genome.fa.s1465.2.7.7.80.10.50.1000.49.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  49  of  55  ( 6520 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)
9834958--9835058	29	3.7	27	72	13	89	39	1	1	56	1.22
9834958--9835061	26	3.8	27	74	11	86	39	1	1	56	1.21
9835328--9835381	27	2.0	27	92	7	92	62	3	3	29	1.29
9837435--9837491	3	19.0	3	96	0	105	31	0	0	68	0.90
9838786--9838823	3	12.7	3	100	0	76	34	0	0	65	0.93
9838873--9838912	20	2.0	20	85	9	55	30	7	2	60	1.38
9841244--9841303	31	1.9	31	86	6	86	40	8	26	25	1.84
9842400--9842437	20	1.9	20	88	0	58	23	18	13	44	1.85
9850747--9850797	2	25.5	2	95	0	93	49	0	0	50	1.00
9854492--9854852	43	8.4	43	78	8	351	25	24	17	32	1.97
9854482--9854826	86	4.0	86	83	5	387	25	24	18	32	1.97
9858386--9858427	2	21.0	2	85	0	57	0	7	47	45	1.30
9858794--9858870	38	2.0	38	100	0	154	36	27	12	23	1.91
9860814--9860857	21	2.2	20	83	4	52	36	13	2	47	1.56
9860955--9861009	22	2.3	25	81	12	71	56	0	3	40	1.17
9860959--9861014	24	2.4	24	85	5	71	55	0	3	41	1.17
9862000--9862059	27	2.2	28	84	6	86	55	0	10	35	1.34
9868763--9868805	16	2.7	16	85	0	59	41	13	16	27	1.86
9869994--9870380	203	1.9	203	92	1	650	32	19	12	36	1.89
9880841--9881095	62	4.1	62	93	2	404	43	16	0	38	1.54
9886847--9886917	16	4.4	16	90	0	106	18	25	14	42	1.87
9887103--9887132	9	3.3	9	100	0	60	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9887177--9887223	14	3.7	14	71	26	50	44	0	4	51	1.21
9887176--9887225	23	2.1	24	96	3	93	48	0	4	48	1.20
9887776--9887818	13	3.2	13	90	3	59	48	23	25	2	1.62
9890670--9890768	33	3.1	32	89	4	146	60	14	11	14	1.59
9890792--9890840	13	4.2	12	78	21	59	53	6	26	14	1.64
9891978--9892013	18	1.9	19	88	5	56	38	11	5	44	1.63
9892100--9892174	28	2.7	28	83	10	91	29	0	26	44	1.55
9892130--9892208	14	5.6	14	77	5	70	26	0	27	45	1.54
9892134--9892203	21	3.3	20	75	20	72	25	0	30	44	1.55
9892126--9892208	28	3.0	28	84	5	98	26	0	30	43	1.55
9892134--9892182	7	7.0	7	76	0	53	24	0	32	42	1.55
9892284--9892331	2	25.0	2	87	8	73	47	0	0	52	1.00
9892344--9892453	42	2.6	42	94	1	195	40	12	8	39	1.73
9892656--9893054	13	29.5	13	67	22	95	43	4	3	48	1.39
9892656--9892827	2	89.0	2	69	21	100	44	4	2	48	1.38
9892798--9893023	96	2.3	95	80	8	235	42	3	4	48	1.41
9892963--9893049	30	2.9	31	83	11	94	44	2	3	49	1.31
9893013--9893058	23	2.0	23	83	8	58	39	0	2	58	1.10
9896485--9896626	71	2.0	71	97	0	266	40	16	17	25	1.90
9907478--9907518	21	1.9	22	90	5	66	56	0	0	43	0.99
9907707--9907770	26	2.5	26	89	0	101	42	26	14	17	1.87
9908643--9908693	15	3.3	15	73	24	52	39	1	0	58	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9908647--9908707	24	2.5	24	75	17	63	37	1	0	60	1.07
9909473--9909521	18	2.9	18	74	25	61	55	0	2	42	1.11
9910373--9910410	18	2.1	18	95	0	67	31	0	0	68	0.90
9911397--9911542	21	7.0	21	80	7	165	20	19	26	32	1.97
9911555--9911626	21	3.4	21	76	14	85	37	23	19	19	1.94
9911549--9911645	42	2.3	42	98	0	185	35	25	18	20	1.95
9911549--9911645	21	4.7	19	71	16	77	35	25	18	20	1.95
9913044--9913141	2	50.0	2	91	4	164	48	2	0	48	1.12
9914905--9914930	6	4.3	6	100	0	52	50	0	0	50	1.00
9918214--9920937	105	26.0	105	95	0	4786	33	25	18	23	1.97
9921502--9921538	2	19.0	2	88	5	58	48	2	0	48	1.15
9929441--9929484	2	22.0	2	100	0	88	50	0	0	50	1.00
9930621--9930655	16	2.2	16	100	0	70	48	5	5	40	1.51
9931435--9931506	16	4.6	16	76	10	69	63	1	0	34	1.03
9931447--9931545	12	8.1	12	70	14	60	58	0	1	40	1.05
9931510--9931586	23	3.3	23	82	8	86	51	0	1	46	1.09
9931517--9931584	12	5.7	12	67	11	50	50	0	1	48	1.10
9935127--9935284	21	7.8	20	72	7	86	38	25	17	18	1.92
9935251--9935444	20	9.6	20	79	5	203	35	24	19	20	1.95
9935251--9935444	60	3.2	60	81	0	235	35	24	19	20	1.95
9935826--9935896	33	2.2	33	92	0	115	12	23	15	47	1.80
9935976--9936050	20	3.8	20	78	5	89	44	18	24	13	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9935976--9936046	19	3.6	19	77	7	79	43	19	23	12	1.86
9935969--9936073	39	2.9	36	80	14	108	44	20	23	10	1.83
9936090--9936179	14	5.7	14	72	23	72	10	24	23	42	1.84
9936074--9936187	33	3.5	33	91	1	194	10	22	21	45	1.82
9936069--9936185	14	7.1	18	66	26	71	11	23	21	44	1.84
9937867--9938338	93	5.1	93	98	0	912	22	12	19	45	1.83
9938382--9938510	19	7.3	19	74	17	116	44	28	17	9	1.79
9938418--9938510	33	2.8	32	88	4	141	45	27	18	8	1.78
9938382--9938510	52	2.5	52	73	14	131	44	28	17	9	1.79
9938506--9938624	19	6.8	19	76	18	114	11	19	21	47	1.81
9938509--9938603	33	2.9	33	90	0	154	13	20	20	46	1.84
9938577--9938640	19	3.3	19	86	6	85	10	15	26	46	1.79
9940562--9940597	14	2.6	14	95	0	63	33	0	22	44	1.53
9940704--9940801	19	5.4	19	82	13	134	45	16	22	15	1.84
9940704--9940820	53	2.2	53	96	1	218	44	17	23	14	1.85
9943131--9943155	12	2.1	12	100	0	50	0	28	0	72	0.86
9943329--9943375	24	2.0	24	87	8	69	38	21	14	25	1.92
9944075--9944265	99	1.9	98	84	6	251	20	19	25	34	1.96
9944056--9944304	20	12.5	20	85	2	259	19	18	24	37	1.94
9944291--9944373	21	4.0	21	73	6	78	25	16	24	33	1.96
9944271--9944369	42	2.4	43	77	11	100	21	18	23	37	1.94
9947262--9947350	29	3.1	29	85	0	124	17	40	28	13	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9947562--9947619	28	2.0	29	90	3	91	8	36	32	22	1.85
9947567--9947649	29	2.9	29	81	3	87	13	30	38	18	1.88
9963589--9963622	17	2.0	17	94	0	59	58	2	29	8	1.43
9965752--9965798	20	2.4	19	79	10	58	51	10	19	19	1.75
9965539--9966010	183	2.6	183	89	2	702	41	13	16	27	1.86
9966913--9966943	16	1.9	16	100	0	62	54	0	0	45	0.99
9980203--9980244	18	2.4	18	88	4	59	35	7	28	28	1.84
9980733--9980759	12	2.2	12	100	0	54	33	0	37	29	1.58
9981204--9981906	365	1.9	365	98	0	1370	36	16	15	31	1.90
9983392--9983427	18	1.9	19	94	5	65	22	5	0	72	1.05
9985382--9985503	3	40.0	3	85	3	154	37	0	2	59	1.11
9986985--9987019	18	1.9	18	88	0	52	48	2	2	45	1.32
9987799--9987842	17	2.7	15	86	10	52	27	0	0	72	0.85
9992456--9992491	16	2.2	17	90	5	56	83	0	13	2	0.76
9994769--9995143	185	2.0	185	90	2	592	28	13	22	35	1.92
9994769--9995143	92	4.1	92	92	1	579	28	13	22	35	1.92
9997644--9997698	22	2.5	22	93	0	101	34	10	14	40	1.81
9998372--9998868	76	6.6	76	96	1	878	21	21	21	35	1.96
9998372--9998868	151	3.3	152	96	1	887	21	21	21	35	1.96
9998802--9998915	45	2.5	45	95	2	201	22	23	21	32	1.98
9998847--9999197	76	4.7	76	93	4	608	21	21	21	34	1.97
9998372--9998884	227	2.3	228	93	2	743	21	22	21	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9998726--9998973	121	2.1	121	97	0	471	21	22	21	35	1.96
9998847--9999197	149	2.3	149	95	3	627	21	21	21	34	1.97
9999329--9999450	3	40.0	3	85	3	154	37	0	2	59	1.11
10001036--10001233	109	1.8	110	85	3	283	37	9	11	41	1.73
10002218--10002264	22	2.1	22	88	0	67	29	14	12	42	1.83
10006558--10006618	28	2.1	29	93	3	106	49	14	18	18	1.80
10015675--10015727	3	17.7	3	90	0	79	1	28	0	69	0.99
10018935--10018968	18	1.9	17	88	5	50	32	5	14	47	1.69
10020507--10020555	19	2.8	17	74	20	55	34	0	4	61	1.15
10020534--10020612	42	1.9	41	85	10	108	36	3	0	59	1.16

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