genome.fa.s8094.2.7.7.80.10.50.1000.23.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   

This is table  23  of  43  ( 5090 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)
4601599--4601628	13	2.2	14	94	5	53	40	13	26	20	1.89
4601799--4601826	3	9.3	3	100	0	56	0	0	32	67	0.91
4604782--4604841	19	3.3	19	73	15	63	50	30	13	6	1.67
4606408--4606439	14	2.3	14	94	0	55	53	9	6	31	1.58
4608852--4608900	22	2.3	22	80	16	59	51	0	6	42	1.27
4613817--4613850	16	2.1	16	88	0	50	70	0	0	29	0.87
4618804--4618871	20	3.5	20	91	2	102	50	7	13	29	1.68
4621542--4621588	25	1.9	24	86	4	67	31	2	6	59	1.34
4622236--4622279	22	2.0	22	82	13	54	59	2	2	36	1.23
4622895--4622958	25	2.6	24	92	2	101	46	9	12	31	1.73
4624321--4624678	132	2.7	130	86	1	493	39	17	10	32	1.83
4626777--4626863	3	28.3	3	95	4	156	67	0	0	32	0.91
4627024--4627343	133	2.4	134	83	3	396	31	17	20	29	1.96
4627714--4627752	20	2.0	20	94	0	69	38	20	15	25	1.92
4627885--4627992	42	2.6	42	82	4	130	30	23	21	25	1.99
4627678--4628672	244	4.1	243	86	4	1332	33	16	16	33	1.91
4628200--4629081	432	2.0	426	82	6	1058	34	16	14	33	1.90
4628652--4629144	233	2.1	233	83	2	621	35	16	14	32	1.90
4631013--4631050	3	12.7	3	100	0	76	65	0	0	34	0.93
4636954--4637316	133	2.8	130	77	6	356	40	15	11	32	1.83
4638024--4638058	2	17.5	2	100	0	70	51	0	0	48	1.00
4639431--4639496	3	21.3	3	84	6	87	62	1	1	34	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4639620--4639676	21	2.7	21	88	0	78	36	5	15	42	1.70
4640551--4640593	16	2.7	16	96	0	77	44	16	27	11	1.82
4641506--4641559	26	1.9	29	82	14	69	51	7	1	38	1.41
4642604--4642654	20	2.5	20	93	0	84	31	3	25	39	1.74
4646592--4646634	20	2.2	20	100	0	86	13	13	13	58	1.64
4654754--4654913	65	2.5	65	82	7	184	30	16	22	31	1.96
4656834--4656858	2	12.5	2	100	0	50	52	0	0	48	1.00
4676100--4676160	26	2.3	26	97	0	113	36	26	16	21	1.94
4677410--4677487	24	3.3	24	80	3	95	29	21	24	24	1.99
4678337--4678386	21	2.5	20	87	9	66	32	26	12	30	1.92
4683357--4683434	24	3.3	24	78	3	95	32	25	20	21	1.98
4694570--4694618	26	1.9	25	83	4	62	24	20	4	51	1.65
4697452--4698195	73	10.3	72	79	8	660	30	18	9	40	1.83
4697452--4698191	144	5.1	145	80	6	704	30	18	10	40	1.84
4697452--4698192	217	3.4	216	79	7	715	30	18	9	40	1.84
4697656--4698112	35	12.6	37	67	10	131	30	18	10	40	1.84
4698838--4698967	37	3.5	37	71	6	111	29	20	13	37	1.90
4699336--4699474	3	44.3	3	70	12	66	30	4	6	58	1.42
4701586--4701658	31	2.4	31	85	0	101	56	9	8	26	1.59
4702012--4702081	31	2.3	31	100	0	140	37	15	12	34	1.86
4706417--4706627	111	1.9	110	89	2	325	32	18	15	33	1.92
4710833--4710871	15	2.6	15	100	0	78	25	15	28	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4716934--4717298	183	2.0	183	97	0	694	29	18	16	36	1.92
4720838--4720942	53	2.0	53	94	0	183	26	27	23	21	1.99
4721121--4721236	58	1.9	59	87	6	171	40	15	18	25	1.90
4722279--4722332	25	2.2	25	100	0	108	40	11	5	42	1.64
4725412--4725460	24	2.0	26	88	8	75	18	4	16	61	1.50
4732659--4732688	7	4.4	7	91	8	53	16	30	30	23	1.96
4732659--4732688	13	2.2	14	94	5	53	16	30	30	23	1.96
4739396--4739420	12	2.1	12	100	0	50	8	24	20	48	1.76
4744218--4744295	21	3.8	21	72	14	54	55	6	10	28	1.58
4744219--4744263	20	2.3	20	82	14	58	62	2	11	24	1.40
4744228--4744295	21	3.2	20	74	13	57	54	5	8	30	1.55
4746302--4746372	19	3.7	19	100	0	142	26	35	16	21	1.95
4752899--4752957	19	3.2	17	80	17	57	50	5	1	42	1.34
4752905--4752957	10	5.5	10	79	20	51	50	5	1	41	1.36
4753649--4753702	22	2.4	21	81	9	54	55	0	1	42	1.10
4753688--4753743	26	2.2	26	80	6	60	62	1	3	32	1.23
4754531--4754595	25	2.7	24	88	9	89	1	12	4	81	0.91
4754518--4754618	44	2.3	44	76	6	107	2	14	8	73	1.20
4754537--4754593	28	2.1	27	87	9	80	1	10	3	84	0.82
4754531--4754579	18	2.6	19	78	12	57	2	12	4	81	0.91
4754531--4754595	12	5.5	11	79	17	60	1	12	4	81	0.91
4755031--4755161	3	42.7	3	77	10	104	59	2	3	35	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4755032--4755157	19	7.1	17	70	19	87	58	2	3	35	1.27
4755031--4755161	22	6.1	21	71	11	104	59	2	3	35	1.25
4755096--4755173	7	10.4	7	76	22	70	65	1	0	33	1.01
4755510--4756030	73	7.1	73	97	0	961	36	12	20	31	1.89
4757255--4757512	55	4.8	54	87	5	303	27	20	13	38	1.91
4757255--4757512	105	2.4	106	83	6	308	27	20	13	38	1.91
4764130--4764156	14	1.9	14	100	0	54	62	7	7	22	1.46
4766485--4766555	23	3.0	22	77	18	72	63	0	7	29	1.21
4767297--4767350	22	2.4	21	81	9	54	55	0	1	42	1.10
4768180--4768230	18	2.7	19	85	11	70	0	15	3	80	0.86
4768186--4768238	23	2.3	23	87	9	74	0	15	3	81	0.83
4768180--4768235	17	3.2	17	87	5	67	0	14	5	80	0.88
4768180--4768245	23	3.0	24	81	12	63	0	18	6	75	1.00
4768674--4768819	3	46.7	3	80	10	141	60	1	2	35	1.20
4768742--4768831	6	13.4	7	85	11	86	65	1	0	33	1.00
4769739--4769789	23	2.3	22	83	12	68	49	25	3	21	1.67
4774281--4774330	23	2.2	23	86	10	68	52	24	4	20	1.63
4774264--4774329	19	3.3	19	71	24	55	51	24	4	19	1.65
4776011--4776088	32	2.4	33	80	18	101	28	12	7	51	1.67
4776027--4776087	30	2.0	31	93	3	106	27	14	9	47	1.76
4776800--4776849	19	2.6	19	80	3	55	26	30	22	22	1.99
4777215--4777248	16	2.1	16	94	0	59	38	8	11	41	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4782775--4782813	21	1.9	21	84	5	53	35	20	15	28	1.93
4788468--4788496	9	3.0	10	90	10	51	79	0	10	10	0.94
4799405--4799435	15	2.1	15	93	0	53	19	22	12	45	1.84
4800386--4800471	18	4.6	18	88	8	127	29	26	23	20	1.99
4800376--4800471	39	2.6	38	86	6	133	28	27	20	23	1.99
4805032--4805096	18	3.4	18	75	19	69	24	30	21	23	1.99
4812478--4812525	24	2.0	24	100	0	96	45	20	16	16	1.85
4813438--4813467	15	2.0	15	93	0	51	26	16	0	56	1.40
4815403--4815431	2	14.5	2	100	0	58	0	0	48	51	1.00
4815741--4815845	41	2.6	41	90	0	165	25	15	21	37	1.93
4817927--4818015	19	4.4	19	75	18	90	25	21	22	30	1.99
4817978--4818045	24	3.0	24	64	27	67	27	26	17	27	1.98
4817948--4818044	43	2.3	43	98	0	185	26	23	19	29	1.98
4818915--4819253	92	3.7	90	78	6	324	30	14	23	31	1.94
4818892--4819225	184	1.8	183	86	1	481	30	14	23	32	1.94
4819362--4819462	51	2.0	50	82	1	121	36	17	21	23	1.95
4819980--4820156	76	2.3	75	83	4	212	41	12	18	27	1.86
4820042--4820167	38	3.3	35	73	18	110	40	11	17	30	1.85
4821945--4821980	13	2.6	14	91	8	65	69	11	0	19	1.18
4822966--4823378	177	2.3	179	86	6	579	38	6	9	46	1.62
4823410--4823466	15	3.9	15	83	4	71	24	8	5	61	1.46
4823404--4823464	29	2.1	29	81	6	70	22	8	4	63	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4823410--4823465	14	3.9	14	85	2	67	23	8	5	62	1.45
4823415--4823478	28	2.2	31	77	11	71	21	10	4	62	1.46
4823416--4823500	14	5.7	15	79	10	57	23	11	3	61	1.46
4824675--4824748	3	24.7	3	83	0	94	40	1	0	58	1.07
4824877--4824916	16	2.6	16	88	4	64	10	57	15	17	1.64
4826240--4826279	20	2.0	20	85	9	55	32	0	5	62	1.17
4837195--4837259	1	65.0	1	84	0	85	92	0	6	1	0.45
4838346--4839040	81	8.7	82	87	9	1005	27	13	22	36	1.92
4838360--4839040	239	2.8	239	88	8	1025	26	13	22	36	1.92
4839737--4840158	113	3.6	113	86	6	535	40	13	19	26	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43