Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
JC JC	NC_000913	4,542,223	IS1 (–) +9 bp	60.7%	coding (187‑195/597 nt)	fimE →	regulator for fimA

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3583428 =	NA (NA)	55 (0.580)	49/176	NT	57.8%	noncoding (1/768 nt)	IS1	repeat region
	?	NC_000913	4542223 =	36 (0.420)					coding (187/597 nt)	fimE	regulator for fimA
*	?	NC_000913	= 3584195	NA (NA)	56 (0.590)	46/176	NT	58.2%	noncoding (768/768 nt)	IS1	repeat region
	?	NC_000913	= 4542231	36 (0.420)					coding (195/597 nt)	fimE	regulator for fimA

GAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/3584099‑3584195 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGATCAAGCAGTTCACTAATACGCATCCCATGCCGATATGCCAAC  <  NC_000913/4542231‑4542135                                                                                                                                                                                                    GAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCA                                                                                                 <  2:1908423/99‑1          GTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAA                                                                                        <  1:435871/99‑1           TCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAAT                                                                                       >  1:2219967/1‑99              TTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATT                                                                                    <  2:975951/99‑1              TTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATT                                                                                    <  1:1060028/99‑1               TCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTT                                                                                   >  1:746557/1‑99                CTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTA                                                                                  <  2:1713114/99‑1                     AATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTA                                                                             >  2:2229521/1‑99                     AATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTA                                                                             >  1:671070/1‑99                     AATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTA                                                                             <  1:464800/99‑1                     AATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTA                                                                             >  1:2510714/1‑99                      ATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTAC                                                                            <  1:1913322/99‑1                       TCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACC                                                                           <  2:1659445/99‑1                       TCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACC                                                                           >  2:1231918/1‑99                        CGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCT                                                                          <  1:803/99‑1                         GGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTT                                                                         <  2:68797/99‑1                         GGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTT                                                                         >  2:863691/1‑99                          GTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTC                                                                        >  2:323454/1‑99                          GTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTC                                                                        <  1:1420019/99‑1                           TGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCA                                                                       >  1:1595773/1‑99                           TGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCA                                                                       <  2:130325/99‑1                             GAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATT                                                                     >  1:1964818/1‑99                                CTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAG                                                                  >  1:1763461/1‑99                                  GCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGT                                                                <  2:234088/99‑1                                  GCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGT                                                                <  2:1013228/99‑1                                  GCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGT                                                                <  2:1015763/99‑1                                   CATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTC                                                               <  2:746493/99‑1                                   CATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTC                                                               <  1:1226812/99‑1                                     TGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAA                                                             >  2:1835786/1‑99                                     TGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAA                                                             >  1:739489/1‑99                                     TGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAA                                                             >  2:166111/1‑99                                       ACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGG                                                           >  1:1454363/1‑99                                        CAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGT                                                          <  1:475336/99‑1                                            GTCATCGGGCATTATCTGCACATAAAACACTATCAATAAGTTGGAGTCATTACCTATTCGGGAAGAATTTATTCTACCTCCATTAAGGTCAAGGTCtcg                                                      >  2:1336215/1‑96                                             TCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGA                                                     <  2:1004598/99‑1                                                  GGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATG                                                <  2:2482968/99‑1                                                   gtCATTATCTTAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGC                                               >  2:1756111/3‑99                                                    GCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCA                                              >  1:963656/1‑99                                                     CATTATCTGAACATAAATCACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAG                                             <  2:866591/99‑1                                                       TTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGAT                                           >  2:1453490/1‑99                                                       TTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGAT                                           <  1:1341052/99‑1                                                         ATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGATCA                                         >  2:1210384/1‑99                                                          TCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGATCAA                                        >  2:1666686/1‑99                                                           CTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGATCAAG                                       >  2:1347485/1‑99                                                           CTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGATCAAG                                       <  1:2046689/99‑1                                                                CATAAAACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGATCAAGCAGTT                                  <  2:1057966/99‑1                                                                      ACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGATCAAGCAGTTCACTAA                            >  2:1935781/1‑99                                                                      ACACTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGATCAAGCAGTTCACTAA                            >  1:2018093/1‑99                                                                         CTATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGATCAAGCAGTTCACTAATAC                         <  2:1812186/99‑1                                                                          TATCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGATCAAGCAGTTCACTAATACG                        <  1:1938198/99‑1                                                                            TCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGATCAAGCAGTTCACTAATACGCA                      >  2:215674/1‑99                                                                            TCAATAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGATCAAGCAGTTCACTAATACGCA                      <  1:282419/99‑1                                                                                TAAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGATCAAGCAGTTCACTAATACGCATCCC                  >  2:405300/1‑99                                                                                 AAGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGATCAAGCAGTTCACTAATACGCATCCCA                 <  1:1158260/99‑1                                                                                  AGTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGATCAAGCAGTTCACTAATACGCATCCCAT                >  2:284318/1‑99                                                                                   GTTGGAGTCATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGATCAAGCAGTTCACTAATACGCATCCCATG               >  2:1693366/1‑99                                                                                            ATTACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGATCAAGCAGTTCACTAATACGCATCCCATGCCGATATGC      >  1:162121/1‑99                                                                                               ACCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGATCAAGCAGTTCACTAATACGCATCCCATGCCGATATGCCAA   >  2:698380/1‑99                                                                                                CCCAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGATCAAGCAGTTCACTAATACGCATCCCATGCCGATATGCCAAC  >  1:2117848/1‑99                                                                                                                                                                                                    GAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/3584099‑3584195 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CAGTCGGCGAATATTTATTCTACCTTCATTAAGGTCAAGGTCCTGATAATGCAGATCAAGCAGTTCACTAATACGCATCCCATGCCGATATGCCAAC  <  NC_000913/4542231‑4542135

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ 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.