genome.fa.s9175.2.7.7.80.10.50.1000.45.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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  45  of  51  ( 6037 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)
9273274--9273331	22	2.6	22	100	0	116	37	13	13	34	1.85
9279051--9279220	13	11.0	16	67	22	73	30	3	1	64	1.20
9279051--9279106	3	20.0	3	85	14	84	35	0	0	64	0.94
9279141--9279217	9	9.0	8	80	12	50	24	5	0	70	1.08
9279060--9279249	52	3.6	50	74	16	138	28	3	2	65	1.21
9279243--9279283	2	20.5	2	100	0	82	48	0	0	51	1.00
9279365--9279404	2	20.5	2	89	5	64	45	2	0	52	1.14
9279528--9279578	20	2.7	18	80	14	57	13	0	7	78	0.96
9279598--9279694	12	7.4	12	74	24	65	12	7	1	79	0.98
9279599--9279695	29	3.3	29	74	23	87	11	7	1	80	0.95
9279618--9279695	17	4.4	17	71	17	52	11	6	1	80	0.94
9279662--9279764	37	2.8	37	77	14	122	17	5	2	73	1.15
9279619--9279718	46	2.2	46	84	10	125	16	5	2	77	1.04
9280335--9280930	43	14.2	41	72	15	330	26	15	6	50	1.69
9280276--9280471	83	2.5	76	82	8	214	27	14	8	49	1.72
9280351--9280930	85	6.9	86	72	14	306	26	15	6	50	1.68
9280664--9280930	130	2.1	128	82	5	315	28	14	5	51	1.65
9281941--9281995	25	2.2	26	83	3	67	69	1	7	21	1.23
9282117--9282206	23	3.6	23	76	22	76	76	1	8	13	1.06
9282114--9282208	7	12.7	7	70	16	57	76	1	8	13	1.05
9282134--9282238	45	2.3	44	80	15	117	75	0	5	18	1.06
9282179--9282306	66	2.0	66	81	10	156	67	0	8	23	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9282275--9282322	3	17.7	3	76	20	52	72	0	2	25	0.95
9282269--9282323	5	10.6	5	90	5	67	76	0	1	21	0.88
9282376--9282418	16	2.8	16	78	3	52	76	4	0	18	0.95
9284331--9284371	21	1.9	21	85	5	55	24	36	4	34	1.77
9284642--9284689	17	3.0	15	77	14	51	56	27	2	14	1.50
9285671--9286011	170	2.0	170	100	0	682	37	12	19	29	1.89
9285912--9286109	98	2.0	100	98	2	382	40	12	16	30	1.84
9290706--9290748	22	2.0	21	86	4	59	34	9	2	53	1.46
9292357--9292398	18	2.4	18	76	4	50	54	4	16	23	1.61
9293300--9293374	24	3.1	24	76	5	62	70	1	1	26	1.03
9293300--9293376	5	15.2	5	87	6	59	70	1	1	27	1.03
9293340--9293390	3	18.3	3	80	15	65	68	1	0	29	1.00
9293335--9293395	14	4.4	14	80	12	63	67	3	1	27	1.16
9293335--9293390	20	2.8	20	86	7	71	67	1	1	28	1.10
9300524--9300563	21	1.9	21	85	10	55	35	10	2	52	1.48
9302833--9303004	34	4.9	35	77	15	162	48	5	1	44	1.37
9302833--9303004	36	4.9	35	74	14	142	48	5	1	44	1.37
9303837--9304534	85	8.2	85	85	0	892	24	16	21	37	1.94
9305626--9307349	863	2.0	863	98	0	3340	31	17	16	33	1.93
9310489--9310670	42	4.2	43	72	13	117	72	2	10	14	1.22
9310563--9310620	21	2.8	20	78	21	57	79	1	10	8	1.01
9310574--9310622	20	2.5	19	81	15	55	79	2	12	6	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9310566--9310619	18	2.9	18	83	5	54	79	1	9	9	1.00
9310666--9310700	8	4.2	8	89	7	52	65	0	2	31	1.07
9310742--9310796	3	18.7	3	78	10	51	70	0	1	27	0.97
9311976--9312005	10	3.0	10	95	0	51	63	0	0	36	0.95
9311976--9312005	15	2.0	15	93	0	51	63	0	0	36	0.95
9312044--9312145	35	2.8	36	83	5	127	48	5	1	44	1.38
9312125--9312166	21	2.0	21	90	9	68	54	4	4	35	1.42
9312146--9312279	38	3.5	37	81	9	126	46	5	2	46	1.37
9313681--9313735	2	27.5	2	100	0	110	50	0	0	49	1.00
9319706--9319754	25	2.0	25	100	0	98	24	16	20	38	1.92
9319860--9319901	9	4.0	11	79	20	54	71	2	0	26	0.98
9319868--9319907	20	2.1	19	85	4	53	70	2	2	25	1.13
9320100--9320300	40	4.8	41	73	9	174	22	19	32	24	1.97
9320100--9320352	129	2.0	129	98	0	488	23	19	31	25	1.98
9320690--9320772	35	2.3	36	82	10	100	38	10	18	32	1.85
9321138--9321217	40	2.0	40	95	0	142	36	11	21	31	1.88
9321298--9321776	30	15.6	30	69	15	184	44	14	10	30	1.80
9321219--9321545	67	4.9	67	96	1	577	44	12	12	30	1.79
9321328--9321516	37	5.5	36	68	16	150	44	12	11	31	1.78
9321611--9321765	27	5.6	28	87	7	194	43	16	10	29	1.81
9322019--9322111	36	2.7	34	77	3	96	36	12	20	30	1.90
9322222--9322388	90	1.8	91	87	6	248	40	10	17	31	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9322316--9322377	21	3.1	21	62	17	51	35	12	20	30	1.91
9322311--9322418	38	2.9	35	82	8	117	34	12	19	33	1.90
9322742--9322775	4	9.0	4	87	12	54	23	0	26	50	1.50
9323954--9324078	23	5.3	23	74	20	107	3	14	11	71	1.26
9324015--9324053	20	2.0	20	89	0	60	0	20	7	71	1.10
9324014--9324067	27	2.1	25	82	6	63	1	18	7	72	1.17
9327138--9327199	32	2.0	32	96	3	117	61	9	14	14	1.57
9330513--9330561	25	2.0	25	100	0	98	24	16	20	38	1.92
9330675--9330711	3	13.3	3	88	11	53	72	0	0	27	0.84
9330667--9330708	22	1.9	22	90	9	68	71	2	0	26	0.98
9339165--9339228	22	3.0	23	78	13	66	28	14	32	25	1.94
9339182--9339237	22	2.7	20	78	10	58	30	16	30	23	1.96
9339276--9339326	22	2.3	22	93	0	84	37	11	19	31	1.88
9339763--9340101	45	7.5	45	90	0	498	38	11	20	30	1.87
9342579--9342679	28	3.6	28	97	0	184	17	16	27	37	1.92
9342986--9343031	9	5.1	9	89	0	56	58	2	8	30	1.40
9343000--9343031	3	10.7	3	93	0	55	62	0	3	34	1.11
9343044--9344100	6	181.5	6	86	12	1514	32	0	16	50	1.50
9349251--9349308	2	30.0	2	81	13	68	46	0	3	50	1.18
9350142--9350202	30	2.0	30	100	0	122	54	9	13	22	1.68
9350822--9350915	29	3.2	30	71	18	72	21	6	2	70	1.20
9351037--9351074	11	3.5	11	92	7	69	7	0	0	92	0.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9351037--9351074	10	3.7	10	96	3	67	7	0	0	92	0.40
9353475--9353551	40	1.9	41	81	7	95	50	5	14	29	1.64
9359536--9359574	19	2.2	18	86	9	53	25	20	25	28	1.99
9359545--9359722	84	2.1	84	95	0	320	26	19	26	27	1.99
9359644--9359797	63	2.4	63	81	9	170	29	18	22	29	1.97
9367258--9367412	65	2.4	64	88	3	213	30	20	22	27	1.98
9371343--9371466	55	2.3	55	84	2	151	27	19	21	31	1.97
9371996--9372044	21	2.3	21	89	0	71	20	16	30	32	1.94
9378912--9378968	21	2.7	21	81	5	62	21	19	28	31	1.97
9378954--9379039	23	3.9	22	76	19	90	20	18	27	32	1.96
9378921--9379034	21	5.3	21	74	15	83	21	19	28	31	1.97
9387669--9387703	10	3.3	10	92	8	52	22	2	0	74	0.95
9387834--9387877	23	1.9	23	95	0	79	56	11	6	25	1.58
9388138--9388167	10	3.0	10	90	0	51	56	20	13	10	1.65
9388175--9388227	23	2.3	23	80	0	61	60	16	5	16	1.54
9388116--9388240	33	3.8	32	76	16	96	60	19	5	15	1.55
9388500--9388586	40	2.1	39	83	8	102	34	12	12	40	1.81
9394145--9394212	31	2.2	31	81	0	82	58	13	7	20	1.58
9394658--9394689	8	4.0	8	100	0	64	0	62	0	37	0.95
9401671--9401713	22	2.0	21	86	4	59	11	23	41	23	1.87
9409382--9409421	21	1.9	21	84	0	53	32	35	2	30	1.71
9410642--9410706	33	2.0	31	82	11	78	21	0	24	53	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9412332--9412403	22	3.2	22	98	2	135	16	27	19	36	1.93
9425162--9425221	3	19.7	3	86	10	86	63	1	1	33	1.14
9425586--9425669	42	2.0	42	83	0	105	17	17	13	51	1.77
9426129--9426215	43	2.0	44	84	2	113	34	20	10	34	1.87
9428190--9428563	145	2.6	139	81	13	394	47	7	6	37	1.59
9430948--9431031	36	2.4	35	79	2	87	41	29	3	25	1.72
9431946--9431980	18	2.0	18	94	5	63	34	8	5	51	1.56
9442764--9442822	29	2.0	29	100	0	118	49	13	13	23	1.78
9449910--9450026	58	2.0	59	98	1	227	37	17	5	40	1.71
9450128--9450199	29	2.4	30	90	2	110	20	37	27	13	1.91

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