genome.fa.s1547.2.7.7.80.10.50.1000.40.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  40  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)
7784940--7785002	25	2.4	26	84	7	92	41	4	3	50	1.39
7784966--7785161	73	2.6	74	88	5	279	43	6	2	48	1.39
7785105--7785208	48	2.2	49	86	6	142	47	8	0	43	1.40
7785121--7785220	48	2.0	50	84	3	132	49	8	1	42	1.39
7785857--7785886	14	2.1	14	100	0	60	36	0	6	56	1.26
7786209--7786263	20	2.8	20	80	0	65	32	32	10	23	1.90
7786275--7786383	20	5.4	20	81	6	123	42	26	15	15	1.87
7786254--7786386	40	3.3	40	80	11	148	41	24	16	17	1.89
7786286--7786387	20	5.1	20	85	0	141	44	24	15	15	1.86
7787242--7787273	14	2.3	14	94	0	55	6	21	21	50	1.71
7788557--7788637	29	2.8	29	88	0	108	23	6	20	49	1.71
7791264--7791364	42	2.4	42	100	0	202	21	37	23	16	1.93
7791926--7792003	21	3.7	21	77	6	77	28	32	16	23	1.96
7793351--7793526	66	2.6	67	87	8	236	27	2	16	52	1.57
7793383--7793526	66	2.2	65	93	2	245	29	2	18	50	1.58
7793560--7793597	20	1.9	20	94	0	67	44	26	15	13	1.83
7793993--7794028	18	2.0	18	88	0	54	19	2	22	55	1.56
7797277--7797429	20	7.6	21	79	10	110	22	16	23	37	1.94
7797312--7797483	80	2.2	80	89	2	265	19	18	23	38	1.93
7797333--7797495	60	2.7	60	80	14	201	20	18	23	38	1.94
7797296--7797431	20	6.8	20	84	7	136	20	16	24	38	1.93
7797437--7797508	20	3.5	20	90	1	99	25	16	22	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7797312--7797507	80	2.5	80	86	5	254	20	17	23	38	1.93
7803531--7803583	21	2.5	22	76	14	58	45	1	1	50	1.23
7811772--7811814	21	2.0	21	90	0	68	30	23	23	23	1.99
7816358--7816393	14	2.6	14	86	0	54	38	38	13	8	1.75
7818709--7818746	15	2.6	15	83	4	51	42	0	0	57	0.98
7818708--7818752	23	2.0	23	82	8	56	37	0	4	57	1.19
7818772--7818821	27	1.9	25	84	8	64	38	0	4	58	1.17
7819313--7819366	27	2.0	27	85	3	74	68	3	1	25	1.16
7820557--7820595	3	13.0	3	89	10	62	66	0	0	33	0.92
7824010--7824053	19	2.3	19	96	0	79	15	15	20	47	1.82
7831466--7831514	25	2.0	23	84	7	62	38	0	4	57	1.18
7831990--7832043	26	2.0	27	85	3	74	66	3	1	27	1.19
7833156--7833204	19	2.7	17	84	9	53	26	20	28	24	1.99
7833175--7833335	65	2.5	65	85	5	211	29	18	21	30	1.97
7833997--7834045	25	1.9	26	91	4	82	59	18	4	18	1.53
7835939--7836018	22	3.6	22	79	5	99	23	25	26	25	2.00
7835939--7836018	21	3.7	21	81	5	97	23	25	26	25	2.00
7835943--7836038	43	2.2	44	85	9	126	23	22	26	27	2.00
7836726--7836770	21	2.1	21	100	0	90	28	28	4	37	1.77
7839907--7839955	19	2.7	17	84	9	53	26	20	28	24	1.99
7839927--7840086	65	2.5	65	88	5	227	27	19	23	30	1.98
7839927--7840134	65	3.2	63	82	12	210	26	18	23	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7841147--7841243	3	32.0	3	85	6	106	59	0	1	39	1.04
7842991--7843042	19	2.7	19	100	0	104	30	17	30	21	1.96
7842932--7843106	83	2.1	83	84	6	221	33	17	25	24	1.96
7843969--7844001	2	16.5	2	100	0	66	51	0	0	48	1.00
7844392--7844482	23	4.0	23	83	0	119	18	25	25	30	1.98
7854222--7854267	12	3.9	12	82	2	58	32	47	8	10	1.69
7854222--7854266	24	1.9	23	90	4	72	33	48	6	11	1.65
7854608--7854686	24	3.5	24	72	13	85	51	15	8	24	1.71
7854608--7854692	44	1.9	44	95	0	152	51	15	8	24	1.70
7855014--7855074	23	2.7	23	78	16	65	34	6	4	54	1.48
7855158--7855346	65	2.9	65	91	0	315	46	11	11	30	1.76
7856747--7856778	3	10.7	3	100	0	64	31	0	0	68	0.90
7861706--7861735	15	2.0	15	93	0	51	40	33	16	10	1.82
7867463--7867500	8	5.0	8	93	6	62	78	0	21	0	0.74
7867465--7867509	14	3.4	14	88	11	60	82	0	17	0	0.68
7867463--7867500	15	2.5	16	91	8	62	78	0	21	0	0.74
7868632--7868808	95	1.9	95	88	4	268	34	23	20	21	1.97
7870715--7870781	2	34.0	2	96	3	127	50	0	0	49	1.00
7870853--7870904	14	3.8	14	74	23	56	36	5	0	57	1.23
7873785--7873859	33	2.3	33	90	0	123	20	21	34	24	1.96
7879265--7879289	7	3.6	7	100	0	50	12	12	0	76	1.04
7882412--7882654	32	8.5	31	72	24	225	36	0	10	52	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7882395--7882970	54	10.5	54	75	13	441	34	0	11	52	1.40
7882494--7882536	22	2.0	22	100	0	86	34	0	13	51	1.42
7882539--7882595	18	3.4	18	69	18	59	33	1	10	54	1.45
7882681--7882953	32	8.7	32	69	20	148	33	0	12	53	1.38
7882713--7882755	22	2.0	22	95	0	77	34	0	11	53	1.37
7882767--7882834	26	2.9	22	74	16	73	32	0	14	52	1.42
7882734--7883050	80	3.9	80	88	6	501	32	0	14	52	1.41
7882878--7882931	14	3.6	14	72	18	54	37	0	5	57	1.22
7882735--7883065	166	2.0	166	96	0	608	33	0	13	53	1.40
7883013--7883055	22	2.0	22	100	0	86	34	0	13	51	1.42
7882814--7883065	54	4.6	54	76	11	278	33	0	13	53	1.40
7883080--7883138	31	1.9	31	92	0	100	42	10	6	40	1.65
7883184--7883241	25	2.3	25	93	0	98	39	22	18	18	1.92
7883633--7883660	2	14.0	2	100	0	56	50	0	0	50	1.00
7883743--7883774	3	10.7	3	100	0	64	65	0	0	34	0.93
7884755--7884784	2	15.0	2	100	0	60	50	0	0	50	1.00
7885754--7885790	17	2.1	18	90	5	58	37	0	0	62	0.96
7886315--7886355	20	2.0	20	100	0	82	34	31	0	34	1.58
7888914--7888984	30	2.4	30	90	4	108	14	8	38	39	1.76
7888914--7888984	15	4.7	15	72	10	65	14	8	38	39	1.76
7891915--7892074	65	2.5	65	88	5	236	31	21	16	30	1.96
7894565--7894623	23	2.5	24	83	5	75	55	11	3	28	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7895738--7895767	14	2.1	15	93	6	53	6	26	20	46	1.75
7913773--7914196	216	2.0	216	100	0	848	42	14	9	33	1.78
7914256--7914455	42	4.7	42	87	6	278	20	19	22	38	1.94
7914265--7914455	86	2.2	87	94	3	334	19	19	21	38	1.94
7914256--7914463	65	3.2	65	81	9	234	21	19	22	37	1.95
7914548--7914600	6	9.5	6	93	2	69	28	52	16	1	1.54
7914552--7914603	5	9.6	5	93	2	59	26	51	19	1	1.57
7915216--7915330	21	5.5	21	84	6	153	22	20	24	32	1.98
7915216--7915330	41	2.8	42	86	4	153	22	20	24	32	1.98
7915807--7915895	38	2.4	38	88	7	137	37	37	11	14	1.82
7916084--7916147	28	2.3	28	94	2	112	43	35	7	12	1.71
7915758--7916530	258	2.9	258	88	6	1096	36	27	11	23	1.90
7916332--7916410	38	2.1	37	92	2	131	39	36	10	13	1.79
7916735--7916789	13	4.2	13	75	13	58	49	12	3	34	1.59
7916775--7916906	33	4.0	33	96	1	230	45	15	6	31	1.73
7916901--7916940	21	1.9	21	94	0	71	47	7	15	30	1.72
7920874--7920956	41	2.0	41	100	0	166	28	16	4	49	1.66
7921190--7921440	123	2.0	125	98	1	488	45	11	16	26	1.82
7925095--7925147	27	2.0	27	82	10	65	60	5	13	20	1.53
7927501--7927678	29	6.1	28	73	21	129	37	8	1	53	1.39
7927571--7927644	21	3.5	22	77	15	75	37	6	1	54	1.36
7927577--7927678	29	3.7	29	89	5	140	38	7	0	52	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7927610--7927652	21	2.0	21	86	8	61	37	6	0	55	1.27
7927514--7927669	8	20.8	8	72	21	108	37	8	0	53	1.36
7927693--7927881	7	26.0	7	70	14	53	55	2	6	36	1.38
7927691--7927823	38	3.4	39	77	14	121	54	3	6	36	1.41
7927692--7927957	50	5.1	52	71	20	180	53	1	7	36	1.40
7927729--7927795	17	4.2	16	75	14	59	55	1	5	37	1.34
7927722--7927795	24	3.1	24	76	5	80	56	1	5	36	1.31
7927730--7927803	32	2.5	31	85	12	93	54	1	6	37	1.36
7927825--7928109	14	19.4	14	70	22	114	53	1	10	35	1.42
7927693--7928087	35	11.1	35	75	18	288	53	1	8	35	1.43

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