genome.fa.s7984.2.7.7.80.10.50.1000.46.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   63   64   
          65   

This is table  46  of  65  ( 7696 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)
9239375--9239411	17	2.2	17	90	0	56	18	21	24	35	1.96
9239551--9239650	33	3.3	30	77	16	98	45	1	3	51	1.23
9239697--9239734	20	2.0	20	85	15	53	44	0	0	55	0.99
9239719--9239817	48	2.1	47	83	12	123	47	3	1	48	1.24
9239826--9239868	19	2.3	18	88	4	59	41	2	0	55	1.12
9242799--9243256	112	4.1	112	92	1	719	25	14	13	45	1.82
9242799--9243256	223	2.1	220	90	2	711	25	14	13	45	1.82
9249536--9249608	20	3.6	19	78	12	83	21	4	0	73	0.99
9250111--9250151	19	2.2	18	86	4	55	46	0	14	39	1.45
9254062--9254088	2	13.5	2	100	0	54	48	0	0	51	1.00
9254411--9254535	54	2.3	54	86	5	171	22	24	20	32	1.98
9254457--9254618	55	3.0	52	81	4	144	25	25	19	30	1.98
9254587--9254639	25	2.1	25	85	0	70	18	33	11	35	1.87
9254654--9255951	54	24.3	54	80	3	1263	23	24	17	33	1.96
9254636--9255952	478	2.7	473	86	3	1656	24	24	17	34	1.96
9256336--9256451	37	3.1	37	82	1	142	19	21	21	37	1.95
9256884--9257205	30	11.2	29	76	10	184	39	8	1	50	1.42
9256884--9256996	59	1.9	59	85	3	156	37	7	1	53	1.41
9257121--9257194	25	2.8	25	85	8	94	45	8	0	45	1.32
9257212--9257346	31	4.5	30	79	8	123	54	0	5	38	1.30
9257370--9257415	18	2.5	19	75	10	51	39	0	8	52	1.33
9257554--9257588	16	2.2	16	89	0	52	71	0	0	28	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9258904--9258953	20	2.5	20	87	6	66	42	2	0	56	1.11
9259047--9259086	13	3.0	13	78	7	53	52	0	0	47	1.00
9259025--9259105	27	3.0	27	71	20	71	48	1	1	49	1.17
9261420--9261803	190	2.0	194	97	2	740	42	13	16	28	1.86
9261869--9261941	31	2.4	31	85	0	101	49	16	8	26	1.73
9263444--9263468	10	2.5	10	100	0	50	60	12	0	28	1.32
9263973--9264023	19	2.7	19	76	11	52	56	0	1	41	1.10
9264115--9264192	23	3.2	23	68	12	66	61	2	5	30	1.31
9265843--9265875	2	16.5	2	100	0	66	51	0	0	48	1.00
9271462--9271907	41	10.8	41	81	5	447	28	17	20	33	1.96
9273755--9273880	66	1.9	66	88	0	189	22	11	25	40	1.88
9274829--9274886	21	2.8	21	92	2	91	20	6	20	51	1.70
9274996--9275426	43	10.1	42	87	2	558	25	23	19	31	1.98
9274996--9275426	127	3.4	127	87	2	587	25	23	19	31	1.98
9274996--9275426	170	2.5	169	86	5	582	25	23	19	31	1.98
9279958--9279984	2	13.5	2	100	0	54	51	0	0	48	1.00
9301315--9301394	32	2.6	32	96	4	146	23	17	22	36	1.95
9302349--9302396	15	3.2	15	87	0	51	35	33	16	14	1.89
9302363--9302398	15	2.4	15	95	0	63	30	33	19	16	1.94
9303024--9303077	27	2.0	27	100	0	108	33	3	29	33	1.75
9304734--9304776	2	21.5	2	100	0	86	48	0	0	51	1.00
9307456--9307813	131	2.7	131	86	1	477	39	16	9	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9309812--9309877	23	2.9	23	79	4	62	31	25	21	21	1.98
9309956--9310114	45	3.5	45	77	3	158	32	22	8	37	1.83
9312931--9313010	3	26.3	3	81	7	90	61	0	1	37	1.04
9316996--9317111	45	2.6	44	80	9	105	39	6	14	38	1.73
9317217--9317587	186	2.0	186	100	0	742	31	14	15	38	1.88
9321708--9322003	36	8.2	36	72	14	234	41	12	18	27	1.86
9321740--9321820	42	1.9	42	92	0	135	50	11	17	20	1.76
9321709--9321854	78	1.9	79	88	1	222	43	14	19	21	1.87
9322796--9322990	110	1.8	106	82	8	250	23	18	25	32	1.97
9327974--9328003	9	3.4	9	90	9	53	80	0	0	20	0.72
9329722--9329747	2	13.0	2	100	0	52	50	0	0	50	1.00
9330264--9330296	8	4.2	8	84	7	50	60	0	0	39	0.97
9330265--9330294	15	2.0	15	93	0	51	63	0	0	36	0.95
9330248--9330296	23	2.1	24	88	3	73	59	0	0	40	0.98
9330775--9330833	31	1.9	31	89	6	93	47	13	1	37	1.53
9331295--9331352	30	1.9	30	100	0	116	32	15	27	24	1.95
9331323--9331421	43	2.3	43	92	0	171	26	24	24	25	2.00
9331482--9331575	43	2.2	44	86	1	127	28	17	22	31	1.96
9331912--9331970	21	2.8	21	76	0	64	5	33	18	42	1.72
9341396--9341437	22	1.9	22	95	0	75	30	14	4	50	1.63
9341907--9342213	83	3.7	83	77	2	224	30	21	15	32	1.94
9341955--9342247	82	3.5	83	77	6	227	29	21	15	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9343105--9343208	31	3.4	30	81	9	120	46	1	8	43	1.45
9348019--9348060	2	21.0	2	100	0	84	50	0	0	50	1.00
9351361--9351396	16	2.2	17	90	5	56	30	0	25	44	1.54
9358085--9358161	31	2.5	31	81	14	95	33	10	10	45	1.72
9358667--9358729	11	5.9	11	69	14	51	57	4	0	38	1.20
9359228--9359264	14	2.6	14	91	0	56	45	29	0	24	1.53
9359556--9359593	14	2.7	14	87	0	58	65	0	5	28	1.14
9359729--9359771	20	2.2	20	83	8	52	58	0	2	39	1.11
9360721--9360766	25	1.9	23	82	8	56	39	4	2	54	1.32
9360764--9360821	25	2.3	25	87	0	89	41	1	0	56	1.09
9362846--9362893	14	3.4	14	82	0	60	56	20	10	12	1.65
9373020--9373080	24	2.4	25	74	15	63	36	1	1	60	1.16
9377832--9377874	20	2.2	19	83	4	50	39	20	0	39	1.53
9381336--9381376	18	2.3	18	91	0	64	19	46	21	12	1.82
9381323--9381358	13	2.8	13	91	0	54	19	50	16	13	1.79
9381323--9381382	31	1.9	31	86	0	84	20	45	18	16	1.86
9383873--9383988	24	4.8	24	86	6	146	25	16	18	40	1.90
9385009--9385056	24	2.0	24	84	8	62	16	4	45	33	1.67
9386641--9386667	14	1.9	14	100	0	54	44	0	0	55	0.99
9392389--9392462	3	24.7	3	85	0	67	44	1	0	54	1.08
9392994--9393035	15	2.8	15	89	7	59	76	2	21	0	0.90
9392994--9393035	20	2.1	20	86	8	59	76	2	21	0	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9393888--9393934	14	3.5	13	80	13	51	40	2	2	55	1.24
9394641--9394677	15	2.7	15	88	12	53	24	5	8	62	1.44
9405300--9405390	9	10.3	9	74	18	68	81	0	15	3	0.82
9405291--9405391	27	3.7	27	85	6	123	81	0	14	3	0.84
9405288--9405386	16	6.6	14	75	17	83	81	0	14	4	0.82
9405978--9406002	12	2.1	12	100	0	50	84	8	8	0	0.79
9406496--9406757	83	3.2	83	90	1	427	28	14	21	35	1.92
9406765--9407008	79	3.0	79	89	2	371	29	13	22	34	1.92
9406588--9406941	184	1.9	187	88	2	543	31	13	21	34	1.92
9406775--9407024	83	3.1	83	89	2	382	29	13	22	35	1.92
9406503--9407081	267	2.2	268	96	1	1063	29	13	21	34	1.92
9407813--9408381	113	5.0	113	96	0	998	37	14	18	29	1.90
9408684--9408754	3	23.7	3	85	0	97	39	1	0	59	1.06
9409287--9409328	15	2.8	15	89	7	59	76	2	21	0	0.90
9409287--9409328	20	2.1	20	86	8	59	76	2	21	0	0.90
9411817--9411869	23	2.3	23	90	0	88	30	26	20	22	1.98
9411863--9411912	21	2.4	21	86	0	64	36	32	10	22	1.87
9412452--9412503	19	2.5	20	81	9	61	25	30	17	26	1.97
9425785--9425850	33	2.0	33	100	0	132	33	18	18	30	1.94
9428301--9428348	2	24.0	2	100	0	96	0	50	0	50	1.00
9441280--9441367	44	2.0	44	97	0	167	23	13	26	36	1.92
9446289--9446342	21	2.7	20	88	2	72	33	24	18	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9446273--9446346	20	3.7	20	80	5	69	31	22	20	25	1.98
9449131--9449184	20	2.6	21	91	2	92	33	25	18	22	1.97
9455201--9455268	18	3.7	18	73	11	57	23	20	20	35	1.96
9455535--9455591	17	3.1	17	70	18	51	49	0	0	50	1.00
9455590--9455620	12	2.6	12	94	0	53	19	45	22	12	1.84
9455804--9455854	21	2.5	20	80	3	57	25	21	23	29	1.99
9455842--9455894	21	2.5	21	90	0	88	35	7	26	30	1.84
9458623--9458666	22	2.0	21	82	4	52	22	22	22	31	1.98
9458686--9458744	22	2.7	22	78	0	73	27	18	27	27	1.98
9458969--9459030	18	3.2	18	82	13	79	51	9	11	27	1.69

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   63   64   
          65