genome.fa.s9639.2.7.7.80.10.50.1000.26.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  26  of  62  ( 7398 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)
5678130--5678233	51	2.0	51	100	0	208	25	19	20	35	1.95
5680527--5680952	36	11.5	35	80	12	419	44	3	5	45	1.46
5680526--5680952	73	5.7	72	86	8	540	44	3	5	45	1.46
5680438--5680952	36	13.6	39	79	12	360	44	4	6	45	1.48
5680961--5681027	22	3.2	20	82	17	84	19	1	0	79	0.82
5680962--5681026	8	7.4	9	73	26	52	20	1	0	78	0.83
5680968--5681025	20	2.8	20	87	10	73	20	1	0	77	0.86
5680961--5681027	28	2.4	27	80	20	84	19	1	0	79	0.82
5680975--5681025	4	12.8	4	76	15	52	21	1	0	76	0.88
5680963--5681028	18	3.9	17	78	18	75	19	1	0	78	0.82
5682359--5682421	23	2.7	23	73	4	65	20	1	4	73	1.11
5683503--5683536	17	1.9	18	88	5	52	5	11	8	73	1.24
5687625--5688397	84	9.3	82	74	5	637	29	25	19	24	1.99
5687626--5688369	164	4.5	163	83	4	642	30	25	19	24	1.98
5687625--5688204	248	2.3	248	85	2	772	29	25	20	24	1.99
5687594--5688397	413	1.9	412	87	1	1180	30	25	20	24	1.99
5689003--5689429	36	11.4	35	79	14	385	44	3	6	46	1.46
5688993--5689429	74	5.8	73	83	9	454	44	4	5	45	1.47
5689440--5689486	20	2.3	20	80	19	62	21	2	0	76	0.89
5689440--5689490	4	12.8	4	76	15	52	21	1	0	76	0.88
5689440--5689492	22	2.4	21	87	9	79	20	1	0	77	0.87
5689459--5689495	18	2.1	18	94	0	65	18	5	0	75	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5690202--5690415	36	5.7	37	80	11	206	43	2	7	46	1.45
5690208--5690415	71	2.8	73	82	13	214	43	2	6	47	1.44
5690432--5690482	4	12.8	4	80	12	52	19	1	0	78	0.85
5690426--5690485	24	2.6	22	80	12	50	18	1	0	80	0.80
5690426--5690487	18	3.7	18	83	12	78	17	3	0	79	0.87
5689242--5691206	992	2.0	988	94	1	2769	38	21	15	25	1.92
5691819--5691868	23	2.2	23	81	0	55	20	2	6	72	1.16
5691807--5691886	12	6.4	12	71	17	56	20	2	3	73	1.10
5702029--5702086	20	3.0	20	60	14	50	17	20	3	58	1.53
5702479--5702520	18	2.3	19	80	8	52	73	2	7	16	1.15
5702889--5702983	28	3.3	28	78	10	102	43	5	8	43	1.57
5705570--5706210	81	7.9	81	90	0	922	30	22	11	35	1.89
5705709--5705752	22	2.0	23	95	4	81	34	22	9	34	1.86
5706622--5706671	19	2.6	19	87	0	64	24	20	12	44	1.85
5712739--5713152	81	5.1	81	87	0	535	31	20	10	36	1.87
5715200--5715231	15	2.1	15	100	0	64	59	0	0	40	0.97
5715431--5715758	133	2.4	138	84	4	398	28	19	14	38	1.91
5715710--5716290	122	4.7	121	85	8	747	25	19	15	39	1.91
5716113--5716156	16	2.8	16	92	0	70	22	20	9	47	1.78
5715991--5716278	138	2.1	138	96	0	522	25	19	13	40	1.89
5716678--5716756	22	3.6	22	94	0	131	35	12	16	35	1.87
5717119--5717230	54	2.1	54	91	0	179	25	24	14	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5721984--5722015	15	2.1	15	100	0	64	50	6	18	25	1.70
5725903--5725954	22	2.3	23	83	6	63	36	0	3	59	1.16
5726060--5726097	14	2.8	14	88	4	51	73	0	0	26	0.83
5727448--5727538	3	31.0	3	80	8	107	60	0	1	38	1.04
5739077--5739206	66	2.0	66	86	3	181	20	21	20	36	1.95
5743336--5743442	31	3.3	31	72	19	110	21	21	20	36	1.95
5743315--5743444	66	2.0	66	93	0	224	20	21	20	36	1.95
5743463--5743546	31	2.7	31	78	10	100	10	28	32	28	1.90
5745037--5745442	138	2.9	138	81	4	447	26	14	27	31	1.95
5746008--5746241	66	3.5	68	83	5	264	37	12	18	31	1.89
5747483--5747599	45	2.6	45	95	1	209	31	22	6	39	1.80
5747672--5747752	40	2.0	40	83	4	101	22	22	24	30	1.99
5750656--5750684	2	15.0	2	92	7	51	48	0	0	51	1.00
5753674--5754071	81	4.9	81	87	3	532	36	11	21	29	1.89
5759493--5759525	16	2.1	16	88	11	50	51	3	9	36	1.49
5760846--5760971	61	2.1	61	87	0	180	32	20	16	30	1.95
5761711--5761796	32	2.7	32	83	1	111	32	8	19	39	1.81
5762218--5762336	42	2.8	42	84	5	177	18	17	15	47	1.82
5762398--5762435	14	2.7	14	100	0	76	18	23	13	44	1.85
5762528--5762592	32	2.1	33	83	11	84	46	0	0	53	1.00
5762539--5762588	21	2.3	21	83	10	57	48	0	0	52	1.00
5762550--5762617	28	2.2	31	82	15	79	42	1	1	54	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5762596--5762663	23	3.0	23	93	4	102	51	1	2	44	1.25
5762634--5762742	32	3.6	30	78	16	100	43	0	1	55	1.10
5762661--5762740	28	2.8	28	83	12	85	41	0	1	57	1.07
5762885--5762922	18	2.0	20	85	10	53	60	0	0	39	0.97
5763072--5763121	20	2.5	20	100	0	100	34	16	10	40	1.81
5763104--5763154	14	3.5	15	84	10	70	37	17	7	37	1.79
5765505--5765604	35	2.8	36	83	9	114	38	15	15	32	1.88
5766020--5766103	11	7.3	11	70	15	53	34	3	2	59	1.28
5766272--5766305	16	2.1	16	88	0	50	32	5	0	61	1.20
5766286--5766335	21	2.4	22	80	10	59	28	4	2	66	1.21
5771015--5771084	8	8.5	8	74	12	52	80	5	12	1	0.96
5771031--5771086	20	2.7	21	83	8	69	75	7	16	1	1.11
5771691--5771741	22	2.3	22	96	0	93	35	27	11	25	1.91
5772590--5772694	36	2.9	36	84	2	138	24	25	12	37	1.91
5772590--5772699	37	3.0	37	83	2	123	26	25	11	36	1.90
5772608--5773065	102	4.5	102	92	0	736	29	20	12	37	1.90
5772812--5773000	37	5.4	36	68	18	121	28	19	12	39	1.88
5772965--5773128	65	2.5	65	93	0	283	29	19	12	37	1.89
5772848--5773162	167	1.9	169	90	2	510	29	19	12	38	1.88
5773081--5773165	37	2.3	37	87	4	118	23	20	14	42	1.88
5773238--5773309	37	1.9	37	82	0	90	26	20	11	41	1.86
5773655--5774303	98	6.4	102	78	7	667	32	24	21	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5773668--5774258	203	2.9	203	92	2	955	32	24	21	20	1.97
5774767--5774835	35	1.9	37	91	5	115	42	14	15	27	1.86
5775538--5775571	16	2.1	16	88	0	50	32	5	0	61	1.20
5775552--5775602	21	2.4	22	80	9	61	27	3	1	66	1.20
5776601--5776648	16	3.0	16	96	0	87	12	25	4	58	1.52
5783560--5783608	10	4.9	10	83	11	57	81	0	18	0	0.69
5783564--5783605	6	7.5	6	79	15	54	80	0	19	0	0.70
5783559--5783605	16	2.9	16	96	3	85	80	0	19	0	0.70
5783862--5783895	16	2.2	16	94	5	61	44	5	2	47	1.42
5783826--5783892	17	3.9	17	79	9	57	41	4	5	47	1.48
5790606--5790674	12	5.3	12	74	16	57	31	2	8	56	1.45
5797612--5797659	20	2.5	20	86	10	64	22	27	16	33	1.96
5819006--5819128	52	2.4	52	94	0	219	28	13	31	26	1.94
5824128--5824157	8	3.8	8	100	0	60	90	10	0	0	0.47
5832436--5832609	89	2.0	88	93	2	294	37	11	5	45	1.64
5834166--5834289	64	1.9	64	81	3	151	29	16	20	33	1.95
5834535--5834574	19	2.0	20	85	9	55	25	37	0	37	1.56
5841812--5841838	7	3.9	7	100	0	54	25	0	29	44	1.54
5843390--5843526	59	2.3	59	84	2	195	28	17	24	29	1.97
5843698--5843817	60	2.0	60	100	0	240	35	10	6	48	1.63
5850589--5850725	59	2.3	59	81	2	177	29	18	24	28	1.98
5851315--5851356	22	1.9	22	90	0	66	26	35	19	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5852602--5852780	64	2.8	64	82	3	200	29	18	22	29	1.97
5854698--5854821	61	2.0	61	87	6	180	33	25	10	31	1.89
5855278--5855311	2	17.5	2	93	6	61	52	0	0	47	1.00
5870261--5870352	45	2.1	45	91	2	150	53	4	18	23	1.62
5872271--5872301	16	2.0	15	93	6	53	70	0	0	29	0.87
5884026--5884093	29	2.4	28	81	13	77	69	0	1	29	0.98
5884185--5884313	13	10.1	14	66	17	68	46	7	0	45	1.32
5884086--5884427	38	9.1	37	84	8	356	45	7	2	45	1.44
5888352--5888483	10	12.5	10	78	16	99	75	0	18	6	1.00
5888327--5888475	11	13.8	11	73	17	82	75	0	16	8	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   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62