genome.fa.s9639.2.7.7.80.10.50.1000.36.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   52   53   54   55   56   57   58   59   60   61   62   

This is table  36  of  62  ( 7398 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)
7792789--7793003	55	3.9	55	88	0	322	27	19	17	35	1.94
7793249--7793302	22	2.6	21	85	11	67	31	22	14	31	1.94
7797700--7797773	21	3.4	21	66	10	58	25	22	5	45	1.73
7798032--7798468	55	7.9	55	91	1	680	28	18	18	34	1.95
7798809--7798862	22	2.6	22	82	8	69	33	12	18	35	1.89
7801724--7801799	9	9.4	8	73	22	61	55	1	3	39	1.27
7801722--7801794	12	6.5	11	72	19	53	56	1	4	38	1.27
7801733--7801795	16	4.0	15	85	10	74	55	1	3	39	1.25
7801727--7801803	21	3.5	21	80	12	75	54	1	3	40	1.27
7801851--7801882	2	16.0	2	100	0	64	50	0	0	50	1.00
7803769--7803806	2	19.0	2	100	0	76	50	0	0	50	1.00
7804449--7804519	28	2.6	28	84	2	90	28	22	22	26	1.99
7804707--7804849	62	2.4	61	86	6	193	46	17	6	29	1.74
7804701--7804849	61	2.5	59	83	8	192	44	17	8	28	1.78
7809383--7809562	90	2.0	89	97	1	342	38	14	10	36	1.80
7812100--7812210	32	3.5	32	83	0	141	34	20	14	30	1.93
7813294--7813338	20	2.2	20	88	0	63	28	11	17	42	1.84
7836949--7837015	27	2.5	26	76	7	64	11	8	7	71	1.30
7845234--7845267	17	2.0	17	100	0	68	29	17	29	23	1.97
7847685--7847818	67	2.0	67	98	0	259	23	21	22	32	1.98
7856859--7856887	2	14.5	2	100	0	58	51	0	0	48	1.00
7859928--7860078	53	2.8	53	82	0	194	29	23	15	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7864172--7865262	46	23.3	46	81	10	932	45	10	22	21	1.82
7864172--7865262	138	7.8	138	77	12	1110	45	10	22	21	1.82
7864181--7865203	20	44.8	20	68	22	322	44	10	22	21	1.82
7869479--7869519	21	2.0	20	85	4	55	41	2	0	56	1.13
7871966--7872004	17	2.3	18	91	8	64	41	0	0	58	0.98
7873722--7873774	21	2.5	21	78	6	63	22	26	16	33	1.96
7873764--7873815	21	2.5	21	87	3	70	38	17	23	21	1.93
7873804--7873998	20	9.7	20	87	3	221	30	27	17	24	1.97
7873801--7873956	81	1.9	82	88	1	233	32	27	17	22	1.96
7874739--7874786	23	2.1	23	88	3	71	22	14	22	39	1.91
7877010--7877064	19	2.8	20	83	2	67	38	21	21	18	1.94
7877037--7877163	33	3.8	33	90	0	200	45	18	22	12	1.83
7877017--7877167	19	8.7	18	67	22	83	44	19	23	12	1.85
7877173--7877269	18	5.8	18	72	20	77	11	21	21	45	1.83
7877196--7877251	14	3.7	14	76	17	58	10	23	23	42	1.85
7877179--7877269	32	2.8	33	91	5	150	12	21	21	43	1.85
7878728--7878794	21	3.2	21	68	4	55	19	20	35	23	1.95
7879239--7879543	94	3.3	94	91	3	503	46	18	12	21	1.83
7881236--7881381	19	8.1	19	73	17	132	46	19	22	11	1.82
7881236--7881359	33	3.5	33	82	7	140	46	19	22	11	1.81
7881388--7881471	19	4.6	19	72	15	88	11	20	22	45	1.83
7881380--7881444	33	2.0	33	100	0	130	12	18	21	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7882016--7882231	20	10.6	20	71	12	127	26	19	19	34	1.96
7882016--7882231	41	5.3	40	75	9	125	26	19	19	34	1.96
7882098--7882273	41	4.3	41	68	13	110	32	18	21	27	1.96
7882098--7882170	21	3.5	21	79	3	76	36	17	21	23	1.94
7882221--7882273	21	2.5	22	81	6	74	35	18	24	20	1.95
7885402--7885433	2	16.0	2	100	0	64	50	0	0	50	1.00
7887131--7887273	71	2.0	71	95	0	259	22	20	27	30	1.98
7892240--7892318	41	1.9	41	84	0	104	41	12	1	44	1.50
7892441--7892496	24	2.3	24	100	0	112	33	21	19	25	1.97
7900320--7900349	2	15.5	2	93	6	53	50	0	50	0	1.00
7900480--7900517	20	1.9	20	100	0	76	31	10	31	26	1.90
7907443--7907521	24	3.2	24	72	13	70	34	16	24	25	1.95
7908403--7908487	37	2.3	37	80	9	95	23	16	22	37	1.93
7912131--7912192	6	10.3	6	89	0	97	37	30	12	19	1.89
7914388--7914561	54	3.2	54	86	4	262	37	20	15	27	1.92
7921354--7921408	15	3.5	15	74	16	58	16	16	0	67	1.24
7925130--7925162	17	1.9	17	88	11	50	60	0	12	27	1.32
7926321--7926668	54	6.4	54	91	1	538	35	22	15	27	1.94
7926321--7926668	162	2.1	162	93	0	597	35	22	15	27	1.94
7928172--7928214	7	6.4	7	80	20	56	13	16	0	69	1.19
7928172--7928214	15	3.2	14	81	18	56	13	16	0	69	1.19
7929994--7930248	87	2.9	88	85	9	351	37	7	20	34	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7930174--7930417	51	4.7	51	82	2	281	34	9	20	36	1.85
7944652--7944726	27	2.9	25	73	15	71	57	4	0	38	1.18
7944768--7944824	25	2.3	25	78	6	62	40	1	1	56	1.20
7951014--7951039	2	13.0	2	100	0	52	50	0	0	50	1.00
7951991--7952061	30	2.4	31	82	17	89	40	2	2	53	1.30
7952086--7952112	5	5.4	5	100	0	54	59	0	0	40	0.98
7952234--7952283	8	6.2	8	81	9	66	42	0	0	58	0.98
7952253--7952307	17	3.1	17	85	12	74	49	0	0	50	1.00
7952238--7952289	15	3.3	15	82	10	59	44	0	0	55	0.99
7952241--7952311	17	3.9	19	75	18	62	47	0	0	52	1.00
7952276--7952366	43	2.1	44	85	8	123	42	0	1	56	1.06
7952432--7952473	14	3.0	14	86	6	50	57	2	0	40	1.12
7952480--7952537	21	2.5	24	78	16	86	48	1	3	46	1.29
7961682--7961724	22	2.0	22	81	9	52	32	16	2	48	1.58
7963190--7963235	21	2.2	21	96	0	83	8	54	19	17	1.68
7970661--7970700	20	2.0	20	85	5	53	45	7	25	22	1.78
7973553--7973585	2	16.5	2	100	0	66	48	0	0	51	1.00
7976639--7976704	26	2.5	26	92	0	105	31	1	3	63	1.19
7977231--7977270	20	2.0	21	95	5	73	37	20	20	22	1.94
7980091--7980172	28	3.2	28	63	22	79	37	20	8	32	1.83
7980085--7980184	49	2.0	49	100	0	200	39	23	8	30	1.83
7983022--7983061	21	2.0	19	90	9	62	35	30	10	25	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7983861--7983890	14	2.1	15	93	6	53	30	0	0	70	0.88
7985513--7985557	23	2.0	23	82	8	56	42	6	6	44	1.57
7986676--7987361	202	3.4	199	78	4	705	34	19	17	27	1.95
7987972--7988079	51	2.1	51	82	6	128	45	2	4	47	1.38
7997292--7997476	37	5.2	36	75	15	124	75	4	18	1	1.06
7997311--7997464	15	9.6	17	77	14	116	76	3	18	1	1.01
7997332--7997476	49	3.1	50	76	17	132	77	2	18	1	0.97
7997303--7997467	56	2.9	55	75	16	119	76	3	18	1	1.01
7997405--7997464	31	2.0	30	87	9	86	78	1	18	1	0.92
7997311--7997464	32	4.9	31	72	15	95	76	3	18	1	1.01
7997342--7997476	32	4.3	30	74	14	112	77	2	19	1	0.96
8001896--8002091	37	5.4	37	85	1	243	33	17	10	38	1.84
8002065--8002342	99	2.7	99	79	7	247	37	17	10	34	1.84
8002244--8002442	66	3.0	66	94	1	346	28	18	14	38	1.90
8002296--8002404	30	3.4	30	67	22	87	29	19	13	37	1.90
8002326--8002542	102	2.1	102	89	3	330	28	19	13	38	1.90
8002260--8002814	168	3.3	168	84	6	721	27	18	13	39	1.89
8002428--8002674	66	3.7	66	92	0	377	27	18	13	40	1.88
8002244--8002778	234	2.3	234	92	0	890	27	18	14	39	1.89
8002464--8002641	30	5.5	30	69	19	126	29	17	13	39	1.88
8002560--8002814	102	2.5	102	94	0	438	26	19	13	40	1.88
8002654--8002778	66	1.9	66	88	0	187	27	18	14	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8002835--8003124	138	2.1	139	82	0	348	30	27	16	25	1.97
8004361--8004393	2	16.5	2	100	0	66	0	48	0	51	1.00
8007362--8007416	2	27.5	2	100	0	110	49	0	0	50	1.00
8007476--8007630	36	4.2	37	86	2	206	50	3	4	41	1.39
8007476--8007630	73	2.1	73	86	2	213	50	3	4	41	1.39
8007575--8007746	79	2.2	76	80	8	188	47	1	10	41	1.45
8007476--8007746	37	7.3	35	75	10	182	46	2	8	42	1.45
8007810--8007870	12	5.2	12	77	13	65	18	6	0	75	1.01
8007806--8007863	6	9.2	6	83	9	55	18	3	0	77	0.91
8017525--8017724	37	5.4	36	81	8	199	49	3	6	41	1.44

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   52   53   54   55   56   57   58   59   60   61   62