genome.fa.s260.2.7.7.80.10.50.1000.21.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: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5583615

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   

This is table  21  of  26  ( 3102 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)
4246083--4246162	30	2.7	30	94	0	133	31	21	23	23	1.98
4246114--4246192	37	2.2	37	83	2	97	34	20	21	24	1.97
4246248--4246277	13	2.3	13	94	0	51	16	30	30	23	1.96
4248145--4248452	153	2.0	155	98	1	602	36	19	16	27	1.93
4251837--4251877	18	2.3	18	91	0	64	31	17	29	21	1.96
4252374--4252430	24	2.4	24	100	0	114	35	7	35	22	1.82
4252728--4252795	3	23.0	3	96	3	129	32	0	0	67	0.91
4256303--4256436	72	1.9	72	85	6	191	20	21	17	40	1.92
4256270--4256407	36	3.8	36	93	0	222	18	18	19	42	1.89
4260715--4260786	33	2.2	33	87	0	99	18	12	25	44	1.84
4260800--4260846	13	3.7	13	82	2	60	59	2	0	38	1.09
4261039--4261131	36	2.6	36	94	0	159	20	18	19	41	1.90
4261039--4261150	36	3.1	36	89	5	127	22	16	19	41	1.91
4264215--4264254	13	3.1	13	81	0	53	60	2	0	37	1.11
4264781--4264814	18	1.9	17	94	5	59	50	5	0	44	1.26
4273166--4273223	27	2.1	27	100	0	116	31	25	6	36	1.83
4278384--4278450	21	3.1	22	72	12	59	34	10	16	38	1.83
4285188--4285694	161	3.1	160	85	5	630	35	10	20	32	1.88
4285188--4285694	242	2.1	242	86	2	696	35	10	20	32	1.88
4285188--4285694	81	6.3	81	87	3	664	35	10	20	32	1.88
4297236--4297260	13	1.9	13	100	0	50	40	16	4	40	1.67
4302053--4302709	81	8.1	81	88	1	849	35	11	20	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4303865--4303932	28	2.4	28	100	0	136	29	26	10	33	1.89
4304989--4305037	20	2.5	20	93	0	80	55	6	16	22	1.63
4311650--4311685	13	2.8	13	86	0	54	38	19	25	16	1.92
4312129--4312279	44	3.4	44	88	3	214	33	22	6	37	1.80
4312626--4312666	21	1.9	22	90	5	66	46	12	4	36	1.63
4313801--4313853	23	2.3	23	100	0	106	50	16	9	22	1.74
4315276--4315435	87	1.8	87	81	6	198	35	16	9	38	1.81
4315399--4315727	36	9.1	36	86	2	394	29	20	13	36	1.91
4315503--4315672	21	9.2	20	61	27	56	28	22	13	35	1.92
4315780--4316035	99	2.6	99	89	0	379	30	12	19	37	1.88
4316039--4316460	36	11.3	39	84	6	446	27	19	15	36	1.92
4316039--4316460	75	5.7	75	82	5	487	27	19	15	36	1.92
4316317--4316378	21	3.2	21	63	25	55	27	19	14	38	1.90
4316468--4316823	98	3.7	98	81	3	407	32	12	18	36	1.88
4317028--4317188	54	3.2	54	65	20	148	28	24	16	31	1.96
4317015--4317283	96	2.8	96	91	0	423	29	24	15	30	1.95
4317556--4317884	163	2.0	165	98	1	644	29	28	10	31	1.91
4321709--4321752	19	2.4	19	88	11	65	29	38	9	22	1.85
4322419--4322444	4	6.5	4	100	0	52	23	0	0	76	0.78
4323362--4323398	2	18.5	2	94	0	65	54	0	45	0	1.00
4325709--4325815	53	2.0	53	96	0	196	51	7	14	26	1.69
4327361--4327411	16	3.4	15	76	15	52	62	7	9	19	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4329116--4329155	12	3.2	12	92	3	62	60	0	5	35	1.19
4329730--4329839	37	3.2	36	70	20	108	42	11	16	29	1.83
4329711--4330022	67	4.7	67	88	3	443	39	12	16	31	1.86
4329882--4329992	30	3.5	30	69	17	89	39	14	15	30	1.87
4329997--4330043	21	2.2	21	96	0	85	40	8	19	31	1.81
4329859--4330171	153	2.0	154	90	3	497	38	13	17	30	1.88
4330008--4330051	21	2.1	21	91	0	70	43	9	18	29	1.80
4329940--4330109	87	2.0	87	95	0	304	40	13	16	29	1.87
4330024--4330189	66	2.5	66	86	3	219	40	13	18	27	1.88
4334774--4334943	85	2.0	85	100	0	340	34	4	41	20	1.73
4335317--4335390	37	2.0	37	100	0	148	24	21	16	37	1.93
4343662--4344066	66	6.2	66	82	5	475	40	14	16	28	1.87
4343781--4343903	36	3.6	36	68	16	107	43	17	14	25	1.87
4344746--4344785	19	2.1	19	95	0	71	40	7	32	20	1.80
4348091--4348144	3	17.7	3	84	3	72	64	1	1	31	1.14
4348216--4348392	30	5.5	30	66	19	97	40	14	17	28	1.88
4348195--4348567	66	5.7	66	83	2	466	39	13	17	29	1.88
4348195--4348549	131	2.7	132	88	3	504	39	13	17	29	1.88
4349245--4349303	28	2.1	28	100	0	118	6	28	16	47	1.72
4355651--4355675	2	12.5	2	100	0	50	52	0	0	48	1.00
4355713--4355761	21	2.3	21	79	6	55	46	20	0	32	1.51
4357890--4358176	83	3.5	83	86	1	263	33	16	20	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4357881--4358026	42	3.5	40	67	12	98	31	15	22	30	1.94
4357989--4358121	42	3.2	42	73	14	139	36	16	20	27	1.94
4357920--4358176	83	3.1	82	86	1	318	33	15	20	30	1.94
4358007--4358162	41	3.8	41	76	9	156	33	17	21	27	1.96
4358616--4358668	21	2.4	22	84	6	63	43	13	9	33	1.76
4360176--4360214	21	2.0	20	90	10	62	43	17	5	33	1.72
4361097--4361211	56	2.0	57	98	1	223	46	13	12	26	1.79
4362713--4362789	24	3.0	26	84	11	104	41	3	20	33	1.71
4368929--4369157	44	5.3	43	84	3	280	27	25	17	29	1.97
4369392--4369874	104	4.6	103	78	4	443	39	12	8	39	1.74
4369519--4369964	209	2.1	208	95	0	795	37	11	8	41	1.73
4369414--4369871	52	8.8	53	76	7	296	38	12	9	39	1.75
4370712--4370774	19	3.3	19	97	0	117	44	17	17	20	1.87
4372183--4372222	19	2.2	19	86	13	57	47	12	5	35	1.63
4372697--4372938	79	3.1	79	90	0	358	28	23	11	36	1.90
4372781--4372930	45	3.6	45	73	18	169	29	25	13	32	1.93
4373444--4373495	20	2.6	21	78	6	63	21	26	17	34	1.95
4378493--4378647	45	3.7	45	70	24	147	29	24	12	34	1.92
4378415--4378655	79	3.1	79	86	3	315	27	21	12	38	1.89
4379086--4379134	20	2.4	21	83	10	66	24	28	10	36	1.88
4383346--4383461	60	1.9	59	86	5	162	37	18	11	32	1.86
4384175--4384224	24	2.0	24	84	3	64	30	6	12	52	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4384860--4384902	21	2.2	19	83	8	50	44	6	6	41	1.58
4384923--4384989	5	12.8	5	80	12	55	35	2	0	61	1.12
4384913--4384957	21	2.1	21	87	0	63	40	0	2	57	1.11
4392868--4392937	22	3.2	22	69	15	63	18	14	7	60	1.57
4397396--4397892	246	2.0	246	99	0	985	38	22	4	33	1.76
4400001--4400031	8	3.8	8	91	8	53	90	0	9	0	0.46
4400001--4400032	9	3.7	9	95	4	57	90	0	9	0	0.45
4401616--4401665	21	2.4	20	77	9	55	42	4	8	46	1.52
4401705--4401747	21	2.2	19	83	8	50	39	6	9	44	1.64
4401768--4401823	22	2.4	24	77	16	64	39	7	0	53	1.28
4411814--4411846	17	2.0	17	88	5	50	45	6	18	30	1.73
4415706--4415792	34	2.6	34	78	12	90	45	10	3	40	1.55
4416012--4416073	31	2.0	31	100	0	124	38	6	12	41	1.69
4423941--4423965	7	3.6	7	100	0	50	16	0	32	52	1.44
4425338--4425388	7	7.0	7	84	8	57	43	0	7	49	1.32
4425573--4426598	259	4.0	257	86	4	1357	32	15	17	34	1.91
4425565--4426600	521	2.0	518	87	3	1487	32	15	17	34	1.91
4426793--4426904	50	2.2	52	81	10	135	24	18	18	38	1.93
4427508--4428011	134	3.8	133	84	3	631	28	18	19	32	1.96
4427508--4428005	268	1.9	267	87	4	745	28	18	19	32	1.96
4428443--4428491	22	2.2	22	100	0	98	40	26	0	32	1.56
4440656--4440727	3	24.0	3	100	0	144	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4445676--4445709	17	2.0	17	100	0	68	58	0	0	41	0.98
4453332--4453374	13	3.2	13	83	6	59	67	0	18	13	1.23
4458219--4458265	20	2.4	20	86	10	62	31	21	10	36	1.88
4462225--4462254	8	3.9	8	91	8	53	76	0	23	0	0.78
4462225--4462253	15	1.9	15	100	0	58	75	0	24	0	0.80
4464089--4464159	24	3.0	24	91	6	110	33	5	0	60	1.20
4475595--4475624	12	2.5	12	94	0	51	20	46	20	13	1.83
4484515--4484910	62	6.5	62	76	6	367	28	23	15	32	1.95
4484573--4484733	29	5.3	29	64	21	78	27	22	14	35	1.93
4484980--4489236	82	52.1	82	83	1	4859	38	21	17	22	1.93

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