New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	= 4933879	63 (0.730)	14 (0.180)	13/324	NT	19.5%	coding (570/1308 nt)	flhF	Flagellar biosynthesis protein FlhF
	?	AE015451	= 4933863	58 (0.740)					coding (586/1308 nt)	flhF	Flagellar biosynthesis protein FlhF

GATGCGGCCCAGGGTCTTGAGCTGTTCCTGAGCGCCGATACGGAAGCTGTCCATGCTCACCAGCGCCAGGTTCTGCGCGCCGTACTTGAGCACGTAGCGCGCGGCCAGCTTGGCCAGGGTGGTGGTCTTGCCCATGCCCGCCGGGCCGACCATGGCGATCACCCCACCCTCTTCGATCGGCTCGATTTCAGGCACTTCGATCATCCGTGCCAAGTGAGCCAGCAGCATGCGCCAGGCCTGGCGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  AE015451/4933636‑4933879 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcgccaggcctggcgcATGCTGCTGGCTCACTTGGCACGGATGATCGAAGTGCCTGAAATCGAGCCGATCGAAGAGGGTGGGGTGATCGCCATGGTCGGCCCGGCGGGCATGGGCAAGACCACCACCCTGGCCAAGCTGGCCGCGCGCTACGTGCTCAAGTACGGCGCGCAGAACCTGGCGCTGGTGAGCATGGACAGCTTCCGTATCGGCGCTCAGGAACAGCTCAAGACCC  <  AE015451/4933863‑4933647                                                                                                                                                                                                                                                                                                                                                                                                                                                                               GATGCGGCCCAGGGTCTTGAGCTGTTCCTGAGCGCCGATACGGAAGCTGTCCATGCTCACCAGCGCCAGGTTCTGCGCGCCGTACTTGAGCACGTAGCGCGCGACCAGCTTGGCCAGGGTGGTGGTCTTGCCCATGCCCGCCGGGCCGACCATGGCGATCACCCCACCCTCTTCGATCGGCTCGATTTCAGGCACTTCGATCATCCGTGCCAAGTGAGCCAGCAGCATGCGCCA                                                                                                                                                                                                                                     <  2:801272/234‑1        CCCAGGGTCTTGAGCTGTTCCTGAGCGCCGATACGGAAGCTGTCCATGCTCACCAGCGCCAGGTTCTGCGCGCCGTACTTGAGCACGTAGCGCGCGGCCAGCTTGGCCAGGGTGGTGGTCTTGCCCATGCCCGCCGGGCCGACCATGGCGATCACCCCACCCTCTTCGATCGGCTCGATTTCAGGCACTTCGATCATCCGTGCCAAGTGAGCCAGCAGCATGCGCCAGGCCTGGC                                                                                                                                                                                                                             >  1:1440769/1‑235        CCCAGGGTCTTGAGCTGTTCCTGAGCGCCGATACGGAAGCTGTCCATGCTCACCAGCGCCAGGTTCTGCGCGCCGTACTTGAGCACGTAGCGCGCGGCCAGCTTGGCCAGGGTGGTGGTCTTGCCCATGCCCGCCGGGCCGACCATGGCGATCACCCCACCCTCTTCGATCGGCTCGATTTCAGGCACTTCGATCATCCGTGCCAAGTGAGCCAGCAGCATGCGCCAGGCCTGG                                                                                                                                                                                                                              >  2:1310845/1‑234                                                    CATGCTCACCAGCGCCAGGTTCTGCGCGCCGTACTTGAGCACGTAGCGCGCGGCCAGCTTGGCCAGGGTGGTGGTCTTGCCCATGCCCGCCGGGCCGACCATGGCGATCACCCCACCCTCTTCGATCGGCTCGATTTCAGGCACTTCGATCATCCGTGCCAAGTGAGCCAGCAGCATGCGCCAGGCCTGGCGCATGCTGCTGGCTCACTTG                                                                                                                                                                                                         <  2:1420765/211‑1                                                                   CAGGTTCTGCGCGCCGTACTTGAGCACGTAGCGCGCGGCCAGCTTGGCCAGGGTGGTGGTCTTGCCCATGCCCGCCGGGCCGACCATGGCGATCACCCCACCCTCTTCGATCGGCTCGATTTCAGGCACTTCGATCATCCGTGCCAAGTGAGCCAGCAGCATGCGCCAGGCCTGGCGCATGCTGCTGGCTCACT                                                                                                                                                                                                           <  2:1263093/194‑1                                                                        TCTGCGCGCCGTACTTGAGCACGTAGCGCGCGGCCAGCTTGGCCAGGGTGGTGGTCTTGCCCATGCCCGCCGGGCCGACCATGGCGATCACCCCACCCTCTTCGATCGGCTCGATTTCAGGCACTTCGATCATCCGTGCCAAGTGAGCCAGCAGCATGCGCCAGGCCTGGCGCATGCTGCTGGCTCACT                                                                                                                                                                                                           >  2:876034/1‑189                                                                            CGCGCCGTACTTGAGCACGTAGCGCGCGGCCAGCTTGGCCAGGGTGGTGGTCTTGCCCATGCCCGCCGGGCCGACCATGGCGATCACCCCACCCTCTTCGATCGGCTCGATTTCAGGCACTTCGATCATCCGTGCCAAGTGAGCCAGCAGCATGCGCCA                                                                                                                                                                                                                                     <  1:174121/159‑1                                                                                  GTACTTGAGCACGTAGCGCGCGGCCAGCTTGGCCAGGGTGGTGGTCTTGCCCATGCCCGCCGGGCCGACCATGGCGATCACCCCACCCTCTTCGATCGGCTCGATTTCAGGCACTTCGATCATCCGTGCCAAGTGAGCCAGCAGCATGCGCCAGGCC                                                                                                                                                                                                                                 <  1:404626/157‑1                                                                                                AGCGCGCGGCCAGCTTGGCCAGGGTGGTGGTCTTGCCCATGCCCGCCGGGCCGACCATGGCGATCACCCCACCCTCTTCGATCGGCTCGATTTCAGGCCCTTCGATCATCCGTGCCAAGTGAGCCAGCAGCATGCGCCCGGC                                                                                                                                                                                                                                  >  2:323515/1‑142                                                                                                AGCGCGCGGCCAGCTTGGCCAGGGTGGTGGTCTTGCCCATGCCCGCCGGGCCGACCATGGCGATCACCCCACCCTCTTCGATCGGCTCGATTTCAGGCACTTCGATCATCCGTGCCAAGTGAGCCAGCAGCATGC                                                                                                                                                                                                                                         >  1:417688/1‑135                                                                                                  CGCGCGGCCAGCTTGGCCAGGGTGGTGGTCTTGCCCATGCCCGCCGGGCCGACCATGGCGATCACCCCACCCTCTTCGATCGGCTCGATTTCAGGCACTTCGATCATCCGTGCCAAGTGAGCCAGCAGCATG                                                                                                                                                                                                                                          <  2:666761/132‑1                                                                                                                                                      CCATGGCGATCACCCCACCCTCTTCGATCGGCTCGATTTCAGGCACTTCGATCATCCGTGCCAAGTGAGCCAGCAGCATGCGCCAGGCCTGGCGCATGCTGCTGGCTCACTTGGCACGGATGATCGAAGTG                                                                                                                                                                                       <  1:853086/131‑1                                                                                                                                                       CATGGCGATCACCCCACCCTCTTCGATCGGCTCGATTTCAGGCACTTCGATCATCCGTGCCAAGTGAGCCAGCAGCATGCGCCAGGCCTGGCGCATGCTGCTGGCTCACTTGGCACGGATGATCGAAGTGCCTGAAAT                                                                                                                                                                               <  2:972203/138‑1                                                                                                                                                                  CCCCACCCTCTTCGATCGGCTCGATTTCAGGCACTTCGGTCATCCGTGCCAAGTGCGCCGGCAGCATACGCCACGCCGGGCGCGTGCTGCTGGCcc                                                                                                                                                                                                              >  2:1031706/1‑94                                                                                                                                                                                     CTCGATTTCAGGGACTTCGATCATCCGTGCGAAGTGAGCCAGCAGCATGCGCCAGGCCTGGCGCATGCTGCTGGCTCACTTGGCACGGATGATCGAAGTGCCTGAAATCGAGCCGATC                                                                                                                                                                     <  2:1341333/118‑1                                                                                                                                                                                        GATTTCAGGCACTTCGATCATCCGTGCCAAGTGAGCCAGCAGCATGCGCCAGGCCTGGCGCATGCTGCTGGCTCACTTGGCACGGATGATCGAAGTGCCTGAAATCGAGCCGCTCGAAGAGGGTGGGGTGGTCGCCATGGTCGGC                                                                                                                                       >  1:1263727/1‑145                                                                                                                                                                                                      cgcTCATCGGTGCCAAGGGAGCCAGCAGCAGGCGCCAGGCCTGGCGCATGCTGCTGGCTCACTTGGCGCGGATGATCGAAGTGCCTGAAATCGAGCCGATCGAAGAGGGTGGG                                                                                                                                                         <  2:1012362/110‑1                                                                                                                                                                                                                 GCCAAGTGAGCCAGCAGCATGCGCCAGGCCTGGCGCATGCTGCTGGCTCACTTGGCACGGATGATCGAAGTGCCTGAAATCGAGCCGATCGAAGAGGGTGGGGTGATCGCCATGGTCGGCCCGGCGGGCATGGGCAAGACCACCACCCTGGCCAAGCTGGCCGCGCGCTACGTGCTCAAGTACGGCGCGCAGAACCTGGCGCTGGTGAGCATGGACAGCTTCCGTATCGGCGCTC                    >  1:1403229/1‑235                                                                                                                                                                                                                   CAAGTGAGCCAGCAGCATGCGCCAGGCCTGGCGCATGCTGTTGGCTCACTTGGCACGGATGATCGAAGTGCCTGAAATCGAGCCGATCGAAGAGGGTGGGGTGATCGCCATGGTCGGCCCGGCGGGCATGGGCAGGACCACCACCCTGGCC                                                                                                      >  1:1044338/1‑151                                                                                                                                                                                                                   CAAGTGAGCCAGCAGCATGCGCCAGGCCTGGCGCATGCTGCTGGCTCACTTGGCACGGATGATCGAAGTGCCTGAAATCGAGCCGATCGAAGAGGGTGGGGTGATCGCCATGGTCGGCCCGGCGGGCATGGGCAAGACCACCACCCTGGCCAAGCTGGCCGCGCGCTACGTGCTCAAGTACGGCGCGCAGAACCTGGCGCTGGTGAGCATG                                          <  1:1420768/211‑1                                                                                                                                                                                                                   CAAGTGAGCCAGCAGCATGCGCCAGGCCTGGCGCATGCTGCTGGCTCACTTGGCACGGATGATCGAAGTGCCTGAAATCGAGCCGATCGAAGAGGGTGGGGTGATCGCCATGGTCGGCCCGGCGGGCATGGGCAAGACCACCACCCTGGCCAAGCTGGCCGCGCGCTACGTGCTCAAGTACGGCGCGCA                                                                >  1:876036/1‑189                                                                                                                                                                                                                           CCAGCAGCATGCGCCAGGCCTGGCGCATGCTGCTGGCTCACTTGGCACG                                                                                                                                                                                                    >  2:627610/1‑49                                                                                                                                                                                                                                      CGCCAGGCCTGGCGCATGCTGCTGGCTCACTTGGCACGGATGATCGAAGTGCCTGAAATCGAGCCGATCGAAGAGGGTGGGGTGATCGCCATGGTCGGCCCGGCGGGCATGGGCAAGGCCACCAC                                                                                                             >  2:244497/1‑125                                                                                                                                                                                                                                       GCCAGGCCTGGCGAATGCTGCTGGCTCACTTGGCACGGATGAGCGAAGTGCCTGAAAGCGAGCCGATCGAAGAGGGTGGGGTGATCGCCATGGTCGGCCCGGCGGGCATGGGCAAGACCACCACCCTGGCCAAGCTGGCCGCGCGCTACGTGCTCAAGTACGGCGCGCAGAACCTGGCGCTGGTGAGCATGGACAGCTTCCGTATCGGCGCTCAGGAACAGCTCAAGACCC  <  1:475378/231‑1                                                                                                                                                                                                                                            GCCTGGCGCATGCTGCTGGCTCACTTGGCACGGATGATCGAAGTGCCTGAAATCGAGCCGATCGAAGAGGGTGGGGTGATCGCCATGGTCGGCCCGGCGGGCATGGGCAAGACCACCACCCTGGCCAAGCTGGCCGCGCGCTAC                                                                                    <  1:826311/144‑1                                                                                                                                                                                                                                            GCCTGGCGCATGCTGCTGGCTCACTTGGCACGGATGATCGAAGTGCCTGAAATCGAGCCGATCGAAGAGGGTGGGGTGATCGCCATGGTCGGCCCGGCGGGCATGGGCAAGACCACCACCCTGGCAAAGCTGGCCGCGCGCTACGTGCTCAAGTA                                                                         >  2:500425/1‑155                                                                                                                                                                                                                                                   GCATGCTGCTGGCTCACTTGGCACGGATGATCGAAGTGCCTGAAATCGAGCCGATCGAAGAGGGTGGGGTGATCGCCATGGTCGGCCCGGCGGGCATGGGCAAGACCACCACCCTGGCCAAGCTGGCCGCGCGCT                                                                                      >  2:417686/1‑135                                                                                                                                                                                                                                                                                                                                                                                                                                                                               GATGCGGCCCAGGGTCTTGAGCTGTTCCTGAGCGCCGATACGGAAGCTGTCCATGCTCACCAGCGCCAGGTTCTGCGCGCCGTACTTGAGCACGTAGCGCGCGGCCAGCTTGGCCAGGGTGGTGGTCTTGCCCATGCCCGCCGGGCCGACCATGGCGATCACCCCACCCTCTTCGATCGGCTCGATTTCAGGCACTTCGATCATCCGTGCCAAGTGAGCCAGCAGCATGCGCCAGGCCTGGCGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  AE015451/4933636‑4933879 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcgccaggcctggcgcATGCTGCTGGCTCACTTGGCACGGATGATCGAAGTGCCTGAAATCGAGCCGATCGAAGAGGGTGGGGTGATCGCCATGGTCGGCCCGGCGGGCATGGGCAAGACCACCACCCTGGCCAAGCTGGCCGCGCGCTACGTGCTCAAGTACGGCGCGCAGAACCTGGCGCTGGTGAGCATGGACAGCTTCCGTATCGGCGCTCAGGAACAGCTCAAGACCC  <  AE015451/4933863‑4933647

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 35 ≤ 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.