track name='hg18 Multiz' visibility=pack speciesOrder="hg18 tarSyr1 gorGor1 panTro2 ponAbe2 bosTau4 equCab2 ornAna1 cavPor3 canFam2 rheMac2"
##maf version=1 scoring=autoMZ.v1

a score=89960.000000
s hg18.chr1                       40187 55 + 247249719 AATTAGCATGTAGAATTCTGGTTAAAATTTGGCATAGAACACCCGGGTATTTTTT
s equCab2.chr1                155667141 55 + 185838109 AGGAAGCATGTACATTTCAGTTTAAAATTTGGCATAAAACACTCAGATTTTCTTG
q equCab2.chr1                                         9999999999999999999999999999999999999999999999999999999
i equCab2.chr1                N 0 C 0
s bosTau4.chr10                27191719 55 + 106383598 AGGAAGCATGTACATATCTGGTCCAAATCTGACATAGAACATCCAGAGTTTTCTT
q bosTau4.chr10                                        9999999999999999999999999999999999999999999999999999999
i bosTau4.chr10               C 0 C 0
s tarSyr1.scaffold_17151           3427 54 -     26561 AGGAAGCATGTATAATTCTAGCTAAAATTTGTTATAAAACACATAGGT-TTTCTT
q tarSyr1.scaffold_17151                               999999999999999999999999999999999999999999999999-999999
i tarSyr1.scaffold_17151      C 0 C 0
s rheMac2.chr7                 87604662 55 - 169801366 AGTTAGCATGTAGAATTTCGATTAAAATTTGGCATACAACACCCAGGCATTTTTT
q rheMac2.chr7                                         9999999999999999999999999999999999999999999999999999999
i rheMac2.chr7                C 0 C 0
s ponAbe2.chr19                   11497 55 +  60714840 AATTAGCATGTAGAATTCTGGTTAAAATTTGGCATAAAACACCCAGGTATTTTTT
q ponAbe2.chr19                                        9999999999999999999999999999999999999999999999999999999
i ponAbe2.chr19               C 0 C 0
s gorGor1.Supercontig_0005299     10179 55 -     22747 AATTAGCATGTAGAATTCTGGTTAAAATTTGGCATGGAANACCCGGGCATTTTTT
q gorGor1.Supercontig_0005299                          9999999999999999999999999999999999999999999999999999999
i gorGor1.Supercontig_0005299 C 0 C 0
s panTro2.chrUn                 9704936 55 +  58616431 AATTAGCATGTAGAATTCTGGTTAAAATTTGGCATAGAACACCCGGGTATTTTTT
q panTro2.chrUn                                        9999999999999999999999999999999999999999999999999999999
i panTro2.chrUn               C 0 C 0
e cavPor3.scaffold_32          16020862 1273 +  25641242 I
e xenTro2.scaffold_24           3995933 11859 -   4875303 I
e canFam2.chr30                39825347 3649 -  43206070 I

a score=37296.000000
s hg18.chr1                       40242 23 + 247249719 CATAATGCACCCAATAACTGTCA
s panTro2.chrUn                 9704991 23 +  58616431 CATAATGCACCCAATAACTGTCA
q panTro2.chrUn                                        99999999999999999999999
i panTro2.chrUn               C 0 C 0
s gorGor1.Supercontig_0005299     10234 23 -     22747 CATAATGCACCCAATAACTGTCA
q gorGor1.Supercontig_0005299                          99999999999999999999999
i gorGor1.Supercontig_0005299 C 0 C 0
s ponAbe2.chr19                   11552 23 +  60714840 CATAATGCACCCAATAACTGTCA
q ponAbe2.chr19                                        99999999999999999999999
i ponAbe2.chr19               C 0 C 0
s rheMac2.chr7                 87604717 23 - 169801366 CATAATGTACCCAATAACTGTCA
q rheMac2.chr7                                         99999999999999999999999
i rheMac2.chr7                C 0 C 0
s tarSyr1.scaffold_17151           3481 23 -     26561 CATAGTGCACCCCATAATTGTCA
q tarSyr1.scaffold_17151                               99999999999999999999999
i tarSyr1.scaffold_17151      C 0 C 0
s bosTau4.chr10                27191774 22 + 106383598 CAT-GTACTTCCAGTAATTGTCA
q bosTau4.chr10                                        999-9999999999999999999
i bosTau4.chr10               C 0 C 0
s equCab2.chr1                155667196 22 + 185838109 ACT-GTATATCTAGTAGTTGTCA
q equCab2.chr1                                         999-9999999999999999999
i equCab2.chr1                C 0 N 0
s ornAna1.Ultra163               159364 21 -   1587491 cagaatgagttcaataaatgc--
q ornAna1.Ultra163                                     999999999999999999999--
i ornAna1.Ultra163            N 0 C 0
e cavPor3.scaffold_32          16020862 1273 +  25641242 I
e xenTro2.scaffold_24           3995933 11859 -   4875303 I
e canFam2.chr30                39825347 3649 -  43206070 I


a score=78447.000000
s hg18.chr1                       43219 50 + 247249719 G---ATG---TCATAATAAATGGTGCATATCCAGAGTGCAAGATGATTCAGTCTCA
s panTro2.chrUn                 9708467 50 +  58616431 G---ATG---TCATAATAAATGGTGCATATCCAGAGTGCAAGATGATTCAGTCTCA
q panTro2.chrUn                                        9---999---9999999999999999999999999999999999999999999999
i panTro2.chrUn               C 0 C 0
s gorGor1.Supercontig_0005299     13196 50 -     22747 G---ATG---TCATAATAAATGGTGCATATCCAGAGTGCAAGATGATTCAGTCTCA
q gorGor1.Supercontig_0005299                          2---233---2211122333333333341444433414155555555554444444
i gorGor1.Supercontig_0005299 C 0 C 0
s ponAbe2.chr19                   16249 50 +  60714840 G---ATG---TCATAATAAATGGTGCATATCCAGAGTGCAAGATGATTCAGTCTCA
q ponAbe2.chr19                                        9---999---9999999999999999999999999999999999999999999999
i ponAbe2.chr19               C 0 C 0
s rheMac2.chr7                 87607283 50 - 169801366 G---ATC---TCATAATAAATGGTGCATATCCAGAGTGCAAGATGATTCAGTCTCA
q rheMac2.chr7                                         9---999---9999999999999999999999999999999999999999999999
i rheMac2.chr7                C 0 C 0
s cavPor3.scaffold_32          16022892 55 +  25641242 GGACATGGAACAATAATAACTGATGCAC-TGTAGAGCACAATATGATATAGTTTCT
q cavPor3.scaffold_32                                  9999999999999999999999999999-999999999999999999999999999
i cavPor3.scaffold_32         C 0 C 0
s bosTau4.chr10                27195353 50 + 106383598 G---ATC---TCATAATGAATGGAGCAGATCTAGAGTACACAATGCTTCAAGCTTA
q bosTau4.chr10                                        9---999---9999999999999999999999999999999999999999999999
i bosTau4.chr10               C 0 C 0
s equCab2.chr1                155511472 50 + 185838109 G---ATC---TCATCATGAACGGAACAGACCTAGAATACAAGATGCTTCAGACTCA
q equCab2.chr1                                         9---999---9999999999999999999999999999999999999999999999
i equCab2.chr1                C 0 C 0
s canFam2.chr30                39831340 49 -  43206070 G---ATC---TCATAATGAATGGAGCAGATCTA-CATACAACATGCTGCAGGTTCA
q canFam2.chr30                                        9---999---99999999999999999999999-9999999999999999999999
i canFam2.chr30               C 0 C 0
s xenTro2.scaffold_926           254257 48 +    309967 ---TATT---TTA-GATAGTTGTAGCTAATACA-AGTCAACAACATTTCAATCTGA
i xenTro2.scaffold_926        C 0 I 8205
s danRer5.chr10                 8647565 42 -  42379582 --CAATG---TGA-AAAATATAGGACAGATGAAATGTACAAGGAGATA--------
i danRer5.chr10               C 0 C 0
e tarSyr1.scaffold_17151           3591  4 -     26561 I
e ornAna1.Contig17617              5497 7476 -     22632 I
