genome.fa.s7923.2.7.7.80.10.50.1000.30.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

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   

This is table  30  of  40  ( 4704 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)
6233500--6233825	166	2.0	165	89	7	500	34	18	20	26	1.96
6238960--6238987	10	2.8	10	100	0	56	42	0	7	50	1.30
6254520--6254823	150	2.0	150	89	1	466	23	25	9	41	1.85
6271025--6271074	24	2.1	24	85	7	66	60	16	2	22	1.46
6279301--6279352	27	1.9	27	88	7	79	57	7	5	28	1.50
6279302--6279359	27	2.1	27	81	6	64	58	10	5	25	1.52
6279706--6279757	20	2.6	20	90	6	79	44	0	0	55	0.99
6280917--6281074	21	7.8	20	72	7	86	38	25	17	18	1.92
6281041--6281310	20	13.5	20	81	6	269	37	25	17	20	1.94
6281993--6282039	24	2.0	24	87	8	69	25	14	21	38	1.92
6284531--6284738	19	11.7	19	78	15	239	46	17	20	15	1.85
6284517--6284681	52	3.2	52	82	13	205	47	18	20	14	1.83
6284531--6284738	71	2.9	71	94	2	346	46	17	20	15	1.85
6284601--6284738	52	2.7	50	84	6	152	45	17	21	15	1.85
6284517--6284732	33	6.2	34	82	12	260	46	18	20	14	1.83
6284747--6284844	19	5.4	19	84	13	143	14	22	17	45	1.84
6284728--6284844	53	2.2	53	96	1	218	13	24	17	43	1.86
6284951--6284987	14	2.6	14	91	0	65	45	21	0	32	1.52
6286908--6286973	19	3.4	20	87	6	91	45	27	16	10	1.80
6286945--6287037	33	2.8	33	91	0	159	48	21	19	10	1.79
6286978--6287042	19	3.7	19	76	19	68	47	20	20	12	1.81
6286964--6287020	14	3.7	14	72	20	51	47	22	19	10	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6287038--6287166	19	7.3	19	75	17	116	9	17	27	45	1.78
6287038--6287129	33	2.8	33	91	3	141	8	18	27	45	1.78
6287214--6287588	93	4.1	93	98	1	718	45	18	12	22	1.83
6287214--6287588	185	2.0	186	97	1	718	45	18	12	22	1.83
6289290--6289379	14	5.7	14	72	23	72	44	22	24	8	1.81
6289282--6289396	33	3.5	33	98	0	221	46	19	23	10	1.80
6289304--6289401	19	5.7	19	69	22	90	44	20	23	11	1.83
6289413--6289468	14	3.7	14	78	17	67	8	25	23	42	1.82
6289397--6289476	32	2.5	33	91	4	135	8	22	22	46	1.79
6289408--6289454	18	2.9	17	75	18	55	8	23	23	44	1.80
6289452--6289529	41	1.9	41	97	0	147	12	25	16	44	1.83
6289453--6289528	21	3.7	21	83	3	109	11	25	17	46	1.82
6289608--6289678	33	2.2	33	89	0	106	47	16	22	12	1.80
6289858--6289912	22	2.5	22	81	0	74	20	16	40	23	1.91
6290059--6290212	20	7.7	20	81	7	168	18	18	26	37	1.93
6290058--6290212	40	3.8	40	82	4	186	18	18	26	37	1.93
6290199--6290281	21	4.0	21	73	6	78	25	16	24	33	1.96
6290179--6290277	42	2.4	43	77	11	100	21	18	23	37	1.94
6290558--6290602	20	2.3	19	81	11	54	64	2	0	33	1.06
6291161--6291202	21	2.2	19	87	12	59	78	0	7	14	0.95
6291997--6292055	20	3.0	20	97	0	109	50	18	13	16	1.77
6292063--6292115	20	2.7	19	82	8	70	15	16	20	47	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6293434--6293528	42	2.3	42	81	0	118	30	35	13	20	1.91
6293643--6293845	21	9.7	21	64	16	82	20	12	33	33	1.90
6293643--6293800	63	2.5	64	77	8	171	20	12	34	32	1.89
6293725--6293825	42	2.4	42	100	0	202	20	11	33	33	1.89
6294137--6294221	21	4.0	21	79	0	98	21	32	20	25	1.97
6294143--6294232	42	2.1	42	87	4	128	22	36	17	23	1.95
6294166--6294232	21	3.2	21	78	0	71	23	37	16	22	1.94
6295744--6295867	49	2.5	49	86	0	167	25	19	17	37	1.93
6298501--6298808	55	5.6	54	85	5	327	30	25	16	27	1.97
6298501--6298808	110	2.8	110	84	7	371	30	25	16	27	1.97
6298501--6298808	165	1.9	165	82	6	392	30	25	16	27	1.97
6300148--6300235	25	3.5	25	69	10	72	9	19	0	71	1.12
6300143--6300270	51	2.5	53	83	8	151	7	20	0	72	1.07
6300207--6300305	10	10.1	10	69	17	57	11	14	0	74	1.07
6300143--6300327	51	3.7	47	77	13	131	8	16	0	75	1.04
6300242--6300337	14	6.7	13	69	23	52	9	12	0	78	0.97
6303822--6303849	8	3.5	8	100	0	56	50	10	0	39	1.37
6309963--6310053	45	2.0	45	89	4	137	37	21	12	28	1.90
6312519--6312547	2	14.5	2	100	0	58	48	0	0	51	1.00
6314813--6314885	30	2.4	30	93	0	119	30	23	20	26	1.99
6314859--6314943	31	2.8	30	82	5	89	30	23	18	27	1.98
6314871--6314995	31	4.1	31	84	3	119	32	20	18	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6315651--6315689	2	19.5	2	94	0	69	46	0	2	51	1.14
6316179--6316322	64	2.2	64	84	8	177	27	20	15	35	1.94
6316179--6316339	64	2.5	63	82	8	175	27	20	17	34	1.95
6319999--6320032	12	2.8	12	90	0	50	14	0	29	55	1.40
6320812--6320862	20	2.5	20	84	6	59	37	11	21	29	1.89
6320824--6320864	20	2.0	20	95	0	73	36	9	24	29	1.87
6320827--6320870	20	2.2	20	87	0	61	40	11	18	29	1.85
6322120--6322192	37	2.0	37	81	5	85	49	1	2	46	1.24
6323291--6323318	3	9.3	3	100	0	56	67	0	0	32	0.91
6325395--6325439	20	2.3	20	84	3	56	28	6	2	62	1.33
6328090--6328210	59	2.1	59	81	4	138	37	14	7	41	1.73
6328651--6328710	27	2.3	27	85	2	77	18	13	21	46	1.83
6331780--6331822	22	1.9	23	85	4	61	51	2	2	44	1.27
6333061--6333183	30	4.1	30	95	1	212	30	26	21	21	1.98
6333175--6333270	32	3.0	31	79	13	115	34	17	17	30	1.94
6334167--6334211	21	2.1	21	83	0	54	13	24	31	31	1.93
6347152--6347303	79	1.9	78	90	4	243	34	15	11	38	1.84
6348749--6348809	19	3.2	20	75	13	58	55	3	0	40	1.16
6348792--6349140	187	1.9	188	91	3	578	41	3	9	46	1.51
6355687--6355842	31	5.0	31	94	1	260	38	23	18	19	1.93
6363262--6363305	17	2.6	17	96	0	79	22	18	27	31	1.97
6367097--6367141	21	2.1	21	87	0	63	31	28	24	15	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6367721--6367755	18	1.9	18	88	11	54	54	5	17	22	1.64
6368630--6368944	149	2.1	149	98	1	614	26	18	21	33	1.97
6368912--6368956	23	2.0	23	90	0	72	22	26	26	24	2.00
6372206--6372250	21	2.1	21	83	0	54	33	28	22	15	1.95
6372834--6372868	18	1.9	18	88	11	54	54	5	17	22	1.64
6373754--6374068	149	2.1	149	98	1	605	26	18	21	33	1.96
6374036--6374080	23	2.0	23	90	0	72	22	26	26	24	2.00
6383242--6383329	37	2.3	38	86	3	124	48	0	0	51	1.00
6383277--6383327	17	3.1	17	73	21	63	47	0	0	52	1.00
6383367--6383417	23	2.2	23	92	0	84	25	17	25	31	1.97
6383708--6383737	12	2.5	12	94	0	51	53	3	3	40	1.34
6384475--6384527	26	2.1	25	82	6	72	69	0	3	26	1.05
6388876--6388920	23	2.0	23	86	0	63	42	8	13	35	1.75
6388836--6388998	87	1.9	87	92	2	274	42	12	12	31	1.81
6392974--6393013	21	1.9	21	89	0	62	47	17	10	25	1.78
6392976--6393543	201	2.8	198	85	3	728	33	14	15	36	1.88
6393403--6394791	200	6.9	200	92	0	2172	27	14	16	41	1.87
6395713--6395754	15	2.8	15	85	0	57	28	2	50	19	1.60
6396125--6396991	200	4.3	200	88	2	1213	27	13	15	43	1.84
6397363--6397412	19	2.6	19	93	0	82	58	10	2	30	1.42
6398882--6398920	18	2.2	18	90	0	60	5	38	0	56	1.22
6399334--6399377	9	4.9	9	80	0	52	4	47	11	36	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6399608--6399663	24	2.5	21	76	18	58	50	7	1	41	1.40
6400921--6400969	19	2.6	19	96	0	89	36	20	0	42	1.52
6401435--6401830	183	2.2	181	89	3	598	27	15	13	43	1.84
6405399--6405443	18	2.7	16	86	6	63	35	4	31	28	1.77
6409152--6409205	19	2.8	20	71	21	51	51	3	0	44	1.19
6409985--6410136	53	2.9	53	90	3	209	34	17	16	30	1.92
6422357--6422511	36	4.3	36	90	3	222	36	23	20	20	1.95
6422356--6422545	36	5.2	36	87	1	220	36	22	19	21	1.95
6422915--6423110	51	3.8	51	85	4	205	34	19	22	23	1.97
6423118--6423256	55	2.5	54	88	6	192	30	16	25	26	1.97

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