genome.fa.s8620.2.7.7.80.10.50.1000.28.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   63   64   

This is table  28  of  64  ( 7674 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)
5578833--5578935	24	4.3	25	77	11	90	48	17	15	18	1.81
5582186--5582249	22	3.0	22	76	4	76	18	39	28	14	1.90
5582598--5582667	34	2.1	32	86	5	95	31	15	30	22	1.95
5583926--5584043	42	2.8	42	82	6	157	21	20	20	38	1.94
5585352--5585622	30	9.1	30	77	8	241	37	8	0	53	1.37
5585352--5585622	117	2.3	120	79	10	306	37	8	0	53	1.37
5585355--5585692	147	2.4	145	79	9	336	37	7	1	54	1.36
5585674--5585715	22	1.9	22	85	9	59	50	0	4	45	1.23
5587146--5587178	17	1.9	17	93	0	57	42	33	3	21	1.68
5594386--5594443	21	2.8	21	91	0	89	36	12	17	34	1.87
5594969--5595138	81	2.1	82	88	3	254	37	11	22	28	1.89
5595129--5595327	46	4.3	46	92	0	344	40	11	25	23	1.87
5606045--5606105	29	2.1	29	100	0	122	40	3	49	6	1.45
5606186--5606242	29	1.9	30	86	10	82	38	0	0	61	0.96
5610209--5610242	17	2.1	16	88	5	50	76	0	8	14	1.01
5610710--5610759	24	2.1	24	85	7	66	60	12	2	26	1.43
5617097--5617161	24	2.7	24	81	9	78	10	12	20	56	1.65
5617112--5617183	34	2.1	34	84	0	90	13	13	16	55	1.69
5617360--5617462	23	4.4	23	78	8	109	12	11	16	59	1.61
5617393--5617466	38	1.9	38	89	5	114	13	12	14	59	1.61
5618706--5618850	74	2.0	74	91	0	236	42	13	7	36	1.72
5620753--5620816	30	2.1	30	88	5	94	39	15	4	40	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5623208--5623250	17	2.5	18	85	7	63	27	0	0	72	0.85
5623209--5623272	3	22.0	3	76	17	64	34	1	0	64	1.03
5623210--5623272	24	2.7	24	87	4	85	34	1	0	63	1.04
5635652--5635943	158	1.8	158	97	0	548	47	17	10	23	1.79
5637618--5638519	53	16.9	53	86	1	1194	21	25	20	32	1.98
5637618--5638519	107	8.5	106	87	1	1212	21	25	20	32	1.98
5637618--5638519	160	5.6	160	86	1	1207	21	25	20	32	1.98
5639822--5639862	20	2.2	20	83	12	52	9	19	0	70	1.14
5639836--5639873	20	1.9	19	89	5	58	10	23	0	65	1.23
5639901--5639962	21	2.9	22	81	11	74	8	20	0	70	1.12
5639830--5639963	21	6.3	21	66	22	66	11	19	0	69	1.18
5639908--5639963	22	2.5	23	82	8	71	8	19	0	71	1.12
5639931--5639974	16	2.8	15	78	21	54	6	15	0	77	0.97
5643357--5643400	12	3.8	12	85	11	65	50	13	0	36	1.42
5643360--5643396	10	3.7	10	96	0	65	51	13	0	35	1.41
5648095--5648133	2	19.5	2	94	0	69	48	0	2	48	1.15
5649263--5649303	21	1.9	22	85	14	59	29	14	4	51	1.63
5650165--5650229	31	2.1	31	100	0	130	24	20	9	46	1.79
5650656--5651112	123	3.7	123	85	1	639	39	16	19	24	1.92
5651025--5651373	140	2.5	136	84	5	425	40	14	19	26	1.90
5651436--5651501	20	3.3	20	70	8	62	43	9	22	24	1.82
5651631--5651699	3	24.3	3	75	19	60	31	1	0	66	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5651629--5651676	16	3.0	17	77	22	59	25	0	0	75	0.81
5651629--5651673	14	3.1	14	79	17	56	24	0	0	75	0.80
5656875--5656969	2	49.5	2	74	19	87	48	3	2	46	1.30
5656874--5656968	29	3.2	29	83	7	104	47	4	2	46	1.33
5657025--5657059	6	5.8	6	86	0	52	48	14	0	37	1.44
5658654--5658699	22	2.1	22	100	0	92	19	17	21	41	1.90
5658884--5658955	18	3.8	18	73	10	54	50	0	9	40	1.36
5658912--5658951	14	2.8	15	88	7	57	55	0	7	37	1.29
5658911--5658970	22	2.7	22	80	10	61	58	0	5	36	1.20
5658909--5658989	36	2.2	37	84	8	103	55	0	7	37	1.28
5658999--5659061	23	2.7	24	85	7	85	39	12	6	41	1.69
5659049--5659087	12	3.2	12	92	3	60	43	7	7	41	1.62
5659272--5659316	23	1.9	23	86	13	65	44	0	2	53	1.13
5659279--5659328	23	2.2	23	82	7	57	46	0	2	52	1.12
5660063--5660186	64	1.9	64	86	3	178	22	18	24	34	1.96
5661558--5661612	22	2.5	22	96	0	101	41	30	5	21	1.76
5664031--5664079	16	3.1	16	91	5	73	16	12	22	48	1.79
5664379--5664422	16	2.8	16	83	10	54	50	11	13	25	1.75
5665449--5665488	20	2.0	20	100	0	80	30	55	5	10	1.54
5666225--5666285	30	2.0	30	93	0	104	19	6	19	54	1.66
5671747--5671834	24	3.7	24	86	6	124	26	14	20	38	1.91
5671759--5671797	12	3.2	12	79	13	53	28	12	23	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5673089--5673145	30	1.9	30	92	0	96	19	3	24	52	1.61
5675073--5675169	32	3.0	32	73	11	92	44	15	12	27	1.82
5675189--5675275	28	3.0	28	72	13	77	36	21	14	26	1.93
5675996--5676033	16	2.4	16	79	16	51	76	0	7	15	1.01
5676049--5676108	30	2.1	29	84	6	77	71	0	6	21	1.08
5677227--5677265	17	2.3	16	83	12	51	71	2	0	25	0.98
5677872--5678780	106	8.6	106	94	0	1469	22	18	25	33	1.97
5682644--5682681	16	2.4	16	79	16	51	76	0	7	15	1.01
5682697--5682756	30	2.1	29	84	6	77	71	0	6	21	1.08
5683874--5683912	17	2.3	16	83	12	51	71	2	0	25	0.98
5684518--5685425	106	8.6	106	94	0	1487	23	18	25	33	1.97
5689287--5689324	16	2.4	16	79	16	51	76	0	7	15	1.01
5690515--5690548	3	11.3	3	87	12	52	67	0	0	32	0.91
5691858--5691909	20	2.6	20	90	0	77	32	21	5	40	1.77
5692332--5692446	42	2.7	42	98	0	221	16	19	20	44	1.87
5692620--5692739	55	2.2	53	81	11	129	49	0	0	49	1.12
5692635--5692684	21	2.3	21	83	10	57	48	0	0	52	1.00
5692639--5692741	23	4.1	24	70	21	52	46	0	0	51	1.14
5692646--5692725	32	2.5	32	80	12	92	47	1	0	51	1.08
5692709--5692814	29	3.6	30	76	17	89	43	1	1	52	1.23
5692756--5692812	28	2.0	28	86	3	78	42	3	1	52	1.28
5692981--5693050	20	3.5	20	90	0	113	35	11	10	42	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5692981--5693059	40	2.0	40	84	0	104	35	12	8	43	1.74
5693043--5693112	15	4.7	15	75	1	70	35	15	7	41	1.75
5693034--5693114	30	2.7	30	82	1	83	35	13	6	44	1.69
5693486--5693514	9	3.2	9	100	0	58	79	10	0	10	0.94
5694705--5694748	20	2.3	19	81	11	54	36	0	0	63	0.95
5694813--5694847	18	1.9	18	88	0	52	11	45	11	31	1.76
5695692--5697507	200	9.1	200	88	2	2705	39	14	14	31	1.87
5695692--5697510	401	4.5	401	93	0	3091	39	14	14	31	1.87
5697815--5697909	15	6.1	15	85	6	127	27	38	5	28	1.78
5697815--5697890	30	2.5	30	97	0	143	26	36	6	30	1.82
5702071--5703210	199	5.7	199	90	1	1667	38	14	14	32	1.87
5702071--5703210	399	2.9	398	89	1	1694	38	14	14	32	1.87
5703174--5703216	22	2.0	22	86	4	61	27	9	9	53	1.63
5706261--5706953	200	3.5	199	86	2	937	39	15	15	30	1.88
5706978--5707039	23	2.7	23	94	0	115	32	22	12	32	1.92
5706988--5707163	87	2.0	87	92	0	289	32	15	11	40	1.83
5707084--5707135	23	2.3	23	86	0	77	38	15	7	38	1.76
5707270--5707298	3	9.7	3	100	0	58	68	0	0	31	0.89
5708774--5708842	26	2.6	26	81	6	77	21	15	1	60	1.43
5708793--5708850	26	2.2	26	81	9	64	22	15	0	62	1.33
5708832--5708864	17	2.0	17	88	5	50	21	21	0	57	1.41
5711484--5711528	21	2.1	22	87	4	65	51	4	17	26	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5716414--5716458	21	2.1	22	87	4	65	51	4	17	26	1.65
5717337--5717391	23	2.6	20	80	8	56	21	12	29	36	1.91
5720514--5720557	20	2.2	19	84	8	52	36	9	4	50	1.55
5720844--5720877	3	11.3	3	100	0	68	32	0	0	67	0.91
5723122--5723483	131	2.8	129	79	5	354	32	10	16	41	1.82
5732858--5732889	2	17.0	2	87	12	50	46	0	0	53	1.00
5745968--5746023	10	5.8	9	76	15	58	78	0	19	1	0.84
5745973--5746042	6	12.0	6	76	19	51	77	4	17	1	1.01
5745968--5746047	18	4.2	18	79	14	81	77	3	17	1	0.98
5745968--5746048	19	4.2	19	78	10	76	77	3	17	1	0.97

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   63   64