New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP009273 = 1986176228 (0.630)12 (0.040) 6/96 NT 5.1% coding (123/549 nt) pgsA phosphatidylglycerophosphate synthetase
?CP009273 = 1986190 250 (0.810)coding (109/549 nt) pgsA phosphatidylglycerophosphate synthetase

Only 100 of 356 total aligned reads displayed.

TCTGGTTCCAGCGGCGTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATGGGATAAGGAT  >  CP009273/1986124‑1986256
                                                                  |                                                                  
tctGGTTCCAGCGGCGTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGc                                                                   <  1:3276133‑M2/68‑2 (MQ=255)
   ggTTCCAGCGGCGTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGcgcg                                                                <  1:29808747‑M2/68‑5 (MQ=255)
   ggTTCCAGCGGCGTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGcgcg                                                                <  1:6683253‑M2/68‑5 (MQ=255)
     ttCCAGCGGCGTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGcgcggc                                                              <  1:23818457‑M2/68‑7 (MQ=255)
     ttCCAGCGGCGTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGcgcggc                                                              <  1:7587658‑M2/68‑7 (MQ=255)
      tCCAGTGGCGTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGcgcggc                                                              >  1:940409‑M2/1‑61 (MQ=255)
      tCCAGCGGCGTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGcgcggcg                                                             <  1:2429599‑M2/68‑8 (MQ=255)
      tCCAGCGGCGTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGcgcggcg                                                             <  1:14181185‑M2/68‑8 (MQ=255)
      tCCAGCGGCGTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGcgcggcg                                                             <  1:7271605‑M2/68‑8 (MQ=255)
       ccAGCGGCGTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGcgcggcgg                                                            >  1:11959541‑M2/1‑60 (MQ=255)
       ccAGCGGCGTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGcgcggcgg                                                            >  1:2194470‑M2/1‑60 (MQ=255)
       ccAGCGGCGTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGcgcggcg                                                             <  1:29388505‑M2/67‑8 (MQ=255)
        cAGCGGCGTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGcgcggcggt                                                           >  1:18345749‑M2/1‑59 (MQ=255)
          gcggcgTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCaa                                                         >  1:21228541/1‑68 (MQ=255)
          gcggcgTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCaa                                                         >  1:20479032/1‑68 (MQ=255)
          gcggcgTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCaa                                                         >  1:381517/1‑68 (MQ=255)
          gcggcgTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCaa                                                         >  1:886619/1‑68 (MQ=255)
          gcggcgTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCaa                                                         >  1:14744365/1‑68 (MQ=255)
          gcggcgTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCaa                                                         >  1:1534205/1‑68 (MQ=255)
           cggcgTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCaa                                                         >  1:10933706/1‑67 (MQ=255)
           cggcgTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCaa                                                         >  1:13989517/1‑67 (MQ=255)
            ggcgTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAAc                                                       >  1:2820593/1‑68 (MQ=255)
               gTGCCAGACAACCATCGACCCAGGCAGTCACCGCCGCGACGCAGAAAATGAGcgcggcggtgactga                                                     >  1:1669744‑M2/1‑52 (MQ=255)
               gTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGcgcggcggtgactga                                                     >  1:25272853‑M2/1‑52 (MQ=255)
               gTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGcgcggcggtgactga                                                     >  1:21551140‑M2/1‑52 (MQ=255)
                   cAGAAAACCATCGAACCAGTCCGTCCCCCCCGCGACGCAGAAAATGAGcgcggcggtgactgactggt                                                >  1:3343476‑M2/1‑48 (MQ=255)
                   cAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGAcc                                                <  1:16152671/68‑1 (MQ=255)
                       aaaCCATCGAACCAGTCAGTCACCGCCGCGTAGCAGAAAATGCGCGCGGCGGCAAACGGCGACCAGGt                                            >  1:24565130/1‑68 (MQ=255)
                       aaaCCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGcgcggcggtgactgactggttcg                                             >  1:12119544‑M2/1‑44 (MQ=255)
                       aaaCCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGt                                            <  1:26479496/68‑1 (MQ=255)
                       aaaCCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGt                                            <  1:19353518/68‑1 (MQ=255)
                       aaaCCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGt                                            <  1:526498/68‑1 (MQ=255)
                       aaaCCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGt                                            <  1:20002013/68‑1 (MQ=255)
                       aaaCCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGt                                            <  1:10663209/68‑1 (MQ=255)
                       aaaCCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGt                                            <  1:13288537/68‑1 (MQ=255)
                       aaaCCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGt                                            >  1:27844684/1‑68 (MQ=255)
                       aaaCCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGt                                            <  1:26665365/68‑1 (MQ=255)
                       aaaCCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGt                                            <  1:23967036/68‑1 (MQ=255)
                        aaCCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTg                                           >  1:17438107/1‑68 (MQ=255)
                         aCCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTg                                           >  1:29162312/1‑67 (MQ=255)
                              cGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGc                                     <  1:20865796/68‑1 (MQ=255)
                                  ccAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGAt                                 <  1:7385777/68‑1 (MQ=255)
                                  ccAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGAt                                 <  1:28984638/68‑1 (MQ=255)
                                  ccAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGAt                                 <  1:17898666/68‑1 (MQ=255)
                                  ccAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGAt                                 <  1:15734073/68‑1 (MQ=255)
                                  ccAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGAt                                 <  1:6782794/68‑1 (MQ=255)
                                   cagtcagtCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATa                                <  1:2755472/68‑1 (MQ=255)
                                   cagtcagtCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATa                                <  1:9084042/68‑1 (MQ=255)
                                   cagtcagtCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATa                                <  1:783001/68‑1 (MQ=255)
                                   cagtcagtCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATa                                <  1:10259520/68‑1 (MQ=255)
                                   cagtcagtCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATa                                <  1:11686959/68‑1 (MQ=255)
                                   cagtcagtCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATa                                <  1:20571823/68‑1 (MQ=255)
                                          tcaCCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGAcc                         >  1:11442416/1‑68 (MQ=255)
                                          tcaCCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGAcc                         >  1:18100120/1‑68 (MQ=255)
                                           caCCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGa                           <  1:5658822/65‑1 (MQ=255)
                                           caCCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGa                           <  1:5467665/65‑1 (MQ=255)
                                           caCCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGAcc                         <  1:1679096/67‑1 (MQ=255)
                                           caCCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCa                        >  1:26785921/1‑68 (MQ=255)
                                            aCCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCaa                       >  1:9558007/1‑68 (MQ=255)
                                            aCCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCaa                       <  1:20234678/68‑1 (MQ=255)
                                             ccgccgCGACGCAGTAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAAt                      >  1:3451431/1‑68 (MQ=255)
                                             ccgccgCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTTACAGGCAGATAAAAGACCAAt                      <  1:23440300/68‑1 (MQ=255)
                                             ccgccgCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAAt                      <  1:21653460/68‑1 (MQ=255)
                                             ccgccgCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAAt                      <  1:28549257/68‑1 (MQ=255)
                                             ccgccgCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAAt                      <  1:19634515/68‑1 (MQ=255)
                                             ccgccgCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAAt                      <  1:18268901/68‑1 (MQ=255)
                                             ccgccgCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAAt                      >  1:2497613/1‑68 (MQ=255)
                                             ccgccgCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAAt                      <  1:26319428/68‑1 (MQ=255)
                                             ccgccgCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAAt                      <  1:15085906/68‑1 (MQ=255)
                                             ccgccgCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAAt                      <  1:4862777/68‑1 (MQ=255)
                                              cgccgcGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATa                     <  1:1120217/68‑1 (MQ=255)
                                               gccgcGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATAc                    >  1:27292021/1‑68 (MQ=255)
                                               gccgcGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATAc                    <  1:8406106/68‑1 (MQ=255)
                                               gccgcGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATAc                    <  1:2219542/68‑1 (MQ=255)
                                                ccgcGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACa                   >  1:7942776/1‑68 (MQ=255)
                                                    gACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGa               <  1:24145950/68‑1 (MQ=255)
                                                         aGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATgg           <  1:4646794/67‑1 (MQ=255)
                                                         aGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATgg           <  1:15610333/67‑1 (MQ=255)
                                                         aGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATgg           <  1:24770949/67‑1 (MQ=255)
                                                           aaaaTGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATggg          <  1:4497757/66‑1 (MQ=255)
                                                            aaaTGAGCGCGGCGGCAAACGGCGACCAGGTTACAGGCAGATAAAAGACCAATACAAAGAATggg          <  1:12497861/65‑1 (MQ=255)
                                                            aaaTGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCTGATAAAAGACCAATACAAAGAATggg          <  1:12225660/65‑1 (MQ=255)
                                                            aaaTGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATggg          <  1:7506630/65‑1 (MQ=255)
                                                            aaaTGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATggg          <  1:2740795/65‑1 (MQ=255)
                                                            aaaTGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATggg          <  1:21046320/65‑1 (MQ=255)
                                                            aaaTGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATggg          <  1:27073507/65‑1 (MQ=255)
                                                            aaaTGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATggg          <  1:5050258/65‑1 (MQ=255)
                                                            aaaTGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATggg          <  1:26011324/65‑1 (MQ=255)
                                                            aaaTGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATggg          <  1:12875736/65‑1 (MQ=255)
                                                            aaaTGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATggg          <  1:6445506/65‑1 (MQ=255)
                                                            aaaTGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATggg          <  1:23092610/65‑1 (MQ=255)
                                                             aaTGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATGGGATaa      <  1:11333236/68‑1 (MQ=255)
                                                             aaTGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATGGGATaa      <  1:1008276/68‑1 (MQ=255)
                                                             aaTGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATGGGATaa      >  1:25410697/1‑68 (MQ=255)
                                                               tGAGCGCGTCGGCAAACGGCGACCAGGTGACAGGAAGATAAAATACAAATACAAAGAATGGGATAAgg    <  1:8643234/68‑1 (MQ=255)
                                                               tGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATGGGATAAgg    >  1:13641137/1‑68 (MQ=255)
                                                               tGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATGGGATAAgg    >  1:17695140/1‑68 (MQ=255)
                                                               tGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATGGGATAAgg    <  1:18931967/68‑1 (MQ=255)
                                                               tGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATGGGATAAgg    <  1:6257237/68‑1 (MQ=255)
                                                                 aGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATGGGATAAGGAt  >  1:3909489/1‑68 (MQ=255)
                                                                  |                                                                  
TCTGGTTCCAGCGGCGTGCCAGAAAACCATCGAACCAGTCAGTCACCGCCGCGACGCAGAAAATGAGCGCGGCGGCAAACGGCGACCAGGTGACAGGCAGATAAAAGACCAATACAAAGAATGGGATAAGGAT  >  CP009273/1986124‑1986256

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.