Locus 8122

Sequence ID	X_DroMel_CAF1
Location	20,199,387 – 20,199,535
Length	148
Max. P	0.991534

overview

Window 4

Location	20,199,387 – 20,199,505
Length	118
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	94.49
Mean single sequence MFE	-31.67
Consensus MFE	-29.92
Energy contribution	-30.12
Covariance contribution	0.20
Combinations/Pair	1.16
Mean z-score	-1.65
Structure conservation index	0.94
SVM decision value	2.27
SVM RNA-class probability	0.991534
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20199387 118 + 22224390
AAAUCAUGUGCAGCCAA-CGGCUUCGAGAGUCAUUAAGCUUAUUAAGUGGGCGAGCAGAUAACCCAAAUGAGUGCAUGCCAAAUGAAAGCCAACGCAAUUUGCACUCAUAUCGCCCACG-
........((.((((..-.)))).)).((((......)))).....((((((((...(......)..((((((((((((....((.....))..)))...))))))))).)))))))).- ( -33.70)
>DroSec_CAF1 26172 118 + 1
AAAUCAUGUGCAGCCAA-CGGCUUCGAGAGUCAUUAAGUUUAUUAAGUGGGCGAGCAGAUAACCCAAAUGAGUGCAUGCCAAAUGAAAGCCAACGCGAUUUGCACUCAUAUCGCCGACG-
...((...((.((((..-.)))).)).)).................((.(((((...(......)..((((((((((((....((.....))..)))...))))))))).))))).)).- ( -27.60)
>DroSim_CAF1 26096 118 + 1
AAAUCAUGUGCAGCCAA-CGGCUUCGAGAGUCAUUAAGUUUAUUAAGUGGGCGAGCAGAUAACCCAAAUGAGUGCAUGCCAAAUGAAAGCCAACGCAAUUUGCACUCAUAUCGCCCACG-
...((...((.((((..-.)))).)).)).................((((((((...(......)..((((((((((((....((.....))..)))...))))))))).)))))))).- ( -32.70)
>DroEre_CAF1 16171 118 + 1
AAAUCAUGUGCAGCCAA-AGGCUUCGAGAGUCAUUAAGCUUAUUAAGUGGGCGAGCAGAUAACCCAAAUGAGUGCAUGCCAAAUGAAAGCCAACGCAAUUUGCACUCAUAUCGCCUACG-
........((.((((..-.)))).)).((((......)))).....((((((((...(......)..((((((((((((....((.....))..)))...))))))))).)))))))).- ( -31.40)
>DroYak_CAF1 17154 118 + 1
AAAUCAUGUGCAGCCAA-AGGCUUCGAGAGUCAUUAAGUUUAUUAAGUGGGCGAGCAGAUAACCCAAAUGAGUGCAUGCCAAAUGGAAGCCAACGCAAUUUGCACUCAUAUCGCCCGCG-
...((...((.((((..-.)))).)).)).................((((((((...(......)..((((((((((((....(((...)))..)))...))))))))).)))))))).- ( -34.00)
>DroAna_CAF1 61668 120 + 1
AAAUCUUGCUCAGCCAAAAGGCUUCGAGAGUCAUUAAGUUUAUUAAGUGGCCUAGCAGAUAACCCAAAUGAGUGCAUGCCAAAUGGAAUCCAACGCAAUUUGCACUCAUAUCGCCCCUUC
..((((.(((..((((...(((((...))))).((((.....)))).))))..))))))).......((((((((((((....(((...)))..)))...)))))))))........... ( -30.60)
>consensus
AAAUCAUGUGCAGCCAA_AGGCUUCGAGAGUCAUUAAGUUUAUUAAGUGGGCGAGCAGAUAACCCAAAUGAGUGCAUGCCAAAUGAAAGCCAACGCAAUUUGCACUCAUAUCGCCCACG_
...((...((.((((....)))).)).)).................((((((((...(......)..((((((((((((....((.....))..)))...))))))))).)))))))).. (-29.92 = -30.12 +   0.20)

alignment

secondary structure

dotplot

Window 5

Location	20,199,426 – 20,199,535
Length	109
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	85.29
Mean single sequence MFE	-28.70
Consensus MFE	-24.46
Energy contribution	-24.63
Covariance contribution	0.17
Combinations/Pair	1.17
Mean z-score	-2.66
Structure conservation index	0.85
SVM decision value	1.39
SVM RNA-class probability	0.949159
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20199426 109 + 22224390
UAUUAAGUGGGCGAGCAGAUAACCCAAAUGAGUGCAUGCCAAAUGAAAGCCAACGCAAUUUGCACUCAUAUCGCCCACG----------AAUUCCUUGCACUGUUAAA-AAAAGAAGGAA
......((((((((...(......)..((((((((((((....((.....))..)))...))))))))).)))))))).----------..((((((...........-.....)))))) ( -31.69)
>DroSec_CAF1 26211 105 + 1
UAUUAAGUGGGCGAGCAGAUAACCCAAAUGAGUGCAUGCCAAAUGAAAGCCAACGCGAUUUGCACUCAUAUCGCCGACG----------AAUUCUGUGCACUGUGA-A-AA---AAGGAA
......((.(((((...(......)..((((((((((((....((.....))..)))...))))))))).))))).)).----------.................-.-..---...... ( -23.50)
>DroSim_CAF1 26135 106 + 1
UAUUAAGUGGGCGAGCAGAUAACCCAAAUGAGUGCAUGCCAAAUGAAAGCCAACGCAAUUUGCACUCAUAUCGCCCACG----------AAUUCUGUGCACUGUGAGA-AA---AAGGAA
......((((((((...(......)..((((((((((((....((.....))..)))...))))))))).)))))))).----------..((((..........)))-).---...... ( -28.80)
>DroEre_CAF1 16210 105 + 1
UAUUAAGUGGGCGAGCAGAUAACCCAAAUGAGUGCAUGCCAAAUGAAAGCCAACGCAAUUUGCACUCAUAUCGCCUACG----------AAUUCUUUGCACCGCGAA--AA---AACGAA
......((((((((...(......)..((((((((((((....((.....))..)))...))))))))).)))))))).----------.....(((((...)))))--..---...... ( -28.00)
>DroYak_CAF1 17193 107 + 1
UAUUAAGUGGGCGAGCAGAUAACCCAAAUGAGUGCAUGCCAAAUGGAAGCCAACGCAAUUUGCACUCAUAUCGCCCGCG----------AAUUCUUUGCACCGCAAAAAAA---AACGUA
......((((((((...(......)..((((((((((((....(((...)))..)))...))))))))).)))))))).----------.....(((((...)))))....---...... ( -31.90)
>DroAna_CAF1 61708 110 + 1
UAUUAAGUGGCCUAGCAGAUAACCCAAAUGAGUGCAUGCCAAAUGGAAUCCAACGCAAUUUGCACUCAUAUCGCCCCUUCAGUCCGGCCUUUUAUCUGCACUAAAAA--AA---A-----
..............((((((((.....((((((((((((....(((...)))..)))...)))))))))...(((..........)))...))))))))........--..---.----- ( -28.30)
>consensus
UAUUAAGUGGGCGAGCAGAUAACCCAAAUGAGUGCAUGCCAAAUGAAAGCCAACGCAAUUUGCACUCAUAUCGCCCACG__________AAUUCUUUGCACUGUGAAA_AA___AAGGAA
......((((((((...(......)..((((((((((((....((.....))..)))...))))))))).)))))))).......................................... (-24.46 = -24.63 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:56:11 2006