New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	5735740 =	28 (1.210)	6 (0.270)	6/240	NT	20.0%	intergenic (‑21/+88)	hutH/hutU	histidine ammonia‑lyase/urocanate hydratase
	?	NC_002947	5735777 =	21 (0.950)					intergenic (‑58/+51)	hutH/hutU	histidine ammonia‑lyase/urocanate hydratase

GACACAGGCGACGCTGGCGTCGATGGCCGGTGCGGCGCTGGCATCCAGTTGCAGGCGCACGGGCGCGGCATGGATCGCGCGCAGCTGGGCCAGGGTCAGGGTGCCAGGCTTGAGGGTGAGTTCGGTCACGTTACTACTCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTCCTT‑CTTGTTGTTCAGTATCACCCCTTGCAGGGTGCGATCCAAAGCGTGGTGATCAGCCGGTGATCATCGGCAGGTCCAGGCCCTGCTCCTTGGCG  >  NC_002947/5735591‑5735870                                                                                                                                                      |                                                                                                                                    cagggactggcgtcatgcgtcacgccgatgccggttatgacatcgccatcgactgcgccaaggagcagggcctggacctgccgatgatcaccggctgatcaccacgctttggatcgcaccctgcaaggggtgatactgaacaacaagaag                                                                                                                                     >  1:17646‑M1/150‑150 (MQ=255)     gactggcgtcatgcgtcacgccgatgccggttatgacatcgccatcgactgcgccaaggagcagggcctggacctgccgatgatcaccggctgatcaccacgctttggatcgcaccctgcaaggggtgatactgaacaacaagaaGGAGc                                                                                                                                 >  1:393803‑M1/146‑150 (MQ=255)        gCGACGCTGGCGTCGATGGCCGGTGCGGCGCTGGCATCCAGTTGCAGGCGCACGGGCGCGGCATGGATCGCGCGCAGCTTAACAAGGTTCAGGGTGCCAGGCTTGAGGGTGAGTTCGGTCACGTTACTCCTCCAAATCGCGTGGAGCCGc                                                                                                                              >  1:195367/1‑150 (MQ=255)        gCGACGCTGGCGTCGATGGCCGGTGCGGCGCTGGCATCCAGTTGCAGGCGCACGGGCGCGGCATGGATCGCGCGCAGCTGGGCCAGGGTCAGGGTGCCAGGCTTGAGGGTGAGTTCGGTCACGTTACTACTCCAAATCGCGTGGAGCCGc                                                                                                                              <  1:62388/150‑1 (MQ=255)                     cGATGGCCGGTGCGGCGCTGGCATCCAGTTGCAGGCGCACGGGCGCGGCATGGATCGCGCGCAGCTGGGCCAGGGTCAGGGTGCCAGGCTTGAGGGTGAGTTCGGTCACGTTACTACTCCAAATCGCGTGGAGCCGCAGGCCCGCTtgtg                                                                                                                 <  1:149273/150‑1 (MQ=255)                        tGGCCGGTGCGGCGCTGGCATCCAGTTGCAGGCGCACGGGCGCGGCATGGATCGCGCGCAGCTGGGCCAGGGTCAGGGTGCCAGGCTTGAGGGTGAGTTCGGTCACGTTACTACTCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGGGt                                                                                                              >  1:562579/1‑150 (MQ=255)                         ggCCGGTGCGGCGCTGGCATCCAGTTGCAGGCGCACGGGCGCGGCATGGATCGCGCGCAGCTGGGCCAGGGTCAGGGTGCCAGGCTTGAGGGTGAGTTCGGTCACGTTACTACTCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGGGTa                                                                                                             >  1:148163/1‑150 (MQ=255)                                         gCATCCAGTTGCAGGCGCACGGGCGCGGCATGGATCGCGCGCAGCTGGGCCAGGGTCAGGGTGCCAGGCTTGAGGGTGAGTTCGGTCACGCGGGGATGCGAGTGGGCGCGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTCctt‑ct                                                                                            <  2:152461/150‑1 (MQ=255)                                             ccAGTTGCAGGCGCACGGGCGCGGCATGGATCGCGCGCAGCTGGGCCAGGGTCAGGGTGCCAGGCTTGAGGGTGAGTTCGGTCACGTTACTACTCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTCCTT‑Cttgtt                                                                                        <  1:412894/150‑1 (MQ=255)                                              cagtgacAGGCGCGGGGGCGCGGCATGGATCGCGCGCAGCTGGGCCAGCGTTATGGTGCAAGGCTTGAGTGTGGGTTCGGTCACGTTACTAAACCAGCTCGCGTGGAGCCGCAGTCCCGATCGTGAGTACCCGCGCGCTGTTT‑Cttgttg                                                                                       <  2:190738/144‑1 (MQ=255)                                                        cgcACGGGCGCGGCATGGATCGCGCGCAGCTGGGCCAGGGTCAGGGTGCCAGGCTTGAGGGTGAGTTCGGTCACGTTACTACTCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTCCTT‑CTTGTTGTTCAGTATCa                                                                             <  2:337985/150‑1 (MQ=255)                                                           caaggagcagggcctggacctgccgatgatcaccggctgatcaccacgctttggatcgcaccctgcaaggggtgatactgaacaacaagaaGGAGCCGCAGGCCCGCTTGTGGGTACCTgcgcg                                                                                                     <  1:491692‑M1/33‑1 (MQ=255)                                                           caaggagcagggcctggacctgccgatgatcaccggctgatcaccacgctttggatcgcaccctgcaaggggtgatactgaacaacaagaaGGAGCCGCAGGCCCGCTTGTGGGTACCTgcgcg                                                                                                     >  2:491692‑M1/92‑124 (MQ=255)                                                               gagcagggcctggacctgccgatgatcaccggctgatcaccacgctttggatcgcaccctgcaaggggtgatactgaacaacaagaaGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTCctt‑ctt                                                                                           <  1:322528‑M1/42‑1 (MQ=255)                                                               gagcagggcctggacctgccgatgatcaccggctgatcaccacgctttggatcgcaccctgcaaggggtgatactgaacaacaagaaGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTCctt‑ctt                                                                                           >  2:322528‑M1/88‑129 (MQ=255)                                                                  cgGCATGGATCGCGCGCAGCTGGGCCAGGGTCAGGGTGCCAGGCTTGAGGGTGAGTTCGGTCACGTTACTACTCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTCCTT‑CTTGTTGTTCAGTATCACCCCTTGCAg                                                                   >  1:486817/1‑150 (MQ=255)                                                                     cATGGATCGCGCGCAGCTGGGCCAGGGTCAGGGTGCCAGGCTTGAGGGTGAGTTCGGTCACGTTACTACTCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTCCTT‑CTTGTTGTTCAGTATCACCCCTTGCAGGGt                                                                >  1:366299/1‑150 (MQ=255)                                                                      aTGGATCGCGCGCAGCTGGGCCAGGGTCAGGGTGCCAGGCTTGAGGGTGAGTTCGGTCACGTTACTACTCCAAATCGCGTGGAGCCGCAGGCCCGc                                                                                                                      <  2:579369/96‑1 (MQ=255)                                                                      aTGGATCGCGCGCAGCTGGGCCAGGGTCAGGGTGCCAGGCTTGAGGGTGAGTTCGGTCACGTTACTACTCCAAATCGCGTGGAGCCGCAGGCCCGc                                                                                                                      >  1:579369/1‑96 (MQ=255)                                                                           tCGCGCGCAGCTGGGCCAGGGTCAGGGTGCCAGGCTTGAGGGTGAGTTCGGTCACGTTACTACTCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGATTTTTTACACCCTTCTT‑CTTGTTGTTCAGTATCACCCCTTGCAGGGTGCGATc                                                          <  1:261995/150‑1 (MQ=255)                                                                                    gCTGGGCCAGGGTCAGGGTGCCAGGCTTGAGGGTGAGTTCGGTCACGTTACTACTCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTCCTT‑CTTGTTGTTCAGTATCACCCCTTGCAGGGTGCGATCCAAAGCgtg                                                 <  1:355062/150‑1 (MQ=255)                                                                                     cTGGGCCAGGGTCAGGGTGCCAGGCTTGAGGGTGAGTTCGGTCACGTTACTACTCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTCCTT‑CTTGTTGTTCAGTATCACCCCTTGCAGGGTGCGATCCAAAGCgtgg                                                <  1:245547/150‑1 (MQ=255)                                                                                                 gatcaccacgctttggatcgcaccctgcaaggggtgatactgaacaacaagaaGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTc                                                                                                  <  1:463997‑M1/36‑1 (MQ=255)                                                                                                 gatcaccacgctttggatcgcaccctgcaaggggtgatactgaacaacaagaaGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTc                                                                                                  >  2:463997‑M1/54‑89 (MQ=255)                                                                                                 cagggtGCCAGGCTTGAGGGTGAGTTCGGTCACGTTACTACTCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTCCTT‑CTTGTTGTTCAGTATCACCCCTTGCAGGGTGCGATCCAAAGCGTGGTGATCAGCCGGt                                    <  1:225391/150‑1 (MQ=255)                                                                                                         cAGGCTTGAGGGTGAGTTCGGTCACGTTACTACTCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTCCTT‑CTTGTTGTTCAGTATCACCCCTTGCAGGGTg                                                               >  2:70254/1‑115 (MQ=255)                                                                                                         cAGGCTTGAGGGTGAGTTCGGTCACGTTACTACTCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTCCTT‑CTTGTTGTTCAGTATCACCCCTTGCAGGGTg                                                               <  1:70254/115‑1 (MQ=255)                                                                                                                    gTGAGTTCGGTCCAGTTAACACACCAAACTGCCCGCAACCACAGGCAAGTTTGTGGGTCCCT‑CGTCTTGCTTGCTTGTTTTTTAGTATTACTCCTTGCAGTGTGTGATCCTGAGCGTGTTGATCAGCCGGTGATCATCGGCAGGTCCAgt                 <  1:397120/150‑2 (MQ=255)                                                                                                                    gTGAGTTCGGTCACGTTACTACTCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTCCTT‑CTTGTTGTTCAGTATCACCCCTTGCAGGGTGCGATCCAAAGCGTGGTGATCAGCCGGTGATCATCGGCAGGTCCAgg                 <  2:486817/150‑1 (MQ=255)                                                                                                                         ttCGGTCACGTTACTACTCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTCCTT‑CTTGTTGTTCAGTATCACCCCTTGCAGGGTGCGATCCAAAGCGTGGTGATCAGCCGGTGATCATCGGCAGGTCCAGGCCCTg            >  1:485602/1‑150 (MQ=255)                                                                                                                            ggTCACGTTACTACTCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTCCTT‑CTTGTTGTTCAGTATCACCCCTTGCAGGGTGCGATCCAAAGCGTGGTGATCAGCCGGTGATCATCGGCAGGTCCAGGCCCTGCTc         <  2:148163/150‑1 (MQ=255)                                                                                                                                  gTTACTACTCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTCCTT‑CTTGTTGTCCAGTATCACCCCTTGCAGGGTGCGATCCAAAGCGTGGTGATCAGCCGGTGATCATCGGCAGGTCCAGGCCCTGCTCCTTGgc   >  1:418568/1‑150 (MQ=255)                                                                                                                                   ttACTACTCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTCCTT‑CTTGTTGTCCAGTATCACCCCTTGCAGGGTGCGATCCAAAGCGTGGTGATCAGCCGGTGATCATCGGCAGGTCCAGGCCCTGCTCCTTGgcg  <  2:418568/150‑1 (MQ=255)                                                                                                                                   ttACTACTCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGGGTACCGGCGCGCTCCTT‑CTTGTTGTTCAGTATCACCCCTTGCAGGGTGCGATCCAAAGCGTGGTGATCAGCCGGTGATCATCGGCAGGTCCTGGCGCTGCTCCTTGgcg  <  2:195367/150‑1 (MQ=255)                                                                                                                                          tCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTCCTT‑CTTGTTGTTCAGTATCACCCCTTGCAGGGTGCGATCCAAAGCGTGGTGATCa                                          >  1:9669/1‑103 (MQ=255)                                                                                                                                          tCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTCCTT‑CTTGTTGTTCAGTATCACCCCTTGCAGGGTGCGATCCAAAGCGTGGTGATCa                                          <  2:9669/103‑1 (MQ=255)                                                                                                                                                      |                                                                                                                                    GACACAGGCGACGCTGGCGTCGATGGCCGGTGCGGCGCTGGCATCCAGTTGCAGGCGCACGGGCGCGGCATGGATCGCGCGCAGCTGGGCCAGGGTCAGGGTGCCAGGCTTGAGGGTGAGTTCGGTCACGTTACTACTCCAAATCGCGTGGAGCCGCAGGCCCGCTTGTGGGTACCTGCGCGCTCCTT‑CTTGTTGTTCAGTATCACCCCTTGCAGGGTGCGATCCAAAGCGTGGTGATCAGCCGGTGATCATCGGCAGGTCCAGGCCCTGCTCCTTGGCG  >  NC_002947/5735591‑5735870

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.