New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_vch_pgi	97574 =	5 (0.330)	3 (0.210)	3/276	1.8	38.1%	coding (488/1317 nt)	murD	UDP‑N‑acetylmuramoyl‑L‑alanine:D‑glutamate ligase
	?	NC_000913_3_vch_pgi	97595 =	5 (0.350)					coding (509/1317 nt)	murD	UDP‑N‑acetylmuramoyl‑L‑alanine:D‑glutamate ligase

GTGAAATGGCGAAAGCGGCGGGGGTTAACGTTGGTGTGGGTGGCAATATTGGCCTGCCTGCGTTGATGCTACTGGATGATGAGTGTGAACTGTACGTGCTGGAACTGTCGAGCTTCCAGCTGGAAACCACCTCCAGCTTACAGGCGGTAGCAGCGACCATTCTGAACGTGACTGAAGATCATATGGATCGCTATCCGTTTGGTTTACAACAGTATCGTGCAGCAAAACTGCGCATTTACGAAAACGCGAAAGTTTGCGTGGTTAATGCTGA  >  NC_000913_3_vch_pgi/97457‑97727                                                                                                                                           |                                                                                                                                     gTGAAATGGCGAAAGCGGCGGGGGTTAACGTTGGTGTGGGTGGCAATATTGGCCTGCCTGCGTTGATGCTGCAGGATGATGAGTGAGAACTGTACGTGCTGGAACTGTCGAGCTACCAGCTGGAAACCACCTCCAGCTTACAGGCGGTa                                                                                                                            >  1:237103/1‑149 (MQ=255)                                                        aaacggatagcgatccatatgatcttcagtcacgttcagaatggtcgctgctaccgcctgtaAGCTGGAAACCACCTCCAGCTTACAGGCg                                                                                                                               <  1:68622‑M1/29‑1 (MQ=255)                                                        aaacggatagcgatccatatgatcttcagtcacgttcagaatggtcgctgctaccgcctgtaAGCTGGAAACCACCTCCAGCTTACAGGCg                                                                                                                               >  2:68622‑M1/63‑91 (MQ=255)                                                                                            ggaCGGGCTGGAACTGTCGAGCTTCCAGCTGGAAACCACCTCCAGCTTACAGGCGGTAGCAGCGACCATTCTGAACGTGACTGAAGATCATATGGATCGCTATCCGTTTGGTTTACAACAGTATCGTGCAGCAAAACTGCGCATTTACg                                 <  1:25091/147‑1 (MQ=255)                                                                                              aCGTGCTGGAACGGTCGAGCTTCCAGCTGGAAACCACCTCCAGCTTACAGGCGGTAGCAGCGACCATTCTGAACGTGACTGAAGATCATATGGATCGCTATCCGTTTGGTTTACAACAGAATCGTTGAGCAAAACTGCGCATTTACGaa                               <  2:164193/149‑1 (MQ=255)                                                                                                gTGCTGGAACTGTCGAGCTTCCAGCTGGAAACCACCTCCAGCTTACAGGCGGTAGCAGCGACCATTCTGAACGTGACTGAAGATCATATGGATCGCTATCCGTTTGGTTTACAACAGTATCGTGCAGCAAAACTGCGCATTTACGaaaa                             >  1:143702/1‑149 (MQ=255)                                                                                                      gaccTGTCGAGCTTCCAGCTGGAAACCACCTCCAGCTTACAGGCGGTAGCAGCGACCATTCTGAACGTGACTGAAGATCATATGGATCGCTATCCGTTTGGTTTACAACAGTATCGTGCAGCAAAACTGCGCATTTACGAAAACGCGaa                       <  2:83839/146‑1 (MQ=255)                                                                                                              cgcctgtaagctggaggtggtttccagctTACAGGCGGTAGCAGCGACCATTCTGAACGTGACTGAAGATCATATGGATCGCTATCCGttt                                                                         <  1:68622‑M2/62‑1 (MQ=255)                                                                                                              cgcctgtaagctggaggtggtttccagctTACAGGCGGTAGCAGCGACCATTCTGAACGTGACTGAAGATCATATGGATCGCTATCCGttt                                                                         >  2:68622‑M2/30‑91 (MQ=255)                                                                                                                ggttctAGCTGGAAACCACCTCCAGCTTACAGGCGGTAGCAGCGGCCATTCTGAACGGGACTGAAGATCATATGGATCGCTATCCGTTTGGTTTACAACAGTATCGTGCAGCAAAACTGCGCATTTACGAAAACGCGAAAGTTTGCGTg             >  2:127208‑M1/7‑149 (MQ=255)                                                                                                                      agctggaggtggtttccagctTACAGGCGGTAGCAGCGACCATTCTGAACGTGACTGAAGATCATATGGATCGCTATCCGTTTGGTTTACAACAGTATCGTGCAGCAAAACTGCGCATTTACGAAAACGCGAAAGTTTGCGTGGTTAAt       >  1:225178‑M2/22‑149 (MQ=255)                                                                                                                           GAAACCACCTCCAGCTTACAGGCGGTAGCAGCGACCATTCTGAACGTGACTGAAGATCATATGGATCGCTAGCCGTTTGGTTTACAACAGTATCGTGCAGCAAAACTGCGCATTTACGAAAACGCGACAGTATGCGTGGCTACTGCTGa  <  2:75821‑M1/149‑1 (MQ=255)                                                                                                                                           |                                                                                                                                     GTGAAATGGCGAAAGCGGCGGGGGTTAACGTTGGTGTGGGTGGCAATATTGGCCTGCCTGCGTTGATGCTACTGGATGATGAGTGTGAACTGTACGTGCTGGAACTGTCGAGCTTCCAGCTGGAAACCACCTCCAGCTTACAGGCGGTAGCAGCGACCATTCTGAACGTGACTGAAGATCATATGGATCGCTATCCGTTTGGTTTACAACAGTATCGTGCAGCAAAACTGCGCATTTACGAAAACGCGAAAGTTTGCGTGGTTAATGCTGA  >  NC_000913_3_vch_pgi/97457‑97727

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ 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.