genome.fa.s8242.2.7.7.80.10.50.1000.57.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   

This is table  57  of  73  ( 8740 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)
13362279--13362329	15	3.3	15	71	15	50	52	3	3	39	1.38
13362318--13362400	36	2.3	36	89	0	130	45	9	7	37	1.65
13362440--13362508	31	2.2	31	92	0	120	43	11	5	39	1.65
13362455--13362505	16	3.2	16	68	15	52	39	13	7	39	1.74
13362544--13362578	15	2.2	16	90	5	54	40	2	8	48	1.49
13362527--13362589	22	3.1	19	77	18	65	39	6	6	47	1.54
13362551--13362594	20	2.2	20	88	4	63	40	9	4	45	1.56
13362580--13362653	37	2.1	36	84	5	96	39	10	9	40	1.73
13362787--13362968	2	90.5	2	65	19	67	46	4	2	46	1.37
13362648--13362861	108	1.9	106	80	14	238	42	5	7	45	1.54
13362787--13362932	58	2.6	56	80	13	142	47	4	2	45	1.36
13362827--13362932	53	2.0	51	82	10	126	46	4	2	46	1.38
13362929--13362958	13	2.3	13	94	0	51	43	0	3	53	1.17
13362787--13362974	20	9.9	19	70	19	81	45	4	2	47	1.36
13362544--13363383	385	2.1	396	90	8	1315	41	6	6	45	1.56
13363080--13363110	16	1.9	16	100	0	62	45	6	0	48	1.28
13363097--13363229	54	2.5	54	82	2	142	40	6	6	45	1.57
13363140--13363244	54	1.9	54	94	0	183	41	4	5	47	1.48
13363143--13363273	54	2.5	54	87	2	176	44	4	4	46	1.44
13363251--13363422	2	84.5	2	64	21	56	44	4	4	47	1.41
13363033--13363273	130	1.9	128	81	11	296	42	6	5	45	1.53
13363256--13363315	20	2.9	21	85	7	77	46	3	5	45	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13363350--13363390	13	3.2	13	89	6	57	41	2	4	51	1.36
13363527--13363576	2	25.0	2	100	0	100	50	0	0	50	1.00
13362695--13363574	421	2.1	403	81	11	1002	43	6	5	45	1.51
13370746--13371134	130	2.9	134	81	6	448	24	18	29	27	1.98
13372053--13372086	16	2.1	16	89	10	52	8	14	0	76	1.01
13378707--13379095	130	2.9	134	81	6	448	24	18	29	27	1.98
13380014--13380047	16	2.1	16	89	10	52	8	14	0	76	1.01
13398921--13398953	3	10.7	3	93	6	57	36	0	0	63	0.95
13399410--13399463	22	2.4	21	81	9	54	51	7	31	9	1.61
13399495--13399532	12	3.2	12	88	3	51	63	23	7	5	1.42
13399501--13399534	12	2.9	12	91	4	52	61	23	8	5	1.47
13402187--13402311	63	2.0	63	87	0	178	23	18	15	43	1.87
13403757--13403795	20	1.9	21	89	5	62	28	25	10	35	1.89
13403757--13403801	20	2.1	21	84	8	56	26	22	8	42	1.83
13404829--13404886	2	29.5	2	83	10	75	48	0	3	48	1.18
13407659--13407715	28	2.0	28	86	6	80	17	21	31	29	1.96
13411063--13411112	25	2.0	25	88	0	73	44	14	18	24	1.86
13411456--13411509	18	3.0	18	97	0	99	22	22	31	24	1.98
13411492--13411561	28	2.5	28	95	0	122	17	17	31	34	1.93
13411448--13411581	46	2.9	46	75	6	146	19	19	30	30	1.96
13411818--13411864	24	2.0	24	83	8	60	44	4	12	38	1.62
13413499--13413582	32	2.7	32	83	7	100	29	11	22	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13413523--13413584	32	2.0	32	90	9	101	25	12	24	37	1.91
13413956--13414374	123	3.4	121	90	2	651	28	27	16	27	1.97
13414379--13414477	47	2.1	48	84	1	128	28	27	15	29	1.96
13414412--13414684	135	2.0	132	82	7	320	28	28	15	27	1.96
13414871--13414920	3	16.7	3	87	8	75	38	0	0	62	0.96
13417028--13417079	15	3.3	15	81	10	52	28	3	7	59	1.43
13417027--13417079	16	3.3	16	79	12	56	28	3	7	60	1.41
13421633--13421697	30	2.1	31	83	8	80	40	10	24	24	1.87
13423222--13423291	31	2.3	31	80	7	79	30	24	8	37	1.85
13423233--13423299	31	2.2	31	89	5	100	23	26	10	38	1.87
13426737--13426926	20	9.4	20	77	11	183	37	22	18	21	1.94
13426737--13426922	41	4.6	40	81	11	177	38	22	17	22	1.93
13426688--13426926	40	5.9	40	79	10	211	36	23	16	23	1.94
13427038--13427088	22	2.3	22	96	0	93	19	45	15	19	1.86
13427430--13427480	20	2.5	20	96	0	93	47	23	19	9	1.79
13429710--13429814	42	2.5	42	96	0	192	23	36	17	22	1.95
13429685--13429844	21	7.6	21	67	5	90	23	34	19	23	1.97
13431168--13431343	66	2.6	67	87	8	236	28	2	15	52	1.57
13431391--13431428	20	1.9	20	100	0	76	39	21	23	15	1.92
13431438--13431484	20	2.3	20	74	0	58	29	21	25	23	1.99
13433224--13433273	25	2.0	25	96	0	91	44	22	8	26	1.80
13433344--13433459	34	3.4	34	97	0	214	38	18	21	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13433443--13433490	20	2.4	20	92	0	87	41	22	18	16	1.90
13433486--13433524	13	2.9	14	88	3	62	7	20	33	38	1.81
13433486--13433528	14	3.1	14	83	6	61	9	18	30	41	1.82
13433827--13433862	18	2.0	18	94	0	63	16	2	25	55	1.55
13436124--13436177	24	2.2	24	93	0	90	38	18	20	22	1.93
13436140--13436191	24	2.2	24	82	0	59	36	17	19	26	1.94
13437108--13437180	19	3.7	20	87	7	78	27	12	23	36	1.90
13437109--13437340	20	11.6	20	73	12	165	24	14	24	36	1.93
13447658--13447705	23	2.1	23	100	0	96	41	29	4	25	1.74
13453162--13453215	26	2.0	26	85	3	72	46	1	3	48	1.30
13456270--13456334	32	2.0	32	93	0	112	30	12	6	50	1.64
13456440--13456478	2	20.0	2	94	5	71	51	0	0	48	1.00
13460559--13460762	55	3.7	55	82	2	275	32	11	13	42	1.80
13460734--13460783	21	2.4	21	100	0	100	28	14	14	44	1.83
13460680--13460821	76	1.9	74	94	2	248	33	11	14	40	1.82
13460758--13460858	53	1.9	53	81	4	123	37	9	14	37	1.80
13460855--13461037	53	3.4	53	86	2	231	30	9	21	38	1.85
13465674--13465748	24	3.1	24	88	3	98	13	10	21	54	1.68
13465699--13465748	14	3.9	14	72	20	54	14	12	16	58	1.64
13466825--13466875	16	3.3	15	86	5	68	13	9	15	60	1.58
13469748--13469791	18	2.4	18	96	0	79	22	11	22	43	1.85
13474097--13474133	19	1.9	19	100	0	74	70	0	0	29	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13474125--13474189	28	2.3	28	100	0	130	66	6	0	27	1.15
13474109--13474189	28	2.8	30	92	7	118	66	4	0	28	1.12
13474157--13474190	17	1.9	18	88	5	52	64	5	0	29	1.17
13474359--13474456	40	2.5	40	86	0	124	27	34	25	12	1.92
13474899--13474949	17	2.9	17	85	2	66	35	1	0	62	1.06
13480419--13480444	9	2.9	9	100	0	52	19	23	0	57	1.40
13484514--13484560	2	23.5	2	100	0	94	51	0	0	48	1.00
13485948--13486000	2	26.5	2	100	0	106	49	0	0	50	1.00
13492224--13492274	2	25.5	2	100	0	102	49	0	0	50	1.00
13492276--13492305	13	2.3	13	100	0	60	16	6	16	60	1.56
13492607--13492691	31	2.7	31	75	12	84	25	24	22	27	2.00
13495411--13495438	3	9.3	3	100	0	56	32	0	0	67	0.91
13497001--13497031	9	3.4	9	100	0	62	9	0	0	90	0.46
13497001--13497039	18	2.2	18	90	0	60	7	2	2	87	0.73
13496994--13497049	16	3.4	16	83	14	69	8	1	3	85	0.78
13502948--13503008	2	30.5	2	100	0	122	50	0	0	49	1.00
13503252--13503291	3	13.3	3	100	0	80	32	0	0	67	0.91
13504785--13504845	20	3.2	20	86	9	74	16	4	0	78	0.91
13514154--13514194	3	13.7	3	94	0	73	34	0	0	65	0.93
13515702--13515739	18	2.1	18	95	0	67	18	18	5	57	1.58
13515894--13515936	12	3.6	12	90	0	68	11	2	4	81	0.93
13515885--13515936	24	2.3	21	87	9	68	11	1	3	82	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13517877--13517920	3	14.7	3	100	0	88	65	0	0	34	0.93
13529008--13529043	18	2.0	18	100	0	72	27	5	16	50	1.68
13529010--13529053	18	2.4	18	88	0	61	27	9	18	45	1.79
13529406--13529567	66	2.5	65	87	4	220	27	19	23	30	1.98
13532505--13532700	95	2.1	94	83	5	252	32	15	17	34	1.91
13533912--13534666	84	9.2	83	80	5	823	29	24	19	25	1.99
13533912--13535049	165	7.0	164	80	6	1228	29	24	19	25	1.99
13534694--13535040	84	4.2	84	83	5	395	30	24	19	25	1.98
13534211--13534921	232	3.0	233	88	5	971	30	24	19	25	1.98
13534379--13535000	316	2.0	313	87	2	888	30	24	19	25	1.98

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   66   67   68   69   70   71   72   73