New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3344992 =	91 (0.880)	13 (0.140)	5/158	NT	15.1%	coding (276/1434 nt)	rpoN	RNA polymerase, sigma 54 (sigma N) factor
	?	NC_000913	3345024 =	66 (0.720)					coding (308/1434 nt)	rpoN	RNA polymerase, sigma 54 (sigma N) factor

AACCTGCCACATCAGGTAATCCTGCAAGGTCTGCGTCGTTTCGCCCTGGTAGACCGGCAGCTCGTCGTCAATGTAGTCACCGCTGGTGCCGGATGGTGTACCAGCGGTG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3345100‑3344992 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑accagcggtgACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGCAGGTTGAGCTGACACCGTTTTCCGAC  >  NC_000913/3345024‑3345121                                                                                                                                                                                                                 AACCTGCCACATCAGGTAATCCTGCAAGGGCTGCGTCGTTTCGCCCTGGTAGACCGGCAGCTCGTCGTCAATGTAGTCACCGCTGGTGCCGGATGGTGTA                                                                                                             <  2:901393/100‑1  ACCTGCCACATCAGGTACTCCTGCAAGGTCTGCGTCGTTTCGCCCTGGTATACCGGCAGCTCGTCGTCAATGTAGTCACCGCTGGTGCCGGATGGTGTAC                                                                                                            >  1:2503729/1‑100   CCTGCCACATCAGGTAATCCTGCAAGGTCTGCGTCGTTTCGCCCTGGTAGACCGGCAGCTCGTCGTCAATGTAGTCACCGCTGGTGCCGGATGGTGTACC                                                                                                           <  1:2911472/100‑1    CTGCCACATCAGGTAATCCTGCAAGGTCTGCGTCGTTTCGCCCTGGTAGACCGGCAGCTCGTCGTCAATGTAGTCACCGCTGGTGCCGGATGGTGTACCA                                                                                                          >  1:1275351/1‑100        CACATCAGGTAATCCTGCAAGGTCTGCGTCGTTTCGCCCTGGTAGACCGGCAGCTCGTCGTCCATGTAGTCACCGCTGGTGCCGGATGGTGTACCAGCGG                                                                                                      >  1:1312656/1‑100        CACATCAGGTAATCCTGCAAGGTCTGCGTCGTTTCGCCCTGGTAGACCGGCAGCTCGTCGTCAATGTAGTCACCGCTGGTGCCGGATGGTGTACCAGCGG                                                                                                      <  2:1649808/100‑1         ACATCAGGTAATCCTGCAAGGTCTGCGTCGTTTCGCCCTGGTAGACCGGCAGCTCGTCGTCAATGTAGTCACCGCTGGTGCCGGATGGTGTACCAGCGGT                                                                                                     <  2:907505/100‑1          CATCAGGTAATCCTGCAAGGTCTGCGTCGTTTCGCCCTGGTAGACCGGCAGCTCGTCGTCAATGTAGTCACCGCTGGTGCCGGATGGTGTACCAGCGGTG                                                                                                    >  2:894393/1‑100          CATCAGGTAATCCTGCAAGGTCTGCGTCGTTTCGCCCTGGTAGACCGGCAGCTCGTCGTCAATGTAGTCACCGCTGGTGCCGGATGGTGTACCAGCGGTG                                                                                                    >  1:2439355/1‑100          CATCAGGTAATCCTGCAAGGTCTGCGTCGTTTCGCCCTGGTAGACCGGCAGCTCGTCGTCAATGTAGTCACCGCTGGTGCCGGATGGTGTACCAGCGGTG                                                                                                    <  1:251483/100‑1                                                                            gtgACCGCTGGTGCCGGATGGTGTACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTG                                   >  1:1298910/4‑99                                                                            GTCACCGCTGGTGCCGGATGGTGTACCAGCGGTGACTACATTTACGACGAGCTGCCGGTGTACCAGGGCGAGACGACGCCGACCTGGCAGGGTTAC                                      >  1:2475334/1‑96                                                                            GTCACCGCTGGTGCCGGATGGTGTACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGAGCGAAACGACGCAGACCTTGCAGGATTACCTG                                   >  2:2175879/1‑99                                                                              CACCGCTGGTGCCGGATGGTGTACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGCTTACCTGATG                                >  1:929788/1‑100                                                                              CACCGCTGGTGCCGGATGGTGTACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATG                                >  2:1121429/1‑100                                                                              CACCGCTGGTGCCGGATGGTGTACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATG                                >  1:2324689/1‑100                                                                              CACCGCTGGTGCCGGATGGTGTACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATG                                >  2:708645/1‑100                                                                               ACCGCTGGTGCCGGATGGTGTACCAGCGGTGACTACCTTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGT                               >  1:708748/1‑100                                                                                CCGCTGGTGCCGGATGGTGTACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTG                              >  1:1164766/1‑100                                                                                CCGCTGGTGCCGGATGGTGTACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTG                              >  2:1451746/1‑100                                                                                CCGCTGGTGCCGGATGGTGTACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTG                              >  2:2642770/1‑100                                                                                  GCTGGTGCCGGATGGTGTACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGC                            >  1:1759765/1‑100                                                                                  GCTGGTGCCGGATGGTGTACCAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGC                            >  2:736868/1‑100                                                                                                      CAGCGGTGACTCCATTGACGACGAGCTGCCGGTCTCCCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGCGGCAGGTTCAACTGCCACCG           >  1:2763496/1‑97                                                                                                      CAGCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGCAGGTTGAGCTGACACCGTTT        >  1:433250/1‑100                                                                                                        GCGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGCAGGTTGAGCTGACACCGTTTTC      <  2:2477401/100‑1                                                                                                         CGGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGTATTACCTGATGTGGCAGGTTGAGCTGACACCGTTTTCC     <  2:294170/100‑1                                                                                                          GGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGCAGGTTGAGCTGACACCGTTTTCag    <  2:1749488/100‑3                                                                                                          GGTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGCAGGTTGAGCTGACACCGTTTTCCG    <  2:430304/100‑1                                                                                                           GTGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGCAGGTTGAGCTGACACCGTTTTCC     <  1:1020977/98‑1                                                                                                            TGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGCAGGTTGAGCTGACACCGTTTTCCGAC  <  2:2300554/100‑1                                                                                                            TGACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGCAGGTTGAGCTGACACCGTTTTCCGAC  <  1:71220/100‑1                                                                                                                                                                                                                 AACCTGCCACATCAGGTAATCCTGCAAGGTCTGCGTCGTTTCGCCCTGGTAGACCGGCAGCTCGTCGTCAATGTAGTCACCGCTGGTGCCGGATGGTGTACCAGCGGTG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3345100‑3344992 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑accagcggtgACTACATTGACGACGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGCAGGTTGAGCTGACACCGTTTTCCGAC  >  NC_000913/3345024‑3345121

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ 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.