genome.fa.s8094.2.7.7.80.10.50.1000.38.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   

This is table  38  of  43  ( 5090 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)
8189044--8189091	23	2.1	23	92	0	78	25	18	14	41	1.88
8197724--8197774	3	17.3	3	91	4	86	66	0	0	33	0.92
8200271--8200327	22	2.6	22	100	0	114	38	17	12	31	1.87
8209429--8209469	18	2.3	18	91	0	64	26	17	31	24	1.97
8210043--8210143	48	2.1	48	88	3	150	24	8	17	48	1.76
8210159--8210274	53	2.2	53	82	3	135	28	18	18	35	1.94
8217177--8217267	48	1.9	48	86	6	132	25	9	15	49	1.75
8217296--8217398	53	1.9	53	88	0	152	27	18	18	35	1.94
8217584--8217608	12	2.1	12	100	0	50	24	0	16	60	1.36
8219529--8219579	22	2.3	23	83	10	61	50	5	7	35	1.55
8222554--8222589	16	2.3	15	90	4	54	80	0	0	19	0.71
8223310--8223523	32	6.7	32	85	1	241	33	15	14	35	1.89
8223310--8223524	96	2.2	95	83	2	268	33	15	14	35	1.89
8224555--8224626	22	3.3	22	80	1	65	29	18	11	41	1.84
8224593--8224640	22	2.2	22	92	0	78	33	20	4	41	1.72
8227961--8227996	3	12.0	3	87	0	54	38	0	0	61	0.96
8227961--8227996	15	2.4	15	100	0	72	38	0	0	61	0.96
8229275--8229337	20	3.2	20	75	16	60	28	1	4	65	1.22
8230081--8230120	17	2.2	19	86	8	57	27	0	5	67	1.11
8233420--8233451	15	2.1	15	94	0	55	25	18	9	46	1.79
8240591--8240680	7	13.6	7	78	14	102	82	0	17	0	0.68
8240588--8240680	20	4.8	19	80	13	102	82	0	17	0	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8240591--8240680	26	3.4	26	83	10	112	82	0	17	0	0.68
8240588--8240681	32	2.9	32	86	9	113	81	0	18	0	0.68
8240585--8240681	25	3.8	25	82	10	117	81	0	18	0	0.69
8240585--8240680	13	7.0	13	75	19	88	82	0	17	0	0.67
8241941--8242291	92	3.8	92	93	0	585	28	14	21	35	1.93
8243149--8243193	24	1.9	23	82	13	56	51	6	24	17	1.70
8242983--8243532	113	4.8	113	93	1	852	37	13	18	30	1.90
8243262--8243306	24	1.9	23	82	13	56	51	6	24	17	1.70
8242982--8243665	226	3.0	226	87	3	879	37	14	17	30	1.90
8243022--8243666	113	5.6	111	89	4	587	37	14	17	29	1.90
8243364--8243755	118	3.3	118	79	9	315	41	14	18	25	1.89
8243893--8243952	3	20.0	3	96	0	111	35	0	0	65	0.93
8245229--8245291	20	3.2	20	75	16	60	28	1	4	65	1.22
8246204--8246259	22	2.5	23	85	8	80	48	1	0	50	1.11
8250325--8250487	31	5.2	31	79	3	157	54	3	1	39	1.29
8256088--8256171	27	3.1	27	91	0	141	44	14	13	28	1.82
8259871--8259965	27	3.6	27	95	2	167	41	15	13	29	1.86
8261708--8261782	36	2.1	36	100	0	150	18	17	5	58	1.57
8265578--8265607	15	2.0	15	93	0	51	30	6	23	40	1.80
8272067--8272111	20	2.2	20	88	0	63	35	8	24	31	1.86
8272974--8273018	20	2.2	20	92	0	72	26	20	11	42	1.85
8273316--8273348	17	1.9	17	93	0	57	51	9	12	27	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8276235--8276280	22	2.0	23	84	12	60	47	2	2	47	1.26
8276559--8276673	50	2.3	51	90	1	178	35	17	6	40	1.74
8276579--8276681	51	2.0	50	92	1	170	37	13	4	43	1.66
8281969--8282059	37	2.6	34	87	5	128	30	8	18	41	1.81
8282145--8282223	36	2.2	36	95	0	140	36	10	21	31	1.87
8282202--8282251	21	2.4	21	100	0	100	44	10	20	26	1.82
8282168--8282357	57	3.2	57	77	12	211	42	10	20	27	1.84
8282223--8282651	36	12.6	36	71	19	298	41	12	18	27	1.86
8282064--8282445	158	2.4	152	83	9	464	41	11	19	27	1.86
8282223--8282450	95	2.3	96	87	5	332	41	10	19	28	1.85
8282355--8282651	65	4.3	65	75	13	231	41	12	18	27	1.87
8282409--8282508	37	2.8	36	86	3	137	43	14	20	23	1.87
8282303--8282651	138	2.6	135	85	5	474	40	12	18	28	1.87
8282438--8282623	101	1.8	102	87	4	277	41	12	19	26	1.87
8284632--8284672	18	2.2	20	86	8	59	4	9	4	80	1.00
8284626--8284698	13	5.4	12	76	20	56	4	10	4	80	0.98
8284616--8284685	28	2.4	28	81	13	72	4	12	4	78	1.04
8287686--8287714	12	2.3	13	94	5	51	68	0	0	31	0.89
8287770--8287818	14	3.3	15	77	13	57	65	0	6	28	1.16
8289525--8289580	3	19.3	3	75	14	55	60	1	0	37	1.07
8289525--8289580	14	3.9	14	79	11	60	60	1	0	37	1.07
8291250--8291281	7	4.6	7	92	0	55	46	34	0	18	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8291250--8291290	14	2.9	14	89	7	57	43	34	0	21	1.53
8290727--8292141	559	2.5	562	89	5	2108	34	13	14	36	1.86
8297599--8297642	15	2.9	15	100	0	88	54	4	0	40	1.21
8297776--8297845	34	2.1	34	94	0	122	27	7	22	42	1.79
8299954--8299986	2	16.5	2	87	12	50	48	0	3	48	1.17
8300040--8300076	2	18.5	2	100	0	74	51	0	0	48	1.00
8300158--8300371	72	3.0	72	92	2	340	28	19	21	30	1.97
8306802--8306845	22	2.0	22	91	8	72	27	22	18	31	1.97
8313780--8313824	3	14.7	3	90	4	72	66	0	0	33	0.92
8313982--8314744	76	10.0	76	98	0	1431	35	21	21	21	1.96
8313982--8314744	229	3.3	228	97	1	1440	35	21	21	21	1.96
8315806--8316015	54	3.9	54	92	0	348	24	23	14	37	1.92
8319782--8319818	18	2.1	18	94	0	65	0	13	0	86	0.57
8326594--8326634	3	13.7	3	94	0	73	68	0	0	31	0.90
8329703--8329770	2	34.5	2	91	2	102	52	1	1	44	1.19
8330125--8330152	2	14.0	2	100	0	56	50	0	0	50	1.00
8330165--8330235	18	3.7	19	74	20	67	64	0	4	30	1.12
8330190--8330224	9	3.9	9	88	0	52	60	0	5	34	1.21
8330169--8330248	41	2.0	40	80	11	92	61	1	6	31	1.29
8331929--8332059	66	2.0	68	82	8	162	40	9	17	32	1.83
8332024--8332091	33	2.1	33	88	0	100	39	13	22	25	1.90
8334147--8334328	95	1.9	95	89	4	287	29	19	19	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8338541--8338598	29	2.0	28	80	12	64	60	0	8	31	1.27
8338830--8338942	4	26.5	4	71	18	59	63	0	3	31	1.17
8338830--8338942	44	2.5	44	77	12	115	63	0	3	31	1.17
8339956--8340022	22	3.0	22	100	0	134	35	32	26	4	1.77
8343932--8343966	2	18.0	2	94	5	63	51	0	0	48	1.00
8345637--8345735	31	3.2	29	76	12	92	37	4	2	56	1.30
8345751--8345796	18	2.5	19	85	7	67	43	2	0	54	1.12
8348199--8348235	17	2.1	19	90	10	60	24	5	0	70	1.08
8352284--8352747	131	3.6	130	89	3	641	34	10	16	38	1.83
8356623--8356775	82	1.9	82	90	0	243	27	22	18	30	1.98
8364966--8365009	23	1.9	23	85	0	61	34	22	27	15	1.95
8369308--8369351	21	2.1	21	91	0	70	36	27	20	15	1.93
8370390--8370600	29	7.3	29	76	7	180	33	4	18	43	1.71
8377900--8378025	47	2.8	45	84	7	166	30	19	7	41	1.80
8388041--8388080	20	2.0	21	90	5	64	10	32	30	27	1.89
8394902--8394940	20	2.0	20	100	0	78	15	30	30	23	1.95
8400894--8401334	134	3.2	134	81	3	470	30	19	15	34	1.93
8403006--8403043	20	1.9	20	89	10	60	21	0	10	68	1.19
8403573--8403878	131	2.3	129	82	5	346	34	10	16	38	1.83
8405060--8405169	58	1.9	58	84	3	150	39	9	20	31	1.83
8405188--8405405	117	1.9	116	93	2	375	43	10	8	38	1.69
8405423--8405471	15	3.3	15	76	0	53	30	4	8	57	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8406873--8406938	16	4.1	17	74	14	59	51	24	1	22	1.57
8407203--8407241	18	2.2	18	85	0	51	7	23	30	38	1.83
8408836--8408897	22	2.8	22	85	2	70	19	22	32	25	1.97
8408836--8408897	23	2.7	23	87	2	81	19	22	32	25	1.97
8408815--8408897	23	3.8	22	78	7	71	19	22	31	26	1.98
8412709--8412748	21	1.9	21	85	10	55	35	10	2	52	1.48
8415914--8415947	3	11.3	3	87	12	52	67	0	0	32	0.91
8417428--8417479	14	3.7	14	97	0	95	21	19	0	59	1.38
8417419--8417482	28	2.3	27	84	7	92	20	17	0	62	1.33
8419892--8420206	139	2.3	138	86	6	424	37	14	20	27	1.92

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