genome.fa.s1129.2.7.7.80.10.50.1000.33.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  33  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)
7098843--7099170	45	7.3	45	85	0	395	24	21	9	44	1.82
7099030--7099099	21	3.2	21	66	18	52	18	24	8	48	1.76
7108559--7108583	13	1.9	13	100	0	50	44	8	8	40	1.63
7110240--7110265	3	8.7	3	100	0	52	69	30	0	0	0.89
7113782--7113845	15	4.2	15	71	11	58	42	12	12	32	1.80
7113636--7114041	210	1.9	211	92	1	681	29	17	19	33	1.95
7114891--7114935	23	2.0	22	83	12	56	55	11	2	31	1.47
7115801--7115880	32	2.5	32	80	8	92	33	17	12	36	1.87
7116946--7117002	20	2.8	20	76	5	62	24	15	29	29	1.96
7123038--7123146	32	3.4	32	69	5	94	40	9	17	33	1.81
7123142--7123234	32	2.9	32	88	0	132	31	13	20	34	1.92
7124981--7125101	58	2.1	58	93	0	206	36	9	29	23	1.88
7126885--7126952	29	2.4	28	78	11	75	47	2	2	47	1.32
7128290--7128634	170	2.0	174	97	2	653	17	21	17	44	1.87
7128762--7128869	41	2.6	41	85	7	130	27	16	22	33	1.95
7128884--7128959	21	3.6	21	94	3	127	35	10	25	28	1.89
7128889--7128995	21	5.4	20	76	18	73	36	13	24	26	1.92
7128931--7129142	39	5.6	37	83	10	186	33	17	19	28	1.95
7128955--7129140	39	4.8	39	88	3	254	33	18	19	27	1.96
7129144--7129532	76	5.1	76	87	1	491	40	13	15	30	1.85
7129205--7129399	36	5.2	36	65	11	113	40	11	14	33	1.82
7129413--7129538	35	3.5	35	72	10	126	40	15	17	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7129093--7129532	76	5.9	75	84	4	484	40	13	15	30	1.86
7129276--7129558	40	7.6	36	68	12	126	38	13	16	31	1.87
7130892--7130932	18	2.3	18	87	8	57	0	19	2	78	0.87
7132365--7132405	19	2.2	19	90	0	64	24	34	4	36	1.77
7132371--7132413	19	2.3	19	91	0	68	20	34	9	34	1.85
7134211--7134278	29	2.4	28	78	11	75	47	2	2	47	1.32
7136490--7136542	20	2.5	22	82	11	67	64	5	5	24	1.38
7136637--7136705	31	2.2	30	80	12	77	23	5	4	66	1.31
7136658--7136705	21	2.2	22	78	10	55	20	4	4	70	1.21
7140340--7140414	31	2.4	31	81	0	87	50	5	9	34	1.57
7140341--7140427	31	2.8	31	80	0	75	49	8	10	32	1.66
7148376--7148584	65	3.2	64	82	10	246	26	17	23	32	1.97
7151268--7151374	45	2.3	46	87	7	148	32	20	19	27	1.97
7154159--7154360	65	3.1	64	84	11	259	26	17	23	31	1.97
7154126--7154362	130	1.8	130	83	8	322	27	18	23	30	1.98
7161366--7161523	66	2.4	66	84	8	191	26	18	23	31	1.98
7169390--7169707	113	2.8	114	76	8	315	29	19	13	36	1.90
7169616--7169784	77	2.2	77	84	2	214	33	19	12	34	1.89
7169687--7169959	117	2.3	117	85	1	361	29	20	12	37	1.89
7170882--7170926	7	6.4	7	87	12	58	0	15	0	84	0.62
7170882--7170936	28	1.9	28	85	10	76	1	16	1	80	0.90
7170880--7170945	6	11.2	6	76	15	66	3	15	1	80	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7174434--7174463	7	4.3	7	91	0	51	66	0	13	20	1.24
7182599--7182648	5	10.4	5	85	8	68	78	2	2	18	0.95
7182600--7182624	13	1.9	13	100	0	50	80	4	0	16	0.87
7185084--7185323	54	4.4	54	87	4	324	26	16	23	33	1.96
7193979--7194018	21	2.0	20	90	5	62	25	22	10	42	1.84
7200159--7200202	20	2.2	20	87	0	61	20	27	50	2	1.60
7210021--7210107	45	1.9	45	90	4	140	45	8	10	35	1.68
7214945--7216147	659	1.8	658	86	2	1725	36	16	14	33	1.88
7216443--7216473	13	2.4	13	100	0	62	19	16	6	58	1.59
7219141--7219188	19	2.5	19	93	0	78	31	27	18	22	1.97
7219237--7219301	20	3.2	20	72	12	69	23	23	18	35	1.96
7219325--7219395	21	3.4	21	75	14	83	19	19	26	33	1.96
7219301--7219405	42	2.5	42	92	0	174	20	20	22	37	1.95
7219316--7219386	19	3.5	19	73	14	70	21	19	23	35	1.96
7219478--7219525	5	9.6	5	79	0	51	39	25	35	0	1.56
7219478--7219525	20	2.4	20	89	0	69	39	25	35	0	1.56
7220107--7220167	21	2.9	21	77	13	63	31	19	22	26	1.98
7220157--7220229	20	3.6	20	79	17	96	23	21	19	35	1.96
7220152--7220250	41	2.4	42	93	3	166	24	22	20	33	1.97
7220135--7220254	62	1.9	62	80	12	140	25	22	20	31	1.98
7220152--7220254	21	5.0	21	73	21	76	24	22	20	33	1.97
7220176--7220270	21	4.6	21	79	11	97	23	22	23	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7223618--7223655	20	1.9	20	94	0	67	23	21	18	36	1.95
7223627--7223670	20	2.2	20	83	0	52	29	18	11	40	1.85
7223722--7223756	18	1.9	18	94	0	61	40	20	20	20	1.92
7227284--7227604	103	3.1	103	95	0	570	24	12	23	38	1.90
7227623--7227672	23	2.2	23	92	0	82	20	32	24	24	1.98
7227629--7227683	23	2.4	23	87	0	74	20	23	27	29	1.99
7233798--7233916	64	1.9	63	80	5	141	37	20	18	23	1.94
7234391--7234711	103	3.1	103	97	0	588	24	12	24	37	1.90
7234728--7234790	23	2.7	22	72	13	56	20	23	23	31	1.98
7235003--7235031	14	2.0	15	93	6	51	34	0	3	62	1.12
7236728--7236767	20	2.0	21	95	5	73	32	22	20	25	1.98
7239461--7239844	41	9.4	41	79	10	292	26	17	20	35	1.95
7241949--7242050	36	2.7	38	80	6	118	33	4	8	52	1.54
7242256--7242932	351	1.9	351	95	0	1210	23	14	20	41	1.90
7243957--7244323	43	8.6	43	80	7	311	23	21	21	33	1.97
7243957--7244353	128	3.1	123	77	11	329	23	20	21	34	1.97
7244186--7244351	43	3.9	43	78	7	162	27	21	18	32	1.97
7251725--7251876	60	2.5	59	79	8	139	42	5	20	32	1.74
7255818--7255861	14	2.8	15	80	19	54	45	0	0	54	0.99
7255819--7255852	15	2.3	15	95	5	61	44	0	0	55	0.99
7255825--7255860	19	1.9	18	88	5	54	38	0	0	61	0.96
7255874--7255902	10	2.7	11	94	5	51	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7255930--7256042	38	3.0	38	89	5	167	46	0	2	50	1.21
7256998--7257031	16	2.1	17	88	5	52	64	0	0	35	0.94
7262900--7263201	117	2.6	117	87	3	430	32	33	15	18	1.92
7264153--7264251	29	3.4	29	92	2	164	39	23	7	30	1.81
7270350--7270651	117	2.6	117	85	2	403	31	32	15	20	1.94
7271570--7271648	29	2.7	29	86	3	97	41	22	2	32	1.67
7271597--7271701	29	3.6	29	80	8	115	40	24	5	29	1.78
7271724--7271764	18	2.3	18	87	4	57	14	19	43	21	1.87
7275571--7275636	32	2.1	32	100	0	132	25	12	10	51	1.71
7284047--7284121	26	2.9	26	92	2	116	42	9	4	44	1.55
7284069--7284251	55	3.3	55	81	8	201	44	12	2	39	1.57
7284069--7284253	28	6.6	28	86	4	223	44	12	2	39	1.57
7284069--7284336	29	9.5	28	83	4	238	44	14	2	38	1.59
7288536--7288608	25	2.8	26	91	4	121	41	9	4	45	1.56
7288536--7288773	28	8.6	27	79	10	146	42	12	3	41	1.58
7288584--7288772	28	6.6	29	88	2	231	43	12	3	40	1.59
7288559--7288773	57	3.8	57	81	5	244	43	12	3	40	1.59
7288771--7288850	29	2.7	29	88	1	115	40	17	3	38	1.68
7288960--7288986	11	2.5	11	100	0	54	48	7	11	33	1.67
7289545--7289602	2	30.0	2	93	6	102	51	0	0	48	1.00
7289713--7289900	71	2.7	71	87	1	254	29	22	9	39	1.84
7289718--7290129	34	11.9	34	67	13	198	29	20	8	41	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7289781--7289987	104	2.0	104	84	0	272	29	21	8	40	1.83
7289814--7290147	70	4.8	69	74	10	182	30	20	8	41	1.82
7291989--7292037	23	2.1	23	96	0	89	28	44	2	24	1.65
7293335--7293376	13	3.2	13	93	0	75	33	21	11	33	1.90
7296089--7296133	18	2.5	18	100	0	90	44	20	8	26	1.80
7301840--7301883	21	2.0	22	86	4	63	47	0	2	50	1.13
7302430--7302463	7	4.9	7	96	0	59	47	29	23	0	1.52
7302422--7302507	17	5.2	17	71	14	72	46	29	22	2	1.64
7302425--7302497	24	3.0	24	84	4	85	46	28	23	1	1.60
7305386--7305457	29	2.4	29	81	2	81	11	8	37	43	1.71

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