genome.fa.s9624.2.7.7.80.10.50.1000.28.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   

This is table  28  of  38  ( 4514 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)
5587559--5587806	14	17.7	14	72	17	119	74	0	19	6	1.02
5589720--5589932	65	3.2	64	76	10	157	33	18	11	36	1.87
5589826--5590036	102	2.1	102	84	3	273	34	17	12	36	1.87
5589909--5589977	36	1.9	36	82	5	86	31	18	13	36	1.89
5592025--5592980	318	3.0	318	90	0	1522	35	18	14	31	1.91
5594444--5594705	41	6.3	41	78	5	231	28	18	17	35	1.94
5594464--5594682	83	2.7	84	82	3	250	26	17	17	38	1.92
5594446--5594705	124	2.1	125	86	2	362	28	18	17	35	1.94
5597634--5597688	20	2.8	20	91	0	92	30	9	5	54	1.54
5598187--5598360	42	4.1	42	83	5	201	23	20	21	34	1.97
5598187--5598360	85	2.1	83	82	6	217	23	20	21	34	1.97
5598337--5598381	24	1.9	24	86	4	65	22	22	24	31	1.99
5598367--5598643	43	6.5	42	74	11	183	25	22	19	33	1.97
5598252--5598468	108	2.0	108	85	1	292	24	21	19	34	1.97
5598225--5598494	150	1.8	150	82	4	348	25	20	19	34	1.96
5598361--5598580	85	2.6	83	80	8	221	26	21	18	34	1.96
5598370--5598643	85	3.2	85	77	10	204	25	21	19	33	1.97
5599266--5599374	35	3.1	34	85	10	148	42	22	0	34	1.60
5599996--5600051	20	2.8	20	89	5	78	42	16	16	25	1.87
5600038--5600121	37	2.3	37	89	0	132	39	21	14	25	1.91
5600076--5600199	57	2.2	58	89	1	187	35	23	13	27	1.93
5600171--5600219	21	2.4	20	82	3	53	32	26	16	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5600083--5600332	134	1.9	134	87	1	367	36	20	15	27	1.92
5600191--5600425	114	2.1	113	90	0	362	36	20	17	26	1.94
5600214--5600432	57	3.9	57	85	5	300	35	19	17	27	1.94
5601137--5601249	35	3.2	34	87	5	154	34	0	22	42	1.60
5602307--5602336	2	15.0	2	100	0	60	50	0	0	50	1.00
5602566--5603238	182	3.7	182	92	0	1071	41	15	16	26	1.88
5605156--5605212	24	2.5	23	77	8	62	43	0	5	50	1.24
5605491--5605527	18	2.1	18	94	0	65	29	5	13	51	1.63
5605763--5606530	200	3.9	198	85	5	987	39	14	14	31	1.86
5605763--5606530	399	1.9	399	86	3	1091	39	14	14	31	1.86
5606818--5606887	31	2.3	31	80	5	88	27	8	24	40	1.84
5607469--5607512	18	2.6	18	85	7	56	31	25	6	36	1.82
5611151--5611627	200	2.4	198	85	4	622	38	14	14	32	1.86
5611670--5611717	23	2.1	23	92	0	78	39	16	6	37	1.74
5611670--5611832	87	1.9	87	94	0	290	36	12	7	42	1.72
5611753--5611804	23	2.3	23	79	0	59	40	13	5	40	1.68
5622245--5622337	3	31.3	3	95	2	125	26	0	6	66	1.15
5622684--5622708	12	2.1	12	100	0	50	24	8	8	60	1.52
5633686--5633722	14	2.6	14	100	0	74	72	0	10	16	1.10
5633679--5633733	14	3.9	14	88	4	67	72	1	12	12	1.20
5634386--5634431	24	1.9	24	100	0	92	19	4	13	63	1.46
5639399--5639615	108	2.0	108	100	0	434	35	19	15	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5648178--5648400	111	2.0	111	100	0	446	24	19	13	42	1.88
5675357--5675983	313	2.0	314	93	0	1060	29	18	20	30	1.96
5680752--5680908	55	2.9	55	85	0	206	29	18	16	35	1.93
5687841--5687881	18	2.3	18	83	4	57	26	7	24	41	1.81
5700813--5700959	55	2.7	55	84	2	179	31	19	15	33	1.93
5708875--5708942	30	2.3	29	82	2	82	42	27	5	23	1.77
5708501--5709253	374	2.0	377	89	1	1156	35	15	13	35	1.87
5709597--5709859	109	2.4	109	85	3	334	35	12	12	39	1.82
5709814--5709882	29	2.4	29	85	4	86	28	10	13	47	1.74
5714537--5714589	21	2.5	21	87	0	79	24	28	22	24	2.00
5714727--5714765	14	2.7	16	77	22	50	41	20	2	35	1.66
5721538--5721600	21	3.0	21	88	4	83	34	23	11	30	1.90
5722318--5722355	20	2.0	19	90	10	60	26	26	15	31	1.96
5722323--5722360	20	2.0	19	90	10	60	23	26	15	34	1.95
5725496--5725598	31	3.3	31	76	6	93	13	25	29	32	1.94
5730367--5730406	21	2.0	19	85	9	53	57	5	0	37	1.21
5736900--5736951	13	4.0	13	89	0	77	28	23	17	30	1.97
5736921--5737076	85	1.8	85	86	2	224	32	20	17	28	1.96
5737108--5737140	2	16.5	2	100	0	66	48	0	0	51	1.00
5746497--5746537	2	20.5	2	100	0	82	51	0	0	48	1.00
5753846--5753929	27	3.1	27	65	19	75	30	23	16	28	1.96
5753854--5753943	27	3.2	31	60	28	72	34	25	14	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5753787--5754208	54	7.8	54	89	0	592	30	20	18	30	1.96
5754188--5754347	56	2.9	56	88	1	223	34	13	19	33	1.90
5753739--5754286	162	3.4	161	81	5	550	31	18	18	31	1.95
5754444--5754501	29	2.0	29	86	0	80	37	18	25	17	1.93
5756632--5756903	54	5.0	54	84	2	341	35	22	17	25	1.95
5762680--5762754	21	3.7	21	73	10	84	32	12	21	34	1.90
5762705--5762768	18	3.4	18	75	12	74	29	12	23	34	1.92
5762681--5762768	39	2.3	39	91	0	149	30	12	22	34	1.91
5763193--5763502	162	1.9	162	89	3	482	34	20	17	27	1.95
5763193--5763502	54	5.7	54	86	1	424	34	20	17	27	1.95
5765863--5766215	175	2.0	175	98	1	690	38	9	13	39	1.77
5766383--5766421	20	2.0	20	89	0	60	28	12	17	41	1.87
5767207--5767256	2	25.0	2	100	0	100	50	0	0	50	1.00
5771396--5771452	30	2.0	28	89	6	87	63	3	5	28	1.33
5771650--5771854	87	2.3	86	84	9	256	24	19	29	26	1.98
5771733--5771855	45	2.9	42	73	11	115	24	18	30	26	1.98
5772919--5772957	20	2.0	20	85	10	53	10	17	0	71	1.12
5786276--5786336	3	21.0	3	77	12	65	67	1	3	27	1.16
5788128--5788184	15	3.7	15	77	13	55	68	0	1	29	1.00
5788154--5788189	18	1.9	19	94	5	65	75	0	0	25	0.81
5788151--5788217	15	4.6	15	71	14	52	71	0	4	23	1.04
5788970--5788997	12	2.3	12	100	0	56	53	7	0	39	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5788918--5789130	76	2.8	75	90	2	311	58	12	0	28	1.41
5789080--5789134	25	2.2	24	83	3	65	63	10	1	23	1.36
5790420--5790462	21	2.0	21	90	0	68	32	27	23	16	1.96
5790491--5790535	22	2.0	22	86	4	63	31	33	26	8	1.87
5791998--5792215	103	2.1	103	96	0	400	26	13	23	36	1.92
5792231--5792291	23	2.7	23	89	0	95	19	26	27	26	1.99
5792337--5792371	17	2.0	18	94	5	63	34	17	8	40	1.80
5795517--5795559	21	2.0	21	86	0	59	32	30	20	16	1.95
5795588--5795632	22	2.0	22	86	4	63	31	33	26	8	1.87
5795994--5796047	17	3.1	17	72	27	51	53	0	12	33	1.39
5797095--5797318	103	2.1	103	89	4	340	25	12	23	37	1.91
5797333--5797394	23	2.7	23	79	0	70	24	24	24	27	2.00
5797325--5797402	23	3.3	23	76	1	57	25	19	20	34	1.96
5799313--5799339	14	1.9	14	100	0	54	14	22	7	55	1.64
5806410--5806720	80	3.8	80	90	2	444	20	20	25	33	1.97
5808489--5808539	23	2.2	23	100	0	102	25	17	23	33	1.96
5809041--5809077	19	1.9	19	88	0	56	64	0	0	35	0.94
5809156--5809198	18	2.4	18	88	0	59	69	0	9	20	1.15
5809820--5809940	63	1.9	63	93	3	208	56	14	0	28	1.45
5814159--5814217	21	2.8	20	87	10	82	47	27	5	20	1.71
5816063--5816095	16	2.1	16	100	0	66	39	18	6	36	1.75
5821471--5821584	41	2.8	41	86	0	165	34	17	19	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5823629--5823684	21	2.7	21	97	0	103	39	19	26	14	1.90
5823673--5823786	20	5.7	20	84	6	122	31	25	19	23	1.98
5823670--5823786	61	1.9	61	87	0	171	33	24	18	23	1.97
5824284--5824350	19	3.5	19	85	2	89	47	25	16	10	1.78
5824360--5824447	33	2.6	33	90	1	131	13	23	23	38	1.91
5824416--5824472	20	2.8	20	79	10	62	14	22	19	43	1.86
5826457--5826579	42	2.9	42	80	2	122	23	36	17	22	1.94
5826513--5826579	21	3.2	21	66	6	55	25	35	19	19	1.95
5826684--5826743	20	2.9	21	72	5	59	20	16	20	43	1.88
5826729--5826821	41	2.3	41	96	0	132	18	23	17	40	1.90

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