New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3493758 =	NA (NA)	4 (0.040)	4/162	NT	NA	noncoding (1/26 nt)	REP248 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP248 (repetitive extragenic palindromic) element; contains 1 REP sequences
	?	NC_000913	3493784 =	NA (NA)					intergenic (+35/‑227)	tsgA/nirB	putative transporter/nitrite reductase, large subunit, NAD(P)H‑binding

TATTTCATGTTTGTGCAAAAAATAGACAAAATGAGCGGGTTTATAGAAATAGATGCACGTAGCGGGGGAAGAGAGGAAAAGGCCGGACGACGATAGTGCCGTCCGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3493864‑3493758 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cgtccggcCTTTTCCTCTCTTCCCCCGCTACGTGCATCTATTTCTATAAACCCGCTCATTTTGTCTATTTTTTGCACAAACATGAAATATCAGACAATTCCGTGACT  >  NC_000913/3493784‑3493882                                                                                                                                                                                                                TATTTCATGTTTGTGCAAAAAATAGACAAAATGAGCGGGTTTATAGAAATAGATGCACGTAGCGGGGGAAGAGAGGAAAAGGCCGGACGACGATAGTGCC                                                                                                            >  2:1731806/1‑100  ATTTCATGTTTGTGCAAAAAATAGACAAAATGAGCGGGTTTATAGAAATAGATGCACGTAGCGGGGGAAGAGAGGAAAAGGCCGGACGACGATAGTGCCG                                                                                                           <  1:1947101/100‑1    TTCATGTTTGTGCAAAAAATAGACAAAATGAGCGGGTTTATAGAAATAGATGCACGTAGCGGGGGAAGAGAGGAAAAGGCCGGACGACGATAGTGCCGTC                                                                                                         >  2:727517/1‑100     TCATGTTTGTGCAAAAAATAGACAAAATGAGCGGGTTTATAGAAATAGATGCACGTAGCGGGGGAAGAGAGGAAAAGGCCGGACGACGATAGTGCCGTCC                                                                                                        <  1:904910/100‑1       ATGTTTGTGCAAAAAATAGACAAAATGAGCGGGTTTATAGAAATAGATGCACGTAGCGGGGGAAGAGAGGAAAAGGCCGGACGACGATAGTGCCGTCCGG                                                                                                      <  1:1791475/100‑1       ATGTTTGTGCAAAAAATAGACAAAATGAGCGGGTTTATAGAAATAGATGCACGTAGCGGGGGAAGAGAGGAAAAGGCCGGACGACGATAGTGCCGTCCGG                                                                                                      <  2:1381799/100‑1         GTTTGTGCAAAAAATAGACAAAATGAGCGGGTTTATAGAAATAGATGCACGTAGCGGGGGAAGAGAGGAAAAGGCCGGACGACGATAGTGCCGTCCGGC                                                                                                     >  1:2584257/1‑99                                                                         GAGGAAAAGGCCGGACGACGATAGTGCCGTCCGGCCTTTTCCTCTCTTCCCCCGCTACGTGCATCTATTTCTATAAACCCGCTCATTTTGTCTATTTTTT                                    >  1:998589/1‑100                                                                             AAAAGGCCGGACGACGATAGTGCCGTCCGGCCTTTTCCTCTCTTCCCCCGCTACGTGCATCTATTTCTATAAACCCGCTCATTTTGTCTATTTTTTGCAC                                >  2:2883839/1‑100                                                                              AAAGGCCGGACGACGATAGTGCCGTCCGGCCTTTTCCTCTCTTCCCCCGCTACGTGCATCTATTTCTATAAACCCGCTCATTTTGTCTATTTTATGCACA                               >  2:398898/1‑100                                                                                AGGCCGGACGACGATAGTGCCGTCCGGCCTTTTCCTCTCTTCCCCCGCTACGTGCATCTATTTCTATAAACCCGCTCATTTTGTCTATTTTTTGCACAAA                             >  2:550802/1‑100                                                                                                     GTCCGGCCTTTTCCTCTCTTCCCCCGCTACGTGCATCTATTTCTATAAACCCGCTCATTTTGTCTATTTTTTGCACAAACATGAAATATCAGACAATTCC        >  1:1450654/1‑100                                                                                                     GTCCGGCCTTTTCCTCTCTTCCCCCGCTACGTGCATCTATTTCTATAAACCCGCTCATTTTGTCTATTTTTTGCACAAACATGAAATATCAGACAATTCC        >  2:2342510/1‑100                                                                                                     GTCCGGCCTTTTCCTCTCTTCCCCCGCTACGTGCATCTATTTCTATAAACCCGCTCATTTTGTCTATTTTTTGCACAAACATGAAATATCAGACAATTCC        >  1:229720/1‑100                                                                                                       nCGGCCTTTTCCTCTCTTCCCCCGCTACGTGCATCTATTTCTATAAACCCGCTCATTTTGTCTATTTTTTGCACAAACATGAAATAACAGACAATTCCGT      >  1:2801492/2‑100                                                                                                       CCGGCCTTTTCCTCTCTTCCCCCGCTACGTGCATCTATTTCTATAAACCCGCTCATTTTGTCTATTTTTTGCACAAACATGAAATATCAGACAATTCCGT      >  2:2185177/1‑100                                                                                                        nGGCCTTTTCCTCTCTTCCCCCGCTCCGTGCCTCTATTTCTCTAAACCCGCTCATTTTGTCTATTTTTTGCACACACATGAAATATCAGACAATTCCGT      >  1:2869569/2‑99                                                                                                          GCCTTTTCCTCTCTTCCCCCGCTACGTGCATCTATTTCTATAAACCCGCTCATTTTGTCTATTTTTTGCACAAACATGAAATATCAGACAATTCCGTGAC   <  2:916599/100‑1                                                                                                          GCCTTTTCCTCTCTTCCCCCGCTACGTGCATCTATTTCTATAAACCCGCTCATTTTGTCTATTTTTTGCACAAACATGAAATATCAGACAATTCCGTGAC   >  2:1037155/1‑100                                                                                                           CCTTTTCCTCTCTTCCCCCGCTACGTGCATCTATTTCTATAAACCCGCTCATTTTGTCTATTTTTTGCACAAACATGAAATATCAGACAATTCCGTGACT  >  2:371758/1‑100                                                                                                           CCTTTTCCTCTCTTCCCCCGCTACGTGCATCTATTTCTATAAACCCGCTCATTTTGTCTATTTTTTGCACAAACATGAAATATCAGACAATTCCGTGAC   <  1:1656462/99‑1                                                                                                                                                                                                                TATTTCATGTTTGTGCAAAAAATAGACAAAATGAGCGGGTTTATAGAAATAGATGCACGTAGCGGGGGAAGAGAGGAAAAGGCCGGACGACGATAGTGCCGTCCGGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3493864‑3493758 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cgtccggcCTTTTCCTCTCTTCCCCCGCTACGTGCATCTATTTCTATAAACCCGCTCATTTTGTCTATTTTTTGCACAAACATGAAATATCAGACAATTCCGTGACT  >  NC_000913/3493784‑3493882

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