genome.fa.s1470.2.7.7.80.10.50.1000.4.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: VEPZ01001470.1 Hibiscus syriacus cultivar Beakdansim tig00002847_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1178067

Tables:   1   2   3   4   5   6   7   

This is table  4  of  7  ( 779 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)
611047--611090	20	2.2	20	87	0	61	11	13	18	56	1.66
612589--612638	21	2.4	21	79	0	55	22	16	32	30	1.95
613070--613229	20	8.6	19	68	19	97	37	21	20	20	1.94
613089--613225	34	3.9	34	77	11	130	36	21	21	20	1.95
613070--613229	34	4.3	38	71	15	120	37	21	20	20	1.94
613081--613225	74	2.0	74	92	0	245	37	20	20	21	1.95
613234--613270	19	1.9	19	94	0	65	8	16	27	48	1.74
613254--613330	33	2.3	34	90	2	120	15	20	22	41	1.90
613308--613394	20	4.3	20	88	0	120	22	16	25	35	1.94
613308--613394	40	2.2	40	91	0	138	22	16	25	35	1.94
613381--613424	20	2.2	20	100	0	88	13	11	22	52	1.72
613904--614002	21	4.7	21	72	3	83	22	35	18	24	1.96
613911--613992	42	2.0	42	87	0	119	20	40	15	23	1.91
615388--615453	30	2.2	30	97	0	123	30	3	12	54	1.52
615426--615540	54	2.1	54	87	3	169	31	3	17	47	1.64
615603--615840	20	12.9	20	71	15	154	24	20	20	34	1.96
615566--615778	34	5.9	34	73	13	149	23	20	21	35	1.96
615696--615837	54	2.6	54	92	2	232	22	20	21	35	1.96
615564--615798	74	3.2	73	87	1	308	22	20	20	35	1.96
615805--615847	20	2.2	20	86	0	59	30	11	20	37	1.89
616015--616049	18	1.9	18	94	0	61	17	5	25	51	1.67
618296--618349	24	2.2	24	93	0	90	40	20	18	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
622916--622969	21	2.6	21	78	0	63	27	20	20	31	1.97
624784--624840	20	2.8	21	81	5	71	59	22	7	10	1.54
625477--625545	21	3.3	21	76	11	88	17	15	26	40	1.89
625492--625564	20	3.6	20	78	10	94	20	19	28	31	1.97
625477--625605	41	3.1	41	89	2	179	23	17	26	33	1.96
634126--634176	10	5.1	10	82	0	66	58	19	9	11	1.60
634094--634169	16	5.0	15	73	17	68	60	18	9	11	1.57
635203--635243	14	2.9	14	88	0	64	56	14	12	17	1.68
635474--635578	51	2.1	51	94	0	183	34	14	8	42	1.76
635469--635553	26	3.3	25	66	26	61	37	12	9	40	1.76
639702--639802	50	2.0	50	96	0	184	35	13	7	42	1.74
639714--639792	25	3.2	25	67	13	72	34	15	7	43	1.75
639725--639804	25	3.2	25	66	13	65	33	13	8	43	1.75
640000--640074	31	2.4	31	95	0	141	10	13	41	34	1.79
640298--640375	38	2.1	38	97	0	147	14	10	34	41	1.79
641227--641282	2	29.0	2	78	7	62	51	0	0	48	1.00
656392--656463	30	2.4	30	88	2	99	33	18	13	34	1.90
657481--657529	3	16.0	3	82	4	62	30	0	65	4	1.11
657637--657711	30	2.5	30	80	0	87	40	12	14	33	1.83
657800--657832	14	2.2	16	89	10	52	42	0	0	57	0.98
659804--659860	22	2.6	22	79	17	66	54	0	0	45	0.99
659999--660044	23	2.0	23	95	0	83	58	2	0	39	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
660138--660176	19	2.1	19	85	0	51	53	0	0	46	1.00
662171--662231	18	3.6	16	74	17	52	32	1	0	65	1.02
663375--663654	124	2.3	124	82	5	334	39	16	14	30	1.88
663821--663910	8	11.2	8	71	0	54	37	25	3	33	1.73
663848--663911	24	2.6	25	80	7	69	40	25	4	29	1.76
666788--666860	29	2.4	30	84	13	89	56	27	1	15	1.48
669522--669599	23	3.3	23	80	1	84	34	23	17	24	1.96
669606--669823	103	2.1	103	98	0	418	37	22	13	26	1.91
674679--674720	15	2.7	15	88	3	57	57	11	21	9	1.63
678235--678325	48	1.9	47	89	10	141	53	8	36	1	1.39
678189--678516	162	2.0	163	94	5	574	56	7	30	5	1.51
678397--678503	49	2.3	45	81	12	126	57	7	34	0	1.33
679041--679068	12	2.3	12	100	0	56	7	7	10	75	1.20
680276--680412	2	71.5	2	75	11	126	42	1	0	56	1.08
680472--680767	85	3.5	84	86	2	380	33	16	19	30	1.94
680745--680777	13	2.5	13	95	0	57	30	21	21	27	1.98
687727--687794	2	34.0	2	100	0	136	50	0	0	50	1.00
688902--689016	56	2.0	57	81	6	135	20	17	19	42	1.89
692630--692682	13	4.0	13	85	2	61	41	3	1	52	1.30
692622--692679	27	2.1	27	84	6	73	41	3	1	53	1.28
698008--698088	23	3.6	23	75	8	78	27	22	25	24	2.00
703908--703960	19	2.8	19	85	0	79	22	16	28	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
704415--704457	16	2.6	17	75	14	54	44	0	0	55	0.99
705122--705240	50	2.3	50	82	2	130	15	31	30	21	1.95
705517--705737	110	2.0	111	91	0	363	36	8	8	46	1.65
711866--711894	3	9.7	3	100	0	58	34	0	0	65	0.93
712074--712787	76	9.4	76	97	0	1275	34	21	19	23	1.96
712791--713110	167	1.9	169	90	1	509	39	12	12	35	1.81
713633--713684	22	2.4	22	90	0	86	38	13	9	38	1.77
714052--714207	54	2.9	54	95	0	276	23	24	16	35	1.94
716286--716511	114	2.0	114	93	0	389	30	20	15	32	1.94
721544--721595	14	3.6	14	80	12	52	61	5	15	17	1.52
725737--725796	3	20.0	3	89	0	57	55	0	0	45	0.99
726363--726490	64	2.0	67	89	7	201	27	19	18	34	1.95
726375--726535	64	2.5	63	82	5	180	27	21	17	34	1.95
729613--729708	51	1.9	51	93	4	169	30	20	22	26	1.99
729613--729733	49	2.4	51	87	5	158	28	22	23	26	1.99
731320--731344	10	2.5	10	100	0	50	32	0	8	60	1.26
731569--731610	22	1.9	22	90	0	66	23	23	23	28	2.00
732653--732679	2	13.5	2	100	0	54	48	0	0	51	1.00
733477--733506	13	2.3	13	94	0	51	63	0	3	33	1.11
733660--733703	5	8.6	5	80	5	52	72	4	0	22	1.02
733660--733703	16	2.8	16	82	3	54	72	4	0	22	1.02
734937--734987	16	3.2	16	77	2	59	76	0	7	15	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
735034--735318	35	8.2	34	69	20	121	44	7	4	42	1.53
735034--735318	34	8.2	34	70	20	103	44	7	4	42	1.53
735140--735280	35	3.9	35	81	9	160	43	7	3	45	1.48
735134--735318	74	2.6	72	82	9	216	45	7	3	43	1.49
735214--735321	39	2.8	38	80	6	128	47	7	4	40	1.52
735312--735350	2	19.5	2	94	0	69	48	0	2	48	1.15
735943--737227	84	15.5	82	78	6	1274	23	20	25	30	1.99
735882--737208	165	8.0	165	86	2	1732	23	20	25	30	1.99
735968--737208	333	3.7	333	93	1	1933	23	20	25	30	1.99
740487--740533	19	2.4	20	89	3	69	68	8	12	10	1.40
742221--742250	13	2.3	13	94	0	51	63	0	3	33	1.11
743819--743962	59	2.4	59	79	15	170	46	6	4	42	1.50
743841--743891	26	1.9	27	92	4	70	49	7	3	39	1.51
743914--743998	33	2.6	32	72	5	89	47	7	3	42	1.48
743983--744037	2	27.5	2	92	0	92	47	0	3	49	1.19
744656--745004	20	17.5	20	84	4	418	34	26	18	20	1.95
745685--745731	24	2.0	24	87	8	69	25	14	21	38	1.92
745904--745928	12	2.1	12	100	0	50	72	0	28	0	0.86
748192--748512	19	18.4	19	77	18	360	47	18	20	13	1.82
748192--748493	33	8.8	33	79	15	248	47	18	20	13	1.82
748420--748474	14	3.6	14	78	21	65	49	20	20	10	1.78
748220--748534	52	6.0	52	82	11	403	46	17	21	14	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
748541--748642	19	5.6	19	85	12	151	14	23	17	44	1.86
748749--748785	14	2.6	14	91	0	65	45	21	0	32	1.52
750097--750184	14	5.6	14	73	23	77	43	22	25	9	1.82
750089--750203	33	3.5	33	93	0	203	45	20	24	10	1.82
750096--750208	19	6.8	18	73	23	79	43	21	24	10	1.84
750220--750274	14	3.6	14	73	21	56	9	25	23	41	1.83
750204--750274	33	2.2	33	94	0	124	8	22	25	43	1.81
750215--750296	33	2.5	33	89	2	119	9	25	21	42	1.84
750227--750315	20	4.8	20	72	19	75	12	24	19	43	1.85
750394--750464	33	2.2	33	92	0	115	47	18	22	11	1.80

Tables:   1   2   3   4   5   6   7