genome.fa.s7923.2.7.7.80.10.50.1000.2.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  2  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)
238416--238471	20	2.8	20	84	10	87	39	21	25	14	1.91
238456--238511	14	3.6	14	74	21	58	42	23	25	8	1.82
238407--238566	19	9.1	19	68	21	98	43	20	23	12	1.85
238407--238561	33	4.5	33	88	5	211	44	20	23	12	1.84
238574--238645	20	3.5	20	84	5	92	12	16	19	51	1.76
239178--239390	20	10.7	20	76	17	146	21	19	23	36	1.95
239184--239293	39	2.8	40	86	5	143	24	19	20	36	1.95
239241--239451	40	5.2	40	82	6	221	19	18	25	36	1.94
239180--239390	101	2.1	99	89	1	314	20	19	23	36	1.95
239261--239451	81	2.4	81	83	6	228	18	18	25	37	1.93
239180--239451	101	2.7	100	82	7	288	20	18	23	37	1.94
239399--239451	20	2.7	20	86	13	74	13	16	24	45	1.83
242654--242711	31	1.9	31	89	6	93	56	10	5	27	1.54
245293--245333	14	3.1	13	89	10	57	39	0	14	46	1.45
245298--245336	7	5.9	7	88	11	64	41	0	15	43	1.46
256394--256434	9	4.7	9	90	3	66	78	0	2	19	0.87
257908--257943	2	17.5	2	94	5	63	50	0	2	47	1.15
258562--258601	11	3.6	11	96	0	71	30	10	25	35	1.88
261216--261295	36	2.2	36	91	2	126	45	17	5	32	1.70
261234--261294	21	3.2	21	63	26	53	47	14	4	32	1.66
265795--265855	21	3.2	20	63	27	51	49	14	4	31	1.65
265786--265856	36	2.0	35	94	2	124	47	15	5	30	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
267310--267366	22	2.6	22	97	0	105	28	12	19	40	1.87
277499--277528	2	15.0	2	100	0	60	50	0	0	50	1.00
278228--278253	10	2.6	10	100	0	52	42	0	7	50	1.31
278419--278445	2	13.5	2	100	0	54	51	0	0	48	1.00
295090--295138	22	2.2	22	100	0	98	30	0	8	61	1.25
302440--302494	4	13.8	4	100	0	110	25	0	0	74	0.82
303735--303913	64	2.8	63	80	8	209	30	17	24	27	1.97
303755--303962	64	3.2	65	81	8	187	29	16	24	29	1.97
304295--304334	19	2.0	20	85	9	55	25	37	0	37	1.56
309979--310020	3	14.0	3	94	0	75	64	2	0	33	1.07
310175--311316	76	14.9	76	94	2	1933	36	20	18	23	1.95
311992--312046	22	2.5	22	90	0	92	38	14	12	34	1.84
314889--315239	83	4.2	83	94	2	589	36	22	13	27	1.91
317494--317559	14	4.6	14	80	10	71	3	12	0	84	0.72
317500--317555	11	5.2	11	82	4	69	3	8	0	87	0.65
324295--324330	3	12.0	3	87	0	54	61	2	0	36	1.11
327852--328014	64	2.5	64	81	3	177	28	17	25	28	1.98
334018--334111	28	3.3	28	78	8	84	39	1	0	59	1.04
335888--335960	21	3.5	21	85	7	94	19	31	26	23	1.98
336472--336538	34	2.0	34	93	0	116	49	5	5	38	1.52
336968--337545	127	4.6	127	95	0	998	33	18	24	23	1.97
336968--337545	252	2.3	254	94	0	1007	33	18	24	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
339151--339275	31	4.0	31	91	2	198	18	19	23	39	1.93
343722--343754	16	2.1	16	100	0	66	36	27	18	18	1.94
344564--344636	32	2.3	31	85	2	85	45	4	4	46	1.41
349819--349870	23	2.3	23	100	0	104	30	17	9	42	1.81
353896--353937	17	2.5	17	88	11	68	50	0	9	40	1.35
354011--354043	17	1.9	17	93	0	57	33	0	0	66	0.92
357338--357369	14	2.3	14	100	0	64	43	21	6	28	1.77
367623--367708	39	2.2	38	93	2	145	17	13	19	48	1.80
368382--368443	21	2.8	22	80	9	72	37	20	6	35	1.79
368778--368849	23	3.2	23	84	2	83	40	20	5	33	1.76
368283--369323	415	2.6	411	92	6	1745	38	14	8	38	1.76
369193--369262	21	3.2	22	82	10	81	40	20	5	34	1.76
370384--370424	21	1.9	22	90	5	66	19	24	14	41	1.89
372722--372761	17	2.3	16	84	16	53	17	17	12	52	1.74
372836--373243	217	1.9	214	89	8	632	38	8	7	45	1.63
373655--373681	12	2.2	12	100	0	54	0	40	0	59	0.98
379584--379628	10	4.1	10	79	20	54	8	11	22	57	1.60
379567--379637	24	3.0	24	89	0	61	11	14	25	49	1.76
379588--379637	14	3.9	14	77	20	63	8	12	26	54	1.64
379577--379649	24	3.0	24	94	4	121	10	12	23	53	1.69
379577--379662	24	3.6	24	89	4	120	12	11	20	54	1.69
380734--380807	10	7.6	10	66	22	50	9	9	21	59	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
380739--380803	16	4.1	16	93	0	112	7	10	23	58	1.57
383982--384024	17	2.5	17	76	3	50	34	0	0	65	0.93
386332--386406	35	2.2	33	81	11	91	28	6	5	60	1.44
390750--390783	13	2.7	13	90	4	52	11	2	0	85	0.71
400256--400371	41	2.8	41	72	6	110	31	23	19	25	1.98
404448--404586	51	3.1	42	75	20	138	47	17	25	8	1.77
407444--407490	24	2.0	23	83	4	58	57	6	6	29	1.49
408822--408865	20	2.1	21	84	12	56	50	9	0	40	1.34
409040--409093	26	2.1	26	85	0	72	44	18	5	31	1.73
432767--432850	39	2.2	39	93	0	141	29	4	17	47	1.68
433871--434050	64	2.8	63	83	3	209	36	20	17	26	1.94
434362--434397	12	3.0	12	91	0	63	33	5	25	36	1.79
434519--434566	15	3.2	15	93	0	78	16	16	31	35	1.92
440704--440924	64	3.5	64	81	4	216	33	19	19	28	1.96
441232--441267	12	3.0	12	87	0	54	33	5	22	38	1.77
441412--441443	15	2.1	15	94	0	55	18	18	28	34	1.95
442267--442348	30	2.7	30	92	3	130	21	24	23	30	1.99
442615--442818	36	5.7	36	89	0	300	17	23	25	33	1.96
447794--447848	20	2.8	20	94	0	101	29	20	23	27	1.99
447853--447938	19	4.2	19	76	16	82	36	5	27	30	1.80
448313--448360	19	2.4	20	75	6	53	37	20	20	20	1.95
448554--448628	19	3.9	19	96	0	132	22	16	29	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
454973--455000	2	14.0	2	100	0	56	50	0	0	50	1.00
458782--458824	15	2.8	16	82	13	54	51	13	11	23	1.74
475524--475586	2	31.5	2	100	0	126	50	0	0	49	1.00
489094--489162	31	2.2	31	84	5	86	30	24	23	21	1.99
494693--494725	2	16.5	2	100	0	66	51	0	0	48	1.00
502396--502423	11	2.5	11	100	0	56	17	0	0	82	0.68
502997--503049	21	2.5	21	75	6	63	20	24	18	35	1.95
503039--503152	21	5.5	21	74	7	74	38	17	21	22	1.93
503039--503193	62	2.5	60	93	5	204	38	19	20	21	1.93
503087--503316	20	11.3	20	77	10	171	34	24	18	22	1.96
503138--503256	41	2.9	41	93	0	202	38	24	16	20	1.92
503099--503236	21	6.7	21	73	9	122	40	22	17	19	1.91
503087--503275	62	3.1	61	82	8	163	35	24	18	21	1.95
503149--503316	41	4.2	40	87	2	151	33	26	18	22	1.97
504036--504089	24	2.2	24	90	0	81	22	16	20	40	1.91
506515--506587	20	3.6	20	71	20	62	36	21	15	26	1.93
506581--506672	19	5.4	19	67	24	78	46	18	22	11	1.82
506599--506686	14	5.6	14	70	23	59	44	19	25	11	1.84
506581--506707	33	3.8	33	96	0	227	45	18	24	11	1.82
506581--506711	19	7.7	18	65	23	70	45	19	24	10	1.81
506868--506903	14	2.6	14	86	4	56	47	22	0	30	1.52
508740--509038	93	3.3	91	87	10	425	45	18	13	22	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
510723--510804	20	4.2	20	73	14	89	48	18	20	12	1.79
510721--510796	40	1.9	39	86	2	107	48	19	19	11	1.79
510828--510905	19	4.4	19	76	15	85	10	19	23	47	1.79
510844--510939	33	2.9	33	88	1	138	11	21	21	44	1.84
511485--511618	20	6.7	20	88	5	207	20	20	19	40	1.92
511459--511756	41	7.3	41	75	11	168	26	18	20	34	1.96
511485--511626	61	2.3	60	85	2	203	21	19	19	40	1.92
511615--511680	21	3.2	21	78	4	71	39	18	22	19	1.92
511527--511761	61	3.8	61	69	9	154	27	19	20	32	1.97
511487--511659	81	2.1	80	81	4	195	24	20	19	35	1.96

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