genome.fa.s8356.2.7.7.80.10.50.1000.22.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   

This is table  22  of  56  ( 6656 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)
4442420--4442680	97	2.7	96	81	5	262	32	14	13	39	1.86
4443026--4443799	184	4.3	185	77	9	725	33	17	9	39	1.83
4445140--4445221	28	2.9	28	92	0	137	39	18	10	31	1.85
4445774--4445827	23	2.3	23	90	9	92	79	7	3	9	1.03
4447690--4447741	22	2.4	22	80	0	59	25	17	19	38	1.93
4448561--4448732	86	2.0	86	97	0	326	49	10	10	29	1.70
4451292--4451333	14	2.9	15	75	7	50	45	7	16	30	1.74
4451316--4451365	20	2.5	20	96	0	91	42	10	14	34	1.78
4451461--4451559	49	2.0	50	80	9	114	47	2	0	50	1.12
4451684--4451726	21	2.0	20	86	8	59	53	2	0	44	1.13
4451681--4451729	20	2.4	21	81	15	59	53	2	0	44	1.12
4451773--4451826	14	3.4	16	72	20	51	48	0	1	50	1.11
4451783--4451851	31	2.2	32	82	12	81	49	0	4	46	1.21
4451741--4451862	52	2.3	53	76	21	132	48	0	2	48	1.20
4452051--4452163	42	2.7	42	91	1	172	48	15	16	18	1.81
4464115--4464142	11	2.5	11	100	0	56	35	0	35	28	1.58
4466143--4466188	23	2.0	24	82	4	58	73	6	13	6	1.22
4474534--4474595	2	31.0	2	100	0	124	0	0	50	50	1.00
4476966--4476995	14	2.2	13	94	5	51	43	6	0	50	1.28
4479314--4479580	137	2.0	136	87	3	385	41	18	12	27	1.87
4484471--4484748	137	2.0	136	88	2	405	43	17	12	26	1.84
4495268--4495303	17	2.1	17	89	0	54	52	2	2	41	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4501213--4501245	15	2.2	15	89	10	50	21	0	0	78	0.75
4509010--4509221	65	3.3	64	82	7	225	30	26	16	26	1.97
4515017--4515072	22	2.7	21	83	10	62	30	23	17	28	1.97
4516602--4516645	21	2.1	21	86	0	61	9	36	15	38	1.80
4517617--4517779	65	2.5	65	86	3	231	30	26	15	26	1.96
4519941--4519983	21	2.0	22	86	4	61	25	20	16	37	1.93
4524018--4524066	18	2.7	18	83	0	62	28	12	26	32	1.92
4529146--4529179	18	1.9	18	88	5	52	35	0	8	55	1.31
4530589--4530617	2	14.5	2	100	0	58	48	0	0	51	1.00
4532865--4532953	3	29.7	3	100	0	178	67	0	0	32	0.91
4533208--4533297	40	2.3	40	78	5	94	22	21	22	34	1.97
4550094--4550123	15	2.1	14	93	6	51	16	30	0	53	1.44
4555134--4555178	21	2.1	21	95	0	81	60	0	35	4	1.17
4555134--4555188	21	2.6	21	88	2	65	60	0	36	3	1.15
4557571--4557965	131	3.0	131	89	1	578	40	15	11	32	1.83
4559855--4559900	3	15.3	3	78	17	51	65	0	0	34	0.93
4560112--4560448	133	2.5	135	81	1	383	29	17	21	31	1.96
4560146--4560448	135	2.3	133	82	1	363	29	18	21	30	1.97
4573631--4573697	19	3.5	19	76	11	82	31	20	20	26	1.98
4573629--4573722	39	2.4	39	98	0	179	32	20	21	25	1.97
4573650--4573717	20	3.5	20	76	11	86	32	20	20	26	1.97
4574054--4574613	59	9.5	59	75	9	378	37	11	22	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4574629--4574875	44	5.6	44	92	1	379	39	6	20	33	1.77
4575243--4575329	30	2.9	30	91	0	138	26	18	21	33	1.96
4575965--4576010	21	2.2	21	92	0	74	19	4	19	56	1.58
4575965--4576023	21	2.8	21	86	0	64	20	3	22	54	1.59
4579288--4579328	3	13.7	3	94	0	73	63	0	2	34	1.08
4579653--4580202	113	5.0	111	90	5	780	30	18	12	38	1.88
4580113--4580157	24	1.9	23	82	13	56	15	22	6	55	1.63
4581337--4581416	19	4.1	18	79	11	79	56	3	10	30	1.50
4581337--4581392	18	3.1	18	76	5	67	57	3	8	30	1.47
4581741--4581805	20	3.1	20	82	10	69	9	13	1	75	1.11
4589146--4589177	15	2.1	15	94	0	55	46	9	18	25	1.79
4591857--4591907	25	2.1	24	85	3	66	60	1	7	29	1.36
4594742--4594773	3	10.7	3	93	0	55	62	0	3	34	1.11
4595601--4595639	20	2.0	20	89	0	60	41	23	10	25	1.86
4595790--4595835	16	2.9	16	90	0	74	19	10	32	36	1.87
4599293--4599364	24	3.0	24	81	0	90	48	15	16	19	1.81
4602821--4603027	45	4.6	45	93	0	342	19	24	11	44	1.84
4603332--4603699	54	6.8	53	84	3	434	29	17	22	30	1.97
4603344--4603425	27	3.0	27	65	25	64	28	15	23	32	1.95
4603308--4603699	108	3.6	108	85	3	502	28	18	22	30	1.97
4603333--4603700	162	2.3	160	88	2	522	29	17	22	30	1.97
4606979--4607004	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4608662--4608734	22	3.3	22	69	17	69	19	21	12	46	1.82
4608808--4608922	45	2.5	45	90	1	167	21	20	11	46	1.81
4609232--4609587	54	6.6	54	87	1	482	30	17	21	30	1.97
4614598--4614965	183	2.0	183	100	0	736	32	22	16	28	1.96
4621776--4621990	20	9.7	20	71	19	142	40	13	26	20	1.89
4621763--4621993	47	5.1	47	86	7	341	40	12	24	21	1.89
4621776--4621936	87	1.9	87	97	0	304	40	12	26	21	1.88
4622686--4623034	145	2.5	141	78	9	322	34	16	12	36	1.87
4622819--4623282	146	3.2	143	82	4	544	31	18	10	38	1.86
4623895--4624226	166	2.0	166	98	0	646	22	29	12	35	1.90
4629637--4629703	34	2.0	34	87	0	98	43	23	0	32	1.54
4629706--4629782	35	2.2	35	81	4	93	38	0	18	42	1.50
4630719--4630758	17	2.2	19	86	8	57	72	2	10	15	1.21
4631161--4631196	15	2.4	15	90	0	54	44	25	2	27	1.68
4632214--4632260	24	2.0	24	91	0	76	25	17	17	40	1.90
4640206--4640282	21	3.7	21	87	5	104	23	12	33	29	1.92
4646880--4646918	20	1.9	21	89	5	62	25	15	20	38	1.92
4649161--4649226	28	2.4	29	75	14	68	66	4	18	10	1.38
4649557--4649603	23	2.0	23	95	0	85	55	23	0	21	1.44
4657762--4657947	3	59.7	3	66	22	64	32	4	5	57	1.42
4657766--4657862	26	4.2	24	77	18	82	35	2	6	56	1.36
4657766--4657863	20	4.5	21	77	20	87	34	2	6	57	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4657766--4657912	68	2.2	68	81	8	167	32	4	5	57	1.43
4666334--4666413	5	14.8	5	80	14	81	16	2	2	78	0.96
4666328--4666413	32	2.6	31	79	16	93	16	2	2	79	0.95
4670130--4670253	51	2.4	49	79	9	133	24	13	4	57	1.56
4670283--4670349	5	12.8	5	77	14	57	16	2	2	77	1.01
4673842--4674020	19	8.9	20	70	16	97	73	0	20	5	1.07
4673846--4673889	10	4.2	10	78	21	54	77	0	18	4	0.94
4673897--4673952	29	2.0	26	83	16	69	69	1	25	3	1.14
4676001--4676270	52	5.0	54	74	11	209	30	8	19	41	1.82
4676016--4676270	104	2.4	105	86	5	352	29	9	19	41	1.82
4676482--4676536	24	2.3	24	87	0	74	32	18	9	40	1.82
4676506--4676697	39	4.9	39	86	3	280	31	17	14	36	1.90
4676722--4676863	59	2.4	59	79	9	146	28	26	18	26	1.98
4677780--4677847	10	6.9	10	76	18	63	11	1	5	80	0.94
4677778--4677847	19	3.6	19	75	17	63	11	1	5	81	0.92
4677780--4677848	5	14.0	5	76	19	56	13	1	5	79	0.97
4677763--4677847	28	3.0	27	80	14	75	11	1	8	78	1.01
4684945--4685298	183	1.9	183	81	1	422	24	21	18	35	1.96
4686987--4687017	16	1.9	16	100	0	62	64	6	0	29	1.18
4687489--4687564	35	2.2	35	92	0	125	30	0	23	46	1.53
4692034--4692087	28	2.0	28	85	7	76	7	24	14	53	1.66
4692467--4692720	53	4.8	53	90	1	375	22	25	21	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4693109--4693358	80	3.1	80	91	0	401	29	20	16	34	1.94
4693319--4693411	42	2.2	42	92	0	150	32	19	19	29	1.96
4693527--4693627	44	2.4	41	80	8	105	27	21	21	28	1.99
4697874--4697906	6	5.3	6	92	7	57	51	18	15	15	1.77
4697874--4697903	13	2.4	13	94	5	53	46	20	16	16	1.84
4702434--4702487	28	2.0	28	85	7	76	7	24	14	53	1.66
4703119--4703163	23	2.0	23	90	0	72	35	8	15	40	1.79
4703387--4703837	182	2.5	182	91	3	721	27	15	13	43	1.83
4703708--4704169	112	4.1	112	94	1	793	25	15	14	44	1.84
4703708--4704169	223	2.1	224	95	1	838	25	15	14	44	1.84

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