genome.fa.s8001.2.7.7.80.10.50.1000.3.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: VEPZ01008001.1 Hibiscus syriacus cultivar Beakdansim tig00110458_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3902382

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  3  of  18  ( 2081 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)
436343--436385	22	2.0	22	95	0	77	34	0	11	53	1.37
436397--436439	22	2.0	22	95	0	77	37	0	11	51	1.39
436428--436513	14	5.6	14	67	20	55	36	0	8	55	1.29
436442--436610	18	10.4	17	62	24	62	33	0	12	53	1.38
436595--436638	22	2.0	22	95	0	79	34	0	11	54	1.36
436626--436678	14	3.5	14	72	18	52	35	0	5	58	1.22
436761--436803	22	2.0	22	95	0	77	37	0	11	51	1.39
435809--436813	166	6.0	166	90	5	1599	33	0	12	53	1.39
436828--436886	31	1.9	31	86	6	84	45	8	5	40	1.56
442832--442989	79	2.0	79	96	0	289	32	27	11	28	1.91
450463--450631	20	8.4	20	76	7	112	27	24	13	35	1.92
450421--450619	61	3.3	62	84	9	223	26	24	13	35	1.93
450421--450631	60	3.5	60	79	11	191	27	24	13	34	1.93
450523--450650	20	6.5	20	77	11	104	27	23	11	37	1.90
450788--450825	16	2.5	15	84	12	51	28	5	0	65	1.14
451417--451449	12	2.8	12	90	4	50	57	27	0	15	1.38
451803--451833	3	10.3	3	92	0	53	67	0	32	0	0.91
455663--455739	21	3.7	21	87	0	109	20	20	37	20	1.94
456311--456409	42	2.4	42	89	0	144	18	18	35	28	1.94
457871--457909	20	2.0	20	89	0	60	17	12	15	53	1.72
457873--457916	20	2.2	20	83	0	52	18	13	15	52	1.75
458395--458440	20	2.3	20	92	0	74	17	13	23	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
458434--458545	20	5.5	21	71	11	81	25	16	21	36	1.94
458414--458505	40	2.3	38	80	14	105	21	15	19	43	1.87
464355--464452	41	2.4	40	72	9	99	32	18	18	30	1.95
464886--464919	16	2.1	16	89	10	52	67	0	0	32	0.91
467138--467245	55	2.0	55	92	0	180	29	18	13	37	1.90
471450--471890	230	1.9	230	84	4	584	37	15	18	28	1.92
476252--476291	18	2.2	19	86	8	57	37	2	0	60	1.11
476379--476424	19	2.4	19	85	0	56	26	4	8	60	1.44
476311--476394	4	20.8	4	73	7	62	26	3	4	65	1.29
476392--476428	19	1.9	19	94	0	65	18	5	13	62	1.50
478490--478547	28	2.0	28	83	9	73	27	10	6	55	1.59
478501--478561	28	2.2	28	88	5	88	18	11	6	63	1.47
478603--478655	17	3.1	17	75	5	61	35	3	5	54	1.42
492270--492304	12	2.9	12	86	0	52	77	2	0	20	0.90
494250--494643	197	2.0	197	97	0	743	42	19	11	26	1.85
494982--495031	5	9.6	5	78	8	55	74	4	2	20	1.08
499039--499285	57	4.3	57	86	0	314	27	34	3	34	1.73
499243--499288	24	1.9	24	81	0	56	23	34	0	41	1.55
501810--501864	26	2.1	26	93	0	92	7	40	27	25	1.82
503005--503029	13	1.9	13	100	0	50	16	4	8	72	1.24
504158--504206	23	2.1	23	84	0	62	48	10	16	24	1.76
513354--513388	3	11.7	3	87	0	52	25	5	0	68	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
518380--518459	24	3.3	24	100	0	160	28	17	16	37	1.91
518684--518749	30	2.2	30	86	0	87	12	31	22	33	1.91
518732--518770	20	2.0	20	85	10	53	5	30	23	41	1.76
519268--519292	2	12.5	2	100	0	50	52	0	0	48	1.00
519441--519515	39	1.9	39	84	10	100	48	1	13	37	1.51
519441--519546	39	2.7	38	75	13	99	44	0	16	38	1.54
521658--521693	13	2.8	13	91	0	54	38	19	5	36	1.75
521855--521888	2	17.0	2	88	11	52	47	2	0	50	1.16
526139--526181	18	2.2	21	88	12	65	69	6	0	23	1.12
528352--528391	22	1.9	22	90	10	66	57	0	0	42	0.98
530634--530696	29	2.1	31	85	5	85	38	19	3	39	1.67
530997--531049	21	2.5	21	100	0	106	35	26	13	24	1.92
533270--533303	18	1.9	18	94	5	61	35	2	8	52	1.47
534556--534594	18	2.2	18	86	9	53	20	17	5	56	1.60
537533--537568	10	3.6	10	92	0	54	86	2	0	11	0.68
544929--544983	21	2.6	21	94	0	92	30	21	21	25	1.98
545293--545335	18	2.2	20	80	19	56	44	16	0	39	1.48
545635--545682	23	2.1	23	84	7	62	64	0	25	10	1.25
555376--555428	21	2.5	21	96	0	97	56	28	1	13	1.47
555678--555819	71	2.0	72	87	1	205	38	9	15	36	1.81
560112--560206	33	3.0	32	92	4	140	41	23	13	22	1.89
560128--560206	33	2.4	33	100	0	158	40	22	13	22	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
567266--567326	21	3.2	21	63	26	53	45	16	6	31	1.73
567257--567327	36	2.0	35	94	2	124	45	16	7	30	1.75
571846--571916	36	2.0	35	94	2	124	46	15	5	32	1.69
571973--572043	34	2.1	34	89	5	108	22	28	16	32	1.96
574380--574419	17	2.3	18	86	4	55	45	2	47	5	1.38
582838--582906	30	2.3	30	94	0	120	44	23	11	20	1.83
587680--587719	21	1.9	21	89	0	62	32	25	27	15	1.95
590391--590425	2	17.5	2	87	0	52	42	0	5	51	1.25
590390--590427	20	1.9	20	100	0	76	39	0	10	50	1.37
591265--591404	36	3.9	35	85	2	190	18	25	20	35	1.95
591265--591409	72	2.0	71	91	1	236	17	24	20	37	1.94
604624--604901	29	9.7	29	78	2	202	46	7	10	34	1.67
604624--604901	57	4.8	58	78	2	229	46	7	10	34	1.67
604630--604852	86	2.6	86	80	3	250	47	8	13	31	1.71
604627--604901	86	3.2	86	77	4	196	47	7	10	34	1.67
605655--605765	42	2.6	42	92	4	179	23	14	24	37	1.92
609281--609392	42	2.7	42	76	6	120	33	17	20	27	1.95
609298--609432	41	3.3	40	76	14	132	33	20	20	25	1.97
609335--609596	82	3.2	82	76	11	182	34	16	18	30	1.94
609438--609632	83	2.4	82	80	12	206	36	15	16	30	1.91
609480--609639	41	3.9	40	84	6	189	34	15	17	33	1.91
609497--609655	41	3.9	41	79	8	162	33	15	18	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
609479--609639	82	2.0	82	86	7	229	34	14	17	32	1.91
609479--609672	83	2.4	82	79	9	193	36	13	16	32	1.88
610207--610573	42	8.8	42	86	3	494	26	20	20	32	1.97
610207--610573	83	4.4	82	86	4	479	26	20	20	32	1.97
610207--610573	125	3.0	124	92	1	576	26	20	20	32	1.97
613454--613530	3	25.7	3	100	0	154	66	0	0	33	0.92
615515--615768	129	2.0	129	85	4	352	31	26	19	22	1.98
615518--615768	43	5.8	43	84	0	277	30	27	19	22	1.98
615518--615770	86	2.9	86	85	1	328	30	26	19	23	1.98
615430--615770	43	7.9	43	77	7	255	30	25	19	24	1.98
618989--619042	27	2.0	27	92	0	90	38	5	7	48	1.55
626698--626747	15	3.1	15	75	13	55	28	20	38	14	1.91
635768--635862	24	4.0	24	78	0	100	41	18	15	24	1.90
635768--635862	48	2.0	48	85	0	127	41	18	15	24	1.90
649521--649595	24	3.1	24	82	0	78	42	17	13	26	1.86
655680--655713	16	2.0	18	88	11	54	47	0	17	35	1.48
661267--661349	24	3.5	24	86	0	121	40	20	14	24	1.89
661267--661376	48	2.3	48	84	6	134	43	18	13	24	1.86
662781--662817	13	2.8	13	87	0	56	8	32	37	21	1.83
669608--669682	24	3.1	24	84	0	78	41	20	13	25	1.88
672263--672292	11	2.7	11	100	0	60	60	20	10	10	1.57
673067--673098	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
674184--674217	16	2.0	18	88	11	54	47	0	17	35	1.48
674481--674517	19	1.9	19	88	0	56	56	13	18	10	1.66
680133--680167	2	17.5	2	100	0	70	51	0	0	48	1.00
680198--680259	24	2.6	25	90	10	103	51	0	9	38	1.35
680790--680893	50	2.1	50	96	0	190	18	21	22	38	1.93
687254--687328	24	3.1	24	80	0	69	48	20	8	24	1.76
687277--687334	24	2.4	24	85	0	71	39	20	13	25	1.90
693337--693384	23	2.1	23	88	0	69	35	12	18	33	1.89
693855--693908	23	2.5	20	75	18	54	42	18	1	37	1.61
693870--693932	23	2.7	23	92	0	99	38	20	4	36	1.74

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18