New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_pgi	2282818 =	196 (1.280)	29 (0.210)	21/240	12.4	14.0%	intergenic (+17/+122)	rplY/yejK	50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein
	?	NC_000913_3_pae_pgi	2282846 =	NA (NA)					intergenic (+45/+94)	rplY/yejK	50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GCGACCAATTGCAGCGCCGGACGTCTGGCGGCAATTAATCGGTTTTGTGTTCTGAATGCCAGATGCGGCGTGAACGCCTTATCTGGCCTGCAAAAAATAGCAATACCGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCGGGGTTTTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_pgi/2282977‑2282818 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcggggttttttGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGATTAATTGCCGCCAGACGTCCGGCGCTGCAATTGGTCGCGCAAATTCGGCGGCGTG  >  NC_000913_3_pae_pgi/2282846‑2282994                                                                                                                                                                                                                                                                                                                       GCGACCAATTGCAGCGCCGGACGTCTGGCGGCAATTAATCGGTTTTGTGTTCTGAATGCCAGATGCGGCGTGAACGCCTTATCTGGCCTGCAAAAAATAGCAATACCGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGC                                                                                                                                                                 >  1:358948/1‑150  CGACCAATTGCAGCGCCGGACGTCTGGCGGCAATTAATCGGTTTTGTGTTCTGAATGCCAGATGCGGCGTGAACGCCTTATCTGGCCTGCAAAAAATAGCAATACCGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCG                                                                                                                                                                <  1:583100/150‑1    ACCAATTGCAGCGCCGGACGTCTGGCGGCAATTAATCGGTTTTGTGTTCTGAATGCCAGATGCGGCGTGAACGCCTTATCTGGCCTGCAAAAAATAGCAATACCGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCGGG                                                                                                                                                              <  2:358948/150‑1    ACCAATTGCAGCGCCGGACGTCTGGCGGCAATTAATCGGTTTTGTGTTCTGAATGCCAGATGCGGCGTGAACGCCTTATCTGGCCTGCAAAAAATAGCAATACCGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCGGG                                                                                                                                                              <  1:559939/150‑1       AATTGCAGCGCCGGACGTCTGGCGGCAATTAATCGGTTTTGTGTTCTGAATGCCAGATGCGGCGTGAACGCCTTATCTGGCCTGCAAAAAATAGCAATACCGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCGGGGTT                                                                                                                                                           >  4:126030/1‑150        ATTGCAGCGCCGGACGTCTGGCGGCAATTAATCGGTTTTGTGTTCTGAATGCCAGATGCGGCGTGAACGCCTTATCTGGCCTGCAAAAAATAGCAATCCCGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCGGGGTTT                                                                                                                                                          <  3:366070/150‑1        ATTGCAGCGCCGGACGTCTGGCGGCAATTAATCGGTTTTGTGTTCTGAATGCCAGATGCGGCGTGAACGCCTTATCTGGCCTGCAAAAAATAGCAATACCGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCGGGGTTT                                                                                                                                                          <  3:54518/150‑1          TGCAGCGCCGGACGTCTGGCGGCAATTAATCGGTTTTGTGTTCTGAATGCCAGATGCGGCGTGAACGCCTTATCTGGCCTGCAAAAAATAGCAATACCGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCGGGGTTTTT                                                                                                                                                        <  4:392303/150‑1          TGCAGCGCCGGACGTCTGGCGGCAATTAATCGGTTTTGTGTTCTGAATGCCAGATGCGGCGGGAACGCCTTATCTGGAATACAAAAAATAGCAATACCGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCGGGGTTTTT                                                                                                                                                        <  4:255653/150‑1                                               GTGTTCTGAATGCCAGATGCGGCGTGAACGCCTTATCTGGCCTGCAAAAAATAGCAATACCGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTAT                                                                                                                   <  2:144737/150‑1                                                    CTGAATGCCAGATGCGGCGTGAACGCCTTATCTGGCCTGCAAAAAATAGCAATACCGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTT                                                                                                              <  3:1054855/150‑1                                                     TGAATGCCAGATGCGGCGTGAACGCCTTATCTGGCCTGCAAAAAATAGCAATACCGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTG                                                                                                             <  1:827795/150‑1                                                                   GGCGTGAACGCCTTATCTGGCCTGCAAAAAATAGCAATACCGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGC                                                                                                                                                                 >  4:462190/1‑84                                                                   GGCGTGAACGCCTTATCTGGCCTGCAAAAAATAGCAATACCGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGC                                                                                                                                                                 <  3:462190/84‑1                                                                               TTATCTGGCCTGCAAAAAATAGCAATACCGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCG                                                                                                                                                                <  1:63913/73‑1                                                                               TTATCTGGCCTGCAAAAAATAGCAATACCGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCG                                                                                                                                                                >  2:63913/1‑73                                                                                        CTGCAAAAAATAGCAATACCGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCAT                                                                          >  1:1729391/1‑150                                                                                             AAAAATAGCAATACCGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTT                                                                                                               >  1:490367/1‑108                                                                                             AAAAATAGCAATACCGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTT                                                                                                               <  2:490367/108‑1                                                                                                           CGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCA                                                                                  >  3:1104283/1‑123                                                                                                           CGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCA                                                                                  <  4:1104283/123‑1                                                                                                           CGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCGGGG                                                                                                                                                             >  3:640087/1‑48                                                                                                           CGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCGGGG                                                                                                                                                             <  4:640087/48‑1                                                                                                                                     AAAAAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTTCATTCCTGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAACACCGATTAATTGCCGCCCGACGTCCGACCCTGC                             >  2:637426/1‑150                                                                                                                                     AAAAAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGATTAATTGCCGCCA                                            >  1:481888/1‑135                                                                                                                                     AAAAAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGATTAATTGCCGCCA                                            <  2:481888/135‑1                                                                                                                                     AAAAAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAA                                                             >  1:874667/1‑118                                                                                                                                     AAAAAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAA                                                             <  2:874667/118‑1                                                                                                                                     AAAAAACCCCGCCGGAGCGGGGATTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTTCAGGCCAGATAAGGCGTTCATGCCGCATATGGCATTCAGAAGATCAAACCAATTAATTGCCGCCAGACGTCGGCCGCTGg                             >  2:1386364/1‑149                                                                                                                                      AAAAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGATTAATTGCCGCCAGACGTCCGGCGCTGCA                            >  2:574351/1‑150                                                                                                                                      AAAAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGATTAATTGCCGCCAGACGTCCGGCGCTG                              >  2:1611639/1‑148                                                                                                                                      AAAAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGATTAATTGCCGCCAGACGTCCGGCGCTG                              <  1:1611639/148‑1                                                                                                                                      AAAAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGA                                                         <  1:628541/121‑1                                                                                                                                      AAAAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGA                                                         >  2:628541/1‑121                                                                                                                                       AAAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGATTAATTGCCGCCAGACGTCCGGCGCTGCAA                           >  2:1614340/1‑150                                                                                                                                        AAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGATTAATTGCCGCCAGACGTCCGGCGCTGCAAT                          >  2:1089031/1‑150                                                                                                                                        AAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGATTAATTGCCGCCAGACGTCCGGCGCTGCAAT                          >  1:1478775/1‑150                                                                                                                                        AAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGATTAATTGCCGCCAGACGTCCGGCGCTGCAA                           <  2:466478/149‑1                                                                                                                                        AAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGATTAATTGCCGCCAGACGTCCGGCGCTGCAA                           >  1:466478/1‑149                                                                                                                                        AAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCC                                                                                     >  4:257664/1‑91                                                                                                                                        AAACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCC                                                                                     <  3:257664/91‑1                                                                                                                                          ACCCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGATTAATTGCCGCCAGACGTCCGGCGCTGCAATTG                        >  1:310395/1‑150                                                                                                                                            CCCGCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGATTAATTGCCGCCAGACGTCCGGCGCTGCAATTGGT                      >  1:1403271/1‑150                                                                                                                                               GCCGGAGCGGGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGATTAATTGCCGCCAGACGTCCGGCGCTGCAATTGGTCGC                   <  2:1403271/150‑1                                                                                                                                                        GGGTTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGATTAATTGCCGCCAGACGTCCGGCGCTGCAATTGGTCGCGCAAATTCG          <  2:827795/150‑1                                                                                                                                                           TTTTTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCAGTCAGAACACAAAGCCGATTAATTGCCGCCAGACGTCCGGCGCTGCAATTGGTCGCGCAAATTCGGCG       <  3:787792/150‑1                                                                                                                                                              TTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGATTAATTGCCGCCAGACGTCCGGCGCTGCAATTGGTCGCGCAAATTCGGCGGCG    >  1:867572/1‑150                                                                                                                                                              TTTGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGATTAATTGCCGCCAGACGTCCGGCGCTGCAATTGGTCGCGCAAATTCGGCGGCG    <  2:159157/150‑1                                                                                                                                                               TTGTATCTGCAGATGATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGATTAATTGCCGCCAGACGTCCGGCGCTGCAATTGGTCGCGCAAATTCGGCGGCGT   >  4:568444/1‑150                                                                                                                                                                TGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGATTAATTGCCGCCAGACGTCCGGCGCTGCAATTGGTCGCGCAAATTCGGCGGCGTG  <  1:655716/150‑1                                                                                                                                                                TGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGATTAATTGCCGCCAGACGTCCGGCGCTGCAATTGGTCGCGCAAATTCGGCGGCGTG  <  1:655747/150‑1                                                                                                                                                                                                                                                                                                                       GCGACCAATTGCAGCGCCGGACGTCTGGCGGCAATTAATCGGTTTTGTGTTCTGAATGCCAGATGCGGCGTGAACGCCTTATCTGGCCTGCAAAAAATAGCAATACCGTAATCAGGCATAATCTGCAGATACAAAAAACCCCGCCGGAGCGGGGTTTTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_pgi/2282977‑2282818 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcggggttttttGTATCTGCAGATTATGCCTGATTACGGTATTGCTATTTTTTGCAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTCAGAACACAAAACCGATTAATTGCCGCCAGACGTCCGGCGCTGCAATTGGTCGCGCAAATTCGGCGGCGTG  >  NC_000913_3_pae_pgi/2282846‑2282994

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.