genome.fa.s8488.2.7.7.80.10.50.1000.17.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   

This is table  17  of  54  ( 6450 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)
4160042--4160083	20	2.1	20	95	0	75	33	19	11	35	1.88
4162970--4163055	9	9.3	9	76	12	77	16	26	29	27	1.97
4162969--4163055	19	4.7	19	90	5	124	17	26	28	27	1.97
4162969--4163047	36	2.1	37	88	4	115	17	26	27	27	1.98
4163049--4163106	17	3.4	17	97	0	107	17	43	24	15	1.87
4163096--4163132	7	5.4	7	93	6	67	16	29	29	24	1.96
4163096--4163128	13	2.5	13	95	5	57	15	30	30	24	1.95
4170283--4170370	9	9.3	9	79	9	95	15	26	30	27	1.96
4170282--4170370	19	4.7	19	91	5	135	16	25	30	26	1.97
4170364--4170421	17	3.4	17	97	0	107	17	43	24	15	1.87
4170411--4170447	7	5.4	7	93	6	67	16	29	29	24	1.96
4170411--4170443	13	2.5	13	95	5	57	15	30	30	24	1.95
4172517--4172701	92	2.0	92	97	0	352	30	18	16	33	1.94
4178324--4178452	60	2.1	60	84	1	159	32	16	21	29	1.95
4179449--4179584	60	2.3	60	83	2	157	30	18	20	30	1.96
4182551--4182771	73	3.0	71	79	12	232	48	4	3	42	1.42
4182554--4182771	36	5.9	35	75	16	174	48	5	3	42	1.42
4182705--4182810	31	3.2	32	81	12	108	48	2	3	45	1.35
4182860--4182885	13	2.0	13	100	0	52	15	0	7	76	0.99
4184212--4184263	26	2.0	26	82	14	63	11	7	5	75	1.19
4189140--4190476	165	8.1	164	85	4	1400	29	25	20	24	1.99
4189118--4190521	249	5.7	246	80	4	1592	29	25	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4189118--4190473	414	3.3	410	83	5	1610	29	25	20	24	1.99
4191155--4191340	36	5.0	37	77	13	150	47	5	3	43	1.44
4191155--4191360	73	2.8	72	80	10	206	48	4	3	43	1.41
4191316--4191340	13	1.9	13	100	0	50	48	4	0	48	1.20
4191310--4191406	35	2.9	35	76	17	114	47	3	4	45	1.37
4191310--4191414	32	3.2	31	81	13	104	46	2	3	46	1.35
4191464--4191489	13	2.0	13	100	0	52	15	0	7	76	0.99
4211537--4211586	18	2.8	18	100	0	100	54	16	0	30	1.42
4214036--4214080	17	2.6	17	96	0	81	24	17	0	57	1.40
4218068--4218125	23	2.5	23	94	0	98	32	17	15	34	1.91
4230839--4230872	16	2.2	16	90	10	54	17	2	5	73	1.16
4235094--4235378	137	2.1	138	79	6	328	42	16	12	29	1.85
4240486--4240714	112	2.0	112	91	1	370	31	17	15	34	1.92
4246902--4247100	93	2.1	93	100	0	398	35	13	21	30	1.91
4246902--4247136	93	2.5	92	90	2	294	36	13	20	29	1.91
4247670--4247887	112	1.9	112	94	0	382	29	15	19	35	1.93
4251314--4251597	137	2.1	137	83	5	369	40	16	13	29	1.87
4253597--4253621	11	2.3	11	100	0	50	0	24	0	76	0.80
4259206--4259386	59	3.1	59	78	10	181	33	22	13	29	1.93
4259523--4259568	22	2.0	23	83	4	58	45	17	2	34	1.61
4265367--4265400	16	2.2	15	89	5	50	50	2	0	47	1.16
4265866--4266044	59	3.1	58	84	2	232	29	25	16	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4267503--4267579	31	2.5	31	91	2	120	35	22	6	36	1.80
4267503--4267591	31	3.0	30	86	6	101	33	23	7	34	1.84
4271496--4271543	10	4.7	10	80	12	53	31	31	2	35	1.70
4277091--4277129	12	3.4	12	89	10	64	17	10	17	53	1.71
4277362--4277699	168	2.0	170	98	1	662	28	24	20	25	1.99
4280134--4280239	24	4.5	24	71	7	90	48	16	14	21	1.81
4280134--4280241	47	2.3	48	79	4	130	48	15	14	21	1.81
4282102--4282132	15	2.1	15	93	0	53	29	22	35	12	1.91
4282122--4282194	18	4.3	18	77	13	91	15	19	49	16	1.80
4282102--4282135	8	4.4	8	85	7	52	26	23	35	14	1.94
4282123--4282188	32	2.1	32	97	0	123	16	18	50	15	1.79
4283912--4284239	117	2.9	118	89	8	543	32	33	16	17	1.93
4285029--4285165	29	4.7	29	72	12	84	37	23	8	30	1.84
4285192--4285251	18	3.3	18	95	2	102	11	20	50	18	1.77
4291422--4291528	24	4.5	24	75	0	106	47	16	14	20	1.82
4291422--4291530	48	2.3	48	78	0	128	47	16	15	20	1.82
4293260--4293305	15	3.2	15	90	6	69	23	26	34	15	1.94
4293260--4293289	7	4.1	7	91	8	51	26	26	33	13	1.93
4293267--4293306	13	2.9	14	88	7	55	22	25	37	15	1.93
4293287--4293363	18	4.6	18	71	15	74	15	19	46	18	1.84
4293281--4293358	31	2.5	31	87	0	111	17	19	44	17	1.87
4304310--4304417	45	2.4	46	86	7	150	29	19	17	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4309984--4310078	23	4.4	21	77	9	95	28	26	20	25	1.99
4310002--4310100	43	2.3	42	77	8	101	27	26	23	23	2.00
4312690--4312897	65	3.2	63	81	12	226	31	23	18	27	1.97
4321668--4321718	14	3.7	14	89	2	77	35	21	21	21	1.96
4321723--4321787	14	4.6	14	73	7	60	32	15	24	27	1.95
4325601--4325821	21	10.6	21	84	3	295	30	23	22	23	1.99
4325836--4325910	21	3.6	21	90	0	123	24	20	29	26	1.99
4325601--4325961	167	2.2	165	81	5	415	29	22	22	24	1.99
4325893--4325979	21	4.2	20	78	8	86	28	22	21	26	1.99
4326005--4326045	21	2.0	21	90	0	64	21	24	21	31	1.98
4326135--4326183	6	8.5	6	93	6	84	30	53	16	0	1.43
4326139--4326186	23	2.1	22	96	3	87	29	52	18	0	1.46
4326135--4326183	17	2.8	17	96	3	89	30	53	16	0	1.43
4326184--4326225	5	8.4	5	94	0	66	42	16	40	0	1.48
4326709--4326769	5	11.6	5	98	1	95	0	19	55	24	1.43
4327526--4327563	20	1.9	20	94	0	67	44	10	23	21	1.83
4330124--4330164	20	2.0	21	86	9	59	60	4	4	29	1.38
4330608--4330640	2	17.0	2	93	6	59	48	0	0	51	1.00
4331907--4331960	24	2.2	24	83	6	65	61	5	1	31	1.30
4332094--4332343	91	2.7	91	88	2	369	24	20	16	39	1.92
4332272--4332766	136	3.6	136	91	0	758	26	22	17	34	1.95
4333642--4333699	8	7.6	8	76	18	61	10	15	1	72	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4333643--4333671	13	2.2	13	100	0	58	13	13	0	72	1.13
4345093--4345159	26	2.6	26	92	0	107	26	11	14	46	1.80
4347030--4347083	24	2.2	24	83	6	65	59	9	1	29	1.39
4347049--4347090	18	2.3	18	83	0	57	59	2	2	35	1.23
4347434--4347616	42	4.3	42	78	1	195	22	22	14	39	1.91
4347434--4347616	85	2.2	83	81	4	206	22	22	14	39	1.91
4348212--4348245	17	2.0	17	100	0	68	29	35	5	29	1.81
4349773--4349999	121	1.9	121	89	1	357	30	16	25	26	1.97
4350184--4350381	41	4.8	41	69	14	129	33	17	16	33	1.92
4353998--4354026	14	2.0	15	93	6	51	51	13	0	34	1.42
4368199--4368324	63	2.0	63	95	0	225	32	19	26	22	1.97
4377473--4377529	14	4.4	14	76	17	59	8	12	24	54	1.65
4377474--4377548	24	3.1	24	88	3	98	12	10	21	56	1.66
4378272--4378322	26	2.0	26	84	7	68	13	9	17	58	1.61
4378276--4378340	16	4.1	16	91	0	103	10	10	21	56	1.63
4378410--4378442	16	2.1	16	100	0	66	6	12	24	57	1.57
4379146--4379193	23	2.1	23	84	0	60	35	6	18	39	1.76
4379669--4379741	23	3.2	23	88	0	101	39	17	4	38	1.69
4379267--4380440	490	2.4	490	96	0	2161	39	10	7	42	1.68
4380159--4380231	23	3.2	23	92	0	119	38	21	5	34	1.77
4380600--4380662	23	2.7	23	92	0	99	38	20	4	36	1.74
4379993--4380871	431	2.0	431	96	0	1600	40	12	7	40	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4381010--4381074	25	2.6	25	97	0	121	36	12	10	40	1.78
4383536--4384292	183	4.1	183	94	1	1322	33	15	14	36	1.89
4385494--4385553	3	20.0	3	78	0	57	23	33	8	35	1.85
4385523--4385565	12	3.6	12	78	12	52	16	34	11	37	1.85
4385501--4385570	30	2.3	30	85	0	95	20	32	8	38	1.83
4387034--4388208	200	5.9	200	98	0	2228	31	17	14	36	1.89
4387034--4388208	398	2.9	400	97	0	2228	31	17	14	36	1.89
4388315--4388375	19	3.3	18	88	2	59	52	11	1	34	1.47
4388327--4388375	19	2.6	19	96	0	89	55	10	2	32	1.45
4390167--4390232	33	2.0	33	90	0	105	22	48	0	28	1.51

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