New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1247020 =	74 (0.820)	10 (0.120)	8/256	NT	13.3%	coding (357/1698 nt)	treA	periplasmic trehalase
	?	NC_000913	1247061 =	61 (0.720)					coding (316/1698 nt)	treA	periplasmic trehalase

GCCGAACAGCGATCCGCTGATGATCCTTGCTGATTATCGGATGCAGCAAAACCAGAGCGGATTTGATCTGCGCCATTTCGTTAACGTCAATTTCACCCTGCCGAAAGAAGGCGAGAAATATGTTCCGCCAGAGGGGCAGTCACTGCGCGAACATATT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/1247176‑1247020 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gaacatattTCTCGCCTTCTTTCGGCAGGGTGAAATTGACGTTAACGAAATGGCGCAGATCAAATCCGCTCTGGTTTTGCTGCATCCGATAATCAGCAAGGATCATCAGCGGATCGCTGTTCGGCACGGCATCGGCAAAGGTTTTTTGGTCCGG  >  NC_000913/1247061‑1247205                                                                                                                                                                                                                                                                                                                GCCGCACAGCGATCCGCTGATGATCCTTGCTGATTATCGGATGCAGCAAAACCAGAGCGGATTTGATCTGCGCCATTTCGTTAACGTCAATTTCACCCTGCCGAAAGAAGGCGAGAAATATGTTACGCCAGAGGGGCAGTCCCTGCGCG                                                                                                                                                           >  1:1315612/1‑149    GAACAGCGATCCGCTGATGATCCTTGCTGATTATCGGATGCAGCAAAACCAGAGCGGATTTGATCTGCGCCATTTCGTTAACGTCAATTTCACCCTGCCGAAAGAAGGCGAGAAATATGTTCCGCCAGAGGGGCAGTCACTGCGCGAAC                                                                                                                                                        >  2:423223/1‑149    GAACAGCGATCCGCTGATGATCCTTGCTGATTATCGGATGCAGCAAAACCAGAGCGGATTTGATCTGCGCCATTTCGTTAACGTCAATTTCACCCTGCCGAAAGAAGGCGAGAAATATGTTCCGCCAGAGGGGCAGTCACTGCGCGAAC                                                                                                                                                        >  2:493901/1‑149     AACAGCGATCCGCTGATGATCCTTGCTGATTATCGGATGCAGCAAAACCAGAGCGGATTTGATCTGCGCCATTTCGTTAACGTCAATTTCACCCTGCCGAAAGAAGGCGAGAAATATGTTCCGCCAGAGGGGCAGTCACTGCGCGAACA                                                                                                                                                       >  2:553169/1‑149                                   TATCGGATGCAGCAAAACCAGAGCGGATTTGATCTGCGCCATTTCGTTAACGTCAATTTCACCCTGCCGAAAGAAGGCGAGAAATATGTTCCGCCAGAGGGGCAGTCACTGCGCGAA                                                                                                                                                         >  1:376572/1‑117                                   TATCGGATGCAGCAAAACCAGAGCGGATTTGATCTGCGCCATTTCGTTAACGTCAATTTCACCCTGCCGAAAGAAGGCGAGAAATATGTTCCGCCAGAGGGGCAGTCACTGCGCGAA                                                                                                                                                         <  2:376572/117‑1                                                                                  TAACGTCAATTTCACCCTGCCGAAAGAAGGCGAGAAATATGTTCCGCCAGAGGGGCAGTCACTGCGCGAACATATTTCTCGCCTTCGTTCGGCAGGGTGAAATTGACGTTAACGAAATGGCGCAGATCAAATCCGCTCTGGTTTTGCTG                                                                          >  2:516467/1‑149                                                                                                       cAAAGAAGGCGAGAAATATGTTCCGCCAGAGGGGCAGTCACTGCGCGAACATATTTCACGCGTTCTTACGGCAGGGTGAAATTGACGTTTTCGAAATGGCGCAGATCAAATCCGCTCTGGTTTTGCTGCATCCGATAATCAGCAAGGAT                                                     >  1:1487024/2‑149                                                                                                       GAAAGAAGGCGAGAAATATGTTCCGCCAGCGGGGCAGTCACTGCGCGAACATATTTCTCGACTTCTTTAGGCAGGGGGAAAGTGACGTTAACGAAATGGCGCTGATCAAATCCGCTCTGGTTTTGCTGCATCCGATAATCAGCAAGGAT                                                     >  1:1493035/1‑149                                                                                                                  AGAAATATGTTCCGCCAGAGGGGCAGTCACTGCGCGAACATATTTCTCGCCTTCTTTCGGCAGGGTGAAATTGACGTTAACGAAATGGCGCAGATCAAATCCGCTCTGGTTTTGCTGCATCCGATAATCAGCAAGGATCATCAGCGGAT                                          >  1:405099/1‑149                                                                                                                   GAAATATGTTCCGCCAGAGGGGCAGTCACTGCGCGAACATATTTCTCGCCTTCTTTCGGCAGGGTGAAATTGACGTTAACGAAATGGCGCAGATCAAATCCGCTCTGGTTTTGCTGCATCCGATAATCAGCAAGGATCATCAGCGGATC                                         >  1:10937/1‑149                                                                                                                   GAAATATGTTCCGCCAGAGGGGCAGTCACTGCGCGAACATATTTCTCGCCTTCTTTCGGCAGGGTGAAATTGACGTTAACGAAATGGCGCAGATCAAATCCGCTCTGGTTTTGCTGCATCCGATAATCAGCAAGGATCATCAGCGGATC                                         >  2:407357/1‑149                                                                                                                    AAATATGTTCCGCCAGAGGGGCAGTCACTGCGCGAACATATTTCTCGCCTTCTTTCGGCAGGGTGAAATTGACGTTAACGAAATGGCGCAGATCAAATCCGCTCTGGTTTTGCTGCATCCGATAATCAGCAAGGATCATCAGCGGATCG                                        >  1:672878/1‑149                                                                                                                      ATATGTTCCGCCAGAGGGGCAGTCACTGCGCGAACATATTTCTCGCCTTCTTTCGGCAGGGTGAAATTGACGTTAACGAAATGGCGCAGATCAAATCCGCTCTGGTTTTGCTGCATCCGATAATCAGCAAGGATCATCAGCGGATCGCT                                      >  2:1158459/1‑149                                                                                                                        ATGTTCCGCCAGAGGGGCAGTCACTGCGCGAACATATTTCTCGCCTTCTTTCGGCAGGGTGAAATTGACGTTAACGAAATCGCGCAGATCAAATCCGCTCTGGTTTTGCTGCATCCGATAATCAGCAAGGATCATCAGCGGATCGCTGT                                    >  2:337759/1‑149                                                                                                                           TTCCGCCAGAGGGGCAGTCACTGCGCGAACATATTTCTCGCCTTCTTTCGGCAGGGTGAAATTGCCGTTAACGAAATGGCGCAGATCAAATCCGCTCTGGTTTTGCTGCATCCGATAATCAGCAAGGATCATCAGCGGTTCGCTGTTCG                                 >  2:267214/1‑149                                                                                                                                                         ATATTTCTCGCCATCTTTCGGCAGGGTGAAATTGACGTTAACGAAATGGCGAAGATCAAATACGCTCAGGATTTGCTGCATCCGATAATCAGCAAGGATCATCAGCGGATCGCTGATCGGCACGGCATCGGCAAATGATTTTTGGACCG   >  1:989563/1‑149                                                                                                                                                          TATTTCTCGCCTTCTTTCGGCAGGGTGAAATTGACGTTAACGAAATGGCGCAGATCAAATCCGCTCTGGTTTTGCTGCCTCCGATACTCAGCAAGGATCATCAGCGGATCGCTGTTCGGCACGGCATCGGCAAAGGTTTTTTGGTCCGG  >  2:799597/1‑149                                                                                                                                                                                                                                                                                                                GCCGAACAGCGATCCGCTGATGATCCTTGCTGATTATCGGATGCAGCAAAACCAGAGCGGATTTGATCTGCGCCATTTCGTTAACGTCAATTTCACCCTGCCGAAAGAAGGCGAGAAATATGTTCCGCCAGAGGGGCAGTCACTGCGCGAACATATT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/1247176‑1247020 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gaacatattTCTCGCCTTCTTTCGGCAGGGTGAAATTGACGTTAACGAAATGGCGCAGATCAAATCCGCTCTGGTTTTGCTGCATCCGATAATCAGCAAGGATCATCAGCGGATCGCTGTTCGGCACGGCATCGGCAAAGGTTTTTTGGTCCGG  >  NC_000913/1247061‑1247205

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ 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.