genome.fa.s1465.2.7.7.80.10.50.1000.45.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  45  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)
9077275--9077321	20	2.3	20	79	13	60	14	25	10	48	1.76
9079315--9079437	42	2.9	42	80	2	122	22	36	17	22	1.95
9079371--9079437	21	3.2	21	66	6	55	23	35	20	19	1.95
9080790--9080825	14	2.6	14	90	0	54	27	2	25	44	1.68
9081004--9081121	19	6.7	19	66	19	76	13	23	20	42	1.88
9081008--9081101	33	2.8	33	98	0	179	12	24	19	43	1.85
9083105--9083171	19	3.5	19	79	4	80	37	22	23	16	1.94
9083160--9083249	14	5.9	14	76	19	90	47	25	17	8	1.77
9083152--9083254	32	3.2	32	98	1	197	47	24	19	8	1.77
9083261--9083356	19	5.6	17	72	21	78	11	19	22	45	1.82
9083283--9083340	14	3.9	14	79	16	71	8	17	25	48	1.75
9083266--9083356	32	2.8	33	94	3	166	10	18	23	47	1.80
9083341--9083384	20	2.2	20	88	4	63	18	22	20	38	1.93
9083862--9083906	18	2.5	18	85	0	63	15	15	42	26	1.87
9085223--9085260	20	1.9	20	88	0	58	50	21	15	13	1.78
9085755--9085848	20	4.7	20	80	2	89	23	18	24	34	1.96
9085775--9085910	41	3.3	42	78	5	118	20	20	20	38	1.94
9085735--9085849	20	5.7	20	78	5	88	23	17	23	35	1.95
9085838--9085930	21	4.6	20	79	4	105	18	23	18	39	1.92
9085838--9085933	41	2.3	41	96	0	174	18	22	17	40	1.91
9086532--9086570	2	20.0	2	94	5	71	48	0	0	51	1.00
9090703--9090789	33	2.5	35	83	9	108	20	2	14	62	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9090708--9090795	34	2.6	33	85	7	106	19	1	15	63	1.37
9090786--9090870	35	2.5	33	76	14	82	27	7	10	55	1.60
9093823--9093853	16	1.9	16	93	0	53	64	0	3	32	1.09
9096545--9096579	2	17.5	2	100	0	70	48	0	0	51	1.00
9100956--9100987	15	2.0	17	88	11	50	46	0	15	37	1.46
9101879--9101929	26	2.0	26	84	0	66	43	9	13	33	1.77
9105239--9105268	3	10.0	3	100	0	60	66	0	0	33	0.92
9108675--9108709	18	1.9	18	88	11	54	40	8	11	40	1.72
9120996--9121035	16	2.5	16	100	0	80	50	0	40	10	1.36
9126188--9126281	29	3.2	28	72	14	82	51	2	17	29	1.57
9126146--9126290	60	2.4	60	75	11	143	46	3	19	31	1.66
9126406--9126443	2	20.0	2	84	10	53	50	0	0	50	1.00
9129167--9129207	12	3.2	13	89	6	57	75	2	7	14	1.12
9130685--9130723	18	2.2	18	90	0	60	51	2	0	46	1.14
9131448--9131701	111	2.3	108	81	8	293	23	16	22	37	1.94
9131498--9131702	111	1.8	111	90	0	329	22	17	22	38	1.93
9132814--9132860	8	6.3	7	80	20	51	0	14	2	82	0.75
9132809--9132857	9	5.4	9	82	7	55	0	16	2	81	0.78
9132906--9132936	1	31.0	1	93	0	53	3	0	0	96	0.21
9132898--9132943	10	4.2	11	86	11	51	2	8	0	89	0.57
9142974--9143014	12	3.2	13	89	6	57	75	2	7	14	1.12
9143326--9143378	3	18.7	3	80	18	51	69	1	3	24	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9144355--9144394	5	7.8	5	86	5	53	52	0	0	47	1.00
9145437--9145963	250	2.1	244	82	10	637	27	12	18	41	1.86
9148277--9148559	142	2.0	141	99	0	557	25	19	15	39	1.91
9151518--9151554	6	6.2	6	100	0	74	16	32	35	16	1.91
9153222--9153267	21	2.1	23	88	8	69	43	13	6	36	1.69
9153359--9153443	24	3.5	24	74	4	82	10	11	16	61	1.57
9156135--9156193	23	2.7	21	80	10	73	45	8	5	40	1.56
9157293--9157366	21	3.6	21	74	3	87	21	17	25	35	1.95
9157289--9157389	41	2.5	40	95	3	175	19	17	23	38	1.93
9157314--9157386	20	3.6	20	70	9	67	16	19	23	41	1.90
9157399--9157468	19	3.5	19	70	11	59	18	15	21	44	1.87
9157378--9157471	41	2.3	41	92	0	161	19	15	23	41	1.90
9158244--9158282	20	2.0	20	100	0	78	43	20	25	10	1.83
9158281--9158400	41	2.9	42	88	2	179	34	25	16	23	1.95
9158281--9158391	21	5.3	21	85	2	161	32	26	17	24	1.96
9159120--9159190	25	2.7	27	82	10	101	45	8	14	32	1.74
9159133--9159192	25	2.4	25	94	0	102	48	10	13	28	1.74
9170496--9170578	32	2.6	32	94	1	141	51	12	12	24	1.72
9172546--9172756	106	2.0	109	86	4	304	34	16	10	38	1.83
9173309--9173414	24	4.6	23	83	8	99	47	0	0	52	1.00
9173362--9173415	2	27.0	2	100	0	108	50	0	0	50	1.00
9175279--9175305	13	2.1	13	100	0	54	29	11	7	51	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9186022--9186064	13	3.5	12	81	12	52	79	0	13	6	0.93
9186045--9186147	18	6.4	15	74	19	68	75	0	21	2	0.93
9186036--9186089	12	4.6	12	74	19	51	79	0	12	7	0.92
9186001--9186089	24	3.6	25	76	14	78	75	1	15	7	1.09
9186045--9186119	18	4.1	19	76	22	70	76	0	21	2	0.92
9186048--9186123	22	3.4	22	75	20	61	76	0	21	2	0.91
9186048--9186147	32	2.9	33	78	11	105	76	0	21	3	0.93
9186091--9186146	22	2.6	22	78	10	53	73	0	25	1	0.93
9188089--9188553	90	5.2	90	91	0	750	25	17	21	35	1.95
9188601--9189007	36	11.0	36	82	6	334	26	19	15	38	1.92
9188679--9189007	39	8.7	39	86	3	351	26	20	15	37	1.92
9188648--9189007	108	3.2	111	84	5	377	26	19	16	37	1.93
9188645--9189075	36	11.8	36	79	9	313	26	19	16	37	1.93
9189480--9190704	134	9.2	133	89	1	1767	29	21	20	29	1.98
9189480--9190704	401	3.1	400	88	2	1856	29	21	20	29	1.98
9197903--9197933	14	2.2	14	94	0	53	51	3	12	32	1.56
9199443--9199473	5	6.2	5	100	0	62	77	0	0	22	0.77
9200200--9200982	137	5.8	136	85	4	985	23	15	26	34	1.95
9200200--9200982	271	2.9	269	85	4	988	23	15	26	34	1.95
9200806--9200911	40	2.6	40	78	4	113	20	16	29	33	1.94
9210110--9210199	43	2.1	43	89	0	135	31	7	25	35	1.84
9210665--9210748	42	2.0	42	86	4	116	48	14	17	19	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9216840--9217358	136	3.8	137	94	1	891	33	25	15	24	1.95
9218090--9218132	12	3.6	12	83	0	59	30	18	32	18	1.95
9222266--9222306	20	2.0	20	85	0	55	53	0	4	41	1.22
9224123--9224177	23	2.3	25	78	15	62	30	0	1	67	1.01
9224146--9224170	7	3.6	7	100	0	50	24	0	0	76	0.80
9227036--9227134	49	2.0	49	100	0	198	47	8	12	32	1.70
9228494--9228599	20	5.2	20	82	6	106	31	25	18	24	1.98
9229102--9229181	19	4.2	18	83	12	97	46	25	18	10	1.80
9229199--9229254	14	3.6	14	74	21	58	8	25	23	42	1.82
9229182--9229278	33	2.9	33	95	1	167	10	24	21	43	1.84
9229177--9229303	20	7.1	19	71	20	103	11	24	19	44	1.84
9230920--9231100	90	2.0	90	88	8	271	21	12	19	46	1.82
9232759--9232794	14	2.6	14	95	0	63	30	0	25	44	1.54
9232918--9232974	14	3.7	14	72	20	51	43	22	26	7	1.78
9232900--9232980	33	2.5	33	95	0	144	44	20	24	9	1.82
9232900--9232960	19	3.5	19	74	21	69	44	21	22	11	1.84
9232988--9233114	33	3.9	32	83	8	175	14	22	19	42	1.88
9232982--9233113	66	2.0	66	93	0	228	15	22	19	41	1.90
9235394--9235418	12	2.1	12	100	0	50	0	28	0	72	0.86
9235597--9235641	23	2.0	23	90	0	72	33	22	20	24	1.97
9236424--9236475	21	2.5	21	87	3	70	38	17	23	21	1.93
9236464--9236542	20	3.9	20	77	9	70	35	22	18	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9236502--9236551	20	2.5	20	71	12	57	38	20	18	24	1.93
9236765--9236811	20	2.3	20	92	0	76	36	27	21	14	1.93
9236765--9236852	20	4.4	20	74	5	70	39	23	19	17	1.92
9236902--9236946	19	2.4	19	100	0	90	15	20	15	48	1.80
9237083--9237119	14	2.6	14	86	0	56	48	21	0	29	1.50
9238556--9238615	21	2.9	20	73	11	59	20	13	45	21	1.85
9238984--9239048	20	3.3	20	80	2	78	40	21	23	15	1.91
9239021--9239105	14	5.0	19	67	26	73	48	18	18	14	1.81
9239037--9239127	14	5.9	14	72	20	74	49	23	16	10	1.77
9239021--9239132	33	3.4	33	95	1	190	48	21	17	12	1.80

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