Locus 7493

Sequence ID	dm3.chr3L
Location	15,127,642 – 15,127,785
Length	143
Max. P	0.984153

overview

Window 0

Location	15,127,642 – 15,127,785
Length	143
Sequences	11
Columns	145
Reading direction	forward
Mean pairwise identity	76.11
Shannon entropy	0.51251
G+C content	0.51805
Mean single sequence MFE	-46.06
Consensus MFE	-22.57
Energy contribution	-21.60
Covariance contribution	-0.97
Combinations/Pair	1.72
Mean z-score	-1.51
Structure conservation index	0.49
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.55
SVM RNA-class probability	0.740389
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15127642 143 + 24543557
UCUUAGGCACUCAGUUGAG-GUUGUAGUCAUUUUG-GGACAGCGAAGUGAAGCCAGCGACUGCUCGUCACGCGACUAACUGCGCCGGCGGUGGCUUUUGCCCCACUCGCUUGUCCGAAUCAGACCUUUUACUAAGACAUCAUAGU
((((((((.(((....)))-))....(((...((.-(((((((((.(((..((.(((.(((((.((...((((......)))).))))))).)))...))..))))))).))))).))...)))......))))))......... ( -49.40, z-score =  -1.60, R)
>droSim1.chr3L 14459429 143 + 22553184
UCUUAUUCACUCAGUUGAG-GUUGUAGUCAUUUUG-GGACAGCGAAGUGGGGCCAGCGACUGCCCGUCACGCGACUAACUGCGCCGGCGGUGGCUUUUGCCCCACUCGCUUGUCCGAAUCAGACCUUUUACUAAGACAUCAUAGU
.........((.(((.(((-(((.........((.-(((((((((.(((((((.(((.((((((.(...((((......))))).)))))).)))...))))))))))).))))).))...))))))..))).)).......... ( -57.00, z-score =  -3.71, R)
>droSec1.super_0 7240595 143 + 21120651
UCUUAGGCACUCAGUUGAG-GUUGUAGUCAUUUUG-GAACAGCAAAGUGGGGCCAGCGACUGCCCGUCACGCGACUAACUGCGCCGGCUGUGGCUUUUGCCCCACUCGCUUGUCCGAAUCAGACCUUUUACUAAGACAUCAUAGU
((((((((.(((....)))-))....(((..((((-((..(((..((((((((.(((.((.(((.(...((((......))))).))).)).)))...)))))))).)))..))))))...)))......))))))......... ( -51.20, z-score =  -2.19, R)
>droYak2.chr3L 15220672 143 + 24197627
UCUUGGGCACUCAGUUGAG-GUUGAAGUCAUUUUG-GGACAGCGAAGAGGAGCCAGCUACUGCCCGUCACGCGACUAACUGCGCCGGCAGUGGCUUUUGCCCAACCCGCUUGUCCGAAUCAGACCUUUUACUAAGACAUCAUAGU
((((((((.(((....)))-))....(((...((.-((((((((....((.((.((((((((((.(...((((......))))).))))))))))...))))....))).))))).))...)))......))))))......... ( -48.90, z-score =  -1.56, R)
>droEre2.scaffold_4784 15084255 143 + 25762168
GCUCGGGCACUCAGUUGAG-GUUGAAGUCAUUUUG-GGACAGCGAAGAGGAGCCAGCGACUGCCCGUCACGCGACUAACUGCGCCGGCGGUGGCUUUUGCCCCACCCGCUUGUCCGAAUCAGACCUUUUACUAAAACAUCAUAGU
((....)).....(((..(-((.((((((...((.-((((((((....((.((.(((.((((((.(...((((......))))).)))))).)))...))))....))).))))).))...)).)))).)))..)))........ ( -44.40, z-score =   0.25, R)
>droAna3.scaffold_13337 5434314 144 - 23293914
UUUGAGGCACUCAGCAAGG-UUUGUAGUCAUUUUGAGGACAGCAAAGUGGAGCCAGCCAACGCCUGUCACGCGACUAACUGCGCCGGCGACGGCCUCCGCCCCACCUGCUCAUCCGAAUCAGACCUUUUACUAAGACAUCAUAGU
.(((((...))))).((((-((((...((....((((..(((....((((((...(((..((((.(...((((......))))).))))..))))))))).....)))))))...))..))))))))..((((.(....).)))) ( -40.80, z-score =  -0.32, R)
>dp4.chrXR_group6 12706148 143 - 13314419
UUUUCGUUACUCAGCUGAG-AUUGUAGUCACUUUG-GGAUAGCCGAGUGGAGCCAGCCUCCGCCUGUCACGCGACUAACUGCGUCGGCGGAGCCUUUUGCUCCAUCUGCUUGUCCGAAUCAGACCUUUUACUGGGACAUCAUUGU
.........(((((.((((-(.....(((...((.-(((((((.((.((((((.((.(((((((....(((((......))))).))))))).))...)))))))).)).))))).))...))).)))))))))).......... ( -49.90, z-score =  -2.06, R)
>droPer1.super_12 1124162 143 - 2414086
UUUUCGUUACUCAGCUGAG-AUUGUAGUCACUUUG-GGACAGCCGAGUGGAGCCAGCCUCCGCCUGUCACGCGACUAACUGCGUCGGCGGAGCCUUUUGCUCCAUCUGCUUGUCCGAAUCAGACCUUUUACUGGGACAUCAUUGU
.........(((((.((((-(.....(((...((.-(((((((.((.((((((.((.(((((((....(((((......))))).))))))).))...)))))))).)).))))).))...))).)))))))))).......... ( -51.80, z-score =  -2.44, R)
>droMoj3.scaffold_6680 7628894 142 + 24764193
---AUUUUACUCAGCUAAAUGUUGAAGUCAUUUUAUGAGCAGCAGAGACACGUUCGCCUGCACACAAACCGCGACUAACUGCGUCGGUGCAGGACAAGACGUGAACCGUCUGCCCAACUCAGACCUUUUACUAAAACAUCAUUGU
---.......(((((.....)))))(((.......((((..((((((.((((((..(((((((......((((......))))...)))))))....))))))...).)))))....))))........)))............. ( -36.96, z-score =  -1.48, R)
>droVir3.scaffold_13049 19929322 142 + 25233164
--GCUUGUACUCAGAUAAAUGUUGAAGUCAUUUUAUGGGCAGCAGAGGCACGCCCGCCUUCACCUGGCACGCGACUAACUGCGU-GGGGAAGGGCUACGUGCACACCGCAUGCCCAACUCAGACCUUUUACUAAAACAUCAUGGU
--........((((((....((.((((((......((((((((.(.((((((...(((((..((...((((((......)))))-)))..)))))..))))).).).)).)))))).....)).)))).))......))).))). ( -42.70, z-score =  -0.41, R)
>droGri2.scaffold_15110 7119449 142 - 24565398
---UUUUUGCUCAGCUAAAUUCUUUAGUCAUUUUGUGGCCAGCAGAGACUCAUUCGCCUUUACCUGACACGCGACUAACUGCGUGGGUGAAGAUCCCAGUGUACUCCGCUUGACCACAUCAGACCUUUUACUCAAACAUCAUAGU
---.......................(((....((((((.(((.(((...((((.(.(((((((...((((((......)))))))))))))...).))))..))).))).).)))))...)))..................... ( -33.60, z-score =  -1.09, R)
>consensus
UCUUAGGCACUCAGCUGAG_GUUGUAGUCAUUUUG_GGACAGCAAAGUGGAGCCAGCCACUGCCCGUCACGCGACUAACUGCGCCGGCGGAGGCUUUUGCCCCACCCGCUUGUCCGAAUCAGACCUUUUACUAAGACAUCAUAGU
..........................(((.......(((((((.....(((((.....((((((.....((((......))))..)))))).......)))))....)).)))))......)))..................... (-22.57 = -21.60 +  -0.97)

alignment

secondary structure

dotplot

Window 1

Location	15,127,642 – 15,127,785
Length	143
Sequences	11
Columns	145
Reading direction	reverse
Mean pairwise identity	76.11
Shannon entropy	0.51251
G+C content	0.51805
Mean single sequence MFE	-50.40
Consensus MFE	-32.15
Energy contribution	-28.94
Covariance contribution	-3.21
Combinations/Pair	1.86
Mean z-score	-1.81
Structure conservation index	0.64
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	2.16
SVM RNA-class probability	0.984153
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 15127642 143 - 24543557
ACUAUGAUGUCUUAGUAAAAGGUCUGAUUCGGACAAGCGAGUGGGGCAAAAGCCACCGCCGGCGCAGUUAGUCGCGUGACGAGCAGUCGCUGGCUUCACUUCGCUGUCC-CAAAAUGACUACAAC-CUCAACUGAGUGCCUAAGA
.........((((((.....((((......(((((.(((((((((((....)))...((((((((.(((.(((....))).))).).))))))).)))).)))))))))-......)))).....-(((....)))...)))))) ( -50.50, z-score =  -1.88, R)
>droSim1.chr3L 14459429 143 - 22553184
ACUAUGAUGUCUUAGUAAAAGGUCUGAUUCGGACAAGCGAGUGGGGCAAAAGCCACCGCCGGCGCAGUUAGUCGCGUGACGGGCAGUCGCUGGCCCCACUUCGCUGUCC-CAAAAUGACUACAAC-CUCAACUGAGUGAAUAAGA
.........(((((......((((......(((((.(((((((((((...(((.((.(((.((((.((.....))))).).))).)).))).))))))).)))))))))-......))))....(-(((....))).)..))))) ( -54.00, z-score =  -2.81, R)
>droSec1.super_0 7240595 143 - 21120651
ACUAUGAUGUCUUAGUAAAAGGUCUGAUUCGGACAAGCGAGUGGGGCAAAAGCCACAGCCGGCGCAGUUAGUCGCGUGACGGGCAGUCGCUGGCCCCACUUUGCUGUUC-CAAAAUGACUACAAC-CUCAACUGAGUGCCUAAGA
.........((((((.....((((......(((((.(((((((((((...(((.((.(((.((((.((.....))))).).))).)).))).))))))).)))))))))-......)))).....-(((....)))...)))))) ( -50.50, z-score =  -1.58, R)
>droYak2.chr3L 15220672 143 - 24197627
ACUAUGAUGUCUUAGUAAAAGGUCUGAUUCGGACAAGCGGGUUGGGCAAAAGCCACUGCCGGCGCAGUUAGUCGCGUGACGGGCAGUAGCUGGCUCCUCUUCGCUGUCC-CAAAAUGACUUCAAC-CUCAACUGAGUGCCCAAGA
.((.((....((((((...((((.(((.(((((((.(((((..((((...(((.((((((.((((.((.....))))).).)))))).))).)).))..))))))))))-......))..)))))-))..))))))....)))). ( -48.90, z-score =  -0.93, R)
>droEre2.scaffold_4784 15084255 143 - 25762168
ACUAUGAUGUUUUAGUAAAAGGUCUGAUUCGGACAAGCGGGUGGGGCAAAAGCCACCGCCGGCGCAGUUAGUCGCGUGACGGGCAGUCGCUGGCUCCUCUUCGCUGUCC-CAAAAUGACUUCAAC-CUCAACUGAGUGCCCGAGC
.....(((.(((.....))).)))...(((((....((.((((((((....))).))))).))(((.(((((.(((.((.((((........)))).))..))).(((.-......)))......-....))))).)))))))). ( -46.80, z-score =   0.22, R)
>droAna3.scaffold_13337 5434314 144 + 23293914
ACUAUGAUGUCUUAGUAAAAGGUCUGAUUCGGAUGAGCAGGUGGGGCGGAGGCCGUCGCCGGCGCAGUUAGUCGCGUGACAGGCGUUGGCUGGCUCCACUUUGCUGUCCUCAAAAUGACUACAAA-CCUUGCUGAGUGCCUCAAA
....(((.(((((((((..((((.((....((((.((((((((((((...(((((.((((.((((........))))....)))).))))).))))))).)))))))))((.....))...)).)-)))))))))).)).))).. ( -58.20, z-score =  -2.44, R)
>dp4.chrXR_group6 12706148 143 + 13314419
ACAAUGAUGUCCCAGUAAAAGGUCUGAUUCGGACAAGCAGAUGGAGCAAAAGGCUCCGCCGACGCAGUUAGUCGCGUGACAGGCGGAGGCUGGCUCCACUCGGCUAUCC-CAAAGUGACUACAAU-CUCAGCUGAGUAACGAAAA
.......((((((((........)))....))))).......(((((...((.(((((((.((((........))))....))))))).)).)))))((((((((....-...............-...))))))))........ ( -50.05, z-score =  -2.12, R)
>droPer1.super_12 1124162 143 + 2414086
ACAAUGAUGUCCCAGUAAAAGGUCUGAUUCGGACAAGCAGAUGGAGCAAAAGGCUCCGCCGACGCAGUUAGUCGCGUGACAGGCGGAGGCUGGCUCCACUCGGCUGUCC-CAAAGUGACUACAAU-CUCAGCUGAGUAACGAAAA
.......((((((((........)))....))))).......(((((...((.(((((((.((((........))))....))))))).)).)))))(((((((((...-...............-..)))))))))........ ( -53.45, z-score =  -2.64, R)
>droMoj3.scaffold_6680 7628894 142 - 24764193
ACAAUGAUGUUUUAGUAAAAGGUCUGAGUUGGGCAGACGGUUCACGUCUUGUCCUGCACCGACGCAGUUAGUCGCGGUUUGUGUGCAGGCGAACGUGUCUCUGCUGCUCAUAAAAUGACUUCAACAUUUAGCUGAGUAAAAU---
..........((((((.(((.((..(((((((((((.(((..(((((.(((.(((((((((((((........)))..))).)))))))))))))))...)))))))))).......))))..)).))).))))))......--- ( -46.61, z-score =  -1.93, R)
>droVir3.scaffold_13049 19929322 142 - 25233164
ACCAUGAUGUUUUAGUAAAAGGUCUGAGUUGGGCAUGCGGUGUGCACGUAGCCCUUCCCC-ACGCAGUUAGUCGCGUGCCAGGUGAAGGCGGGCGUGCCUCUGCUGCCCAUAAAAUGACUUCAACAUUUAUCUGAGUACAAGC--
.......(((((((((((((((((.....((((((.((((.(.((((((.(((.((((((-((((........)))))...)).))))))..))))))).))))))))))......))))).....)))).))))).)))...-- ( -53.30, z-score =  -2.44, R)
>droGri2.scaffold_15110 7119449 142 + 24565398
ACUAUGAUGUUUGAGUAAAAGGUCUGAUGUGGUCAAGCGGAGUACACUGGGAUCUUCACCCACGCAGUUAGUCGCGUGUCAGGUAAAGGCGAAUGAGUCUCUGCUGGCCACAAAAUGACUAAAGAAUUUAGCUGAGCAAAAA---
.......(((((.(((.(((((((...((((((((.((((((.((.(.....((((.((((((((........)))))...))).)))).....).))))))))))))))))....))))......))).))))))))....--- ( -42.10, z-score =  -1.33, R)
>consensus
ACUAUGAUGUCUUAGUAAAAGGUCUGAUUCGGACAAGCGGGUGGGGCAAAAGCCACCGCCGGCGCAGUUAGUCGCGUGACGGGCAGUGGCUGGCUCCACUUUGCUGUCC_CAAAAUGACUACAAC_CUCAACUGAGUGCCUAAGA
..........((((((....((((......(((((.(((((((((((.......((.(((.((((........))))....))).)).....)))))).)))))))))).......))))..........))))))......... (-32.15 = -28.94 +  -3.21)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:28:01 2011