Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC JC	NC_000913	4,124,494	IS2 (+) +5 bp	intergenic (‑38/+114)	cytR ← / ← priA	DNA‑binding transcriptional repressor CytR/primosomal protein N'

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 3187426	NA (NA)	35 (1.080)	33/488	0.2	100%	noncoding (1331/1331 nt)	IS2	repeat region
	?	NC_000913	4124494 =	0 (0.000)					intergenic (‑38/+118)	cytR/priA	DNA‑binding transcriptional repressor CytR/primosomal protein N'
*	?	NC_000913	= 4124498	0 (0.000)	32 (0.990)	30/486	0.2	100%	intergenic (‑42/+114)	cytR/priA	DNA‑binding transcriptional repressor CytR/primosomal protein N'
	?	NC_000913	4498181 =	NA (NA)					noncoding (1/1331 nt)	IS2	repeat region

CAGTAATCATCCCGGGCAAATGCCCGGGAATTATTCTAGGATTATTTTCTTTGTTAAAAAAGACAAACGGTATTAACTGATGTATTTACTATTTACCGCTCCCTGCAGGGGGGATTATCAGAATCCGCGGTTATTCATTATTTATATACATTCAATAAAAAAGTAACCTCATAAAAAATCCTGTACTCACAGGGTGATGCGGGATAACTGACGTAAGGAGTGCTGCAGGGATTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGCGTAAGCAATA  >  NC_000913/4497935‑4498429                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                         cAGTAATCATCCCGGGCAAATGCCCGGGAATTATTCTAGGATTATTTTCTTTGTTAAAAAAGACAAACGGTATTAACTGATGTATTTACTATTTACCGCTCCCTGCAGGGGGGATTATCAGAATCCGCGGTTATTCATTATTTATATACATTCAATAAAAAAGTAACCTCATAAAAAATCCTGTACTCACAGGGTGATGCGGGATAACTGACGTAAGGAGTGCTGCAGGGATTTGATGGTCCCTTGTAGAc                                                                                                                                                                                                                                                      >  1:147464/1‑251 (MQ=255)                    aTGCCCGGTAACTATTTTAGGATTATTTTCTTTGTTAAACCAGAGAAAGGGTATTAACTGGAGTATTTACTATTTACTGCTCCATGCAGGGGGGATTATCAGAATACGCGGTTATTCATTATTTCTATACATTCAATCAGAAAGTGACCTCATAAAAAATCCTGTACTCACAGGGTGATGCGGGATAACTGACGTAAGTCATGCTGCAGGGATTTGATGGTACCTTGTAGACTGGCCCCCTGAAtttct                                                                                                                                                                                                                                     >  2:326252/1‑245 (MQ=255)                                   tCTAGGATTATTTTCTTTGTTAAAAAAGACAAACGGTATTAACTGATGTATTTACTATTTACCGCTCCCTGCAGGGGGGATTATCAGAATCCGCGGTTATTCATTATTTATATACATTCAATAAAAAAGTAACCTCATAAAAAATCCTGTACTCACAGGGTGATGCGGGATAACTGACGTAAGGAGTGCTGCAGGGATTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACt                                                                                                                                                                                                                    >  2:64787/1‑251 (MQ=255)                                      aGGATTATTTTCTTTGTTAAAAAAGACAAACGGTATTAACTGATGTATTTACTATTTACCGCTCCCTGCAGGGGGGATTATCAGAATCCGCGGTTATTCATTATTTATATACATTCAATAAAAAAGTAACCTCATAAAAAATCCTGTACTCACAGGGTGATGCGGGATAACTGACGTAAGGAGTGCTGCAGGGATTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTa                                                                                                                                                                                                                  >  1:228936/1‑250 (MQ=255)                                            attTTCTTTGTTAAAAAAGACAAACGGAATTAACTGATGTATTTACTATTTACCGCTCCCTGCAGGGGGGATTATAAGAATCCGCGGTTATTCATTATTTATATACATTCAATAAAAAAGTAACCTCATAAAAAATCCTGTACTCACAGGGTGATGAGGGATAACTGACGTAAGGAGTGCTGCAGGGATTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGt                                                                                                                                                                                                           >  2:164340/1‑251 (MQ=255)                                                      ttAAAAAAGACAAACGGTATTAACTGATGTATTTACTATTTACCGCTCCCTGCAGGGGGGATTATCAGAATCCGCGGTTATTCATTATTTATATACATTCAATAAAAAAGTAACCTCATAAAAAATCCTGTACTCACAGGGTGATGCGGGATAACTGACGTAAGGAGTGCTGCAGGGATTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCtt                                                                                                                                                                                                  >  1:154788/1‑250 (MQ=255)                                                           aaaGACAAACGGTATTAACTGATGTATTTACTATTTACCGCTACCTGCAGGGGGGATTATCAGAATCCGCGGTTATTCATTATTTATATACATTCAATAAAAAAGTAACCTCATAAAAAATCCTGTACTCACAGGGTGATGCGGGATAACTGACGTAAGGAGTGCTGCAGGGATTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACt                                                                                                                                                                                            >  2:152436/1‑251 (MQ=255)                                                                                                         gCAGGGGGGAATATCAGAATCCGCGGTGATTCATTATTTATATACATTCAATAAAAAAGTAACCTCATAAAAAATCCTGTACTCACAGGGTGATGCGGGATAACTGACGTAAGGAGTGCTGCAGGGATTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAAGACTAGTTGTTAGACTAGTCATTGGAGAACAGATTATTGATGTCTTAgg                                                                                                                                               <  2:85282/250‑1 (MQ=255)                                                                                                           aGGGGGGATTATCAGAATCCGCGGTTATTCATTATTTATATACATTCAATAAAAAAGTAACCTCATAAAAAATCCTGTACTCACAGGGTGATGCGGGATAACTGACGTAAGGAGTGCTGCAGGGATTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGcc                                                                                                                                            >  1:88084/1‑251 (MQ=255)                                                                                                                                    tATTCATTATTTATATACATTCAATAAAAAAGAACCCTCATACAAAATCCTGTACTCACAGGGTGATGCGGGATACCTGACGTAAGGAGTGCTCAAGGGATTTGATGGTTCCTTGTAGCCTGGCCCCCTGCATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGCTGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACcac                                                                                                                    >  1:285020/1‑250 (MQ=21)                                                                                                                                           tatttatATACATTCAATAAAAAAGGAACCTCATAAAAAATCCTGTACTCACAGGGTGATGCGGGATAACTGACGGAAGGAGTGCGGCAGGGATTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACAACTAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCACTGGAGAACAGATGATTGAAGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGaa                                                                                                             <  1:117622/250‑1 (MQ=255)                                                                                                                                                 tatccattcattAAAAAAGTAACATCATAAAAAATCCTGTACTAACAGGGAGATGCGGGATAACTGACGAAAGAAATGCTGCAGGGATTTGATGGTCGCTTGTAGACTGGCCCCCTGAATTTCCAGACAACCAATATCACTTTCATAAGTGATCGCATTAATACTAGGTTTTAGACTAGCCCTTGGAGAACAAATAATTGCTGTCTTAGGGCCGGAGAAACGCAGACGGCGTACAACACAGGaaa                                                                                                            >  2:181352/5‑245 (MQ=18)                                                                                                                                                    aCATTAAATAAAAAAGTAACCTCATAAAAAATCCTGTACTCACAGGGTGATGCGGGATAACTGACGTAAGGAGTGCTGCAGGGATTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCa                                                                                                    >  2:298210/1‑250 (MQ=255)                                                                                                                                                         cAATAAAAAAGTAACCTCATAAAAAATCCTGTACTCACAGGGTGATGCGGGATAACTGACGTAAGGAGTGCTGCAGGGATTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGtt                                                                                              >  2:292248/1‑251 (MQ=255)                                                                                                                                                             aaaaaaGTAACCTCATAAAAAATCCTGTACTCACAGGGTGATGCGTGATAACTGACGTAAGGAGTGCTGCAGGGAGTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTcag                                                                                           <  1:148129/250‑1 (MQ=255)                                                                                                                                                                      aCCTCATAAAAAATCCTGTACTCACCGGGTGATGCGGGAGAACAGACGTAAGAAGTGCTGCAGGGATTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACACCCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGAAGAGCTTTg                                                                                 >  2:196352/1‑251 (MQ=255)                                                                                                                                                                       ccTCATAAAAAATCCTGTACTCACAGGGTGATGCGGGATAACTGACGTAAGGAGTGCTGCAGGGATTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTg                                                                                 >  1:30985/1‑250 (MQ=255)                                                                                                                                                                                 aaTCCTGTACTCACAGGGTGATGCGGGATAACTGACGTAAGGAGTGCTGCAGGGATTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATAATAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGCACCGGGGATg                                                                      >  2:1378/1‑251 (MQ=255)                                                                                                                                                                                  aTCCTGTACTCACAGGGTGATGCGGGATAACTGACGTAAGGAGTGCTGCAGGGATTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATg                                                                      >  1:260546/1‑250 (MQ=255)                                                                                                                                                                                              caGGGTGATGCGGGATAACTGACGTAAGGAGTGCTGCAGGGATTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAAAACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCg                                                         >  1:143175/1‑251 (MQ=255)                                                                                                                                                                                                     aTGCGGGATAACTGACGTAAGGAGTGCTGCAGGGATTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCg                                                  <  2:107323/251‑1 (MQ=255)                                                                                                                                                                                                                 tGACGTAAGGAGTGCTGCAGGGATTTGATGGTCCCTAGTAGACTGGCCCCCTGAATATCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCCACATGgtgt                                      >  2:266632/1‑251 (MQ=255)                                                                                                                                                                                                                  gACGTAAGGAGTGCTGCAGGGATTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAAt                                                                                                  >  2:237337/1‑190 (MQ=255)                                                                                                                                                                                                                  gACGTAAGGAGTGCTGCAGGGATTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAAt                                                                                                  <  1:237337/190‑1 (MQ=255)                                                                                                                                                                                                                                 gcAGGGATTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGtt                       <  1:64787/250‑1 (MQ=40)                                                                                                                                                                                                                                                 cccTTGGAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGCGTAAg       <  2:314/250‑1 (MQ=14)                                                                                                                                                                                                                                                      gTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGAGTAATCAAtc  <  2:224719/250‑2 (MQ=11)                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                         CAGTAATCATCCCGGGCAAATGCCCGGGAATTATTCTAGGATTATTTTCTTTGTTAAAAAAGACAAACGGTATTAACTGATGTATTTACTATTTACCGCTCCCTGCAGGGGGGATTATCAGAATCCGCGGTTATTCATTATTTATATACATTCAATAAAAAAGTAACCTCATAAAAAATCCTGTACTCACAGGGTGATGCGGGATAACTGACGTAAGGAGTGCTGCAGGGATTTGATGGTCCCTTGTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGCGTAAGCAATA  >  NC_000913/4497935‑4498429

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ 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.