genome.fa.s7957.2.7.7.80.10.50.1000.30.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

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   38   39   40   41   42   43   

This is table  30  of  43  ( 5063 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)
6006874--6006918	19	2.3	19	84	3	54	64	13	2	20	1.38
6010314--6010348	18	1.9	18	88	0	52	25	17	0	57	1.40
6013299--6013378	41	2.0	41	100	0	160	26	27	13	32	1.94
6022258--6022684	231	1.9	230	94	0	755	30	12	16	40	1.86
6022994--6023039	18	2.6	18	86	3	67	28	28	8	34	1.87
6034454--6034497	19	2.3	19	96	0	79	18	34	25	22	1.96
6034438--6034484	24	2.0	24	86	0	67	17	34	25	23	1.96
6034463--6034501	19	2.1	19	90	0	60	25	28	23	23	1.99
6038291--6038325	17	2.1	17	94	0	61	17	48	25	8	1.75
6038320--6038430	29	3.9	29	89	2	163	36	3	24	36	1.73
6040706--6040763	22	2.6	22	77	0	62	34	6	3	55	1.44
6040748--6040806	23	2.6	23	75	0	55	25	0	13	61	1.33
6041248--6041276	5	6.0	5	92	8	51	37	0	0	62	0.96
6041245--6041277	15	2.4	14	85	14	50	33	0	0	66	0.92
6042663--6042729	12	5.6	12	76	5	55	19	1	47	31	1.58
6042834--6042898	33	2.0	33	81	6	78	21	10	4	63	1.45
6044999--6045146	75	2.0	75	98	0	287	25	6	23	43	1.78
6049540--6049611	2	36.5	2	97	2	137	51	0	0	48	1.00
6050562--6050831	135	2.0	135	98	1	524	33	24	8	33	1.85
6052333--6052715	191	2.0	193	98	1	752	38	10	18	32	1.84
6067739--6067775	18	2.1	18	100	0	74	16	51	21	10	1.74
6067849--6067911	27	2.3	27	83	0	72	36	3	9	50	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6067977--6068006	2	15.0	2	100	0	60	50	0	0	50	1.00
6072091--6072117	13	2.1	13	100	0	54	37	7	29	25	1.83
6074655--6074998	166	2.1	166	97	0	652	27	25	17	28	1.98
6075297--6075352	29	1.9	29	85	0	76	35	7	19	37	1.79
6078549--6078589	9	4.7	9	81	6	57	41	0	0	58	0.98
6078549--6078596	17	2.7	18	87	6	62	41	0	0	58	0.98
6082624--6082661	19	2.0	20	84	5	51	52	2	36	7	1.45
6089227--6089297	23	3.2	22	84	5	81	18	23	35	22	1.96
6089247--6089298	23	2.3	23	93	0	86	19	21	38	21	1.94
6089225--6089309	23	3.8	23	80	7	77	20	24	31	23	1.98
6098452--6098522	30	2.4	30	100	0	142	32	23	21	22	1.98
6098452--6098549	30	3.2	30	89	1	115	33	26	19	20	1.96
6102706--6102775	30	2.3	30	100	0	140	35	24	17	22	1.95
6103712--6103868	64	2.5	64	77	10	160	26	20	21	32	1.97
6106399--6106438	21	1.9	22	90	10	66	12	10	40	37	1.77
6106986--6107060	23	3.5	21	85	7	80	25	21	28	25	1.99
6107007--6107066	23	2.7	22	87	5	93	25	21	28	25	1.99
6107278--6107335	18	3.0	19	76	14	64	48	8	10	32	1.68
6107789--6107897	57	1.9	57	88	0	164	39	8	12	39	1.74
6112119--6112172	18	2.9	19	81	10	67	77	11	0	11	0.99
6112583--6112640	23	2.7	21	80	17	73	32	17	24	25	1.96
6123959--6124009	21	2.5	20	78	9	59	35	27	13	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6124226--6124634	202	2.0	206	97	2	781	33	18	15	32	1.93
6125349--6125388	20	2.1	19	90	4	62	27	0	17	55	1.43
6134077--6134107	16	1.9	16	100	0	62	25	0	3	70	1.02
6134736--6134765	13	2.3	13	94	0	51	16	0	33	50	1.46
6134879--6135004	50	2.5	50	83	3	148	29	1	33	35	1.67
6134930--6135004	25	3.0	24	73	5	78	24	1	34	40	1.64
6142897--6142930	2	17.0	2	93	0	59	52	0	0	47	1.00
6142883--6142930	10	4.7	10	87	5	51	52	0	0	47	1.00
6145495--6145530	19	1.9	18	88	5	54	52	0	0	47	1.00
6149523--6149835	160	2.0	155	96	3	581	30	17	18	33	1.94
6158771--6158837	23	2.9	23	84	0	89	34	22	23	19	1.97
6161936--6162004	23	3.0	23	80	0	93	31	26	21	20	1.98
6162395--6162440	2	23.0	2	100	0	92	50	0	0	50	1.00
6162502--6162545	2	22.0	2	100	0	88	50	0	0	50	1.00
6163310--6163358	20	2.6	18	83	6	53	51	22	2	24	1.59
6163661--6163798	64	2.2	64	85	5	181	24	22	19	33	1.97
6165830--6165869	17	2.4	17	86	0	53	67	12	2	17	1.33
6173306--6173359	20	2.7	20	94	0	90	51	18	18	11	1.74
6173394--6173579	20	9.1	20	86	3	228	36	15	25	23	1.94
6173414--6173571	83	1.9	83	85	0	217	35	16	24	23	1.95
6173373--6173577	103	2.0	103	94	0	356	36	16	25	22	1.94
6173582--6173625	20	2.2	20	87	0	61	56	18	11	13	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6174391--6174457	6	11.2	6	100	0	134	0	16	49	34	1.46
6174562--6174732	20	8.4	20	85	3	189	22	23	16	36	1.94
6174560--6174712	83	1.8	83	84	0	207	22	23	17	36	1.95
6174562--6174753	103	1.9	103	92	0	321	22	23	17	36	1.94
6174560--6174857	20	14.6	20	76	7	134	19	21	19	39	1.93
6174807--6174857	19	2.6	20	90	3	77	15	17	23	43	1.88
6177663--6177694	15	2.1	16	88	11	50	50	0	0	50	1.00
6178113--6178140	14	2.0	14	100	0	56	21	28	7	42	1.79
6179528--6179574	25	1.9	24	82	4	58	53	0	4	42	1.20
6179763--6179798	18	1.9	19	88	5	56	47	0	0	52	1.00
6182584--6182639	18	3.3	17	77	20	55	64	1	1	32	1.14
6182716--6182757	12	3.2	13	84	15	52	69	0	0	30	0.89
6182731--6182783	19	2.7	20	82	5	63	54	0	3	41	1.18
6186571--6186658	42	2.1	42	82	0	104	23	6	13	55	1.62
6186757--6186816	27	2.2	28	96	3	113	48	0	3	48	1.18
6186774--6186839	14	4.9	13	76	12	71	51	1	1	45	1.19
6186774--6186848	12	5.8	12	73	22	55	53	1	1	44	1.17
6186774--6186908	25	5.3	25	71	14	62	53	0	0	45	1.11
6186859--6186907	26	2.0	26	84	8	66	51	0	0	48	1.00
6186882--6186973	27	3.5	25	73	15	78	50	1	2	46	1.20
6187012--6187056	23	2.0	23	86	0	63	53	4	2	40	1.33
6187617--6187679	32	2.0	32	93	0	108	22	12	20	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6188001--6188444	223	2.0	226	86	6	634	35	12	6	45	1.68
6200874--6201028	77	2.0	76	97	1	292	27	18	10	43	1.82
6203682--6204366	14	47.8	14	68	15	225	41	4	4	48	1.44
6203683--6204321	28	22.2	28	74	12	372	42	4	4	48	1.44
6203692--6203989	42	7.1	42	93	1	481	41	5	4	48	1.45
6204129--6204246	35	3.2	36	79	12	114	44	2	5	48	1.38
6203706--6204362	42	15.9	42	82	9	405	42	4	4	48	1.45
6207157--6207218	2	31.0	2	100	0	124	50	0	0	50	1.00
6214221--6214310	30	2.9	31	81	12	107	34	20	17	27	1.95
6214218--6214308	31	3.0	31	84	7	114	35	19	17	27	1.95
6214492--6214538	2	24.0	2	95	4	87	48	0	0	51	1.00
6214699--6214746	2	24.0	2	100	0	96	50	0	0	50	1.00
6217114--6217148	18	1.9	18	88	11	54	31	17	5	45	1.71
6219826--6219885	18	3.3	18	75	9	59	33	25	3	38	1.72
6220096--6220248	76	2.0	76	100	0	306	34	23	19	22	1.96
6220227--6220289	31	2.0	31	87	0	90	36	22	19	22	1.95
6222656--6222747	30	3.0	30	82	6	123	34	20	18	26	1.96
6222656--6222746	31	3.0	31	86	1	130	35	19	18	26	1.95
6223512--6223554	22	2.0	22	95	0	77	46	18	16	18	1.84
6241431--6241475	20	2.2	20	84	7	56	26	22	20	31	1.98
6241692--6241812	42	2.9	42	79	0	125	23	15	20	39	1.91
6241836--6241972	37	3.7	37	91	0	220	38	15	21	24	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6254863--6254900	20	1.9	20	94	0	67	5	26	2	65	1.27
6260328--6260420	40	2.3	40	88	3	143	36	18	20	24	1.95
6260329--6260405	20	3.8	20	98	0	145	37	15	20	25	1.92
6260389--6260436	20	2.4	20	89	0	69	27	27	20	25	1.99
6261187--6261240	24	2.2	24	90	0	81	20	16	20	42	1.89
6261418--6261454	14	2.6	14	91	4	56	51	24	18	5	1.67
6263585--6263854	140	1.9	140	96	0	504	29	13	15	42	1.84
6263825--6264049	20	11.9	20	77	11	222	33	22	18	25	1.96
6263825--6264029	54	3.7	54	83	3	230	34	22	17	25	1.96
6264092--6264130	20	2.0	20	89	0	60	7	17	23	51	1.71

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   38   39   40   41   42   43