genome.fa.s9605.2.7.7.80.10.50.1000.24.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  24  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)
5680913--5680951	2	20.0	2	89	5	62	48	0	2	48	1.15
5682678--5682830	45	3.4	45	76	8	157	21	16	20	40	1.91
5682824--5682963	51	2.8	51	82	3	176	25	18	18	37	1.94
5683581--5683937	136	2.6	136	89	3	531	28	19	20	31	1.97
5688669--5688694	12	2.2	12	100	0	52	42	0	15	42	1.47
5688940--5689024	23	3.7	23	93	1	136	21	31	25	21	1.98
5691903--5693473	136	11.6	136	83	3	1727	31	19	17	31	1.95
5695820--5695848	13	2.2	13	100	0	58	24	6	13	55	1.63
5697128--5697156	14	2.1	14	100	0	58	20	20	6	51	1.70
5699523--5699986	112	4.1	112	94	0	802	45	14	14	25	1.82
5699856--5700306	182	2.5	182	92	1	715	44	12	15	27	1.82
5700745--5700792	23	2.1	23	84	0	60	39	14	8	37	1.76
5702097--5702129	17	1.9	17	88	11	50	45	6	0	48	1.27
5704204--5704233	15	2.0	15	100	0	60	60	13	13	13	1.60
5711784--5711907	65	1.9	65	81	4	153	27	16	20	35	1.94
5715522--5715577	20	2.8	20	97	0	103	30	17	28	23	1.97
5716109--5716163	21	2.5	22	97	2	103	21	23	21	32	1.98
5722909--5722967	21	2.7	22	89	2	93	22	27	25	25	2.00
5722912--5722967	22	2.6	21	88	2	85	21	26	26	25	1.99
5725572--5725631	22	2.7	21	85	10	75	35	21	18	25	1.96
5726843--5726885	19	2.1	21	87	8	63	60	0	27	11	1.31
5726998--5727816	409	2.0	408	90	0	1298	29	22	14	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5731205--5731280	22	3.5	22	77	0	80	36	21	14	27	1.92
5735798--5735861	23	2.8	23	85	0	74	29	28	18	23	1.98
5735861--5736092	105	2.2	104	93	3	389	37	21	13	27	1.91
5747436--5747477	13	3.2	13	86	3	57	45	0	2	52	1.13
5750236--5750325	20	4.5	20	75	18	62	32	12	30	25	1.92
5750267--5750353	40	2.2	40	89	0	138	39	11	24	25	1.89
5750255--5750328	20	3.7	19	76	20	71	36	12	27	24	1.91
5750279--5750349	20	3.5	20	75	21	76	39	12	21	26	1.89
5760453--5760544	21	4.4	21	80	2	78	30	15	34	19	1.93
5760895--5761054	21	7.7	21	84	6	166	34	32	12	20	1.90
5760895--5761054	42	3.8	42	85	2	198	34	32	12	20	1.90
5760903--5761054	63	2.4	63	86	5	227	34	32	11	20	1.89
5761201--5761265	21	3.1	21	68	24	64	18	12	43	26	1.85
5761166--5761370	42	5.0	42	90	1	299	23	13	37	24	1.92
5763736--5763803	20	3.4	19	76	8	64	36	11	22	29	1.89
5763854--5763905	20	2.6	19	76	8	59	25	15	28	30	1.96
5764635--5764672	15	2.6	15	84	15	53	42	5	2	50	1.39
5766490--5766553	23	2.7	24	85	2	85	28	28	21	21	1.99
5775300--5776395	556	2.0	543	92	3	1845	32	13	23	30	1.93
5792765--5792959	100	2.0	98	93	2	336	23	26	9	40	1.85
5818055--5818087	17	1.9	17	93	0	57	51	15	3	30	1.58
5819462--5819532	33	2.2	31	82	9	81	45	22	1	30	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5820368--5820458	31	3.0	30	75	10	78	36	15	4	43	1.67
5823172--5823238	5	13.8	5	82	17	88	62	0	20	16	1.32
5823147--5823223	9	8.4	9	77	18	79	63	0	19	16	1.31
5823144--5823239	24	4.2	24	80	18	107	63	0	19	16	1.31
5823147--5823236	34	2.8	34	82	15	111	62	0	20	17	1.33
5823160--5823240	14	5.7	15	84	13	66	62	0	20	16	1.32
5825008--5825337	165	2.0	165	100	0	660	30	18	13	37	1.89
5827447--5827500	24	2.2	24	100	0	108	11	24	9	55	1.64
5827555--5827579	8	3.1	8	100	0	50	0	24	0	76	0.80
5827552--5827593	22	1.9	22	85	9	59	0	26	0	73	0.83
5827787--5827818	15	2.2	14	94	5	55	65	0	18	15	1.27
5831374--5831710	49	7.0	49	86	4	436	39	14	19	27	1.90
5837869--5837924	2	29.0	2	92	7	98	50	0	0	50	1.00
5839602--5839639	13	2.9	14	80	11	53	10	21	31	36	1.87
5839647--5839722	3	25.0	3	78	7	64	60	1	0	38	1.05
5839669--5839725	15	3.8	16	82	17	77	66	1	0	31	1.02
5840101--5840653	124	4.6	123	78	8	616	26	18	15	40	1.90
5840218--5840650	235	1.8	235	90	2	690	26	19	15	38	1.92
5841036--5841092	21	2.6	22	94	2	98	35	14	17	33	1.90
5841717--5841756	18	2.2	18	90	0	62	55	7	7	30	1.56
5849401--5849432	16	2.1	16	88	11	50	31	3	12	53	1.54
5854989--5855019	12	2.6	12	94	0	53	12	6	9	70	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5856435--5856469	2	17.5	2	88	11	54	51	0	2	45	1.16
5856639--5856706	30	2.3	29	92	5	111	35	14	11	38	1.83
5856734--5856764	13	2.4	13	94	0	53	32	25	16	25	1.96
5866240--5866289	21	2.3	23	86	6	68	36	10	2	52	1.47
5866370--5866417	18	2.7	18	96	0	87	52	20	8	18	1.71
5867736--5867781	20	2.3	20	96	0	83	50	13	15	21	1.78
5879122--5879193	17	4.2	17	78	7	65	38	9	15	36	1.80
5879149--5879192	18	2.5	18	85	10	56	43	11	9	36	1.72
5881263--5881335	18	3.9	18	84	7	101	19	20	31	28	1.97
5881260--5881336	38	2.0	38	92	0	127	20	20	29	28	1.98
5887387--5887511	64	2.0	64	82	6	155	33	20	20	25	1.97
5888082--5888154	18	3.9	18	80	7	92	20	20	30	28	1.98
5890627--5890680	9	6.2	9	85	10	60	11	3	0	85	0.73
5890627--5890688	25	2.5	25	89	5	90	12	3	0	83	0.75
5890637--5890689	8	6.6	8	89	8	72	16	0	0	83	0.66
5890637--5890689	24	2.2	24	90	6	81	16	0	0	83	0.66
5892244--5892283	17	2.4	17	91	0	62	42	5	17	35	1.71
5893174--5893220	24	2.0	24	91	0	76	29	6	6	57	1.49
5893929--5893992	15	4.5	14	72	14	51	42	3	0	54	1.16
5903086--5903110	12	2.1	12	100	0	50	40	16	0	44	1.47
5907581--5907899	108	3.0	108	86	0	467	28	21	10	39	1.87
5917798--5917859	32	2.0	31	87	3	88	29	24	8	38	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5917736--5918073	107	3.2	104	86	5	448	28	21	10	38	1.88
5934001--5934056	21	2.6	21	80	8	69	35	16	19	28	1.93
5936004--5936028	12	2.1	12	100	0	50	24	32	16	28	1.96
5938276--5938320	18	2.5	19	78	10	58	8	31	4	55	1.51
5940270--5940396	59	2.1	60	86	2	184	38	15	11	34	1.83
5940396--5940429	2	17.0	2	100	0	68	50	0	0	50	1.00
5953468--5953501	17	2.0	17	94	0	59	17	0	26	55	1.42
5956471--5956542	22	3.4	22	70	14	69	34	26	20	18	1.95
5956423--5956564	42	3.4	42	90	2	207	31	23	22	21	1.98
5956493--5956564	20	3.5	20	68	7	63	33	25	23	18	1.97
5956722--5956795	20	3.6	20	68	22	55	36	20	20	22	1.95
5956458--5957009	228	2.4	228	86	3	736	30	19	23	26	1.98
5956982--5957070	42	2.1	42	87	0	124	32	25	16	24	1.96
5957164--5957429	54	5.0	53	80	7	249	41	18	9	31	1.81
5957158--5957429	107	2.5	106	80	8	318	41	18	9	31	1.81
5958843--5958886	22	2.0	22	86	8	63	18	40	20	20	1.91
5958857--5958907	22	2.3	22	86	0	66	23	37	13	25	1.92
5959640--5959703	3	21.7	3	90	3	103	64	0	1	34	1.03
5959846--5959900	16	3.4	16	73	12	58	20	20	9	50	1.74
5959943--5960398	123	3.7	123	86	1	603	26	18	15	39	1.91
5967591--5967646	23	2.4	25	75	19	59	62	5	3	28	1.34
5970532--5970601	9	7.9	9	71	15	56	57	1	2	38	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5970786--5970928	55	2.6	55	84	2	189	40	13	11	34	1.81
5971249--5971335	29	3.0	29	91	1	129	24	4	31	40	1.75
5971959--5972073	4	28.2	4	79	16	80	1	17	0	80	0.86
5971958--5972073	20	6.1	19	78	17	116	1	17	0	80	0.85
5971970--5972030	5	12.6	5	85	11	83	0	16	0	83	0.64
5971970--5972073	29	3.6	28	78	19	117	1	16	0	80	0.85
5971958--5972073	10	12.0	10	77	18	97	1	17	0	80	0.85
5971958--5972075	18	6.7	18	74	18	61	1	16	1	79	0.89
5972327--5972364	2	19.0	2	94	0	58	50	5	0	44	1.24
5981688--5981734	22	2.1	22	88	0	67	51	12	2	34	1.52

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