>VSG242 (VSG242Q) /CSM/VS/VSG2-B/VSG242Q.Seq.d/
CTAGNGAATTATGGTTAACTCACCCAAGAAACTTCGGTCCAGGTTCCCGTACCTGTCGTA
AATGTGGCAACCATCACGGTATCATCAGAAAATACGACTTAAACATGTGCAGACGTTGTT
TCCGTACCGACGCTGAAGCCATCGGTTTCAACAAATACCGTTAAGCTCTATATAATTATT
TTTTATTTAAATAAAAAGAAACGATTAGAAAAGCAATTTAGAAAAAAAAAAXXXXXXXXX
XCTAGAGAATTATGGTTAACTCACCCAAGAAACTTCGGTCCAGGTTCCCGTACCTGTCGT
AAATGTGGCAACCATCACGGTATCATCAGAAAATACGACTTAAACATGTGCAGACGTTGT
TTCCGTACCGACGCTGAAGCCATCGGTTTCAACAAATACCGTTAAGCTCTATATAATTAT
TTTTTATTTAAATAAAAA

lxnyg*ltqetsvqvpvpvvnvatitvssentt*TCADVVSVPTLKPSVSTNTVKLYIII
FYLNKKKRLEKQFRKKK---

---RELWLTHPRNFGPGSRTCRKCGNHHGIIRKYDLNMCRRCFRTDAEAIGFNKYR*aly
nyflfk*k

Frame A:
lxnyg*ltqetsvqvpvpvvnvatitvssentt*TCADVVSVPTLKPSVSTNTVKLYIII
FYLNKKKRLEKQFRKKK---

---lenyg*ltqetsvqvpvpvvnvatitvssentt*tcadvvsvptlkpsvstntvkly
iiifylnk

Frame B:
*ximvnspkklrsrfpyls*mwqpsryhqkirlkhvqtlfpyrr*shrfqqiplssi*lf
fi*ikrnd*ksnlekk---

---*rimvnspkklrsrfpyls*mwqpsryhqkirlkhvqtlfpyrr*shrfqqiplssi
*lffi*ik

Frame C:
xelwlthprnfgpgsrtcrkcgnhhgiirkydlnmcrrcfrtdaeaigfnkyr*alynyf
lfk*ketirkai*kkk---

---RELWLTHPRNFGPGSRTCRKCGNHHGIIRKYDLNMCRRCFRTDAEAIGFNKYR*aly
nyflfk*k

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSJ353 (VSJ353Q) /CSM/VS/VSJ3-C/VSJ353Q.Seq.d/                        432   e-120
VSJ326 (VSJ326Q) /CSM/VS/VSJ3-B/VSJ326Q.Seq.d/                        432   e-120
VSH618 (VSH618Q) /CSM/VS/VSH6-A/VSH618Q.Seq.d/                        432   e-120
VSH138 (VSH138Q) /CSM/VS/VSH1-B/VSH138Q.Seq.d/                        432   e-120
VSG242 (VSG242Q) /CSM/VS/VSG2-B/VSG242Q.Seq.d/                        432   e-120
VSF621 (VSF621Q) /CSM/VS/VSF6-A/VSF621Q.Seq.d/                        432   e-120
VSF359 (VSF359Q) /CSM/VS/VSF3-C/VSF359Q.Seq.d/                        432   e-120
VSF171 (VSF171Q) /CSM/VS/VSF1-C/VSF171Q.Seq.d/                        432   e-120
VSD705 (VSD705Q) /CSM/VS/VSD7-A/VSD705Q.Seq.d/                        432   e-120
VSC604 (VSC604Q) /CSM/VS/VSC6-A/VSC604Q.Seq.d/                        432   e-120

                                                               Score     E
Sequences producing significant alignments:                    (bits)  Value  N

AC115680|AC115680.2 Dictyostelium discoideum chromosome 2 map 4415041-4520361 strain AX4, complete sequence.   307  e-103  5
BM095006|BM095006.1 saj25a01.y1 Gm-c1066 Glycine max cDNA clone GENOME SYSTEMS CLONE ID: Gm-c1066-3482 5', mRNA sequence.    48  9e-04  2
AQ897473|AQ897473.1 HS_5444_A1_G12_T7A RPCI-11 Human Male BAC Library Homo sapiens genomic clone Plate=9212 Col=23 Row=M, DNA sequence.    38  0.001  2
V00697|V00697.1 Yeast (S. cerevisiae) mitochondrial genes for several tRNAs (Thr(2), Cys(2) and His).    38  0.003  3
L36886|L36886.1 Saccharomyces cerevisiae mitochondrion transfer RNA-Thr2 (tRNA-Thr2); transfer RNA-Cys (tRNA-Cys); transfer RNA-His (tRNA-His) genes.    38  0.005  3
AC055841|AC055841.4 Homo sapiens chromosome 15 clone RP11-707D22 map 15, WORKING DRAFT SEQUENCE, 21 unordered pieces.    40  0.013  2
AC055873|AC055873.8 Homo sapiens chromosome 15, clone RP11-339F1, complete sequence.    40  0.015  2
BM415828|BM415828.1 OP20910 Mixed Stage EST's from Globodera pallida, the potato cyst nematode Globodera pallida cDNA, mRNA sequence.    36  0.020  2
AC127424|AC127424.1 Magnaporthe grisea chromosome 7 clone 06A12, *** SEQUENCING IN PROGRESS ***, 51 unordered pieces.    40  0.025  3
AC146386|AC146386.1 Pan troglodytes chromosome UNK clone RP43-126O23, *** SEQUENCING IN PROGRESS ***, 21 unordered pieces.    38  0.038  2

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

EF144929_1(EF144929|pid:none) Populus trichocarpa clone WS01119_...    86   4e-16
(Q6BY86) RecName: Full=40S ribosomal protein S29;  &CR382133_483...    85   8e-16
CP000497_605(CP000497|pid:none) Pichia stipitis CBS 6054 chromos...    84   1e-15
EU726792_1(EU726792|pid:none) Caenorhabditis brenneri clone 8D6....    84   1e-15
(Q6FWE3) RecName: Full=40S ribosomal protein S29;  &CR380950_32(...    84   2e-15
T25449(T25449)hypothetical protein B0412.4 - Caenorhabditis eleg...    84   2e-15
AY264807_1(AY264807|pid:none) Branchiostoma belcheri tsingtaunes...    83   3e-15
AK175731_1(AK175731|pid:none) Arabidopsis thaliana mRNA for ribo...    83   3e-15
AC092781_13(AC092781|pid:none) Oryza sativa chromosome 3 BAC OSJ...    82   4e-15
FM992695_748(FM992695|pid:none) Candida dubliniensis CD36 chromo...    82   4e-15

 psg: 0.75  gvh: 0.46  alm: 0.44  top: 0.53  tms: 0.00  mit: 0.32  mip: 0.07
 nuc: 0.24  erl: 0.00  erm: 0.20  pox: 0.00  px2: 0.00  vac: 0.00  rnp: 0.00
 act: 0.00  caa: 0.00  yqr: 0.00  tyr: 0.00  leu: 0.00  gpi: 0.00  myr: 0.00
 dna: 0.00  rib: 0.50  bac: 0.00  m1a: 0.00  m1b: 0.00  m2 : 0.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 1.00 

	 80.0 %: cytoplasmic
	 16.0 %: mitochondrial
	  4.0 %: nuclear

>> prediction for VSG242 is cyt

>VSG242F.Seq
CTAGNGAATTATGGTTAACTCACCCAAGAAACTTCGGTCCAGGTTCCCGTACCTGTCGTA
AATGTGGCAACCATCACGGTATCATCAGAAAATACGACTTAAACATGTGCAGACGTTGTT
TCCGTACCGACGCTGAAGCCATCGGTTTCAACAAATACCGTTAAGCTCTATATAATTATT
TTTTATTTAAATAAAAAGAAACGATTAGAAAAGCAATTTAGAAAAAAAAAA---------
-

>VSG242Z.Seq
----------CTAGAGAATTATGGTTAACTCACCCAAGAAACTTCGGTCCAGGTTCCCGT
ACCTGTCGTAAATGTGGCAACCATCACGGTATCATCAGAAAATACGACTTAAACATGTGC
AGACGTTGTTTCCGTACCGACGCTGAAGCCATCGGTTTCAACAAATACCGTTAAGCTCTA
TATAATTATTTTTTATTTAAATAAAAA

>VSG242P.Seq
CTAGNGAATTATGGTTAACTCACCCAAGAAACTTCGGTCCAGGTTCCCGTACCTGTCGTA
AATGTGGCAACCATCACGGTATCATCAGAAAATACGACTTAAACATGTGCAGACGTTGTT
TCCGTACCGACGCTGAAGCCATCGGTTTCAACAAATACCGTTAAGCTCTATATAATTATT
TTTTATTTAAATAAAAAGAAACGATTAGAAAAGCAATTTAGAAAAAAAAAA---------
-CTAGAGAATTATGGTTAACTCACCCAAGAAACTTCGGTCCAGGTTCCCGTACCTGTCGT
AAATGTGGCAACCATCACGGTATCATCAGAAAATACGACTTAAACATGTGCAGACGTTGT
TTCCGTACCGACGCTGAAGCCATCGGTTTCAACAAATACCGTTAAGCTCTATATAATTAT
TTTTTATTTAAATAAAAA