genome.fa.s7923.2.7.7.80.10.50.1000.35.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

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   

This is table  35  of  40  ( 4704 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)
7320496--7321130	114	5.5	114	98	0	1216	36	14	20	28	1.92
7321378--7321459	3	27.7	3	95	2	148	35	0	0	64	0.94
7324322--7325093	386	2.0	385	96	0	1418	26	17	24	31	1.97
7329368--7329400	16	2.1	16	94	0	57	33	6	27	33	1.81
7335671--7335733	28	2.3	27	82	17	78	58	1	0	39	1.07
7336212--7336371	69	2.4	64	78	15	153	47	6	3	41	1.48
7337940--7337966	12	2.2	12	100	0	54	0	33	7	59	1.25
7345790--7345840	14	3.6	14	89	10	77	47	29	0	23	1.52
7345794--7345833	7	5.7	7	88	11	64	47	27	0	25	1.52
7345959--7345995	2	18.5	2	100	0	74	48	0	0	51	1.00
7347735--7347774	2	20.0	2	94	0	71	47	0	0	52	1.00
7347683--7347755	33	2.2	33	82	7	85	49	4	4	42	1.41
7347967--7348000	17	2.0	17	100	0	68	29	11	29	29	1.92
7350048--7350090	20	2.3	19	84	15	54	32	16	25	25	1.96
7351160--7351222	2	31.5	2	100	0	126	50	0	0	49	1.00
7351431--7351552	24	5.1	24	83	7	140	40	19	14	25	1.90
7353992--7354027	18	2.0	18	100	0	72	16	16	50	16	1.79
7354955--7355000	22	2.1	22	100	0	92	47	17	17	17	1.83
7356425--7356486	31	2.0	31	83	0	79	22	9	17	50	1.75
7359855--7359999	74	2.0	74	92	0	245	31	8	9	51	1.64
7361726--7361753	3	9.3	3	100	0	56	32	0	0	67	0.91
7362814--7362845	16	2.0	16	93	0	55	43	9	12	34	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7363446--7363470	13	1.9	13	100	0	50	12	16	8	64	1.49
7372650--7372685	2	18.0	2	100	0	72	50	0	0	50	1.00
7376699--7378681	200	10.0	198	82	7	971	28	14	16	40	1.87
7377024--7378670	200	8.3	200	81	9	1822	28	13	16	41	1.87
7377024--7378670	400	4.2	400	86	5	2312	28	13	16	41	1.87
7377030--7378599	779	2.0	779	89	1	2434	27	13	16	41	1.86
7380138--7380178	3	13.7	3	84	0	55	26	31	2	39	1.70
7381335--7381376	15	2.8	15	88	0	66	28	0	52	19	1.46
7381711--7382207	199	2.5	199	91	1	834	26	15	15	42	1.86
7382020--7382584	178	3.1	178	88	8	826	25	15	16	43	1.87
7381821--7382979	377	3.0	377	91	4	1757	26	14	15	42	1.86
7382198--7383006	199	4.0	199	93	1	1325	26	14	15	42	1.86
7383379--7383427	19	2.6	19	96	0	89	57	10	0	32	1.32
7385612--7385666	24	2.5	22	83	16	69	50	5	1	41	1.36
7386922--7387051	19	6.6	19	72	11	91	34	16	3	45	1.64
7387009--7387051	18	2.3	19	96	4	79	34	13	0	51	1.42
7386922--7387105	95	1.9	100	86	6	270	36	16	3	42	1.67
7387542--7387853	162	1.9	162	91	3	513	29	14	12	43	1.82
7387702--7388299	182	3.3	183	88	1	887	26	15	13	44	1.83
7388947--7388993	24	1.9	25	82	4	60	55	12	0	31	1.38
7389171--7389233	26	2.4	26	81	5	74	39	15	11	33	1.83
7391814--7391966	72	2.1	72	88	0	225	28	16	26	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7393628--7393690	31	2.0	31	81	3	72	34	12	19	33	1.89
7393619--7393782	37	4.5	36	71	11	113	25	12	26	35	1.91
7393644--7393808	77	2.2	77	94	1	287	20	12	30	35	1.90
7393971--7394041	26	2.7	26	100	0	142	22	9	26	40	1.85
7394405--7394439	18	1.9	18	94	0	61	28	25	5	40	1.78
7395284--7395319	18	1.9	19	88	5	56	72	0	0	27	0.85
7405310--7405471	81	2.0	81	95	0	288	23	20	17	38	1.93
7409882--7409943	27	2.4	25	72	12	63	38	6	3	51	1.44
7410027--7410077	24	2.0	25	85	7	68	49	5	5	39	1.51
7410027--7410154	22	5.4	24	73	16	81	46	4	3	44	1.42
7410059--7410108	16	3.1	17	77	8	59	38	6	4	52	1.45
7410039--7410131	13	6.9	13	75	11	62	43	4	5	47	1.46
7410120--7410149	15	2.0	15	93	0	51	56	0	0	43	0.99
7410294--7410351	28	2.0	29	87	9	84	31	15	12	41	1.84
7411770--7411858	39	2.3	39	88	3	126	33	20	29	16	1.95
7411786--7411894	39	2.8	39	83	4	121	33	15	26	24	1.95
7414066--7414105	20	2.0	20	100	0	80	25	25	15	35	1.94
7414698--7414795	33	3.2	33	72	21	120	36	6	13	43	1.69
7415993--7416085	35	2.7	35	91	0	150	15	18	19	47	1.83
7417149--7417235	42	2.1	42	95	0	156	33	10	17	39	1.83
7418238--7418320	29	2.9	29	94	0	139	16	44	25	13	1.84
7418476--7418529	27	2.0	27	96	0	99	22	16	22	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7418703--7418729	11	2.5	11	100	0	54	18	0	37	44	1.50
7418862--7418967	30	3.5	30	87	5	142	38	0	14	47	1.44
7418909--7418963	15	3.6	16	70	20	55	41	0	14	43	1.45
7419020--7419051	15	2.1	16	94	5	57	37	0	6	56	1.25
7420247--7420291	23	2.0	23	86	0	63	40	2	2	55	1.24
7420241--7420291	23	2.5	20	77	20	52	39	1	1	56	1.22
7421189--7421236	14	3.6	14	78	16	66	43	18	0	37	1.51
7421192--7421242	25	2.0	25	92	0	84	43	17	0	39	1.49
7421204--7421711	60	8.5	60	95	0	881	45	13	0	40	1.43
7421876--7421924	21	2.3	21	82	3	62	53	14	2	30	1.52
7422079--7422121	6	7.2	6	86	0	50	4	27	18	48	1.68
7422423--7422449	13	2.1	13	100	0	54	22	37	18	22	1.95
7422429--7422599	29	5.9	29	81	9	222	18	38	25	18	1.93
7422512--7422599	26	3.3	27	77	16	80	18	37	26	18	1.93
7422545--7422594	26	1.9	26	100	0	100	24	36	20	20	1.95
7422808--7422854	21	2.2	21	96	0	85	27	19	44	8	1.79
7422844--7422927	29	2.9	30	91	3	127	19	28	36	15	1.92
7423964--7424035	2	36.0	2	100	0	144	50	0	0	50	1.00
7443320--7443347	2	14.0	2	100	0	56	50	0	0	50	1.00
7447500--7447572	21	3.2	21	66	26	58	10	12	46	30	1.76
7447450--7447665	48	4.6	48	84	3	240	13	12	44	29	1.80
7447459--7447665	93	2.2	94	83	4	247	14	12	44	28	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7449009--7449048	13	3.2	13	89	7	64	55	0	0	45	0.99
7449661--7449760	33	3.0	34	83	2	139	39	3	4	54	1.35
7450271--7450364	21	4.5	21	92	5	129	20	26	35	18	1.95
7450368--7450415	21	2.3	21	85	0	60	22	12	39	25	1.89
7452136--7452239	34	3.1	33	81	4	100	62	3	0	33	1.13
7452931--7452955	10	2.5	10	100	0	50	32	0	0	68	0.90
7460298--7460328	2	15.5	2	100	0	62	51	0	0	48	1.00
7463623--7463697	35	2.1	35	85	0	105	38	0	18	42	1.51
7464364--7464398	16	2.2	16	94	0	61	45	8	0	45	1.34
7464380--7464433	26	2.2	23	84	15	65	42	3	3	50	1.38
7464475--7464508	12	2.7	13	86	9	52	29	0	2	67	1.05
7465290--7465471	4	44.0	4	69	16	95	26	3	4	65	1.29
7465294--7465346	19	2.8	19	85	0	70	26	1	3	67	1.17
7465423--7465463	10	4.2	10	78	15	50	31	0	2	65	1.05
7472323--7472422	40	2.5	39	90	1	155	31	22	17	30	1.96
7473038--7473245	14	14.6	14	69	14	113	42	2	5	48	1.42
7473082--7473296	42	5.2	41	90	4	283	42	3	5	47	1.44
7473127--7473287	28	5.8	28	71	11	116	39	4	5	49	1.48
7475128--7475380	42	5.8	42	75	17	203	46	4	5	42	1.49
7475148--7475327	56	3.2	56	74	8	177	46	4	8	41	1.54
7475202--7475414	84	2.7	81	86	6	276	47	4	5	42	1.46
7475314--7475444	22	6.3	22	72	18	118	49	5	0	44	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7475132--7475449	14	23.4	13	68	14	146	47	4	5	42	1.47
7475314--7475444	61	2.1	64	92	4	223	49	5	0	44	1.30
7475379--7475458	42	1.9	41	92	2	133	46	3	3	46	1.38
7476077--7476176	40	2.5	40	92	6	168	31	18	22	29	1.97
7476875--7476942	19	3.6	19	92	4	111	22	5	7	64	1.40
7476845--7476986	4	34.2	4	70	14	92	26	4	4	64	1.32
7476890--7477022	19	6.4	19	73	19	70	27	6	3	61	1.38
7476843--7477022	47	4.1	42	73	19	120	27	6	3	62	1.37
7486168--7486212	23	2.0	23	86	0	63	26	26	26	20	1.99
7486180--7486495	150	2.1	149	93	1	535	34	21	17	26	1.95

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