New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5390643	33 (0.780)	3 (0.070)	3/250	NT	7.9%	noncoding (11/87 nt)	PP_mr56	C4 ncRNA
	?	NC_002947	= 5390712	38 (0.930)					noncoding (80/87 nt)	PP_mr56	C4 ncRNA

GTTGCTCATCAACGACCGGCTTTGACAGGCCGCAACGATACACAGCGCGCATAACCGTTCATGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTCCTGACCCGCCTCACCACCTCCACTCCCTGGAAGACACGATCATGATGGCCTCGGACTACGCGCTCTGTGCAGAAG  >  NC_002947/5390579‑5390859                                                                                                                                      |                                                                                                                                                    gTTGCTCATCAACGACCGGCTTTGACAGGCCGCAACGATACACAGCGCGCATAACCGTTCATGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGttt                                                                                                                                      >  5:62742/1‑149 (MQ=255)    gCTCATCAACGACCGGCTTTGACAGGCCGCAACGATACACAGCGCGCATAACCGTTCATGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGa                                                                                                                                    <  2:146779/148‑1 (MQ=255)      tcatcaACGACCGGCTTTGACAGGCCGCAACGATACACAGCGCGCATAACCGTTCATGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTgcca                                                                                                                                                 <  1:254153‑M2/133‑5 (MQ=255)      tcatcaACGACCGGCTTTGACAGGCCGCAACGATACACAGCGCGCATAACCGTTCATGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTgcca                                                                                                                                                 >  2:254153‑M2/1‑129 (MQ=255)            aCGACCGGCTTTGACAGGCCGCAACGATACACGGCGCGCATAACCGTTCATGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGtt                                                                                                                           >  2:52032/1‑149 (MQ=255)                   gCTTTGACAGGCCGCAACGATACACAGCGCGCATAACCGTTCATGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTg                                                                                                                    >  3:41828/1‑149 (MQ=255)                            ggCCGCAACGATACACAGCGCGCATAACCGTTCATGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATc                                                                                                           <  6:62742/149‑1 (MQ=255)                              ccGCAACGATACACAGCGCGCATAACCGTTCATGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATc                                                                                                           >  3:123593/1‑147 (MQ=255)                                gCAACGATACACAGCGCGCATAACCGTTCATGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCgaga                                                                                                       <  5:13591/149‑1 (MQ=255)                                       tACACAGCGCGCATAACCGTTCATGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGt                                                                                                <  7:235396/149‑1 (MQ=255)                                         cacgGCGCGCATAACCGTTCATGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTaa                                                                                              <  1:52032/149‑1 (MQ=255)                                              cgcgcATAACCGTTCATGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGaa                                                                                                      <  3:216472/136‑1 (MQ=255)                                              cgcgcATAACCGTTCATGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGaa                                                                                                      >  4:216472/1‑136 (MQ=255)                                               gcgcATAACCGTTCATGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCga                                                                                                         >  8:22919/1‑132 (MQ=255)                                               gcgcATAACCGTTCATGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCga                                                                                                         <  7:22919/132‑1 (MQ=255)                                                 gcATAACCGTTCATGGCGGTTGTGCATGGGTCACGCTTGCGTGCGCCGGTTTCTGTGATCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGATTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTaa                                                                                      <  1:208142/149‑1 (MQ=255)                                                       ccGTTCATGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTgccatgaacggttatgcgcgctgtgtatcgttgcggcctgtcaaagccggtcgttgatgagctacgacc                                                                                <  5:67064‑M2/149‑70 (MQ=255)                                                        cGTTCATGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGt                                                                               >  4:130174/1‑149 (MQ=255)                                                             aTGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTc                                                                             <  1:116881/146‑1 (MQ=255)                                                             aTGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTc                                                                             >  2:116881/1‑146 (MQ=255)                                                              tGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTgccatgaacggttatgcgcgctgtgtatcgttgcggcctgtcaaagccggtcgttgatgagcaacgacccacc                                                                            <  6:119200‑M2/146‑74 (MQ=255)                                                              tGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTCCTGa                                                                         >  5:99660/1‑149 (MQ=255)                                                                  ggTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTgccatgaacggttatgcgcgctgtgtatcgttgcggcctgtcaaagccggtcgttgatgagcaacgacccaccgagacta                                                                     >  5:119200‑M2/1‑69 (MQ=255)                                                                         cATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGaa                                                                                                      <  5:268884/109‑1 (MQ=255)                                                                         cATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGaa                                                                                                      >  6:268884/1‑109 (MQ=255)                                                                         cATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTCCTGACCCGCCTcacc                                                              <  7:64636/149‑1 (MQ=255)                                                                         cATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTCCTGACCCGCCTcac                                                               >  6:154379/1‑148 (MQ=255)                                                                            ggggCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTCCTGACCCGCCTCaccacc                                                           >  6:249054/1‑149 (MQ=255)                                                                               gCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTCCTGACCCGCCTCACCACCTcc                                                        >  6:50576/1‑149 (MQ=255)                                                                                   gCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTCCTGACCCGCCTCACCACCTCCACTc                                                    >  5:44451/1‑149 (MQ=255)                                                                                   gCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTACCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTCCTGACCCGCCTCACCACCTCCACTc                                                    >  8:138080/1‑149 (MQ=255)                                                                                        cgtgcgCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTCCTGACCCGCCTCACCACCTCCACTCCCTgg                                               <  4:123593/149‑1 (MQ=255)                                                                                        cgtgcgCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTCCTGACCCGCCTCACCACCTCCACTCCCTg                                                <  4:41828/148‑1 (MQ=255)                                                                                        cgtgcgCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTCCTGACCCGCCTCACCACCTCCACTCCCTg                                                <  5:154379/148‑1 (MQ=255)                                                                                          tgcgCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTCCTGACCCGCCTCACCACCTCCACTCCCTGGaa                                             <  3:130174/149‑1 (MQ=255)                                                                                                 gTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTCCTGACCCGCCTCACCACCTCCACTCCCTGGAAGACACGa                                      <  6:99660/149‑1 (MQ=255)                                                                                                      tgtgTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATc                                                                                                           <  7:119369/75‑1 (MQ=255)                                                                                                      tgtgTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATc                                                                                                           >  8:119369/1‑75 (MQ=255)                                                                                                               cGGTCTGTCAACCAATGCACAGCTGCCACCAATCCGTTAGACAGCGGGATGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTCCTGACCCGCCTCACCACCTCCACTCCCTGGAAGACACGATCATGAAGGCCTCg                        >  1:28517/1‑149 (MQ=255)                                                                                                                      tCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTCCTGACCCGCCTCACCACCTCCACTCCCTGGAAGACACGATCATGATGGCCTCGGACTAcg                 >  8:17024/1‑149 (MQ=255)                                                                                                                             aTGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTCCTGACCCGCCTCACCACCTCCACTCCCTGGAAGACACGATCATGATGGCCTCGGACTACGCGCTCtg          >  7:191052/1‑149 (MQ=255)                                                                                                                              tGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTCCTGACCCGCCTCACCACCTCCACTCCCTGGAAGACACGATCATGATGGCCTCGGACTACGCGCTCtgt         <  5:110207/149‑1 (MQ=255)                                                                                                                              tGCACAGCTACCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTCCTGACCCGCCTCACCACCTCCACTCCCTGGAAGACACGATCATGATGGCCTCGGACTACGCGCTCtgt         <  7:138080/149‑1 (MQ=255)                                                                                                                                     cTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTCCTGACCCGCCTCACCACCTCCACTCCCTGGAAGACACGATCATGATGGCCTCGGACTACGCGCTCTGTGCAGAAg  >  7:214878/1‑149 (MQ=255)                                                                                                                                      |                                                                                                                                                    GTTGCTCATCAACGACCGGCTTTGACAGGCCGCAACGATACACAGCGCGCATAACCGTTCATGGCGGTTGTGCATGGGGCACGCTTGCGTGCGCCGGTTTCTGTGTTCGCCGGTCTGTCAACCCATGCACAGCTGCCACCATTCCGTTTGACAGCGGGTTGGCGGTGGCCCCTATCGAGAACACAGTAAAATGCTAAAGATCGTTCCTGACCCGCCTCACCACCTCCACTCCCTGGAAGACACGATCATGATGGCCTCGGACTACGCGCTCTGTGCAGAAG  >  NC_002947/5390579‑5390859

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