New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	4934781 =	228 (0.940)	13 (0.060)	7/252	NT	6.0%	coding (385/2244 nt)	cheA	chemotaxis histidine kinase CheA
	?	NC_002947	4934861 =	195 (0.880)					coding (305/2244 nt)	cheA	chemotaxis histidine kinase CheA

TCCTGCGCAAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCGAAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/4934939‑4934781 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cctggccgaacATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAGGACGTCGAACACGTTCTCGGCGATATGGCAGCACTCCACCAGCTCGTTCAGCTGAAGGAAGCCGGCGCCCC  >  NC_002947/4934861‑4935008                                                                                                                                                                                                                                                                                                                     TCCTGCGCAAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCC                                                                                                                                                               <  1:872747/150‑1 TCCTGCGCAAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGACCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCC                                                                                                                                                               <  1:5252993/150‑1  CCTGCGCAAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCT                                                                                                                                                              <  2:853229/150‑1   CTGCGCAAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTG                                                                                                                                                             <  1:1519878/150‑1   CTGCGCAAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTG                                                                                                                                                             <  1:691556/150‑1   CTGCGCAAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTG                                                                                                                                                             >  2:5143985/1‑150   CTGCGCAAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTG                                                                                                                                                             <  1:1519877/150‑1   CTGCGCAAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTG                                                                                                                                                             <  1:1859155/150‑1    TGCGCAAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGG                                                                                                                                                            >  1:1195181/1‑150     GCGCAAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGC                                                                                                                                                           <  1:5204688/150‑1     GCGCAAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGC                                                                                                                                                           <  2:1994878/150‑1      CGCAAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCC                                                                                                                                                          <  2:2241507/150‑1      CGCAAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCC                                                                                                                                                          <  1:3953033/150‑1       GCAAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCG                                                                                                                                                         >  1:321177/1‑150       GCAAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCG                                                                                                                                                         >  1:321274/1‑150       GCAAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCG                                                                                                                                                         >  1:322279/1‑150        CAAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCGA                                                                                                                                                        >  1:3078423/1‑150         AAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCGAA                                                                                                                                                       <  2:750044/150‑1         AAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCGAA                                                                                                                                                       <  2:749939/150‑1         AAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCGAA                                                                                                                                                       >  2:3865924/1‑150         AAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCGAA                                                                                                                                                       >  2:1821122/1‑150          AAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCGAAC                                                                                                                                                      <  2:2977646/150‑1          AAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCGAAC                                                                                                                                                      <  2:2977205/150‑1                                                    TCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATC                                                                                                            >  1:391812/1‑150                                                    TCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATC                                                                                                            >  1:3157394/1‑150                                                                                      CCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCA                                                                          >  1:1155227/1‑150                                                                                      CCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCA                                                                          >  1:2620803/1‑150                                                                                      CCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCA                                                                          >  1:2620950/1‑150                                                                                      CCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCAC                                                                                                                      <  1:1743101/106‑1                                                                                      CCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCAC                                                                                                                      >  2:1743101/1‑106                                                                                       CAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCGAACCTGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAG                                                                         >  2:2666159/1‑150                                                                                       CAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCGAACCTGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAG                                                                         >  1:4591346/1‑150                                                                                          GTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAGGAC                                                                      >  1:2393657/1‑150                                                                                          GTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAGGAC                                                                      >  1:2393730/1‑150                                                                                                         GAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCGAACCTGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAGGACGTCGAACACGTTCTC                                                       >  2:2518219/1‑150                                                                                                                                               GTCGCGCCTGGCCGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAGGACGTCGAACACGTTCTCGGCGATATGGCAGCACTCCACCAGCTCGTTCAGCTGAA                 <  2:391812/150‑1                                                                                                                                                     CCTGGCCGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAGGACGTCGAACACGTTCTCGGCGATATGGCAGCACTCCACCAGCTCGTTCAGCTGAAGGAAGC           <  1:626428/150‑1                                                                                                                                                     CCTGGCCGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAGGACGTCGAACACGTTCTCGGCGATATGGCAGCACTCCACCAGCTCGTTCAGCTGAAGGAAGC           <  1:3438149/150‑1                                                                                                                                                      CTGGCCGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAGGACGTCGAACACGTTCTCGGCGATATGGCAGCACTCCACCAGCTCGTTCAGCTGAAGGAAGCC          >  1:501142/1‑150                                                                                                                                                      CTGGCCGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAGGACGTCGAACACGTTCTCGGCGATATGGCAGCACTCCACCAGCTCGTTCAGCTGAAGGAAGCC          >  1:4888748/1‑150                                                                                                                                                      CTGGCCGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAGGACGTCGAACACGTTCTCGGCGATATGGCAGCACTCCACCAGCTCGTTCAGCTGAAGGAAGCC          >  1:3399488/1‑150                                                                                                                                                      CTGGCCGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAGGACGTCGAACACGTTCTCGGCGATATGGCAGCACTCCACCAGCTCGTTCAGCTGAAGGAAGCC          >  2:2576837/1‑150                                                                                                                                                       TGGCCGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAGGACGTCGAACACGTTCTCGGCGATATGGCAGCACTCCACCAGCTCGTTCAGCTGAAGGAAGCCG         <  2:2088103/150‑1                                                                                                                                                       TGGCCGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAGGACGTCGAACACGTTCTCGGCGATATGGCAGCACTCCACCAGCTCGTTCAGCTGAAGGAAGCCG         <  2:1245749/150‑1                                                                                                                                                        GGCCGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAGGACGTCGAACACGTTCTCGGCGATATGGCAGCACTCCACCAGCTCGTTCAGCTGAAGGAAGCCGG        <  2:5535407/150‑1                                                                                                                                                           CGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAGGACGTCGAACACGTTCTCGGCGATATGGCAGCACTCCACCAGCTCGTTCAGCTGAAGGAAGCCGGCGC     >  1:1429553/1‑150                                                                                                                                                           CGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAGGACGTCGAACACGTTCTCGGCGATATGGCAGCACTCCACCAGCTCGTTCAGCTGAAGGAAGCCGGCGC     >  2:5595784/1‑150                                                                                                                                                           CGAACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAGGACGTCGAACACGTTCTCGGCGATATGGCAGCACTCCACCAGCTCGTTCAGCTGAAGGAAGCCGGCGC     >  2:5595966/1‑150                                                                                                                                                             AACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAGGACGTCGAACACGTTCTCGGCGATATGGCAGCACTCCACCAGCTCGTTCAGCTGAAGGAAGCCGGCGCCC   >  1:3430726/1‑150                                                                                                                                                             AACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAGGACGTCGAACACGTTCTCGGCGATATGGCAGCACTCCACCAGCTCGTTCAGCTGAAGGAAGCCGGCGCCC   >  1:619269/1‑150                                                                                                                                                              ACATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAGGACGTCGAACACGTTCTCGGCGATATGGCAGCACTCCACCAGCTCGTTCAGCTGAAGGAAGCCGGCGCCCC  <  2:796445/150‑1                                                                                                                                                                                                                                                                                                                     TCCTGCGCAAAGGTGAGCGCCGGGTCGATGCGGAACTGATGGATGTGGTGCTCGAGGCACTGGATACGGTCAACAGCATGTTCGGCCAGGTGCGCGAGCGTGCCGAAGTGACACCGGCCACCCCGGCGCTGCTGGCAGCGCTGTCGCGCCTGGCCGAAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_002947/4934939‑4934781 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cctggccgaacATGCTGTTGACCGTATCCAGTGCCTCGAGCACCACATCCATCAGTTCCGCATCGACCCGGCGCTCACCTTTGCGCAGGACGTCGAACACGTTCTCGGCGATATGGCAGCACTCCACCAGCTCGTTCAGCTGAAGGAAGCCGGCGCCCC  >  NC_002947/4934861‑4935008

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 37 ≤ 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.