genome.fa.s7984.2.7.7.80.10.50.1000.47.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   

This is table  47  of  65  ( 7696 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)
9459446--9459488	21	2.0	21	100	0	86	62	13	0	23	1.31
9468945--9468994	19	2.5	19	81	12	57	72	2	2	24	1.06
9468947--9468987	10	4.2	10	78	15	50	68	2	2	26	1.15
9469165--9469199	10	3.7	9	88	11	52	82	0	5	11	0.82
9469167--9469204	18	2.1	18	85	9	51	81	0	5	13	0.85
9469138--9469236	47	2.1	46	80	12	105	71	2	4	22	1.13
9469224--9469302	39	2.1	38	88	9	117	67	2	5	25	1.24
9469402--9469435	15	2.2	16	89	5	52	73	0	0	26	0.83
9469400--9469433	14	2.5	14	90	4	52	76	0	0	23	0.79
9469856--9469957	34	2.9	36	88	11	165	27	14	14	43	1.85
9470505--9471029	105	5.0	104	88	4	720	21	17	26	34	1.96
9472853--9472907	22	2.5	22	93	0	92	23	9	27	40	1.85
9473533--9473581	21	2.3	21	83	16	66	0	16	6	77	0.96
9473526--9473589	15	3.8	15	73	25	56	0	15	6	78	0.95
9478124--9478174	26	1.9	26	84	4	66	72	7	7	11	1.28
9478160--9478211	19	2.6	19	82	11	61	73	1	1	23	1.04
9478356--9478442	46	2.0	43	80	15	97	70	1	4	24	1.13
9478547--9478611	25	2.6	25	82	7	69	61	0	3	35	1.12
9478635--9478668	15	2.2	16	89	5	52	73	0	0	26	0.83
9478578--9478671	14	6.6	14	71	10	66	69	1	4	25	1.13
9479054--9479188	37	3.8	35	83	4	137	32	11	10	45	1.75
9479090--9479185	34	2.7	35	88	4	131	32	10	10	46	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9479560--9479607	2	24.0	2	100	0	96	50	0	0	50	1.00
9480833--9480884	2	26.0	2	100	0	104	50	0	0	50	1.00
9482612--9482637	2	13.0	2	100	0	52	50	0	0	50	1.00
9483577--9483619	15	3.0	14	80	12	52	53	0	4	41	1.21
9484026--9484068	18	2.4	18	80	7	52	39	2	6	51	1.42
9485129--9485171	17	2.5	17	81	11	52	67	9	2	20	1.30
9486398--9486971	44	13.0	43	72	9	329	29	19	20	31	1.97
9486345--9486601	132	2.0	127	83	5	327	29	19	20	29	1.97
9486394--9486904	132	3.9	131	74	8	439	29	19	20	30	1.97
9486438--9486812	176	2.1	176	86	2	522	29	19	20	30	1.97
9487729--9487831	35	2.9	35	88	4	154	44	13	21	20	1.85
9487799--9487990	68	2.9	67	82	5	244	39	11	20	29	1.87
9487651--9488041	36	11.0	36	71	12	191	39	13	19	27	1.89
9487949--9488280	39	8.6	39	88	1	445	35	16	18	29	1.93
9487992--9488054	20	3.2	20	64	20	51	34	19	15	30	1.93
9488040--9488104	22	3.2	22	62	20	59	29	16	20	33	1.95
9494939--9495078	31	4.5	31	91	0	226	19	17	20	42	1.89
9494939--9495094	31	5.0	31	87	4	217	19	16	21	41	1.90
9497121--9497192	30	2.4	30	90	0	108	30	23	20	25	1.99
9497179--9497303	31	4.0	31	76	9	128	32	20	17	29	1.96
9498423--9498579	64	2.5	64	74	12	144	27	18	20	33	1.96
9503674--9503798	31	4.0	31	78	9	137	30	19	19	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9503785--9503856	30	2.4	30	88	0	99	26	19	23	30	1.98
9508196--9508356	44	3.7	44	89	0	223	27	16	23	32	1.96
9508405--9508489	44	1.9	44	73	0	71	27	20	22	30	1.98
9509132--9509318	36	5.4	36	77	8	172	40	13	20	26	1.89
9509203--9509396	66	2.9	67	83	6	223	38	13	19	28	1.90
9509345--9509567	39	5.7	39	93	0	383	36	15	17	29	1.91
9509572--9509733	76	2.1	76	83	6	195	43	14	12	29	1.82
9511895--9511931	13	2.6	15	79	16	51	45	8	29	16	1.76
9513535--9513584	10	4.6	11	76	14	50	56	0	4	40	1.18
9513538--9513581	22	2.0	23	86	4	63	56	0	4	38	1.20
9514881--9514914	16	2.1	17	88	5	52	44	0	2	52	1.16
9515611--9515640	10	3.0	10	95	0	51	40	3	0	56	1.16
9515609--9515646	13	2.9	14	84	7	53	36	2	0	60	1.11
9529987--9530248	141	1.9	141	89	1	409	26	29	19	25	1.98
9530475--9530517	6	7.2	6	91	0	68	20	0	0	79	0.74
9530483--9530541	3	19.0	3	75	6	55	28	1	0	69	0.98
9530507--9530544	13	2.9	14	84	7	53	36	2	0	60	1.11
9530509--9530538	10	3.0	10	95	0	51	40	3	0	56	1.16
9533301--9533374	38	1.9	38	94	0	130	33	5	21	39	1.76
9534035--9534483	229	2.0	227	95	1	801	45	7	7	39	1.61
9534549--9534594	20	2.3	19	89	10	74	54	10	17	17	1.70
9534716--9534763	20	2.4	20	80	13	62	52	8	16	22	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9537000--9537060	21	2.9	21	80	4	61	39	16	27	16	1.90
9537094--9537159	33	2.0	33	90	0	105	28	0	48	22	1.51
9538947--9538993	19	2.6	19	90	6	71	31	2	10	55	1.46
9539112--9540163	198	5.3	198	98	0	2036	36	17	16	29	1.91
9540676--9540747	3	24.0	3	78	0	72	34	5	34	25	1.79
9541946--9542823	365	2.4	365	94	2	1512	36	14	16	33	1.89
9541946--9542823	184	4.8	183	97	1	1514	36	14	16	33	1.89
9542819--9542861	22	1.9	23	90	4	70	30	11	13	44	1.80
9545983--9546045	23	2.7	23	90	0	90	36	7	17	38	1.79
9545983--9546055	23	3.2	23	86	3	85	34	6	19	39	1.78
9546413--9546476	23	2.8	23	87	0	92	35	6	20	37	1.78
9546413--9546485	23	3.2	23	82	7	85	34	5	20	39	1.76
9547052--9547088	18	2.1	18	89	0	56	32	5	10	51	1.60
9547044--9547090	24	2.0	24	86	0	67	34	4	14	46	1.64
9547346--9547432	39	2.2	39	95	0	156	48	20	13	17	1.81
9547835--9547898	23	2.8	23	87	0	92	35	6	20	37	1.78
9547835--9547907	23	3.2	23	82	7	85	34	5	20	39	1.76
9553534--9553603	28	2.5	29	86	4	90	28	7	7	57	1.52
9553548--9553603	29	2.0	29	89	3	87	30	8	8	51	1.64
9552939--9553760	411	2.0	409	91	2	1348	34	10	8	46	1.69
9553562--9553794	117	2.0	119	82	3	292	28	9	6	54	1.58
9554255--9554296	16	2.6	17	77	11	52	61	11	4	21	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9555100--9555157	3	19.3	3	96	0	107	36	0	0	63	0.94
9556802--9557043	43	5.7	43	85	1	308	32	20	22	23	1.98
9556802--9557043	85	2.8	85	86	1	324	32	20	22	23	1.98
9559912--9559973	24	2.6	24	94	0	106	40	14	17	27	1.89
9560287--9560340	28	1.9	28	81	7	65	42	9	18	29	1.81
9560585--9560613	15	1.9	15	100	0	58	20	0	17	62	1.33
9562406--9562476	38	2.0	34	84	13	90	33	9	42	14	1.78
9562605--9562642	14	2.7	14	95	0	67	36	5	7	50	1.54
9563686--9563825	42	3.4	42	72	7	142	34	20	16	28	1.94
9564308--9564333	11	2.4	11	100	0	52	46	0	7	46	1.31
9570358--9570445	35	2.5	34	90	9	133	44	7	3	44	1.50
9572427--9572528	40	2.6	40	83	13	140	41	0	9	48	1.43
9572426--9572524	41	2.4	42	86	9	143	42	1	9	47	1.42
9572535--9572759	35	6.5	34	79	15	171	46	4	5	43	1.47
9572642--9572699	26	2.2	27	87	3	82	43	1	6	48	1.40
9572669--9572772	37	2.8	37	91	5	174	48	2	4	44	1.39
9572429--9572786	36	9.9	36	74	14	233	44	3	7	45	1.47
9574868--9574927	28	2.2	28	81	3	68	41	11	15	31	1.82
9574883--9574941	28	2.1	28	83	0	82	42	15	16	25	1.88
9574891--9575059	64	2.6	64	75	10	182	41	13	15	29	1.85
9575025--9575093	35	2.0	35	94	2	122	34	13	11	40	1.80
9574974--9575155	96	1.9	100	87	4	273	41	13	10	34	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9575061--9575224	62	2.7	61	87	0	247	42	15	10	31	1.80
9575188--9575287	28	3.5	28	81	12	121	44	16	11	29	1.81
9575190--9575278	29	3.0	29	86	6	117	42	16	10	30	1.81
9574880--9575246	158	2.3	155	79	11	413	42	14	12	30	1.83
9575496--9575755	105	2.5	104	92	1	423	40	9	18	31	1.83
9575729--9575824	34	2.8	33	80	6	102	33	10	18	37	1.85
9576132--9576173	4	11.0	4	80	19	54	23	0	26	50	1.50
9577352--9577462	10	9.7	11	69	20	68	1	14	3	80	0.94
9577339--9577455	36	3.5	32	76	15	94	1	15	4	78	0.98
9577339--9577455	14	8.8	13	73	16	80	1	15	4	78	0.98

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