genome.fa.s7923.2.7.7.80.10.50.1000.19.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   

This is table  19  of  40  ( 4704 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)
3913210--3913329	19	6.7	19	67	21	89	11	24	20	44	1.84
3913214--3913308	33	2.9	33	98	0	181	12	24	18	44	1.85
3913280--3913329	22	2.5	20	83	9	66	12	22	22	44	1.85
3915577--3915601	12	2.1	12	100	0	50	0	28	0	72	0.86
3917063--3917099	14	2.6	14	86	0	56	48	21	0	29	1.50
3918930--3918995	19	3.5	19	82	0	87	36	24	24	15	1.93
3918968--3919073	32	3.4	33	82	15	145	47	25	17	9	1.78
3918984--3919068	14	5.9	14	84	13	118	48	27	16	8	1.74
3919080--3919199	18	6.6	18	78	12	104	13	21	23	41	1.88
3919145--3919199	20	2.8	19	83	8	65	16	23	23	36	1.94
3919664--3919708	18	2.5	18	85	0	63	15	15	42	26	1.87
3921001--3921038	20	1.9	20	88	0	58	50	21	15	13	1.78
3921521--3921613	19	4.7	19	75	13	80	22	18	24	34	1.96
3921542--3921676	41	3.3	40	80	8	121	20	20	20	38	1.94
3921603--3921695	21	4.6	20	79	4	105	18	23	18	39	1.92
3921603--3921698	41	2.3	41	96	0	174	18	22	17	40	1.91
3922639--3922728	20	4.4	20	78	2	81	23	17	25	33	1.96
3922673--3922752	21	3.9	21	75	6	65	18	18	20	42	1.89
3922657--3922791	41	3.3	41	81	4	130	20	20	20	38	1.94
3922718--3922810	21	4.6	20	79	4	105	18	23	18	39	1.92
3922718--3922813	41	2.3	41	96	0	174	18	22	17	40	1.91
3926354--3926411	19	2.8	20	89	10	75	36	22	5	36	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3926370--3926411	19	2.2	19	100	0	84	33	26	4	35	1.77
3930786--3930955	93	1.8	93	88	2	261	35	30	14	19	1.92
3931977--3932044	34	2.0	34	97	0	127	33	8	17	39	1.81
3934240--3934321	36	2.3	36	95	0	146	28	26	12	32	1.92
3935835--3935868	16	2.1	17	88	5	52	35	0	0	64	0.94
3937414--3937457	18	2.4	18	88	0	70	34	18	2	45	1.62
3937668--3937730	22	2.9	22	95	2	110	41	28	15	14	1.87
3937668--3937789	44	2.7	43	76	6	109	36	25	18	18	1.94
3937678--3937780	23	4.6	23	84	6	95	32	27	22	18	1.97
3939114--3939161	26	2.0	24	84	12	62	37	31	0	31	1.58
3942107--3942236	23	5.8	23	75	8	90	36	25	20	17	1.95
3943715--3943774	29	2.0	31	90	6	97	35	6	16	41	1.75
3943840--3943905	19	3.5	19	82	0	78	37	10	15	36	1.82
3944011--3944051	20	2.0	21	90	4	66	24	21	29	24	1.99
3944334--3944403	34	2.1	32	89	5	104	31	15	31	21	1.95
3950325--3950376	25	2.1	25	85	7	70	53	0	7	38	1.30
3950571--3950601	15	2.1	15	93	0	53	45	0	0	54	0.99
3950762--3950799	20	1.9	20	88	0	58	21	26	10	42	1.85
3952758--3952796	19	2.0	20	85	5	53	25	17	28	28	1.98
3954268--3954459	91	2.1	91	90	1	296	15	13	14	56	1.67
3955336--3955363	14	2.0	14	100	0	56	21	7	28	42	1.79
3960168--3960288	32	3.8	31	79	3	125	20	24	27	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3960172--3960308	64	2.1	64	83	9	172	21	24	26	28	1.99
3960693--3960755	31	2.0	31	81	9	74	31	4	6	57	1.45
3961597--3961638	3	14.3	3	95	5	77	33	0	0	66	0.92
3963677--3963720	22	2.0	22	81	0	52	27	4	15	52	1.63
3967351--3967396	20	2.3	19	82	17	58	76	10	13	0	1.03
3968554--3968598	4	11.8	4	90	9	76	51	24	0	24	1.49
3968989--3969050	19	3.2	20	63	19	51	25	17	12	43	1.85
3969072--3969310	105	2.3	102	84	7	297	30	19	12	37	1.88
3969256--3969340	36	2.4	36	84	4	109	30	21	11	36	1.89
3969620--3969691	28	2.6	28	84	8	101	34	6	15	43	1.73
3969643--3969706	28	2.3	27	86	5	83	34	4	12	48	1.62
3969702--3969803	52	2.0	52	88	7	154	33	13	17	35	1.89
3969790--3969885	31	3.1	31	86	11	128	37	10	12	39	1.77
3969791--3969952	30	5.1	30	76	14	148	34	11	12	41	1.78
3969869--3969985	37	3.3	37	68	17	122	30	11	11	45	1.77
3969839--3970005	67	2.5	67	94	1	293	29	12	11	45	1.78
3970924--3971005	28	2.9	28	83	3	94	24	12	13	50	1.76
3971062--3971266	43	4.7	44	76	10	190	26	31	19	22	1.98
3971064--3971386	43	7.4	45	71	13	187	26	31	18	23	1.97
3971017--3971355	130	2.6	129	90	3	511	26	30	19	23	1.98
3971561--3971644	3	28.3	3	97	2	161	33	0	0	66	0.92
3978323--3978371	3	17.0	3	87	8	75	32	2	0	65	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3978899--3979074	20	8.8	20	73	7	117	37	20	18	23	1.94
3978981--3979074	41	2.3	41	83	1	118	41	19	19	20	1.91
3979619--3979687	20	3.8	19	72	20	76	46	18	23	11	1.82
3979625--3979706	33	2.5	33	93	2	137	45	20	23	10	1.83
3979782--3979831	18	2.6	20	78	18	61	12	22	18	48	1.80
3979717--3979831	33	3.4	33	87	7	160	12	23	18	46	1.82
3983315--3983350	14	2.6	14	95	0	63	33	0	22	44	1.53
3983454--3983538	19	4.7	19	77	16	92	45	21	21	11	1.83
3983486--3983547	19	3.3	19	88	6	92	45	24	17	12	1.84
3983544--3983625	18	4.7	18	73	14	73	15	23	19	41	1.90
3983591--3983632	20	2.2	19	91	4	66	23	21	19	35	1.96
3986033--3986086	24	2.2	24	90	0	81	40	20	16	22	1.91
3986757--3986838	20	4.1	20	93	0	137	21	28	20	29	1.98
3987164--3987217	20	2.7	20	94	0	90	42	18	20	18	1.89
3987236--3987299	19	3.7	19	82	17	86	14	21	18	45	1.85
3988874--3988953	42	1.9	42	87	10	119	21	15	41	22	1.90
3988897--3988953	21	2.7	21	71	10	62	22	14	38	24	1.91
3989299--3989405	20	5.4	20	84	3	101	35	26	22	15	1.94
3989378--3989443	19	3.7	19	72	25	72	45	21	21	12	1.84
3989498--3989552	20	2.8	19	83	8	65	16	23	23	36	1.94
3990084--3990132	18	2.7	18	87	0	80	14	12	46	26	1.79
3991450--3991492	20	2.2	20	91	0	68	51	20	18	9	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3991999--3992094	20	4.8	20	77	7	86	25	17	22	34	1.96
3992028--3992116	41	2.2	41	83	4	108	23	19	22	34	1.96
3992123--3992177	21	2.6	22	80	5	69	40	18	23	18	1.91
4001879--4001924	18	2.8	16	80	6	56	39	4	28	28	1.76
4006356--4006408	21	2.5	21	90	0	79	30	30	20	18	1.97
4006412--4006554	63	2.3	61	86	7	198	20	18	24	35	1.95
4006478--4006579	42	2.4	43	95	3	181	21	17	24	36	1.95
4006412--4006575	63	2.6	61	83	9	172	21	18	23	36	1.95
4006672--4006704	12	2.8	12	95	0	57	33	51	9	6	1.58
4007480--4007654	21	8.4	21	71	12	137	39	21	16	22	1.92
4007505--4007669	42	4.0	42	89	3	253	38	23	15	22	1.92
4007501--4007673	82	2.1	83	93	2	294	38	23	15	21	1.92
4007604--4007741	21	6.6	21	69	14	88	34	27	17	21	1.95
4008709--4008762	22	2.5	22	84	0	72	27	12	27	31	1.93
4011053--4011096	20	2.3	19	84	7	54	22	22	6	47	1.75
4021977--4022321	41	8.3	41	68	13	145	32	20	17	30	1.95
4021958--4022232	84	3.3	82	83	2	334	31	20	17	30	1.96
4023080--4023342	124	2.1	123	80	3	305	30	18	20	30	1.97
4025282--4025308	13	2.1	13	100	0	54	48	0	7	44	1.31
4026872--4027099	43	5.3	43	76	4	172	26	21	15	36	1.93
4026932--4027024	45	2.1	45	87	4	134	27	23	17	31	1.97
4029225--4029293	23	3.0	23	80	0	84	28	23	24	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4029937--4030100	63	2.5	66	81	8	169	26	18	18	35	1.95
4036202--4036262	23	2.7	23	84	0	86	29	27	24	18	1.98
4041855--4041906	23	2.2	24	86	3	70	48	9	0	42	1.36
4041951--4042010	30	2.0	29	96	3	111	35	3	0	61	1.12
4042861--4042927	30	2.3	30	92	2	109	55	0	5	38	1.25
4042987--4043021	5	7.0	5	96	0	61	42	0	0	57	0.99
4054326--4054373	22	2.2	22	100	0	96	50	8	14	27	1.71
4054559--4054737	75	2.4	75	82	3	200	31	5	11	51	1.60
4059666--4059788	58	2.1	58	86	0	165	45	12	7	34	1.69
4061082--4061123	20	2.1	20	90	0	66	40	7	0	52	1.29

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40