genome.fa.s8087.2.7.7.80.10.50.1000.5.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  5  of  37  ( 4336 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)
945763--945831	32	2.1	34	84	10	90	68	2	2	26	1.18
946793--946845	2	26.5	2	92	0	88	49	1	1	47	1.23
952876--952915	21	1.9	21	89	0	62	42	22	27	7	1.80
958522--958655	60	2.2	60	81	0	142	32	19	5	42	1.73
958781--958914	60	2.2	60	85	7	175	39	5	22	32	1.78
967703--967739	19	1.9	19	89	10	58	37	16	2	43	1.62
967778--967811	2	17.0	2	100	0	68	50	0	0	50	1.00
970654--970703	2	25.0	2	100	0	100	50	0	0	50	1.00
970787--970944	21	7.8	20	70	7	77	37	25	17	18	1.93
970912--971140	20	11.4	20	80	5	221	37	25	17	19	1.93
971833--971879	24	2.0	24	87	8	69	25	14	21	38	1.92
972054--972078	12	2.1	12	100	0	50	72	0	28	0	0.86
974377--974615	72	3.4	72	81	11	289	46	17	22	14	1.83
974363--974633	53	5.1	53	90	5	408	46	17	22	14	1.83
974353--974638	72	4.0	68	76	14	251	45	17	22	14	1.85
974610--974725	53	2.2	52	86	3	160	18	23	18	38	1.93
974629--974746	53	2.2	53	96	3	220	13	24	17	44	1.85
974648--974746	20	5.4	19	83	14	136	14	23	17	45	1.84
974856--974889	14	2.4	14	90	0	59	44	20	0	35	1.52
976814--976986	19	9.6	19	78	12	159	45	23	20	10	1.81
976908--976964	14	3.7	14	75	20	51	43	22	22	10	1.84
976889--976981	33	2.8	33	95	0	168	46	21	21	10	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
976848--976986	52	2.7	52	74	8	147	46	23	21	9	1.80
976998--977056	14	3.9	14	76	20	64	6	16	28	47	1.72
976982--977105	33	3.7	33	91	1	185	8	17	27	45	1.78
976982--977073	19	5.4	18	72	24	83	7	17	28	46	1.75
977031--977087	14	3.7	14	72	20	51	8	22	24	43	1.81
979020--979083	20	3.2	20	82	4	92	46	15	25	12	1.81
979018--979082	21	3.1	21	82	4	96	47	15	26	10	1.78
979018--979137	41	3.5	33	86	12	138	45	19	24	10	1.82
979059--979137	31	2.5	32	93	6	135	46	20	22	10	1.80
979154--979210	14	3.7	14	75	20	60	8	24	22	43	1.81
979138--979217	33	2.4	33	95	0	142	8	21	22	47	1.78
979198--979271	21	3.5	21	76	7	87	14	21	16	47	1.82
979349--979412	33	1.9	33	93	0	110	46	18	25	9	1.79
979792--979984	20	9.6	20	84	5	237	19	19	26	34	1.95
992015--992048	17	2.0	17	94	0	59	26	23	20	29	1.99
992740--992804	22	3.0	21	82	10	69	55	4	1	38	1.30
992740--992828	23	4.0	23	79	15	73	53	5	2	38	1.37
994041--994073	17	2.0	17	94	5	59	39	0	0	60	0.97
1001922--1001980	24	2.5	24	80	2	75	45	0	3	50	1.18
1002903--1002948	21	2.2	21	84	7	58	39	0	4	56	1.19
1004139--1004167	15	1.9	15	100	0	58	20	0	3	75	0.94
1004217--1004336	38	3.2	38	95	0	204	26	8	11	53	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1005101--1005412	157	2.0	157	98	0	606	21	20	16	40	1.91
1007680--1007718	19	2.0	21	85	14	57	61	2	0	35	1.10
1008444--1008474	16	1.9	16	100	0	62	51	19	9	19	1.74
1008928--1008969	22	2.0	20	86	9	57	26	0	0	73	0.83
1011590--1011659	22	3.3	21	66	18	56	47	7	2	42	1.45
1011590--1011670	41	2.0	41	97	0	153	46	8	2	41	1.48
1011604--1011673	22	3.3	22	67	18	67	47	10	1	41	1.46
1015787--1015813	8	3.4	8	100	0	54	51	0	48	0	1.00
1016701--1017049	112	3.1	111	88	3	488	45	13	14	26	1.81
1021696--1021755	12	5.4	11	74	16	52	20	23	25	31	1.98
1021696--1021755	23	2.6	22	89	2	84	20	23	25	31	1.98
1022364--1022424	11	5.4	11	74	18	54	21	22	24	31	1.98
1022373--1022414	12	3.6	12	77	6	50	21	21	26	30	1.98
1022364--1022424	23	2.6	22	89	5	86	21	22	24	31	1.98
1024837--1024931	7	13.9	7	87	4	131	42	37	0	20	1.52
1025131--1025171	14	3.1	14	76	20	52	41	0	4	53	1.22
1025131--1025178	25	1.9	25	86	0	69	43	0	4	52	1.20
1030709--1030931	100	2.2	101	89	7	353	27	13	21	37	1.90
1030940--1030994	23	2.4	23	87	0	74	20	27	25	27	1.99
1030930--1030994	23	2.8	23	78	2	58	23	23	21	32	1.98
1042955--1043032	28	2.8	28	92	2	120	48	10	3	37	1.55
1051227--1051251	12	2.1	12	100	0	50	40	0	8	52	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1051652--1051722	36	2.0	34	83	5	88	32	21	7	39	1.80
1052633--1052756	59	2.1	59	93	0	212	29	16	20	32	1.95
1058434--1058875	102	4.4	102	88	4	583	41	17	5	35	1.72
1067126--1067154	3	9.7	3	100	0	58	65	0	0	34	0.93
1067208--1067241	17	2.0	17	88	0	50	50	2	0	47	1.16
1068003--1068113	12	8.3	12	68	17	51	75	0	6	17	1.05
1068014--1068048	8	4.4	8	85	0	52	82	0	5	11	0.82
1068003--1068058	27	2.0	27	83	10	69	80	0	8	10	0.91
1068055--1068082	13	2.2	13	100	0	56	71	0	0	28	0.86
1068063--1068142	41	2.0	40	85	9	108	72	1	5	21	1.11
1068067--1068142	20	3.6	20	77	13	73	72	1	5	21	1.12
1068838--1068888	22	2.3	22	96	0	93	11	5	21	60	1.52
1069333--1069393	26	2.4	25	84	10	72	75	4	1	18	1.06
1069450--1069547	48	2.1	47	86	5	135	42	5	2	50	1.36
1069497--1069585	36	2.4	37	88	5	128	41	4	4	49	1.43
1069663--1069733	37	1.9	37	97	0	133	42	14	9	33	1.78
1070674--1070725	27	1.9	27	84	7	70	13	13	3	69	1.33
1075785--1076151	83	4.4	83	80	6	350	31	25	18	25	1.98
1076569--1076676	37	2.9	37	97	0	207	42	13	12	31	1.81
1077208--1077241	18	1.9	17	88	5	50	35	2	2	58	1.28
1077373--1077411	3	12.7	3	94	5	69	30	0	0	69	0.89
1077371--1077538	9	17.9	9	69	24	50	19	7	1	72	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1077385--1077425	17	2.3	17	87	8	55	26	2	0	70	0.99
1077420--1077465	17	2.7	17	80	12	58	17	8	0	73	1.07
1077473--1077539	30	2.3	29	79	7	73	13	7	2	76	1.12
1078026--1078088	12	5.1	12	70	14	56	41	6	7	44	1.59
1078024--1078114	38	2.4	38	85	3	121	45	6	5	42	1.53
1085790--1085843	2	27.0	2	100	0	108	50	0	0	50	1.00
1087793--1087817	9	2.8	9	100	0	50	44	24	8	24	1.80
1087928--1087967	20	2.0	20	85	9	55	45	0	5	50	1.23
1099818--1099860	16	2.7	16	88	0	68	41	11	6	39	1.68
1099794--1099840	22	2.1	22	96	0	85	46	8	6	38	1.60
1099887--1099982	11	8.2	11	69	15	50	40	8	3	47	1.49
1099894--1100028	24	5.7	24	78	11	118	45	9	1	43	1.45
1099974--1100044	14	4.7	14	68	21	54	53	11	0	35	1.37
1099974--1100048	15	4.9	15	74	19	75	53	10	0	36	1.36
1099964--1100064	47	2.2	46	96	1	184	52	9	0	37	1.35
1099973--1100064	21	4.1	23	77	21	97	53	8	0	38	1.32
1100574--1100707	66	2.0	66	89	2	207	35	23	6	33	1.81
1100314--1100967	326	2.0	325	98	1	1265	37	23	7	30	1.83
1104346--1104388	21	2.1	20	82	4	50	41	27	0	30	1.56
1111181--1111225	19	2.4	19	80	0	54	31	2	4	62	1.27
1111380--1111432	27	2.0	27	81	7	63	47	1	1	49	1.23
1116805--1116839	2	17.5	2	100	0	70	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)
1117887--1117973	43	2.0	43	100	0	174	34	16	9	40	1.80
1119715--1119750	14	2.6	14	86	0	54	41	30	11	16	1.83
1120132--1120168	15	2.5	15	95	0	65	8	70	16	5	1.30
1120698--1120774	32	2.4	32	100	0	154	24	12	35	27	1.92
1128021--1128072	20	2.5	21	81	3	61	40	19	23	17	1.91
1128061--1128174	20	5.7	20	81	6	104	31	24	18	25	1.97
1128058--1128174	61	1.9	61	83	0	153	33	23	17	24	1.97
1128653--1128719	19	3.5	19	81	2	80	49	25	16	8	1.74
1128720--1128854	33	3.9	33	85	10	189	10	22	21	45	1.82
1128715--1128879	19	9.1	19	78	14	179	11	23	20	45	1.83

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