genome.fa.s9634.2.7.7.80.10.50.1000.57.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   

This is table  57  of  78  ( 9351 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)
11363381--11363701	125	2.5	128	87	6	447	41	12	12	33	1.80
11363785--11363833	23	2.1	23	84	0	62	34	12	12	40	1.80
11369404--11369429	11	2.4	11	100	0	52	53	30	7	7	1.57
11384973--11385026	21	2.5	22	79	11	67	27	22	16	33	1.95
11387807--11387874	24	2.8	25	82	8	88	36	23	14	25	1.93
11401472--11401524	25	2.2	24	83	10	63	56	0	5	37	1.23
11401528--11401573	16	2.8	17	80	12	51	67	0	0	32	0.91
11401534--11401576	15	2.9	14	80	13	50	69	0	0	30	0.88
11402855--11402899	23	2.0	23	86	0	63	42	8	15	33	1.78
11402930--11402977	23	2.1	23	84	0	60	35	12	18	33	1.89
11402815--11402977	87	1.9	87	92	0	272	41	13	14	31	1.84
11403191--11403219	14	2.0	15	93	6	51	27	6	13	51	1.66
11402998--11403494	198	2.5	197	80	5	529	31	15	14	38	1.87
11404301--11404411	51	2.2	51	83	3	134	17	27	29	25	1.97
11404658--11404704	16	3.1	15	79	8	51	23	4	4	68	1.26
11407957--11408043	35	2.5	34	80	12	97	55	9	8	27	1.60
11408651--11408685	18	1.9	18	94	0	61	25	20	22	31	1.98
11410194--11410526	111	3.0	111	96	0	612	45	11	7	36	1.69
11411063--11411632	182	3.1	177	84	6	673	27	16	12	43	1.84
11412387--11412517	20	6.5	20	85	5	147	31	25	19	24	1.98
11412394--11412497	41	2.6	40	83	4	120	33	24	18	24	1.97
11412728--11412787	27	2.2	27	84	3	75	45	30	5	20	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11413076--11413117	19	2.2	19	86	0	57	50	28	16	4	1.66
11413118--11413258	19	7.8	19	75	17	131	12	21	18	47	1.81
11413118--11413181	33	1.9	34	93	3	112	10	20	17	51	1.75
11413118--11413253	52	2.6	52	88	2	191	11	22	19	47	1.81
11413169--11413233	33	2.0	33	93	0	112	10	24	23	41	1.86
11414710--11414840	63	2.1	63	100	0	262	20	18	37	23	1.94
11415413--11415615	42	4.8	42	79	2	185	23	35	17	23	1.95
11415549--11415615	21	3.2	21	66	6	55	23	35	20	19	1.95
11415410--11415585	84	2.1	84	94	0	316	22	36	16	24	1.94
11415410--11415615	84	2.5	84	89	1	279	22	35	17	23	1.95
11416972--11417007	14	2.6	14	95	0	63	30	0	25	44	1.54
11417122--11417203	33	2.5	33	93	0	137	45	20	21	12	1.84
11417114--11417174	19	3.5	19	70	21	60	45	21	21	11	1.82
11417132--11417188	14	3.7	14	70	20	51	45	22	22	8	1.80
11417203--11417329	33	3.9	32	84	8	175	14	21	19	44	1.87
11417199--11417329	19	7.7	19	63	23	76	14	21	19	44	1.86
11417196--11417328	66	2.0	66	94	0	230	16	21	19	42	1.89
11419612--11419636	12	2.1	12	100	0	50	0	28	0	72	0.86
11419811--11419864	24	2.2	24	90	0	81	40	20	16	22	1.91
11420852--11420941	20	4.6	20	88	1	128	33	28	22	15	1.95
11420967--11421031	19	3.7	19	86	13	95	13	21	18	46	1.84
11421159--11421195	14	2.6	14	86	0	56	48	21	0	29	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11423068--11423108	20	2.0	20	85	0	55	36	24	24	14	1.93
11423077--11423121	20	2.3	20	80	3	56	37	17	24	20	1.93
11423105--11423169	18	3.8	18	73	19	66	44	20	21	13	1.86
11423136--11423186	18	2.8	18	81	3	57	43	23	19	13	1.87
11423198--11423255	14	3.9	14	79	16	71	10	17	24	48	1.78
11423181--11423271	32	2.8	33	94	3	166	12	18	21	47	1.81
11423255--11423299	20	2.3	20	88	3	65	17	24	20	37	1.93
11423792--11423836	18	2.5	18	88	0	72	13	15	44	26	1.83
11425155--11425192	20	1.9	20	88	0	58	50	21	15	13	1.78
11425474--11425517	22	2.0	22	90	0	70	20	15	43	20	1.88
11425702--11425836	20	6.7	20	83	1	144	25	18	23	31	1.97
11425682--11425816	61	2.2	61	83	0	180	26	17	22	33	1.96
11425682--11425857	81	2.2	81	79	5	185	25	19	21	33	1.97
11429369--11429419	21	2.5	20	78	6	59	41	1	7	49	1.43
11430108--11430140	2	17.5	2	87	12	52	45	0	0	54	0.99
11431537--11431564	10	2.8	10	100	0	56	7	0	0	92	0.37
11431674--11431698	8	3.1	8	100	0	50	36	0	0	64	0.94
11433415--11433457	20	2.2	20	86	0	59	27	13	16	41	1.86
11433827--11433866	18	2.2	18	100	0	80	32	0	22	45	1.53
11436931--11436978	23	2.1	22	85	11	62	45	0	2	52	1.12
11437251--11437297	22	2.1	22	84	7	60	51	2	0	46	1.13
11437515--11437569	25	2.2	24	81	12	67	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11437596--11437633	19	2.0	20	89	5	60	50	0	0	50	1.00
11437592--11437645	25	2.2	24	83	12	65	53	0	0	46	1.00
11440823--11440863	21	2.0	21	85	0	55	21	17	34	26	1.95
11440953--11441009	20	2.8	21	81	5	80	22	15	21	40	1.91
11451302--11451376	21	3.7	19	75	8	60	32	16	28	24	1.96
11454030--11454073	19	2.2	20	84	4	54	52	6	15	25	1.68
11454576--11454600	10	2.5	10	100	0	50	24	0	52	24	1.48
11458844--11458875	13	2.3	15	89	10	50	31	31	9	28	1.88
11459888--11459916	8	3.6	8	100	0	58	10	41	0	48	1.37
11462917--11462946	10	3.1	10	95	4	53	0	26	20	53	1.46
11462948--11463009	32	1.9	33	83	3	81	20	27	27	24	1.99
11475546--11475636	25	3.6	25	72	15	80	27	1	34	37	1.64
11475549--11475670	50	2.4	51	83	1	147	27	2	35	35	1.70
11481866--11481915	24	2.1	24	88	7	75	26	2	14	58	1.47
11485131--11485173	14	3.0	15	83	10	54	16	0	6	76	0.99
11487501--11487550	24	2.1	24	88	7	75	26	2	14	58	1.47
11501318--11501352	18	1.9	18	100	0	70	34	25	22	17	1.96
11502571--11502616	20	2.3	20	84	0	56	52	2	2	43	1.25
11504486--11504513	2	14.0	2	100	0	56	50	0	0	50	1.00
11518014--11518126	59	1.9	60	85	8	160	38	18	12	30	1.88
11523645--11523693	21	2.3	21	100	0	98	24	24	18	32	1.97
11526089--11526136	2	24.0	2	100	0	96	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11526136--11526196	2	30.5	2	89	0	95	4	0	44	50	1.23
11533095--11533133	21	1.9	20	84	5	51	69	20	0	10	1.17
11544339--11544363	13	1.9	13	100	0	50	44	8	8	40	1.63
11556356--11556475	40	3.0	40	88	0	186	33	25	16	24	1.96
11566761--11566814	23	2.3	23	83	0	63	38	5	31	24	1.78
11570915--11570949	2	17.5	2	100	0	70	48	0	0	51	1.00
11572993--11573027	16	2.2	16	89	0	52	51	2	0	45	1.16
11586457--11586512	9	6.2	9	74	14	53	82	0	14	3	0.81
11586456--11586509	25	2.1	26	86	10	76	79	0	16	3	0.87
11586477--11586519	11	4.1	10	80	11	50	79	0	18	2	0.85
11586457--11586519	22	2.8	25	75	20	75	79	0	15	4	0.90
11587480--11587970	271	1.8	270	90	2	788	34	18	22	24	1.96
11587480--11587970	136	3.6	135	90	1	761	34	18	22	24	1.96
11593585--11593620	14	2.6	14	90	0	54	55	2	19	22	1.56
11595233--11595579	139	2.5	137	87	1	460	24	18	18	38	1.93
11596426--11597220	55	14.6	55	79	6	771	42	14	10	33	1.79
11596426--11597220	109	7.3	110	81	5	778	42	14	10	33	1.79
11602098--11602303	103	2.0	103	92	0	340	28	17	24	29	1.97
11611081--11611116	14	2.6	14	90	0	54	58	2	13	25	1.49
11611094--11611132	13	2.9	13	88	3	51	64	0	7	28	1.21
11624701--11624993	54	5.4	54	90	1	444	32	10	19	38	1.86
11630120--11630237	54	2.2	54	92	0	191	33	10	16	39	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11630380--11630405	11	2.4	11	100	0	52	34	0	7	57	1.27
11631882--11632148	43	6.3	43	81	6	204	29	20	22	27	1.98
11631889--11632148	85	3.0	85	80	3	247	28	20	23	27	1.99
11631932--11632148	43	5.1	42	83	3	265	27	20	23	28	1.99
11631926--11632148	85	2.6	84	83	3	268	28	20	23	27	1.99
11635337--11635423	42	2.1	42	86	0	120	33	12	22	31	1.92
11635473--11635620	40	3.7	40	77	3	118	31	18	18	30	1.96
11641344--11641450	3	36.3	3	87	10	159	67	0	0	31	0.97
11641634--11642102	131	3.6	131	81	4	482	24	18	32	24	1.97
11642376--11642475	38	2.6	38	92	3	157	31	13	12	44	1.79

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