New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AM260480	300922 =	18 (0.650)	4 (0.160)	4/194	2.0	20.9%	coding (481/744 nt)	flgF	flagellar basal body rod protein
	?	AM260480	301006 =	14 (0.560)					coding (565/744 nt)	flgF	flagellar basal body rod protein

ACCGCGCGCGGCCCCGGCGAAGCCTCTGCCGGCCTGGCGCAGGTGGGCCGGCTGCGCGTGGTCAACCCGCCCAACGACGCCATCGCGCGCGGCGATGACGGCCTGTTCCGCCTGCGTCCCGGCGCGCAGCCGCTGGAGGCCGATCCCACCGTGCGCGTGATCTCGGGCGCGCTGGAAGGCAGCAACGTCAACCCGACCGAAGCCATGGTCGAGATGATCGCCAATGCCCGCCGCTTCGAGATGCAGAT  >  AM260480/300874‑301121                                                                                                                                     |                                                                                                                    aCCGCGCGCGGCCCCGGCGAAGCCTCTGCCGGCCTGGCGCAGGTGGGCCGGCTGCGCGTGGTCAACCCGCCCAACGACGCCATCGCGCGCGGCGATGACGGCCTGTTCCGCCTGCGTCCCGGCGCGCAGCCGCt                                                                                                                    <  2:927624/134‑1 (MQ=255)   cttccagcgcgcccgagatcacgcgcacggtgggatcggcctccagcggctgcgcgccgggacgcaggcggaacaggccgtcatcgccgcgcgcgatggcgtcgttgggcgggttgaccacgcgcagccgCTgg                                                                                                                  <  2:514125‑M2/4‑1 (MQ=255)   cttccagcgcgcccgagatcacgcgcacggtgggatcggcctccagCGGCTGCGCGTGGTCAACCCGCCCAACGACGCCATCGCGCGCGGCGATGACGGCCTGTTCCGCCTGCGTCCCGGCGCGCAGCCGCTg                                                                                                                   <  2:781651‑M1/87‑1 (MQ=255)                          ctGCCGGCCTGGCGCAGGTGGGCCGGCTGCGCGTGGTCAACCCGCCCAACGACGCCATCGCGCGCGGCGATGACGGCCTGTTCCGCCTGCGTCCCGGCGCGCAGCCGCTGGAGGCCGATCCCACCGTGCGCGt                                                                                            >  2:122866/1‑133 (MQ=255)                              cGGCCTGGCGCAGGTGGGCCGGCTGCGCGTGGTCAACCCGCCCAACGACGCCATCGCGCGCGGCGATGACGGCCTGTTCCGCCTGCGTCCCGGCGCGCAGCCGCTGGAGGCCGATCCCACCGTGCGCGTGAtct                                                                                       <  1:1023614/134‑1 (MQ=255)                                             ccagCGGCTGCGCGTGGTCAACCCGCCCAACGACGCCATCGCGCGCGGCGATGACGGCCTGTTCCGCCTGCGTCCCGGCGCGCAGCCGCTGGAGGCCGATCCCACCGTGCGCGTGATCTCGGGCGCGCTGGAAg                                                                        <  2:514125‑M1/130‑1 (MQ=255)                                              cagcggctgcgcgccgggacgcaggcggaacaggccgtcatcgccgcgcgcgatggcgtcgttgggcgggttgaccacgcgcagccgCTGGAGGCCGATCCCACCGTGCGCGTGATCTCGGGCGCGCTGGAAg                                                                        <  2:781651‑M2/46‑1 (MQ=255)                                                   GCTGCGCGTGGTCAACCCGCCCAACGACGCCATCGCGCGCGGCGATGACGGCCTGTTCCGCCTGCGTCCCGGCGCGCAGCCGCTGGAGGCCGATCCCACCGTGCGCGTGATCTCGGGCGCGCTg                                                                            <  2:43483‑M1/124‑1 (MQ=255)                                                   GCTGCGCGTGGTCAACCCGCCCAACGACGCCATCGCGCGCGGCGATGACGGCCTGTTCCGCCTGCGTCCCGGCGCGCAGCCGCTGGAGGCCGATCCCACCGTGCGCGTGATCTCGGGCGCGCTg                                                                            >  1:43483‑M1/1‑124 (MQ=255)                                                              tCAACCCGCCCAACGACGCCATCGCGCGCGGCGATGACGGCCTGTTCCGCCTGCGTCCCGGCGCGCAGCCGCTGGAGGCCGATCCCACCGTGCGCGTGATCTCGGGCGCGCTGGAAGGCAGCAACGTCAACccg                                                       <  1:279994/134‑1 (MQ=255)                                                                 aCCCGCCCAACGACGCCATCGCGCGCGGCGATGACGGCCTGTTCCGCCTGCGTCCCGGCGCGCAGCCGCTGGAGGCCGATCCCACCGTGCGCGTGATCTCGGGCGCGCTGGAAGGCAGCAACGTCAACccgacc                                                    >  1:607257/1‑134 (MQ=255)                                                                    aggcggaacaggccgtcatcgccgcgcgcgatggcgtcgttgggcgggttgaccacgcgcagccgCTGGAGGCCGATCCCACCGTGCGCGTGATCTCGGGCGCGCTGGAAGGCAGCAACGTCAACCCGACCGaa                                                 <  2:826574‑M2/69‑1 (MQ=255)                                                                          acgacgCCATCGCGCGCGGCGATGACGGCCTGTTCCGCCTGCGTCCCGGCGCGCAGCCGCTGGAGGCCGATCCCACCGTGCGCGTGAtct                                                                                       <  2:485592/90‑1 (MQ=255)                                                                          acgacgCCATCGCGCGCGGCGATGACGGCCTGTTCCGCCTGCGTCCCGGCGCGCAGCCGCTGGAGGCCGATCCCACCGTGCGCGTGAtct                                                                                       >  1:485592/1‑90 (MQ=255)                                                                           cgacgCCATCGCGCGCGGCGATGACGGCCTGTTCCGCCTGCGTCCCGGCGCGCAGCCGCTGGAGGCCGATCCCACCGTGCGCGTGATCTCGGGCGCGCTGGAAGGCAGCAACGTCAACCCGACCGaa                                                 <  2:205361/127‑1 (MQ=255)                                                                           cgacgCCATCGCGCGCGGCGATGACGGCCTGTTCCGCCTGCGTCCCGGCGCGCAGCCGCTGGAGGCCGATCCCACCGTGCGCGTGATCTCGGGCGCGCTGGAAGGCAGCAACGTCAACCCGACCGaa                                                 >  1:205361/1‑127 (MQ=255)                                                                              ggccgtcatcgccgcgcgcgatggcgtcgttgggcgggttgaccacgcgcagccgCTGGAGGCCGATCCCACCGTGCGCGTGATCTCGGGCGCGCTGGAAGGCAGCAACGTCAACCCGACCGAAGCCATGGTc                                        >  2:497223‑M2/56‑133 (MQ=255)                                                                                                          ttCCGCCTGCGTCCCGGCGCGCAGCCGCTGGAGGCCGATCCCACCGTGCACGTGATCTCGGGCGCGCTGGAAGGCAGCAACGTCAACCCGACCGAAGCCATGGTCGAGATGATCGCCAATGCCCGCCGCTTCga           <  1:781651/134‑1 (MQ=255)                                                                                                              gCCTGCGTCCCGGCGCGCAGCCGCTGGAGGCCGATCCCACCGTGCGCGTGATCTCGGGCGCGCTGGAAGGCAGCAACGTCAAccc                                                        <  1:613193/85‑1 (MQ=255)                                                                                                              gCCTGCGTCCCGGCGCGCAGCCGCTGGAGGCCGATCCCACCGTGCGCGTGATCTCGGGCGCGCTGGAAGGCAGCAACGTCAAccc                                                        >  2:613193/1‑85 (MQ=255)                                                                                                              gCCTGCGTCCCGGCGCGCAGCCGCTGGAGGCCGATCCCACCGTGCGCGTGATCTCGGGCGCGCTGGAAGGCAGCAACGTCAACCCGACCGAAGCCATGGTCGAGATGATCGCCAATGCCCGCCGCTTCGAGATg       <  2:607257/134‑1 (MQ=255)                                                                                                                   cGTCCCGGCGCGCAGCCGCTGGAGGCCGATCCCACCGTGCGCGTGATCTCGGGCGCGCTGGAAGGCAGCAACGTCAACCCGACCGAAGCCATGGTCGAGATGATCGCCAATGCCCGCCGCTTCGAGATGCagat  >  1:3966/1‑134 (MQ=255)                                                                                                                                     |                                                                                                                    ACCGCGCGCGGCCCCGGCGAAGCCTCTGCCGGCCTGGCGCAGGTGGGCCGGCTGCGCGTGGTCAACCCGCCCAACGACGCCATCGCGCGCGGCGATGACGGCCTGTTCCGCCTGCGTCCCGGCGCGCAGCCGCTGGAGGCCGATCCCACCGTGCGCGTGATCTCGGGCGCGCTGGAAGGCAGCAACGTCAACCCGACCGAAGCCATGGTCGAGATGATCGCCAATGCCCGCCGCTTCGAGATGCAGAT  >  AM260480/300874‑301121

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ 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.