genome.fa.s190.2.7.7.80.10.50.1000.31.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   

This is table  31  of  62  ( 7381 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)
7250719--7250803	24	3.6	24	80	3	82	27	16	9	47	1.77
7265312--7265805	273	1.8	272	84	3	670	31	16	16	34	1.92
7266553--7267357	365	2.2	365	84	2	1017	31	21	13	33	1.91
7271317--7271361	23	2.0	23	90	0	72	24	17	20	37	1.93
7271301--7271393	24	3.9	24	79	8	100	24	19	16	39	1.91
7274109--7274139	16	1.9	16	93	0	53	6	12	6	74	1.21
7279508--7279574	30	2.2	30	91	0	107	34	20	19	25	1.96
7284307--7284366	30	2.0	30	100	0	120	33	23	20	23	1.97
7289469--7290818	519	2.6	515	83	4	1594	34	14	16	34	1.89
7289469--7290815	259	5.2	259	81	5	1468	33	14	16	34	1.89
7290814--7290884	28	2.6	27	80	11	81	73	0	15	11	1.10
7290836--7290899	28	2.4	28	80	10	64	71	1	14	12	1.21
7293953--7293999	18	2.6	18	96	0	85	38	12	10	38	1.78
7296944--7297103	85	1.9	85	88	5	243	29	1	11	56	1.45
7297726--7297759	17	2.0	17	88	0	50	23	0	2	73	0.97
7311418--7311854	219	2.0	220	86	2	619	35	10	18	35	1.86
7311418--7311854	55	8.0	55	89	1	583	35	10	18	35	1.86
7311773--7311887	55	2.1	55	83	3	142	36	9	17	36	1.82
7312162--7312249	46	1.9	46	88	4	133	47	9	17	26	1.76
7322817--7322860	21	2.1	21	82	0	52	11	40	15	31	1.83
7326703--7326743	19	2.2	19	86	0	55	31	17	24	26	1.97
7327120--7327351	54	4.3	55	85	4	231	36	10	16	36	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7327149--7327351	109	1.9	110	81	7	252	36	10	16	35	1.83
7327093--7327353	55	4.8	55	82	7	239	37	9	16	37	1.81
7330994--7331026	13	2.5	13	95	0	57	39	24	21	15	1.91
7346806--7346863	28	2.1	28	100	0	116	41	10	24	24	1.86
7357860--7358062	104	2.0	104	85	3	275	27	20	18	33	1.96
7358263--7358476	87	2.5	87	84	3	252	14	28	24	32	1.95
7366317--7366468	39	3.9	39	74	7	121	34	22	23	19	1.97
7369871--7369935	13	5.0	13	84	0	94	29	23	16	30	1.96
7369871--7369935	26	2.5	26	100	0	130	29	23	16	30	1.96
7376565--7376688	39	3.2	39	79	6	135	29	21	29	19	1.98
7381689--7381745	24	2.4	23	81	16	64	61	1	3	33	1.23
7386105--7386149	5	8.6	5	80	9	54	17	6	2	73	1.15
7388573--7388629	19	3.1	19	78	12	64	22	5	0	71	1.05
7390217--7390397	60	3.0	59	76	8	179	33	21	6	38	1.79
7390531--7390647	60	2.0	60	84	3	155	41	5	24	29	1.76
7401548--7401591	16	2.7	15	80	13	52	70	2	0	27	0.99
7401555--7401585	8	3.8	8	95	4	53	67	0	0	32	0.91
7404294--7404337	23	1.9	23	90	0	70	77	2	4	15	1.04
7411455--7411510	21	2.7	21	88	0	85	26	32	12	28	1.93
7411455--7411506	8	6.2	8	76	8	50	26	32	11	28	1.91
7411455--7411506	17	3.1	17	81	13	63	26	32	11	28	1.91
7417122--7417784	55	12.2	55	82	4	772	35	17	16	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7423240--7423372	54	2.5	54	86	0	158	39	18	11	30	1.86
7423191--7424196	55	18.3	55	84	1	1093	35	16	16	31	1.92
7424162--7424231	35	2.0	35	88	0	104	41	20	11	27	1.86
7424111--7424287	90	2.0	91	86	1	248	37	16	14	31	1.89
7424055--7424342	146	2.0	145	86	0	396	36	17	15	30	1.91
7423998--7424397	201	2.0	200	89	2	615	35	17	16	31	1.92
7424197--7424434	55	4.3	54	87	3	323	34	18	17	29	1.94
7424849--7424900	20	2.6	20	81	0	59	26	28	11	32	1.91
7428385--7428409	6	4.2	6	100	0	50	16	16	36	32	1.90
7429491--7429598	12	8.9	11	70	16	63	77	1	15	4	1.01
7429499--7429617	35	3.3	37	78	15	115	76	1	15	5	1.06
7429485--7429598	23	4.9	22	68	27	74	77	1	16	4	1.02
7429551--7429601	17	2.9	17	80	13	68	74	0	19	5	1.02
7438019--7438304	45	6.4	45	87	0	376	40	14	20	24	1.90
7450420--7450539	45	2.7	45	80	7	136	29	24	7	39	1.82
7468890--7468916	2	13.5	2	100	0	54	51	0	0	48	1.00
7468985--7469235	85	3.0	85	87	2	310	31	16	21	31	1.95
7470761--7470957	86	2.3	85	85	3	270	35	19	16	28	1.93
7471207--7471427	70	3.1	70	83	3	273	44	11	11	31	1.77
7471832--7471884	20	2.7	20	90	0	88	52	3	15	28	1.59
7471666--7471959	100	3.0	98	81	3	351	41	13	15	29	1.85
7471857--7472035	76	2.4	76	87	0	250	45	11	12	29	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7471877--7472200	176	1.8	176	87	1	488	42	11	13	31	1.80
7471953--7472135	100	1.8	100	91	0	303	45	9	12	32	1.74
7472051--7472288	76	3.1	76	84	1	323	40	11	13	34	1.81
7472327--7472620	77	3.8	78	84	4	375	41	10	11	36	1.75
7472053--7472712	332	2.0	330	89	2	1011	41	11	11	34	1.79
7472327--7472605	155	1.8	154	88	2	425	40	10	11	36	1.76
7472530--7472712	100	1.8	101	84	5	255	44	13	8	33	1.74
7473459--7473854	108	3.7	107	88	2	508	35	14	13	37	1.84
7476101--7476593	81	6.1	81	88	0	637	36	11	21	31	1.88
7482937--7483467	81	6.5	81	88	1	697	35	10	21	32	1.88
7485541--7485602	19	3.5	17	74	24	56	11	29	0	59	1.32
7487077--7487206	65	2.0	65	100	0	260	43	10	20	26	1.84
7493561--7493668	32	3.4	32	84	0	135	18	25	28	27	1.98
7493561--7493681	64	1.9	64	86	3	172	21	25	27	25	1.99
7493547--7493681	32	4.2	32	78	0	110	23	25	26	24	2.00
7496787--7497138	192	1.8	192	99	0	695	41	15	16	27	1.87
7501703--7501765	28	2.3	29	81	8	69	46	20	9	23	1.80
7501703--7501766	27	2.3	27	79	10	67	45	20	9	25	1.80
7501759--7501806	25	1.9	25	83	8	62	35	27	16	20	1.94
7508708--7508826	32	3.7	31	83	4	105	21	24	26	28	1.99
7508742--7508846	32	3.3	32	77	7	97	21	25	23	28	1.99
7512021--7512084	27	2.3	28	83	2	76	45	20	7	26	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7513167--7513239	32	2.3	32	85	7	103	19	20	27	32	1.97
7513169--7513251	32	2.6	32	79	11	91	19	22	26	31	1.98
7515075--7515215	32	4.4	32	76	9	110	20	25	25	28	1.99
7517265--7517337	32	2.3	32	88	4	103	21	30	20	27	1.98
7517287--7517370	32	2.6	32	80	0	87	21	28	22	27	1.99
7519958--7520031	24	3.2	24	62	21	57	33	21	9	35	1.86
7519943--7520032	46	1.9	48	90	4	148	34	21	8	35	1.84
7520407--7520447	21	1.9	22	90	5	66	46	12	4	36	1.63
7522453--7522501	19	2.6	19	84	9	57	24	28	20	26	1.99
7523256--7523445	94	2.0	94	100	0	380	31	17	23	27	1.97
7526298--7526388	45	2.0	46	97	2	175	39	19	18	21	1.92
7529839--7529897	21	3.0	21	82	7	61	5	45	15	33	1.68
7531019--7531068	19	2.7	19	84	9	59	24	30	20	26	1.98
7530957--7531130	64	2.7	65	86	6	223	28	24	20	26	1.99
7533286--7533349	27	2.3	27	80	15	69	43	23	6	26	1.77
7537840--7537887	25	1.9	25	91	0	78	33	25	18	22	1.97
7538935--7539055	32	3.8	32	78	7	102	19	25	26	28	1.98
7538971--7539075	32	3.3	32	81	2	86	20	26	24	27	1.99
7543709--7543794	27	3.1	28	85	5	104	56	13	13	15	1.67
7543719--7543794	27	2.8	28	87	4	109	57	14	13	14	1.65
7545983--7546313	165	2.0	166	96	3	614	20	30	17	31	1.95
7548029--7548062	17	2.0	17	100	0	68	23	47	11	17	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7548781--7548852	27	2.6	28	76	8	67	63	2	2	30	1.22
7549059--7549093	17	2.1	17	100	0	70	31	0	28	40	1.57
7562909--7563008	3	33.3	3	100	0	200	0	67	0	33	0.91
7564385--7564537	69	2.2	69	92	1	254	28	2	41	27	1.69
7565173--7565203	13	2.3	14	94	5	55	29	6	12	51	1.65
7566711--7566888	88	2.0	91	84	3	236	33	21	26	17	1.96
7566713--7566902	44	4.3	44	82	4	202	33	21	26	18	1.97
7570592--7570933	49	6.9	49	83	3	416	33	19	9	38	1.83
7570595--7570935	150	2.3	149	84	3	447	33	19	9	38	1.83
7575656--7575704	21	2.5	19	78	12	53	57	8	10	24	1.59

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