New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	W3110S.gb	= 2173565	NA (NA)	12 (0.640)	11/100	NT	100%	pseudogene (306/2041 nt) pseudogene (306/339 nt)	gatR gatR	DNA‑binding transcriptional regulator; ECK2083:JW5340+JW2074:b4498 DNA‑binding transcriptional regulator, C‑ter fragment; ECK2083:JW2074:b2090
	?	W3110S.gb	= 3932933	0 (0.000)					coding (222/1608 nt)	dppA	dipeptide transporter

AACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  W3110S.gb/2173507‑2173565 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGGAAGAGGCGTCATAGGT  <  W3110S.gb/3932933‑3932865                                                                                                                                  AACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACTTCGGTTGT                                                           >  1:418350/1‑71           AAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTA                                                 <  1:1664789/71‑1              CAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAAT                                              <  1:1647074/71‑1                      TCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAAC                                         >  1:1392364/1‑68                        GCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGAC                                    <  1:1254386/71‑1                         CTTAGGCCTGTGTCCATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACG                                   >  1:1403074/1‑71                            AGGCCTGTGTCCATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGT                                 >  1:57231/1‑70                               CCTGTGTCCATATTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATA                             <  1:175877/71‑1                                           TTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGG                  >  1:1350903/1‑70                                           TTACGTGGGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGG                  >  1:319249/1‑70                                                  GGTAGGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAA                            <  1:1336265/53‑1                                                      GGATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGGAAGAGGCGTCA       >  1:949989/1‑70                                                       GATCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGAC                    >  1:225180/1‑56                                                         TCACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGGAAGAGGCGTCATAGG   >  1:366184/1‑71                                                          CACACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGGAAGAGGCGTCATAGGT  >  1:905930/1‑71                                                                                                                                  AACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  W3110S.gb/2173507‑2173565 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CACTTCGGTGGTGCCGATTTTAAATTCAACCAGACGGTTATAAAGCGGGACGGAAGAGGCGTCATAGGT  <  W3110S.gb/3932933‑3932865

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.