genome.fa.s8087.2.7.7.80.10.50.1000.21.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  21  of  37  ( 4336 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)
4725289--4725480	96	2.0	96	86	0	267	32	22	17	28	1.96
4727725--4727772	15	3.3	14	82	8	51	20	4	8	66	1.35
4727715--4727772	29	1.9	30	83	13	75	24	3	8	63	1.38
4728391--4728458	30	2.3	30	89	0	100	38	11	5	44	1.65
4728403--4728465	30	2.1	30	93	0	108	38	11	6	44	1.66
4733008--4733038	15	2.1	15	93	0	53	45	0	0	54	0.99
4747091--4747120	13	2.3	13	94	0	51	30	16	30	23	1.96
4760884--4760928	22	2.0	24	82	8	58	44	20	8	26	1.80
4760986--4761019	18	1.9	18	88	5	52	38	11	0	50	1.39
4764895--4764926	12	2.7	12	90	0	55	34	9	28	28	1.88
4771050--4771176	54	2.4	54	88	4	177	47	13	14	24	1.81
4775223--4775335	59	1.9	59	82	7	140	32	16	16	33	1.92
4783190--4783236	16	3.1	15	79	8	51	23	2	6	68	1.24
4783221--4783280	23	2.6	23	75	15	61	40	0	10	50	1.36
4788958--4789003	24	1.9	24	86	8	67	69	4	0	26	1.07
4808623--4809842	182	6.7	182	89	1	1658	41	13	16	28	1.86
4812196--4812239	21	2.1	21	91	8	72	43	11	31	13	1.80
4812296--4812348	21	2.5	21	96	0	97	28	3	43	24	1.71
4812511--4812566	18	3.1	18	94	0	85	57	0	41	1	1.09
4814096--4814144	19	2.6	19	93	0	80	32	2	6	59	1.34
4814406--4815940	200	7.8	198	87	5	1962	39	11	14	34	1.83
4814801--4815914	401	2.8	399	88	2	1562	39	11	14	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4817421--4817466	12	3.8	12	85	0	56	43	2	30	23	1.66
4818809--4819577	201	3.8	199	80	3	862	37	13	15	33	1.87
4823667--4823700	9	3.8	9	88	11	52	76	0	2	20	0.92
4823666--4823700	13	2.6	13	90	4	52	77	0	2	20	0.90
4823967--4823991	2	12.5	2	100	0	50	52	0	0	48	1.00
4824170--4824194	2	12.5	2	100	0	50	52	0	0	48	1.00
4824200--4824242	18	2.5	17	81	7	52	69	2	2	25	1.12
4824202--4824240	14	2.8	13	88	11	51	71	2	2	23	1.10
4825240--4826097	105	8.3	104	88	4	1233	22	18	26	33	1.96
4825240--4826097	205	4.2	205	92	1	1353	22	18	26	33	1.96
4826633--4826790	68	2.4	65	84	4	199	36	8	21	32	1.85
4826766--4827046	36	8.0	35	77	12	263	40	13	19	25	1.88
4826714--4827020	138	2.2	137	85	2	402	40	13	19	27	1.88
4826802--4826990	102	1.9	103	88	2	292	40	13	18	27	1.88
4827068--4827183	36	3.2	36	70	3	101	42	14	17	25	1.87
4827506--4827541	18	2.0	18	88	0	54	41	30	8	19	1.81
4827975--4828037	29	2.2	29	100	0	126	23	14	33	28	1.94
4828627--4828670	19	2.2	20	84	4	54	2	11	6	79	1.01
4828642--4828695	22	2.5	21	77	11	56	1	14	7	75	1.09
4831711--4831744	9	3.8	9	88	11	52	76	0	2	20	0.92
4831710--4831744	13	2.6	13	90	4	52	77	0	2	20	0.90
4832226--4832268	18	2.5	17	81	7	52	69	2	2	25	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4832228--4832266	14	2.8	13	88	11	51	71	2	2	23	1.10
4833089--4833173	23	3.7	23	95	0	152	35	20	9	35	1.85
4843624--4843671	6	7.5	6	86	9	60	14	16	14	54	1.72
4843620--4843665	21	2.2	20	92	3	74	15	17	13	54	1.71
4844271--4844326	24	2.3	24	96	0	103	41	23	7	28	1.80
4844906--4844951	17	2.8	17	86	3	58	82	4	13	0	0.81
4844907--4844951	6	8.0	6	80	9	51	82	4	13	0	0.82
4846150--4846245	39	2.5	39	81	6	131	23	17	17	40	1.91
4846233--4846468	15	14.1	15	70	19	139	23	26	16	33	1.96
4846262--4846470	36	6.0	35	75	17	152	24	25	15	33	1.95
4846200--4846511	102	3.0	97	84	10	288	23	25	16	34	1.95
4846298--4846511	51	4.2	51	92	2	358	23	26	15	34	1.95
4846249--4846411	87	1.9	87	90	2	265	23	26	15	34	1.94
4846262--4846555	87	3.4	86	78	15	227	26	25	14	34	1.94
4846236--4846511	15	16.4	15	70	20	120	23	26	15	34	1.95
4846452--4846555	36	2.9	36	88	0	145	26	24	13	35	1.92
4846453--4846591	36	3.8	37	82	8	133	28	23	12	35	1.92
4846622--4846719	43	2.3	43	87	0	133	26	12	31	29	1.92
4846766--4847011	131	1.9	131	94	0	438	25	21	22	30	1.99
4853668--4853715	24	2.0	25	91	4	80	62	4	6	27	1.38
4854092--4854168	37	2.1	37	85	4	102	48	1	3	46	1.28
4856676--4856752	37	2.1	36	83	9	93	46	1	3	48	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4856891--4856953	18	3.4	18	76	8	72	26	20	3	49	1.64
4865047--4865367	103	3.1	103	97	0	597	26	13	23	36	1.92
4865384--4865453	23	3.0	23	89	0	95	22	22	27	27	1.99
4872623--4872674	15	3.5	15	91	0	77	7	65	17	9	1.45
4873863--4873907	22	2.0	22	95	0	81	28	8	20	42	1.82
4878262--4878310	25	2.0	25	83	0	62	34	20	4	40	1.71
4879484--4879870	193	2.0	193	98	0	747	32	16	24	26	1.96
4884771--4884815	23	2.0	23	90	0	72	24	26	26	22	2.00
4884791--4885094	149	2.1	146	89	3	457	35	22	16	26	1.94
4886490--4886592	44	2.3	45	88	5	156	28	17	16	37	1.91
4902334--4902426	14	6.6	14	75	15	84	43	3	2	51	1.29
4902386--4902642	37	6.7	37	84	11	322	40	4	5	49	1.46
4902344--4902693	14	27.7	14	68	24	174	40	4	5	50	1.44
4902509--4902642	23	5.6	23	78	12	137	39	5	5	49	1.50
4902596--4902634	15	2.6	15	95	0	69	38	7	5	48	1.54
4902629--4902680	8	6.6	8	78	12	54	42	1	5	50	1.37
4902744--4902859	42	2.8	42	98	0	223	14	21	18	45	1.85
4903052--4903112	22	2.8	23	82	7	65	47	0	0	52	1.00
4903063--4903141	31	2.5	32	80	16	92	48	1	0	50	1.08
4903157--4903224	28	2.4	29	80	9	79	44	1	1	52	1.19
4903391--4903480	20	4.5	20	97	0	162	36	13	10	40	1.78
4903463--4903514	15	3.5	15	89	5	79	36	19	7	36	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4903583--4903925	23	14.6	23	74	13	102	39	4	6	49	1.49
4903553--4903981	37	11.4	37	78	17	458	40	4	5	49	1.48
4903620--4904009	68	6.0	66	84	9	386	40	4	5	49	1.48
4903620--4904009	23	17.1	23	72	17	228	40	4	5	49	1.48
4903952--4904024	28	2.6	28	93	0	119	41	4	4	50	1.40
4904498--4904540	6	7.2	6	97	0	77	18	62	0	18	1.32
4906286--4906612	172	1.9	173	92	1	559	36	18	4	40	1.70
4906873--4906950	41	1.9	41	100	0	156	19	32	15	33	1.93
4907192--4907276	34	2.5	34	96	0	152	35	24	24	15	1.94
4907357--4907406	3	16.7	3	95	0	91	34	2	0	64	1.05
4908879--4908925	14	3.5	13	80	13	51	40	2	2	55	1.24
4908891--4909086	98	2.0	97	80	10	222	43	9	8	37	1.68
4909482--4909538	30	1.9	30	89	7	89	31	33	21	14	1.92
4913148--4913205	21	2.7	21	86	2	80	60	0	36	3	1.14
4913420--4913465	18	2.5	19	93	6	78	45	0	0	54	0.99
4921306--4921378	29	2.4	30	84	8	87	58	1	1	38	1.15
4922264--4922324	2	31.5	2	93	6	108	47	0	0	52	1.00
4924543--4924572	2	15.0	2	100	0	60	50	0	0	50	1.00
4925174--4925305	44	3.0	41	81	14	138	40	0	5	53	1.23
4925188--4925256	25	3.0	23	70	27	58	43	0	5	50	1.26
4925242--4925303	14	4.1	15	70	17	56	37	0	4	58	1.20
4925258--4925699	51	8.8	53	75	17	323	36	0	12	51	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4925402--4925603	75	2.7	75	90	8	324	34	0	13	51	1.42
4925465--4925586	36	3.3	37	70	16	126	31	0	14	53	1.42
4925556--4925668	48	2.2	53	90	7	182	39	0	8	51	1.33
4925777--4925835	31	1.9	31	92	0	100	40	10	6	42	1.65
4927698--4927756	16	3.7	16	93	0	100	8	11	23	55	1.63
4935884--4935914	2	16.0	2	93	6	55	48	0	0	51	1.00
4937379--4937441	3	21.7	3	78	12	69	61	0	0	38	0.96
4937363--4937429	32	2.2	30	82	15	84	61	0	0	38	0.96
4937367--4937432	29	2.3	28	84	2	87	60	0	0	39	0.97
4937381--4937440	32	2.0	31	83	9	79	61	0	0	38	0.96

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