genome.fa.s9014.2.7.7.80.10.50.1000.2.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: VEPZ01009014.1 Hibiscus syriacus cultivar Beakdansim tig00112402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3470424

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  2  of  13  ( 1552 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)
237887--237962	40	1.9	40	89	5	118	43	2	0	53	1.14
237896--237968	32	2.3	31	84	13	94	42	2	0	54	1.14
239172--239200	13	2.1	14	93	6	51	68	0	3	27	1.05
239441--239472	14	2.2	15	94	5	57	68	0	3	28	1.04
249120--249521	43	9.4	43	85	2	479	33	19	22	24	1.97
249126--249522	128	3.1	125	83	4	463	34	19	22	24	1.97
252241--252312	3	23.7	3	81	18	87	63	0	0	36	0.94
252574--253025	113	4.0	113	91	0	670	27	20	15	36	1.93
252815--253555	212	3.4	212	80	8	804	27	19	14	38	1.91
253177--253355	95	1.9	95	84	5	245	32	17	15	34	1.91
253273--253557	113	2.5	113	87	2	437	28	18	15	37	1.92
253957--254030	22	3.4	22	94	0	121	35	14	14	35	1.88
254399--254564	54	3.1	54	92	1	271	24	24	15	35	1.94
258197--258226	13	2.3	13	100	0	60	20	23	20	36	1.95
258557--258598	7	6.0	7	78	10	50	54	14	16	14	1.71
260744--260787	21	2.2	20	87	4	61	72	0	0	27	0.85
264935--265165	123	1.9	123	80	5	270	34	16	17	31	1.93
264888--265344	41	11.2	40	76	6	242	34	17	16	31	1.93
264888--265344	82	5.6	81	77	5	332	34	17	16	31	1.93
265251--265368	40	2.9	41	75	5	114	32	17	15	34	1.91
267253--267293	21	1.9	22	85	5	57	26	19	12	41	1.87
273608--273857	125	2.0	125	97	0	473	32	22	10	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
275558--275599	21	2.0	21	100	0	84	28	14	4	52	1.62
277880--277929	21	2.4	21	90	6	75	36	6	20	38	1.77
281036--281073	15	2.7	15	84	8	53	36	21	21	21	1.95
282448--282499	14	3.7	14	92	0	86	17	11	11	59	1.60
282684--282747	24	2.7	23	80	4	74	15	17	14	53	1.74
282669--282761	23	4.0	24	78	4	91	13	16	15	54	1.71
282721--282791	23	3.0	23	85	2	79	9	11	21	57	1.62
282735--282791	24	2.4	23	85	2	69	10	8	21	59	1.57
305480--305522	21	2.0	21	86	8	61	23	23	18	34	1.96
309253--309302	17	2.7	19	87	12	86	30	18	30	22	1.97
317408--317579	66	2.6	65	86	4	231	31	16	14	36	1.89
317393--317518	36	3.7	35	65	21	88	30	16	15	38	1.89
317409--317629	66	3.4	65	80	8	229	32	16	14	35	1.90
317526--317713	98	1.9	98	81	6	229	32	18	13	35	1.90
320356--320414	15	3.9	15	90	0	73	13	28	11	45	1.79
320353--320415	30	2.1	30	87	0	90	12	28	14	44	1.82
323598--323681	4	22.5	4	68	13	54	50	0	0	50	1.00
323598--323681	6	15.0	6	75	14	54	50	0	0	50	1.00
323598--323681	38	2.2	38	95	0	150	50	0	0	50	1.00
323801--323850	25	2.0	25	84	0	64	20	10	42	28	1.84
332326--332421	31	3.1	31	84	3	113	26	15	21	36	1.93
337225--337297	31	2.4	31	86	4	103	27	19	19	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
340378--340514	72	1.9	72	89	3	213	29	18	14	37	1.90
341002--341120	59	2.0	58	88	1	157	26	15	21	36	1.94
342326--342360	18	1.9	18	88	0	52	11	11	14	62	1.54
346000--346041	22	1.9	22	85	0	57	30	9	21	38	1.85
347692--347734	20	2.2	20	86	0	59	30	13	20	34	1.92
352635--352677	20	2.2	20	86	0	59	30	13	20	34	1.92
358340--358388	6	8.2	6	88	0	62	0	16	46	36	1.47
358661--358715	22	2.5	22	78	0	56	29	10	21	38	1.88
363277--363345	22	3.2	22	69	8	70	33	15	20	30	1.94
363273--363366	42	2.2	42	90	1	143	32	15	23	27	1.95
368862--368906	22	2.0	22	83	8	56	62	11	4	22	1.46
378445--378509	23	3.2	20	82	12	62	20	27	30	21	1.98
382337--382376	21	1.9	21	85	10	55	35	10	2	52	1.48
384553--384612	31	1.9	31	86	0	84	46	10	3	40	1.54
390794--390838	22	2.0	22	100	0	90	46	13	17	22	1.83
390967--391012	24	1.9	24	86	0	65	34	21	4	39	1.73
393776--393838	15	4.2	15	89	0	81	9	26	15	47	1.76
394820--394915	30	3.2	30	88	1	131	35	12	26	26	1.92
402569--402662	30	3.1	30	81	6	109	37	11	25	25	1.90
403185--403215	11	2.8	11	90	0	53	12	29	0	58	1.35
404606--404646	22	1.9	22	90	5	66	17	9	14	58	1.62
404853--404910	13	4.4	14	74	12	52	75	0	5	18	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
404831--404915	39	2.3	36	74	18	86	77	0	8	14	0.98
404853--404916	21	3.2	20	77	14	71	75	0	6	18	1.01
404920--405318	36	11.4	33	70	17	163	41	6	4	47	1.50
405004--405047	11	3.7	11	85	11	52	38	11	9	40	1.73
405025--405249	36	6.2	36	81	8	233	42	6	4	47	1.48
405063--405119	12	4.8	12	73	16	55	47	5	0	47	1.24
405060--405119	13	4.8	13	74	15	56	46	5	0	48	1.24
405025--405221	107	1.8	107	89	4	308	42	7	3	47	1.48
405022--405308	36	7.8	37	81	7	221	41	6	5	47	1.51
405849--405904	28	2.0	28	89	0	85	44	17	16	21	1.86
410139--410177	18	2.2	18	90	0	60	43	35	7	12	1.72
411444--411507	23	2.8	23	76	4	67	32	25	23	18	1.97
412966--413003	20	1.9	20	100	0	76	23	21	21	34	1.97
412966--413023	20	2.7	20	86	10	71	25	20	20	32	1.97
413030--413172	64	2.2	66	79	7	161	27	21	16	33	1.95
417982--418039	20	2.7	20	86	10	71	27	22	18	31	1.97
423376--424386	83	12.4	81	75	8	810	29	24	20	25	1.99
423412--424368	327	3.0	323	82	5	1026	30	24	20	24	1.99
423418--424368	164	5.9	164	81	7	967	30	24	20	25	1.99
425011--425335	34	9.7	33	74	16	194	41	4	8	46	1.53
424994--425234	34	7.0	33	78	13	202	43	3	8	44	1.50
425045--425272	33	6.8	33	76	14	184	42	3	7	46	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
425135--425329	94	2.1	93	81	12	220	40	4	8	47	1.52
425057--425335	33	8.5	33	71	20	126	40	3	8	47	1.51
426607--426657	13	4.0	12	78	17	50	21	3	0	74	0.98
429340--429418	15	5.3	15	92	0	122	10	25	18	45	1.81
433436--433521	42	2.1	42	83	8	108	63	2	3	30	1.23
433654--433692	14	2.7	15	88	4	53	66	0	2	30	1.05
434084--434191	37	2.9	37	95	0	189	33	12	13	40	1.82
434763--436194	247	5.8	248	86	3	1884	24	19	24	30	1.98
434763--436194	491	2.9	488	85	5	1874	24	19	24	30	1.98
439999--440080	20	4.1	19	80	12	92	18	25	37	18	1.93
439999--440080	41	2.0	40	86	6	112	18	25	37	18	1.93
441549--441596	19	2.5	20	82	3	62	29	12	6	52	1.63
442455--442524	34	2.1	32	89	5	104	21	31	15	31	1.95
443975--444050	24	3.1	22	73	17	55	71	1	6	21	1.16
443952--444131	49	3.6	49	75	15	154	70	1	4	24	1.13
444122--444179	25	2.3	25	80	16	66	63	6	1	27	1.29
444685--444759	37	2.0	37	94	0	132	30	12	14	42	1.82
446887--446936	15	3.3	15	82	0	55	46	8	26	20	1.78
446899--446945	18	2.8	18	81	9	55	40	10	27	21	1.86
448470--448553	3	28.0	3	83	9	100	39	1	0	59	1.05
449786--449825	12	3.1	13	82	10	55	40	0	0	60	0.97
450492--450571	28	2.8	29	72	22	71	25	5	3	66	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
452129--452182	14	3.8	14	82	4	63	24	14	9	51	1.71
455478--455508	16	2.0	15	93	6	53	83	0	16	0	0.64
457758--458098	114	3.0	114	93	0	565	33	15	20	31	1.93
460219--460419	54	3.8	54	84	3	241	38	14	21	24	1.91
460791--460845	22	2.5	22	90	0	92	34	12	14	38	1.84
461245--461924	113	6.0	113	94	1	1080	38	16	18	27	1.91
461968--462026	17	3.4	17	66	25	50	50	11	22	15	1.76
462269--462352	3	28.0	3	83	9	109	38	1	0	60	1.04
463591--463630	12	3.1	13	82	10	55	40	0	0	60	0.97
479798--479830	3	11.0	3	93	0	57	30	0	0	69	0.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13