genome.fa.s7957.2.7.7.80.10.50.1000.29.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

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   

This is table  29  of  43  ( 5063 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)
5837671--5837786	24	4.7	24	73	14	78	74	2	7	15	1.16
5837679--5837812	16	8.1	16	68	21	57	73	2	8	15	1.20
5838954--5839004	17	3.0	16	80	13	50	74	3	3	17	1.12
5839121--5839203	23	3.6	23	98	0	157	44	12	4	38	1.63
5839192--5839216	12	2.1	12	100	0	50	44	8	8	40	1.63
5839231--5839311	38	2.1	40	93	4	139	49	6	2	41	1.41
5839169--5839332	91	1.9	88	83	8	217	45	7	3	43	1.47
5840014--5840868	80	10.6	80	87	1	1154	23	20	23	32	1.98
5840831--5840893	27	2.4	27	94	2	110	20	17	26	34	1.95
5840758--5840975	107	2.0	107	89	1	330	25	18	22	33	1.97
5840673--5841055	187	2.1	187	87	1	554	25	19	22	33	1.97
5840859--5841162	80	3.8	79	85	2	374	25	18	21	35	1.96
5840857--5841162	160	1.9	161	86	3	438	24	18	21	35	1.96
5842002--5842258	95	2.7	95	80	6	275	32	17	17	32	1.94
5845028--5845083	28	1.9	30	82	13	73	73	1	7	17	1.15
5846111--5846167	17	3.2	17	73	23	55	77	1	3	17	1.00
5846116--5846166	11	4.2	12	79	20	61	76	1	1	19	0.98
5846116--5846174	18	3.2	18	75	17	59	76	3	1	18	1.02
5846234--5846306	32	2.3	31	84	11	94	47	4	1	46	1.30
5846206--5846306	33	3.1	34	80	12	113	47	6	0	44	1.36
5846249--5846368	62	2.0	61	88	6	181	45	6	4	43	1.49
5846317--5846455	35	3.8	36	72	16	106	50	7	2	39	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5846249--5846386	62	2.2	62	80	13	158	47	5	3	43	1.45
5846323--5846412	40	2.2	43	86	7	125	51	5	2	41	1.38
5846389--5846526	34	3.9	34	79	9	116	45	9	3	41	1.54
5846399--5846543	35	4.1	36	72	11	120	45	7	3	43	1.49
5854340--5854423	23	3.8	22	81	7	89	21	30	27	20	1.98
5866425--5866503	32	2.5	32	85	4	106	34	15	10	40	1.81
5867777--5867840	31	2.1	31	88	5	94	25	14	25	35	1.93
5878524--5878575	21	2.4	21	84	12	61	38	9	0	51	1.35
5879334--5879378	7	6.4	7	92	0	63	37	6	0	55	1.26
5879466--5879523	19	3.1	19	73	22	52	56	0	1	41	1.09
5879466--5879509	20	2.2	20	88	8	63	56	0	2	40	1.11
5881370--5881456	23	3.8	23	79	0	75	32	28	17	21	1.96
5883421--5883485	27	2.4	27	89	0	94	53	13	1	30	1.49
5883919--5883990	36	2.0	36	100	0	144	27	19	5	47	1.72
5897819--5897893	21	3.7	21	78	7	75	26	13	20	40	1.89
5898985--5899418	217	2.0	216	99	0	850	35	9	22	32	1.87
5899798--5899972	64	2.8	63	84	3	201	35	20	17	26	1.95
5900614--5900766	61	2.5	61	92	5	249	19	18	23	37	1.94
5900614--5900766	31	5.0	31	92	6	251	19	18	23	37	1.94
5901578--5901608	16	2.0	15	93	6	53	41	6	12	38	1.69
5904301--5904425	62	2.0	62	89	3	189	20	18	22	38	1.93
5904301--5904411	31	3.6	31	96	0	195	18	18	22	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5907177--5907395	64	3.4	64	82	3	219	33	18	19	27	1.96
5908052--5908163	31	3.6	31	96	0	206	17	18	23	40	1.91
5910642--5910744	29	3.6	29	92	1	163	21	22	13	42	1.87
5910760--5910794	12	2.9	12	91	0	52	37	25	5	31	1.80
5911144--5911309	64	2.6	64	85	4	210	26	22	19	31	1.98
5917474--5917521	15	3.2	15	84	0	69	33	33	18	14	1.91
5917606--5917737	29	4.6	29	95	0	230	19	21	15	43	1.88
5918094--5918270	64	2.8	64	80	5	187	25	20	21	32	1.98
5918157--5918318	64	2.5	63	85	5	193	26	22	19	31	1.98
5920001--5920033	16	2.0	17	94	5	59	63	0	6	30	1.18
5920232--5920306	24	3.2	24	67	24	68	30	20	22	26	1.98
5920235--5920306	23	3.1	23	68	18	67	29	20	23	26	1.99
5920238--5920320	23	3.6	23	71	15	64	31	24	21	22	1.98
5920426--5920476	25	2.0	26	88	3	77	31	21	21	25	1.98
5920564--5920623	31	2.0	31	96	3	113	33	26	0	40	1.57
5927401--5927486	23	3.7	23	70	13	77	29	23	23	24	1.99
5927728--5927791	31	2.1	31	94	2	112	34	23	4	37	1.76
5931567--5931612	19	2.6	18	86	6	58	63	0	10	26	1.27
5932056--5932168	60	1.9	60	84	0	154	34	9	13	42	1.77
5940101--5940187	35	2.5	34	80	12	97	55	9	8	27	1.60
5940395--5940472	3	26.0	3	84	0	84	7	35	25	30	1.84
5940389--5940487	30	3.3	30	98	0	189	10	35	23	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5940415--5940490	6	12.7	6	82	0	62	11	36	21	30	1.89
5940789--5940844	27	2.1	27	93	0	94	26	14	39	19	1.90
5942372--5942702	111	2.9	111	91	2	518	46	9	7	36	1.64
5943550--5943813	133	2.0	132	94	0	465	39	10	14	35	1.80
5946451--5947069	310	2.0	309	97	0	1157	38	22	11	27	1.88
5949755--5949835	23	3.7	22	83	6	94	35	28	16	19	1.93
5949758--5949901	21	6.7	21	76	10	87	39	23	12	24	1.89
5954970--5955016	24	2.0	25	87	8	71	38	0	2	59	1.09
5957574--5957616	21	2.1	21	86	4	61	55	0	4	39	1.20
5957600--5957644	12	3.8	12	93	0	72	37	0	0	62	0.96
5958086--5958120	9	3.8	9	85	7	52	57	0	0	42	0.99
5958491--5958649	31	5.0	31	78	9	149	54	1	5	38	1.35
5958644--5958745	30	3.5	30	74	11	104	61	0	1	35	1.14
5958641--5958695	24	2.2	26	75	21	64	65	0	0	34	0.93
5958646--5958736	27	3.3	27	74	20	71	61	1	2	35	1.15
5958641--5958795	31	5.2	30	74	14	119	59	0	2	37	1.16
5959293--5959327	9	3.8	9	85	7	52	40	0	0	60	0.97
5961886--5961955	34	2.1	34	100	0	140	35	5	27	31	1.80
5968609--5969095	257	1.9	252	90	3	780	29	12	18	40	1.87
5969416--5969533	61	1.9	61	92	0	200	35	22	11	31	1.89
5970085--5970121	2	18.5	2	89	10	58	48	0	2	48	1.15
5971294--5971383	16	4.9	18	67	17	53	45	7	3	43	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5972111--5972144	14	2.5	13	86	9	50	79	0	17	2	0.86
5974023--5974078	24	2.3	24	88	11	80	73	5	14	7	1.23
5975004--5975059	29	1.9	29	81	0	67	44	10	5	39	1.62
5977136--5977164	11	2.6	11	100	0	58	41	6	0	51	1.28
5977220--5977249	13	2.3	13	94	0	51	80	10	0	10	0.92
5981568--5981609	22	2.0	21	86	9	59	28	26	14	30	1.95
5981582--5981622	20	2.0	20	85	0	55	36	21	9	31	1.86
5985079--5985119	20	2.0	20	85	0	55	46	4	12	36	1.63
5985292--5985345	20	2.7	20	88	0	72	33	18	16	31	1.93
5987007--5987034	6	4.7	6	100	0	56	53	0	0	46	1.00
5989465--5989513	25	1.9	26	91	4	82	48	4	8	38	1.52
5989529--5989574	15	3.1	15	90	0	74	39	0	6	54	1.26
5989517--5989573	8	7.5	8	74	16	50	38	0	5	56	1.22
5989564--5989596	17	2.0	17	88	5	50	39	0	15	45	1.46
5989590--5989679	24	3.8	23	77	16	78	44	4	3	47	1.39
5989624--5989676	24	2.2	24	86	0	79	47	5	3	43	1.45
5989597--5989663	34	2.0	34	85	5	91	46	4	1	47	1.31
5989822--5989880	13	4.5	13	85	6	66	47	3	8	40	1.51
5989824--5989881	27	2.2	25	85	8	80	44	3	8	43	1.51
5991371--5991426	13	4.3	13	88	6	87	41	7	5	46	1.54
5991378--5991426	25	1.9	26	95	4	91	40	8	4	46	1.52
5998645--5998692	21	2.3	21	100	0	96	29	18	6	45	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6001397--6001435	19	2.1	19	100	0	78	28	5	15	51	1.64
6001470--6001576	31	3.5	31	94	0	187	30	14	5	49	1.66
6003021--6003106	7	12.3	7	74	9	59	44	32	0	23	1.54
6003021--6003106	14	6.1	14	77	5	66	44	32	0	23	1.54
6003017--6003070	28	1.9	28	88	7	83	42	37	0	20	1.52
6003022--6003109	35	2.5	35	85	7	115	45	30	0	23	1.53
6003019--6003104	21	4.0	21	72	17	70	44	32	0	23	1.54
6004299--6004352	23	2.3	23	87	0	81	29	12	22	35	1.91
6004406--6004436	16	1.9	16	100	0	62	12	9	25	51	1.70
6004966--6005005	19	2.1	19	85	0	53	55	7	2	35	1.42

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