genome.fa.s4117.2.7.7.80.10.50.1000.2.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: VEPZ01004117.1 Hibiscus syriacus cultivar Beakdansim tig00009009_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2456583

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 1080 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)
338932--339074	77	1.9	76	86	1	205	25	21	6	46	1.76
339659--339697	18	2.2	18	86	4	53	76	5	10	7	1.13
365450--365515	30	2.2	29	86	10	89	39	10	12	37	1.77
379288--379353	30	2.2	29	86	10	89	39	10	12	37	1.77
383955--383985	15	2.1	15	93	0	53	29	12	32	25	1.93
384499--384544	24	1.9	24	90	0	74	23	28	26	21	1.99
391234--391259	10	2.6	10	100	0	52	61	19	0	19	1.35
392058--392321	20	13.1	19	78	12	251	16	20	26	36	1.94
392068--392318	40	6.2	40	93	5	407	16	19	26	37	1.93
392068--392318	82	3.1	82	94	2	429	16	19	26	37	1.93
393816--393854	2	19.5	2	100	0	78	51	0	0	48	1.00
402031--402237	99	2.1	100	96	0	380	37	20	22	19	1.94
404665--404695	7	4.4	7	100	0	62	25	29	29	16	1.96
404685--404727	22	2.0	22	100	0	86	9	23	48	18	1.76
404726--404823	19	5.1	19	80	13	101	28	27	26	17	1.98
404724--404822	9	10.3	9	80	10	90	28	27	28	16	1.97
404725--404822	29	3.4	28	85	5	124	28	27	27	16	1.97
411882--411912	7	4.4	7	100	0	62	25	29	29	16	1.96
411902--411966	22	3.0	22	97	0	121	10	23	47	18	1.79
411909--411966	5	10.8	5	75	14	53	8	22	50	18	1.74
411965--412062	19	5.1	19	80	13	101	28	27	26	17	1.98
411963--412061	9	10.3	9	80	10	90	28	27	28	16	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411964--412061	29	3.4	28	85	5	124	28	27	27	16	1.97
419205--419276	22	3.6	20	77	20	62	66	1	8	23	1.27
419235--419275	19	2.2	19	86	8	57	63	0	12	24	1.28
426708--426783	39	1.9	39	94	0	134	21	14	46	18	1.84
426938--427041	39	2.7	37	88	5	145	16	44	12	26	1.83
427078--427142	12	5.6	12	79	20	84	16	26	30	26	1.97
427078--427157	23	3.5	23	98	1	153	17	26	30	26	1.97
427090--427155	11	5.8	11	80	19	82	18	27	28	25	1.98
434386--434431	3	15.3	3	86	8	67	63	0	2	34	1.07
434657--434884	40	5.4	42	70	15	132	24	18	32	25	1.97
434691--434884	40	4.6	41	72	13	139	25	18	31	24	1.98
434604--434897	129	2.2	131	92	4	486	23	19	31	25	1.98
435549--435740	66	2.9	65	75	12	176	46	10	14	28	1.77
435968--436160	37	5.6	37	67	17	155	45	11	11	31	1.77
436010--436384	30	12.1	29	69	19	136	42	13	11	32	1.80
435957--436199	67	3.7	67	97	1	454	45	11	11	31	1.76
436077--436298	94	2.4	97	81	6	269	41	13	10	34	1.79
436258--436384	29	4.5	27	86	8	166	42	17	10	29	1.82
436258--436396	57	2.4	56	84	5	183	43	17	10	28	1.81
436389--436432	21	2.0	22	82	8	54	52	4	13	29	1.60
436637--436740	36	3.0	36	81	4	124	35	11	20	32	1.88
436638--436756	36	3.4	36	79	6	111	36	12	21	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
436708--436940	105	2.3	101	82	9	258	37	12	18	31	1.88
437398--437435	4	10.0	4	83	11	53	26	0	23	50	1.50
437675--437813	66	2.1	66	94	4	253	30	10	11	47	1.73
438679--438716	11	3.4	11	89	7	58	2	15	10	71	1.25
438672--438738	25	2.7	26	73	17	70	1	16	10	71	1.20
438700--438746	18	2.6	17	75	21	51	4	12	14	68	1.36
439339--439409	26	3.0	24	71	20	78	42	11	22	23	1.86
439324--439416	46	2.0	45	89	2	141	39	9	24	25	1.86
440819--440880	32	2.0	32	96	3	117	61	9	14	14	1.57
444352--444397	3	15.3	3	86	8	67	63	0	2	34	1.07
447137--447202	30	2.2	29	81	10	80	37	10	13	37	1.80
450034--450067	16	2.1	16	94	0	59	32	8	26	32	1.87
459764--459827	3	21.3	3	93	0	101	34	4	0	60	1.17
459858--459890	10	3.3	10	91	0	57	75	0	0	24	0.80
462781--463272	83	5.9	84	91	3	773	28	15	20	35	1.93
462781--463272	167	3.0	167	92	2	796	28	15	20	35	1.93
462781--463268	250	2.0	249	93	1	834	28	15	20	35	1.93
463855--464602	113	6.5	113	92	2	1111	36	14	19	29	1.92
464844--464938	3	31.7	3	95	0	163	33	3	0	63	1.10
464968--464999	10	3.2	10	90	0	55	75	0	0	25	0.81
465460--465496	18	2.1	18	100	0	74	78	5	16	0	0.93
466297--466340	24	2.0	23	86	13	65	27	0	9	63	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
466391--466431	20	2.0	21	85	4	57	36	2	2	58	1.24
478963--479454	83	5.9	84	91	3	773	28	15	20	35	1.93
478963--479454	167	3.0	167	92	2	796	28	15	20	35	1.93
478963--479450	250	2.0	249	93	1	834	28	15	20	35	1.93
480037--480784	113	6.5	113	92	2	1111	36	14	19	29	1.92
481026--481105	3	26.7	3	94	0	133	33	3	0	62	1.13
481026--481114	12	7.2	13	86	9	100	35	3	0	60	1.13
482171--482214	24	2.0	23	86	13	65	27	0	9	63	1.24
482265--482305	20	2.0	21	85	4	57	36	2	2	58	1.24
484054--484119	30	2.2	29	86	10	89	39	10	12	37	1.77
492142--492196	3	18.0	3	85	10	76	30	0	3	65	1.10
493967--494009	19	2.3	19	83	0	50	25	4	9	60	1.47
498890--498950	30	2.0	31	83	3	79	65	14	14	4	1.43
498921--498962	12	3.6	11	87	9	57	69	11	14	4	1.34
500149--500214	4	17.0	4	93	6	118	50	25	0	24	1.50
500557--500665	38	2.9	36	84	6	128	32	19	12	35	1.89
500617--500748	66	2.0	66	98	0	255	34	18	9	37	1.84
500751--500989	105	2.3	102	83	7	288	31	20	11	37	1.88
500935--501053	36	3.4	36	81	4	118	31	21	12	35	1.90
501303--501367	29	2.3	28	84	5	87	32	7	15	44	1.75
501303--501376	28	2.7	27	83	10	87	29	8	17	44	1.77
501262--501538	119	2.3	119	90	3	421	27	11	14	46	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
501422--501486	28	2.3	27	84	7	85	30	7	15	46	1.74
501427--501509	26	3.1	25	81	11	85	28	8	14	48	1.73
501505--501608	52	2.0	53	94	3	183	32	13	17	36	1.89
501596--501860	30	8.1	30	69	16	161	33	10	11	44	1.76
501613--501892	67	4.2	67	98	0	533	31	11	11	45	1.75
502143--502267	64	2.0	63	88	1	187	31	14	11	43	1.80
502424--502482	15	3.9	15	95	0	100	30	20	5	44	1.73
502897--503272	43	8.7	41	69	18	219	26	32	18	22	1.97
502898--503272	40	8.6	43	70	15	234	26	32	18	22	1.97
502981--503312	50	7.3	48	67	22	182	26	31	18	23	1.97
502888--503295	133	3.1	133	99	0	798	26	31	18	22	1.97
503489--503543	3	18.0	3	85	10	76	30	0	3	65	1.10
504111--504137	9	3.0	9	100	0	54	88	0	11	0	0.50
505311--505353	19	2.3	19	83	0	50	25	4	9	60	1.47
511699--511752	22	2.5	22	100	0	108	38	9	9	42	1.69
539317--539373	30	1.9	30	88	0	87	36	7	15	40	1.75
539317--539391	30	2.5	30	80	8	82	36	8	16	40	1.77
540792--540827	11	3.3	11	84	0	54	2	8	38	50	1.47
546733--546763	2	15.5	2	100	0	62	51	0	0	48	1.00
560874--560939	30	2.2	30	89	10	100	39	12	10	37	1.77
571433--571549	39	2.9	40	89	2	173	23	14	45	17	1.85
571644--571760	39	2.9	40	91	3	191	17	45	14	23	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
571644--571759	41	3.1	36	87	8	119	17	45	14	22	1.84
578651--578716	30	2.2	30	89	10	100	39	12	10	37	1.77
594408--594440	16	2.1	16	100	0	66	36	30	18	15	1.91
598678--598720	22	2.0	22	90	9	70	13	23	44	18	1.86
598719--598777	19	3.1	19	92	2	91	30	28	23	16	1.97
598717--598776	9	6.3	9	79	11	66	30	28	26	15	1.96
600140--600205	30	2.2	30	89	10	100	39	12	10	37	1.77
602089--602147	29	2.0	29	96	0	109	23	11	13	50	1.74
604825--604859	15	2.3	15	100	0	70	28	34	22	14	1.93
617840--617899	29	2.1	28	90	3	93	30	11	8	50	1.68

Tables:   1   2   3   4   5   6   7   8   9