New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_vch_pgi	111593 =	21 (0.950)	4 (0.190)	4/270	2.5	15.4%	noncoding (164/200 nt)	RIP8 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site	RIP8 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site
	?	NC_000913_3_vch_pgi	111626 =	24 (1.140)					noncoding (197/200 nt)	RIP8 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site	RIP8 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site
Rejected: Frequency below/above cutoff threshold.

CGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGACAAATGTCACTGCTTTGGTTCTTCGCTCCAGTCATCGCTTTCGGAAAGATCGCCACTGCTGGGGATTCGTTTTTCTTCAGCAGCCCATT  >  NC_000913_3_vch_pgi/111445‑111731                                                                                                                                                     |                                                                                                                                           cGTTTTTGCCGCATCTGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATg                                                                                                                                            <  1:50466/149‑1 (MQ=255)    cattttgctccaaacgttgtcagctgatcgacctcggagaatgggctgctgaagaaaaacgaatccccagcagtggcgatctttccgaaagcgatgactggagcgaagaaccaaagcagtgacatttgtctgatgccgcacgtagGCCt                                                                                                                                         <  1:14747‑M1/4‑1 (MQ=255)     attttgctccaaacgttgtcagctgatcgacctcggagaatgggctgctgaagaaaaacgaatccccagcagtggcgatctttccgaaagcgatgactggagcgaagaaccaaagcagtgacatttgtctgatgccgcacgtagGCCTg                                                                                                                                        <  1:80900‑M1/5‑1 (MQ=255)            tccaaacgttgtcagctgatcgacctcggagaatgggctgctgaagaaaaacgaatccccagcagtggcgatctttccgaaagcgatgactggagcgaagaaccaaagcagtgacatttgtctgatgccgcacgtagGCCTGATGCGAc                                                                                                                                 <  1:60105‑M1/12‑1 (MQ=255)                            acGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTAt                                                                                                                 <  1:78456/149‑1 (MQ=255)                             cGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTACTGGGAGGAGATGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATc                                                                                                                <  1:91368/149‑1 (MQ=38)                               tcgacctcggagaatgggctgctgaagaaaaacgaatccccagcagtggcgatctttccgaaagcgatgactggagcgaagaaccaaagcagtgacatttgtctgatgccgcacgtagGCCTGATGCGACGCTGTCCGCGTCTTATCAg                                                                                                              >  2:60105‑M1/119‑149 (MQ=255)                                         cGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGc                                                                                                    <  2:33619/149‑1 (MQ=255)                                          gACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCg                                                                                                   >  1:234299/1‑149 (MQ=255)                                                             aGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCCTCCGACATTTGCACAATATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGACAAATGTCACt                                                                                >  1:348273/1‑149 (MQ=255)                                                              ggCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGACAAATGTCACTg                                                                               >  2:166089/1‑149 (MQ=255)                                                                      gggATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGACAAATGTCACTGCTTTGGtt                                                                       >  2:80900/1‑149 (MQ=255)                                                                           ttCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCTGCATCCGACATTTGCCCAATATGACTGATTCGTCGCTGTCCGCGTCTTATCGGGCCTACGTGCGGCATCAGCCAAATGTCGCTCCTTTGGTTCTTCg                                                                  >  1:184003/1‑149 (MQ=38)                                                                                aCTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGACAAATGTCACTGCTTTGGTTCTTCGCTCCa                                                             <  1:69296/149‑1 (MQ=255)                                                                                    aTTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGCTGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGACAAATGTCACTGCTTTGGTTCTTCGCTCCAGTCa                                                         >  2:383892/1‑149 (MQ=255)                                                                                          aaaTTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACACGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGACAAATGTCACTGCTTTGGTTCTTCGCTCCAGTCATCGCtt                                                   <  1:142865/149‑1 (MQ=255)                                                                                             tttGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATACGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGACAAATGTCACTGCTTTGGTTCTTCGCTCAAGTCATCGCTTTCg                                                >  1:5843/1‑149 (MQ=255)                                                                                                gTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGACAAATGTCACTGCTTTGGTTCTTCGCTCCAGTCATCGCTTTCGGaa                                             >  1:61912/1‑149 (MQ=255)                                                                                                      gTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGACAAATGTCACTGCTTTGGTTCTTCGCTCCAGTCATCGCTTTCGGAAAGATCg                                       >  1:226987/1‑149 (MQ=255)                                                                                                                   caaagcagtgacatttgtctgatgccgcacgtagGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGa                                                                                           <  2:133822‑M1/50‑1 (MQ=255)                                                                                                                   caaagcagtgacatttgtctgatgccgcacgtagGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGa                                                                                           >  1:133822‑M1/35‑84 (MQ=255)                                                                                                                    gCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGACAAATGTCACTGCTTTGGTTCTTCGCTCCAGTCATCGCTTTCGGAAAGATCGCCACTGCTGGGGAt                         <  2:226987/149‑1 (MQ=255)                                                                                                                       ttCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAAGCCTACGGGCGACATCAGACAAATGTCACTGCTTTGGTTCTTCGCTCCAGTCATCGCTTTCGGAAAGATCGCCACTGCTGGGGATTCg                      >  1:54529/1‑149 (MQ=255)                                                                                                                          aCGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGACAAATGTCACTGCTTTGGTTCTTCGCTCCAGTCATCGCTTTCGGAAAGATCGCATCTGCTGGGGATTCGgtt                   >  1:267660/1‑149 (MQ=255)                                                                                                                           cgccgcATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGACAAATGTCACTGCTTTGGTTCTTCGCTCCAGTCATCGCTTTCGGAAAGATCGCCACTGCTGGGGATTCGtttt                  >  1:160732/1‑149 (MQ=255)                                                                                                                              cgcATCCGACATTTGCACAACATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGACAAATGTCACTGCTTTGGTTCTTCGCTCCAGTCATCGCTTTCGGAAAGATCGCCACTGCCGGGGATTCGTTTttct               >  2:14747/1‑149 (MQ=255)                                                                                                                                           tGCACAAGATCGCTGATGCGACGCTGGCCGCGTTTTATCAGGCCTACGTGCGGCATCAGACAAATGTCACTGCTTTGGTTCTTCGCTCCAGTCATCGCTTTCGGAAAGATCGCCACTGCTGGGGATTCGTTTTTCTTCAGCAGCCCAtt  <  2:54529/149‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                           CGTTTTCGCCGCATCCGACATTCGCACACGATGCCTGATGCGACGCTGGCGCGTCTTATCAGGCCTAAAGGGATTTCTAACTCATTGATAAATTTGTTTTTGTAGGTCGGATAAGGCGTTCACGCCGCATCCGACATTTGCACAAGATGCCTGATGCGACGCTGTCCGCGTCTTATCAGGCCTACGTGCGGCATCAGACAAATGTCACTGCTTTGGTTCTTCGCTCCAGTCATCGCTTTCGGAAAGATCGCCACTGCTGGGGATTCGTTTTTCTTCAGCAGCCCATT  >  NC_000913_3_vch_pgi/111445‑111731

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ 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.