genome.fa.s8620.2.7.7.80.10.50.1000.29.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   

This is table  29  of  64  ( 7674 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)
5746587--5746704	46	2.7	43	77	7	112	28	10	22	38	1.87
5747655--5747713	16	3.8	16	75	8	59	40	6	11	40	1.68
5749103--5749161	30	2.0	29	83	12	75	40	6	11	40	1.68
5750506--5750592	15	5.7	15	69	17	63	44	6	9	39	1.63
5751960--5752074	46	2.5	46	98	0	221	46	6	7	40	1.58
5752063--5752121	16	3.8	16	75	8	59	40	6	11	40	1.68
5752052--5752152	15	6.4	15	73	13	51	45	7	6	39	1.60
5757173--5757250	28	2.8	28	96	0	138	28	19	19	33	1.96
5771837--5772155	159	2.0	160	99	0	631	23	20	27	28	1.99
5777296--5777363	21	3.2	21	80	0	82	23	20	19	36	1.95
5782508--5782611	52	2.0	52	100	0	208	36	21	15	26	1.93
5785547--5785703	80	2.0	80	96	2	289	42	12	16	28	1.84
5787469--5787504	18	2.0	18	88	0	54	25	13	0	61	1.33
5792606--5792642	18	2.0	19	94	5	67	48	10	5	35	1.61
5795125--5795167	18	2.4	18	96	0	77	34	4	9	51	1.55
5800192--5802049	932	2.0	916	97	1	3473	33	21	17	27	1.96
5811304--5811421	29	3.9	29	76	15	87	73	0	16	8	1.12
5811322--5811388	16	4.4	15	80	14	75	77	1	13	7	1.04
5811335--5811381	8	5.9	8	84	0	67	78	2	12	6	1.02
5811337--5811388	16	3.2	16	86	2	77	78	1	13	5	1.01
5813703--5813786	44	1.9	44	90	4	134	29	20	15	34	1.93
5813837--5813942	44	2.4	44	77	0	113	31	20	19	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5813749--5814262	131	3.9	132	80	8	444	30	19	17	31	1.95
5814498--5814557	9	6.8	9	81	7	52	76	0	13	10	1.01
5814499--5814588	36	2.5	36	85	5	112	74	0	13	12	1.08
5814527--5814585	27	2.2	27	78	6	66	76	0	13	10	1.02
5814967--5815230	136	1.9	136	90	3	415	36	20	7	35	1.82
5827887--5827921	3	11.7	3	93	0	61	0	0	28	71	0.86
5827923--5827948	3	8.7	3	100	0	52	30	0	0	69	0.89
5829495--5829927	216	2.0	217	99	0	859	29	20	17	32	1.96
5838235--5838448	107	2.0	107	100	0	428	19	28	12	39	1.88
5841053--5841380	45	7.3	45	91	0	503	21	23	12	42	1.87
5847891--5848081	45	4.2	45	91	0	301	19	22	13	45	1.85
5848451--5848652	95	2.1	95	82	5	239	23	21	14	40	1.91
5854315--5854396	43	1.9	43	94	0	146	54	13	6	25	1.61
5854709--5854955	123	2.0	123	100	0	494	34	14	9	40	1.79
5855884--5855947	25	2.6	24	87	2	92	46	12	3	37	1.57
5856248--5856309	24	2.6	24	92	0	106	33	4	12	48	1.63
5856403--5856435	14	2.3	15	89	5	50	30	0	0	69	0.88
5856432--5856512	36	2.2	36	100	0	162	20	11	20	46	1.81
5860823--5861243	217	2.0	214	84	4	551	34	13	16	35	1.88
5861243--5861268	2	13.0	2	100	0	52	50	0	0	50	1.00
5861807--5861832	11	2.4	11	100	0	52	50	0	0	50	1.00
5861938--5861963	11	2.4	11	100	0	52	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)
5861996--5862035	11	3.6	11	100	0	80	17	27	10	45	1.80
5863965--5864019	28	2.0	28	92	0	92	52	10	20	16	1.73
5865374--5865451	40	2.0	40	89	0	120	35	3	7	52	1.48
5865594--5865676	43	1.9	43	85	0	112	37	19	18	25	1.94
5865672--5865701	15	2.0	15	100	0	60	53	6	13	26	1.64
5866187--5866227	18	2.2	19	87	12	59	39	0	2	58	1.11
5866327--5866355	11	2.5	12	88	11	51	48	0	6	44	1.29
5867903--5867940	2	19.0	2	100	0	76	0	50	0	50	1.00
5867935--5868013	39	2.0	39	95	0	140	25	27	6	40	1.80
5872961--5872985	3	8.3	3	100	0	50	0	0	32	68	0.90
5875252--5875285	18	1.9	17	88	5	50	23	23	23	29	1.99
5875652--5875699	23	2.1	23	88	0	69	35	8	16	39	1.79
5876339--5876793	182	2.5	181	90	2	689	27	15	12	43	1.83
5876665--5877126	112	4.1	112	92	1	759	26	15	13	45	1.82
5877769--5877863	30	3.1	32	85	10	128	36	38	4	20	1.72
5879543--5879600	20	2.8	20	82	12	64	24	32	20	22	1.98
5880947--5880994	19	2.5	20	86	3	71	54	6	10	29	1.59
5881769--5881806	20	1.9	20	94	0	67	42	7	10	39	1.69
5882132--5882171	21	1.9	21	89	0	62	30	10	10	50	1.69
5882393--5882490	21	4.7	21	89	2	153	22	37	19	20	1.94
5882510--5882562	20	2.7	20	90	0	79	16	26	24	32	1.97
5884755--5884792	3	12.7	3	88	0	58	2	31	28	36	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5886640--5886686	16	3.1	15	79	14	51	65	2	0	31	1.04
5886650--5886703	27	2.0	28	82	10	67	66	1	1	29	1.12
5886821--5886864	19	2.2	20	84	11	56	70	2	0	27	0.99
5886979--5887018	21	1.9	21	94	0	71	25	2	52	20	1.59
5888698--5888748	4	12.8	4	80	15	61	27	1	19	50	1.58
5888688--5888748	32	1.9	32	100	0	122	27	3	18	50	1.62
5893086--5893131	24	1.9	24	86	8	67	45	8	2	43	1.47
5893085--5893139	24	2.4	22	77	16	58	49	7	1	41	1.41
5895672--5895823	53	2.9	53	90	2	216	21	24	19	34	1.96
5896242--5896663	42	9.6	42	70	13	244	30	21	19	28	1.98
5896301--5896653	135	2.6	135	90	0	589	29	20	18	30	1.97
5896508--5896532	13	1.9	13	100	0	50	24	20	24	32	1.98
5903511--5903616	45	2.2	47	81	11	144	33	19	11	34	1.88
5911318--5911370	2	27.0	2	96	3	99	49	0	0	50	1.00
5912499--5912631	30	4.6	29	78	10	128	34	8	2	54	1.43
5912791--5912826	2	18.0	2	100	0	72	50	0	0	50	1.00
5912874--5913006	32	4.3	30	75	13	110	57	0	7	34	1.32
5912874--5913006	61	2.1	61	82	10	155	57	0	7	34	1.32
5912962--5913035	30	2.5	31	89	6	109	60	1	8	29	1.33
5924323--5924365	18	2.4	18	88	0	59	18	6	2	72	1.19
5924412--5924516	24	4.4	23	68	20	56	18	5	1	74	1.11
5932883--5932997	39	2.9	40	83	13	150	26	5	25	43	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5940894--5940999	39	2.7	40	86	5	155	27	4	25	42	1.75
5942711--5942802	45	2.0	45	100	0	184	36	9	15	38	1.80
5945200--5945247	14	3.3	14	76	18	53	83	2	6	8	0.88
5945200--5945251	11	4.0	13	74	18	54	80	1	7	9	0.97
5947301--5947335	7	5.0	7	100	0	70	57	0	0	42	0.99
5947295--5947335	21	1.9	21	90	5	64	58	2	0	39	1.11
5949198--5949339	65	2.2	64	86	6	189	31	23	17	27	1.97
5955150--5955244	44	2.2	44	85	7	124	27	25	22	25	2.00
5955169--5955247	21	3.6	22	82	5	106	25	24	25	25	2.00
5956799--5956842	21	2.1	21	82	0	52	11	38	13	36	1.81
5957935--5958094	65	2.5	64	83	9	186	30	24	18	26	1.98
5960018--5960048	2	15.5	2	100	0	62	48	0	0	51	1.00
5960667--5960816	21	7.2	21	74	14	150	17	18	26	38	1.92
5960667--5960843	41	4.3	40	83	8	221	16	18	25	39	1.91
5961683--5961718	6	6.5	6	90	9	51	0	16	52	30	1.44
5961683--5961718	10	3.2	12	85	14	51	0	16	52	30	1.44
5961804--5961958	20	7.6	20	65	12	91	40	24	20	14	1.90
5961824--5961894	21	3.4	21	69	18	67	39	25	18	16	1.91
5961908--5961977	21	3.4	21	72	4	79	34	28	17	20	1.95
5961801--5961955	82	1.9	82	89	5	242	40	24	19	15	1.90
5961800--5961983	41	4.5	40	88	3	219	40	24	18	16	1.91
5975768--5975798	2	16.0	2	93	6	55	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5976818--5976857	17	2.3	17	86	4	53	60	0	0	40	0.97
5976887--5976969	41	2.0	41	97	0	157	27	34	14	22	1.93
5977199--5977236	14	2.7	14	88	12	60	47	0	0	52	1.00
5982789--5982963	41	4.3	39	69	11	127	26	19	20	33	1.96
5989772--5989804	14	2.4	14	90	10	50	15	12	9	63	1.51
5993169--5993250	41	2.0	42	83	11	107	76	1	18	3	0.99
5993177--5993251	32	2.2	33	84	15	93	77	1	17	4	0.99
5993177--5993251	35	2.2	33	82	15	84	77	1	17	4	0.99
5993275--5993300	13	2.0	13	100	0	52	76	0	7	15	0.99
5995292--5995562	91	3.0	91	85	1	364	38	16	19	25	1.92

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