genome.fa.s5728.2.7.7.80.10.50.1000.2.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: VEPZ01005728.1 Hibiscus syriacus cultivar Beakdansim tig00013386_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  971753

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 661 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)
164222--164288	34	2.0	34	100	0	134	11	17	26	43	1.84
166016--166049	3	11.3	3	87	12	52	35	0	0	64	0.94
167572--167866	149	2.0	148	79	9	323	39	6	8	46	1.58
172712--172739	7	4.0	7	100	0	56	42	14	14	28	1.84
175168--175289	63	1.9	63	83	6	158	36	21	18	23	1.94
175933--175992	23	2.6	23	86	0	75	21	25	26	26	2.00
176909--176950	19	2.2	19	91	0	66	40	7	16	35	1.76
177026--177090	21	3.1	21	88	0	94	24	21	23	30	1.99
177619--177680	22	2.8	22	87	2	79	24	27	19	29	1.98
177975--178057	38	2.2	38	97	0	157	27	16	13	42	1.86
178247--178316	2	35.0	2	100	0	140	50	0	0	50	1.00
182093--182125	5	6.6	5	100	0	66	18	0	0	81	0.68
183911--183945	6	5.7	6	86	6	52	20	51	0	28	1.47
183908--183951	19	2.4	18	78	17	54	18	52	0	29	1.46
188090--188130	21	1.9	22	90	5	66	60	12	4	21	1.50
195326--195427	35	2.8	36	89	4	152	32	5	18	43	1.74
199952--200015	21	3.4	20	66	29	59	31	4	18	45	1.70
199945--200066	35	3.4	35	86	6	165	33	3	18	44	1.66
205829--205868	20	2.1	19	90	4	62	47	2	0	50	1.14
206459--206483	13	1.9	13	100	0	50	20	0	0	80	0.72
212992--213029	14	2.6	14	95	4	67	50	0	0	50	1.00
214499--214612	44	2.6	44	100	0	228	28	14	18	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
214857--214901	21	2.1	22	95	4	83	8	33	28	28	1.87
214933--215541	257	2.4	250	85	9	824	40	19	12	27	1.88
235407--235449	21	2.0	21	86	0	59	30	27	25	16	1.97
235429--235577	66	2.3	66	91	2	237	28	26	26	17	1.98
236187--236245	22	2.6	23	91	2	93	20	27	30	22	1.98
242295--242337	21	2.0	21	81	0	50	30	30	25	13	1.94
242317--242465	66	2.3	66	92	2	246	28	27	26	16	1.97
243076--243144	23	3.0	23	91	2	104	21	24	27	26	1.99
250738--250832	39	2.4	39	92	0	163	31	5	7	55	1.50
265853--265951	31	3.3	31	64	16	80	36	15	6	42	1.71
265837--265955	60	2.0	60	96	0	220	34	13	5	46	1.67
265833--265926	29	3.2	28	65	18	66	34	13	5	46	1.66
271043--271077	2	17.5	2	93	0	61	54	0	0	45	0.99
271223--271254	3	11.3	3	87	12	50	68	0	0	31	0.90
271247--271309	29	2.1	29	82	8	74	74	3	6	15	1.15
271319--271459	44	3.4	42	74	16	127	63	2	2	31	1.23
271811--271848	20	1.9	20	88	0	58	5	34	39	21	1.76
272661--272706	2	25.0	2	79	16	55	52	0	2	45	1.13
272661--272706	7	6.6	7	87	7	67	52	0	2	45	1.13
273214--273791	94	5.9	98	84	6	719	21	18	25	33	1.96
273300--273794	193	2.6	193	96	0	891	22	17	25	34	1.96
285043--285101	2	29.5	2	100	0	118	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
285225--285254	2	15.5	2	93	6	53	53	0	0	46	1.00
285225--285284	19	3.2	18	84	13	68	61	0	0	38	0.96
285252--285288	3	13.3	3	83	16	53	70	0	0	29	0.88
286188--286220	16	2.1	16	94	0	57	33	0	0	66	0.92
286358--286418	2	30.5	2	93	0	104	47	1	0	50	1.10
297382--297411	14	2.1	14	100	0	60	40	33	6	20	1.78
298688--298745	30	1.9	31	86	6	84	20	5	6	67	1.34
302015--302067	15	3.5	15	97	0	97	30	24	0	45	1.54
303076--303124	25	2.0	24	84	4	62	40	24	0	34	1.55
306541--306587	2	23.5	2	100	0	94	48	0	0	51	1.00
321929--321975	20	2.4	19	86	10	67	55	8	17	19	1.67
321726--322189	181	2.6	182	88	0	660	42	13	16	27	1.85
322110--322156	20	2.4	19	82	10	67	53	10	17	19	1.72
322119--322161	20	2.3	19	88	11	63	51	11	16	20	1.75
324379--324443	21	3.1	21	93	0	103	41	10	30	16	1.83
324477--324542	33	2.0	33	93	0	114	30	1	45	22	1.62
325423--325911	245	2.0	242	97	2	935	36	9	17	36	1.83
326235--326283	19	2.6	19	96	0	89	32	2	10	55	1.45
326396--327757	200	6.8	200	95	1	2365	36	14	18	30	1.91
329260--329297	12	3.2	12	96	0	67	36	13	34	15	1.87
330520--332922	183	13.1	183	96	0	4414	34	14	16	33	1.90
335768--335835	23	3.0	23	89	4	102	33	7	19	39	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
336191--336235	22	2.0	22	83	8	56	42	11	8	37	1.72
336253--336325	23	3.2	23	92	0	119	34	5	21	38	1.77
336744--336816	23	3.2	23	90	0	110	35	5	20	38	1.76
335415--337218	491	3.7	490	96	0	3272	41	7	10	40	1.68
347625--347657	16	2.0	17	94	5	59	30	0	0	69	0.88
348990--349079	39	2.3	39	77	7	101	36	15	3	44	1.63
349315--349389	21	3.3	22	79	20	75	37	5	0	57	1.22
350340--350374	2	17.5	2	100	0	70	48	0	0	51	1.00
350477--350617	38	3.7	39	78	7	157	44	3	9	42	1.53
350584--350644	26	2.3	26	94	0	104	44	0	8	47	1.33
350509--350719	101	2.1	100	81	8	241	45	3	6	43	1.48
350562--350789	75	3.4	65	74	15	196	45	3	5	45	1.42
350518--350788	139	1.9	139	83	5	352	45	3	5	45	1.44
350610--350747	37	3.7	38	80	9	149	46	3	5	44	1.42
350728--350772	2	23.5	2	91	8	76	53	0	0	46	1.00
351150--351189	21	1.9	21	85	10	55	50	22	17	10	1.76
352025--352066	17	2.5	16	85	11	57	21	0	0	78	0.75
352010--352149	47	2.7	51	75	17	153	19	7	2	70	1.23
352007--352079	23	3.0	23	73	17	60	17	6	2	72	1.19
352015--352136	57	2.1	57	83	10	147	17	7	3	72	1.22
352093--352167	36	2.1	36	85	9	100	20	5	2	72	1.17
352042--352151	44	2.5	43	79	13	111	19	6	2	71	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352143--352206	25	2.5	24	82	9	83	14	7	3	75	1.15
352009--352263	106	2.4	104	81	11	263	18	6	3	71	1.22
352969--353014	24	2.0	23	82	4	56	39	0	2	58	1.10
353193--353260	35	1.9	35	96	0	127	38	16	13	32	1.87
353853--353991	21	6.8	20	73	8	91	36	25	17	20	1.94
353958--354187	20	11.5	20	80	5	223	36	24	18	20	1.94
354870--354916	24	2.0	24	83	8	60	25	12	21	40	1.89
355091--355115	12	2.1	12	100	0	50	72	0	28	0	0.86
357399--357632	33	6.9	33	84	12	264	45	18	22	13	1.84
357413--357610	19	11.4	19	75	21	211	46	18	21	13	1.83
357441--357610	52	3.2	52	99	0	331	46	17	22	13	1.83
357570--357624	14	3.6	14	73	21	56	45	20	23	10	1.82
357657--357735	19	4.4	19	80	16	105	13	22	17	45	1.84
357842--357878	14	2.6	14	91	0	65	45	21	0	32	1.52
359857--359913	14	3.7	14	77	20	60	45	22	21	10	1.82
359838--359930	33	2.8	33	95	0	168	47	21	20	10	1.80
359801--359935	19	7.6	19	76	16	128	45	23	19	11	1.82
359931--360059	19	7.3	19	75	17	125	8	17	28	45	1.77
359931--360022	33	2.8	33	93	3	150	7	18	28	45	1.76
360107--360482	93	4.1	93	98	0	718	45	18	13	22	1.84
362183--362272	14	5.7	14	72	23	72	44	22	24	8	1.81
362175--362289	33	3.5	33	98	0	221	46	20	22	10	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
362197--362294	19	5.7	19	70	22	90	44	21	22	11	1.83
362306--362362	14	3.7	14	75	20	60	8	24	22	43	1.81
362290--362370	33	2.5	33	95	0	144	8	22	22	46	1.78
362347--362422	21	3.7	21	83	3	109	11	25	17	46	1.82
362346--362423	41	1.9	41	97	0	147	12	25	16	44	1.83
362502--362572	33	2.2	33	92	0	115	47	18	22	11	1.80
362754--362808	22	2.5	22	81	0	74	20	16	40	23	1.91
362955--363148	20	9.6	20	81	5	212	19	19	25	35	1.95
362954--363270	60	5.2	60	78	8	234	20	17	25	36	1.94
363135--363217	21	4.0	21	73	6	78	25	16	24	33	1.96

Tables:   1   2   3   4   5   6