genome.fa.s8428.2.7.7.80.10.50.1000.28.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: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6915314

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   

This is table  28  of  30  ( 3508 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)
6453826--6453949	53	2.3	53	79	2	133	27	17	10	44	1.82
6455579--6455603	4	6.2	4	100	0	50	28	0	24	48	1.52
6457028--6457065	20	2.0	19	90	10	60	47	10	23	18	1.79
6457027--6457071	20	2.6	16	80	19	54	44	11	22	22	1.84
6459635--6459719	31	2.7	31	92	0	134	31	22	11	34	1.90
6460593--6460655	21	3.0	22	77	11	60	49	19	1	30	1.58
6460601--6460668	21	3.2	21	75	22	63	48	22	0	29	1.51
6460637--6460676	20	2.0	21	85	5	55	47	30	0	22	1.52
6461200--6461301	52	2.0	51	84	11	136	34	10	4	50	1.59
6464523--6464560	17	2.2	17	86	9	51	44	0	5	50	1.24
6465036--6465070	3	11.7	3	100	0	70	65	0	0	34	0.93
6466505--6466934	214	2.0	215	99	0	853	45	11	11	31	1.76
6472371--6472402	2	15.5	2	93	6	55	46	3	0	50	1.17
6475376--6475421	17	2.8	16	81	18	67	23	50	8	17	1.74
6482353--6482408	29	1.9	29	100	0	112	39	5	25	30	1.78
6484438--6484501	19	3.2	20	72	14	53	43	1	1	53	1.19
6484447--6484496	20	2.5	20	78	12	59	40	2	2	56	1.22
6484414--6484500	31	2.8	30	79	10	95	41	1	3	54	1.25
6486178--6486241	31	2.1	31	82	5	76	50	10	6	32	1.63
6486983--6487203	45	4.7	45	79	12	239	44	0	4	51	1.20
6486983--6487177	15	12.5	15	82	11	232	44	0	3	52	1.16
6487139--6487195	18	3.4	18	72	18	68	35	0	10	54	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6487125--6487200	32	2.4	32	100	0	152	38	0	7	53	1.30
6487125--6487700	112	5.4	110	79	14	606	34	0	12	52	1.40
6487230--6487620	32	13.6	32	69	26	197	35	0	12	52	1.39
6487251--6487307	18	3.4	18	67	18	59	31	0	14	54	1.40
6487292--6487556	22	11.0	22	73	17	206	35	0	12	51	1.40
6487292--6487556	44	5.5	44	80	15	260	35	0	12	51	1.40
6487180--6487632	178	2.6	178	86	7	575	34	0	13	51	1.41
6487559--6487615	18	3.4	17	70	20	57	33	0	10	56	1.34
6487464--6487700	108	2.2	111	90	4	374	35	0	12	52	1.39
6487540--6487619	14	5.0	16	69	22	69	35	0	10	55	1.34
6487622--6487743	26	4.6	25	70	20	88	29	0	16	54	1.43
6487358--6487797	80	5.5	80	86	10	555	33	0	13	52	1.42
6487827--6487885	31	1.9	31	92	0	100	42	10	6	40	1.65
6487903--6487945	16	2.7	16	92	0	68	23	6	6	62	1.45
6507507--6507590	38	2.3	36	87	4	114	50	0	1	48	1.08
6507591--6507617	12	2.2	12	100	0	54	14	51	25	7	1.68
6507708--6507757	25	2.0	25	88	3	75	22	12	40	26	1.88
6510631--6510678	22	2.2	22	88	0	69	35	10	33	20	1.87
6510641--6510685	22	2.0	22	100	0	90	31	8	33	26	1.87
6511331--6511370	21	1.9	21	85	10	55	57	5	0	37	1.21
6518103--6518129	14	1.9	14	100	0	54	51	0	3	44	1.19
6520293--6520331	2	19.5	2	89	0	60	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6527541--6527604	21	3.0	21	73	11	67	45	0	1	53	1.10
6527962--6527996	18	1.9	18	88	0	52	51	0	0	48	1.00
6532745--6532801	23	2.6	23	83	10	66	56	0	1	42	1.10
6532749--6532801	22	2.5	22	82	11	65	56	0	1	41	1.10
6539608--6539665	29	2.0	29	100	0	116	24	24	6	44	1.77
6539612--6539678	29	2.3	29	87	5	82	25	22	10	41	1.85
6539795--6539834	2	20.0	2	100	0	80	50	0	0	50	1.00
6541966--6542033	31	2.2	31	81	0	73	23	10	14	51	1.73
6546035--6546146	35	3.2	35	70	16	113	41	2	9	45	1.51
6546038--6546149	36	3.1	35	67	21	97	42	2	9	44	1.51
6547899--6547939	15	2.5	17	88	7	59	53	2	0	43	1.13
6549310--6549806	54	9.3	54	93	2	779	35	17	14	32	1.90
6551323--6551348	2	13.0	2	100	0	52	50	0	0	50	1.00
6557998--6558027	15	2.0	15	93	0	51	50	30	13	6	1.67
6559291--6559359	32	2.2	32	86	0	93	21	7	30	40	1.80
6564367--6564415	18	2.8	18	78	3	55	36	6	6	51	1.52
6565356--6565448	21	4.5	21	78	4	100	39	16	24	19	1.91
6565437--6565551	20	5.7	20	80	2	104	32	25	17	25	1.97
6565356--6565448	41	2.3	41	96	0	168	39	16	24	19	1.91
6565434--6565571	41	3.4	41	76	2	134	34	23	16	24	1.95
6566058--6566100	20	2.2	20	95	0	77	9	18	18	53	1.70
6567401--6567444	18	2.5	18	85	3	63	27	43	15	13	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6567918--6567983	19	3.4	19	81	4	78	37	24	22	15	1.92
6567956--6568043	32	2.7	33	89	3	142	47	20	18	13	1.82
6567972--6568035	14	4.4	14	76	16	67	50	21	15	12	1.77
6568047--6568105	18	3.5	17	75	25	63	8	16	27	47	1.76
6568076--6568179	19	5.4	19	83	4	111	14	21	24	40	1.90
6568087--6568160	39	1.9	38	88	2	112	14	24	22	37	1.92
6569300--6569337	20	1.9	20	88	0	58	42	21	23	13	1.88
6569308--6569403	33	2.9	33	85	1	129	39	26	21	12	1.89
6569375--6569445	19	3.7	19	92	3	115	47	22	18	11	1.80
6569441--6569525	19	4.7	19	74	15	81	10	16	22	50	1.75
6570033--6570085	20	2.7	20	84	0	70	28	18	26	26	1.98
6570199--6570238	21	1.9	21	84	0	53	32	32	17	17	1.93
6576130--6576158	2	14.5	2	100	0	58	48	0	0	51	1.00
6576825--6576854	2	15.0	2	100	0	60	50	0	0	50	1.00
6581117--6581182	27	2.4	27	97	0	123	37	16	18	27	1.92
6581236--6581268	15	2.2	15	94	0	57	30	15	12	42	1.83
6582550--6582596	17	2.7	17	78	15	51	48	2	0	48	1.13
6583007--6583056	19	2.5	20	72	18	50	32	24	4	40	1.73
6583007--6583059	20	2.7	20	73	8	54	33	22	3	39	1.72
6584093--6584145	14	3.8	13	80	9	52	50	3	15	30	1.61
6584108--6584147	14	2.9	14	88	11	64	52	5	15	27	1.63
6584311--6584356	22	2.2	20	85	14	67	50	6	0	43	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6584316--6584369	22	2.5	22	93	0	81	42	7	3	46	1.49
6584316--6584361	22	2.1	22	100	0	92	45	8	0	45	1.34
6584370--6584439	33	2.3	30	85	9	88	48	0	2	48	1.16
6584481--6584531	23	2.2	23	82	0	57	45	1	1	50	1.24
6586540--6586623	37	2.3	37	87	0	114	29	32	7	30	1.84
6587400--6587457	28	2.0	31	83	10	77	48	8	6	36	1.61
6587879--6587915	2	18.5	2	100	0	74	51	0	0	48	1.00
6588525--6588554	14	2.1	14	93	0	51	33	10	0	56	1.32
6587441--6588912	744	2.0	713	92	7	2407	41	14	5	37	1.71
6597545--6597610	24	2.7	24	92	2	105	46	1	4	46	1.32
6598218--6598243	3	8.7	3	100	0	52	0	0	30	69	0.89
6600105--6600173	23	3.0	23	80	0	75	57	13	14	14	1.65
6600717--6600741	13	1.9	13	100	0	50	32	0	12	56	1.36
6609383--6609720	169	2.0	169	100	0	676	25	26	15	32	1.95
6617318--6617343	6	4.3	6	100	0	52	15	53	15	15	1.73
6620226--6620296	37	1.9	37	94	0	124	49	0	0	50	1.00
6620220--6620325	37	2.8	37	84	7	108	49	0	0	50	1.00
6623300--6623339	2	20.0	2	100	0	80	50	0	0	50	1.00
6625597--6627006	48	29.7	48	78	7	1258	36	24	15	22	1.94
6625592--6626730	96	11.9	96	88	2	1399	36	24	16	22	1.94
6625592--6626880	96	13.5	96	86	3	1387	36	24	15	22	1.94
6629031--6629464	48	9.1	48	76	7	393	33	23	18	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6629040--6629395	189	1.9	189	80	3	421	32	22	19	25	1.97
6635930--6635968	18	2.2	18	95	0	69	12	5	2	79	1.00
6638745--6638776	17	1.9	17	93	6	57	34	0	0	65	0.93
6638884--6638928	22	2.0	22	86	8	63	42	4	0	53	1.21
6643647--6643738	40	2.3	41	90	1	141	22	7	38	31	1.82
6654030--6654061	6	5.3	6	100	0	64	15	34	31	18	1.93
6657391--6657547	64	2.5	64	81	6	176	33	19	17	28	1.95
6658002--6658077	25	3.0	25	92	1	125	21	25	22	31	1.98
6658197--6658241	23	2.0	23	86	0	63	20	26	26	26	1.99
6674536--6674659	17	7.1	19	67	20	67	75	0	17	6	1.07

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