New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? KT2440 = 49188011 (0.020)46 (0.840) 29/230 NT 97.9% coding (6/789 nt) soj_1 Sporulation initiation inhibitor protein Soj
?KT2440 5216408 = NA (NA)intergenic (‑50/+386) rhaS_5/CJ019_01212 HTH‑type transcriptional activator RhaS/IS110 family transposase ISPpu9

CTGGTCATCGAGCCGTGCGGGTCGAGGTCGACGACGACCACGCGCTTGCCGGCCTCGGCCAGCAGGCCGGCCAGGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  KT2440/4918670‑4918801
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ctTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGTTCACTCTTCTATACGTGGTCACAGCAAGCTGTGCCGACAGGGATTAACGCCGATGCC  >  KT2440/5216408‑5216540
                                                                                                                                                                                                                                                                         
CTGGTCATCGAGCCGTGCGGGTCGAGGTCGACGACGACCACGCGCGTGCCGGCCTCGGCCAGCAGGCCGGCCAGGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTC                                                                                                                                     <  8:180662/134‑1
     CATCGAGCCGTGCGGGTCGAGGTCGACGACGACCACGCGCTTGCCGGCCTCGGCCAGCAGGCCTGCCAGGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAA                                                                                                                               <  7:170735/135‑1
     CATCGAGCCGTGCGGGTCGAGGTCGACGACGACCACGCGCTTGCCGGCCTCGGCCAGCAGGCCGGCCAGGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAA                                                                                                                               <  5:200281/135‑1
          AGCGGTGCGGGGCGAGGTCGACGACGACCACGCGCTTGCCGGCCTCGGCCAGCAGGCCGGCCAGGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAA                                                                                                                          <  2:367020/135‑1
           GCCGTGCGGGTCGAGGTCGACGACGACCACGCGCTTGCCGGCCTCGGCCAGCAGGCCGGCCAGGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACA                                                                                                                            >  5:102828/1‑132
            ccggggGGGTGGAGGTCGACGACGACCACGCGCTTGCCGGCCTCGGCCAGCAGGCGGGCCAGGGAAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAG                                                                                                                        <  7:144631/129‑1
             CGTGCGGGTCGAGGTCGACGACGACCACGCGCTTGCCGGCCTCGGCCAGCAGGCCGGCCAGGTCAATGGTAGTGGTGGTCTTGGCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAG                                                                                                                        <  8:9773/134‑1
               TGCGGGTCGAGGTCGACGACGACCACGCGCTTGCCGGCCTCGGCCAGCAGGCCGGCCAGGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATA                                                                                                                     <  2:4656/135‑1
               TGCGGGGCGAGGTCGACGACGACCACGCGCTTGCCGGCCTCGGCCAGCAGGCCGGCCTGGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATA                                                                                                                     <  1:188659/135‑1
                 CGGGTGGAGGTCGACGACGACCACGAGCTTGCCGGCCTCGGCCAGCAGGCCGGCCAGGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTGTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAAC                                                                                                                   <  8:152032/135‑1
                 CGGGTCGAGGTCGACGACGACCACGCGCTTGCCGGCCTCGGCCAGCAGGCCGGCCAGGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAAC                                                                                                                   <  4:258674/135‑1
                                 ACGACCACGCGCTTGCCGGCCTCGGCCAGCAGGCCGGCCAGGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAG                                                                                                   >  3:188319/1‑135
                                       ACGCGCTTGCCGGCCTCGGCCAGCAGGCCGGCCAGGGCAATGGTAGTGGTGGTCTTGCCGCCACCACCTTTTTGATTGGCTTCTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAA                                                                                              >  1:330812/1‑134
                                                CCGGCCTCGGCCAGCAGGCCGGCCAGGGCAATGGTAGTGGTGGGCGTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCG                                                                                    <  6:304987/135‑1
                                                 CGGCCTCGGCCAGCAGGCCGGCCAGGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGC                                                                                   <  2:107459/135‑1
                                                 CGGCCTCGGCCAGCAGGCAGGCCAGGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAACCAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGC                                                                                   <  7:13669/135‑1
                                                  GGCCTCGGCCAGCAGGCCGGCCAGGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCG                                                                                  >  4:366688/1‑135
                                                        GGCCAGCAGGCCGGCCAGGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGT                                                                            <  3:279442/135‑1
                                                                GGCCGGCCAGGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCG                                                                    <  1:393867/135‑1
                                                                GGCCGGCCAGGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCG                                                                    <  5:77443/135‑1
                                                                       CAGGGAAATGGTTGGGGTGGTCTTGCCGACACAACCTTTTTGATTGGCTAATGCCCAGACTTCTATCAAACAAAAGATACCCCCCTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGT                                                             <  5:216638/135‑1
                                                                         GGGCAATTGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTTCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGT                                                           <  5:259722/135‑1
                                                                         GGGCAATGGTCGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCACACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACCGGCGCGCGGGGTCAATGGCGGCGAAGTGT                                                           <  2:374264/135‑1
                                                                         GGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGT                                                           <  3:321519/135‑1
                                                                         GGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGT                                                           <  1:301732/135‑1
                                                                         GGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGT                                                           <  8:119655/135‑1
                                                                         GGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGT                                                           <  2:303288/135‑1
                                                                         GGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGT                                                           <  2:60154/135‑1
                                                                         GGGAAAGGGTCGTGGTGGTCTTGCCGACACCACCTTTTGGATTGGCTCCTGCCCAGACTTCTATCAAACAAACGATAACCCCCTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGT                                                           <  5:321778/135‑1
                                                                          GGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGTT                                                          <  3:185249/135‑1
                                                                           GCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGTTC                                                         <  3:279648/135‑1
                                                                                  TAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTTGCGAAAAAAACAGGCGCGCCGGGTCAATGGCGGCGAAGTGTTCACTCTT                                                   >  1:54824/1‑134
                                                                                  TAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGTTCACTCTT                                                   >  4:23203/1‑134
                                                                                  TAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGTTCACTCTT                                                   >  4:152897/1‑134
                                                                                     TGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGTTCACTCTTCTAT                                               <  5:111215/135‑1
                                                                                         GGTCTTTCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGTCGAAGTGTTCACTCTTCTATACGT                                           <  5:135889/135‑1
                                                                                             TTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGTTCACTCTTCTATACGTGGTC                                       >  6:126775/1‑135
                                                                                             TTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGGTCCCTCTTCTATACGTGGTC                                       >  8:150844/1‑135
                                                                                             TTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGG                                                                   >  5:180312/1‑107
                                                                                             TTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGG                                                                   <  6:180312/107‑1
                                                                                                  GACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGTTCACTCTTCTATACGTGGTCACAGC                                  >  3:128242/1‑135
                                                                                                  GACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGTTCACTCTTCTATACGTGGTCACAGC                                  <  6:102828/135‑1
                                                                                                   ACACCACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGTTCACTCTTCTATACGTGGTCACAGCA                                 <  4:188319/135‑1
                                                                                                        ACCTTTTTGATTGGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGTTCACTCTTCTATACGTGGTCACAGCAAGCTG                            >  8:230915/1‑135
                                                                                                                    GGCTACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATCGCGGCGAAGTGTTCACTCTTCTATACGTGGTCACAGCAAGCTGTGCCGACAGGGA                >  6:5767/1‑135
                                                                                                                      CTACTGCCCAGCCTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGCGGTCAATGGCGGCGAAGTGTTCACTCTTCTATACGTGGTCACAGCAAGCTGTGCCGACAGGGAT               >  6:346520/1‑134
                                                                                                                       TACTGCCCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGCGGTCAATGGCGGCGAAGTGTTCACTCTTCTATACGTGGTCACAGCAAGCTGTGCCGACAGGGATTA             >  3:96777/1‑135
                                                                                                                             CCAGACTTCTATCAAACAAACGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGTGTCAATGGCGGCGAAGTGTTCACTCTTCTATACTTGGTCACAGCAAGCTGTGCCGACAGGGATTAACGC         <  1:77287/133‑1
                                                                                                                             CCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGTTCACTCTTCTATACGTGGTCACAGCAAGCTGTGCCGACAGGGATTAACGCC        <  7:104336/134‑1
                                                                                                                             CCAGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGTTCACTCTTCTATACGTGGTCACAGCAAGCTGTGCCGACAGGGATTAACGCC        <  3:171099/134‑1
                                                                                                                               AGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGT                                                           <  3:377495/81‑1
                                                                                                                               AGACTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGT                                                           >  4:377495/1‑81
                                                                                                                                  CTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGTTCACTCTTCTATACGTGGTCACAGCAAGCTGTGCCGACAGGGATTAACGCCGATGCC  <  8:194378/135‑1
                                                                                                                                  CTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGTTCACTCTTCTATACGTGGTCACAGCAAGCTGTGCCG                       >  4:36248/1‑114
                                                                                                                                  CTTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGTTCACTCTTCTATACGTGGTCACAGCAAGCTGTGCCG                       <  3:36248/114‑1
                                                                                                                                                                                                                                                                         
CTGGTCATCGAGCCGTGCGGGTCGAGGTCGACGACGACCACGCGCTTGCCGGCCTCGGCCAGCAGGCCGGCCAGGGCAATGGTAGTGGTGGTCTTGCCGACACCACCTTTTTGATTGGCTACTGCCCAGACT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  KT2440/4918670‑4918801
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ctTCTATCAAACAAAAGATAACCCACTGTTCTTTCTAGCGAAAAAAACAGGCGCGCGGGGTCAATGGCGGCGAAGTGTTCACTCTTCTATACGTGGTCACAGCAAGCTGTGCCGACAGGGATTAACGCCGATGCC  >  KT2440/5216408‑5216540

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ 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.