New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 3546221	NA (NA)	11 (0.100)	8/166	NT	NA	intergenic (+22/‑338)	nfuA/gntT	Fe/S biogenesis protein, putative scaffold/chaperone protein/gluconate transporter, high‑affinity GNT I system
	?	NC_000913	= 3546253	NA (NA)					noncoding (32/36 nt)	REP253 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP253 (repetitive extragenic palindromic) element; contains 1 REP sequences

TGCTGAACGAATTCCCGGAGCTGAAAGGTGTGCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTgcccga‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/3546123‑3546221 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCCCGAAATGACGCTTTAGCGTCGCATCGGGCAATCTACAAAAGAGGGGATAACTTAGTAGTAGGAGTGTTCGCCGCGCTGGTGTTCGGTGAGATCGCGC  <  NC_000913/3546253‑3546154                                                                                                                                                                                                         TGCTGAACGAATTCCCGGAGCTGAAAGGTGTGCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTG                                                                                                     >  2:1072500/1‑100  GCTGAACGAATTCCCGGAGCTGAAAGGTGTGCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGC                                                                                                    >  1:2773321/1‑100   CTGAACGAATTCCCGGAGCTGAAAGGTGTGCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCC                                                                                                   >  1:2608481/1‑100    TGAACGAATTCCCGGCGCTGACAGGTGTGCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCC                                                                                                  >  1:717338/1‑100    TGAACGAATTCCCGGAGCTGAAAGGTGTGCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCC                                                                                                  >  2:2762696/1‑100    TGAACGAATTCCCGGAGCTGAAAGGTGTGCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCC                                                                                                  <  1:2954676/100‑1     GAACGAATTCCCGGAGCTGAAAGGTGTGCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCCG                                                                                                 >  2:883746/1‑100     GAACGAATTCCCGGAGCTGAAAGGTGTGCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCCG                                                                                                 >  1:1878694/1‑100     GAACGAATTCCCGGAGCTGAAAGGTGTGCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCCG                                                                                                 >  1:2529433/1‑100       ACGAATTCCCGGAGCTGAAAGGTGTGCGCGATCTCACCAAACACCAGCGCGGCGAACACTCCTAGTACTAAGTTATCCCCTCTTTTGTAGATTGCCCG                                                                                                 >  1:2488439/1‑98                               TGCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCCGATGCGACGCTTTAGCGTCGCATCGGG                                                                       <  1:2790454/100‑1                                GCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCCGAAATGACGCTTTAGCGTCGCATCGGGC                                                                      <  2:915893/100‑1                                GCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCCGAAATGACGCTTCAGCGTCGCATCGGGC                                                                      <  2:1073042/100‑1                                   CGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCCGAAATGACGCTTTAGCGTCGCATCGGGCAAT                                                                   <  2:599285/100‑1                                    GATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTACGTTATCCCCTCTTTTGTAGATTGCCCGAAATGACGCTTTAGCGCCGCATCGGGCAATC                                                                  <  1:1328617/100‑1                                     ATCTCACCGATCACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCCGAAATGACGCTTTAGCGTCGCATCGGGCAATCT                                                                 <  1:491650/100‑1                                     ATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCCGAAATGACGCTTTAGCGTCGCATCGGGCAATCT                                                                 <  2:634469/100‑1                                     ATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCCGAAATGACGCTTTAGCGTCGCATCGGGCAATCT                                                                 <  1:1072497/100‑1                                      TCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCCGAAATGACGCTTTAGCGTCGCATCGGGCAATCTA                                                                <  1:1582830/100‑1                                          ACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCCGAAATGACGCTTTAGCGTCGCATCGGGCAATCTACAAA                                                            <  2:3233938/100‑1                                              AACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTGCCCGAAATGACGCTTTAGCGTCGCATCGGGCAATCTACAAAAGAG                                                        <  2:2463435/100‑1                                                                                                    GCCCGAAATGACGCTTTAGCGTCGCATCGGGCAATCTACAAAAGAGGGGATAACTTAGTAGTAGGAGTGTTCGCCGCGCTGGTGTTCGGTGAGATCGCGn  <  2:1195151/100‑2                                                                                                    GCCCGAAATGACGCTTTAGCGTCGCATCGGGCAATCTACAAAAGAGGGGATAACTTAGTAGTAGGAGTGTTCGCCGCGCTGGTGTTCGGTGAGATCGCGC  <  1:1719778/100‑1                                                                                                    GCCCGAAATGACGCTTTAGCGTCGCATCGGGCAATCTACAAAAGAGGGGATAACTTAGTAGTAGGAGTGTTCGCCGCGCTGGTGTTCGGTGAGATCGCGC  <  1:1715908/100‑1                                                                                                    GCCCGAAATGACGCTTTAGCGTCGCATCGGGCAATCTACAAAAGAGGGGATAACTTAGTAGTAGGAGTGTTCGCCGCGCTGGTGTTCGGTGAGATCGCGC  <  1:1254690/100‑1                                                                                                                                                                                                         TGCTGAACGAATTCCCGGAGCTGAAAGGTGTGCGCGATCTCACCGAACACCAGCGCGGCGAACACTCCTACTACTAAGTTATCCCCTCTTTTGTAGATTgcccga‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/3546123‑3546221 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GCCCGAAATGACGCTTTAGCGTCGCATCGGGCAATCTACAAAAGAGGGGATAACTTAGTAGTAGGAGTGTTCGCCGCGCTGGTGTTCGGTGAGATCGCGC  <  NC_000913/3546253‑3546154

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.