New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AP009048	3748797 =	3 (0.050)	50 (0.850)	35/102	NT	94.3%	coding (184/984 nt)	tnaB	tryptophan transporter of low affinity
	?	AP009048	4056220 =	NA (NA)					intergenic (‑564/+15)	yrhB/insB	hypothetical protein/IS1 transposase InsAB'

TTTTTCTGGGGTGCCTTTATCCTTATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AP009048/3748866‑3748797 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCT  >  AP009048/4056220‑4056287                                                                                                                                            TTTTTCTGGGGTGCCTTTATCCTTATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGG                                                                     >  1:711335/1‑71   TTTCTGGGGTGCCTTTATCCTTATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGG                                                                    >  1:745470/1‑70     TCTGGGGTGCCTTTATCCTTATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAA                                                                 >  1:724136/1‑71     TCTGGGGTGCCTTTATCCTTATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTA                                                                  <  1:4992358/70‑1     TCTGGGGTGCCTTTATCCTTATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTA                                                                  <  1:4360460/70‑1      CTGGGGTGCCTTTATCCTTATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAAT                                                                >  1:4266641/1‑71       TGGGGTGCCTTTATCCTTATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAA                                                                 <  1:4375267/69‑1         GGGTGCCTTTATCCTTATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGAC                                                             <  1:419580/71‑1         GGGTGCCTTTATCCTTATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGA                                                              <  1:1600248/70‑1         GGGTGCCTTTATCCTTATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGA                                                              <  1:1631186/70‑1         GGGTGCCTTTATCCTTATCATTGCCTGGTTTTCAATGCGTCATTCCGGGTTATTGTTATTAGTGTAATGA                                                              <  1:1594176/70‑1          GGTGCCTTTATCCTTATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGG                                                                    <  1:4489400/63‑1               CTTTATCCTTATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAAT                                                                <  1:2728028/62‑1                TTTATCCTTATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACT                                                      >  1:4369846/1‑71                 TTATCCTTATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACT                                                      >  1:2689035/1‑70                 TTATCCTTATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGA                                                              >  1:2788176/1‑62                  TATCCTTATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACT                                                      <  1:3769927/69‑1                    TCCTTATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACTTAT                                                   <  1:2026910/70‑1                      CTTATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGA                                                <  1:2504671/71‑1                       TTATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAAT                                                                >  1:275192/1‑54                        TATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACTTAT                                                   >  1:3077982/1‑66                          TCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGT                                            <  1:1337597/71‑1                          TCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTA                                                                  >  1:2034984/1‑49                           CATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGAT                                               >  1:5118136/1‑67                           CATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGAT                                               >  1:3639859/1‑67                             TTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTT                                         >  1:3764482/1‑71                              TGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTTT                                        >  1:1594689/1‑71                               GCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGTCTCCAACTTATTGATAGTGTTT                                        <  1:329057/70‑1                                 CTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTTTTAT                                     >  1:5302995/1‑71                                    GTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGT                                   <  1:5229699/70‑1                                    GTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTTTTA                                      >  1:3077743/1‑67                                    GTTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTTTTA                                      >  1:1842866/1‑67                                    GTTTTCAATGCTTCATTACGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGT                                   <  1:4948529/70‑1                                     TTTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACT                                                      <  1:2470514/50‑1                                      TTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTT                                  >  1:4559891/1‑69                                      TTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACTTAT                                                   >  1:1865961/1‑52                                      TTTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAAT                                                                <  1:529475/39‑1                                       TTCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGAT                                               >  1:3667203/1‑55                                        TCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAG                               <  1:3778855/70‑1                                        TCAATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGA                                                              >  1:719960/1‑39                                          AATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGAT                             <  1:5080596/70‑1                                           ATGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAA                           >  1:3937631/1‑71                                            TGCTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTC                                 >  1:580053/1‑64                                              CTTCATTCCGGGTTATTGTTATTAGGGTAATGACTCCAA                                                        >  1:2165520/1‑39                                                 CATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGA                                                >  1:725344/1‑44                                                 CATTCCGGGTTATTGTTATTAGGGTAATGACTCCAACTTAT                                                   >  1:86504/1‑41                                                 CATTCCGGGTTATTGTTATTAGGGTAATGACTACAACTTATTGATAGTGTTTTATGTTCAG                               <  1:2480611/61‑1                                                     CCGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGA                 >  1:2266072/1‑71                                                     CCGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGA                 >  1:279555/1‑71                                                     CCGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGC                        >  1:5310405/1‑64                                                      CGGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGAC                <  1:2697669/71‑1                                                       GGGTTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACT               <  1:464898/71‑1                                                        GGTTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACT               <  1:2750628/70‑1                                                         GTTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCA                                <  1:737695/52‑1                                                          TTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACT               <  1:4243224/68‑1                                                          TTATTGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATA                            <  1:4729303/55‑1                                                              TGTTATTAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCAT        >  1:1021574/1‑71                                                                TTATTAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATG       >  1:3178254/1‑70                                                                    TAGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAAT                          >  1:970822/1‑47                                                                     AGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGGCCGATGACTTTGTCA         >  1:2106118/1‑63                                                                     AGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCT  <  1:4812756/70‑1                                                                     AGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCT  <  1:2749633/70‑1                                                                     AGGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCA                                >  1:1653591/1‑40                                                                      GGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCT  <  1:503881/69‑1                                                                                                                                            TTTTTCTGGGGTGCCTTTATCCTTATCATTGCCTGGTTTTCAATGCTTCATTCCGGGTTATTGTTATTAG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AP009048/3748866‑3748797 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCT  >  AP009048/4056220‑4056287

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