genome.fa.s8495.2.7.7.80.10.50.1000.17.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: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5120959

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  17  of  21  ( 2505 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)
3991908--3992031	61	2.0	60	82	1	149	32	21	9	36	1.86
3991969--3992302	161	2.1	161	88	3	503	30	23	10	35	1.88
3991972--3992310	81	4.2	80	85	3	450	30	22	11	35	1.89
3992275--3992426	68	2.2	68	94	0	259	31	23	15	28	1.96
3994615--3994697	42	2.0	42	92	0	139	19	19	16	44	1.87
3994903--3994965	23	2.6	24	78	19	60	50	1	0	47	1.10
3994937--3994983	22	2.1	23	88	4	69	44	2	0	53	1.12
3994973--3995026	23	2.3	23	84	6	65	55	1	1	40	1.21
3995105--3995173	19	3.6	18	71	21	52	47	1	2	47	1.25
3995168--3995212	23	2.0	23	86	0	63	53	2	2	42	1.25
3995558--3995616	29	2.0	29	90	0	91	32	16	8	42	1.79
3995567--3995618	14	3.6	14	82	5	68	34	19	7	38	1.80
3997823--3997861	3	12.7	3	94	5	69	66	0	2	30	1.05
3998105--3998598	137	3.6	137	80	3	546	26	16	27	29	1.97
3998595--3998720	36	3.7	35	75	10	134	42	14	15	26	1.86
3998599--3998869	66	4.1	67	83	4	325	39	13	17	28	1.88
3998812--3998851	21	1.9	21	89	0	62	45	12	17	25	1.83
4006233--4006271	21	1.9	20	84	5	51	41	12	10	35	1.77
4007819--4007903	23	3.7	23	79	7	100	20	25	25	28	1.99
4009009--4009067	29	2.0	29	90	0	91	22	44	10	23	1.83
4021628--4021747	49	2.6	45	82	11	152	39	6	21	32	1.80
4024584--4024637	21	2.5	21	79	11	56	74	1	16	7	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4024565--4024655	28	3.2	28	78	17	100	73	2	16	7	1.16
4024565--4024640	32	2.3	31	82	17	84	75	2	15	6	1.13
4024610--4024657	15	3.4	14	78	21	55	75	0	16	8	1.04
4024626--4024661	18	1.9	19	94	5	65	75	0	13	11	1.06
4030733--4031082	174	2.0	177	94	3	618	41	13	21	23	1.88
4032108--4032972	89	9.8	88	82	4	861	32	17	20	29	1.96
4032108--4032972	264	3.3	264	81	4	992	32	17	20	29	1.96
4032137--4032937	353	2.3	351	83	2	964	32	17	20	29	1.96
4036478--4036520	21	2.0	21	95	0	77	32	25	18	23	1.97
4039525--4039554	9	3.4	9	95	4	53	16	0	0	83	0.65
4039529--4039584	18	3.1	18	79	7	60	25	0	0	75	0.81
4041292--4041361	13	5.2	12	77	19	68	81	4	11	2	0.94
4041296--4041359	31	2.1	29	82	5	74	79	4	12	3	1.00
4041292--4041349	12	4.5	13	79	12	66	82	3	10	3	0.90
4042410--4042528	32	3.7	32	90	2	168	28	16	25	29	1.97
4042755--4043190	110	4.0	110	89	1	626	37	23	16	22	1.94
4045025--4045090	2	33.0	2	93	6	116	50	0	1	48	1.10
4047190--4047280	21	4.3	20	84	5	101	47	17	18	16	1.83
4049781--4049831	22	2.5	20	84	15	61	70	0	21	7	1.12
4052537--4052689	37	4.1	37	83	9	186	41	20	19	18	1.91
4052547--4052731	36	5.1	36	78	11	173	38	22	18	19	1.93
4052547--4052725	73	2.5	72	82	8	220	39	21	19	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4052926--4053025	40	2.5	41	80	1	130	25	19	23	33	1.97
4053075--4053183	42	2.6	42	80	1	112	23	19	22	33	1.97
4053346--4053395	24	2.1	24	100	0	100	36	12	36	16	1.85
4053639--4053906	54	5.0	54	84	4	339	32	17	27	22	1.97
4053639--4053950	54	5.8	54	81	9	329	31	17	26	24	1.97
4053638--4053914	108	2.6	108	84	5	375	32	17	27	23	1.96
4053691--4054550	55	15.9	55	83	8	597	31	16	24	27	1.96
4053901--4054459	110	5.1	110	84	6	663	31	14	24	29	1.95
4053901--4054459	163	3.4	163	84	4	673	31	14	24	29	1.95
4054718--4054752	17	2.0	18	94	5	63	34	0	2	62	1.10
4054720--4054757	17	2.2	17	86	9	51	31	0	5	63	1.17
4055757--4055794	14	2.7	14	100	0	76	63	0	31	5	1.17
4062733--4062783	20	2.5	20	87	9	68	29	19	19	31	1.97
4067071--4067115	23	1.9	23	82	13	56	28	2	6	62	1.33
4069459--4069496	16	2.4	16	90	0	67	42	10	21	26	1.85
4079413--4079443	16	1.9	16	93	0	53	38	22	12	25	1.90
4079705--4079752	23	2.2	22	92	7	80	39	27	20	12	1.89
4080402--4080443	22	1.9	22	85	9	59	28	7	28	35	1.84
4082020--4082271	134	1.9	135	88	5	386	32	16	25	26	1.96
4085682--4085731	19	2.6	19	90	0	73	32	16	6	46	1.71
4101516--4102021	253	2.0	252	97	2	955	34	17	24	23	1.96
4109637--4109864	90	2.5	91	89	0	332	36	20	19	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4109919--4110483	43	12.6	43	80	10	587	29	28	13	28	1.94
4109968--4110472	141	3.7	139	87	5	674	29	28	13	28	1.94
4110011--4110205	98	2.0	98	95	0	354	29	27	13	29	1.94
4109883--4110465	184	3.2	182	81	11	699	29	28	13	27	1.94
4110566--4110596	15	2.1	15	100	0	62	29	12	32	25	1.93
4110567--4110653	36	2.4	36	92	0	147	33	12	27	26	1.93
4110567--4110822	93	2.8	93	85	7	301	36	13	24	25	1.92
4110582--4110705	57	2.2	57	95	2	223	35	12	24	27	1.92
4110644--4110762	36	3.3	36	93	0	211	37	13	25	23	1.91
4110608--4110781	72	2.4	71	70	21	171	37	13	25	22	1.91
4110701--4110816	55	2.2	54	83	9	141	37	14	25	23	1.93
4110737--4110777	15	2.7	15	92	0	64	34	19	31	14	1.92
4110868--4111059	36	5.1	35	69	13	132	42	10	12	33	1.78
4110830--4111051	40	5.8	39	68	12	113	40	11	13	34	1.80
4110830--4111190	76	4.8	76	83	5	403	40	12	14	32	1.82
4110830--4111190	152	2.4	151	84	6	482	40	12	14	32	1.82
4111530--4111592	32	2.0	32	87	0	90	34	23	11	30	1.90
4111718--4111771	24	2.3	23	75	12	56	48	5	14	31	1.67
4112538--4112676	36	4.1	34	69	14	74	2	14	2	79	0.96
4112535--4112676	32	4.4	30	71	19	90	2	14	2	80	0.94
4113692--4113765	6	11.5	6	76	12	51	50	12	21	16	1.77
4113697--4113766	27	2.6	27	90	0	113	50	12	21	15	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4113697--4113766	13	5.2	13	73	19	63	50	12	21	15	1.78
4115751--4115816	2	33.0	2	100	0	132	50	0	0	50	1.00
4132252--4132299	26	1.9	25	91	8	80	29	16	20	33	1.95
4132530--4132572	20	2.2	20	86	0	59	37	20	11	30	1.89
4142532--4142583	27	1.9	27	96	0	95	25	21	21	32	1.98
4142815--4142857	20	2.2	20	86	0	59	37	20	11	30	1.89
4150857--4150917	31	2.0	31	93	0	104	44	9	6	39	1.64
4151574--4151644	21	3.4	21	94	0	124	39	14	30	15	1.87
4152188--4152279	46	2.0	46	95	0	166	38	20	28	13	1.90
4158612--4158644	16	2.1	16	100	0	66	36	30	18	15	1.91
4158956--4159006	20	2.6	20	87	3	77	35	11	5	47	1.65
4159527--4159585	15	4.3	14	85	12	70	15	20	0	64	1.29
4163092--4163142	20	2.6	20	93	3	86	35	13	5	45	1.68
4163670--4163728	15	4.3	14	81	12	61	13	20	1	64	1.37
4166089--4166299	43	5.0	42	81	2	251	24	24	18	32	1.97
4166097--4166299	85	2.4	85	86	0	280	25	24	18	32	1.97
4166314--4166400	42	2.1	42	86	0	120	25	21	19	33	1.97
4171231--4171304	10	7.3	10	71	19	55	29	1	13	55	1.47
4175507--4175558	3	17.3	3	88	7	79	67	1	0	30	1.02
4175503--4175558	19	3.1	19	89	5	89	67	1	0	30	1.01
4175804--4175969	84	2.0	83	85	1	224	22	19	26	31	1.98
4176006--4176576	36	16.2	36	75	16	491	39	13	19	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4176105--4176364	137	1.9	135	89	2	403	38	13	20	27	1.90
4176013--4176408	174	2.2	174	86	6	555	40	13	19	26	1.89
4176263--4176363	21	5.4	21	63	26	73	39	12	21	25	1.89
4176082--4176576	252	2.0	246	91	4	807	39	14	19	26	1.90
4176662--4176891	116	2.0	116	90	3	365	25	18	23	32	1.97
4177425--4177512	31	2.8	33	80	16	96	31	23	15	28	1.96
4178538--4178599	25	2.5	26	80	17	78	1	16	4	77	1.02
4179361--4179394	16	2.0	18	88	11	54	58	5	17	17	1.57
4187039--4187085	3	15.7	3	82	8	60	63	4	0	31	1.13
4187042--4187085	22	2.0	23	90	4	72	63	4	0	31	1.14

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21