New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1287084	8 (0.170)	23 (0.610)	20/170	0.7	55.1%	noncoding (153/171 nt)	rttR	rtT sRNA, processed from tyrT transcript
	?	NC_000913	1287557 =	31 (0.820)					noncoding (66/85 nt)	tyrT	tRNA‑Tyr

GCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGTCGAACCTTGGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTAATTGCGGATTCGTTGGGAA  >  NC_000913/1286948‑1287221                                                                                                                                         |                                                                                                                                          gCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcg                                                                                                                                         <  1:902784‑M1/139‑3 (MQ=255)                   cGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTAATTGCGGATTCGTTGGGAAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCg                                                                                                                       <  2:595764/139‑1 (MQ=14)                                           gCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcgaaccttcgaagtcgatgacggcagatttacagtctgctccct                                                                                               >  1:532193‑M1/1‑95 (MQ=255)                                           gCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcgaa                                                                                                                                       >  1:75550‑M1/1‑95 (MQ=255)                                           gCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcgaa                                                                                                                                       <  2:75550‑M1/99‑5 (MQ=255)                                                      ttCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcgaaccttcgaagtcgatgacggcagatttacagtctgctccctttggccgctcg                                                                                    <  1:811332‑M1/139‑56 (MQ=255)                                                      ttCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcga                                                                                                                                        <  2:477038‑M1/87‑4 (MQ=255)                                                      ttCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcga                                                                                                                                        >  1:477038‑M1/1‑84 (MQ=255)                                                       tCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTTATGGTGGTGGGGGAAGGATTcgaaccttcgaagtcgatgacggca                                                                                                                  <  2:655110‑M1/108‑26 (MQ=255)                                                       tCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcgaaccttcgaagtcgatgacggca                                                                                                                  >  1:655110‑M1/1‑83 (MQ=255)                                                          ccGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcgaaccttcgaagtcgatgacggcagatttacagtctgctccctttggccgctcgggaa                                                                                >  1:880989‑M1/1‑80 (MQ=255)                                                              aTGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcgaaccttcgaagtcgatgacggcagatttacagtctgctccctttggccgctcgggaac                                                                               <  1:309147‑M1/136‑61 (MQ=255)                                                              aTGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcgaaccttcgaagtcgatgacggcagatttacagtctgctccctttggccgctcgggaac                                                                               >  2:309147‑M1/1‑76 (MQ=255)                                                                           ttGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcgaaccttcgaagtcgatgacggcagatttacagtctgctccctttggccgctcgggaaccccaccaggggtaatt                                                               >  2:720407‑M1/1‑63 (MQ=255)                                                                            taaTTGCGGATTCGTTGGGAAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAACCGAACCtta                                                              >  2:788607/3‑138 (MQ=11)                                                                            tGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcgaaccttcgaagtcgatgacggcagatttacagtctgctccctttggccgctcgggaaccccacc                                                                         >  2:1071401‑M1/1‑62 (MQ=255)                                                                            tGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcgaaccttcgaagtcgatgacggcagatttacagtctgctccctttggccgctcgggaaccccacc                                                                         <  1:1071401‑M1/128‑67 (MQ=255)                                                                                tGCGGATTCGTTGGGAAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGtt                                                                                                         <  2:573380/92‑1 (MQ=14)                                                                                tGCGGATTCGTTGGGAAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGtt                                                                                                         >  1:573380/1‑92 (MQ=14)                                                                                tGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcgaaccttcgaagtcgatgacggc                                                                                                                   >  2:890213‑M1/1‑58 (MQ=255)                                                                                tGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcgaaccttcgaagtcgatgacggc                                                                                                                   <  1:890213‑M1/82‑25 (MQ=255)                                                                                tGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcgaa                                                                                                                                       <  1:913206‑M1/62‑5 (MQ=255)                                                                                tGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcgaa                                                                                                                                       >  2:913206‑M1/1‑58 (MQ=255)                                                                                    gattcgttgggaagTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGc                                                      >  1:855419/13‑139 (MQ=11)                                                                                    gATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcgaaccttcgaagtcga                                                                                                                          <  2:549782‑M1/71‑18 (MQ=255)                                                                                    gATTCGCTTGAGAGCTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcgaaccttcgaagtcga                                                                                                                          >  1:549782‑M1/1‑54 (MQ=255)                                                                                           tgggaagTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCAt                                               <  2:855419/134‑1 (MQ=11)                                                                                               gagTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcgaaccttcgaagtcgatgacggcagatttacagtctgctccctttggc                                                                                          >  1:638111‑M1/1‑43 (MQ=255)                                                                                               gagTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTcgaaccttcgaagtcgatgacggcagatttacagtctgctccctttggc                                                                                          <  2:638111‑M1/92‑50 (MQ=255)                                                                                                                 aaGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAgcc                                                                      >  1:269410/1‑92 (MQ=14)                                                                                                                 aaGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAgcc                                                                      <  2:269410/94‑3 (MQ=17)                                                                                                                       tggtggtggGGGAAGGATTcgaaccttcgaagtcgatgacgg                                                                                                                    >  2:726766‑M1/1‑19 (MQ=255)                                                                                                                       tggtggtggGGGAAGGATTcgaaccttcgaagtcgatgacgg                                                                                                                    <  1:726766‑M1/42‑24 (MQ=255)                                                                                                                       tggtggtggGGGAAGGATTcgaaccttcgaagtcgatgac                                                                                                                      >  2:311392‑M1/1‑19 (MQ=255)                                                                                                                       tggtggtggGGGAAGGATTcgaaccttcgaagtcgatgac                                                                                                                      <  1:311392‑M1/40‑22 (MQ=255)                                                                                                                            gtggGGGAAGGATTcgaaccttcgaagtcgatgacggcagatttacagtctgctccctttggccgctcgggaaccccaccacggggtaatgctttttactggcctgctcccttatcgggaagcgggg                          >  1:790715‑M1/1‑14 (MQ=255)                                                                                                                            gtggGGGAAGGATTcgaaccttcgaagtcgatgacggcagatttacagtctgctccctttggccgctcgggaaccccaccacggggtaatgctttttactggcctgctcccttatcgggaagcgggg                          <  2:790715‑M1/127‑114 (MQ=255)                                                                                                                            gtggGGGAAGGATTcgaaccttcgaagtcgatgacggcagatttacagtctg                                                                                                     <  1:445005‑M1/52‑39 (MQ=255)                                                                                                                            gtggGGGAAGGATTcgaaccttcgaagtcgatgacggcagatttacagtctg                                                                                                     >  2:445005‑M1/1‑14 (MQ=255)                                                                                                                              gggggAAGGATTcgaaccttcgaagtcgatgacggcagatttacagtctgctccctttggccgctcgggaaccccaccacggggtaatgctttttactggcctgctcccttatcgggaagcggggcgca                      >  2:764455‑M1/1‑12 (MQ=255)                                                                                                                              gggggAAGGATTcgaaccttcgaagtcgatgacggcagatttacagtctgctccctttggccgctcgggaaccccaccacggggtaatgctttttactggcctgctcccttatcgggaagcggggcgca                      <  1:764455‑M1/129‑118 (MQ=255)                                                                                                                                 ggAAGGATTcgaaccttcgaagtcgatgacggcagatttacagtctgctccctttggccgctc                                                                                     >  1:473453‑M1/1‑9 (MQ=255)                                                                                                                                 ggAAGGATTcgaaccttcgaagtcgatgacggcagatttacagtctgctccctttggccgctc                                                                                     <  2:473453‑M1/63‑55 (MQ=255)                                                                                                                                   aaGGATTcgaaccttcgaagtcgatgacggcagatttacactctgctccctttggccgctcgggaaccccaccacggggtaatgctttttactggactgctaccttatcgggaagcggggcgcatcatatcaaatgacg       <  1:759441‑M1/139‑133 (MQ=255)                                                                                                                                        ttcgaaccttcgaagtcgatgacggcagatttacagtctgctccctttggccgctcgggaaccccaccacggggtaatgctttttactggcctgctcccttatcgggaagcggggcgcatcatatcaaatgacgcgccg  <  1:656753‑M1/139‑138 (MQ=255)                                                                                                                                         tcgaaccttcgaagtcgatgacggcagatttacagtctgctccctttggccgctcgggaaccccaccacggggtaatgctttttactggcctgctcccttatcgggaagcgggg                          >  2:24457‑M1/1‑1 (MQ=255)                                                                                                                                         tcgaaccttcgaagtcgatgacggcagatttacagtctgctccctttggccgctcgggaaccccaccacggggtaatgctttttactggcctgctcccttatcgggaagcgggg                          <  1:24457‑M1/114‑114 (MQ=255)                                                                                                                                         |                                                                                                                                          GCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTACTCAGCGCTGCGCGCTTCGCCCTTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGTCGAACCTTGGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTAATTGCGGATTCGTTGGGAA  >  NC_000913/1286948‑1287221

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ 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.