New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	1958516 =	311 (0.880)	13 (0.040)	6/96	NT	5.6%	coding (792/2079 nt)	flhA	putative flagellar export pore protein
	?	CP009273	1958598 =	170 (0.560)					coding (710/2079 nt)	flhA	putative flagellar export pore protein

AAGTTATACGCTATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP009273/1958588‑1958516 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccgccgcgTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATGA  >  CP009273/1958598‑1958664                                                                                                                                              AAGTTATACGCTATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACC                                                                           >  1:1888185/1‑67   GTTATTCGCTATTGAGCATTGGCGACGGTCTGGTGTCACAAATTCCGGCGCTGGTGATTTCTACCGCC                                                                        <  1:4444620/68‑1   GTTATACGCTATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCC                                                                        >  1:1134929/1‑68   GTTATACGCTATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCC                                                                        >  1:11429218/1‑68   GTTATACGCTATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCC                                                                        >  1:11996756/1‑68   GTTATACGCTATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCC                                                                        >  1:3984754/1‑68   GTTATACGCTATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCC                                                                        >  1:22897658/1‑68     tcTACGCTATTGACCATTGGCGACGGGCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCG                                                                       <  1:10275747/65‑1     tagACGCTATTGACCATTGGCGACGGTCTGGGGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCG                                                                       <  1:12036742/64‑1     TATACGCTATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGC                                                                      <  1:18851828/68‑1     TATACGCTATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCG                                                                       <  1:6422761/67‑1     TATACGCTATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCG                                                                       <  1:5028230/67‑1     TATACGCTATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCC                                                                        <  1:13474989/66‑1     TATACGCTATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCC                                                                        <  1:28303719/66‑1     TATACGCTATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCC                                                                        <  1:28775930/66‑1      ATACGCTATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCG                                                                     >  1:1227975/1‑68      ATACGCTATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCG                                                                     >  1:8283525/1‑68        ACGCTATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCGTG                                                                   <  1:7868982/68‑1         CGCTATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCGTGT                                                                  <  1:14965798/68‑1          GCTATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCGTGTC                                                                 <  1:27636879/68‑1          GCTATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCGTGTC                                                                 <  1:27297367/68‑1            TATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCGTGTCC                                                                <  1:4583724/67‑1            TATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCGTGTCC                                                                <  1:15129749/67‑1            TATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCGTGTCC                                                                <  1:4551153/67‑1            TATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCGGGTGATTTCTACCGCCGCGTGTCC                                                                <  1:25456109/67‑1            TATTCACCATTGGCGACGGTCTGGGGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCGTGTCC                                                                <  1:14236617/67‑1               TGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCGTGTCCCATG                                                            <  1:15958015/68‑1               TGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCGTGTCCCATG                                                            <  1:1677383/68‑1                tACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCGTGTCCCATGC                                                           <  1:12422871/67‑1                GACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCGTGTCCCATGC                                                           <  1:8622941/68‑1                GACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCGTGTCCCATGC                                                           <  1:18145558/68‑1                GACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCGTGTCCCATGC                                                           <  1:16910527/68‑1                GACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCGTGTCCCATGC                                                           <  1:14708914/68‑1                GACCATTCGCGACGGGCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCGTGTCCCATGC                                                           <  1:19156008/68‑1                  CCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCGTGTCCCATGCT                                                          <  1:17856637/67‑1                  CCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCGTGTCCCATGCT                                                          <  1:14801053/67‑1                     TTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCGTGTCCCATGCTCATG                                                      <  1:16338070/68‑1                       GGCGACGGTCTGCTGGCACAAATTCCGCCGCTGGTCATTTCAACCGCCGCGTGTCCCATGCTCATGCC                                                    <  1:6458526/68‑1                          GACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCGTGTCCCATGCTCATGCCAT                                                  <  1:3120021/67‑1                                                                  CCGCCGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATG         <  1:556951/68‑1                                                                  CCGCCGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATG         <  1:4415524/68‑1                                                                  CCGCCGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATG         <  1:5059620/68‑1                                                                  CCGCCGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATG         >  1:24662034/1‑68                                                                   CGCCGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGA        <  1:12065226/68‑1                                                                   CGCCGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATG         >  1:1632801/1‑67                                                                    GCCGCGTGTCCCATGCTCTTGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGAC       <  1:9787255/68‑1                                                                    GCCGCGTGTCCCATGCTCATGCCATGTTGCAGCCCGCCGACCAGCAACCCGCCGACAATGTTAATGA        >  1:5525999/1‑67                                                                    GCCGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGCCCAGCAACCCGCCGACAATGTTAATGA        >  1:25182726/1‑67                                                                    GCCGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGAC       <  1:3408319/68‑1                                                                    GCCGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGAC       >  1:5256266/1‑68                                                                    GCCGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGAC       <  1:23708980/68‑1                                                                    GCCGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGAC       <  1:4998153/68‑1                                                                    GCCGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGA        >  1:3418066/1‑67                                                                    GCCGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGA        >  1:21953173/1‑67                                                                    GCCGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGA        >  1:21618892/1‑67                                                                    GCCGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGA        >  1:20073823/1‑67                                                                    GCCGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGA        >  1:12846137/1‑67                                                                    GCCGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGA        >  1:19604399/1‑67                                                                    GCCGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGA        >  1:28272323/1‑67                                                                    GCCGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGA        >  1:17658509/1‑67                                                                    GCCGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGA        >  1:27731379/1‑67                                                                    GCCGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAAGGTTAATGA        >  1:4248511/1‑67                                                                    GCCGCGTGTCCCATGCTCATGCCATGTTGCACCACGCCGACCAGCAACCCGCCGACAATGTTAATGAC       <  1:7133615/68‑1                                                                     CCGCGGGGCCCATGCTCAAGGCATGTTGCAGCACGCCGACCCGCAACCCGCCGACAATGTTAATGACC      <  1:24017363/68‑1                                                                      CGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCA     <  1:9889857/68‑1                                                                      CGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCA     <  1:24740819/68‑1                                                                      CGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACC      <  1:28822306/67‑1                                                                      CGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACC      <  1:6471868/67‑1                                                                      CGCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACC      <  1:8178265/67‑1                                                                       GCGTGTCCCATGCTCATTCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCAT    <  1:183361/68‑1                                                                       GCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCAT    <  1:1626263/68‑1                                                                       GCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCAT    <  1:17402950/68‑1                                                                       GCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCAT    <  1:22124195/68‑1                                                                       GCGTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCAT    <  1:28000083/68‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATGA  <  1:216470/68‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATGA  <  1:16942617/68‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATGA  <  1:6826176/68‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATGA  <  1:6557045/68‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATGA  <  1:18215720/68‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATGA  <  1:19917620/68‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATGA  <  1:21087234/68‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATGA  <  1:21569422/68‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATGA  <  1:8580750/68‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATGA  <  1:23240808/68‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATGA  <  1:23439516/68‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATGA  <  1:24197557/68‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATGA  <  1:26080352/68‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATGA  <  1:2634046/68‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATGA  <  1:26465738/68‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATGA  <  1:10123015/68‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATG   <  1:20185951/67‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATG   <  1:13782109/67‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATG   <  1:13292708/67‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATG   <  1:19388364/67‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATG   <  1:21766175/67‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATG   <  1:22621370/67‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATG   <  1:23523040/67‑1                                                                         GTGTCCCATGCTCATGCCATGTTGCAGCACGCCGAACAGCAACCCGCCGACAATGTTAATGACCATGA  <  1:28216157/68‑1                                                                         GTGTCACATGCTCATGCCATGTTGCAGCACGCAGACCAGCAACCCGCCGACAATGTTAATGACCATGA  <  1:12283590/68‑1                                                                                                                                              AAGTTATACGCTATTGACCATTGGCGACGGTCTGGTGGCACAAATTCCGGCGCTGGTGATTTCTACCGCCGCG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP009273/1958588‑1958516 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccgccgcgTGTCCCATGCTCATGCCATGTTGCAGCACGCCGACCAGCAACCCGCCGACAATGTTAATGACCATGA  >  CP009273/1958598‑1958664

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.