genome.fa.s8893.2.7.7.80.10.50.1000.2.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: VEPZ01008893.1 Hibiscus syriacus cultivar Beakdansim tig00112159_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2797279

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  2  of  13  ( 1547 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)
220885--220937	13	4.2	13	82	17	67	1	16	3	77	1.01
223990--224053	26	2.4	27	77	12	78	68	0	12	18	1.20
224082--224235	10	15.2	10	67	19	61	71	1	3	24	1.08
224087--224261	94	1.9	92	80	9	203	71	1	2	24	1.09
224152--224272	40	3.0	38	78	16	120	67	2	1	28	1.13
224163--224246	33	2.5	34	81	14	95	66	2	2	28	1.16
224094--224218	51	2.5	49	78	15	130	72	1	3	22	1.07
224163--224236	33	2.3	33	86	11	100	66	1	2	29	1.14
224154--224289	42	3.4	37	74	18	105	66	2	2	27	1.17
224283--224337	23	2.4	21	82	14	65	72	3	5	18	1.18
224283--224344	22	2.8	22	81	16	74	69	4	4	20	1.26
224825--224936	37	3.0	37	90	0	170	32	12	13	41	1.82
225982--226102	25	5.0	25	88	3	167	37	16	0	45	1.53
227396--227456	22	2.8	22	80	5	70	29	0	3	67	1.07
229148--229187	20	2.0	21	90	5	64	35	20	20	25	1.96
232195--232268	24	3.5	21	75	21	66	22	29	17	29	1.97
233966--233996	14	2.2	14	100	0	62	45	22	12	19	1.84
251279--251482	71	2.9	71	92	4	324	31	10	17	40	1.83
254235--254320	3	29.0	3	95	2	156	33	1	0	65	1.01
258756--258789	17	2.0	17	88	0	50	52	8	2	35	1.47
260836--260890	2	27.5	2	92	7	94	0	49	1	49	1.11
267223--267247	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
267272--267349	41	1.9	40	86	2	111	33	25	7	33	1.84
268453--268579	29	4.4	28	83	9	132	42	18	18	20	1.89
268479--268582	29	3.6	28	84	8	138	45	18	15	21	1.86
272283--272364	24	3.5	24	75	15	64	19	12	15	52	1.74
272326--272362	12	3.0	13	76	15	51	18	13	16	51	1.76
272503--272577	31	2.4	30	84	6	96	12	24	32	32	1.91
273435--273471	18	2.0	19	89	5	58	78	0	0	21	0.75
274271--274338	28	2.4	29	83	9	79	42	1	0	55	1.08
274427--274490	31	2.1	31	93	0	110	54	10	7	26	1.62
274964--274996	15	2.4	14	90	10	50	66	0	0	33	0.92
277455--277536	14	5.8	14	67	13	51	58	2	0	39	1.11
278971--279074	3	34.7	3	96	0	190	64	0	0	34	1.00
279212--279852	114	5.6	113	90	3	872	29	19	13	37	1.90
280526--281095	82	6.9	82	94	1	946	37	22	12	27	1.90
281857--281902	19	2.7	16	83	10	56	52	8	6	32	1.58
282231--282302	1	72.0	1	80	0	72	0	11	0	88	0.50
282230--282302	21	3.6	19	84	14	92	0	12	0	87	0.54
282231--282303	11	6.5	11	85	14	105	0	12	0	87	0.54
282231--282303	32	2.2	34	88	11	107	0	12	0	87	0.54
282245--282303	21	2.9	21	94	2	102	0	10	0	89	0.47
289545--289577	15	2.3	15	89	5	50	48	3	0	48	1.17
292914--292951	18	2.1	18	90	0	58	71	0	0	28	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
293605--293686	14	5.8	14	67	13	51	58	2	0	39	1.11
295122--295219	3	32.7	3	93	0	169	63	0	2	34	1.06
295111--295216	12	8.6	13	90	4	127	61	0	1	36	1.07
302760--302969	114	1.8	113	85	1	294	30	16	10	42	1.81
303479--303542	31	2.1	31	90	0	101	57	7	6	28	1.51
305259--305315	25	2.3	25	87	0	78	15	1	7	75	1.10
305577--305621	17	2.6	17	89	0	72	48	13	6	31	1.68
307017--307259	80	3.0	80	96	0	441	29	12	16	41	1.85
308693--308745	23	2.3	23	93	0	88	26	22	20	30	1.98
308734--308785	17	3.1	17	100	0	104	30	28	17	23	1.97
309591--309615	12	2.1	12	100	0	50	60	24	0	16	1.36
310087--310137	3	17.0	3	100	0	102	66	0	0	33	0.92
310868--311156	7	41.6	7	75	4	156	20	1	28	49	1.59
310868--311156	35	8.3	35	76	12	181	20	1	28	49	1.59
311869--311932	18	3.8	18	68	27	50	37	1	1	59	1.16
314236--314273	2	19.0	2	88	0	58	50	5	0	44	1.24
317510--317558	19	2.6	18	84	15	55	30	12	4	53	1.57
328314--328389	24	3.4	24	65	20	74	32	17	17	32	1.93
328313--328407	42	2.3	42	96	0	172	30	18	16	33	1.94
328754--328800	23	2.0	24	84	8	62	40	2	2	55	1.24
332053--332111	23	2.6	23	94	0	100	25	10	22	42	1.84
332053--332123	23	3.1	23	89	0	70	29	11	19	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
337758--337784	3	9.0	3	100	0	54	66	0	0	33	0.92
338245--338393	49	3.0	49	95	0	271	24	22	20	32	1.97
338475--338591	40	3.0	40	82	9	170	35	11	23	29	1.91
338446--338585	36	3.9	36	81	9	160	36	10	22	30	1.87
338447--338591	76	1.9	73	88	4	218	35	11	23	30	1.89
339596--339685	45	2.0	45	93	0	153	21	12	27	38	1.89
340173--340214	21	2.0	21	90	0	66	54	11	21	11	1.68
341543--341614	26	2.8	26	95	4	128	45	36	0	18	1.49
343545--343581	19	1.9	19	94	0	65	35	0	13	51	1.41
350459--350531	21	3.4	21	80	1	83	27	16	26	30	1.97
351409--351445	19	1.9	19	94	0	65	35	0	13	51	1.41
357319--357386	27	2.6	27	88	2	111	33	13	10	42	1.78
357578--357720	43	3.3	43	72	1	126	40	14	11	32	1.83
357700--357799	43	2.3	43	87	3	139	36	22	12	30	1.90
357598--357762	85	1.9	84	79	7	181	39	16	11	32	1.84
366315--366358	23	1.9	23	95	0	79	27	20	13	38	1.90
368831--368864	2	17.0	2	87	0	50	50	0	5	44	1.26
372794--372822	2	14.5	2	100	0	58	48	0	0	51	1.00
376775--376983	96	2.2	96	82	1	240	31	18	17	33	1.94
376870--377175	135	2.3	136	90	0	470	26	20	16	35	1.95
378173--378264	7	12.6	7	80	13	96	1	16	0	82	0.73
378171--378271	22	4.5	22	82	10	118	0	16	0	82	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
378172--378271	29	3.4	28	77	14	103	1	17	0	82	0.74
378173--378268	36	2.6	37	85	11	133	1	16	0	82	0.73
394084--394161	3	25.7	3	94	2	138	34	0	0	65	0.93
394665--394699	17	2.1	17	94	0	61	74	8	17	0	1.06
396208--396261	28	2.0	27	81	3	63	31	1	1	64	1.14
396216--396251	18	1.9	19	88	5	56	33	2	0	63	1.08
406580--406665	17	5.2	16	76	18	63	77	0	18	3	0.90
406584--406627	14	3.1	14	93	3	70	79	0	15	4	0.89
406978--407022	16	2.8	16	83	10	56	28	8	6	55	1.56
407696--408239	165	3.3	165	93	2	932	28	13	21	36	1.92
407696--408288	82	7.1	83	91	3	865	29	13	21	35	1.92
407696--408238	247	2.2	248	91	2	878	28	13	21	35	1.92
409081--409965	230	3.9	226	93	4	1424	36	11	20	31	1.88
409081--409965	113	7.8	113	92	4	1372	36	11	20	31	1.88
410218--410264	3	15.7	3	100	0	94	34	0	0	65	0.93
410765--410797	16	2.1	16	94	0	57	72	9	18	0	1.10
411584--411624	20	2.0	21	85	4	57	36	2	2	58	1.24
412325--412369	20	2.2	20	88	0	63	62	0	4	33	1.15
412335--412378	18	2.5	18	85	3	54	59	0	4	36	1.18
419502--419955	182	2.5	182	91	0	712	27	15	12	44	1.82
419864--419915	20	2.6	20	75	0	50	17	13	7	61	1.54
419828--420401	112	5.1	112	90	0	844	25	14	12	47	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
419828--420401	223	2.6	224	89	0	862	25	14	12	47	1.80
420709--420766	28	2.1	28	100	0	116	58	3	3	34	1.32
421939--421999	16	3.8	16	76	10	61	47	21	8	22	1.77
424179--424486	122	2.5	120	78	9	293	29	15	9	45	1.77
426383--426440	27	2.2	26	81	12	64	46	10	17	25	1.79
426440--426479	20	2.0	20	90	0	62	20	15	20	45	1.86
428840--428881	21	2.0	21	90	0	66	30	11	7	50	1.66
428876--428974	33	3.0	33	94	1	164	32	7	15	45	1.73
428960--429014	13	4.2	13	75	13	58	34	3	12	49	1.59
429708--429741	18	1.9	18	88	5	52	41	11	8	38	1.73

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13