New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 929308 =57 (0.550)8 (0.120) 3/32 NT 13.8% coding (1214/1653 nt) hcp hydroxylamine reductase
?REL606 = 3040633 62 (0.910)coding (654/810 nt) pppA bifunctional prepilin leader peptidase/ methylase

GAGCCGTGAAAAACTGCGTCATATCTTCCTGCTTGGTGGCTG‑‑‑‑‑‑‑‑‑  <  REL606/929349‑929308
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggtggctgGGTGGGGGC  <  REL606/3040633‑3040625
                                                   
GAGCCGTGAAAAACTGCGTCATATCTTCCTGCTTG                  <  1:8697032/35‑1
GAGCCGTGAAAAACTGCGTCATATCTTCCTGCTTG                  <  1:14019631/35‑1
GAGCCGTGAAAAACTGCGTCATATCTTCCTGCTTG                  >  1:3531434/1‑35
GAGCCGTGAAAAAATGCGTCATATCTTCCTGCTTG                  <  1:13216269/35‑1
 AGCCGTGAAAAACTGCGTCATATCTTCCTGCTTGG                 >  1:2389808/1‑35
 AGCCGTGAAAAACTGCGTCATATCTTCCTGCTTGG                 >  1:14087547/1‑35
  GCCGTGAAAAACTGCGTCATATCTTCCTGCTTGGT                >  1:16499845/1‑35
  GCCGTGAAAAACTGCGTCATATCTTCCTGCTTGGT                <  1:10822863/35‑1
  GCCGTGAAAAACTGCGTCATATCTTCCTGCTTGGT                <  1:8690465/35‑1
  GCCGTGAAAAACTGCGTCATATCTTCCTGCTTGGT                <  1:7224239/35‑1
  GCCGTGAAAAACTGCGTCATATCTTCCTGCTTGGT                >  1:4897007/1‑35
   CCGTGAAAAACTGCGTCATATCTTCCTGCTTGGTG               >  1:6015423/1‑35
   CCGTGAAAAACTGCGTCATATCTTCCTGCTTGGTG               >  1:19391699/1‑35
   CCGTGAAAAACTGCGTCATATCTTCCTGCTTGGTG               >  1:1230972/1‑35
   CCGTGAAAAACTGCGTCATATCTTCCTGCTTGGTG               <  1:4476695/35‑1
   CCGTGAAAAACTGCGTCATATCTTCCTGCTTGGTG               >  1:19258832/1‑35
    CGTGAAAAACTGCGTCATATCTTCCTGCTTGGTGG              <  1:297935/35‑1
    CGTGAAAAACTGCGTCATATCTTCCTGCTTGGTGG              >  1:6663183/1‑35
    CGTGAAAAACTGCGTCATATCTTCCTGCTTGGTGG              >  1:12473451/1‑35
    CGTGAAAAACTGCGTCATATCTTCCTGCTTGGTGG              <  1:10144659/35‑1
    CGTGAAAAACTGCGTCATATCTTCCTGCTTGGTGG              >  1:907023/1‑35
    CGTGAAAAACTGCGTCATATCTTCCTGCTTGGTGG              >  1:5998528/1‑35
     GTGAAAAACTGCGTCATATCTTCCTGCTTGGTGGC             >  1:3899563/1‑35
     GTGAAAAACTGCGTCATATCTTCCTGCTTGGTGGC             >  1:16149748/1‑35
     GTGAAAAACTGCGTCATATCTTCCTGCTTGGTGGC             >  1:63378/1‑35
     GTGAAAAACTGCGTCATATCTTCCTGCTTGGTGGC             <  1:6674472/35‑1
      TGAAAAACTGCGTCATATCTTCCTGCTTGGTGGCT            <  1:1593351/35‑1
      TGAAAAACTGCGTCATATCTTCCTGCTTGGTGGCT            <  1:15287975/35‑1
      TGAAAAACTGCGTCATATCTTCCTGCTTGGTGGCT            >  1:366577/1‑35
      TGAAAAACTGCGTCATATCTTCCTGCTTGGTGGCT            <  1:17256731/35‑1
      TGAAAAACTGCGTCATATCTTCCTGCTTGGTGGCT            >  1:13097824/1‑35
      TGAAAAACTGCGTCATATCTTCCTGCTTGGTGGCT            >  1:11053098/1‑35
       GAAAAACTGCGTCATATCTTCCTGCTTGGTGGCTG           >  1:2985392/1‑35
       GAAAAACTGCGTCATATCTTCCTGCTTGGTGGCTG           <  1:4516807/35‑1
       GAAAAACTGCGTCATATCTTCCTGCTTGGTGGCTG           <  1:17668492/35‑1
       GAAAAACTGCGTCATATCTTCCTGCTTGGTGGCTG           >  1:5555284/1‑35
       GAAAAACTGCGTCATATCTTCCTGCTTGGTGGCTG           <  1:16079966/35‑1
       GAAAAACTGCGTCATATCTTCCTGCTTGGTGGCTG           <  1:13356973/35‑1
       GAAAAACTGCGTCATATCTTCCTGCTTGGTGGCTG           >  1:13162233/1‑35
       GAAAAACTGCGTCATATCTTCCTGCTTGGTGGCTG           <  1:9423549/35‑1
        AAAAACTGCGTCATATCTTCCTGCTTGGTGGCTGG          >  1:1005664/1‑35
        AAAAACTGCGTCATATCTTCCTGCTTGGTGGCTGG          >  1:12961045/1‑35
         AAAACTGCGTCATATCTTCCTGCTTGGTGGCTGGG         >  1:6610857/1‑35
         AAAACTGCGTCATATCTTCCTGCTTGGTGGCTGGG         >  1:16795657/1‑35
         AAAACTGCGTCATATCTTCCTGCTTGGTGGCTGGG         >  1:17370305/1‑35
          AAACTGCGTCATATCTTCCTGCTTGGTGGCTGGGg        >  1:13517933/1‑34
           AACTGCGTCATATCTTCCTGCTTGGTGGCTGGGgg       >  1:13805929/1‑33
           AACTGCGTCATATCTTCCTGCTTGGTGGCTGGGgg       >  1:10921807/1‑33
            ACTGCGTCATATCTTCCTGCTTGGTGGCTGGGgcg      >  1:16149109/1‑32
            ACTGCGTCATATCTTCCTGCTTGGTGGCTGGGgag      >  1:7910823/1‑32
            ACTGCGTCATATCTTCCTGCTTGGTGGCTGGGGGG      >  1:20538303/1‑35
            ACTGCGTCATATCTTCCTGCTTGGTGGCTGGGGGG      >  1:2863724/1‑35
              TGCGTCATATCTTCCTGCTTGGTGGCTGGGGGGGG    >  1:18643903/1‑35
              TGCGTCATATCTTCCTGCTTGGTGGCTGGGGGGGG    >  1:1932291/1‑35
              TGCGTCATATCTTCCTGCTTGGTGGCTGGGGGGGG    >  1:12978814/1‑35
              TGCGTCATATCTTCCTGCTTGGTGGCTGGGGGGGG    >  1:12064066/1‑35
               GCGTCATATCTTCCTGCTTGGTGGCTGGGGGGGGG   >  1:1236225/1‑35
               GCGTCATATCTTCCTGCTTGGTGGCTGGGGGGGGG   >  1:10088027/1‑35
                CGTCATATCTTCCTGCTTGGTGGCTGGGGGGGGGC  >  1:18405914/1‑35
                CGTCATATCTTCCTGCTTGGTGGCTGGGGGGGGGC  >  1:6659227/1‑35
                                                   
GAGCCGTGAAAAACTGCGTCATATCTTCCTGCTTGGTGGCTG‑‑‑‑‑‑‑‑‑  <  REL606/929349‑929308
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggtggctgGGTGGGGGC  <  REL606/3040633‑3040625

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 32 ≤ 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.