-(.(((........))).)))....)))))).)).)))))).))))).)))))))--- ( -25.20)
>consensus
AAAUUAAACUUUGCAUUCGAAUUGCCAUUUCUAUUUGUUUG_CCUGACAACGGAAUCAUGUAGAACAGCAAAAAGUUGGCAACUCGAAAGGAGUUG___
......((((((...(((((.((((((.......((((((....(((........)))....))))))........)))))).))))).)))))).... (-17.29 = -17.88 +   0.59)

alignment

secondary structure

dotplot

Window 9

Location	6,244,981 – 6,245,076
Length	95
Sequences	6
Columns	99
Reading direction	reverse
Mean pairwise identity	85.39
Mean single sequence MFE	-22.73
Consensus MFE	-16.35
Energy contribution	-18.52
Covariance contribution	2.17
Combinations/Pair	1.12
Mean z-score	-2.37
Structure conservation index	0.72
SVM decision value	-0.00
SVM RNA-class probability	0.532154
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6244981 95 - 23771897
---CAACUCCUUUCGAGUUGCCAACUUUUUGCUGUUCUACAUGAUUCCGUUGUCAGG-CAAACAAAUAGAAAUGGCAAUUCGAAUGCAAAGUUUAAUUU
---.((((...((((((((((((..((((((.((((.....((((......))))..-..))))..)))))))))))))))))).....))))...... ( -23.40)
>DroSec_CAF1 10898 95 - 1
---CAACUCCUUUCGAGUUGCCAACUUUUUGCUGUUCUACAUGAUUCCGUUGUCAGG-CAAACAAAUAGAAAUGGCAAUUCGAAUGCAAAGUUUAAUUU
---.((((...((((((((((((..((((((.((((.....((((......))))..-..))))..)))))))))))))))))).....))))...... ( -23.40)
>DroSim_CAF1 10923 95 - 1
---CAACUCCUUUCGAGUUGCCAACUUUUUGCUGUUCUACAUGAUUCCGUUGUCAGG-CAAACAAAUAGAAAUGGCAAUUCGAAUGCAAAGUUUAAUUU
---.((((...((((((((((((..((((((.((((.....((((......))))..-..))))..)))))))))))))))))).....))))...... ( -23.40)
>DroEre_CAF1 11019 94 - 1
---AAACGCCUUUCGAGUUGCCAAGU-UCUGCUGUUCUACAUGACUCCGUUGUCAGG-CUAACAAAUAGAAAUGGCAAUUCGAAUGCAAAGUUUAAUUU
---....((..((((((((((((..(-((((.((((.....((((......))))..-..))))..))))).)))))))))))).))............ ( -30.00)
>DroWil_CAF1 12512 85 - 1
UCCUGGGCCUUUCCAACCUGCCAACU-------GCUCAA-------CUGUUGUCUGGACAAACAAAUAGAAAUGGCAAUUUAAAUGCAAAGUUUAAUUU
...((((....))))...(((((...-------.((...-------...((((....))))......))...)))))..((((((.....))))))... ( -11.70)
>DroYak_CAF1 11527 95 - 1
---AAACUCCUUUCGAGUUGCCAACUUUUUGCUGUUCUACAUGAUUUCGUUGUCAGG-CAAACAAAUAGAAAUGGCAAUUCGAAUGCAAAGUUUCAUUU
---(((((...((((((((((((.((.((((.((((..(((((....)).)))..))-))..)))).))...)))))))))))).....)))))..... ( -24.50)
>consensus
___CAACUCCUUUCGAGUUGCCAACUUUUUGCUGUUCUACAUGAUUCCGUUGUCAGG_CAAACAAAUAGAAAUGGCAAUUCGAAUGCAAAGUUUAAUUU
...........((((((((((((..((((((.((((.....((((......)))).....))))..))))))))))))))))))............... (-16.35 = -18.52 +   2.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:48 2006