New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5164898	15 (0.650)	4 (0.180)	4/234	NT	16.7%	coding (3030/3906 nt)	hrpA	ATP‑dependent helicase HrpA
	?	NC_002947	= 5164971	26 (1.200)					coding (2957/3906 nt)	hrpA	ATP‑dependent helicase HrpA

TCACGCACAGTGCCGTTGTCTTCCACCAGTGCCGGGTACACGGTCATCGACAGGCCGGCGATCTTCTGCTGGGCGGTCTGTTTCACTTCGCTGAAGGCCTTGGCCTGCACCGGCTGCTCACCCTTGGCGTCACGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCAGCAAAGCGCGCGGTCAGTTCCGCCAGGTCGCGGCCTTCGCCAAGGAACTTGCCCTGGCCATCGACCACTTCGATGTTCATGCGCAGGTGGCCCTCGACCTGGTTGACCGA  >  NC_002947/5164770‑5165044                                                                                                                                 |                                                                                                                                                   tCACGCACAGTGCCGTTGTCTTCCACCAGTGCCGGGTACACGGTCATCGACAGGCCGGCGATCTTCTGCTGGGCGGTCTGTTTCACTTCGCTGAAGGCCTTGGCCTGCACCGGCTGCTCACCCTTGGCGaaggccgcgacctggcggaac                                                                                                                               >  1:18466‑M1/1‑129 (MQ=255)                     ttCCACCAGTGCCGGGTACACGGTCATCGACAGGCCGGCGATCTTCTGCTGGGCGGTCTGTTTCACTTCGCTGAAGGCCTTGGCCTGCACCGGCTGCTCACCCTTGGCGTCACGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCAGCaaa                                                                                                           >  1:7042/1‑150 (MQ=255)                                            tCATCGACAGGCCGGCGATCTTCTGCTGGGCGGTCTGTTTCACTTCGCTGAAGGCCTTGGCCTGCACCGGCTGCTCACCCTTGGCGTCACGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCAGCAAAGCGCGCGGTCAGTTCCGCCAGGt                                                                                    >  2:158690/1‑150 (MQ=255)                                                         ggCGATCTTCTGCTGGGCGGTCTGTTTCACTTCGCTGAAGGCCTTGGCCTGCACCGGCTGCTCACCCTTGGCGTCACGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCAGCAAAGCGCGCGGTCAGTTCCGCCAGGTCGCGGCCTTcgcc                                                                       <  2:466338‑M2/150‑5 (MQ=255)                                                         ggCGATCTTCTGCTGGGCGGTCTGTTTCACTTCGCTGAAGGCCTTGGCCTGCACCGGCTGCTCACCCTTGGCGTCACGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCAGCAAAGCGCGCGGTCAGTTCCGCCAGGTCGCGGCCTTcgcc                                                                       <  2:285372‑M2/150‑5 (MQ=255)                                                             aTCTTCTGCTGGGCGGTCTGTTTCACTTCGCTGAAGGCCTTGGCCTGCACCGGCTGCTCACCCTTGGCGaaggccgcgacctggcggaactgaccgcgcgctttgctgccgccagccaggctgccctggccgtgccgcgtgacgccaagg                                                                   <  2:18466‑M1/150‑82 (MQ=255)                                                                 tctGCTGGGCGGTCTGTTTCACTTCGCTGAAGGCCTTGGCCTGCACCGGCTGCTCACCCTTGGCGTCGCGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCAGCAAAGCGCGCGGTCAGTTCCGCCAGGTCGCGGCCTTCGCCAAGGAACt                                                               >  1:377085/1‑150 (MQ=255)                                                                          cGGTTTGTTTCACTTCGCTGAAGGTCTTTGCCTGCACCGGCTGCTCACTCTTGGCGTCCCGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCGGCAAAGCGCGCGGTCAGTTCCGCCAGGTCGCGGCCTTCGCCAAGGAACTTGCCCTGGc                                                      <  1:517394/150‑1 (MQ=255)                                                                                 tttCACTTCGCTGAAGGCCTTGGCCTGCACCGGCTGCTCACCCTTGGCGTCACGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCAGCAAAGCGCGCGGTCAGTTCCGCCAGGTCGCGGCCTTCGCCAAGGAACTTGCCCTGGCCATCGAc                                               >  1:557057/1‑150 (MQ=255)                                                                                   tCACTTCGCTGAAGGCCTTGGCCTGCACCGGCTGCTCACCCTTGGCGaaggccgcgacctggcggaactgaccgcgcgctttgctgccgccagccaggctgccctggccgtgccgcgtgacgccaaggg                                                                  >  2:566482‑M1/1‑47 (MQ=255)                                                                                   tCACTTCGCTGAAGGCCTTGGCCTGCACCGGCTGCTCACCCTTGGCGaaggccgcgacctggcggaactgaccgcgcgctttgctgccgccagccaggctgccctggccgtgccgcgtgacgccaaggg                                                                  <  1:566482‑M1/129‑83 (MQ=255)                                                                                       ttCGCTGAAGGCCTTGGCCTGCACCGGCTGCTCACCCTTGGCGTCACGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCAGCAAAGCGCGCGGTCAGTTCCGCCAGGTCGCGGCCTTCGCCAAGGAACTTGccc                                                          >  1:33089/1‑133 (MQ=255)                                                                                       ttCGCTGAAGGCCTTGGCCTGCACCGGCTGCTCACCCTTGGCGTCACGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCAGCAAAGCGCGCGGTCAGTTCCGCCAGGTCGCGGCCTTCGCCAAGGAACTTGccc                                                          <  2:33089/133‑1 (MQ=255)                                                                                                    ttGGCCTGCACCGGCTGCTCACCCTTGGCGTCACGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCAGCAAAGGGCGCGGTCGGTTCCGCCAGGTCGCGGCCTTCGCCAAGGAACTTGCCCTGGCCATCGACCACTTCGATGTTCATgcgc                            >  1:230675/1‑150 (MQ=255)                                                                                                     tGGCCTGCACCGGCTGCTCACCCTTGGCGTCACGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCAGCAAAGCGCGCGGTCAGTTCCGCCAGGTCGCGGCCTTCGCCAAGGAACTTGCCCTGGCCATCGACCACTTCGATGTTCATGCGCa                           <  1:158690/150‑1 (MQ=255)                                                                                                       gCCTGCACCGGCTGCTCACCCTTGGCGTCACGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCAGCAAAGCGCGCGGTCAGTTCCGCCAGGTCGCGGCCTTCGCCAAGGAACTTGCCCTGGCCATCGACCACTTCGATGTTCATGCGCAgg                         >  2:75631/1‑150 (MQ=255)                                                                                                         cTGCACCGGCTGCTCACCCTTGGCGTCACGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCAGCAAAGCGCGCGGTCAGTTCCGCCAGGTCGCGGCCTTCGCCAAGGAACTTGCCCTGGCCATCGACCACTTCGATGTTCATGCGCAGGTg                       >  2:233076/1‑150 (MQ=255)                                                                                                                     ctCACCCTTGGGGTCACGCGGCAGGGCCGGGGCAGCCTGGCTGGCGGCAGCAAAGCGCGCGGTCAGTTCCGCCAGGTCGCGGCCTTCGCCAAGGAACTTGCCCTGGCCATCGACCACTTCGATGTTCATGCGCAGGTGGCCCTCGACCTg           <  2:310255/150‑1 (MQ=255)                                                                                                                      tCACCCTTGGCGTCACGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCAGCAAAGCGCGCGGTCAGTTCCGCCAGGTCGCGGCCTTCGCCAAGGAACTTGCCCTGGCCATCGACCACTTCGATGTTCATGCGCAGGTGGCCCTCGACCTgg          <  1:613842/150‑1 (MQ=255)                                                                                                                      tCACCCTTGGCGTCACGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCAGCAAAGCGCGCGGTCAGTTCCGCCAGGTCGCGGCCTTCGCCAAGGAACTTGCCCTGGCCATCGACCACTTCGATGTTCATGCGCAGGTGGCCCTCGACCTgg          >  1:383610/1‑150 (MQ=255)                                                                                                                         cccTTGGCGTCACGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCAGCAAAGCGCGCGGTCAGTTCCGCCAGGTCGCGGCCTTcgccaagggtgagcagccggtgcaggccaaggccttcagcgaagtga                            <  1:566482‑M2/129‑48 (MQ=255)                                                                                                                         cccTTGGCGTCACGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCAGCAAAGCGCGCGGTCAGTTCCGCCAGGTCGCGGCCTTcgccaagggtgagcagccggtgcaggccaaggccttcagcgaagtga                            >  2:566482‑M2/1‑82 (MQ=255)                                                                                                                          ccTTGGCGTCACGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCAGCAAAGCGCGCGGTCAGTTCCGCCAGGTCGCGGCCTTcgccaagggtgagcagccggtgcaggccaaggccttcagcgaagtgaaacagaccgcccagcagaagat      <  2:18466‑M2/150‑70 (MQ=255)                                                                                                                          ccTTGGCGTCACGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCAGCAAAGCGCGCGGTCAGTTCCGCCAGGTCGCGGCCTTCGCCAAGGAACTTGCCCTGGCCATCGACCACTTCGATGTTCATGCGCAGGTGGCCCTCGACCTGGTTGa      >  1:126623/1‑150 (MQ=255)                                                                                                                              ggCGaaggccgcgacctggcggaactgaccgcgcgctttgctgccgccagccaggctgccctggccgtgccgcgtgacgccaagggtgagcagccggtgcaggccaaggccttcagcgaagtgaaacagaccgcccagcagaagatcgcc  <  2:285372‑M1/150‑147 (MQ=255)                                                                                                                              ggCGaaggccgcgacctggcggaactgaccgcgcgctttgctgccgccagccaggctgccctggccgtgccgcgtgacgccaagggtgagcagccggtgcaggccaaggccttcagcgaagtgaaacagaccgcccagcagaagatcgcc  <  2:466338‑M1/150‑147 (MQ=255)                                                                                                                              ggCGTCACGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCAGCAAAGCGCGCGGTCAGTTCCGCCAGGTCGCGGCCTTCGCCAAGGAACTTTCCCTGGCCATCGACCACTTCGATGTTCATGCGCAGGTGGCCCTCGACCTGGTTGACCGa  <  1:75631/150‑1 (MQ=255)                                                                                                                                 |                                                                                                                                                   TCACGCACAGTGCCGTTGTCTTCCACCAGTGCCGGGTACACGGTCATCGACAGGCCGGCGATCTTCTGCTGGGCGGTCTGTTTCACTTCGCTGAAGGCCTTGGCCTGCACCGGCTGCTCACCCTTGGCGTCACGCGGCACGGCCAGGGCAGCCTGGCTGGCGGCAGCAAAGCGCGCGGTCAGTTCCGCCAGGTCGCGGCCTTCGCCAAGGAACTTGCCCTGGCCATCGACCACTTCGATGTTCATGCGCAGGTGGCCCTCGACCTGGTTGACCGA  >  NC_002947/5164770‑5165044

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.