genome.fa.s1129.2.7.7.80.10.50.1000.34.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   

This is table  34  of  89  ( 10573 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)
7305428--7305463	12	3.0	12	91	0	54	11	8	38	41	1.71
7306232--7306329	21	4.6	21	73	15	67	53	1	0	45	1.07
7306253--7306310	28	2.1	27	83	3	71	55	1	0	43	1.10
7306345--7306527	31	5.8	30	72	20	124	47	3	6	42	1.46
7306351--7306397	24	1.9	25	82	4	60	55	4	2	38	1.31
7306407--7306468	14	4.4	14	74	11	54	43	1	8	46	1.42
7306508--7306608	20	4.8	20	77	11	87	48	8	5	36	1.59
7306535--7306587	21	2.5	21	87	0	79	47	5	7	39	1.56
7306618--7306753	57	2.4	57	87	4	197	39	8	11	41	1.70
7306912--7306958	13	3.3	13	78	21	58	38	0	10	51	1.37
7306912--7306963	15	3.4	15	86	2	68	38	1	9	50	1.46
7306936--7306979	20	2.2	20	92	4	72	40	6	4	47	1.50
7307185--7307443	2	133.0	2	63	23	56	44	5	3	47	1.41
7307256--7307308	24	2.2	25	86	3	72	39	3	3	52	1.37
7307256--7307341	26	3.3	25	79	19	79	38	4	5	51	1.47
7307279--7307347	13	5.2	13	91	3	93	39	5	7	47	1.55
7307225--7307366	41	3.5	40	74	13	112	44	6	3	45	1.46
7307355--7307438	17	4.8	17	75	18	66	46	3	3	46	1.37
7307187--7307439	13	19.7	13	66	21	67	44	5	3	47	1.42
7313987--7314063	4	19.2	4	100	0	154	24	0	25	49	1.51
7315723--7315873	73	2.0	75	87	5	218	39	17	17	25	1.91
7316724--7316780	28	2.0	28	86	0	78	29	17	21	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7316911--7317025	59	1.9	58	82	6	142	35	19	17	27	1.94
7322957--7322989	17	1.9	17	88	11	50	66	0	0	33	0.92
7323398--7323455	23	2.5	23	91	5	91	41	0	3	55	1.17
7323611--7323667	30	1.9	30	88	0	87	47	5	17	29	1.70
7328774--7328821	2	24.0	2	100	0	96	50	0	0	50	1.00
7333449--7333493	24	1.9	23	82	13	56	26	6	8	57	1.54
7336839--7336905	22	3.0	22	86	0	89	31	17	23	26	1.97
7343635--7343701	22	3.0	22	88	0	98	35	19	20	23	1.95
7354876--7354934	29	2.0	29	93	0	100	23	15	11	49	1.77
7358625--7358650	5	5.2	5	100	0	52	0	19	57	23	1.40
7358666--7358756	39	2.5	35	84	12	103	12	20	39	27	1.88
7365566--7365599	2	17.5	2	93	6	61	50	0	0	50	1.00
7366972--7367371	200	2.0	200	99	0	791	37	14	8	39	1.76
7369935--7369974	20	2.0	20	90	4	64	37	0	7	55	1.29
7372767--7372806	20	2.0	20	90	4	64	37	0	7	55	1.29
7373072--7373115	23	1.9	23	90	0	70	18	43	22	15	1.88
7374460--7374497	2	19.0	2	100	0	76	50	0	0	50	1.00
7378322--7378517	88	2.2	90	87	4	288	27	26	23	22	2.00
7389999--7390073	32	2.3	32	83	0	87	45	24	14	16	1.84
7393254--7393295	2	21.0	2	100	0	84	50	0	0	50	1.00
7394548--7394624	32	2.4	33	86	6	104	45	23	11	19	1.83
7396909--7397020	51	2.2	50	85	4	154	37	19	13	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7398433--7398468	18	2.0	18	89	10	56	16	5	58	19	1.58
7403687--7403826	32	4.4	32	90	3	189	27	16	24	31	1.96
7403687--7403843	64	2.5	64	85	6	205	28	16	23	31	1.96
7404789--7404824	12	3.0	12	95	0	63	41	8	19	30	1.81
7407995--7408090	24	4.0	24	74	5	86	39	11	16	32	1.84
7411051--7411616	86	6.6	86	79	5	513	33	9	19	37	1.84
7411051--7411616	171	3.3	171	83	5	671	33	9	19	37	1.84
7411960--7412012	25	2.1	25	89	6	81	43	16	15	24	1.87
7412279--7412305	14	1.9	14	100	0	54	59	0	0	40	0.98
7413008--7413041	16	2.1	16	100	0	68	23	11	20	44	1.84
7414869--7414908	21	1.9	21	85	10	55	40	2	37	20	1.66
7418195--7418259	28	2.3	28	97	0	121	38	1	23	36	1.64
7421052--7421113	29	2.1	29	90	0	97	37	6	20	35	1.79
7421995--7422118	31	3.9	32	75	8	103	19	28	26	25	1.99
7422135--7422188	26	2.1	26	85	0	72	25	7	18	48	1.74
7428275--7428351	29	2.7	28	82	8	75	33	3	15	46	1.64
7428338--7428397	29	2.1	29	96	0	111	38	6	21	33	1.80
7429282--7429367	32	2.7	31	75	5	82	17	29	29	24	1.97
7429423--7429476	26	2.1	26	85	0	72	25	7	18	48	1.74
7433927--7434014	40	2.3	39	94	4	151	37	0	5	56	1.23
7434540--7434680	60	2.3	61	80	6	151	30	17	5	46	1.71
7435065--7435160	24	4.0	24	85	4	115	45	8	1	44	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7435704--7435832	64	2.0	64	83	5	163	39	31	13	16	1.86
7437894--7438311	168	2.5	168	81	3	477	18	26	16	38	1.92
7437894--7438295	84	4.8	84	79	6	343	18	26	16	38	1.92
7445873--7446231	131	2.7	131	81	4	420	33	11	15	39	1.84
7452289--7452419	64	2.0	65	89	2	201	44	2	6	46	1.42
7456147--7456254	42	2.6	41	86	7	139	36	11	16	36	1.84
7456163--7456278	42	2.8	41	82	3	126	38	14	15	31	1.88
7456527--7456565	2	20.0	2	94	5	71	48	0	0	51	1.00
7459733--7459782	21	2.4	21	83	6	57	66	12	2	20	1.34
7463563--7463593	15	2.1	14	94	5	53	9	19	0	70	1.14
7465132--7465235	29	3.6	28	86	2	127	50	14	1	33	1.54
7465211--7465290	28	2.8	29	80	1	99	50	13	7	28	1.69
7466445--7466599	81	1.9	81	91	0	256	29	20	12	37	1.90
7466457--7466625	81	2.1	81	85	0	221	29	21	11	36	1.89
7466758--7466789	16	2.0	16	93	0	55	34	50	6	9	1.60
7466973--7467167	20	8.4	26	73	20	134	20	24	10	45	1.82
7466973--7467167	46	4.2	46	77	16	224	20	24	10	45	1.82
7467754--7467810	21	2.7	21	97	0	105	31	22	12	33	1.91
7471180--7471249	22	3.3	22	74	22	76	28	18	14	38	1.90
7472237--7472290	26	2.1	26	89	0	81	50	9	7	33	1.62
7478674--7478722	16	3.0	16	84	3	53	36	18	18	26	1.94
7480855--7481012	21	7.8	20	72	7	86	38	25	17	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7480979--7481171	20	9.6	20	82	4	219	35	25	19	18	1.95
7481554--7481624	33	2.2	33	94	0	124	9	22	19	47	1.78
7481702--7481813	21	5.8	20	75	17	112	46	17	24	11	1.81
7481764--7481820	14	3.7	14	75	20	60	43	22	24	8	1.81
7481700--7481836	33	3.8	33	81	16	148	45	20	23	10	1.81
7481854--7481943	14	5.7	14	72	23	72	8	24	22	44	1.81
7481837--7481952	33	3.5	33	97	0	214	11	23	18	46	1.81
7483650--7484307	93	7.1	93	97	1	1257	22	12	19	45	1.83
7484355--7484483	19	7.3	19	75	17	125	45	28	16	9	1.78
7484391--7484483	33	2.8	32	91	4	150	46	27	17	8	1.77
7484355--7484483	52	2.5	52	74	14	140	45	28	16	9	1.78
7484501--7484557	14	3.7	14	72	20	51	10	19	22	47	1.80
7484484--7484576	33	2.8	33	91	0	159	10	19	21	48	1.79
7484479--7484593	19	6.6	19	71	18	97	10	19	23	46	1.80
7486518--7486553	14	2.6	14	90	0	54	30	0	22	47	1.52
7486660--7486775	19	6.6	19	78	17	135	44	17	23	14	1.85
7486660--7486775	53	2.2	53	95	1	207	44	17	23	14	1.85
7486782--7486935	33	4.5	33	72	17	134	14	22	17	45	1.85
7486804--7487021	19	12.4	19	75	19	233	15	20	17	46	1.84
7486782--7486993	52	4.0	53	97	0	383	15	22	16	45	1.84
7486823--7487054	67	3.4	67	76	16	226	14	20	18	45	1.85
7486823--7487035	33	6.2	33	77	15	211	14	21	18	46	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7489316--7489340	12	2.1	12	100	0	50	0	28	0	72	0.86
7489515--7489561	24	2.0	24	87	8	69	38	21	14	25	1.92
7490243--7490472	20	11.5	20	85	1	237	19	18	24	36	1.94
7490459--7490541	21	4.0	21	73	6	78	25	16	24	33	1.96
7490439--7490537	42	2.4	43	77	11	100	21	18	23	37	1.94
7490897--7490955	31	1.9	31	89	0	91	40	5	8	45	1.56
7490976--7491122	22	6.7	22	84	4	181	49	8	0	42	1.32
7490976--7491122	65	2.2	66	87	3	208	49	8	0	42	1.32
7490997--7491125	43	3.0	43	93	1	222	48	6	0	44	1.29
7494247--7494301	18	2.9	19	78	7	60	63	0	9	27	1.24

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