New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 558248 =18 (0.180)6 (0.090) 4/32 NT 19.7% coding (185/294 nt) ECB_00516 conserved hypothetical protein
?REL606 3001100 = 37 (0.540)coding (1537/2847 nt) flu antigen 43 (Ag43) phase‑variable biofilm formation autotransporter

TTGCCACATCCCATGCACGTGTATCAAAACCGCCCCACCACG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  REL606/558289‑558248
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccaccacgAACCTCACCGGCCAGGGCGGCACCATCAATATGC  >  REL606/3001100‑3001133
                                                                            
TTGCCACNTCCCATGCACGTGTATCAAAACCGCCC                                           >  1:15531745/1‑35
TTGCCACATCCCATGCACGTGTATCAAAACCGCCC                                           >  1:16311343/1‑35
TTGCCACATCCCATGCACGTGTATCAAAACCGCCC                                           >  1:2249229/1‑35
TTGCCACATCCCATGCACGTGTATCAAAACCGCCC                                           >  1:18673013/1‑35
 TGCCACATCCCATGCACGTGTATCAAAACCGCCCC                                          >  1:13106729/1‑35
  GCCACGTCCCATGCACGTGTATCAAAACCGCCCCA                                         >  1:3780888/1‑35
   CCACATCCCATGCACGTGTATCAAAACCGCCCCAC                                        >  1:19066617/1‑35
    CACATCCCATGCACGTGTATCAAAACCGCCCCACa                                       >  1:10579384/1‑34
    CACATCCCATGCACGTGTATCAAAACCGCCCCACC                                       >  1:12750349/1‑35
    CACATCCCATGCACGTGTATCAAAACCGCCCCACC                                       >  1:16406102/1‑35
     ACATCCCATGCACGTGTATCAAAACCGCGCCACCA                                      >  1:18501749/1‑35
     ACATCCCATGCACGTGTATCAAAACCGCCCCACCA                                      >  1:6576126/1‑35
     ACATCCCATGCACGTGTATCAAAACCGCCCCACCA                                      >  1:11251802/1‑35
     ACATCCCATGCACGTGTATCAAAACCGCCCCACCA                                      >  1:14674951/1‑35
      CATCCCATGCACGTGTATCAAAACCGCCCCACCAC                                     >  1:11872392/1‑35
         CCCATGCACGTGTATCAAAACCGCCCCACCACtgc                                  >  1:11956163/1‑32
                       caAAAACCGCCCCACCACGAACCTCACCGGCCAGG                    <  1:6977799/33‑1
                        CAAAACCTCCCCACCACGAACCTCACCGGCCAGGG                   <  1:6061973/35‑1
                        CAAAAACGCCCCACCACGAACCTCACCGGCCAGGG                   <  1:15085725/35‑1
                         AAAAACGCCCCACCACGAACCTCACCGGCCAGGGC                  <  1:1951617/35‑1
                           aaaCGCCCCACCACGAACCTCACCGGCCAGGGCGG                <  1:12257482/32‑1
                           AACCTCCCCACCACGAACCTCACCGGCCAGGGCGG                <  1:4845574/35‑1
                            ACCCCCCCACCACGAACCTCACCGGCCAGGGCGGC               <  1:3966123/35‑1
                             actCCCCACCACGAACCTCACCGGCCAGGGCGGCA              <  1:5399816/32‑1
                              ccgCCCACCACGAACCTCACCGGCCAGGGCGGCAC             <  1:2694370/32‑1
                                CCCCACCACGAACCTCACCGGCCAGGGCGGCACCA           <  1:11020646/35‑1
                                  CCACCACGAACCTCACCGGCCAGGGCGGCACCATC         >  1:12920923/1‑35
                                  CCACCACGAACCTCACCGGCCAGGGCGGCACCATC         <  1:3791107/35‑1
                                  CCACCACGAACCTCACCGGCCAGGGCGGCACCATC         >  1:18939566/1‑35
                                   CACCACGAACCTCACCGGCCAGGGCGGCACCATCA        >  1:3885779/1‑35
                                   CACCACGAACCTCACCGGCCAGGGCGGCACCATCA        >  1:16547309/1‑35
                                   CACCACGAACCTCACCGGCCAGGGCGGCACCATCA        <  1:4214927/35‑1
                                   CACCACGAACCTCACCGGCCAGGGCGGCACCATCA        <  1:412958/35‑1
                                   CACCACGAACCTCACCGGCCAGGGCGGCACCATCA        <  1:8260426/35‑1
                                    ACCACGAACCTCACCGGCCAGGGCGGCACCATCAA       <  1:12744747/35‑1
                                    ACCACGAACCTCACCGGCCAGGGCGGCACCATCAA       <  1:197425/35‑1
                                    ACCACGAACCTCACCGGCCAGGGCGGCACCATCAA       >  1:9861478/1‑35
                                     CCACGAACCTCACCGGCCAGGGCGGCACCATCAAT      >  1:629482/1‑35
                                     CCACGAACCTCACCGGCCAGGGCGGCACCATCAAT      >  1:2879783/1‑35
                                     CCACGAACCTCACCGGCCAGGGCGGCACCATCAAT      <  1:15315935/35‑1
                                     CCACGAACCTCACCGGCCAGGGCGGCACCATCAAT      <  1:1454657/35‑1
                                      aACGAACCTCACCGGCCAGGGCGGCACCATCAATA     <  1:12566762/34‑1
                                      CACGAACCTCACCGGCCAGGGCGGCACCATCAATA     >  1:6059037/1‑35
                                      CACGAACCTCACCGGCCAGGGCGGCACCATCAATA     >  1:3290798/1‑35
                                      CACGAACCTCACCGGCCAGGGCGGCACCATCAATA     >  1:2736372/1‑35
                                      CACGAACCTCACCGGCCAGGGCGGCACCATCAATA     >  1:2570527/1‑35
                                      CACGAACCTCACCGGCCAGGGCGGCACCATCAATA     >  1:8114716/1‑35
                                      CACGAACCTCACCGGCCAGGGCGGCACCATCAATA     >  1:14039183/1‑35
                                      CACGAACCTCACCGGCCAGGGCGGCACCATCAATA     >  1:13376837/1‑35
                                      CACGAACCTCACCGGCCAGGGCGGCACCATCAATA     >  1:11838075/1‑35
                                       ACGAACCTCACCGGCCAGGGCGGCACCATCAATAT    <  1:8018887/35‑1
                                       ACGAACCTCACCGGCCAGGGCGGCACCATCAATAT    <  1:842587/35‑1
                                       ACGAACCTCACCGGCCAGGGCGGCACCATCAATAT    >  1:8667352/1‑35
                                       ACGAACCTCACCGGCCAGGGCGGCACCATCAATAT    >  1:2190732/1‑35
                                       ACGAACCTCACCGGCCAGGGCGGCACCATCAATAT    <  1:20171631/35‑1
                                       ACGAACCTCACCGGCCAGGGCGGCACCATCAATAT    >  1:15227045/1‑35
                                       ACGAACCTCACCGGCCAGGGCGGCACCATCAATAT    >  1:12338401/1‑35
                                        CGAACCTCACCGGCCAGGGCGGCACCATCAATATG   >  1:9392529/1‑35
                                        CGAACCTCACCGGCCAGGGCGGCACCATCAATATG   >  1:3115348/1‑35
                                        CGAACCTCACCGGCCAGGGCGGCACCATCAATATG   >  1:6303750/1‑35
                                        CGAACCTCACCGGCCAGGGCGGCACCATCAATATG   >  1:20534432/1‑35
                                        CGAACCTCACCGGCCAGGGCGGCACCATCAATATG   <  1:14778570/35‑1
                                         GAACCTCACCGGCCAGGGCGGCACCATCAATATGC  <  1:9899153/35‑1
                                         GAACCTCACCGGCCAGGGCGGCACCATCAATATGC  >  1:4659178/1‑35
                                         GAACCTCACCGGCCAGGGCGGCACCATCAATATGC  <  1:4079007/35‑1
                                         GAACCTCACCGGCCAGGGCGGCACCATCAATATGC  >  1:1002043/1‑35
                                                                            
TTGCCACATCCCATGCACGTGTATCAAAACCGCCCCACCACG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  REL606/558289‑558248
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccaccacgAACCTCACCGGCCAGGGCGGCACCATCAATATGC  >  REL606/3001100‑3001133

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ 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.