genome.fa.s8425.2.7.7.80.10.50.1000.2.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: VEPZ01008425.1 Hibiscus syriacus cultivar Beakdansim tig00111208_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2340112

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

This is table  2  of  12  ( 1340 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)
188141--188179	19	2.1	19	100	0	78	23	15	30	30	1.95
190694--190759	26	2.3	26	85	12	78	36	4	1	57	1.28
190928--190985	30	1.9	30	96	0	107	24	15	5	55	1.61
195422--195469	20	2.5	20	86	6	64	31	12	22	33	1.91
195886--196352	54	8.6	54	86	3	575	34	20	18	27	1.95
201230--201638	54	7.6	54	84	1	444	33	19	20	26	1.97
201230--201630	162	2.5	161	84	0	498	33	19	19	26	1.96
203014--203038	12	2.1	12	100	0	50	24	0	32	44	1.54
205458--205582	31	4.0	31	92	2	198	38	23	18	20	1.93
207788--207854	3	22.3	3	100	0	134	67	0	0	32	0.91
210281--210356	29	2.6	28	87	8	107	36	5	5	52	1.47
210244--210356	58	2.0	56	81	15	133	36	5	7	50	1.54
210376--210426	26	2.0	26	88	0	75	33	7	13	45	1.73
210905--213679	705	4.0	684	95	3	4716	26	23	16	32	1.96
219244--219310	27	2.6	26	75	13	75	58	4	1	35	1.28
223068--223327	62	4.3	61	86	8	345	40	24	19	15	1.91
223068--223335	20	13.2	20	80	10	244	40	24	19	15	1.90
223431--223497	6	11.5	6	96	1	111	29	53	16	0	1.43
225120--225319	58	3.5	57	85	6	242	41	14	7	37	1.72
225507--225654	45	3.3	46	79	8	162	40	15	8	35	1.77
231478--231551	36	2.1	35	94	2	130	33	28	18	18	1.95
232807--232872	7	10.0	7	77	12	68	30	12	21	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
232824--232872	19	2.6	19	100	0	98	30	12	24	32	1.92
242369--242570	98	2.1	99	91	0	325	41	13	9	36	1.77
248584--248637	27	2.0	27	85	0	72	38	12	40	7	1.72
256559--256614	19	2.9	19	91	2	85	26	23	16	33	1.95
256657--256709	18	2.6	21	83	16	76	26	11	26	35	1.90
256742--256839	21	4.7	21	96	2	180	24	27	22	25	2.00
256742--256839	41	2.4	42	96	1	180	24	27	22	25	2.00
264154--264182	15	1.9	15	100	0	58	20	3	0	75	0.94
266530--266674	60	2.4	60	81	6	168	17	25	22	34	1.96
267343--267386	23	1.9	23	86	9	63	61	6	6	25	1.46
269948--270034	39	2.2	39	84	8	106	43	12	3	40	1.60
270068--270191	39	3.2	39	83	2	142	42	12	8	36	1.73
270122--270213	39	2.4	39	87	3	114	38	18	7	35	1.79
269969--270342	175	2.2	171	83	2	451	43	12	8	36	1.72
270241--270349	36	2.9	37	90	6	166	47	6	7	38	1.57
270408--270552	58	2.5	58	84	6	188	46	9	3	40	1.53
270410--270568	58	2.8	55	80	8	176	47	9	3	39	1.54
270595--270791	58	3.4	57	86	2	243	40	13	9	37	1.77
275579--275839	143	1.8	143	85	8	368	38	7	8	45	1.62
277894--277932	7	5.3	7	82	11	51	12	15	10	61	1.56
277894--277932	15	2.6	15	91	0	60	12	15	10	61	1.56
277991--278045	12	4.3	12	80	13	56	23	10	5	60	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
278004--278033	15	2.0	15	100	0	60	20	6	6	66	1.38
277992--278051	27	2.3	26	88	8	86	23	11	5	60	1.51
280445--280507	21	2.8	22	83	9	74	80	0	19	0	0.70
280459--280486	12	2.3	12	100	0	56	92	0	7	0	0.37
280440--280507	8	9.0	8	75	12	63	79	0	20	0	0.73
282764--282983	114	1.9	114	90	1	352	33	14	21	30	1.93
285504--285555	22	2.4	22	93	0	86	36	7	15	40	1.76
286392--286622	76	3.0	76	95	0	399	24	19	21	34	1.96
286636--287229	113	5.2	113	83	8	734	38	14	19	27	1.91
287207--287489	124	2.3	122	88	1	404	40	13	18	26	1.88
287674--287811	39	3.5	39	88	3	170	49	10	18	22	1.77
287881--287937	17	3.4	17	76	13	73	49	8	22	19	1.76
287898--287953	16	3.4	16	76	13	69	48	12	21	17	1.80
287881--287954	33	2.2	33	100	0	148	47	10	22	18	1.80
289367--289627	143	1.8	144	86	8	379	38	7	7	47	1.59
292386--292459	36	2.1	35	94	2	130	33	28	18	18	1.95
297927--298128	98	2.1	99	93	0	343	41	13	8	35	1.76
298867--298933	34	1.9	34	82	14	84	46	20	13	19	1.83
303088--303248	65	2.5	64	80	4	180	27	16	24	31	1.97
304250--304303	27	2.0	27	85	0	72	38	12	40	7	1.72
313240--313286	23	2.0	23	87	0	67	42	8	8	40	1.66
318761--318803	3	14.3	3	95	0	77	0	32	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
322991--323062	22	3.0	24	74	10	85	62	9	8	19	1.51
324410--324455	16	2.8	16	86	6	56	50	2	2	45	1.26
324592--324648	30	1.9	30	85	0	78	19	10	29	40	1.85
325616--325798	92	2.0	90	91	4	296	19	22	20	36	1.95
326148--326188	21	2.0	21	90	0	64	34	21	9	34	1.87
333835--333885	24	2.0	25	85	7	68	74	5	5	13	1.19
334691--334767	24	3.3	24	77	12	72	32	9	6	51	1.59
338505--338543	21	1.9	20	84	5	51	46	10	15	28	1.78
341349--341457	23	4.9	22	82	6	103	21	26	30	22	1.98
341358--341446	23	3.9	23	88	5	128	22	26	29	21	1.99
345267--345306	21	1.9	21	90	10	64	37	10	0	52	1.35
348409--348433	12	2.1	12	100	0	50	68	0	0	32	0.90
349467--349568	5	19.8	5	74	7	62	23	3	2	69	1.19
352447--352488	17	2.4	18	88	4	59	21	7	2	69	1.25
352530--352578	19	2.5	19	86	3	62	22	8	0	69	1.14
364306--364344	20	2.0	20	84	0	51	51	12	20	15	1.76
366089--366129	20	2.0	20	85	0	55	34	4	2	58	1.32
380010--380042	15	2.3	14	94	5	57	75	0	0	24	0.80
383822--383870	3	17.3	3	76	19	52	71	0	0	28	0.86
383822--383863	11	4.1	10	79	14	50	71	0	0	28	0.86
383822--383871	25	2.0	26	92	4	84	72	0	0	28	0.86
384302--384965	38	16.8	38	78	7	522	38	17	18	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384770--384965	84	2.3	84	95	0	347	35	17	18	28	1.94
384378--384957	118	4.9	122	78	7	397	38	17	17	26	1.92
391077--391123	22	2.1	23	92	7	80	40	6	17	36	1.75
392201--392436	41	5.8	40	69	15	117	35	17	18	29	1.94
392162--392507	165	2.1	164	89	2	525	34	16	18	30	1.93
392243--392497	81	3.1	83	68	12	218	34	16	18	30	1.94
392162--392559	164	2.4	162	82	8	482	33	17	19	29	1.95
400609--400671	21	3.0	20	79	9	63	50	17	31	0	1.46
400614--400664	23	2.2	23	89	6	77	49	17	33	0	1.47
400620--400671	24	2.2	24	86	6	70	50	21	28	0	1.49
401007--401105	43	2.3	43	82	5	119	32	25	15	27	1.95
401167--401345	43	4.2	42	82	4	198	30	25	21	23	1.99
401435--401471	15	2.7	14	84	15	51	8	24	32	35	1.85
401905--401929	13	1.9	13	100	0	50	24	8	48	20	1.76
414870--414898	15	1.9	15	100	0	58	34	0	3	62	1.12
414920--414954	15	2.4	15	90	4	54	71	0	0	28	0.86
415159--415205	23	2.0	24	83	4	60	53	8	4	34	1.51
415813--416372	22	25.5	22	84	5	577	48	10	0	41	1.42
415813--416372	66	8.5	66	84	4	648	48	10	0	41	1.42
416362--416401	12	3.6	12	83	16	59	47	0	7	45	1.31
422510--422628	23	5.2	24	74	18	94	9	10	19	61	1.54
422510--422598	34	2.7	33	82	3	106	8	8	20	61	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
424178--424219	20	2.0	21	90	4	68	16	28	35	19	1.93
424874--424926	17	3.3	15	80	15	52	56	24	0	18	1.42
426927--426964	20	1.9	20	88	0	58	13	26	34	26	1.93
437050--437105	2	28.5	2	96	3	105	50	0	0	50	1.00
438422--438476	25	2.2	25	80	0	65	30	0	0	69	0.89
438412--438496	34	2.5	35	92	5	147	37	0	0	62	0.96
441262--441291	2	15.0	2	100	0	60	50	0	0	50	1.00
442473--442636	60	2.7	60	80	6	154	35	20	4	39	1.72
442835--442926	29	3.1	29	71	11	87	38	7	18	35	1.79
442766--442926	60	2.7	60	86	0	205	38	6	22	31	1.81

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