genome.fa.s1547.2.7.7.80.10.50.1000.37.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  37  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)
7184185--7184276	39	2.3	39	84	1	112	41	26	17	15	1.88
7184860--7184907	20	2.4	20	92	0	78	27	20	27	25	1.99
7184933--7184969	19	1.9	19	88	0	56	21	13	29	35	1.92
7193926--7194317	194	2.0	195	91	1	635	36	11	15	36	1.83
7195380--7195480	28	3.6	27	82	10	123	49	4	1	43	1.35
7197183--7197228	24	2.0	22	87	8	65	63	4	0	32	1.14
7197271--7197303	16	2.1	16	88	11	50	12	45	3	39	1.57
7197788--7197813	7	3.7	7	100	0	52	15	0	0	84	0.62
7199414--7199460	14	3.4	14	72	21	53	34	4	0	61	1.15
7199407--7199483	19	3.5	20	70	24	57	28	6	0	64	1.18
7199395--7199460	28	2.3	28	94	2	114	33	4	0	62	1.16
7199435--7199483	19	2.5	21	87	9	68	26	6	0	67	1.14
7199435--7199483	20	2.5	20	90	3	73	26	6	0	67	1.14
7201451--7201498	23	2.1	23	96	0	87	4	27	4	64	1.30
7202829--7202860	16	1.9	17	93	6	57	37	25	0	37	1.56
7204151--7204202	15	3.5	14	75	12	50	38	0	1	59	1.08
7204342--7204381	15	2.7	15	88	11	64	22	5	5	67	1.30
7204346--7204383	14	2.6	14	95	4	67	18	7	7	65	1.43
7204952--7204989	13	3.0	13	88	3	60	44	0	0	55	0.99
7208414--7208454	18	2.2	19	83	12	50	36	0	4	58	1.20
7229583--7229690	31	3.5	31	79	3	103	24	18	22	35	1.96
7232917--7232953	18	2.1	17	90	5	56	27	21	18	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7233512--7233801	149	2.0	147	95	4	525	36	13	22	26	1.92
7233751--7233857	31	3.5	30	78	7	92	25	18	20	35	1.95
7233804--7233878	30	2.5	29	82	4	87	20	20	25	34	1.96
7245755--7245787	16	2.1	16	100	0	66	24	0	33	42	1.55
7247630--7247710	40	2.0	40	92	0	135	33	8	22	35	1.85
7252742--7252782	20	2.1	20	86	4	57	34	2	0	63	1.08
7253189--7253242	23	2.3	23	80	6	63	48	0	1	50	1.11
7255285--7255323	3	13.0	3	91	0	60	61	2	33	2	1.23
7257481--7257560	23	3.5	23	89	3	117	17	20	6	56	1.62
7257553--7257602	23	2.2	23	92	0	82	26	24	2	48	1.62
7257527--7257586	26	2.3	26	80	5	68	20	25	0	55	1.44
7263951--7263976	2	13.0	2	100	0	52	50	0	0	50	1.00
7265306--7265358	21	2.5	21	81	6	63	20	24	18	35	1.95
7265348--7265434	20	4.3	20	79	5	104	39	20	19	20	1.93
7265363--7265444	20	4.1	20	76	10	60	37	19	20	21	1.94
7266296--7266349	24	2.2	24	90	0	81	22	16	20	40	1.91
7267184--7267923	364	2.0	368	94	1	1308	27	13	21	36	1.92
7269358--7269424	20	3.3	20	89	0	98	37	22	20	19	1.95
7269450--7269540	20	4.8	20	80	15	113	16	19	21	41	1.90
7271413--7271462	20	2.5	20	93	0	82	50	24	14	12	1.76
7271434--7271507	33	2.2	34	85	7	98	44	25	18	10	1.82
7271832--7271893	22	3.0	22	72	18	69	20	14	37	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7272072--7272183	20	5.6	20	86	2	161	20	20	20	38	1.94
7272072--7272183	41	2.8	41	88	1	163	20	20	20	38	1.94
7272070--7272183	61	1.9	60	88	1	174	21	20	20	37	1.94
7272180--7272225	21	2.2	21	88	0	65	36	17	28	17	1.92
7272958--7273045	29	3.0	28	71	12	79	36	17	14	31	1.90
7282959--7283001	22	2.0	21	82	8	52	25	0	2	72	0.97
7286538--7287192	339	1.9	339	91	0	1078	36	16	24	21	1.94
7299219--7299283	6	10.7	6	76	14	53	52	6	0	41	1.26
7299219--7299283	24	2.7	24	97	0	121	52	6	0	41	1.26
7302973--7303018	16	2.9	16	83	0	56	50	32	13	4	1.61
7303271--7303480	75	2.8	75	85	2	251	24	31	22	21	1.98
7309260--7309310	23	2.3	23	83	6	70	17	43	21	17	1.88
7309292--7309331	21	1.9	21	89	0	62	25	40	25	10	1.86
7311947--7312114	75	2.2	75	84	0	210	22	32	23	22	1.98
7312938--7313023	23	3.5	24	66	17	61	63	3	2	30	1.23
7318464--7318575	40	2.8	40	78	2	109	29	25	12	32	1.93
7318548--7318595	18	2.5	19	83	10	62	29	22	14	33	1.94
7318732--7318769	16	2.5	15	84	12	51	28	5	0	65	1.14
7319523--7319576	24	2.2	24	93	0	90	20	18	20	40	1.91
7321841--7321897	29	2.0	29	92	0	96	28	12	22	36	1.90
7321847--7321906	29	2.1	29	81	6	68	33	15	23	28	1.94
7323360--7323473	21	5.4	21	74	4	95	25	19	34	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7323360--7323482	42	2.9	42	83	0	165	26	18	34	20	1.96
7324040--7324139	30	3.2	33	64	16	95	24	8	40	28	1.83
7324010--7324139	60	2.2	60	94	0	224	26	7	40	26	1.83
7325938--7325982	22	2.0	22	86	0	63	22	11	42	24	1.86
7326134--7326178	20	2.2	20	80	0	54	24	6	20	48	1.73
7328386--7328432	21	2.2	21	100	0	94	27	34	19	19	1.96
7328428--7328492	21	3.1	21	73	2	60	24	21	18	35	1.96
7328399--7328570	90	1.9	90	96	0	317	25	25	18	31	1.97
7328386--7328681	111	2.7	111	90	4	438	25	25	19	30	1.99
7328537--7328591	21	2.6	21	91	0	83	20	21	25	32	1.97
7328420--7328693	90	3.0	90	82	7	274	24	23	18	32	1.97
7328648--7328722	21	3.6	21	73	10	82	21	20	25	33	1.97
7328629--7328725	41	2.4	39	83	10	131	22	19	22	35	1.96
7328652--7328747	41	2.3	41	94	1	165	22	18	22	35	1.96
7329349--7329373	6	4.2	6	100	0	50	0	16	48	36	1.46
7329462--7329682	42	5.3	42	95	1	390	36	23	19	20	1.95
7333782--7333820	14	2.7	15	80	11	55	46	5	15	33	1.68
7334289--7334374	22	3.9	21	75	10	73	19	25	30	24	1.98
7342636--7342690	26	2.1	26	89	0	83	40	16	18	25	1.91
7342642--7342690	13	3.8	13	73	10	55	38	18	16	26	1.91
7344189--7344240	25	2.1	24	82	10	61	32	5	5	55	1.47
7354401--7354436	16	2.3	16	90	4	56	33	2	0	63	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7354540--7354615	2	38.0	2	100	0	152	50	0	0	50	1.00
7369352--7369398	21	2.2	21	85	7	60	44	6	0	48	1.28
7369637--7369695	19	3.0	20	90	5	93	54	0	5	40	1.23
7370004--7370132	60	2.1	61	83	8	158	33	22	4	39	1.75
7371101--7371140	2	20.0	2	100	0	80	50	0	0	50	1.00
7371588--7371632	17	2.6	17	75	0	54	42	0	0	57	0.98
7374896--7374955	25	2.4	25	86	5	86	55	8	6	30	1.55
7374884--7374949	25	2.4	28	73	19	66	46	10	4	37	1.59
7375331--7375371	21	2.0	21	85	0	55	63	0	7	29	1.21
7375861--7375902	2	21.0	2	100	0	84	50	0	0	50	1.00
7382351--7382468	60	2.0	60	85	6	159	38	17	12	30	1.87
7383038--7383155	60	2.0	60	81	0	137	28	22	8	39	1.83
7383288--7383434	60	2.4	64	74	14	146	41	2	21	34	1.67
7383459--7383521	33	1.9	33	90	0	99	33	19	11	36	1.87
7384756--7384803	14	3.4	14	76	2	51	50	8	0	41	1.33
7386271--7386313	16	2.5	17	85	11	61	16	4	2	76	1.05
7386363--7386432	31	2.2	32	82	10	81	21	4	2	71	1.16
7386464--7386527	31	2.1	30	83	13	78	21	1	3	73	1.06
7386453--7386518	10	6.6	10	75	19	57	19	0	6	74	1.03
7387179--7387241	27	2.2	29	77	11	76	47	3	0	49	1.17
7393519--7393569	25	2.1	25	96	3	95	19	9	25	45	1.81
7398750--7398778	13	2.2	13	100	0	58	31	31	27	10	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7398788--7398908	29	4.2	29	91	2	183	14	29	31	23	1.95
7398917--7398970	26	2.1	26	92	0	90	29	35	18	16	1.93
7398977--7399035	26	2.2	26	96	3	109	27	35	22	15	1.94
7398913--7399042	65	2.0	65	96	0	242	28	33	20	17	1.95
7399450--7399541	46	2.0	48	87	8	136	41	0	11	46	1.41
7399582--7399663	34	2.5	34	86	9	109	40	0	10	48	1.38
7399704--7399750	16	3.0	16	84	9	53	29	0	10	59	1.31
7399725--7399755	15	2.1	14	94	5	53	38	0	6	54	1.26
7401897--7401929	17	1.9	17	93	0	57	45	12	6	36	1.66
7401914--7401982	22	3.0	22	73	19	77	47	7	4	40	1.51

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