genome.fa.s6530.2.7.7.80.10.50.1000.2.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: VEPZ01006530.1 Hibiscus syriacus cultivar Beakdansim tig00015919_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  612433

Tables:   1   2   3   4   

This is table  2  of  4  ( 440 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)
224485--224608	63	2.0	62	87	4	178	31	21	18	28	1.97
230241--230280	2	20.0	2	100	0	80	50	0	0	50	1.00
234411--234449	21	1.9	20	84	5	51	35	20	15	28	1.93
250453--250500	20	2.4	20	100	0	96	25	35	10	29	1.89
257688--257944	120	2.1	120	92	1	426	39	17	9	33	1.81
258774--259009	108	2.2	109	86	2	314	46	18	16	19	1.85
259918--259946	3	9.7	3	100	0	58	68	0	0	31	0.89
260673--260711	20	2.0	19	90	5	60	43	2	0	53	1.14
261780--262382	115	5.2	114	75	6	486	25	20	15	38	1.91
262719--262787	36	1.9	35	82	8	86	37	13	21	27	1.90
265671--265754	43	2.0	43	87	0	123	21	2	19	57	1.52
274426--274480	21	2.6	21	94	0	92	25	34	20	20	1.96
278841--278918	17	4.7	17	77	17	76	46	0	0	53	1.00
278847--278919	3	25.3	3	73	8	53	42	0	0	57	0.98
288280--288537	125	2.1	125	90	2	403	32	15	25	25	1.96
289701--290229	36	14.1	36	72	14	349	33	24	19	22	1.97
289622--290341	115	6.3	115	85	6	957	34	24	19	22	1.97
290515--290551	17	2.2	17	95	0	65	51	0	2	45	1.15
290521--290590	16	4.3	16	77	15	56	42	0	1	55	1.08
294795--295034	120	2.0	117	87	4	347	34	6	28	30	1.83
297410--297472	11	5.9	11	73	14	60	57	1	1	39	1.18
297970--298050	7	11.6	7	78	5	83	45	34	1	18	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
305056--305385	36	9.4	36	75	15	171	45	3	5	46	1.40
305045--305326	65	4.1	62	74	17	181	45	3	5	45	1.43
305092--305148	29	2.0	29	90	6	91	42	3	5	49	1.42
305107--305387	39	7.7	37	78	14	266	45	3	5	45	1.44
305099--305162	28	2.2	28	83	10	76	43	4	4	46	1.45
305389--305442	14	3.8	14	80	11	56	27	1	0	70	0.98
305389--305424	15	2.4	15	86	13	56	25	2	0	72	0.98
306429--306467	9	4.3	9	90	9	62	20	0	0	79	0.73
306429--306458	8	3.6	8	95	4	51	20	0	0	80	0.72
306429--306467	17	2.2	18	95	4	71	20	0	0	79	0.73
306508--306566	9	6.1	9	79	14	64	15	5	0	79	0.89
306511--306555	21	2.1	22	91	4	74	15	6	0	77	0.96
310794--311764	165	5.8	165	78	6	1008	29	25	19	24	1.99
310794--311764	84	11.6	83	80	5	1017	29	25	19	24	1.99
310788--311744	249	3.8	249	90	0	1493	30	25	19	24	1.98
310788--311780	500	2.0	502	90	2	1559	29	25	19	25	1.99
312102--312224	65	1.9	64	88	6	185	42	2	5	49	1.39
312066--312310	38	6.8	37	74	16	110	46	3	6	44	1.46
312142--312198	29	2.0	28	90	6	89	42	3	5	49	1.42
312149--312212	28	2.2	28	83	10	76	43	4	4	46	1.45
312157--312401	76	3.4	74	79	15	273	45	4	4	44	1.45
312157--312435	38	7.7	38	77	13	245	46	3	5	44	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
312172--312427	36	7.3	34	71	19	111	47	3	4	44	1.42
312437--312469	15	2.2	15	89	10	50	24	3	0	72	0.98
313526--313559	10	3.5	10	88	4	52	14	0	2	82	0.79
313594--313639	21	2.2	21	84	7	58	15	10	2	71	1.23
313603--313669	21	3.2	21	81	12	75	19	5	0	74	1.02
313600--313649	20	2.6	20	85	14	70	16	8	0	76	1.02
313616--313664	11	4.4	11	82	10	55	16	4	0	79	0.88
314552--314584	16	2.1	16	94	0	57	12	9	27	51	1.69
314571--314630	31	2.0	30	90	3	93	26	13	20	40	1.89
316380--316473	41	2.3	40	78	10	104	29	27	17	25	1.97
316625--316675	22	2.3	22	96	0	93	15	47	21	15	1.83
317014--317040	14	1.9	14	100	0	54	48	22	22	7	1.75
317040--317080	20	2.1	20	90	4	66	14	19	19	46	1.84
317725--318019	29	10.1	29	92	0	473	30	5	16	47	1.70
318378--318405	11	2.5	11	100	0	56	35	10	17	35	1.85
322503--322527	12	2.1	12	100	0	50	44	16	16	24	1.86
324565--324690	37	3.3	37	70	23	116	30	1	19	49	1.58
324546--324714	78	2.1	79	92	4	277	29	1	19	49	1.59
324610--324646	14	2.6	14	95	0	65	29	0	24	45	1.53
324760--324969	20	10.9	20	79	6	200	32	21	20	25	1.97
324764--324919	54	2.8	56	80	6	190	32	22	19	25	1.98
324800--324938	74	1.9	74	83	0	179	30	21	20	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
324764--324969	114	1.8	114	89	0	322	33	21	19	25	1.97
328271--328307	16	2.4	16	86	8	51	64	0	5	29	1.15
328440--328500	20	3.0	20	68	15	54	37	13	19	29	1.90
328440--328536	40	2.4	40	82	1	113	35	12	20	31	1.90
328550--328666	20	5.8	20	81	2	144	29	23	17	28	1.97
328563--328684	41	3.0	41	84	2	129	29	21	18	30	1.97
331180--331938	76	10.0	76	84	3	852	40	18	10	29	1.85
331180--331938	227	3.3	228	83	4	883	40	18	10	29	1.85
331180--331938	303	2.5	304	83	4	915	40	18	10	29	1.85
341713--341788	3	25.0	3	97	2	143	67	0	0	32	0.91
343378--343418	14	2.9	14	88	3	55	43	29	2	24	1.67
349725--349967	69	3.5	69	82	1	290	23	28	19	29	1.98
350169--350368	76	2.6	76	91	0	319	40	18	12	29	1.87
350318--350421	51	2.0	51	88	0	154	41	17	12	28	1.86
350246--350497	127	2.0	127	87	0	360	42	19	10	28	1.84
350363--350660	76	3.9	76	86	0	398	41	22	7	28	1.80
350161--350573	203	2.0	203	86	0	567	41	19	10	28	1.84
350456--351026	213	2.6	210	80	9	574	40	19	10	29	1.84
350533--350797	137	2.0	134	84	5	345	40	19	9	30	1.83
350661--351026	76	4.8	76	84	4	443	39	17	12	30	1.86
350661--351026	151	2.4	151	85	3	482	39	17	12	30	1.86
359757--359786	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
359818--360101	156	1.8	157	90	3	466	36	29	13	19	1.91
360127--360190	24	2.7	24	82	0	83	45	20	12	21	1.84
362249--362282	17	2.0	17	88	0	50	38	26	20	14	1.91
367763--367819	3	19.0	3	82	7	71	63	0	3	33	1.12
368378--368468	42	2.2	41	84	3	119	35	20	20	23	1.96
369899--369993	41	2.3	41	83	8	113	31	22	13	32	1.93
377502--377561	3	19.7	3	80	10	68	61	0	3	35	1.12
377505--377559	16	3.6	16	85	9	78	61	0	3	34	1.13
379460--379505	3	15.3	3	100	0	92	67	0	0	32	0.91
379914--379995	44	1.9	42	87	5	119	28	18	23	30	1.97
379670--380148	166	2.9	166	88	2	671	30	17	19	32	1.95
380053--380139	44	2.0	44	81	0	102	34	13	21	29	1.92
380436--380507	2	36.0	2	100	0	144	50	0	0	50	1.00
381806--381856	3	16.7	3	80	8	50	68	0	1	29	1.00
383049--383087	18	2.2	18	90	0	60	10	20	12	56	1.65
385084--385222	42	3.3	41	81	6	161	30	17	21	30	1.97
392355--392833	115	4.1	114	81	5	482	25	19	14	40	1.89
392411--392833	232	1.8	229	82	6	550	26	19	14	39	1.90
392436--392861	114	3.7	112	82	5	460	26	18	15	40	1.90
392436--392885	118	3.9	112	81	8	449	27	18	14	40	1.89
396696--396735	16	2.6	16	84	15	57	62	0	15	22	1.32
398496--398535	12	3.2	12	85	3	53	55	5	17	22	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
398496--398531	18	1.9	19	88	5	56	52	2	19	25	1.59
400316--400470	41	3.8	41	96	1	285	14	20	25	38	1.91
400401--400530	60	2.1	60	91	5	208	15	20	27	36	1.93
400360--400571	101	2.1	101	93	3	363	15	20	26	37	1.92
400463--400601	41	3.5	41	91	2	212	16	21	25	36	1.94
400290--400597	142	2.2	144	90	5	493	17	20	25	37	1.94
400681--400754	6	12.5	6	98	1	141	32	51	16	0	1.45
401256--401390	6	22.5	6	100	0	270	0	16	50	33	1.45
401464--401553	20	4.6	18	72	18	72	41	22	22	14	1.89
401477--401596	20	5.9	20	70	18	95	40	23	23	12	1.88

Tables:   1   2   3   4