genome.fa.s9462.2.7.7.80.10.50.1000.76.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  76  of  91  ( 10815 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)
17408694--17408754	21	2.8	21	80	14	70	0	19	4	75	0.98
17411728--17411780	4	13.2	4	82	11	65	69	1	1	26	1.09
17411718--17411806	44	2.0	46	91	4	146	71	2	2	23	1.08
17411773--17411813	16	2.5	17	84	11	50	80	2	2	14	0.92
17411711--17411812	44	2.3	43	86	8	143	72	1	2	22	1.08
17411851--17411909	11	4.9	12	71	20	52	79	1	1	16	0.89
17411851--17411911	19	3.3	19	75	9	63	80	1	1	16	0.88
17411754--17411943	95	1.9	98	92	7	325	63	8	5	22	1.42
17412995--17413046	3	16.3	3	88	4	59	69	0	0	30	0.89
17412995--17413046	24	2.2	24	89	6	79	69	0	0	30	0.89
17422838--17422907	30	2.3	30	95	0	122	30	21	27	21	1.98
17431306--17431377	31	2.3	31	87	0	99	33	1	6	58	1.33
17433863--17433917	3	18.7	3	82	17	71	36	0	0	63	0.95
17435474--17435498	2	12.5	2	100	0	50	48	0	0	52	1.00
17447203--17447259	9	6.7	9	82	9	57	84	0	8	7	0.79
17447204--17447244	9	4.8	9	90	3	59	87	0	2	9	0.62
17448701--17448757	26	2.1	28	84	12	75	38	0	0	61	0.96
17448707--17448751	22	2.1	22	88	8	67	37	0	0	62	0.96
17452014--17452078	31	2.1	32	85	8	89	32	15	18	33	1.92
17452226--17452449	51	4.4	51	78	4	245	32	6	10	51	1.61
17452128--17452448	153	2.1	153	86	1	446	31	7	10	50	1.64
17452227--17452500	51	5.4	51	77	10	199	30	7	11	50	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17452272--17452502	102	2.3	102	83	3	277	30	7	9	51	1.63
17452272--17452550	102	2.7	102	80	2	247	30	8	9	51	1.64
17452128--17452550	153	2.8	152	79	6	385	30	8	10	50	1.67
17457387--17457421	17	2.1	17	100	0	70	34	34	11	20	1.88
17459813--17459864	3	16.7	3	76	7	50	34	0	0	65	0.93
17459813--17459869	22	2.7	22	84	7	75	38	0	0	61	0.96
17462456--17462545	46	1.9	48	84	4	121	38	12	18	30	1.88
17462598--17462642	11	4.1	10	79	20	54	13	2	0	84	0.72
17462598--17462662	16	3.8	17	76	13	71	15	6	0	78	0.94
17462598--17462641	23	1.9	23	90	9	72	13	2	0	84	0.73
17462598--17462641	6	7.7	6	80	10	56	13	2	0	84	0.73
17463191--17463228	19	2.0	19	85	10	51	60	5	15	18	1.53
17467192--17467767	123	4.7	123	87	2	750	39	16	18	25	1.91
17467892--17467938	3	16.0	3	87	12	71	31	0	0	68	0.90
17469631--17469662	15	2.1	15	94	0	55	31	21	12	34	1.91
17474908--17474964	23	2.6	22	75	20	57	40	21	19	19	1.92
17481962--17482319	45	8.0	45	90	0	493	31	18	9	40	1.84
17482917--17482970	20	2.6	22	88	11	80	25	22	20	31	1.98
17482934--17482988	20	2.7	20	88	2	74	30	20	18	30	1.96
17484914--17484940	10	2.7	10	100	0	54	7	11	0	81	0.87
17487752--17487940	65	2.9	65	87	1	227	32	15	20	31	1.94
17488259--17488292	12	2.7	13	86	9	52	35	5	11	47	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17490003--17490038	12	2.9	12	87	4	54	47	5	11	36	1.63
17502356--17502718	45	8.0	45	89	1	494	31	18	9	40	1.83
17503220--17503276	22	2.8	20	80	15	62	26	24	17	31	1.97
17506733--17506896	65	2.5	65	85	2	204	35	14	20	29	1.91
17506881--17506918	20	1.9	20	88	0	58	31	21	21	26	1.98
17507215--17507248	12	2.7	13	86	9	52	35	5	11	47	1.65
17508972--17509007	12	2.9	12	87	4	54	47	5	11	36	1.63
17511150--17511220	26	2.7	26	82	0	88	16	29	21	32	1.95
17512045--17512109	26	2.3	29	84	10	91	61	10	16	10	1.56
17515463--17515528	26	2.5	26	95	0	114	18	33	19	28	1.95
17521325--17521469	62	2.3	63	87	7	204	33	14	21	30	1.93
17527198--17527583	45	8.6	45	92	0	547	30	18	9	40	1.83
17531368--17531428	29	2.1	29	96	0	113	29	19	18	32	1.95
17531372--17531436	29	2.2	29	91	0	103	33	16	13	35	1.89
17534018--17534043	13	2.0	13	100	0	52	46	7	7	38	1.61
17534540--17534791	130	1.9	130	88	0	378	32	15	17	34	1.91
17534730--17534785	29	1.9	29	82	13	71	35	16	8	39	1.80
17536420--17536445	9	2.9	9	100	0	52	34	0	30	34	1.58
17539573--17539617	23	2.0	23	86	8	65	46	4	4	44	1.43
17539605--17539663	23	2.7	22	82	10	59	45	0	0	54	0.99
17539640--17539673	16	2.0	18	88	11	54	47	0	0	52	1.00
17540397--17540496	29	3.4	29	95	0	173	53	21	14	12	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17542128--17542165	19	2.0	19	100	0	76	31	10	15	42	1.81
17543983--17544055	23	3.2	23	88	0	101	36	4	19	39	1.71
17544473--17544545	23	3.2	23	92	0	119	34	5	21	38	1.77
17544962--17545034	23	3.2	23	92	0	119	34	5	21	38	1.77
17543560--17547399	490	7.8	489	95	0	6627	40	7	10	40	1.69
17543560--17547399	979	3.9	979	94	1	6674	40	7	10	40	1.69
17545454--17545526	23	3.2	23	92	0	119	34	5	21	38	1.77
17545952--17546016	23	2.8	23	88	0	103	35	4	20	40	1.73
17545944--17546021	23	3.5	22	84	3	95	35	3	20	39	1.71
17546433--17546505	23	3.2	23	90	0	101	34	4	21	39	1.73
17546919--17546991	23	3.2	23	92	0	119	34	5	21	38	1.77
17551430--17551470	9	4.2	10	82	14	50	12	4	2	80	0.97
17554761--17554812	22	2.3	22	83	12	61	53	13	1	30	1.50
17555713--17555750	12	2.9	13	88	7	51	5	13	10	71	1.30
17562477--17562522	24	2.0	24	91	4	76	15	13	13	58	1.63
17562527--17562584	20	2.7	21	80	17	66	3	20	0	75	0.94
17562529--17562584	24	2.3	24	85	14	71	3	19	0	76	0.93
17562904--17562970	19	3.5	19	89	4	98	62	0	19	17	1.33
17562906--17562965	20	3.0	20	87	4	95	65	0	18	16	1.28
17563943--17564081	49	2.8	49	73	4	129	31	26	17	23	1.97
17564498--17564689	46	4.2	45	78	7	154	33	25	12	28	1.92
17564529--17564703	92	1.9	92	81	0	215	31	26	14	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17564570--17564688	46	2.6	45	87	2	175	28	27	15	27	1.97
17571717--17571770	19	2.7	19	81	18	65	37	16	16	29	1.91
17572130--17572491	55	6.6	55	88	1	532	35	11	17	35	1.86
17577687--17578010	55	5.9	55	90	0	479	34	10	18	36	1.85
17590375--17590426	26	2.0	27	88	7	81	17	1	40	40	1.60
17594631--17594667	19	1.9	19	100	0	74	32	5	27	35	1.79
17595050--17595121	25	2.9	24	87	6	99	8	26	0	65	1.21
17597644--17597687	16	2.6	18	79	17	58	45	13	0	40	1.44
17599711--17599900	65	3.0	63	77	11	190	27	18	23	30	1.98
17599711--17599870	65	2.5	65	83	7	193	28	18	23	30	1.98
17602563--17602643	23	3.6	22	75	8	83	27	24	23	24	2.00
17602566--17602662	44	2.2	44	83	3	115	28	20	23	26	1.99
17605761--17605789	14	2.1	14	100	0	58	27	6	20	44	1.77
17607978--17608136	65	2.5	65	82	7	191	28	17	22	30	1.97
17610683--17610737	27	2.0	28	89	3	85	36	3	20	40	1.70
17610830--17610892	25	2.7	22	72	13	56	25	11	9	53	1.66
17613129--17613333	82	2.5	82	88	0	320	34	17	21	26	1.96
17613156--17613295	41	3.4	40	72	12	140	35	16	22	26	1.95
17613362--17613520	81	2.0	80	86	7	223	33	15	20	30	1.93
17613362--17613520	41	3.9	41	87	5	227	33	15	20	30	1.93
17614489--17614522	17	2.0	17	94	0	59	23	50	11	14	1.76
17617149--17617199	21	2.4	21	80	0	66	47	19	31	1	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17617194--17617267	21	3.5	21	84	0	76	47	17	29	5	1.70
17617692--17617858	43	3.9	43	77	4	167	34	25	15	23	1.95
17617689--17617946	43	6.0	41	76	8	137	33	24	15	26	1.95
17617692--17617946	86	3.0	84	82	4	253	33	24	15	26	1.95
17618758--17618857	40	2.5	40	80	4	121	30	21	18	31	1.96
17624093--17625075	81	12.2	81	86	0	1288	33	11	23	31	1.90
17624093--17625075	323	3.0	324	88	1	1391	33	11	23	31	1.90
17631460--17631715	81	3.2	81	87	2	352	34	10	23	30	1.89
17634688--17634851	81	2.0	81	89	2	249	36	9	20	32	1.86
17635547--17635644	3	33.0	3	76	11	87	32	1	1	65	1.06

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   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91