genome.fa.s8460.2.7.7.80.10.50.1000.2.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: VEPZ01008460.1 Hibiscus syriacus cultivar Beakdansim tig00111273_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2854393

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  2  of  15  ( 1744 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)
189311--189408	32	3.0	33	91	4	155	31	7	15	45	1.73
189394--189448	13	4.2	13	75	13	58	34	3	12	49	1.59
189643--189699	21	2.7	21	91	0	96	19	26	26	28	1.99
189864--189919	15	3.6	15	81	9	67	32	12	10	44	1.77
189866--189916	17	3.1	17	83	5	61	35	9	9	45	1.71
197029--197088	30	2.0	30	93	0	102	53	3	13	30	1.56
200148--200178	15	2.1	15	93	0	53	45	0	0	54	0.99
203572--203606	2	17.5	2	100	0	70	51	0	0	48	1.00
204074--204116	2	21.5	2	100	0	86	48	0	0	51	1.00
206174--206256	29	2.8	29	92	1	139	39	13	14	32	1.85
209624--209653	15	2.0	15	93	0	51	13	0	30	56	1.37
210940--211027	29	2.9	30	90	8	135	42	10	13	34	1.78
215791--216028	118	2.0	118	99	0	467	25	27	17	28	1.98
218210--218259	23	2.2	23	100	0	100	50	8	0	42	1.32
218518--218566	23	2.1	23	84	0	62	51	10	22	16	1.74
219031--219108	31	2.5	31	76	0	84	24	25	12	37	1.91
220418--220489	31	2.3	31	83	4	83	34	23	4	37	1.74
220430--220497	31	2.2	31	86	5	93	27	26	7	38	1.83
229632--229709	26	3.0	25	77	9	75	71	2	7	17	1.21
229926--229960	2	17.5	2	100	0	70	51	0	0	48	1.00
230033--230099	2	34.5	2	82	11	77	52	1	1	44	1.19
230135--230169	18	1.9	18	88	0	52	74	0	2	22	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
231351--231391	16	2.6	16	88	11	59	58	2	0	39	1.11
234046--234087	20	2.2	20	86	4	59	35	2	4	57	1.33
234403--234460	2	29.0	2	89	0	89	50	5	0	44	1.24
238189--238224	17	2.1	17	94	0	63	30	5	22	41	1.76
246583--246616	16	2.1	16	88	0	50	64	2	17	14	1.40
248784--248945	63	2.5	64	82	6	170	34	20	18	25	1.96
249594--249646	23	2.3	23	96	0	97	16	28	28	26	1.97
251852--251890	17	2.3	17	95	0	69	33	5	20	41	1.74
252924--252963	21	1.9	21	100	0	80	55	2	10	32	1.47
255637--255825	50	3.8	50	87	0	279	45	15	13	25	1.82
256052--256102	25	2.0	27	88	7	79	41	21	3	33	1.72
267675--267762	19	4.5	19	77	8	95	19	19	19	42	1.90
267634--267762	60	2.1	60	90	4	197	18	20	20	41	1.91
268519--268653	22	6.4	22	75	10	147	37	23	20	18	1.94
268541--268653	41	2.8	41	98	0	217	38	23	20	18	1.94
268563--268632	19	3.5	19	74	11	77	40	21	20	18	1.92
268642--268685	21	2.1	21	82	0	52	34	27	18	20	1.96
275770--276128	43	8.6	42	81	6	367	31	19	24	23	1.98
275770--276149	86	4.5	85	83	4	411	31	20	23	24	1.98
279404--279455	27	1.9	27	96	0	95	48	23	13	15	1.80
279905--280035	65	2.0	66	85	2	176	25	16	18	39	1.91
279970--280238	82	3.3	82	82	6	332	28	19	17	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
281597--281693	32	3.0	32	79	5	115	35	13	9	42	1.76
281758--281870	32	3.5	32	79	4	129	37	15	7	39	1.76
281596--281989	171	2.3	170	85	4	515	36	15	8	40	1.78
281927--281990	31	2.0	32	90	3	103	37	12	7	42	1.72
281787--282238	139	3.3	138	86	2	559	35	17	9	36	1.83
282065--282145	32	2.5	32	85	0	117	32	17	9	40	1.82
282850--282905	26	2.2	26	87	6	78	32	5	19	42	1.74
288460--288484	4	6.2	4	100	0	50	0	24	0	76	0.80
288854--288928	26	2.7	27	67	18	73	28	16	18	37	1.92
288823--288928	55	1.9	55	90	0	167	29	16	16	38	1.90
288896--288957	33	2.0	33	87	9	94	27	14	16	41	1.87
290281--290314	2	17.5	2	93	6	61	0	50	0	50	1.00
292461--292540	23	3.5	23	71	8	74	53	15	20	11	1.71
293338--293378	16	2.4	18	80	12	50	63	7	7	21	1.45
294633--294747	51	2.3	51	89	3	169	51	8	3	36	1.50
296534--296582	21	2.5	20	83	9	66	28	2	0	69	1.00
296534--296591	21	2.9	21	77	10	59	29	1	1	67	1.11
296572--296612	22	1.9	21	85	5	55	36	0	4	58	1.20
296677--296715	17	2.3	17	86	0	60	76	0	0	23	0.78
297289--297811	205	2.6	204	79	4	561	36	10	18	34	1.85
297887--298034	73	2.0	73	89	0	224	41	8	14	36	1.75
303000--303035	13	2.6	14	91	8	65	69	5	0	25	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
303842--303891	23	2.2	24	80	20	63	24	6	6	64	1.39
303926--303966	17	2.3	19	87	8	59	14	4	0	80	0.87
304453--304509	3	18.7	3	96	3	105	31	1	0	66	1.02
307308--307398	26	3.5	26	80	15	100	73	4	8	13	1.22
307324--307396	27	2.8	25	84	13	94	73	5	8	12	1.22
307347--307399	13	4.0	13	77	2	52	75	5	5	13	1.16
307308--307400	27	3.6	25	75	18	93	73	4	9	12	1.23
307490--307514	6	4.2	6	100	0	50	68	0	16	16	1.22
307536--307581	13	3.6	13	91	2	67	56	4	0	39	1.19
307580--307609	15	1.9	16	93	6	53	76	0	3	20	0.92
309440--309676	103	2.3	100	82	5	287	40	12	19	27	1.87
309606--309996	36	11.2	36	72	15	268	42	11	17	28	1.84
309516--309996	138	3.5	138	89	2	718	42	12	17	27	1.85
309516--309996	36	13.9	35	69	16	227	42	12	17	27	1.85
309906--309968	19	3.4	19	68	24	62	49	3	17	30	1.62
311306--311532	95	2.6	86	74	17	221	32	18	18	30	1.95
311364--311545	95	1.9	95	85	4	251	30	17	18	34	1.93
312571--312710	64	2.2	62	81	8	149	34	17	22	25	1.96
312699--312755	20	2.7	20	86	10	69	33	21	22	22	1.97
312719--312756	20	1.9	20	100	0	76	31	21	23	23	1.98
313538--313602	31	2.1	31	85	0	85	24	18	23	33	1.96
313561--313657	30	3.2	30	88	1	113	22	20	24	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
313588--313660	30	2.4	30	95	0	128	24	20	24	30	1.99
314820--314953	19	6.6	19	73	18	110	38	0	21	39	1.59
314777--314954	85	2.1	85	98	0	347	40	1	21	37	1.61
317022--317161	64	2.2	62	82	8	158	34	15	24	25	1.95
318586--318627	21	2.0	21	90	0	66	26	30	21	21	1.98
318733--318780	19	2.5	19	82	0	60	37	16	8	37	1.79
320116--320163	19	2.5	20	82	3	62	29	12	6	52	1.63
321374--321416	21	2.0	22	90	4	70	23	27	25	23	2.00
322229--322266	4	9.5	4	100	0	76	26	0	23	50	1.50
326372--326457	26	3.2	25	78	19	86	74	5	8	11	1.21
326571--326650	16	5.1	16	73	19	53	67	3	0	28	1.08
326686--326717	2	16.5	2	93	6	57	50	0	0	50	1.00
327641--327696	28	2.0	29	89	10	89	60	7	0	32	1.24
327684--327715	2	16.0	2	100	0	64	50	0	0	50	1.00
335958--335995	20	1.9	20	88	0	58	36	2	0	60	1.11
337909--338010	20	5.0	21	74	13	79	30	22	12	34	1.92
337905--338024	40	3.0	41	76	7	129	30	21	12	35	1.91
338182--338218	15	2.6	14	87	8	56	29	2	0	67	1.04
338808--338841	12	2.8	12	90	0	50	55	29	0	14	1.40
338967--339020	24	2.2	24	90	0	81	22	18	20	38	1.93
339275--339328	24	2.2	24	90	0	81	22	18	20	38	1.93
339502--339529	3	9.3	3	100	0	56	64	0	35	0	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
338925--339542	308	2.0	309	98	1	1170	36	13	22	27	1.91
341814--341880	20	3.3	20	82	0	98	23	25	20	29	1.99
341994--342142	64	2.3	64	92	0	244	53	16	2	27	1.57
343204--343271	24	2.8	23	71	22	59	29	25	22	23	1.99
343206--343301	48	2.0	48	80	13	108	32	22	19	25	1.98
343594--343665	29	2.5	29	100	0	144	38	11	11	38	1.76
350580--350638	30	2.0	30	93	0	100	32	23	5	38	1.77
350660--350731	29	2.5	29	100	0	144	38	11	11	38	1.76
352871--352988	21	5.7	20	82	6	128	24	19	36	19	1.95
352871--352989	42	2.8	42	88	0	166	25	19	36	19	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15