genome.fa.s8209.2.7.7.80.10.50.1000.29.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

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   

This is table  29  of  30  ( 3569 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)
6199894--6199943	15	3.6	15	69	20	54	52	10	4	34	1.54
6199901--6199969	26	2.7	25	97	0	111	49	8	5	36	1.58
6202851--6203276	26	17.2	26	78	14	334	43	2	10	43	1.51
6202796--6203311	124	4.2	124	96	1	925	43	2	9	44	1.49
6202851--6203194	150	2.3	145	83	11	412	44	2	10	43	1.52
6203245--6203337	48	1.9	48	86	0	132	41	2	5	50	1.37
6203534--6203566	17	1.9	17	93	0	57	36	6	12	45	1.66
6203480--6203559	24	3.3	23	71	21	67	38	3	8	48	1.52
6205717--6205747	15	2.1	14	94	5	53	54	6	0	38	1.26
6205722--6205768	16	3.0	16	84	9	53	59	10	0	29	1.31
6205930--6206062	45	3.0	45	80	14	136	48	12	0	39	1.40
6206002--6206090	41	2.2	40	78	8	90	46	10	1	42	1.45
6206225--6206277	21	2.5	21	96	0	97	1	35	0	62	1.06
6206248--6206279	17	1.9	16	93	6	55	0	37	0	62	0.95
6206282--6206327	23	2.0	23	91	0	74	13	34	4	47	1.62
6206586--6206686	29	3.5	29	91	2	150	21	32	29	15	1.95
6206755--6206798	12	3.7	12	100	0	88	15	38	18	27	1.91
6212346--6212455	54	2.0	54	100	0	220	32	24	9	33	1.87
6217509--6217554	18	2.6	18	100	0	92	26	26	10	36	1.89
6219790--6219830	21	2.0	21	95	0	73	46	0	4	48	1.23
6222364--6222410	25	2.0	23	83	8	58	21	17	2	59	1.47
6226264--6226304	15	2.7	15	84	3	55	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6227558--6227607	27	2.0	25	84	11	66	56	4	2	38	1.30
6233889--6233966	38	2.1	38	100	0	156	23	15	28	33	1.95
6233901--6233982	38	2.2	37	84	8	103	19	19	28	32	1.96
6234071--6234132	17	3.6	17	73	0	70	41	20	9	27	1.84
6234125--6234206	9	9.3	9	73	5	60	45	10	20	23	1.83
6234121--6234206	26	2.7	34	71	28	107	45	11	19	23	1.83
6234091--6234216	52	2.4	52	82	2	137	44	13	18	23	1.85
6235495--6235537	14	3.1	14	84	12	54	37	4	0	58	1.19
6237717--6238290	305	1.9	305	90	2	911	24	16	26	32	1.96
6238884--6238926	20	2.1	20	86	4	59	55	16	0	27	1.41
6241693--6241730	3	13.7	3	89	10	55	71	0	0	28	0.87
6241693--6241759	20	3.2	21	73	18	68	70	0	1	28	0.96
6241688--6241782	47	2.1	46	78	9	106	71	1	3	24	1.07
6241689--6241846	13	13.5	11	69	25	53	70	0	5	23	1.11
6242116--6242196	33	2.5	34	88	8	107	29	14	18	37	1.91
6242131--6242196	33	2.0	33	94	2	116	28	12	19	39	1.88
6243907--6243989	29	2.8	29	88	1	121	43	9	14	32	1.78
6247353--6247382	15	2.0	15	93	0	51	13	0	30	56	1.37
6248658--6248740	29	2.8	29	88	1	121	43	10	13	32	1.78
6250690--6250753	21	3.4	20	66	29	59	31	4	18	45	1.70
6250655--6250803	35	4.2	36	84	7	182	34	5	17	42	1.72
6255289--6255372	37	2.3	38	85	6	111	34	4	17	42	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6261043--6261077	6	5.8	6	93	0	52	17	28	48	5	1.69
6261581--6261642	30	2.1	29	84	3	79	29	8	14	48	1.72
6271020--6271087	19	3.4	20	74	11	59	54	2	1	41	1.24
6271419--6271537	39	3.1	40	72	17	108	46	2	14	36	1.58
6273656--6273700	23	2.0	23	90	0	72	53	2	0	44	1.13
6274706--6274753	20	2.4	20	82	0	69	35	12	4	47	1.60
6275722--6275807	35	2.5	35	84	0	100	40	20	1	37	1.61
6275776--6275818	21	2.0	21	100	0	86	46	13	0	39	1.44
6275941--6275974	16	2.0	18	88	11	54	26	2	5	64	1.30
6276439--6276686	130	1.9	130	93	0	424	36	13	14	35	1.85
6277752--6277825	30	2.5	31	82	6	98	35	9	33	21	1.86
6277884--6277973	4	24.5	4	67	17	52	50	0	0	50	1.00
6277884--6277973	6	16.3	6	75	17	52	50	0	0	50	1.00
6277887--6277973	40	2.2	38	88	7	138	50	0	0	49	1.00
6278456--6278508	26	2.0	26	85	7	72	33	20	9	35	1.85
6279521--6279553	3	11.0	3	100	0	66	66	0	0	33	0.92
6280308--6280442	29	4.5	29	74	7	108	17	24	34	24	1.96
6281049--6281122	30	2.5	30	91	4	114	35	10	33	20	1.87
6281205--6281263	19	3.1	19	76	9	66	49	0	0	50	1.00
6281184--6281270	38	2.3	38	90	5	133	50	0	0	49	1.00
6281194--6281270	32	2.3	34	82	12	90	50	0	0	49	1.00
6281753--6281805	26	2.0	26	85	7	72	33	20	9	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6282230--6282266	2	18.5	2	100	0	74	48	0	0	51	1.00
6282807--6282967	5	32.4	5	89	10	235	42	0	0	57	0.98
6282819--6282967	7	20.4	7	75	24	116	42	0	0	57	0.98
6282809--6282967	2	91.5	2	73	26	150	42	0	0	57	0.98
6284567--6284602	2	18.0	2	100	0	72	50	0	0	50	1.00
6285927--6286243	88	3.4	94	90	6	504	40	15	8	35	1.78
6285987--6286373	88	4.4	88	84	10	443	39	15	8	36	1.77
6286178--6286309	26	5.0	26	70	11	106	38	18	8	34	1.81
6286155--6286325	80	2.1	80	94	2	299	38	16	7	37	1.77
6286286--6286441	64	2.4	67	88	6	221	39	16	7	36	1.77
6286415--6286468	26	2.0	27	92	3	92	38	16	11	33	1.84
6286350--6286534	95	2.0	93	86	6	257	39	15	8	36	1.78
6286418--6286474	26	2.2	26	87	3	78	42	12	10	35	1.77
6286234--6286643	159	2.6	159	90	3	655	39	16	7	36	1.77
6286024--6286694	161	4.2	160	81	10	760	39	15	7	36	1.77
6286509--6286732	94	2.4	93	92	3	371	39	16	7	37	1.77
6287892--6287943	19	2.7	19	100	0	104	17	21	34	26	1.95
6287910--6288075	65	2.6	62	79	12	183	24	18	25	31	1.98
6287827--6288009	84	2.2	85	84	7	239	25	21	25	28	1.99
6288280--6288319	20	2.0	21	85	14	57	42	5	7	45	1.54
6288489--6288695	65	3.2	63	83	7	229	30	24	16	27	1.97
6288536--6288699	65	2.5	65	86	1	231	30	26	15	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6290383--6290413	15	2.0	16	93	6	55	45	16	6	32	1.72
6290892--6291034	55	2.6	53	84	6	180	32	24	15	27	1.95
6298383--6298417	17	2.1	17	100	0	70	51	20	5	22	1.68
6304947--6305021	30	2.5	30	89	6	107	44	14	22	18	1.86
6324926--6324960	18	1.9	18	88	0	52	51	0	0	48	1.00
6325676--6326171	156	3.2	152	79	9	559	47	4	19	27	1.69
6326621--6326685	26	2.5	26	85	5	78	56	6	3	33	1.39
6326642--6326695	26	2.1	26	100	0	108	53	7	7	31	1.56
6326928--6327040	25	4.4	25	78	13	106	54	0	1	42	1.16
6326976--6327049	22	3.0	24	84	13	89	54	1	2	41	1.23
6326989--6327068	25	3.1	26	76	22	80	53	1	2	42	1.22
6327225--6327276	22	2.4	22	83	0	77	71	0	0	28	0.87
6327447--6327477	13	2.4	13	88	0	53	77	0	0	22	0.77
6327830--6327902	31	2.4	31	83	0	92	52	10	6	30	1.63
6329765--6329812	24	2.0	25	83	4	62	58	0	0	41	0.98
6335582--6335630	25	2.0	25	88	4	73	20	16	0	63	1.31
6336478--6336603	59	2.1	58	81	5	137	37	17	11	33	1.86
6337159--6337206	25	1.9	25	82	0	60	35	25	0	39	1.56
6339041--6339196	31	5.0	31	91	1	242	36	22	20	20	1.95
6339412--6339458	23	2.0	24	91	4	78	34	21	0	44	1.52
6340089--6340133	21	2.1	21	87	0	63	15	24	28	31	1.96
6343089--6343244	31	5.0	31	91	1	242	36	22	20	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6343457--6343503	23	2.0	24	91	4	78	34	21	0	44	1.52
6344127--6344166	20	2.0	20	85	0	53	17	22	30	30	1.97
6350797--6351086	140	2.1	140	96	0	526	40	7	12	38	1.72
6358611--6358677	20	3.2	20	77	12	73	49	0	0	50	1.00
6358614--6358671	12	4.7	13	74	16	52	51	0	0	48	1.00
6358612--6358719	20	5.3	20	66	24	57	50	1	0	46	1.18
6358615--6358726	14	8.0	14	64	20	56	51	1	0	45	1.17
6362626--6362651	2	13.0	2	100	0	52	0	50	0	50	1.00
6362651--6362679	2	14.5	2	100	0	58	48	0	0	51	1.00
6364091--6364124	18	1.9	17	88	5	50	64	5	0	29	1.17

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