New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1207790 =	0 (0.000)	15 (0.620)	14/128	0.6	100%	coding (290/630 nt)	ycfK	e14 prophage; protein StfP
	?	NC_000913	1209619 =	0 (0.000)					pseudogene (37/537 nt)	stfE	e14 prophage; putative side tail fiber protein fragment

CAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGC  >  NC_000913/1209543‑1209696                                                                             |                                                                              accggtatagctatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGttt                                                                           <  1:216655‑M2/5‑1 (MQ=255)   cggtatagctatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTAt                                                                         <  2:216657‑M2/7‑1 (MQ=255)     gtatagctatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATg                                                                        >  1:216888‑M2/73‑80 (MQ=255)            tatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATg                                                                  >  1:216907‑M2/66‑79 (MQ=255)                  accggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAAt                                                           >  2:216889‑M2/60‑80 (MQ=255)                   ccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATaa                                                         <  1:216653‑M2/23‑1 (MQ=255)                     ggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAAc                                                        >  2:216891‑M2/57‑80 (MQ=255)                          gtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCaa                                                  <  1:216649‑M2/30‑1 (MQ=255)                               aatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATgg                                              >  1:216890‑M2/47‑80 (MQ=255)                                    agccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGcatcat                                        >  2:216906‑M2/42‑81 (MQ=255)                                    agccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGcatcat                                        >  2:216905‑M2/42‑81 (MQ=255)                                      ccgttgctgcattgagtttagctccttatgccaaacctaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTc                                      <  1:902732‑M2/42‑1 (MQ=255)                                        gttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCt                                    >  1:216881‑M2/38‑81 (MQ=255)                                              gcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCttt                               >  2:216887‑M2/32‑80 (MQ=255)                                                   gagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAg                         >  1:216893‑M2/27‑81 (MQ=255)                                                              cttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTaa               >  2:216901‑M2/16‑80 (MQ=255)                                                                  tcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGc          >  2:216895‑M2/12‑81 (MQ=255)                                                                        accaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTg    <  2:216869‑M2/76‑1 (MQ=255)                                                                        accaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTg    >  1:216896‑M2/6‑81 (MQ=255)                                                                           aaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGc  >  1:216902‑M2/3‑80 (MQ=255)                                                                             |                                                                              CAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGC  >  NC_000913/1209543‑1209696

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ 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.