Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
JC	NZ_CP034943	607,746	Δ45 bp	8.4%	coding (589‑633/1125 nt)	EO946_RS03185 →	collagen‑like protein

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NZ_CP034943	= 607745	285 (0.910)	28 (0.090)	10/238	NT	8.4%	coding (588/1125 nt)	EO946_RS03185	collagen‑like protein
	?	NZ_CP034943	607791 =	339 (1.140)					coding (634/1125 nt)	EO946_RS03185	collagen‑like protein

AGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NZ_CP034943/607601‑607745 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cggaccaGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGCAGCTGGGTTATCCGAATACGGGTATATATATAACTTAAGCGCTCAAACGGTAGCTATAG  >  NZ_CP034943/607791‑607926                                                                                                                                                                                                                                                                                              AGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGACGCCGGACCAACCGGAGCGACAGGAGCTACCGGGGAACCCGGACCAGCCGGAGCGACAGGAGCTACCGGCGCAGCCG                                                                                                                                                  >  2:460771/1‑140   CCGGAGCGACCGGAGCTACCGGTGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCACCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGA                                                                                                                                                <  2:4070879/140‑1                 GCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGGCAGGAGCCACCGGGGCAGCCGGCGAAGCCGGAGCGACACGAGCGACCGGGGAAGCCGGACCCTCCGGAGCGcc                                                                                                                                  >  2:2417788/1‑138                                                              ctgccgGGACCCACGGGAGCCACAGGAGCTACCGGGGAAGCCGGACCAGCCGGTGCGACAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACGGGAGCCAC                                                                                     <  1:1209913/134‑1                                                                                   ACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGC                                                             >  1:101911/1‑140                                                                                    CAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGG                                                                                                                                                 >  2:866705/1‑58                                                                                                  GAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGG                                                                                                                               >  2:5031665/1‑62                                                                                                  GAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGG                                                                                                                               <  1:5031665/62‑1                                                                                                    AGCCGGACCAACCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCCCAGGAGCAGCTGCCTTAGCCCAAT                                            >  2:4753553/1‑140                                                                                                     cCCGGACCAACGGGAGCGACAGGTGCTACCGGGGAAGGCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGCAGCTGGGTTATCCGAATA                                           <  1:4753553/139‑1                                                                                                     GCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGG                                                                                           <  2:3283515/95‑1                                                                                                     GCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGG                                                                                           >  1:3283515/1‑95                                                                                                     GCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGG                                                                                                    <  2:2831239/86‑1                                                                                                     GCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGG                                                                                                    >  1:2831239/1‑86                                                                                                          ACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAGCCGG                                                                                                                                        >  2:1285646/1‑45                                                                                                          ACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAGCCGG                                                                                                                                        <  1:1285646/45‑1                                                                                                          ACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAGC                                                                                                                                           >  1:2063267/1‑42                                                                                                                    GCGACAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGG                                                                                                                      <  1:4914629/53‑1                                                                                                                    GCGACAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGG                                                                                                                      >  2:4914629/1‑53                                                                                                                     ccACAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGG                                                                                                                     <  1:4467628/51‑1                                                                                                                     ccACAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTA                                                                                                                          <  1:1360278/46‑1                                                                                                                     ccACAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTA                                                                                                                          >  2:1360278/3‑48                                                                                                                     ccACAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCGACCGGG                                                                                                                     >  2:4467628/3‑53                                                                                                                        CAGGAGCTACCGGGGAAGCCGGACCAGCCGGCGCGACAGGAGCTACCGGGGAAGCCGG                                                                                                             <  1:866705/58‑1                                                                                                                                actGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGA                                                                                                   <  2:2961880/57‑1                                                                                                                                actGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGA                                                                                                   >  1:2704710/4‑60                                                                                                                                actGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGA                                                                                                   <  2:1840287/57‑1                                                                                                                                acgGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGA                                                                                                   <  2:2704710/57‑1                                                                                                                                ACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACAGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGCAGCTGGGTTATCCGAATACGGGTATAGATATAACTTAAGCGATCA                >  1:3478815/1‑140                                                                                                                                 cctGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTCCCGGGGAAGCAGGACCAACCGGAGCGACAGGAGCTACCGGGGAAGCCACAGGCACAGGAGCAGCTGGGTTATCCGAATACGGGTATATATATAACTTAAGCGCT                  <  1:1879204/137‑1                                                                                                                                 CCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG                                                                                >  2:74407/1‑76                                                                                                                                 CCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG                                                                                <  1:74407/76‑1                                                                                                                                   GGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGCAGCTGGGTTATCCGAATACGGGTATATATATAACTTAAGCGCTCAAAC             <  1:1147295/140‑1                                                                                                                                     GGAAGGCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGCAGCTGGGTTATCCGAATACGGGTATATATATAACTTAAGCGCTCAAACGG           <  1:4920028/140‑1                                                                                                                                           tGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGCAGCTGGGTTATCCGAATACGGGT                                      >  2:745470/2‑107                                                                                                                                           tGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGCAGCTGGGTTATCCGAATACGGGT                                      <  1:745470/106‑1                                                                                                                                           CGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGCAGCTGGGTTATCCGAATACGGGTATATATATAACTTAAGCGCTCAAACGGTAGCTA     >  2:3967700/1‑140                                                                                                                                           CGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGCAGCTGGGTTATCCGAATACGGGTATATATATAACTTAAGCGCTCAAACGGTAGCTA     >  2:2323181/1‑140                                                                                                                                           CGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGCAGCTGGGTTATCCGAATACGGGTATATATATAACTTAAGCGCTCAAACGGTAGCTA     >  2:3652306/1‑140                                                                                                                                           CGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGCAGCTGGGTTATCCGAATACGGGTATATATATAACTTAAGCGCTCAAACGGTAGCTA     >  1:2961555/1‑140                                                                                                                                           CGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGCAGCTGGGTTATCCGAATACGGGTATATATATAACTTAAGCGCTCAAACGGTAGCTA     >  2:1739897/1‑140                                                                                                                                           CGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGCAGCTGGGTTATCCGAATACGGGTATATATATAACTTAAGCGCTCAAACGGTAGCTA     >  2:233392/1‑140                                                                                                                                           CGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGCAGCTGGGTTATCCGAATACGGGT                                      >  2:3395423/1‑107                                                                                                                                           CGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGCAGCTGGGTTATCCGAATACGGGT                                      <  1:3395423/107‑1                                                                                                                                           CGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGCAGCTGGG                                                      <  2:2895768/91‑1                                                                                                                                           CGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGCAGCTGGG                                                      >  1:2895768/1‑91                                                                                                                                            GGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGCAGCTGGGTTATCCGAATACGGGTATATATATAACTTAAGCGCTCAAACGGT          <  1:1924902/134‑1                                                                                                                                            GGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGCAGCTGGGTTATCCGAATACGGGTATATATATAACTTAAGCGCTCAAACGGT          >  2:1924902/1‑134                                                                                                                                              ACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGCAGCTGGGTTATCCGAATACGGGTCTATATATAACTTAAGCGCTCAAACGGTAGCTATAG  >  1:619430/1‑140                                                                                                                                                                                                                                                                                              AGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NZ_CP034943/607601‑607745 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cggaccaGCCGGAGCGACAGGAGCTACCGGGGAAGCCGGACCAACCGGAGCGACAGGAGCCAC‑‑GGG‑AGCCACAGGCACAGGAGCAGCTGGGTTATCCGAATACGGGTATATATATAACTTAAGCGCTCAAACGGTAGCTATAG  >  NZ_CP034943/607791‑607926

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 11 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 37 ≤ 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.