genome.fa.s9605.2.7.7.80.10.50.1000.18.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: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9158330

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   

This is table  18  of  35  ( 4090 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)
4066010--4066065	23	2.3	24	87	9	78	5	16	1	76	1.05
4066021--4066071	23	2.2	24	85	3	68	5	15	5	72	1.24
4066924--4067061	68	2.0	68	95	0	249	34	20	5	39	1.74
4068435--4068461	5	5.4	5	100	0	54	18	0	18	62	1.32
4069775--4069852	30	2.5	31	87	2	113	33	17	8	39	1.81
4087531--4087582	23	2.2	24	86	10	72	23	23	21	32	1.98
4087600--4087646	24	2.0	24	91	0	76	23	19	23	34	1.97
4090137--4090170	17	2.0	17	94	0	59	26	23	8	41	1.83
4095977--4096011	17	2.1	17	100	0	70	45	11	25	17	1.81
4097334--4097358	12	2.1	12	100	0	50	36	16	16	32	1.90
4097487--4097540	26	2.1	26	89	0	81	16	29	9	44	1.79
4099113--4099152	21	2.0	20	85	5	53	27	15	20	37	1.92
4103304--4103356	20	2.7	20	96	0	97	37	13	24	24	1.91
4113161--4113221	30	2.0	29	81	12	70	34	37	4	22	1.76
4133759--4134173	136	3.0	135	77	7	423	44	15	14	26	1.85
4135199--4135238	21	2.0	21	85	5	55	32	2	15	50	1.57
4136094--4136159	32	2.1	32	100	0	132	37	15	16	30	1.90
4137121--4137174	23	2.3	23	90	0	81	50	9	29	11	1.69
4139209--4139633	141	3.0	142	78	6	432	35	17	9	36	1.84
4139477--4139560	35	2.5	34	80	9	91	36	19	9	34	1.84
4142995--4143051	18	3.1	17	72	22	53	8	10	24	56	1.61
4143997--4144033	20	1.9	19	89	10	58	45	10	24	18	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4144178--4144241	34	1.9	34	84	9	87	46	4	0	48	1.23
4144853--4144914	26	2.4	26	100	0	124	29	17	0	53	1.44
4150006--4150043	20	1.9	20	100	0	76	36	10	28	23	1.88
4155532--4155914	81	4.7	81	86	1	534	32	21	11	34	1.90
4155660--4155703	22	2.0	22	86	8	63	38	15	11	34	1.84
4155822--4155865	22	2.0	22	95	0	79	34	22	9	34	1.86
4157140--4157438	149	2.0	150	99	0	591	33	14	9	43	1.77
4165012--4165290	44	6.4	43	78	5	283	32	16	21	28	1.95
4165012--4165290	88	3.2	88	81	3	323	32	16	21	28	1.95
4165013--4165290	86	3.2	86	85	1	340	33	16	21	28	1.95
4170062--4170103	15	2.7	15	88	7	57	52	23	0	23	1.47
4170063--4170115	17	3.2	17	89	5	74	54	22	0	22	1.45
4172768--4173042	137	2.0	137	100	0	550	36	20	16	26	1.94
4176504--4176568	6	10.7	6	79	9	60	80	0	18	1	0.80
4176498--4176547	3	17.7	3	81	8	52	76	0	22	2	0.89
4176509--4176572	9	6.8	9	82	7	56	79	0	18	1	0.81
4177227--4177896	114	6.0	114	92	2	1126	34	14	17	32	1.91
4178618--4179482	113	7.7	112	88	3	1128	38	13	18	29	1.90
4178618--4179603	226	4.3	225	85	4	1211	38	14	18	28	1.90
4178618--4179603	454	2.2	454	86	5	1325	38	14	18	28	1.90
4179410--4179747	120	2.8	120	92	3	545	40	14	19	26	1.90
4179947--4180008	3	20.0	3	80	12	72	33	1	0	64	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4179947--4180008	28	2.2	28	85	5	81	33	1	0	64	1.03
4181573--4181614	20	2.2	19	86	4	57	33	0	2	64	1.07
4186895--4186921	2	13.5	2	100	0	54	0	48	0	51	1.00
4186921--4186972	2	26.0	2	100	0	104	50	0	0	50	1.00
4190695--4190735	16	2.6	16	88	3	57	36	12	21	29	1.90
4193950--4193997	25	1.9	25	95	0	87	33	18	12	35	1.89
4194815--4194868	28	2.0	27	89	10	85	55	0	0	44	0.99
4194992--4195042	18	3.0	17	77	8	59	62	0	0	37	0.95
4196550--4196588	21	1.9	20	85	15	53	28	30	7	33	1.85
4201009--4201234	114	2.0	110	91	3	362	45	9	3	41	1.56
4206049--4206098	26	1.9	26	83	0	64	10	34	2	54	1.45
4212927--4213054	64	2.0	64	93	3	222	30	9	14	45	1.77
4214044--4214082	20	2.0	20	89	0	60	33	10	23	33	1.88
4219325--4219363	20	2.0	20	84	0	51	35	23	7	33	1.83
4223043--4223076	12	2.8	12	86	4	50	29	0	14	55	1.40
4233244--4233316	14	5.2	14	72	0	56	31	10	9	47	1.71
4239263--4239312	20	2.5	20	76	0	55	38	6	20	36	1.77
4239491--4239541	20	2.4	22	84	12	63	43	13	1	41	1.55
4247598--4247699	52	2.0	52	96	0	186	35	14	16	33	1.90
4249073--4249430	46	7.7	46	82	4	412	23	20	13	42	1.88
4249145--4249431	98	3.0	98	86	3	379	24	20	13	41	1.88
4249420--4249690	98	2.8	98	83	2	339	31	20	15	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4249420--4249707	99	2.9	98	84	1	371	31	20	15	32	1.94
4249438--4249707	49	5.5	48	78	4	229	31	19	15	32	1.94
4255105--4255466	181	2.0	181	100	0	724	33	20	10	35	1.87
4257623--4257663	18	2.2	19	86	8	57	51	12	12	24	1.73
4257868--4257923	24	2.3	24	93	0	94	26	19	28	25	1.99
4259093--4259143	25	2.1	25	85	7	70	13	11	11	62	1.54
4262563--4262804	46	5.3	46	88	0	331	23	21	14	40	1.90
4262808--4263137	49	6.8	49	78	2	331	30	21	15	32	1.94
4262794--4263137	98	3.5	98	87	1	458	30	21	15	32	1.95
4264557--4264704	74	2.0	74	100	0	296	39	8	25	27	1.84
4271360--4271458	45	2.2	45	85	5	146	30	18	24	27	1.98
4273648--4273672	11	2.3	11	100	0	50	48	8	8	36	1.62
4273704--4273743	20	2.0	20	85	9	55	72	10	0	17	1.11
4274185--4274262	23	3.5	23	77	8	99	25	25	24	24	2.00
4275458--4275517	30	2.0	31	83	3	77	30	8	10	51	1.64
4276427--4276477	20	2.6	20	84	3	68	35	13	5	45	1.68
4277214--4277261	19	2.6	19	83	9	55	72	2	18	6	1.15
4278597--4278950	178	2.0	176	97	2	674	28	15	16	39	1.89
4299853--4299893	21	1.9	22	90	5	66	41	19	12	26	1.87
4300018--4300293	139	2.0	139	99	0	543	32	18	10	39	1.84
4302371--4302426	21	2.7	21	94	0	85	32	32	16	19	1.94
4302334--4302471	63	2.2	63	79	5	145	30	26	15	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4303915--4303962	23	2.1	23	92	0	78	41	2	10	45	1.50
4304257--4304304	6	7.1	7	90	9	50	29	2	0	68	1.01
4304256--4304288	3	11.0	3	100	0	66	33	0	0	66	0.92
4304580--4304651	31	2.3	31	95	0	135	29	13	1	55	1.47
4305185--4305257	30	2.3	32	83	9	105	43	4	0	52	1.20
4306326--4306399	9	8.2	9	76	7	53	78	2	1	17	0.94
4306333--4306402	5	14.0	5	81	11	81	77	2	1	18	0.97
4306466--4306611	63	2.3	62	84	11	183	68	1	6	23	1.21
4306593--4306617	13	1.9	13	100	0	50	76	8	8	8	1.18
4309547--4309585	6	6.5	6	91	8	62	0	15	0	84	0.62
4309547--4309587	13	3.3	13	93	6	68	0	17	0	82	0.66
4309636--4309677	6	7.3	6	83	5	52	0	11	4	83	0.79
4313182--4313225	17	2.6	17	100	0	88	56	4	18	20	1.58
4313824--4314010	93	2.0	93	100	0	374	29	24	14	31	1.95
4316796--4316851	28	2.0	28	100	0	112	39	7	21	32	1.80
4316844--4316885	21	2.0	21	90	9	68	66	4	14	14	1.40
4318733--4318821	45	2.0	46	86	2	126	25	16	26	30	1.97
4318843--4318881	20	2.0	20	89	0	60	20	15	33	30	1.94
4319214--4319269	16	3.0	19	82	12	55	28	32	0	39	1.57
4319240--4319272	16	2.1	16	100	0	66	36	21	0	42	1.53
4319354--4319710	178	2.0	179	98	1	691	46	10	12	29	1.76
4325562--4325601	21	1.9	21	85	10	55	35	10	2	52	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4330107--4330150	21	2.1	21	86	0	61	70	0	0	29	0.88
4330079--4330148	17	3.9	17	78	9	61	71	2	0	25	1.00
4330160--4330208	27	1.9	27	88	12	77	79	2	4	14	0.97
4330107--4330209	15	7.2	15	67	20	60	69	2	2	24	1.15
4330216--4330260	23	2.0	23	81	0	54	77	2	11	8	1.07
4332635--4332866	116	2.0	116	100	0	464	32	12	10	44	1.75
4343199--4343249	22	2.2	24	79	13	70	15	31	21	31	1.95
4343209--4343254	22	2.1	22	100	0	92	8	41	23	26	1.83
4348620--4348669	22	2.3	22	92	0	82	32	18	20	30	1.96
4358456--4358502	22	2.1	22	96	0	85	17	38	25	19	1.92

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