genome.fa.s1547.2.7.7.80.10.50.1000.38.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   

This is table  38  of  51  ( 6083 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)
7402097--7402183	38	2.4	37	81	9	99	51	4	2	41	1.35
7402113--7402862	14	55.1	13	71	20	326	44	9	2	44	1.50
7402113--7402862	26	30.2	26	74	11	545	44	9	2	44	1.50
7402173--7402715	98	5.5	97	82	11	656	43	9	2	44	1.49
7402248--7402562	124	2.5	124	94	2	587	42	9	2	45	1.49
7402346--7402738	176	2.2	175	94	1	689	42	9	2	45	1.49
7402522--7402920	124	3.2	124	97	0	728	43	10	2	43	1.51
7402248--7402862	300	2.0	300	95	1	1108	42	9	2	44	1.51
7406615--7406677	28	2.2	30	91	5	103	57	11	0	31	1.34
7406619--7406684	28	2.4	28	85	10	98	56	10	0	33	1.34
7406654--7406702	21	2.3	21	85	3	71	53	16	0	30	1.43
7407306--7407369	29	2.2	29	94	0	110	17	37	29	15	1.91
7408027--7408058	10	3.2	10	95	0	55	31	31	0	37	1.58
7408168--7408388	110	2.0	111	94	0	390	35	9	11	44	1.72
7410644--7410768	51	2.5	51	86	0	196	27	24	22	25	2.00
7410780--7410905	51	2.5	51	86	2	164	19	30	33	16	1.94
7419376--7419442	34	2.0	33	85	2	89	40	1	13	44	1.53
7419560--7419691	51	2.6	51	79	3	151	18	32	28	21	1.96
7419868--7419911	18	2.5	17	85	10	61	34	2	2	61	1.21
7419975--7420196	111	2.0	111	95	0	399	36	8	9	45	1.67
7430870--7430922	8	6.8	8	79	12	65	28	0	1	69	0.99
7430931--7431087	80	2.0	80	92	2	262	31	11	15	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7431258--7431301	16	2.8	16	96	0	79	75	0	0	25	0.81
7431267--7431318	11	4.5	11	79	13	59	75	1	0	23	0.91
7433738--7433832	30	3.2	29	85	5	118	35	3	30	30	1.73
7434035--7434286	91	2.8	90	89	3	362	24	21	15	39	1.91
7434802--7435158	36	10.0	36	74	14	208	37	14	19	28	1.91
7434802--7435060	101	2.5	102	84	4	333	37	11	21	28	1.89
7434971--7435280	39	8.0	39	88	2	369	36	15	17	30	1.91
7438813--7438843	15	2.1	15	93	0	53	41	16	6	35	1.74
7441910--7441974	30	2.2	30	94	0	112	35	3	32	29	1.73
7449306--7449420	44	2.6	44	94	0	203	25	18	22	33	1.96
7449396--7449672	126	2.2	126	96	0	500	24	16	24	33	1.96
7457297--7457376	39	2.1	39	88	4	117	21	21	27	30	1.98
7464898--7464931	14	2.4	14	95	0	59	35	5	20	38	1.77
7467942--7468034	21	4.6	20	78	4	96	38	18	24	18	1.92
7467939--7468034	41	2.3	41	98	0	183	39	17	23	18	1.92
7467942--7468034	20	4.6	20	78	4	96	38	18	24	18	1.92
7468023--7468116	20	4.7	20	77	2	80	35	24	17	23	1.95
7468020--7468097	41	1.9	41	83	0	102	41	21	15	21	1.90
7468634--7468698	19	3.4	19	84	2	76	44	26	18	10	1.82
7468694--7468859	20	9.1	19	74	16	136	12	22	22	42	1.87
7468747--7468834	33	2.6	33	92	1	140	11	25	25	38	1.89
7470859--7470981	42	2.9	42	80	2	122	22	36	17	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7470915--7470981	21	3.2	21	66	6	55	23	35	20	19	1.95
7472340--7472375	14	2.6	14	95	0	63	30	0	25	44	1.54
7472554--7472671	19	6.7	19	65	19	67	13	22	20	43	1.87
7472558--7472651	33	2.8	33	96	0	170	12	23	19	44	1.85
7474905--7474929	13	1.9	13	100	0	50	0	24	0	76	0.80
7475259--7475373	20	5.7	20	76	5	79	23	16	23	36	1.94
7475362--7475457	41	2.3	41	98	0	147	18	23	17	39	1.92
7475362--7475454	20	4.6	20	78	4	96	18	24	18	38	1.92
7477081--7477143	34	1.9	32	81	12	74	69	3	6	20	1.24
7477190--7477242	18	2.9	18	88	5	72	71	1	5	20	1.16
7477194--7477242	9	5.3	9	82	2	62	73	2	4	20	1.10
7478387--7478435	3	16.3	3	83	8	64	67	4	0	28	1.09
7478489--7478530	12	3.2	14	80	16	54	52	4	7	35	1.50
7478510--7478749	37	6.4	37	80	10	224	44	7	3	45	1.49
7478611--7478666	28	2.0	28	82	6	69	48	7	3	41	1.48
7478810--7478901	2	46.0	2	100	0	184	50	0	0	50	1.00
7479465--7480251	165	4.7	166	85	2	952	24	20	24	30	1.99
7479549--7480251	331	2.1	331	91	1	1147	25	20	24	30	1.99
7487884--7487923	21	1.9	21	89	0	62	10	25	40	25	1.86
7491768--7491807	21	1.9	21	85	10	55	35	10	2	52	1.48
7495167--7495216	18	2.8	18	87	6	66	70	2	6	22	1.20
7495171--7495216	9	5.0	9	81	2	56	71	2	4	21	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7496368--7496413	3	15.3	3	82	8	58	67	4	0	28	1.10
7496467--7496497	14	2.3	13	94	5	53	58	6	6	29	1.48
7496467--7496508	13	3.3	13	87	9	52	52	4	7	35	1.50
7496488--7496784	37	7.9	37	77	12	268	44	7	3	44	1.49
7496494--7496784	113	2.6	111	81	10	292	45	7	3	43	1.49
7499942--7499992	26	2.0	26	96	0	93	29	15	25	29	1.96
7502884--7502915	13	2.4	13	94	5	55	68	12	6	12	1.37
7502883--7502918	12	2.8	12	88	12	54	61	16	8	13	1.56
7505216--7505257	21	2.0	21	95	0	75	30	14	7	47	1.71
7505252--7505350	33	3.0	33	92	1	155	33	7	14	45	1.71
7506429--7506478	24	2.1	24	88	7	75	26	2	14	58	1.47
7518587--7518668	23	3.5	23	75	9	76	43	18	14	23	1.86
7520854--7520880	14	1.9	14	100	0	54	0	14	0	85	0.61
7529821--7529939	37	3.2	37	83	8	161	39	20	19	21	1.93
7529939--7531010	219	5.0	216	91	4	1673	33	15	19	31	1.93
7530695--7530796	42	2.5	41	77	4	107	24	21	22	31	1.98
7530909--7531062	83	1.9	83	86	2	220	28	19	19	32	1.96
7529939--7531010	419	2.5	414	91	5	1340	33	15	19	31	1.93
7532433--7532466	16	2.2	15	89	5	50	8	20	0	70	1.13
7536550--7536587	19	2.0	19	85	10	51	42	5	0	52	1.24
7537148--7537186	19	2.1	19	85	9	53	43	0	0	56	0.99
7537560--7537655	20	4.8	20	94	0	165	38	9	26	26	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7540842--7541235	5	78.4	5	95	4	713	59	0	0	40	0.97
7541703--7542649	84	11.5	83	87	2	1197	24	19	22	33	1.97
7543461--7543705	95	2.5	95	88	3	348	32	17	15	34	1.92
7564927--7565001	23	3.2	22	75	14	71	26	20	16	37	1.93
7564935--7565018	23	3.6	23	75	3	87	23	19	15	41	1.89
7566239--7566370	3	44.0	3	70	3	68	58	28	7	6	1.50
7566221--7566376	27	5.7	27	71	15	97	57	26	8	7	1.55
7566760--7566784	7	3.6	7	100	0	50	88	0	0	12	0.53
7575552--7575634	21	4.0	21	84	3	96	20	38	26	14	1.91
7575569--7575621	21	2.6	20	94	5	97	20	37	28	13	1.90
7577779--7577839	23	2.7	23	81	0	68	36	24	21	18	1.95
7582608--7582663	23	2.4	23	81	0	76	30	25	28	16	1.96
7583161--7583204	2	22.0	2	100	0	88	50	0	0	50	1.00
7587003--7587047	20	2.3	20	96	3	83	20	35	31	13	1.91
7588115--7588196	37	2.4	32	74	13	76	32	40	7	19	1.79
7588709--7588772	29	2.2	30	83	8	78	46	3	4	45	1.39
7593708--7593883	37	5.0	34	77	13	112	44	3	6	45	1.47
7593721--7593901	35	5.2	34	74	20	133	44	3	7	44	1.49
7593854--7593952	27	3.7	27	70	20	73	47	4	6	42	1.47
7593859--7593936	25	3.0	25	72	7	75	46	2	6	44	1.42
7593781--7594027	126	2.0	122	93	5	426	44	4	6	43	1.52
7593903--7594043	38	3.8	37	82	9	180	44	4	6	44	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7593903--7594091	38	5.0	36	75	15	148	46	4	5	43	1.47
7594122--7594154	15	2.2	15	94	0	57	21	3	0	75	0.93
7594107--7594156	11	4.8	10	81	16	57	22	2	0	76	0.89
7595392--7595421	13	2.2	14	94	5	53	20	0	3	76	0.92
7596655--7596687	17	1.9	17	93	0	57	6	15	6	72	1.24
7600526--7601224	164	4.3	164	88	1	1001	29	25	21	24	1.99
7600498--7601255	329	2.3	324	90	2	1194	29	25	21	23	1.99
7600498--7601362	244	3.5	243	82	4	1020	29	25	21	23	1.99
7600498--7601359	164	5.3	161	85	3	948	29	25	21	23	1.99
7601107--7601443	164	2.1	162	85	5	446	29	24	21	24	1.99

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