genome.fa.s7823.2.7.7.80.10.50.1000.23.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: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6287495

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   

This is table  23  of  33  ( 3920 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)
4239727--4240202	14	35.1	13	72	20	222	44	9	2	43	1.49
4239727--4240202	26	19.2	26	75	12	367	44	9	2	43	1.49
4239743--4240260	124	4.2	124	95	1	918	44	9	2	43	1.49
4239790--4240055	98	2.7	97	84	10	296	43	10	2	43	1.50
4239862--4240205	150	2.3	145	85	8	426	42	10	2	44	1.52
4243085--4243143	26	2.3	25	80	8	73	42	1	8	47	1.44
4243950--4244010	28	2.2	28	96	0	113	57	11	0	31	1.34
4243987--4244035	21	2.3	21	85	3	71	53	16	0	30	1.43
4244644--4244734	29	3.1	29	96	0	164	19	35	29	15	1.93
4253589--4253639	14	3.7	14	81	2	59	47	23	0	29	1.52
4253569--4253653	27	3.1	26	74	12	73	44	23	2	29	1.66
4254242--4254274	15	2.1	16	88	11	50	69	0	0	30	0.88
4256217--4256268	3	17.7	3	76	11	54	59	0	0	40	0.97
4256219--4256268	18	2.8	18	90	3	84	60	0	0	40	0.97
4256534--4256797	91	2.9	89	80	3	307	24	21	14	39	1.90
4257015--4257083	20	3.5	20	89	0	93	36	17	17	28	1.93
4257015--4257141	40	3.2	40	80	1	139	34	18	17	29	1.94
4257033--4257140	20	5.4	20	83	1	119	34	17	17	30	1.93
4258026--4258237	65	3.3	65	78	11	222	30	24	17	26	1.97
4258207--4258255	19	2.6	19	84	9	57	24	28	20	26	1.99
4258593--4258647	28	2.0	28	100	0	110	10	14	14	60	1.60
4262827--4262880	20	2.7	20	100	0	108	22	20	31	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4265566--4265727	65	2.5	65	86	7	215	29	24	19	27	1.98
4265566--4265746	65	2.8	63	78	15	183	29	23	19	27	1.98
4268891--4269052	86	1.9	85	90	1	261	22	18	15	43	1.87
4272569--4272633	33	2.0	33	81	6	78	49	6	1	43	1.37
4272748--4272875	61	2.1	61	98	0	247	46	9	5	39	1.59
4272748--4272894	61	2.4	61	90	2	197	46	9	5	38	1.59
4273794--4273826	16	2.0	17	94	5	59	36	18	24	21	1.95
4274061--4274105	23	2.0	22	83	12	56	53	0	2	44	1.13
4275181--4275226	21	2.2	21	84	7	58	50	34	0	15	1.44
4275177--4275232	28	2.0	29	85	3	78	50	33	0	16	1.45
4276591--4276630	16	2.5	16	91	0	71	27	25	10	37	1.88
4282710--4282881	84	2.1	83	82	7	206	20	6	4	67	1.33
4284264--4284298	14	2.5	14	90	9	54	40	0	0	60	0.97
4293503--4293705	104	1.9	106	83	4	259	31	18	19	30	1.96
4297310--4297518	104	2.0	104	84	1	276	28	21	22	28	1.99
4297944--4297968	11	2.3	11	100	0	50	36	24	24	16	1.94
4301748--4301801	27	2.0	27	96	0	99	51	9	7	31	1.61
4303874--4304047	40	4.3	41	73	6	131	34	14	13	37	1.86
4303882--4303991	41	2.7	41	77	4	114	30	11	16	41	1.84
4307226--4307294	21	3.3	20	83	2	66	23	5	15	55	1.62
4311092--4311202	54	2.1	54	96	0	204	42	14	10	32	1.80
4317770--4317828	28	2.1	28	87	6	84	20	28	25	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4321604--4321657	3	18.0	3	84	0	72	31	35	0	33	1.58
4323091--4323314	112	2.0	112	92	0	376	28	25	16	29	1.96
4332474--4332498	13	1.9	13	100	0	50	60	16	0	24	1.36
4339343--4339693	157	2.2	159	87	5	496	26	16	7	48	1.73
4339900--4339948	20	2.4	21	80	6	57	40	2	6	51	1.38
4349465--4349583	43	2.7	44	80	7	136	28	16	20	34	1.94
4349770--4349828	21	2.8	21	92	0	100	50	22	5	22	1.68
4354513--4354596	45	1.9	45	90	4	136	32	3	11	52	1.55
4355288--4355345	16	3.6	16	92	2	89	68	3	8	18	1.30
4356803--4357025	123	1.8	121	83	5	279	30	16	19	33	1.94
4360774--4360840	21	3.0	24	72	16	63	25	4	0	70	1.06
4360784--4360853	23	3.0	22	79	10	68	25	5	0	68	1.11
4360817--4360892	16	4.9	15	81	9	73	39	2	1	56	1.21
4360840--4360892	2	27.0	2	83	11	65	43	3	1	50	1.30
4360922--4361007	39	2.2	38	89	6	129	31	4	1	62	1.23
4360979--4361028	25	1.9	27	88	8	77	28	4	0	68	1.08
4360969--4361042	26	2.8	26	78	11	80	22	5	0	71	1.06
4361026--4361113	36	2.4	36	81	10	92	22	4	3	69	1.22
4361026--4361113	38	2.4	37	81	7	92	22	4	3	69	1.22
4361140--4361184	18	2.6	17	79	6	54	13	8	0	77	0.98
4365699--4365742	10	4.2	10	81	18	54	79	0	18	2	0.83
4365709--4365733	13	1.9	13	100	0	50	80	0	16	4	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4365699--4365743	23	2.0	23	95	4	83	77	0	17	4	0.92
4365814--4365951	69	2.0	69	95	0	249	36	21	15	26	1.93
4366877--4366996	32	3.7	31	83	6	150	29	14	21	35	1.93
4367577--4367789	106	2.0	106	82	1	257	33	21	20	24	1.97
4367937--4368085	68	2.2	68	84	5	189	34	19	7	38	1.80
4368795--4369067	110	2.5	108	82	7	351	35	22	18	23	1.96
4370446--4370521	23	3.1	24	77	9	73	27	5	0	67	1.12
4370609--4370633	2	12.5	2	100	0	50	48	0	0	52	1.00
4370811--4370855	18	2.6	17	83	13	56	15	13	0	71	1.15
4370809--4370855	17	2.7	17	81	12	60	14	12	0	72	1.13
4374768--4374819	24	2.2	24	89	0	77	46	1	9	42	1.47
4374805--4374868	30	2.1	30	91	5	103	43	4	7	43	1.54
4376730--4376791	30	2.1	30	96	0	115	25	19	22	32	1.97
4381962--4382033	30	2.4	30	95	0	126	25	20	23	30	1.99
4383982--4384028	20	2.5	19	83	10	62	23	2	0	74	0.93
4384228--4384254	6	4.5	6	100	0	54	44	0	0	55	0.99
4389996--4390029	16	2.1	17	88	5	52	41	17	2	38	1.65
4390672--4390721	23	2.1	24	85	3	66	34	26	20	20	1.96
4391007--4391037	15	2.1	15	93	0	53	41	22	0	35	1.54
4392372--4392478	45	2.4	45	85	4	135	28	18	20	31	1.96
4397926--4398020	21	4.4	21	74	13	79	29	25	20	25	1.99
4399171--4399274	45	2.3	46	85	5	131	29	17	21	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4402361--4402394	16	2.1	17	88	5	52	44	17	0	38	1.49
4411525--4411554	13	2.3	13	94	0	51	30	20	6	43	1.77
4415527--4415592	20	3.3	20	97	0	123	31	27	6	34	1.81
4425821--4425859	21	1.9	21	89	5	62	28	12	20	38	1.89
4438718--4438767	2	25.0	2	100	0	100	50	0	0	50	1.00
4441507--4441537	12	2.6	12	100	0	62	0	25	32	41	1.56
4444566--4444641	32	2.4	31	84	6	107	32	19	18	28	1.96
4448855--4448910	2	28.0	2	96	0	103	50	1	0	48	1.11
4455517--4455557	14	2.9	14	85	0	55	21	29	21	26	1.99
4457290--4457365	35	2.1	35	83	7	91	26	17	19	36	1.94
4460215--4460244	14	2.1	14	93	6	51	56	0	0	43	0.99
4462277--4462308	3	11.0	3	93	6	57	65	0	0	34	0.93
4462279--4462307	14	2.1	14	100	0	58	65	0	0	34	0.93
4462484--4463923	137	10.5	137	88	0	1918	26	17	24	31	1.97
4465130--4465237	38	2.8	39	84	8	157	29	19	12	38	1.88
4465099--4465248	77	1.9	77	85	4	203	32	19	12	36	1.88
4465130--4465248	39	3.1	38	82	11	152	30	20	10	38	1.87
4469209--4469557	40	8.7	40	90	1	445	34	26	18	20	1.96
4469209--4469557	60	5.8	60	86	4	445	34	26	18	20	1.96
4469227--4469557	20	16.6	19	87	3	383	33	25	19	21	1.97
4470231--4470277	24	2.0	24	87	8	69	25	14	21	38	1.92
4470452--4470476	12	2.1	12	100	0	50	72	0	28	0	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4472782--4473107	19	18.4	19	80	15	405	47	17	20	14	1.82
4472782--4473107	33	9.2	34	82	13	321	47	17	20	14	1.82
4472810--4473129	161	2.0	157	93	3	552	46	16	21	14	1.83
4472810--4473129	52	6.0	52	93	4	550	46	16	21	14	1.83
4473136--4473237	19	5.6	19	85	12	151	14	23	17	44	1.86
4473344--4473380	14	2.6	14	91	0	65	45	21	0	32	1.52
4473375--4473447	12	6.0	12	67	20	53	57	16	1	24	1.47
4473361--4473433	38	1.9	38	97	0	137	53	16	1	28	1.51
4475249--4475383	19	7.6	19	76	16	137	45	24	19	10	1.81
4475305--4475361	14	3.7	14	77	20	60	45	24	21	8	1.80

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