New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	1009804 =	45 (1.080)	3 (0.080)	3/238	NT	6.9%	coding (82/855 nt)	rluA1	pseudouridylate synthase
	?	CP000730	1009828 =	40 (1.040)					coding (106/855 nt)	rluA1	pseudouridylate synthase

GTGCACGATTCTTTCATATCAAGTGATGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAGTGTTAATTTAATACCTTATGCTCGTAAGCTAGAAGTATTGTATG  >  CP000730/1009688‑1009960                                                                                                                                             |                                                                                                                                     gtgCACGATTCTTTCATATCAAGTGATGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCtt                                                                                                                                      >  1:361039/1‑141 (MQ=255)  tgcccaattattTCATATAAAGTGATGAAGAACGATGACATTTAAGTAACATGTATCACAACAAGAAACAGTTAACCCTTTTCTAGCAAGACATGATTTTTCTAAGCCGACCGTGAGCGCCATTAAAAATAATGGCGCttt                                                                                                                                     <  2:34320/135‑1 (MQ=255)    cACGATTCTTTCATATCAAGTGATGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTaa                                                                                                                                   >  1:154675/1‑141 (MQ=255)     aCGATTCTTTCATATCAAGTGATGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAAt                                                                                                                                  <  1:457204/141‑1 (MQ=255)      cGATTCTTTCATATCAAGTGATGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAAtt                                                                                                                                 <  2:136364/141‑1 (MQ=255)         ttCTTTCATATCAAGTGATGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGtt                                                                                                                              >  2:339515/1‑141 (MQ=255)         ttCTTTCATACCAAGGGAAGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTACAACTTTTTTAGCACGACATGCTTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCCCTTTAATTGtt                                                                                                                              >  2:339603/1‑141 (MQ=255)          tCTTTCATATCAAGTGATGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTAAGCGAAATAAAAAATAATGGCGCTTTAATTGTTa                                                                                                                             <  2:217958/141‑1 (MQ=255)            tttCATATCAAGTGATGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAat                                                                                                                           >  2:328596/1‑141 (MQ=255)              tCATATCAAGTGATGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAatga                                                                                                                         <  1:105224/141‑1 (MQ=255)                ctatCAAGTGATGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGATTTAATTATTAatgatt                                                                                                                       >  2:460580/2‑140 (MQ=255)                    cAAGTGATGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAAcc                                                                                                                   <  1:432424/141‑1 (MQ=255)                    cAAGTGATGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAAcc                                                                                                                   <  1:432562/141‑1 (MQ=255)                     aaGTGATGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGAAAGTGAGAGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCa                                                                                                                  >  2:429890/1‑141 (MQ=255)                          atgaAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTcac                                                                                                             <  2:483341/141‑1 (MQ=255)                            gaagaaCGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAg                                                                                                           >  2:393604/1‑141 (MQ=255)                                 aCGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGt                                                                                                      >  1:349990/1‑141 (MQ=255)                                       aaaTTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCaa                                                                                                >  1:346038/1‑141 (MQ=255)                                         aTTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAAtt                                                                                              <  1:430954/141‑1 (MQ=255)                                              aGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGa                                                                                         <  1:361548/141‑1 (MQ=255)                                                 aTCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACaa                                                                                      <  2:478041/141‑1 (MQ=255)                                                  tCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACaaa                                                                                     >  2:354941/1‑141 (MQ=255)                                                    atttctaatatatcatttgtcattaattgcttacgcactgtgactggttcatcattaacaattaaagcgccattaaaaataatggcgctTTAATTGt                                                                                                                               <  1:341333‑M2/8‑1 (MQ=255)                                                    atttctaatatatcatttgtcattaattgcttacgcactgtgactggttcatcattaacaattaaagcgccattaaaaataatggcgctTTAATTGt                                                                                                                               >  2:341333‑M2/90‑97 (MQ=255)                                                         tCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGatata                                                                              >  1:436260/1‑141 (MQ=255)                                                                 aGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAAt                                                                      >  1:319441/1‑141 (MQ=255)                                                                  gAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGaatttctaatatat                                                                     <  1:291666/141‑14 (MQ=255)                                                                     aCTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCAt                                                                  >  2:365556/1‑141 (MQ=255)                                                                           aaaaCTTTTTTAGCACTACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACcg                                                            >  2:276550/1‑141 (MQ=255)                                                                                  ttttAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGaaa                                                     >  1:119651/1‑141 (MQ=255)                                                                                    ttAGCACGACATGATTTTTTTAATAAGACATTGATCGCCATTAAAAATAATGACGCTTTAATTGTTAATGATGAACCAGTCACATTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATa                                                   >  2:49476/1‑141 (MQ=255)                                                                                     ttttttttttttaTTTTTCTAAGAAGACAGTGAGCGTCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCTTAAGCATTTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATAc                                                  >  2:179787/13‑141 (MQ=255)                                                                                      aGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATAcc                                                 >  2:307405/1‑141 (MQ=255)                                                                                       gCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCg                                                >  2:63753/1‑141 (MQ=255)                                                                                        cACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGa                                               <  1:210717/141‑1 (MQ=255)                                                                                        cACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGa                                               <  1:210779/141‑1 (MQ=255)                                                                                          cGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAgt                                             <  2:9347/141‑1 (MQ=255)                                                                                           gACATGATTTTTCTCAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAgtg                                            <  2:413127/141‑1 (MQ=255)                                                                                            aCATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAgtgt                                           <  2:190916/141‑1 (MQ=255)                                                                                                 aTTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAGTGttaatt                                      >  1:505747/1‑141 (MQ=255)                                                                                                    tttCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAGTGttaatttaa                                   >  1:364295/1‑141 (MQ=255)                                                                                                       cTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAGTGTTAATTTAATAc                                <  1:80740/141‑1 (MQ=255)                                                                                                       cTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAGTGTTAATTTAATAc                                <  1:485291/141‑1 (MQ=255)                                                                                                             acaattaaAGCGCCATTATTTTTAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAAt                                                                      >  2:341333‑M1/9‑97 (MQ=255)                                                                                                             acaattaaAGCGCCATTATTTTTAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAAt                                                                      <  1:341333‑M1/89‑1 (MQ=255)                                                                                                                  gTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAGTGTTAATTTAATACCTTATGCTCGt                     <  1:11607/141‑1 (MQ=255)                                                                                                                  gTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAGTGTTAATTTAATACCTTATGCTCGt                     <  1:372671/141‑1 (MQ=255)                                                                                                                   tGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAGTGTTAATTTAATACCTTATGCTCGTa                    >  2:106137/1‑141 (MQ=255)                                                                                                                       cgccattatttttaatggcgctTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAGTGTTAATTTAATACCTTATGCTCGTAAGCt                >  1:331995‑M2/23‑141 (MQ=255)                                                                                                                          CATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAGTGTTAATTTAATACCTTATGCTCGTAAGCTAGa             >  1:460580‑M1/1‑141 (MQ=255)                                                                                                                              AAAAATAATGGCGATTTAATTGTTAATGATGAACCAGTCACAGTGAGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAGTGTTAATTTAATACCTTATGCTCGTAGGCTAGAAGTa         >  2:183091‑M1/1‑141 (MQ=255)                                                                                                                                  ataatGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAGTGTTAATTTAATACCTTATGCTCGTAAGCTAGAAGTATTGt     >  2:42183/1‑141 (MQ=255)                                                                                                                                     atggcgctTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAGTGTTAATTTAATACCTTATGCTCGTAAGCTAGAAGTATTGTATg  >  2:434147‑M2/9‑141 (MQ=255)                                                                                                                                     atggcgctTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAGTGTTAATTTAATACCTTATGCTCGTAAGCTAGAAGTATTGTATg  <  1:81964‑M2/133‑1 (MQ=255)                                                                                                                                             |                                                                                                                                     GTGCACGATTCTTTCATATCAAGTGATGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAGTGTTAATTTAATACCTTATGCTCGTAAGCTAGAAGTATTGTATG  >  CP000730/1009688‑1009960

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.