genome.fa.s8323.2.7.7.80.10.50.1000.21.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: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5101972

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  ( 3017 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)
4119772--4119824	21	2.6	20	80	13	63	45	0	0	54	0.99
4119853--4119901	24	2.0	23	84	11	62	46	0	2	51	1.12
4119862--4119912	23	2.2	24	82	10	61	50	0	0	49	1.00
4120934--4120985	9	6.1	9	76	13	56	34	0	1	63	1.06
4120933--4120982	17	3.0	17	91	2	75	36	0	4	60	1.16
4123177--4123223	13	3.6	13	82	0	58	17	2	12	68	1.31
4127112--4127402	83	3.5	83	76	6	225	33	13	20	32	1.91
4130296--4130543	132	1.9	132	85	5	347	37	13	13	35	1.84
4132732--4132766	18	1.9	18	94	0	61	42	2	11	42	1.55
4136752--4136785	17	2.1	15	89	10	50	20	5	5	67	1.33
4138263--4138302	21	1.9	21	89	0	62	40	20	37	2	1.66
4138316--4138366	21	2.4	21	93	0	84	39	19	37	3	1.70
4138681--4138793	41	2.7	42	82	10	133	29	17	21	31	1.96
4138770--4139140	43	8.6	43	72	10	190	30	24	18	26	1.98
4138873--4139139	86	3.1	85	75	6	243	31	25	18	24	1.98
4138892--4139124	129	1.8	129	86	3	344	31	24	18	24	1.98
4140938--4140978	20	2.0	20	100	0	82	36	9	19	34	1.85
4141059--4141110	24	2.2	24	85	0	68	40	7	9	42	1.66
4145316--4145366	23	2.2	24	82	3	59	41	7	9	41	1.67
4146328--4146578	131	1.9	134	88	3	382	38	10	19	31	1.86
4149283--4149371	33	2.8	32	81	10	92	8	42	15	32	1.78
4149465--4149505	20	2.1	19	86	9	55	29	17	14	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4149840--4150106	133	2.0	133	98	0	516	30	10	19	38	1.86
4151027--4151102	29	2.4	32	72	19	77	19	9	13	57	1.62
4151040--4151097	29	2.0	29	93	0	98	17	6	15	60	1.56
4151235--4151352	59	2.0	59	100	0	236	37	10	15	37	1.81
4151237--4151330	28	3.2	28	66	28	79	34	11	15	38	1.84
4153881--4153927	23	2.0	23	95	0	85	38	6	17	38	1.75
4155187--4155344	30	5.2	31	76	8	139	59	12	11	17	1.61
4155175--4155327	61	2.5	60	77	15	163	60	12	11	15	1.58
4155175--4155344	62	2.8	60	77	11	184	58	12	11	17	1.62
4156459--4156528	2	35.0	2	100	0	140	50	0	0	50	1.00
4157590--4157731	65	2.2	66	89	1	214	39	15	22	22	1.92
4158073--4158146	35	2.1	36	87	2	105	39	9	14	36	1.79
4163368--4163536	30	5.7	29	79	4	106	58	13	11	16	1.63
4163398--4163540	30	4.8	30	84	0	151	60	12	10	16	1.58
4165966--4166012	18	2.7	17	80	3	58	29	27	6	36	1.82
4166073--4166113	17	2.4	17	91	0	73	9	21	41	26	1.84
4169989--4170060	36	2.0	36	91	0	117	41	9	13	34	1.78
4178628--4178657	15	2.0	15	93	0	51	30	13	10	46	1.75
4183699--4183734	10	3.6	10	92	0	63	0	2	8	88	0.59
4183693--4183734	20	2.2	20	91	4	68	0	4	11	83	0.79
4196783--4197067	141	2.0	143	98	1	556	24	16	22	36	1.94
4199240--4199306	19	3.5	19	89	2	89	35	28	13	22	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4199340--4199393	21	2.6	21	78	0	63	27	20	20	31	1.97
4199380--4199418	20	2.0	20	89	0	60	38	17	20	23	1.93
4199576--4199613	17	2.2	17	95	0	67	34	36	2	26	1.71
4200261--4200320	24	2.5	24	76	10	68	28	16	16	38	1.91
4202760--4202822	20	3.2	20	83	0	81	34	17	17	30	1.93
4202821--4202883	20	3.2	20	93	0	99	9	17	25	47	1.77
4202825--4202898	20	3.7	20	87	0	94	12	17	25	44	1.83
4202950--4203119	71	2.5	66	83	12	186	50	16	2	31	1.58
4203180--4203210	16	1.9	16	100	0	62	32	29	12	25	1.93
4204453--4204554	21	4.9	21	74	9	100	27	20	31	20	1.98
4204433--4204524	42	2.2	42	84	7	116	23	19	33	22	1.97
4205038--4205176	19	7.1	19	77	4	89	45	23	15	15	1.85
4205031--4205181	20	7.7	19	80	5	106	43	23	15	17	1.87
4205228--4205296	20	3.5	20	82	7	86	18	21	23	36	1.95
4207181--4207236	20	2.8	20	91	0	85	50	23	16	10	1.76
4207184--4207252	20	3.5	20	89	0	84	42	24	17	15	1.88
4207864--4207937	20	3.7	19	75	10	76	20	16	28	35	1.94
4207849--4207939	41	2.2	41	96	0	164	18	14	26	40	1.89
4207864--4208078	41	5.3	41	73	5	125	26	16	25	32	1.96
4208005--4208080	20	3.9	19	75	5	62	25	14	27	32	1.94
4208044--4208080	19	1.9	19	94	0	65	21	16	29	32	1.95
4211892--4211945	22	2.5	22	91	8	92	55	3	9	31	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4214627--4214666	2	20.0	2	100	0	80	50	0	0	50	1.00
4223754--4223841	34	2.6	33	78	8	88	63	14	1	20	1.36
4226118--4226150	16	1.9	18	88	11	52	60	3	0	36	1.12
4226732--4226808	38	2.0	38	94	0	136	57	2	3	36	1.31
4229297--4229557	130	2.0	130	98	0	504	31	25	15	27	1.96
4242676--4243018	169	2.0	170	97	1	645	27	22	20	29	1.98
4249372--4249512	71	2.0	71	91	2	230	41	7	20	29	1.80
4250455--4250507	21	2.5	22	81	9	56	28	11	3	56	1.51
4259584--4259751	82	2.0	83	97	1	320	44	34	9	11	1.74
4266020--4266146	64	2.0	65	87	4	186	36	8	18	36	1.82
4271712--4272025	162	1.9	162	100	0	628	29	16	22	31	1.96
4273134--4273176	18	2.4	18	96	0	77	27	32	20	18	1.96
4280704--4280744	21	1.9	22	90	5	66	36	19	21	21	1.95
4282679--4282746	28	2.4	28	82	7	84	75	0	14	10	1.06
4282719--4282790	17	4.4	17	77	18	55	72	0	16	11	1.12
4284076--4284209	65	2.1	65	88	1	198	23	18	25	32	1.97
4284099--4284255	65	2.4	65	80	2	172	25	17	24	33	1.96
4286861--4286943	23	3.7	23	75	15	93	28	21	25	24	1.99
4293519--4294121	105	5.8	104	88	4	901	40	16	19	23	1.91
4293748--4293802	16	3.4	16	71	14	58	49	7	23	20	1.74
4293505--4294119	208	2.9	207	91	3	1018	40	17	19	22	1.91
4293505--4294121	313	2.0	314	90	0	984	40	17	19	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4295840--4295903	19	3.4	19	68	8	51	39	1	4	54	1.31
4305552--4305622	32	2.2	32	85	5	90	30	29	25	14	1.94
4306804--4306861	27	2.1	27	81	6	64	24	12	15	48	1.79
4306813--4306866	27	2.0	28	96	3	101	20	11	20	48	1.80
4311727--4311764	20	1.9	20	84	10	51	42	15	0	42	1.47
4311921--4311989	23	3.0	23	82	0	93	31	26	24	17	1.97
4316404--4316441	20	1.9	20	84	10	51	42	15	0	42	1.47
4316605--4316673	23	3.0	23	80	0	84	31	24	24	18	1.98
4320376--4320447	22	3.3	20	75	12	63	26	20	25	27	1.99
4320390--4320450	21	2.9	20	83	11	70	24	19	27	27	1.99
4325772--4325796	13	1.9	13	100	0	50	56	0	8	36	1.29
4327602--4327644	21	2.0	21	81	0	50	27	27	25	18	1.98
4328299--4328388	23	3.9	23	92	0	144	20	30	25	24	1.99
4333675--4333705	9	3.4	9	100	0	62	45	0	0	54	0.99
4340345--4340830	227	2.1	227	86	8	659	29	13	16	40	1.86
4349847--4349880	16	2.1	16	94	0	59	32	8	26	32	1.87
4359176--4359240	23	2.8	23	78	0	85	30	21	26	21	1.98
4360600--4360645	21	2.2	21	84	0	56	17	21	28	32	1.96
4361152--4361198	23	2.0	23	100	0	94	36	17	8	38	1.80
4361749--4361793	16	2.8	18	78	21	55	17	26	0	55	1.42
4365767--4365807	23	1.9	22	85	14	59	31	19	7	41	1.79
4366913--4366937	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4367120--4367179	24	2.5	24	77	0	66	38	18	16	26	1.92
4369909--4369947	20	2.0	20	100	0	78	25	30	25	17	1.97
4369908--4369954	20	2.3	20	88	0	76	29	27	27	14	1.96
4371473--4371528	23	2.7	20	73	26	62	30	16	7	46	1.73
4373088--4373112	12	2.1	12	100	0	50	76	0	24	0	0.80
4376241--4376272	2	16.0	2	100	0	64	50	0	0	50	1.00
4376958--4376983	13	2.0	13	100	0	52	69	0	0	30	0.89
4378660--4378715	25	2.2	25	83	0	76	12	19	33	33	1.89
4388448--4388798	36	9.8	36	83	3	438	19	25	22	31	1.98
4388448--4388798	108	3.2	108	90	0	531	19	25	22	31	1.98

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