genome.fa.s8243.2.7.7.80.10.50.1000.45.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   

This is table  45  of  49  ( 5786 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)
9234159--9234281	41	3.0	41	89	3	140	38	24	19	17	1.93
9234207--9234390	21	8.6	21	65	13	88	32	26	20	21	1.97
9234184--9234281	41	2.4	41	94	0	169	37	25	18	18	1.93
9234766--9234907	41	3.5	40	86	9	186	33	21	14	30	1.93
9234795--9234861	21	3.2	21	68	4	64	29	23	14	31	1.95
9234852--9234920	19	3.6	19	88	3	95	36	21	11	30	1.89
9234711--9234920	20	10.6	20	72	14	150	33	24	13	28	1.94
9237280--9237327	19	2.5	19	93	0	78	27	6	18	47	1.72
9237391--9237434	20	2.2	20	91	0	70	18	22	22	36	1.95
9240561--9240594	16	2.1	16	88	0	50	32	0	2	64	1.08
9242021--9242096	40	1.9	40	94	0	134	22	7	10	59	1.56
9250176--9250202	2	13.5	2	100	0	54	0	48	0	51	1.00
9259894--9259963	32	2.2	32	92	0	113	30	30	0	40	1.57
9261050--9261091	22	2.0	21	86	13	59	42	2	0	54	1.13
9270031--9270060	14	2.1	14	93	0	51	36	10	0	53	1.35
9272768--9272816	14	3.5	14	78	10	55	26	8	20	44	1.79
9275503--9275578	31	2.5	31	82	0	98	28	9	21	40	1.84
9275552--9275621	33	2.1	34	89	2	106	15	7	30	47	1.72
9277713--9277869	20	7.8	20	73	6	93	38	25	17	19	1.93
9277713--9277869	41	3.9	41	70	11	126	38	25	17	19	1.93
9277856--9278029	20	8.6	20	79	5	118	34	25	20	20	1.96
9277836--9278030	40	4.9	39	80	3	183	35	24	20	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9277836--9278029	60	3.2	60	83	0	244	35	24	20	19	1.95
9278408--9278478	33	2.2	33	97	0	133	11	23	15	49	1.77
9278558--9278632	20	3.8	20	80	5	89	42	20	24	13	1.87
9278616--9278672	14	3.7	14	75	20	60	43	22	24	8	1.81
9278570--9278688	33	3.4	33	87	6	148	44	21	23	10	1.82
9278570--9278658	19	4.9	19	73	15	80	43	21	23	11	1.84
9278705--9278794	14	5.7	14	72	23	72	8	24	23	43	1.82
9278689--9278802	33	3.5	33	96	1	212	9	22	21	46	1.80
9278684--9278780	19	5.7	19	69	23	81	10	22	22	44	1.83
9280293--9280403	19	6.3	19	74	21	116	13	20	19	45	1.84
9280310--9280403	34	2.8	33	88	6	136	12	20	20	46	1.82
9282658--9282722	27	2.4	27	94	5	114	3	23	13	60	1.48
9282701--9282725	12	2.1	12	100	0	50	0	28	0	72	0.86
9283619--9283828	20	10.5	20	85	2	215	20	17	25	37	1.94
9283795--9283892	20	4.8	20	77	3	79	21	18	23	36	1.95
9283795--9283951	41	3.9	41	70	14	110	18	17	25	38	1.93
9286608--9286643	18	1.9	19	88	5	56	47	2	0	50	1.15
9286627--9286691	15	4.4	14	73	19	60	46	6	3	44	1.44
9287201--9287257	10	5.3	12	91	6	56	43	1	1	52	1.21
9287214--9287254	2	20.5	2	100	0	82	48	0	0	51	1.00
9287327--9287383	19	3.0	20	87	7	82	40	0	35	24	1.56
9287336--9287383	20	2.5	19	89	3	69	43	0	35	20	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9287591--9287652	24	2.7	23	76	14	67	50	6	4	38	1.50
9287592--9287633	21	2.0	22	90	4	68	42	7	7	42	1.59
9287593--9287667	22	3.3	22	76	10	62	49	5	5	40	1.48
9287831--9287868	7	5.6	7	93	3	60	31	42	0	26	1.56
9287817--9287866	21	2.4	21	80	6	57	36	42	0	22	1.54
9287919--9287961	16	2.8	15	86	6	68	51	9	0	39	1.34
9288042--9288099	21	2.8	21	83	0	71	51	25	0	22	1.48
9288317--9288373	22	2.4	25	82	11	75	43	1	0	54	1.10
9288964--9289015	2	26.0	2	88	7	79	50	3	0	46	1.20
9288964--9289041	10	8.4	9	80	5	50	53	3	1	41	1.27
9289070--9289128	14	4.2	14	76	4	57	47	27	0	25	1.52
9289050--9289128	7	11.3	7	77	0	50	46	29	0	24	1.53
9289050--9289128	21	3.8	20	78	9	79	46	29	0	24	1.53
9289518--9289544	2	13.5	2	100	0	54	51	48	0	0	1.00
9289562--9289666	49	2.1	49	84	6	133	47	13	6	32	1.68
9289648--9289691	7	6.3	7	78	0	52	45	34	0	20	1.51
9289909--9289965	22	2.4	25	82	11	75	43	1	0	54	1.10
9290646--9290704	14	4.2	14	76	4	57	47	27	0	25	1.52
9290626--9290704	7	11.3	7	77	0	50	46	29	0	24	1.53
9290626--9290704	21	3.8	20	78	9	79	46	29	0	24	1.53
9290724--9290749	2	13.0	2	100	0	52	50	0	0	50	1.00
9291135--9291229	49	2.0	49	89	6	149	50	8	6	34	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9291226--9291269	7	6.3	7	78	0	52	45	34	2	18	1.62
9291140--9291236	48	2.0	49	88	6	144	50	11	6	31	1.63
9291569--9291602	15	2.4	15	90	9	54	50	5	0	44	1.26
9291704--9291743	21	1.9	21	89	0	62	52	17	0	30	1.45
9291690--9291750	21	2.9	21	72	13	54	49	26	0	24	1.51
9292255--9292294	14	2.9	14	88	0	62	45	25	0	30	1.54
9292236--9292299	21	3.1	21	77	2	58	45	29	0	25	1.54
9300823--9300860	20	1.9	20	94	0	67	26	31	26	15	1.96
9300845--9300905	23	2.7	23	94	0	104	21	29	26	22	1.99
9304207--9304251	20	2.2	20	100	0	90	26	15	11	46	1.79
9304522--9304578	14	4.1	14	97	0	105	12	14	17	56	1.68
9304843--9304900	10	6.1	10	73	18	52	6	12	22	58	1.57
9304840--9304890	27	1.9	26	88	4	75	5	11	23	58	1.55
9306023--9306081	31	1.9	31	82	6	75	35	6	23	33	1.82
9311743--9311795	19	2.7	20	77	8	56	35	20	7	35	1.81
9317295--9317320	12	2.2	12	100	0	52	50	0	0	50	1.00
9317978--9318011	2	17.0	2	100	0	68	50	0	0	50	1.00
9320075--9320179	42	2.5	42	88	1	156	26	43	8	20	1.81
9326764--9326804	19	2.2	19	95	0	73	12	19	31	36	1.89
9326764--9326804	9	4.3	10	81	12	59	12	19	31	36	1.89
9326770--9326817	19	2.5	19	79	0	51	16	27	27	29	1.97
9326821--9326868	18	2.7	18	93	0	78	18	43	16	20	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9326847--9326888	13	3.3	13	86	6	68	16	45	21	16	1.86
9326880--9326910	7	4.4	7	100	0	62	12	32	29	25	1.93
9326910--9326976	29	2.3	29	86	0	89	20	8	28	41	1.83
9326910--9327034	29	4.3	29	70	6	83	29	7	22	40	1.80
9333814--9333877	9	6.8	9	82	10	83	14	21	26	37	1.92
9333811--9333877	19	3.5	19	92	6	109	13	20	28	37	1.91
9333813--9333873	20	3.1	20	95	2	106	13	19	26	40	1.88
9333894--9333940	18	2.7	18	93	3	78	19	44	17	19	1.87
9333950--9333988	7	5.6	7	100	0	78	12	30	28	28	1.93
9333979--9334035	28	2.0	28	83	6	71	19	14	24	42	1.88
9335704--9335826	64	1.9	65	84	1	167	29	17	23	29	1.97
9335722--9335883	64	2.5	66	83	4	206	27	16	25	30	1.96
9335832--9335870	19	2.1	19	95	0	69	25	15	38	20	1.92
9337264--9337306	20	2.1	21	87	8	63	13	16	0	69	1.19
9340482--9340531	24	2.1	24	85	7	66	24	2	14	60	1.45
9345380--9346671	429	3.0	429	93	0	2178	27	14	23	35	1.93
9358747--9359010	146	1.8	146	81	1	332	38	16	6	38	1.75
9358952--9359074	40	3.1	40	64	17	94	39	16	4	40	1.67
9358892--9359103	79	2.7	78	82	6	252	37	17	6	39	1.75
9362763--9362799	19	1.9	19	88	0	56	37	0	32	29	1.58
9366187--9366217	15	2.1	15	93	0	53	25	16	16	41	1.88
9367097--9367165	2	35.0	2	94	2	122	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9372696--9372722	2	13.5	2	100	0	54	48	0	0	51	1.00
9375980--9376049	23	3.0	22	77	8	68	52	12	17	17	1.74
9376662--9376687	13	2.0	13	100	0	52	38	0	7	53	1.30
9378766--9378817	17	3.2	17	75	10	63	34	3	11	50	1.57
9378768--9378815	15	3.1	15	78	6	51	37	4	12	45	1.61
9381097--9381180	3	28.0	3	73	13	66	64	1	1	33	1.09
9381546--9382100	112	4.8	116	77	15	520	26	18	14	40	1.89
9381629--9382100	239	2.0	241	90	3	756	27	17	14	40	1.88
9382476--9382530	22	2.5	22	84	0	74	36	12	10	40	1.79
9384715--9384781	23	2.9	23	78	8	82	19	25	23	31	1.98

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