New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 = 3741965NA (NA)80 (0.780) 37/48 NT 93.0% noncoding (1/768 nt) IS1 repeat region
?REL606 3742143 = 6 (0.060)pseudogene (223/405 nt) waaT UDP‑galactose:(Glucosyl) LPS alpha1,2‑galactosyltransferase WaaT

Only 100 of 128 total aligned reads displayed.

GAATACTTTCACTCAGATATTCAAAAGACAATACCCTGAAGTATGTCGCGTACGACCAAAACTGTGAC  >  REL606/3742110‑3742177
                                 |                                  
gAATACTTTCACTCAGATATTCAAAAGACAATAcc                                   <  1:19947892/35‑1 (MQ=255)
catacactaactcagtaagttggcagcatcacccc                                   >  1:12628856‑M2/34‑35 (MQ=255)
catacactaaatcagtaagttggcagcatcacccc                                   >  1:7955335‑M2/34‑35 (MQ=255)
catacactaaatcagtaagttggcagcatcacccc                                   <  1:11592000‑M2/2‑1 (MQ=255)
catacactaaatcagtaagttggcagcatcacccc                                   <  1:8255701‑M2/2‑1 (MQ=255)
catacactaaatcagtaagttggcagcatcacccc                                   <  1:19627159‑M2/2‑1 (MQ=255)
catacactaaatcagtaagttggcagcatcacccc                                   <  1:1059753‑M2/2‑1 (MQ=255)
catacactaaatcagtaagttggcagcatcacccc                                   <  1:2969322‑M2/2‑1 (MQ=255)
catacactaaatcagtaagttggcagcatcacccc                                   >  1:2990411‑M2/34‑35 (MQ=255)
 atacactaaatcagtaagttggcagcatcaccccc                                  >  1:12497626‑M2/33‑35 (MQ=255)
 atacactaaatcagtaagttggcagcatcaccccc                                  >  1:5408242‑M2/33‑35 (MQ=255)
 aaTCCTTTCACTCAGATATTCAAAAGACAATAccc                                  <  1:20599481/35‑1 (MQ=255)
  tacactaaatcagtaagttggcagcatcaccCCCt                                 <  1:20528968‑M2/4‑1 (MQ=255)
  tacactaaatcagtaagttggcagcatcaccCCCt                                 >  1:398021‑M2/32‑35 (MQ=255)
  tacactaaatcagtaagttggcagcatcaccCCCt                                 <  1:1763276‑M2/4‑1 (MQ=255)
  tacactaaatcagtaagttggcagcatcaccCCCt                                 <  1:19138096‑M2/4‑1 (MQ=255)
  tacactaaatcagtaagttggcagcatcaccCCCt                                 <  1:13929920‑M2/4‑1 (MQ=255)
   acactaaatcagtaagttggcagcatcaccCCCTg                                <  1:15506513‑M2/5‑1 (MQ=255)
   acactaaatcagtaagttggcagcatcaccCCCTg                                <  1:11437351‑M2/5‑1 (MQ=255)
    cactaaatcagtaagttggcagcatcaccCCCTGa                               <  1:11789356‑M2/6‑1 (MQ=255)
    cactaaatcagtaagttggcagcatcaccCCCTGa                               >  1:6391404‑M2/30‑35 (MQ=255)
     actaaatcagtaagttggcagcatcaccCCCTGaa                              >  1:19417802‑M2/29‑35 (MQ=255)
      ctaaatcagtaagttggcagcatcaccCCCTGAAg                             <  1:5129980‑M2/8‑1 (MQ=255)
      ctaaatcagtaagttggcagcatcaccCCCTGAAg                             >  1:12152402‑M2/28‑35 (MQ=255)
      ctaaatcagtaagttggcagcatcaccCCCTGAAg                             >  1:16270203‑M2/28‑35 (MQ=255)
       ttCACTCAGATATTCAAAAGACAATACCCTGAAGt                            <  1:19379765/35‑1 (MQ=255)
       taaatcagtaagttggcagcatcaccCCCTGAAGt                            <  1:13801616‑M2/9‑1 (MQ=255)
       taaatcagtaagttggcagcatcaccCCCTGAAGt                            <  1:5960916‑M2/9‑1 (MQ=255)
        aaatcagtaagttggcagcatcaccCCCTGAAGTa                           <  1:18280996‑M2/10‑1 (MQ=255)
        aaatcagtaagttggcagcatcaccCCCTGAAGTa                           >  1:5591522‑M2/26‑35 (MQ=255)
        aaatcagtaagttggcagcatcaccCCCTGAAGTa                           <  1:6779919‑M2/10‑1 (MQ=255)
        aaatcagtaagttggcagcatcaccCACTGAAGTa                           <  1:458091‑M2/10‑1 (MQ=255)
         aatcagtaagttggcagcatcaccCCCTGAAGTAt                          <  1:7970153‑M2/11‑1 (MQ=255)
          atcagtaatttggcagcatcaccCCCTGAAGTATg                         >  1:18061234‑M2/24‑35 (MQ=255)
           tcagtaagttggcagcatcaccCCCTGAAGTATGt                        <  1:2267144‑M2/13‑1 (MQ=255)
           tcagtaagttggcagcatcaccCCCTGAAGTATGt                        >  1:8321590‑M2/23‑35 (MQ=255)
           tcagtaagttggcagcatcaccCCCTGAAGTATGt                        <  1:14997950‑M2/13‑1 (MQ=255)
           tcagtaagttggcagcatcaccCCCTGAAGTATGt                        <  1:1320037‑M2/13‑1 (MQ=255)
           cTCAGATATTCAAAAGACAATACCCTGAAGTATGt                        >  1:9107757/1‑35 (MQ=255)
           cTCAGATATTCAAAAGACAATACCCTGAAGTATGt                        <  1:19226672/35‑1 (MQ=255)
           cTCAGATATTCAAAAGACAATACCCTGAAGTATGt                        <  1:16620613/35‑1 (MQ=255)
            cagtaagttggcagcatcaccCCCTGAAGTATGTc                       <  1:1744757‑M2/14‑1 (MQ=255)
            cagtaagttggcagcatcaccCCCTGAAGTATGTc                       <  1:19443575‑M2/14‑1 (MQ=255)
            cagtaagttggcagcatcaccACCTGAAGTATGTc                       <  1:548400‑M2/14‑1 (MQ=255)
             cAGATATTCAAAAGACAATACCCTGAAGTATGTcg                      >  1:6135338/1‑35 (MQ=255)
             agtaagttggcagcatcaccCCCTGAAGTATGTcg                      >  1:13123877‑M2/21‑35 (MQ=255)
             agtaagttggcagcatcaccCCCTGAAGTATGTcg                      >  1:66492‑M2/21‑35 (MQ=255)
              gtaagttggcagcatcaccCCCTGAAGTATGTcgc                     <  1:9529420‑M2/16‑1 (MQ=255)
              gtaagttggcagcatcaccCCCTGAAGTATGTcgc                     <  1:14231620‑M2/16‑1 (MQ=255)
               taagttggcagcatcaccCCCTGAAGTATGTcgcg                    >  1:16407572‑M2/19‑35 (MQ=255)
               taagttggcagcatcaccCCCTGAAGTATGTcgcg                    <  1:15214190‑M2/17‑1 (MQ=255)
               taagttggcagcatcaccCCCTGAAGTATGTcgcg                    >  1:10341834‑M2/19‑35 (MQ=255)
                aagttggcagcatcaccCCCTGAAGTATGTCGCGt                   >  1:14077579‑M2/18‑35 (MQ=255)
                aagttggcagcatcaccCCCTGAAGTATGTCGCGt                   <  1:1455046‑M2/18‑1 (MQ=255)
                 agttggcagcatcaccCCCTGGAGTATGTCGCGTa                  <  1:8409675‑M2/19‑1 (MQ=255)
                 agttggcagcatcaccCCCTGAAGTATGTCGCGTa                  <  1:13968762‑M2/19‑1 (MQ=255)
                 agttggcagcatcaccCCCTGAAGTATGTCGCGTa                  <  1:18244775‑M2/19‑1 (MQ=255)
                 agttggcagcatcaccCCCTGAAGTATGTCGCGTa                  <  1:11257832‑M2/19‑1 (MQ=255)
                 agttggcagcataaccCCCTGAAGTATGTCGCGTa                  <  1:15526474‑M2/19‑1 (MQ=255)
                   ttggcagcatcaccCCCTGAAGTATGTCGCGTACg                <  1:13917538‑M2/21‑1 (MQ=255)
                   ttggcagcatcaccCCCTGAAGTATGTCGCGTACg                >  1:7810300‑M2/15‑35 (MQ=255)
                   ttggcagcatcaccCCCTGAAGTATGTCGCGTACg                <  1:7012943‑M2/21‑1 (MQ=255)
                    tggcagcatcaccCCCTGAAGTATGTCGCGTACGa               <  1:16880599‑M2/22‑1 (MQ=255)
                    tggcagcatcaccCCCTGAAGTATGTCGCGTACGa               <  1:11242285‑M2/22‑1 (MQ=255)
                     ggcagcatcaccCCCTGAAGTATGTCGCGTACGAc              <  1:16298996‑M2/23‑1 (MQ=255)
                     ggcagcatcaccCCCTGAAGTATGTCGCGTACGAc              >  1:10096500‑M2/13‑35 (MQ=255)
                     cAAAAGACAATACCCTGAAGTATGTCGCGTAcaga              >  1:9807989/1‑32 (MQ=255)
                      gcagcatcaccCCCTGAAGTATGTCGCGTACGAcc             <  1:2689141‑M2/24‑1 (MQ=255)
                       cagcatcaccCCCTGAAGTATGTCGCGTACGACCa            <  1:16034741‑M2/25‑1 (MQ=255)
                       cagcatcaccCCCTGAAGTATGTCGCGTACGACCa            <  1:11099582‑M2/25‑1 (MQ=255)
                       cagcatcaccCCCTGAAGTATGTCGCGTACGACCa            <  1:9313785‑M2/25‑1 (MQ=255)
                       cagcatcaccCCCTGAAGTATGTCGCGTACGACCa            >  1:19603438‑M2/11‑35 (MQ=255)
                       cagcatcaccCCCTGAAGTATGTCGCGTACGACCa            >  1:3520169‑M2/11‑35 (MQ=255)
                       cagcatcaccCCCTGAAGTATGTCGCGTACGACCa            <  1:301329‑M2/25‑1 (MQ=255)
                        agcatcaccCCCTGAAGTATGTCGCGTACGACCaa           >  1:17880708‑M2/10‑35 (MQ=255)
                        agcatcaccCCCTGAAGTATGTCGCGTACGACCaa           >  1:17586473‑M2/10‑35 (MQ=255)
                        agcatcaccCCCTGAAGTATGTCGCGTACGACCaa           >  1:16979530‑M2/10‑35 (MQ=255)
                        agcatcaccCCCTGAAGTATGTCGCGTACGACCaa           >  1:13365914‑M2/10‑35 (MQ=255)
                         gcatcaccCCCTGAAGTATGTCGCGTACGACCaaa          >  1:19386668‑M2/9‑35 (MQ=255)
                         gcatcaccCCCTGAAGTATGTCGCGTACGACCaaa          <  1:9466880‑M2/27‑1 (MQ=255)
                         gcatcaccCCCTGAAGTATGTCGCGTACGACCaaa          <  1:11188796‑M2/27‑1 (MQ=255)
                           atcaccCCCTGAAGTATGTCGCGTACGACCAAAAc        >  1:11550226‑M2/7‑35 (MQ=255)
                            tccccCCCTGAAGTATGTCGCGTACGACCAAAACt       <  1:6045040‑M2/30‑1 (MQ=255)
                            tcaccCCCTGAAGTATGTCGCGTACGACCAAAACt       >  1:14358024‑M2/6‑35 (MQ=255)
                            tcaccCCCTGAAGTATGTCGCGTACGACAAAAACt       <  1:9787898‑M2/30‑1 (MQ=255)
                             taccCCCTGAAGTATGTCGCGTACGACCAAAACtg      <  1:5173083‑M2/31‑1 (MQ=255)
                             caccCCCTGAAGTATGTCGCGTACGACCAAAACtg      <  1:18198865‑M2/31‑1 (MQ=255)
                             caccCCCTGAAGTATGTCGCGTACGACCAAAACtg      <  1:8397776‑M2/31‑1 (MQ=255)
                              accCCCTGAAGTATGTCGCGTACGACCAAAACtgt     >  1:8031034‑M2/4‑35 (MQ=255)
                               ccCCCTGAAGTATGTCGCGTACGACCAAAACtgtg    <  1:3885832‑M2/33‑1 (MQ=255)
                               ccCCCTGAAGTATGTCGCGTACGACCAAAACtgtg    <  1:19077717‑M2/33‑1 (MQ=255)
                               ccCCCTGAAGTATGTCGCGTACGACCAAAACtgtg    <  1:4855282‑M2/33‑1 (MQ=255)
                               ccCCCTGAAGTATGTCGCGTACGAACAAAACtgtg    <  1:898270‑M2/33‑1 (MQ=255)
                                 cccTGAAGTATGTCGCGTACGACCAAAACTGTGAc  <  1:9878983/35‑1 (MQ=255)
                                 cccTGAAGTATGTCGCGTACGACCAAAACTGTGAc  <  1:9162582/35‑1 (MQ=255)
                                 cccTGAAGTATGTCGCGTACGACCAAAACTGTGAc  <  1:10500115/35‑1 (MQ=255)
                                 cccTGAAGTATGTCGCGTACGACCAAAACTGTGAc  <  1:15041090/35‑1 (MQ=255)
                                 cccTGAAGTATGTCGCGTACGACCAAAACTGTGAc  <  1:13713780/35‑1 (MQ=255)
                                 cccTGAAGTATGTCGCGTAAGACCAAAACTGTGAc  <  1:9547693/35‑1 (MQ=255)
                                 cccTGAAGTATGTAGCGTACGACCAAAACTGTGAc  <  1:19743752/35‑1 (MQ=255)
                                 |                                  
GAATACTTTCACTCAGATATTCAAAAGACAATACCCTGAAGTATGTCGCGTACGACCAAAACTGTGAC  >  REL606/3742110‑3742177

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ 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.