genome.fa.s1129.2.7.7.80.10.50.1000.58.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  58  of  89  ( 10573 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13111412--13111441	15	1.9	15	93	6	51	66	0	0	33	0.92
13111817--13111846	15	1.9	15	93	6	51	66	0	0	33	0.92
13111339--13112152	405	2.0	406	98	0	1567	38	14	16	30	1.89
13112403--13112444	20	2.1	20	90	0	66	23	33	0	42	1.55
13112461--13112504	21	2.0	22	91	4	72	36	0	0	63	0.95
13112456--13112513	25	2.2	27	82	11	68	32	0	0	67	0.91
13119003--13119078	31	2.5	31	82	0	80	30	17	21	31	1.96
13120913--13120955	22	2.0	22	95	0	77	48	13	2	34	1.56
13131756--13131796	18	2.2	18	86	4	55	53	0	2	43	1.13
13131763--13131808	18	2.6	19	80	13	62	52	0	4	43	1.21
13133638--13133928	148	2.0	147	88	0	402	34	15	13	37	1.86
13134168--13134209	21	1.9	22	85	9	59	26	16	26	30	1.97
13135267--13135343	32	2.4	32	82	8	95	33	10	18	37	1.85
13139401--13139439	20	2.0	20	84	0	51	33	12	20	33	1.91
13155582--13155763	32	5.7	33	78	8	187	32	18	13	36	1.89
13155552--13155763	96	2.2	96	86	3	284	32	16	14	37	1.88
13156134--13156166	15	2.2	15	94	0	57	15	12	18	54	1.71
13157531--13157576	16	2.8	17	78	18	53	60	0	26	13	1.32
13160962--13161200	32	7.5	32	78	0	190	32	15	13	38	1.87
13160982--13161200	64	3.4	62	81	3	224	32	16	13	37	1.88
13160983--13161217	96	2.5	95	82	3	274	32	17	13	37	1.88
13165053--13165091	14	2.8	14	96	0	69	33	28	2	35	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13173285--13173336	18	2.9	18	82	5	70	67	9	13	9	1.42
13174808--13174837	2	15.5	2	93	6	53	53	0	0	46	1.00
13191414--13191469	9	6.2	9	93	0	85	76	0	23	0	0.78
13191420--13191477	6	9.8	6	81	10	57	77	0	22	0	0.77
13191423--13191474	3	17.7	3	84	4	70	75	0	25	0	0.81
13193187--13193232	20	2.2	20	88	3	65	39	10	15	34	1.82
13203425--13203481	8	7.1	8	100	0	114	49	12	26	12	1.75
13214229--13214282	23	2.3	24	78	9	67	25	1	9	62	1.35
13228241--13228285	7	6.6	7	84	5	56	26	22	31	20	1.98
13228241--13228285	21	2.2	20	92	4	72	26	22	31	20	1.98
13234718--13234758	18	2.3	18	100	0	82	19	19	17	43	1.88
13235619--13235657	20	1.9	21	89	5	62	38	23	17	20	1.93
13239531--13239591	26	2.3	27	86	8	81	34	1	8	55	1.39
13239895--13239920	2	13.0	2	100	0	52	50	0	0	50	1.00
13243064--13243120	18	3.2	18	75	12	55	78	1	15	3	0.96
13243064--13243132	34	2.0	34	86	5	95	76	2	14	5	1.08
13255691--13255876	68	2.8	68	85	2	243	34	14	19	31	1.92
13255827--13256037	80	2.6	80	87	0	296	35	13	21	29	1.92
13255987--13256172	68	2.8	68	89	0	293	31	13	22	32	1.93
13255679--13256342	296	2.3	295	90	1	1037	34	12	22	30	1.91
13256123--13256486	80	4.5	80	89	0	566	34	12	24	28	1.92
13255691--13256413	376	2.0	362	83	5	921	34	12	22	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13256123--13256486	161	2.3	160	90	0	575	34	12	24	28	1.92
13260960--13261002	21	2.0	21	86	0	59	6	20	4	67	1.33
13269939--13270311	2	187.5	2	73	14	236	50	2	5	42	1.36
13270729--13270753	2	12.5	2	100	0	50	52	0	0	48	1.00
13270693--13270995	149	2.0	152	92	3	513	41	10	3	43	1.57
13270988--13271031	21	2.2	20	83	4	52	50	2	0	47	1.13
13271090--13271127	13	2.8	13	82	17	51	50	0	7	42	1.31
13272714--13272789	2	38.0	2	100	0	152	50	0	0	50	1.00
13277299--13277357	25	2.5	25	84	10	72	28	1	0	69	0.98
13280243--13280291	25	2.0	24	84	7	64	32	6	30	30	1.82
13284040--13284217	90	2.0	89	93	1	302	38	10	6	44	1.65
13284177--13284246	30	2.3	30	97	0	131	51	2	2	42	1.31
13287468--13287514	18	2.4	19	79	13	51	31	23	19	25	1.98
13298430--13298471	17	2.5	17	88	11	68	80	0	0	19	0.70
13298433--13298524	26	3.5	25	76	16	89	77	0	6	16	0.97
13298429--13298525	14	7.1	15	72	22	54	75	0	8	16	1.03
13302564--13302618	20	2.8	20	83	5	67	29	20	25	25	1.99
13311095--13311124	15	2.0	15	93	0	51	56	10	6	26	1.57
13312935--13313160	66	3.4	66	88	0	326	31	18	12	37	1.88
13314462--13314711	139	1.8	138	87	3	378	38	7	7	46	1.60
13314910--13315392	242	2.0	238	93	3	826	50	8	9	32	1.64
13318608--13318647	21	1.9	21	94	0	71	60	2	0	37	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13319683--13319745	22	2.9	22	92	0	108	31	20	11	36	1.88
13324824--13324925	44	2.3	44	84	3	125	37	10	25	26	1.89
13327673--13327895	111	2.0	111	100	0	446	31	15	22	30	1.95
13329440--13329648	111	1.9	111	89	2	330	33	16	16	33	1.91
13330390--13330416	3	9.0	3	100	0	54	33	0	0	66	0.92
13331864--13331916	21	2.5	21	84	9	63	35	16	20	26	1.94
13332643--13332957	157	2.0	158	98	0	614	42	4	17	35	1.71
13333220--13333309	32	2.9	31	83	8	119	25	22	21	31	1.98
13333218--13333312	31	3.0	30	84	6	127	25	21	23	30	1.99
13333564--13333596	18	1.9	17	88	11	50	51	6	18	24	1.68
13339459--13339614	65	2.4	65	92	1	258	32	15	19	32	1.93
13339551--13339758	111	1.9	111	93	0	362	31	14	20	32	1.93
13349356--13349761	44	9.0	44	83	6	442	23	22	13	40	1.89
13359168--13359216	25	1.9	26	83	4	64	40	6	8	44	1.59
13364417--13364453	19	2.0	20	89	10	60	72	0	2	24	0.97
13370274--13370495	112	2.1	106	84	10	283	31	15	15	36	1.89
13371851--13372142	145	2.0	145	95	0	521	31	13	22	31	1.93
13379838--13381894	687	3.0	687	98	0	4015	26	13	20	39	1.90
13382347--13382386	15	2.7	15	92	3	64	27	27	20	25	1.99
13382351--13382391	14	2.9	14	88	3	55	24	26	21	26	2.00
13385204--13385250	18	2.6	18	89	0	67	25	12	25	36	1.92
13387463--13387578	40	2.9	40	81	0	142	27	23	24	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13388937--13389149	111	1.9	111	86	3	304	28	15	18	36	1.92
13390501--13390706	47	4.5	47	92	2	321	32	18	7	40	1.80
13390816--13390937	61	2.0	61	83	3	156	31	28	16	23	1.96
13394485--13394630	5	27.4	5	71	20	77	5	16	2	76	1.07
13394493--13394549	21	2.9	21	87	12	86	3	17	3	75	1.09
13394509--13394586	11	6.8	12	80	11	60	5	17	1	75	1.05
13394484--13394600	51	2.3	51	87	10	161	4	17	1	76	1.02
13394484--13394600	6	19.7	6	73	18	86	4	17	1	76	1.02
13394569--13394627	23	2.6	23	78	13	68	5	13	1	79	0.97
13394535--13394632	35	2.8	35	81	7	92	7	15	1	76	1.05
13394484--13394600	50	2.5	44	80	17	112	4	17	1	76	1.02
13397495--13397699	47	4.4	47	90	2	301	34	18	7	39	1.79
13397486--13397719	47	5.2	42	85	8	179	34	18	6	40	1.78
13397809--13397930	61	2.0	61	86	0	172	30	27	17	24	1.97
13398818--13398884	29	2.3	30	78	5	73	35	22	4	37	1.75
13403729--13403797	21	3.3	21	89	0	102	30	28	11	28	1.92
13405587--13405702	26	4.5	26	84	8	139	27	25	11	36	1.90
13405587--13405702	52	2.2	52	86	6	155	27	25	11	36	1.90
13406431--13406478	20	2.5	20	86	10	64	39	20	0	39	1.53
13407427--13407494	21	3.3	21	75	4	75	22	17	26	33	1.96
13407421--13407519	41	2.4	41	93	0	162	21	18	22	38	1.93
13407446--13407546	20	4.9	20	70	7	76	16	21	21	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13407531--13407578	19	2.5	20	70	10	55	25	22	14	37	1.92
13407569--13407622	22	2.5	22	93	0	90	16	18	25	38	1.92
13407734--13407766	6	5.5	6	100	0	66	33	51	15	0	1.43
13408425--13408477	22	2.4	22	100	0	106	35	28	18	16	1.93
13408466--13408768	41	7.4	41	95	0	525	36	23	20	19	1.95
13411362--13411856	46	10.7	46	89	0	702	21	21	12	44	1.85
13411856--13412015	81	2.0	81	82	4	198	32	18	11	38	1.86
13412525--13412571	18	2.6	18	100	0	94	27	23	12	36	1.91
13421307--13421332	3	8.7	3	100	0	52	69	0	0	30	0.89
13426955--13427021	35	1.9	35	87	0	98	26	25	8	38	1.85

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89