genome.fa.s1162.2.7.7.80.10.50.1000.3.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: VEPZ01001162.1 Hibiscus syriacus cultivar Beakdansim tig00002317_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1560963

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 971 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)
408036--408092	30	1.9	30	89	7	89	54	5	5	35	1.46
408075--408108	14	2.5	14	95	4	61	58	0	5	35	1.22
411630--411699	21	3.3	21	95	0	122	24	37	27	11	1.89
414509--414548	18	2.2	18	90	0	62	52	0	0	47	1.00
417008--417059	20	2.5	20	93	3	86	57	15	11	15	1.65
419808--419859	23	2.5	20	79	17	52	65	26	0	7	1.20
421834--421888	20	2.7	19	80	8	56	30	18	27	23	1.97
427595--427766	73	2.4	74	85	4	224	23	19	27	30	1.98
430720--430744	2	12.5	2	100	0	50	52	0	0	48	1.00
431364--431406	19	2.3	18	81	14	52	23	2	13	60	1.45
431617--431657	21	2.0	20	95	4	73	31	4	24	39	1.76
431829--431871	23	1.9	22	85	4	59	41	0	16	41	1.48
434150--434596	131	3.4	130	82	3	524	31	17	20	29	1.96
435954--436002	1	49.0	1	79	0	53	0	0	10	89	0.48
435956--436002	7	6.9	7	90	9	71	0	0	10	89	0.49
435954--436002	10	4.8	10	90	9	73	0	0	10	89	0.48
435956--436002	17	2.7	18	83	9	71	0	0	10	89	0.49
436020--436077	10	5.9	10	74	11	57	1	24	0	74	0.92
436020--436054	18	1.9	18	94	0	61	0	22	0	77	0.78
436000--436051	18	2.8	18	82	5	59	7	21	0	71	1.11
440008--440078	12	5.9	12	81	0	52	26	15	22	35	1.94
440022--440078	6	9.5	6	80	0	69	22	15	26	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
440014--440072	18	3.3	18	78	0	55	25	15	23	35	1.94
440010--440055	24	1.9	24	90	0	74	28	10	21	39	1.87
440021--440091	12	5.9	12	78	5	72	23	14	25	36	1.92
440063--440372	6	51.7	6	88	0	224	24	5	23	45	1.74
440242--440379	6	23.0	6	98	0	249	32	0	17	50	1.47
440370--442732	6	397.3	6	94	4	4064	49	17	0	32	1.52
446634--446680	20	2.4	20	86	10	62	31	12	4	51	1.59
450604--450636	10	3.2	11	91	8	52	78	6	6	9	1.08
454932--455091	81	1.9	83	86	6	225	26	11	22	39	1.88
459385--459420	16	2.2	17	90	5	56	36	0	0	63	0.94
459519--459549	14	2.2	14	94	0	53	54	3	0	41	1.16
475927--475977	20	2.5	20	93	0	84	23	25	19	31	1.98
484314--484602	144	2.0	144	93	1	490	31	7	18	41	1.79
487071--487115	20	2.2	20	84	4	54	40	8	13	37	1.76
488428--488496	19	3.7	19	94	1	122	24	26	28	20	1.99
488424--488496	38	1.9	37	97	2	137	23	24	30	21	1.99
488552--488607	18	3.1	18	78	2	58	33	19	14	32	1.92
488552--488597	19	2.5	19	85	3	58	32	19	15	32	1.93
496842--496894	2	27.5	2	92	7	92	50	0	0	49	1.00
496932--496962	2	15.5	2	100	0	62	48	0	0	51	1.00
496968--497008	10	4.0	10	84	6	55	19	4	0	75	0.98
497014--497038	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
497243--497326	26	3.2	25	78	10	69	16	4	2	76	1.07
497282--497315	13	2.6	13	90	0	50	11	5	0	82	0.83
498030--498097	24	2.8	24	80	12	70	77	1	5	14	1.02
498048--498094	23	2.0	24	88	8	71	76	2	4	17	1.04
498275--498314	2	20.5	2	94	5	73	52	0	0	47	1.00
498274--498347	12	6.4	11	84	9	67	58	0	1	40	1.07
498321--498345	4	6.2	4	100	0	50	76	0	0	24	0.80
498408--498489	12	6.7	12	69	17	53	68	1	4	25	1.17
500290--500520	80	2.9	83	82	8	262	24	19	21	34	1.97
516715--516786	26	3.0	24	68	27	62	62	4	6	26	1.39
517460--517506	24	2.0	24	91	0	76	23	17	21	38	1.93
517680--517716	12	3.1	12	100	0	74	72	0	27	0	0.84
519999--520125	33	3.8	33	84	4	184	43	19	21	15	1.88
520003--520132	66	2.0	66	95	0	233	43	19	20	16	1.89
520140--520196	14	3.7	14	75	20	60	8	24	22	43	1.81
520125--520215	33	2.8	33	94	0	155	13	21	20	43	1.86
520154--520215	19	3.5	19	72	20	71	11	22	20	45	1.83
520321--520357	14	2.6	14	91	0	65	45	24	0	29	1.53
521711--521777	21	3.2	21	68	4	55	19	20	35	23	1.95
521711--521831	42	2.9	41	79	7	109	23	19	35	22	1.96
522051--522233	91	2.0	91	86	8	257	48	18	10	22	1.79
523944--524078	33	3.9	33	82	10	153	43	21	22	11	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
523919--524083	19	9.1	19	74	15	125	44	20	23	12	1.85
524079--524123	19	2.4	19	92	0	72	8	15	26	48	1.74
524696--524772	20	3.8	20	79	5	73	20	19	16	42	1.89
524799--524873	20	3.7	20	72	13	73	29	17	24	29	1.97
524796--524894	41	2.4	42	80	8	105	31	18	20	30	1.96
524718--524977	144	1.8	144	97	0	493	30	17	20	31	1.95
537734--537846	60	1.9	60	84	0	154	35	16	2	45	1.62
542007--542118	59	1.9	59	90	3	181	33	12	19	33	1.89
542279--542317	17	2.2	18	90	4	62	38	7	12	41	1.72
550966--551111	36	4.1	36	92	1	240	15	24	10	48	1.77
554472--554507	16	2.2	16	95	0	63	27	30	22	19	1.98
558763--558795	6	5.5	6	89	10	50	81	3	0	15	0.80
558763--558795	11	2.8	12	86	13	50	81	3	0	15	0.80
558762--558795	17	1.9	18	94	5	61	79	2	0	17	0.86
559938--559989	10	5.2	10	78	15	54	53	0	5	40	1.25
559949--559986	13	2.7	15	88	12	62	52	0	5	42	1.24
560087--560141	25	2.3	24	82	17	62	56	7	0	36	1.27
560087--560141	27	2.1	25	83	6	65	56	7	0	36	1.27
560158--560191	16	2.1	16	88	0	50	58	2	2	35	1.28
561179--561224	2	23.0	2	100	0	92	50	0	0	50	1.00
561690--561728	16	2.5	15	84	8	51	35	2	23	38	1.68
561809--561872	23	2.8	23	92	0	101	25	21	18	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
563399--563426	5	5.6	5	100	0	56	0	21	17	60	1.36
564675--564720	22	2.0	24	83	8	60	63	10	2	23	1.38
568146--568192	23	2.0	24	87	4	69	19	23	25	31	1.98
568847--568879	12	2.8	12	90	0	57	21	9	21	48	1.77
573739--573849	39	2.8	39	91	0	168	36	21	19	21	1.95
574712--574776	30	2.3	29	82	10	82	49	4	0	46	1.22
574993--575054	33	1.9	32	100	0	115	46	3	0	50	1.17
577874--577962	27	3.3	27	96	0	160	40	3	15	40	1.64
587887--588078	104	1.8	105	80	9	232	55	10	1	33	1.41
588269--588316	25	1.9	25	82	0	60	29	18	20	31	1.97
589438--589483	14	3.4	14	82	17	53	41	0	0	58	0.98
597153--597268	3	37.7	3	83	11	146	35	0	1	62	1.05
597685--597711	14	1.9	14	100	0	54	74	11	14	0	1.08
599287--599338	20	2.6	21	76	11	56	26	7	0	65	1.20
603990--604028	15	2.5	15	87	4	51	84	0	15	0	0.62
606319--606549	92	2.5	92	99	0	453	25	13	22	37	1.91
608238--608317	22	3.6	22	70	0	70	36	12	11	40	1.79
608831--609544	76	9.4	76	98	0	1329	21	20	21	36	1.95
609677--609796	3	40.7	3	80	12	133	37	0	1	60	1.07
609677--609796	38	3.2	34	81	17	134	37	0	1	60	1.07
610211--610235	13	1.9	13	100	0	50	72	12	16	0	1.13
611156--611231	35	2.2	35	78	4	82	34	6	1	57	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
615223--615252	11	2.7	11	94	0	51	40	20	0	40	1.52
615437--615484	10	4.8	10	77	10	53	22	2	2	72	1.05
616916--616990	13	5.5	14	68	15	50	21	16	12	50	1.76
618349--618470	11	10.8	11	80	14	115	78	1	18	0	0.88
618368--618471	7	15.3	7	82	9	108	79	0	19	0	0.78
618349--618471	18	6.6	18	79	10	113	78	1	18	0	0.88
618355--618471	25	4.6	25	82	11	114	78	1	18	0	0.89
620415--620615	54	3.7	54	88	0	303	32	9	16	40	1.81
620612--620662	24	2.1	24	96	0	93	17	15	13	52	1.74
620689--620856	54	3.2	53	80	6	182	27	10	18	43	1.82

Tables:   1   2   3   4   5   6   7   8   9