genome.fa.s8061.2.7.7.80.10.50.1000.21.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: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5800122

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  ( 3118 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)
4181023--4181052	16	1.9	15	93	6	51	46	3	0	50	1.18
4187938--4187993	28	2.0	28	100	0	112	32	25	21	21	1.98
4188551--4188608	20	2.8	20	74	7	55	32	24	29	13	1.94
4193038--4193198	70	2.3	70	84	5	207	40	4	4	49	1.44
4193064--4193171	35	3.1	34	73	19	96	42	3	3	50	1.38
4194239--4194354	24	4.5	27	76	21	115	43	0	0	55	1.05
4194240--4194354	50	2.2	52	89	7	182	44	0	0	54	1.06
4194325--4194400	21	3.7	21	73	23	63	40	1	0	57	1.07
4194274--4194363	26	3.5	26	73	17	82	42	1	1	55	1.14
4194868--4194926	31	1.9	30	86	3	82	44	10	5	40	1.60
4195333--4195367	11	3.3	11	96	4	63	25	54	20	0	1.45
4195333--4195367	5	6.6	5	90	9	52	25	54	20	0	1.45
4195828--4195893	11	6.0	11	91	8	100	0	18	54	27	1.44
4195830--4195893	6	11.5	6	90	9	93	0	17	54	28	1.43
4195830--4195889	16	3.6	17	95	4	106	0	18	55	26	1.43
4199001--4199031	15	2.1	15	93	0	53	35	41	0	22	1.54
4214454--4214528	38	2.0	37	82	10	91	46	4	1	48	1.29
4215010--4215068	23	2.6	23	72	5	57	8	28	13	49	1.71
4219193--4219391	39	4.8	39	76	14	193	41	11	7	39	1.70
4219209--4219383	88	2.0	88	87	2	253	40	11	7	40	1.69
4219248--4219342	48	2.0	49	87	2	138	40	8	7	44	1.63
4219428--4219502	39	1.9	39	86	0	105	45	14	9	30	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4219727--4219863	56	2.4	58	87	3	206	43	11	7	37	1.69
4220409--4220441	14	2.3	15	89	5	50	57	15	3	24	1.52
4221805--4221839	17	2.1	17	100	0	70	22	28	5	42	1.76
4226529--4226579	22	2.4	21	81	12	59	47	1	0	50	1.12
4227394--4227431	20	1.9	20	88	0	58	26	23	7	42	1.81
4228991--4229320	43	7.7	43	78	8	309	24	17	7	49	1.73
4228991--4229320	129	2.6	128	83	6	395	24	17	7	49	1.73
4229354--4229528	75	2.3	73	77	16	171	41	4	8	46	1.52
4229387--4229528	37	3.7	39	77	15	145	42	3	7	45	1.50
4229405--4229525	39	3.3	35	79	13	122	43	3	7	45	1.48
4229466--4229554	26	3.5	26	70	11	76	43	3	5	47	1.43
4229509--4229540	2	16.5	2	93	6	57	50	0	0	50	1.00
4229477--4229575	50	2.0	50	90	4	155	46	2	4	47	1.32
4229438--4229607	89	2.0	83	86	9	234	43	2	5	47	1.42
4229527--4229725	34	5.9	35	75	9	164	46	2	4	46	1.36
4229726--4229762	7	5.6	7	90	3	51	35	0	0	64	0.94
4229527--4229749	34	6.6	34	72	15	133	45	2	4	47	1.33
4229726--4229778	12	4.2	13	78	9	56	32	1	0	66	1.03
4229720--4229789	10	6.7	11	72	19	53	27	2	0	70	1.02
4229726--4229796	21	3.2	22	80	13	67	28	2	0	69	1.03
4229739--4229802	31	2.0	31	82	14	76	23	4	0	71	1.04
4230513--4230547	10	3.5	10	100	0	70	8	48	31	11	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4230514--4230557	20	2.2	20	83	0	52	11	45	34	9	1.72
4232771--4232815	19	2.4	19	92	3	74	11	13	8	66	1.44
4236157--4237165	164	6.1	164	94	1	1639	30	23	21	24	1.99
4237705--4237872	37	4.5	38	77	13	143	41	4	8	45	1.55
4237810--4237858	26	1.9	26	87	4	73	40	4	8	46	1.52
4237853--4237879	2	13.5	2	100	0	54	51	0	0	48	1.00
4237821--4237914	45	2.1	44	88	5	136	45	3	4	46	1.38
4237867--4238082	34	6.4	33	72	13	129	46	2	4	46	1.38
4238852--4238886	10	3.5	10	100	0	70	8	48	31	11	1.69
4238853--4238896	20	2.2	20	83	0	52	11	45	34	9	1.72
4239747--4240082	43	7.8	42	73	13	200	25	18	5	50	1.68
4239745--4240082	86	3.9	86	76	12	259	25	18	5	50	1.68
4239746--4240041	44	6.8	45	70	13	120	24	18	5	52	1.65
4239899--4240022	44	2.8	44	81	8	137	24	13	4	58	1.53
4240825--4240859	2	17.5	2	100	0	70	51	0	0	48	1.00
4240850--4240900	25	2.0	25	100	0	102	31	7	15	45	1.75
4248500--4248533	15	2.3	15	94	0	59	52	2	0	44	1.16
4250176--4250309	67	2.0	67	85	2	180	37	22	19	20	1.95
4253318--4253367	25	2.0	25	92	0	82	36	10	18	36	1.84
4274802--4274833	10	3.2	10	95	0	55	75	0	0	25	0.81
4275559--4275606	22	2.2	22	85	3	62	10	6	10	72	1.26
4277219--4277248	2	15.0	2	92	0	51	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4283021--4283045	2	12.5	2	100	0	50	48	0	0	52	1.00
4285779--4285811	16	2.0	17	88	5	50	51	0	3	45	1.16
4290392--4290438	20	2.3	20	96	0	85	21	21	8	48	1.76
4294200--4294262	31	2.0	31	100	0	126	58	12	12	15	1.63
4298481--4298521	21	2.0	21	90	0	64	43	9	9	36	1.71
4300933--4301036	27	3.8	27	76	9	104	27	10	7	53	1.62
4300938--4301034	28	3.6	25	74	18	63	28	9	7	54	1.59
4303985--4304071	43	2.0	43	100	0	174	49	20	16	13	1.79
4305751--4305818	30	2.3	30	92	0	109	25	16	38	20	1.92
4319865--4320022	21	7.8	20	72	7	86	38	25	17	18	1.92
4319989--4320218	20	11.5	20	82	4	225	36	25	18	19	1.94
4320901--4320947	24	2.0	24	87	8	69	25	14	21	38	1.92
4323429--4323637	33	6.1	34	79	14	202	46	18	22	13	1.83
4323471--4323646	53	3.3	53	94	1	300	46	17	22	14	1.84
4323617--4323732	53	2.2	52	86	3	160	19	23	17	39	1.92
4323639--4323752	53	2.2	53	98	1	221	14	23	17	44	1.85
4323655--4323752	19	5.4	19	84	13	143	14	22	17	45	1.84
4323859--4323895	14	2.6	14	91	0	65	45	21	0	32	1.52
4325820--4325992	19	9.6	19	79	12	168	46	23	19	10	1.81
4325914--4325970	14	3.7	14	77	20	60	45	22	21	10	1.82
4325895--4325987	33	2.8	33	95	0	168	47	21	20	10	1.80
4325988--4326083	19	5.3	19	78	13	103	9	16	28	45	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4326131--4326967	93	9.1	93	98	1	1621	46	19	12	21	1.83
4326131--4326967	185	4.5	186	98	1	1621	46	19	12	21	1.83
4328668--4328764	20	5.2	20	72	18	100	46	17	24	11	1.81
4328666--4328730	21	3.1	21	82	4	96	47	15	26	10	1.78
4328715--4328771	14	3.7	14	75	20	60	43	22	24	8	1.81
4328666--4328788	33	3.5	33	88	8	156	46	17	24	11	1.81
4328805--4328861	14	3.7	14	75	20	60	8	24	22	43	1.81
4328789--4328869	33	2.5	33	93	0	135	9	22	20	46	1.80
4328846--4328921	21	3.7	21	83	3	109	11	25	17	46	1.82
4328845--4328922	41	1.9	41	97	0	147	12	25	16	44	1.83
4329001--4329071	33	2.2	33	92	0	115	47	18	22	11	1.80
4329253--4329307	22	2.5	22	81	0	74	20	16	40	23	1.91
4329454--4329647	20	9.6	20	82	5	221	19	19	25	35	1.95
4329454--4329647	60	3.2	60	83	0	253	19	19	25	35	1.95
4329634--4329716	21	4.0	21	73	6	78	25	16	24	33	1.96
4329614--4329712	42	2.4	43	77	11	100	21	18	23	37	1.94
4334304--4334342	19	2.0	20	90	5	62	51	15	28	5	1.64
4339013--4339068	6	9.2	6	77	11	51	3	21	39	35	1.71
4364157--4364201	23	2.0	22	87	8	65	26	26	15	31	1.96
4366397--4366422	2	13.0	2	100	0	52	0	0	50	50	1.00
4374056--4374085	2	15.0	2	92	0	51	50	3	0	46	1.18
4375300--4375355	2	28.0	2	100	0	112	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4379554--4379612	23	2.6	22	73	21	59	49	1	8	40	1.43
4380471--4380510	8	4.7	9	80	20	50	32	0	2	65	1.06
4382331--4382356	3	8.7	3	100	0	52	0	0	65	34	0.93
4390637--4390720	44	1.9	44	95	0	150	17	21	4	55	1.60
4393305--4393337	12	2.8	12	95	0	57	15	33	24	27	1.95
4398332--4398509	4	42.2	4	74	17	121	2	68	0	29	1.02
4398336--4398516	40	4.1	43	77	18	176	2	68	0	29	1.01
4398332--4398515	36	5.3	35	80	8	173	2	68	0	29	1.01
4398329--4398509	38	4.8	38	81	11	185	2	67	0	29	1.02
4398329--4398509	60	3.3	54	75	19	146	2	67	0	29	1.02

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