genome.fa.s8747.2.7.7.80.10.50.1000.27.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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  27  of  51  ( 6054 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)
7236944--7237003	26	2.3	26	100	0	120	33	10	15	41	1.80
7236963--7237116	66	2.4	64	82	8	186	29	12	13	43	1.82
7239868--7239931	31	2.1	31	84	0	83	51	7	12	28	1.67
7241572--7241676	51	2.1	51	100	0	210	21	14	16	47	1.82
7243817--7243886	23	3.0	24	71	12	63	41	2	1	54	1.24
7249871--7250013	71	2.0	71	100	0	286	23	9	15	51	1.73
7253342--7253457	29	3.8	29	71	18	99	23	23	15	37	1.93
7253301--7253623	65	5.0	65	87	1	414	22	21	14	41	1.89
7253371--7253493	36	3.6	36	71	20	104	23	23	14	38	1.92
7253650--7253753	40	2.6	40	90	0	154	25	29	20	24	1.99
7253689--7254027	131	2.5	134	82	3	400	27	30	17	24	1.97
7254213--7254240	3	9.3	3	100	0	56	32	0	0	67	0.91
7255910--7255937	2	14.0	2	100	0	56	50	0	0	50	1.00
7256682--7256726	23	2.0	23	82	8	56	44	8	2	44	1.47
7256697--7256760	23	2.7	22	81	15	67	43	3	1	51	1.26
7263037--7263068	2	16.0	2	100	0	64	50	0	0	50	1.00
7263254--7263309	23	2.4	23	84	0	76	35	25	23	16	1.94
7263254--7263316	23	2.7	22	80	4	63	33	26	20	19	1.96
7263275--7263332	23	2.5	23	80	5	55	37	24	24	13	1.91
7263471--7263575	45	2.3	45	80	3	113	34	19	9	37	1.84
7267878--7267957	23	3.5	23	87	3	81	30	18	26	25	1.98
7267899--7267967	23	3.0	23	89	0	102	31	18	26	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7269406--7269637	54	4.3	53	81	9	247	28	18	18	34	1.95
7269412--7269637	108	2.1	107	83	4	276	28	17	19	34	1.94
7274326--7274377	20	2.5	21	85	14	65	50	7	3	38	1.50
7274876--7275003	59	2.2	59	81	0	139	33	22	14	29	1.93
7279276--7279418	54	2.6	54	91	0	232	25	19	20	34	1.96
7279151--7279416	141	1.9	141	83	4	349	26	19	19	34	1.96
7283212--7283354	54	2.6	54	88	0	214	27	18	18	35	1.94
7283087--7283352	141	1.9	141	83	6	351	28	18	17	35	1.94
7283727--7283775	19	2.6	19	96	0	89	20	30	12	36	1.89
7288023--7288064	2	21.0	2	100	0	84	50	0	0	50	1.00
7288351--7288439	45	2.0	45	84	4	117	34	21	3	40	1.70
7288936--7288975	20	2.0	20	85	4	55	37	17	15	30	1.90
7292037--7292480	220	2.0	220	91	3	723	46	12	13	27	1.80
7292400--7292446	24	2.0	24	82	0	58	68	4	17	10	1.35
7293579--7293603	12	2.1	12	100	0	50	16	32	8	44	1.76
7298715--7299062	37	9.6	37	73	10	227	30	18	10	40	1.84
7298716--7299066	73	4.9	73	78	9	319	30	17	10	41	1.83
7298715--7299109	71	5.5	70	80	5	380	30	17	10	41	1.83
7300822--7300959	73	1.9	72	85	4	188	34	14	10	39	1.81
7300806--7300974	73	2.3	74	77	8	184	31	14	11	42	1.82
7307872--7307919	20	2.2	21	85	14	62	58	6	0	35	1.23
7308960--7308990	15	2.1	15	100	0	62	25	38	12	22	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7308962--7308997	15	2.4	15	90	0	54	30	36	13	19	1.91
7313723--7314070	175	2.0	175	98	0	669	31	13	23	30	1.94
7317783--7317821	16	2.5	15	84	8	51	28	5	0	66	1.12
7318548--7318615	24	2.8	24	81	0	82	26	16	19	38	1.92
7320870--7320905	18	2.0	18	94	0	63	55	22	2	19	1.56
7321141--7321201	29	2.1	29	90	0	95	32	26	16	24	1.96
7321280--7321329	25	2.0	25	96	0	91	26	8	22	44	1.80
7321714--7321750	18	2.1	18	89	0	56	29	8	10	51	1.65
7321706--7321758	24	2.2	24	89	0	79	33	5	13	47	1.66
7322946--7323046	20	5.1	20	86	2	141	18	18	22	39	1.92
7323120--7323254	37	3.5	37	71	21	125	49	17	1	31	1.56
7323173--7323209	14	2.6	14	100	0	74	48	21	0	29	1.50
7323109--7323301	78	2.5	78	94	3	329	51	17	2	29	1.57
7324631--7324749	21	5.7	21	76	3	96	23	18	32	25	1.97
7324631--7324753	63	2.0	63	90	6	196	23	18	33	24	1.97
7325156--7325221	21	3.1	21	91	0	105	33	37	15	13	1.86
7326908--7326991	20	4.2	20	89	1	116	50	23	15	10	1.75
7327400--7327453	22	2.5	22	81	0	72	20	16	40	22	1.91
7327601--7327730	20	6.5	20	91	0	215	16	11	23	49	1.78
7327620--7327751	60	2.2	60	83	2	158	18	11	24	45	1.82
7330036--7330104	2	34.5	2	78	16	72	47	2	2	46	1.32
7330040--7330104	20	3.2	21	85	12	82	47	3	3	46	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7330055--7330166	20	5.3	21	72	16	72	46	3	4	45	1.40
7330118--7330227	30	3.6	30	78	9	107	43	3	4	48	1.41
7330182--7330334	83	1.9	83	83	8	206	47	6	4	41	1.50
7330265--7330543	20	13.8	20	71	15	130	48	3	3	44	1.37
7330179--7330359	81	2.2	80	77	13	190	45	6	4	44	1.48
7330344--7330404	21	2.9	22	78	11	65	44	3	3	49	1.35
7330411--7330546	60	2.3	59	91	5	220	50	2	2	44	1.29
7330344--7330474	11	12.5	11	70	11	78	47	2	3	47	1.30
7330459--7330595	20	6.8	20	74	12	93	52	2	3	40	1.34
7330411--7330595	60	3.1	60	84	6	180	51	2	3	42	1.32
7330531--7331332	171	4.7	167	73	15	665	51	2	7	37	1.46
7330742--7330947	2	105.0	2	68	21	89	51	1	5	41	1.35
7330752--7330876	43	2.9	43	77	16	125	52	1	8	38	1.41
7330611--7331422	15	54.7	15	65	26	161	51	2	8	37	1.45
7330990--7331092	28	3.5	28	72	15	84	46	1	9	41	1.48
7331160--7331354	22	9.6	20	70	21	74	52	3	8	35	1.47
7331293--7331385	17	6.0	17	75	15	78	52	2	10	34	1.48
7331046--7331348	138	2.2	139	86	5	432	51	3	7	36	1.47
7331380--7331428	2	24.5	2	91	0	80	44	0	4	51	1.20
7331453--7331487	2	18.0	2	94	5	63	48	0	0	51	1.00
7331474--7331783	36	8.4	34	75	16	171	43	1	7	47	1.41
7331543--7331778	77	3.1	76	83	8	291	43	1	6	47	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7331543--7331783	39	6.3	39	79	14	182	43	1	6	48	1.39
7331543--7331747	38	5.2	41	79	16	147	43	1	7	46	1.42
7331671--7331733	13	4.9	13	70	24	53	41	0	11	47	1.39
7331570--7331832	38	6.9	37	83	6	278	42	1	6	48	1.39
7331846--7331897	4	13.0	4	80	15	63	25	3	0	71	1.03
7331836--7331890	26	2.2	26	93	3	94	25	5	0	69	1.10
7333349--7333382	14	2.3	15	90	5	52	17	0	0	82	0.67
7333730--7333830	2	52.0	2	75	16	88	48	0	3	46	1.27
7333791--7333843	26	2.0	28	85	7	74	52	1	1	43	1.23
7333858--7333905	22	2.2	22	88	0	69	64	0	6	29	1.18
7333867--7333918	22	2.4	21	87	12	70	61	0	5	32	1.20
7333920--7333979	2	31.0	2	80	6	61	48	5	1	45	1.34
7333877--7333977	15	6.3	16	70	17	59	51	2	4	40	1.39
7333957--7334044	32	2.8	32	74	10	81	48	3	4	43	1.40
7334038--7334171	26	4.9	27	74	18	98	52	3	7	36	1.48
7334132--7334204	24	3.2	24	72	16	84	52	4	5	38	1.44
7334272--7334354	41	2.0	41	82	13	100	39	3	2	54	1.31
7334273--7334335	2	32.0	2	72	15	51	42	3	1	52	1.27
7334306--7334497	6	29.5	6	70	20	50	34	7	2	55	1.39
7334357--7334443	21	4.1	22	82	11	103	34	8	2	55	1.42
7334289--7334443	20	7.5	21	72	21	114	37	7	1	53	1.39
7334358--7334443	43	2.0	42	84	10	113	33	8	2	55	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7334357--7334443	8	12.2	8	71	22	70	34	8	2	55	1.42
7334533--7334646	40	2.9	40	76	13	105	49	0	8	41	1.40
7334579--7334660	21	4.0	21	85	13	102	52	1	8	37	1.40
7334592--7334645	8	7.5	8	76	23	66	51	0	9	38	1.34
7334695--7334762	26	2.6	26	86	9	93	39	10	2	47	1.53
7335251--7335296	24	1.9	24	86	8	67	34	10	2	52	1.49
7335379--7335509	22	6.0	21	77	12	97	51	1	11	35	1.47
7335380--7335475	15	6.5	15	71	14	83	52	0	11	36	1.38
7335384--7335540	73	2.1	73	83	8	194	52	2	10	34	1.49
7335382--7335509	8	17.4	7	69	22	68	51	1	11	35	1.48

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