genome.fa.s9462.2.7.7.80.10.50.1000.43.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  43  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)
9214309--9214437	55	2.3	57	88	6	210	38	19	5	36	1.75
9214658--9214695	20	1.9	20	88	0	58	42	10	18	28	1.83
9216174--9216243	21	3.2	21	64	25	54	21	22	10	45	1.81
9215989--9216291	45	6.7	45	91	0	455	21	20	11	45	1.83
9216672--9216855	96	1.9	96	85	2	253	24	24	13	37	1.92
9216664--9216868	96	2.1	96	80	5	252	25	22	14	37	1.93
9228546--9228713	45	3.7	45	92	0	273	22	20	11	44	1.84
9230545--9230630	32	2.7	32	83	0	109	40	12	13	32	1.83
9231991--9232045	21	2.6	21	97	0	101	29	16	23	30	1.96
9232134--9232188	20	2.7	21	83	10	62	38	16	23	21	1.93
9236070--9236205	66	2.1	66	95	0	245	35	16	16	31	1.91
9245059--9245099	19	2.0	20	81	13	57	31	14	12	41	1.83
9245064--9245106	19	2.3	19	87	0	59	37	16	11	34	1.85
9245318--9245546	44	5.2	44	81	10	238	45	19	4	30	1.69
9247351--9247389	20	2.0	20	100	0	78	12	10	30	46	1.75
9248537--9248569	15	2.3	14	94	5	57	33	21	15	30	1.94
9250506--9250536	14	2.2	14	94	0	53	32	0	22	45	1.53
9250560--9250603	14	3.1	14	77	6	52	18	0	34	47	1.49
9253846--9253870	10	2.5	10	100	0	50	48	12	32	8	1.69
9257345--9257404	29	2.1	29	96	0	111	25	28	28	18	1.98
9257498--9257576	32	2.5	32	93	0	140	27	26	35	10	1.89
9257563--9257657	29	3.3	29	95	0	163	13	30	32	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9257968--9258006	16	2.3	18	86	8	55	38	0	5	56	1.22
9258111--9258202	46	2.0	48	85	12	129	41	0	10	47	1.38
9258243--9258319	34	2.3	33	82	10	95	41	0	11	46	1.40
9258365--9258411	16	3.0	16	84	9	53	29	0	10	59	1.31
9258386--9258416	15	2.1	14	94	5	53	38	0	6	54	1.26
9260448--9260508	26	2.4	24	76	15	59	42	1	6	49	1.38
9260741--9260800	17	3.3	17	73	15	57	48	11	0	40	1.40
9261212--9261315	48	2.3	48	80	9	121	47	10	0	42	1.38
9261293--9261341	21	2.3	21	82	3	62	51	18	0	30	1.47
9261772--9261839	35	1.9	35	93	0	118	25	16	30	27	1.96
9261879--9261903	12	2.1	12	100	0	50	24	60	0	16	1.36
9261897--9261967	29	2.4	29	97	0	133	19	33	25	21	1.97
9262155--9262291	29	4.7	29	94	1	231	15	26	40	18	1.90
9265173--9265242	33	2.2	30	82	7	77	22	8	41	27	1.83
9268920--9268982	23	2.8	23	82	2	65	36	22	23	17	1.95
9268936--9268982	23	2.0	23	92	8	78	36	21	25	17	1.94
9272604--9272641	20	1.9	20	88	0	58	23	34	31	10	1.89
9273265--9273309	23	2.0	23	86	0	63	20	26	26	26	1.99
9279413--9279450	20	1.9	20	88	0	58	23	34	31	10	1.89
9282506--9282556	25	2.0	25	85	7	68	41	17	17	23	1.90
9282547--9282591	21	2.1	22	87	4	65	35	31	17	15	1.92
9282577--9282645	23	3.0	23	73	0	75	30	24	26	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9290053--9290101	12	4.3	12	75	12	50	0	6	10	83	0.80
9290047--9290102	10	5.5	10	75	12	51	0	5	14	80	0.88
9298747--9298792	19	2.4	19	88	0	65	19	34	15	30	1.93
9298783--9298868	22	3.8	22	87	3	109	17	25	24	32	1.97
9303675--9303723	13	3.5	13	74	15	53	16	22	24	36	1.94
9307228--9307256	5	6.0	5	92	8	51	41	0	0	58	0.98
9307896--9307938	16	2.7	16	85	7	52	30	16	6	46	1.73
9308075--9308113	15	2.7	14	84	15	53	53	0	2	43	1.14
9308169--9308213	23	2.0	23	90	0	72	46	2	4	46	1.35
9308718--9308744	4	6.8	4	100	0	54	25	0	0	74	0.83
9310055--9310098	22	2.0	22	86	8	63	54	0	2	43	1.12
9310061--9310111	22	2.3	23	81	15	56	54	1	1	41	1.22
9313307--9314340	138	7.5	136	90	1	1543	22	20	21	35	1.96
9314464--9314586	32	3.9	31	69	16	99	42	0	21	36	1.53
9314486--9314585	23	4.6	23	70	16	88	44	0	21	35	1.52
9314480--9314607	63	2.0	63	98	0	247	39	0	23	36	1.55
9314549--9314598	23	2.2	23	82	7	57	48	0	20	32	1.50
9314697--9314727	14	2.2	14	100	0	62	25	0	16	58	1.38
9314833--9314939	34	3.1	34	95	0	187	35	4	5	54	1.45
9314935--9314961	11	2.5	11	100	0	54	51	14	0	33	1.43
9318025--9318055	16	1.9	16	100	0	62	45	6	0	48	1.28
9318096--9318125	14	2.1	14	93	0	51	33	0	20	46	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9318155--9318215	2	32.0	2	83	9	83	45	0	3	50	1.17
9318482--9318734	20	12.5	20	73	7	134	39	24	17	18	1.92
9318543--9318754	41	5.2	41	91	1	329	37	25	17	18	1.93
9318543--9318756	20	10.6	20	78	6	225	37	25	18	18	1.93
9319314--9319392	20	3.9	21	83	5	85	53	17	17	11	1.73
9319374--9319438	14	4.3	14	73	17	58	46	21	23	9	1.80
9319369--9319449	33	2.5	33	93	0	135	46	22	20	9	1.80
9319445--9319656	19	12.1	19	68	20	113	13	22	19	43	1.86
9319445--9319561	52	2.2	52	90	0	189	12	21	19	46	1.83
9319519--9319607	14	5.6	14	70	23	61	11	23	23	41	1.86
9319501--9319656	33	4.5	33	87	6	195	12	23	21	42	1.87
9319559--9319647	20	4.8	20	67	27	79	15	23	21	39	1.92
9321352--9321728	94	4.1	94	94	3	629	22	12	18	46	1.82
9321352--9321728	185	2.0	185	92	3	623	22	12	18	46	1.82
9321791--9321857	20	3.3	20	93	0	107	20	19	22	37	1.95
9323801--9323836	14	2.6	14	90	0	54	30	0	22	47	1.52
9323938--9324033	33	2.9	34	87	3	131	40	20	25	13	1.89
9324042--9324129	19	4.8	19	77	16	105	14	22	18	44	1.86
9324042--9324142	52	1.9	53	93	2	177	13	23	18	43	1.86
9324134--9324218	20	4.2	20	81	14	104	20	20	23	36	1.95
9324042--9324162	52	2.3	52	87	8	174	14	23	19	42	1.87
9324288--9324499	81	2.6	82	89	2	320	18	16	25	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9324288--9324499	41	5.2	41	89	1	320	18	16	25	38	1.92
9324285--9324560	81	3.4	81	81	5	308	17	17	25	39	1.92
9324285--9324560	20	13.6	20	74	8	220	17	17	25	39	1.92
9324528--9324621	42	2.3	42	76	9	95	21	21	22	35	1.96
9324610--9324663	20	2.7	19	75	8	63	16	18	31	33	1.93
9324851--9324974	48	2.6	48	89	1	187	33	6	5	54	1.50
9324954--9325119	2	84.5	2	75	14	150	45	3	1	49	1.28
9324931--9325193	109	2.4	109	83	10	318	42	3	3	50	1.37
9325176--9325221	15	3.2	15	72	12	51	43	8	4	43	1.55
9325223--9325280	18	3.1	18	80	14	73	48	0	5	46	1.24
9325262--9325337	21	3.4	22	75	21	68	43	2	0	53	1.14
9325407--9325607	2	104.0	2	73	14	136	45	3	0	49	1.27
9325407--9325607	35	5.9	35	72	11	132	45	3	0	49	1.27
9325648--9325688	17	2.3	18	80	16	50	19	9	4	65	1.40
9329024--9329057	16	2.1	16	94	0	59	52	2	11	32	1.53
9331419--9331498	29	2.7	30	78	7	92	20	28	16	35	1.94
9340348--9340431	27	3.1	27	100	0	168	41	19	14	25	1.88
9340953--9340997	23	2.0	23	86	0	63	40	0	0	60	0.97
9341034--9341088	23	2.3	25	81	9	62	47	27	9	16	1.76
9341052--9341099	24	2.0	24	84	8	62	41	33	6	18	1.76
9341669--9341697	9	3.0	10	90	10	51	82	0	6	10	0.83
9341659--9341697	19	2.1	19	90	9	62	82	2	5	10	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9343696--9343735	15	2.5	17	84	16	66	47	5	20	27	1.70
9348393--9348417	10	2.5	10	100	0	50	72	20	8	0	1.10
9353555--9353612	21	2.7	22	73	19	59	24	31	20	24	1.98
9354046--9354076	15	2.1	15	93	0	53	54	0	0	45	0.99
9355930--9356119	93	2.0	94	88	2	283	44	19	18	17	1.87
9359480--9359518	18	2.0	20	85	9	55	35	0	7	56	1.28
9359756--9359794	20	2.0	20	89	0	60	15	35	28	20	1.93
9360597--9360646	20	2.5	20	96	0	91	20	28	26	26	1.99
9364128--9364182	28	1.9	28	81	3	65	25	27	10	36	1.89
9364601--9364667	14	4.6	14	78	9	62	5	59	1	32	1.31

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