New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1287084	20 (0.350)	24 (0.520)	13/162	2.2	50.5%	noncoding (153/171 nt)	rttR	rtT sRNA, processed from tyrT transcript
	?	NC_000913	1287557 =	31 (0.670)					noncoding (66/85 nt)	tyrT	tRNA‑Tyr

TTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1286930‑1287084 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atggtggtgggggaaggattCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGGAACCCCACCACGGGGTAATGCTTTTTACTGGCCTGCTCCCTTATCGGGAAGCGGGGCGCATCATATCAAATGACGCGCCG  >  NC_000913/1287557‑1287693                                                                                                                                                                                                                                                                                                      TTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGG                                                                                                                                                           <  2:756450/139‑1    GGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGG                                                                                                                                                        <  2:145246/139‑1            GCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATG                                                                                                                                                            >  2:633302/1‑127            GCCTGCGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATG                                                                                                                                                            <  1:633302/127‑1                gtGGCAACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGATAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGGAAGGAT                                                                                                                                            >  2:903993/3‑139                     AACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGG                                                                                                                                                    <  2:640589/126‑1                     AACGCTCTCTCGCTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGG                                                                                                                                                    >  1:640589/1‑126                                 CTGGCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCG                                                                                                                           >  1:1094600/1‑139                                    gCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATG                                                                                                                        >  1:367320/2‑139                                    gCGCTCGAGCCGAACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGG                                                                                                                                                  <  1:1449047/112‑1                                    gCGCTCGAGCCGAACCTTAATCGAAGCTTCTAATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAATTCCGGGGCTTTTGAAAGTGATGGTGGTGGGGG                                                                                                                                                  >  2:1449047/2‑113                                                AACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGAC                                                                                                                      >  2:93606/1‑129                                                AACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGAC                                                                                                                      <  1:93606/129‑1                                                 ACCTTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTAC                                                                                                           <  2:367320/139‑1                                                    TTAATCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGT                                                                                                        <  2:116677/139‑1                                                      aaTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCT                                                                                                      >  2:1480240/3‑139                                                      aaTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTA                                                                                                            >  2:1251747/3‑133                                                      aaTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTA                                                                                                            <  1:1251747/131‑1                                                            AGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAA                                                                                                                                                <  2:290324/91‑1                                                            AGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAA                                                                                                                                                >  1:290324/1‑91                                                                      CCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCT                                                                                      <  2:1094600/139‑1                                                                        TTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGAACTTTTGAAAGTGATGGTGGTGGGG                                                                                                                                                   <  2:949081/76‑1                                                                        TTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGAACTTTTGAAAGTGATGGTGGTGGGG                                                                                                                                                   >  1:949081/1‑76                                                                           CCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCA                                                                                                                  <  2:965942/106‑1                                                                           CCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCA                                                                                                                  >  1:965942/1‑106                                                                                    GCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGG                                                                                                                    >  1:250117/1‑95                                                                                    GCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGG                                                                                                                    <  2:250117/95‑1                                                                                                  TGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCA                                                                                                                  <  1:610456/83‑1                                                                                                  TGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCA                                                                                                                  >  2:610456/1‑83                                                                                                  TGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGAT                                                                                                                                                             <  2:1081550/40‑1                                                                                                  TGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGAT                                                                                                                                                             >  1:1081550/1‑40                                                                                                    CGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTAC                                                                                                           >  2:1141385/1‑88                                                                                                    CGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTAC                                                                                                           <  1:1141385/88‑1                                                                                                                     TCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTG                                                                                            >  2:894639/1‑86                                                                                                                     TCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTG                                                                                            <  1:894639/86‑1                                                                                                                              TTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTC                                                                                     <  2:1129893/84‑1                                                                                                                              TTTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTC                                                                                     >  1:1129893/1‑84                                                                                                                               TTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGG                                                                                  <  2:1419202/86‑1                                                                                                                               TTGAAAGTGATGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGG                                                                                  >  1:1419202/1‑86                                                                                                                                         TGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTG                                                                                                     >  1:908713/1‑57                                                                                                                                         TGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTG                                                                                                     <  2:908713/57‑1                                                                                                                                         TGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCA                                                                                                                  >  1:750542/1‑44                                                                                                                                         TGGTGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCA                                                                                                                  <  2:750542/44‑1                                                                                                                                            TGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGG                                                                                  <  1:170347/73‑1                                                                                                                                            TGGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGG                                                                                  >  2:170347/1‑73                                                                                                                                             GGTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGGAACCCCACCACGGGGTAATGCTTTTTACTGGCCTGCTCCCTTATCGGGAAGCGGGGCGCATCATATC               >  2:807755/1‑139                                                                                                                                              GTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGGAACCCCACCACGGGGTAATGCTTTTTACTGGCCTGCTCCCTTATCGGGAAGCGGGGCGCATCATATCA              >  1:901007/1‑139                                                                                                                                              GTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGGAACCCCACCACG                                                                      >  2:168748/1‑83                                                                                                                                              GTGGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGGAACCCCACCACG                                                                      <  1:168748/83‑1                                                                                                                                                GGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGGAACCCCACCACGGGGTAATGCTTTTTACTGGCCTGCT                                             <  1:487886/106‑1                                                                                                                                                GGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGGAACCCCACCACGGGGTAATGCTTTTTACTGGCCTGCT                                             >  2:487886/1‑106                                                                                                                                                GGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTG                                                                                                     <  2:174052/50‑1                                                                                                                                                GGGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTG                                                                                                     >  1:174052/1‑50                                                                                                                                                 GGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGGAACCCCACCACGGGGTAATGCTTTTTACTGGCCTGCTCCCTTATCGGGAAGCGGGGCGCATC                    >  1:613437/1‑130                                                                                                                                                 GGGGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGGAACCCCACCACGGGGTAATGCTTTTTACTGGCCTGCTCCCTTATCGGGAAGCGGGGCGCATC                    <  2:613437/130‑1                                                                                                                                                   GGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGGAACCCCACCACGGGGTAATGCTTTTTACTGGCCTGCTCCCTTATCGGGAAGCGGGGCGCATCATATCAAATGA         >  2:1251202/1‑139                                                                                                                                                   GGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGGAACCCCACCACGGGGTAATGCTTTTTACTGGCCT                                                >  1:542033/1‑100                                                                                                                                                   GGAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGGAACCCCACCACGGGGTAATGCTTTTTACTGGCCT                                                <  2:542033/100‑1                                                                                                                                                    GAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGGAACCCCAC                                                                          >  2:80277/1‑73                                                                                                                                                    GAAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGGAACCCCAC                                                                          <  1:80277/73‑1                                                                                                                                                     AAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGGAACCCCACCACGGGGTAATGCTTTTTACTGGCCTGCTCCCTTATCGGGAAGCGGGGCGCATCATATCAAATGACG       <  2:1127782/139‑1                                                                                                                                                     AAGGATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGGAACCCCACCACGGGGTAATGCTTTTTACTGGCCTGCTCCCTTATCGGGAAGCGGGGCGCATCATATCAAATGACG       <  2:237402/139‑1                                                                                                                                                        GATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGGAACCCCACCACGGGGTAATGCTTTTTACTGGCCTGCTCCCTTATCGGGAAGCGGGGCGCATCATATCAAATGACGCGC    >  2:93964/1‑139                                                                                                                                                         ATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTG                                                                                                     >  2:1441074/1‑41                                                                                                                                                         ATTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTG                                                                                                     <  1:1441074/41‑1                                                                                                                                                          TTCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGGAACCCCACCACGGGGTAATGCTTTTTACTGGCCTGCTCCCTTATCGGGAAGCGGGGCGCATCATATCAAATGACGCGCCG  <  2:1210897/139‑1                                                                                                                                                           TCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGC                                                                                          <  2:1419914/50‑1                                                                                                                                                           TCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGC                                                                                          >  1:1419914/1‑50                                                                                                                                                                                                                                                                                                      TTCGGGTCGTTGCCTGCGGCAACGCTCTCTCGCTGACGCTCGAGCCGAACCTTAGTCGAAGCTTCTCATCCTTCCCCGCATGGGCAGAATATTTGATTGCGGATTCGCTTGAGAGTTCAGGGACTTTTGAAAGTGATGGTGGTGGGGGAAGGATT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1286930‑1287084 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑atggtggtgggggaaggattCGAACCTTCGAAGTCGATGACGGCAGATTTACAGTCTGCTCCCTTTGGCCGCTCGGGAACCCCACCACGGGGTAATGCTTTTTACTGGCCTGCTCCCTTATCGGGAAGCGGGGCGCATCATATCAAATGACGCGCCG  >  NC_000913/1287557‑1287693

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.