New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	4969573 =	26 (1.510)	4 (0.260)	4/252	1.5	14.1%	coding (715/2064 nt)	fliC	flagellin
	?	NC_002947	= 4969569	25 (1.610)					coding (719/2064 nt)	fliC	flagellin
Rejected: Frequency below/above cutoff threshold.

TGGTGAATGCCTGGGTGCCGTCGAGCTTCAGTGCACCAGTGGCGCTGTCAATGCTAGCGGTAACACCGGTATTGCTAGTTTCCAGGTTGATATTGTCAACCACATCCTGCAGGGTGTCGCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATACGCCCGCGCCTGCAGTACCCACAACCGAAGCAGAAGTGCTGCCAGCATTGTTGGTGCCGAACTTACCGGCTGCACCGGTG  >  NC_002947/4969435‑4969721                                                                                                                                           |                                                                                                                                                        cgatggtgaatgcctgggtgccgtcgagcttcagtgcaccagtggcgctgtcaatgctagcggtaacaccggtattgctagtttccaggttgatattgtcaaccacatcctgcagggtgtcgcctgccgcagcagcgatggtggtggtgg                                                                                                                                              >  1:332633‑M1/139‑150 (MQ=255)           cTGGGTGCCGTCGAGCTTCAGTGCACCAGTGGCGCTGTCAATGCTAGCGGTAACACCGGTATTGCTAGTTTCCAGGTTGATATTGTCAACCACATCCTGCAGGGTGTCGCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGtt                                                                                                                                   <  2:305413/150‑1 (MQ=255)                           ttCAGTGCACCAGTGGCGCTGTCAATGCTAGCGGTAACACCGGTATTGCTAGTTTCCAGGTTGATATTGTCAACCACATCCTGCAGGGTGTCGCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCg                                                                                                                 >  2:8511/1‑150 (MQ=255)                                                ctgtcaatgctagcggtaacaccggtattgctagtttccaggttgatattgtcaaccacatcctgcagggtgtcgcctgccgcagcagcgaTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGc                                                                                            <  1:312662‑M1/59‑1 (MQ=255)                                                 cAATGCTAGCGGTAACACCGGTATTGCTAGTTTCCAGGTTGATATTGTCAACCACATCCTGCAGGGTGTCGCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGAAGCCCCGATAGTCgcat                                                                                           >  2:128932/1‑147 (MQ=255)                                                  aaTGCTAGCGGTAACACCGGTATTGCTAGTTTCCAGGTTGATATTGTCAACCACATCCTGCAGGGTGTCGCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCtt                                                                                          >  1:158022/1‑150 (MQ=255)                                                          cGGTAACACCGGTATTGCTAGTTTCCAGGTTGATATTGTCAACCACATCCTGCAGGGTGTCGCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATa                                                                                  <  1:352676/150‑1 (MQ=255)                                                                   cGGTATTGCTAGTTTCCAGGTTGATATTGTCAACCACATCCTGCAGGGTGTCGCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATACGCCCgcgc                                                                         >  2:375823/1‑150 (MQ=255)                                                                     ccggtattgctagtttccaggttgatattgtcaaccacatcctgcagggtgtcgcctgccgcagcagcgaTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATACGCCCGCGCCt                                                                       >  2:312662‑M1/71‑150 (MQ=255)                                                                      tATTGCTAGTTTCCAGGTTGATATTGTCAACCACATCCTGCAGGGTGTCGCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACGGATGGTCGGCTTATCAAATACGCCCGCGCCTg                                                                      >  2:354227/1‑150 (MQ=255)                                                                                   cAGGTTGATATTGTCAACCACATCCTGCAGGGTGTCGCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATACGCCCGCGCCTGCa                                                                    >  1:311010/1‑139 (MQ=255)                                                                                   cAGGTTGATATTGTCAACCACATCCTGCAGGGTGTCGCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATACGCCCGCGCCTGCa                                                                    <  2:311010/139‑1 (MQ=255)                                                                                      gTTGATATTGTCAACCACATCCTGCAGGGTGTCGCCTGCCGCAGCAGCGAtggtggtggtggtg                                                                                                                                               <  1:211846/64‑1 (MQ=255)                                                                                      gTTGATATTGTCAACCACATCCTGCAGGGTGTCGCCTGCCGCAGCAGCGAtggtggtggtggtg                                                                                                                                               >  2:211846/1‑64 (MQ=255)                                                                                        tGATATTGTCAACCACATCCTGCAGGGTGTCGCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATACGCCCGCGCCTGCAGTACCCACAACCGAAg                                                    <  2:158022/150‑1 (MQ=255)                                                                                          atatCGTCAACCACATCCTGCAGGGTATCGCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATACGCCCGCGCCTGCAGTACCCACAACCGAAGCa                                                  >  2:215620/1‑150 (MQ=255)                                                                                            gatattgtcaaccacatcctgcagggtgtcggctgccgcagcagcgaTGGTGGTGGTTGTTTTCCTTGATCGTATCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATACGCCCGCGCCTGCAGTACCCACAACCGAAGc                                                   >  1:316719‑M1/48‑150 (MQ=255)                                                                                                      acaTCCTGCAGGGTGTCGCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCCAACAAGGCCGCGCCTGCAGTACCCACCACCGAAGCAGAAGTGCTGCCa                                      >  1:89746/1‑150 (MQ=255)                                                                                                           atcctgcagggtgtcgcctgccgcagcagcgaTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATACGCCCGCGCCTGCAGTACCCACAACCGAAGCAGAAGTGCTGCCAGCAtt                                 <  2:338595‑M1/118‑1 (MQ=255)                                                                                                            tGCAGGGTGTCGCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCCCCGGCGGTGGTCGGAACATAAAATAGGCACCCAGGCCTAGGAGCCATGACCGAAGCAGAAGTGCTGCCAGCAtcg                                >  1:398728/1‑148 (MQ=255)                                                                                                            tGCAGGGTGTCGCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATACGCCCGCGCCTGCAGTACCCACAACAGAAGCAGAAGTGCTGCCAGCAttg                                >  1:362861/1‑150 (MQ=255)                                                                                                                   tgtCGCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATACGCCCGCGCCTGCa                                                                    >  1:348435/1‑107 (MQ=255)                                                                                                                   tgtCGCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATACGCCCGCGCCTGCa                                                                    <  2:348435/107‑1 (MQ=255)                                                                                                                   tgtCGCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATACGCCCGCGCCTGCAGTACCCACAACAGAAGCAGAAGTGCTGCCAGCATTGTTGGTGc                         <  2:362861/150‑1 (MQ=255)                                                                                                                     tCGCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATACGCCCGCGCCTGCAGTACCCACAACCGAAGCAGaa                                               <  2:164141/126‑1 (MQ=255)                                                                                                                     tCGCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATACGCCCGCGCCTGCAGTACCCACAACCGAAGCAGaa                                               >  1:164141/1‑126 (MQ=255)                                                                                                                       gCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATACGCCCGCGCCTGCAGTACCCACAACCGAAGCAGAAGTGCTGCCAGCATTGTTGGTGCCGaa                     >  2:345606/1‑150 (MQ=255)                                                                                                                         cTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATACGCCCGCGCCTGCAGTACCCACAACCGAAGCAGAAGTGCTGCCAGCATTGTTGGTGCCTAACt                   <  1:8511/150‑1 (MQ=255)                                                                                                                            ccGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATACGCCCGCGCCTGCAGTACCCACAACCGAAGCAGAAGtgctgc                                        <  2:272692/126‑1 (MQ=255)                                                                                                                            ccGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATACGCCCGCGCCTGCAGTACCCACAACCGAAGCAGAAGtgctgc                                        >  1:272692/1‑126 (MQ=255)                                                                                                                                          gtggtggtggtggtAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATACGCCCGCGCCTGCAGTACCCACAACCGAAGCAGAAGTGCTGCCAGCATTGTTGGTGCCGAACTTACCGGCTGCACCGGTg  >  2:405136/1‑150 (MQ=255)                                                                                                                                           |                                                                                                                                                        TGGTGAATGCCTGGGTGCCGTCGAGCTTCAGTGCACCAGTGGCGCTGTCAATGCTAGCGGTAACACCGGTATTGCTAGTTTCCAGGTTGATATTGTCAACCACATCCTGCAGGGTGTCGCCTGCCGCAGCAGCGATGGTGGTGGTGGTGGTAC‑CAACGTTC‑‑AGCACCAAGTTACCGGCAGCAGCACCGATGGTCGGCTTATCAAATACGCCCGCGCCTGCAGTACCCACAACCGAAGCAGAAGTGCTGCCAGCATTGTTGGTGCCGAACTTACCGGCTGCACCGGTG  >  NC_002947/4969435‑4969721

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ 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.