genome.fa.s8417.2.7.7.80.10.50.1000.2.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: VEPZ01008417.1 Hibiscus syriacus cultivar Beakdansim tig00111197_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1004101

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 600 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)
181931--181979	20	2.5	20	96	0	89	36	26	22	14	1.92
182061--182108	20	2.4	20	100	0	96	14	18	27	39	1.90
182075--182138	20	3.2	20	88	0	83	14	15	23	46	1.82
182618--182721	21	5.0	21	78	3	102	21	34	20	24	1.96
182616--182736	42	2.9	42	80	2	127	22	34	19	23	1.96
182667--182736	21	3.3	21	74	4	61	22	35	21	20	1.96
184748--184786	21	1.9	20	84	5	51	12	0	17	69	1.19
186730--186774	20	2.3	19	84	3	54	40	24	0	35	1.56
196082--196128	20	2.4	19	79	10	58	53	8	17	21	1.70
195870--196342	181	2.6	182	90	0	714	42	13	16	27	1.86
196274--196314	20	2.2	19	83	12	50	51	14	17	17	1.77
198418--198481	21	3.1	20	82	10	76	42	12	28	17	1.85
198515--198576	33	1.9	33	90	3	99	30	0	46	22	1.52
200372--200420	19	2.6	19	96	0	89	32	2	10	55	1.45
200654--201635	399	2.5	400	93	1	1673	35	14	18	31	1.91
200654--201616	200	4.8	200	94	0	1660	35	14	18	31	1.91
203109--203154	12	3.8	12	85	0	56	39	6	32	21	1.79
203109--203154	18	2.6	18	85	0	56	39	6	32	21	1.79
204446--204692	120	2.1	120	94	0	431	31	14	15	38	1.87
204380--205160	303	2.6	303	98	0	1490	33	14	16	34	1.90
204749--204995	120	2.1	120	92	0	413	31	13	15	38	1.87
207884--207955	23	3.2	23	88	4	110	34	5	22	37	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
208372--208444	23	3.2	23	88	0	110	35	5	20	38	1.76
207698--209336	491	3.4	489	96	1	2982	41	7	10	39	1.69
208863--208935	23	3.2	23	92	0	119	34	5	21	38	1.77
209741--209775	18	2.1	18	89	10	56	28	2	0	68	1.04
209736--209783	20	2.5	18	80	19	53	35	2	0	62	1.07
223602--223645	21	2.1	21	100	0	88	9	15	47	27	1.76
228369--228427	22	2.6	22	94	2	100	47	23	5	23	1.71
230799--230846	21	2.3	21	88	0	69	12	31	35	20	1.90
231664--231752	24	3.8	23	77	7	90	32	24	22	20	1.98
239558--239603	23	2.0	23	91	0	74	30	26	26	17	1.97
245474--245560	23	3.7	23	76	14	88	26	26	26	20	1.99
247765--247818	22	2.6	21	82	8	67	33	16	20	29	1.95
248083--248503	54	7.8	54	89	2	614	34	22	17	24	1.96
257273--257325	25	2.2	24	82	3	61	11	22	1	64	1.36
257773--258056	134	2.1	135	87	0	399	29	22	18	29	1.97
258062--258216	57	2.8	55	81	6	177	31	18	20	29	1.96
258247--258504	37	7.1	36	86	3	354	23	21	17	37	1.94
258247--258505	73	3.5	73	87	2	367	23	21	18	37	1.94
260193--260418	103	2.2	102	91	1	371	26	13	23	35	1.92
260427--260513	23	3.7	23	74	6	86	22	25	24	27	2.00
260417--260515	47	2.1	47	94	0	171	25	22	21	31	1.98
260417--260490	24	3.1	24	72	3	78	27	20	20	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
275593--275962	54	6.9	54	86	2	505	32	21	20	25	1.97
277561--277627	24	2.8	23	80	8	71	28	25	22	23	1.99
277568--277645	24	3.3	23	80	8	86	29	26	20	23	1.99
284807--284862	23	2.4	23	90	0	85	41	12	17	28	1.86
286044--286072	2	14.5	2	100	0	58	51	0	0	48	1.00
286151--286231	5	15.6	5	71	16	58	74	1	7	17	1.11
286121--286206	31	2.8	31	84	7	95	74	1	6	17	1.10
286127--286211	41	2.1	40	85	10	111	74	1	5	18	1.09
286183--286228	16	2.8	17	83	9	51	76	2	6	15	1.09
286885--286913	12	2.3	13	94	5	51	58	3	0	37	1.15
287185--288161	200	4.9	200	88	1	1365	25	21	20	33	1.97
287185--288160	399	2.4	399	89	2	1435	25	21	20	33	1.97
288223--288507	86	3.3	86	90	1	446	20	22	26	30	1.98
288223--288536	171	1.8	172	86	3	463	19	21	26	31	1.98
292863--292954	24	4.0	23	77	4	96	31	23	25	19	1.98
293146--293180	2	17.5	2	100	0	70	51	0	0	48	1.00
297117--297187	37	1.9	37	97	0	133	74	2	9	12	1.17
297118--297185	16	3.9	16	70	26	50	76	2	7	13	1.11
297254--297295	17	2.4	18	92	4	68	71	0	7	21	1.09
298130--298168	17	2.3	17	100	0	78	17	20	23	38	1.93
303306--303350	17	2.7	17	96	3	83	35	4	0	60	1.17
305413--305454	18	2.3	18	87	0	57	35	4	30	28	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
305673--305724	22	2.5	21	85	11	72	5	1	15	76	1.05
305685--305736	22	2.4	22	83	6	70	5	3	17	73	1.19
306713--306752	20	2.0	21	90	5	64	40	22	12	25	1.89
311486--311530	19	2.4	19	96	0	81	40	15	28	15	1.88
313651--313684	18	1.9	18	94	5	61	41	20	20	17	1.91
313697--313736	20	2.0	21	95	5	73	32	22	20	25	1.98
317311--317357	22	2.1	23	84	4	60	34	10	2	53	1.48
318513--318557	23	2.0	23	86	8	65	22	17	8	51	1.73
320094--320147	28	2.0	27	92	3	90	18	40	7	33	1.78
330240--330384	59	2.4	60	81	10	181	42	4	22	31	1.72
330202--330383	60	3.1	59	76	10	192	42	4	20	32	1.72
330589--330630	2	21.0	2	100	0	84	50	0	0	50	1.00
330660--330711	27	1.9	27	92	0	86	30	3	0	65	1.10
341650--341682	17	1.9	17	88	11	50	9	12	18	60	1.57
345601--345646	21	2.2	21	92	3	76	30	13	0	56	1.37
345603--345649	20	2.3	20	89	7	69	27	14	0	57	1.38
373807--373880	38	1.9	38	88	0	112	35	9	21	33	1.86
377566--377618	22	2.4	22	90	0	88	22	15	16	45	1.85
381218--381266	16	3.1	16	87	0	71	61	22	8	8	1.51
382272--382346	24	3.1	24	84	0	69	57	22	8	12	1.60
384845--384882	10	3.8	10	96	0	67	13	0	5	81	0.85
384850--384892	16	2.7	15	86	10	59	11	0	4	83	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384850--384914	26	2.4	26	82	12	69	15	3	6	75	1.12
385812--385836	4	6.2	4	100	0	50	24	0	0	76	0.80
395113--395166	8	6.9	8	91	6	76	77	5	14	1	1.03
395113--395171	24	2.5	23	84	13	84	77	5	15	1	1.01
396418--396497	39	2.1	39	92	0	133	48	16	6	28	1.70
399895--399955	20	2.9	21	82	7	70	18	22	34	24	1.96
399894--399944	23	2.3	23	83	6	70	19	17	41	21	1.91
405706--405765	13	4.7	13	79	4	68	25	23	0	51	1.48
405706--405767	25	2.4	25	86	2	79	25	22	0	51	1.48
405800--405872	19	3.8	18	80	8	65	32	17	5	43	1.72
405825--405883	21	3.1	17	81	16	55	33	15	3	47	1.62
408555--408596	19	2.2	19	91	0	66	33	16	14	35	1.89
410018--410083	30	2.2	29	89	2	96	30	18	6	45	1.73
410018--410135	30	4.0	29	73	10	78	32	17	5	44	1.71
410719--410895	90	2.0	89	94	1	309	37	11	6	44	1.67
414122--414178	30	1.9	30	89	7	89	36	14	5	43	1.67
416927--416968	19	2.2	20	86	4	59	42	19	11	26	1.85
424965--425317	45	8.0	45	88	3	493	39	11	23	25	1.88
426821--427094	38	7.3	38	78	8	251	47	4	7	41	1.50
426821--427094	39	7.3	38	79	10	282	47	4	7	41	1.50
426823--427037	109	2.0	110	86	5	301	48	3	6	41	1.47
426820--427106	148	2.0	146	83	6	366	47	4	7	40	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
436013--436116	38	2.7	38	71	0	91	43	21	13	22	1.87
436776--436815	16	2.5	16	87	0	62	17	35	22	25	1.95
441054--441109	26	2.2	26	96	0	103	19	26	14	39	1.90
442339--442375	5	7.6	5	90	3	58	0	16	0	83	0.64
442347--442389	10	4.1	10	88	8	59	0	13	2	83	0.74
442339--442389	14	3.6	14	84	5	57	0	15	1	82	0.76
447394--447426	17	1.9	17	93	0	57	36	6	12	45	1.66
447427--447492	23	2.9	23	84	8	98	39	21	18	21	1.93
449389--449421	17	2.0	17	94	5	59	69	6	0	24	1.10
449373--449429	24	2.4	24	80	11	64	66	7	0	26	1.17

Tables:   1   2   3   4   5