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

CATTCCCATTCTGGAAACGTGTGCACGATTCTTTCATATCAAGTGATGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAGTGTTAATTTAATACCTTATGCTCGTA  >  CP000730/1009668‑1009942                                                                                                                                         |                                                                                                                                           cattcccattcTGGAAACGTGTGCACGATTCTTTCATATCAAGTGATGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAgcgc                                                                                                                                        >  1:310536/1‑141 (MQ=255)    tcccattcTGGAAACGTGTGCACGATTCTTTCATATCAAGTGATGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCAt                                                                                                                                     <  2:400248/141‑1 (MQ=255)    catacaatacttctagcttacgagcataaggtattaaattaacactcggtatttctcgcggtaaatgaatttctaatatatcatttgtcattaattgcttacgcactgtgactggttcatcattaacaattaaAGCGCCAt                                                                                                                                     >  2:434147‑M1/134‑141 (MQ=255)    catacaatacttctagcttacgagcataaggtattaaattaacactcggtatttctcgcggtaaatgaatttctaatatatcatttgtcattaattgcttacgcactgtgactggttcatcattaacaattaaAGCGCCAt                                                                                                                                     <  1:81964‑M1/8‑1 (MQ=255)          tcTGGAAACGTGTGCACGATTCTTTCATATCAAGTGATGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTaaaaa                                                                                                                               <  1:66515/141‑1 (MQ=255)            tGGAAACGTGTGCACGATTCTTTCATATCAAGTGATGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAaata                                                                                                                             <  1:360274/141‑1 (MQ=255)                 aCGTGTGCACGATTCTTTCATATCAAGTGATGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGCACCTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGgc                                                                                                                        <  1:504631/141‑1 (MQ=255)                  agcttacgagcataaggtattaaattaacactcggtatttctcgcggtaaatgaatttctaatatatcatttgtcattaattgcttacgcactgtgactggttcatcattaacaattaaAGCGCCATTAAAAATAATGgcg                                                                                                                       >  1:331995‑M1/120‑141 (MQ=255)                     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)                                                                             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              <  1:485291/141‑1 (MQ=255)                                                                                                                           cTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAGTGTTAATTTAATAc              <  1:80740/141‑1 (MQ=255)                                                                                                                                 acaattaaAGCGCCATTATTTTTAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAAt                                                    >  2:341333‑M1/9‑97 (MQ=255)                                                                                                                                 acaattaaAGCGCCATTATTTTTAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAAt                                                    <  1:341333‑M1/89‑1 (MQ=255)                                                                                                                                      gTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAGTGTTAATTTAATACCTTATGCTCGt   <  1:372671/141‑1 (MQ=255)                                                                                                                                      gTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAGTGTTAATTTAATACCTTATGCTCGt   <  1:11607/141‑1 (MQ=255)                                                                                                                                       tGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAGTGTTAATTTAATACCTTATGCTCGTa  >  2:106137/1‑141 (MQ=255)                                                                                                                                         |                                                                                                                                           CATTCCCATTCTGGAAACGTGTGCACGATTCTTTCATATCAAGTGATGAAGAACGATGAAATTTAAGTATCATATATCACAACAAGAAACTGTTAAAACTTTTTTAGCACGACATGATTTTTCTAAGAAGACAGTGAGCGCCATTAAAAATAATGGCGCTTTAATTGTTAATGATGAACCAGTCACAGTGCGTAAGCAATTAATGACAAATGATATATTAGAAATTCATTTACCGCGAGAAATACCGAGTGTTAATTTAATACCTTATGCTCGTA  >  CP000730/1009668‑1009942

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.