genome.fa.s190.2.7.7.80.10.50.1000.17.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  17  of  62  ( 7381 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)
3975753--3975909	19	8.7	19	79	16	190	45	17	21	15	1.84
3975753--3975909	72	2.2	72	92	0	269	45	17	21	15	1.84
3975730--3975903	53	3.3	51	78	15	194	46	17	21	14	1.83
3975880--3975995	53	2.2	52	86	3	160	18	23	18	38	1.93
3975918--3976005	19	4.8	19	82	14	123	13	22	15	47	1.81
3976096--3976132	14	2.6	14	91	0	65	45	21	0	32	1.52
3978051--3978223	19	9.6	19	77	12	150	46	23	19	10	1.81
3978145--3978201	14	3.7	14	75	20	51	43	22	22	10	1.84
3978126--3978218	33	2.8	33	93	0	159	47	21	20	10	1.80
3978085--3978223	52	2.7	52	73	12	140	46	23	20	9	1.79
3978235--3978293	14	3.9	14	76	20	64	6	16	28	47	1.72
3978219--3978342	33	3.7	33	91	1	185	8	17	27	45	1.78
3978219--3978310	19	5.4	18	72	24	83	7	17	28	46	1.75
3978268--3978324	14	3.7	14	72	20	51	8	22	24	43	1.81
3978440--3978754	93	3.4	93	98	0	614	45	19	13	21	1.84
3980439--3980535	20	5.2	20	72	18	100	46	17	24	11	1.81
3980437--3980501	21	3.1	21	82	4	96	47	15	26	10	1.78
3980486--3980542	14	3.7	14	75	20	60	43	22	24	8	1.81
3980437--3980559	33	3.5	33	88	8	156	46	17	24	11	1.81
3980576--3980632	14	3.7	14	75	20	60	8	24	22	43	1.81
3980560--3980648	33	2.7	33	92	1	142	7	22	22	47	1.77
3980587--3980692	21	5.6	20	76	15	109	13	21	18	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3980772--3980842	33	2.2	33	94	0	124	46	15	25	12	1.81
3981200--3981354	20	7.7	20	88	4	240	20	19	27	32	1.97
3981202--3981373	20	8.6	20	86	2	202	19	18	27	34	1.95
3981200--3981392	60	3.2	60	83	3	244	19	19	26	34	1.95
3982822--3982861	18	2.1	19	86	9	55	27	7	0	65	1.20
3987602--3987634	12	2.8	12	100	0	66	24	24	9	42	1.83
3989142--3989180	18	2.1	19	85	4	53	23	7	5	64	1.40
3994908--3995123	20	10.9	19	77	13	163	35	26	16	21	1.95
3995008--3995123	40	2.9	40	90	1	189	39	25	18	16	1.91
3994908--3995122	100	2.2	99	80	9	224	34	26	16	21	1.95
3995883--3995916	12	2.8	12	90	0	50	55	29	0	14	1.40
3996040--3996095	24	2.3	24	90	0	85	25	16	17	41	1.89
3996270--3996300	3	10.3	3	92	0	53	67	0	32	0	0.91
3996885--3997027	66	2.2	66	92	1	241	38	25	10	25	1.88
3997029--3997070	12	3.5	12	90	0	57	54	21	7	16	1.65
3997031--3997064	12	2.8	12	100	0	68	52	23	5	17	1.66
3997384--3997430	20	2.3	20	92	0	85	17	17	23	42	1.88
3997933--3997969	18	2.1	18	89	0	56	32	5	10	51	1.60
3998280--3998368	39	2.3	39	96	0	160	47	19	14	19	1.83
3999360--3999390	2	15.5	2	100	0	62	48	0	0	51	1.00
4001544--4001902	55	6.6	55	87	2	465	30	23	16	29	1.96
4001919--4001999	37	2.2	37	100	0	162	19	24	18	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4003264--4003319	26	2.1	27	87	9	80	7	17	0	75	1.03
4003269--4003327	26	2.2	27	80	17	70	8	18	0	72	1.09
4003277--4003327	12	3.9	14	82	17	65	7	19	0	72	1.08
4012888--4013038	45	3.3	45	91	3	230	39	19	9	31	1.84
4016597--4016655	20	3.0	20	89	0	91	45	20	16	16	1.85
4016821--4016874	14	3.9	14	77	0	63	48	16	0	35	1.47
4018909--4018974	27	2.4	27	92	5	107	30	3	42	24	1.70
4020590--4020627	20	2.0	20	89	5	60	10	18	21	50	1.76
4020887--4020948	22	2.8	22	87	0	88	22	11	41	24	1.86
4021065--4021113	20	2.5	20	93	0	89	18	18	22	40	1.91
4021094--4021188	40	2.4	40	81	10	97	23	15	25	35	1.94
4021131--4021185	20	2.8	20	75	10	67	27	14	29	29	1.95
4022660--4022724	21	3.1	22	78	10	73	53	0	4	41	1.21
4024207--4024243	18	2.0	20	89	10	60	54	16	13	16	1.72
4024377--4024434	15	4.0	15	70	17	50	41	0	0	58	0.98
4025062--4025104	7	6.3	7	94	5	79	0	44	0	55	0.99
4025062--4025102	20	2.0	20	100	0	82	0	43	0	56	0.99
4031403--4031449	24	2.0	24	100	0	94	29	12	31	25	1.93
4036589--4037050	134	3.5	133	94	2	801	40	24	8	26	1.84
4042189--4042308	63	1.9	64	82	1	152	23	8	23	45	1.80
4056053--4056088	18	2.0	19	89	10	58	41	11	0	47	1.39
4056994--4057166	91	1.9	91	85	2	240	31	20	19	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4067065--4067121	28	2.0	28	86	0	78	35	21	14	29	1.92
4067607--4067644	15	2.6	15	83	4	51	78	0	2	18	0.86
4071567--4071611	23	2.0	23	90	0	72	24	26	26	22	2.00
4071579--4071893	149	2.1	149	96	1	578	34	21	16	27	1.95
4073358--4073402	21	2.1	21	87	0	63	15	24	28	31	1.96
4076567--4076883	150	2.1	150	92	2	521	34	21	16	28	1.94
4078346--4078390	21	2.1	21	87	0	63	15	24	28	31	1.96
4083883--4083921	18	2.2	18	86	4	53	66	5	5	23	1.32
4090483--4090520	13	2.8	13	92	4	58	71	0	2	26	1.00
4091987--4092026	18	2.2	18	86	4	53	20	2	2	75	1.04
4096207--4096237	13	2.4	13	94	0	53	74	0	16	9	1.07
4096659--4096692	17	2.0	17	88	11	52	70	8	0	20	1.13
4101181--4101257	29	2.6	29	81	10	75	23	23	11	41	1.87
4103729--4103776	21	2.3	21	96	0	87	29	14	22	33	1.94
4108472--4108505	2	17.0	2	100	0	68	50	0	0	50	1.00
4116026--4116065	20	2.1	19	85	4	53	77	0	7	15	0.98
4118950--4119178	44	5.2	44	83	2	280	27	17	23	31	1.97
4118968--4119221	44	5.8	43	78	11	182	29	17	22	30	1.96
4118950--4119221	132	2.1	131	80	2	312	28	17	23	30	1.97
4119144--4119231	43	2.1	43	82	6	108	35	15	22	26	1.94
4124770--4124814	21	2.1	21	84	8	56	33	28	22	15	1.95
4125242--4125282	22	2.0	20	85	9	55	46	7	12	34	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4125826--4125981	31	5.0	31	96	1	278	19	19	23	38	1.93
4129134--4129178	21	2.1	21	87	0	63	31	28	24	15	1.96
4129605--4129661	20	2.7	22	78	15	66	43	5	14	36	1.67
4130189--4130344	31	5.0	31	95	1	269	19	19	22	38	1.93
4132624--4132649	12	2.2	12	100	0	52	61	30	7	0	1.24
4134959--4134990	13	2.5	13	94	0	55	59	6	31	3	1.38
4135707--4135756	23	2.2	23	100	0	100	48	16	0	36	1.46
4137191--4137511	82	3.9	83	81	4	330	31	22	15	29	1.95
4137352--4137510	41	3.9	40	71	10	117	30	25	16	27	1.97
4137372--4137510	41	3.4	41	75	13	142	27	25	18	28	1.98
4137390--4137509	42	2.9	42	76	15	133	29	25	18	27	1.98
4142117--4142176	22	2.7	22	78	2	57	41	3	5	50	1.41
4142623--4142666	19	2.4	18	88	7	63	52	0	0	47	1.00
4142688--4142741	25	2.1	26	86	10	76	44	3	5	46	1.44
4147782--4147868	23	3.8	23	83	4	86	33	25	19	21	1.97
4147763--4147869	46	2.4	46	80	10	114	32	25	19	22	1.97
4147779--4147868	46	2.0	46	84	4	119	32	24	20	23	1.98
4154619--4154701	23	3.7	23	85	6	82	26	24	21	27	1.99
4154606--4154701	23	4.3	22	81	12	81	28	23	19	28	1.99
4157754--4157783	10	2.9	10	95	5	51	70	0	0	30	0.88
4159440--4159550	55	2.0	55	87	3	161	23	15	18	42	1.88
4168709--4168792	23	3.6	23	68	22	59	50	1	0	48	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4168800--4168855	23	2.5	23	91	2	87	41	0	7	51	1.29
4170876--4170907	2	16.0	2	100	0	64	50	0	0	50	1.00
4174452--4174477	9	2.9	9	100	0	52	30	11	0	57	1.34
4179378--4179414	2	18.5	2	94	0	65	45	0	0	54	1.00
4179931--4179974	16	2.8	17	77	19	51	50	9	11	29	1.69
4185668--4185735	24	2.9	24	86	2	93	22	25	22	30	1.99
4186517--4186559	22	2.0	22	85	0	59	25	18	11	44	1.84
4191954--4192006	21	2.6	20	82	8	63	33	18	18	28	1.95
4192964--4193034	21	3.4	21	76	3	90	21	18	26	33	1.96
4192957--4193054	41	2.4	41	98	0	187	18	20	23	37	1.94

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   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62