genome.fa.s7999.2.7.7.80.10.50.1000.23.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  23  of  50  ( 5918 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)
5868018--5868067	23	2.1	24	96	3	93	48	0	4	48	1.20
5869010--5869078	35	1.9	36	82	8	88	59	2	5	31	1.36
5869615--5869642	3	9.3	3	100	0	56	67	0	32	0	0.91
5871136--5871363	102	2.3	99	89	2	348	51	19	8	20	1.73
5871552--5871637	33	2.6	33	94	3	147	56	15	11	16	1.66
5871661--5871709	22	2.2	22	96	0	89	53	4	26	16	1.61
5872508--5872876	20	18.5	20	86	5	469	34	26	18	20	1.95
5873560--5873606	24	2.0	24	87	8	69	25	14	21	38	1.92
5873781--5873805	12	2.1	12	100	0	50	72	0	28	0	0.86
5876087--5876431	19	19.4	19	82	14	452	46	17	20	14	1.83
5876087--5876453	33	10.5	34	83	13	332	46	17	20	14	1.84
5876087--5876453	52	6.9	52	83	11	419	46	17	20	14	1.84
5876087--5876453	71	5.2	72	82	14	400	46	17	20	14	1.84
5876460--5876560	20	5.6	19	80	14	133	15	23	16	43	1.87
5876667--5876703	14	2.6	14	91	0	65	45	21	0	32	1.52
5878663--5878719	14	3.7	14	77	20	60	45	22	21	10	1.82
5878644--5878736	33	2.8	33	95	0	168	47	21	20	10	1.80
5878607--5878741	19	7.6	19	76	16	128	45	23	19	11	1.82
5878737--5878865	19	7.3	19	75	17	125	8	17	28	45	1.77
5878737--5878828	33	2.8	33	93	3	150	7	18	28	45	1.76
5878909--5879380	93	5.1	93	98	1	912	46	18	12	22	1.83
5878909--5879380	185	2.6	185	99	0	926	46	18	12	22	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5881085--5881174	14	5.7	14	74	23	81	42	23	25	8	1.83
5881077--5881191	33	3.5	33	95	0	212	45	20	24	9	1.81
5881084--5881196	19	6.8	18	72	23	88	43	22	24	9	1.83
5881207--5881261	14	3.6	14	73	21	56	9	25	23	41	1.83
5881202--5881283	33	2.5	33	89	2	119	9	25	21	42	1.84
5881214--5881302	20	4.8	20	72	19	75	12	24	19	43	1.85
5881382--5881452	33	2.2	33	92	0	115	47	18	22	11	1.80
5881634--5881688	22	2.5	22	81	0	74	20	16	40	23	1.91
5881834--5882026	20	9.6	20	82	5	219	19	19	25	35	1.95
5881834--5882026	60	3.2	60	83	0	251	19	19	25	35	1.95
5882082--5882133	20	2.6	20	96	0	95	21	13	26	38	1.90
5883391--5883439	20	2.4	21	83	13	66	28	2	26	42	1.66
5883572--5883642	18	3.6	18	67	20	52	39	11	7	42	1.68
5883556--5883665	42	2.6	42	97	0	202	40	12	7	39	1.71
5883590--5883661	24	3.2	24	64	22	66	40	13	6	38	1.72
5883994--5884023	16	1.9	16	93	6	53	50	0	0	50	1.00
5883922--5884070	72	2.0	73	84	5	194	42	4	4	48	1.40
5884105--5884154	18	2.9	17	88	8	75	46	2	6	46	1.39
5884063--5884237	96	1.9	95	90	6	284	43	5	5	45	1.49
5883969--5884251	13	21.5	13	64	26	73	42	4	5	48	1.45
5884202--5884263	19	3.3	19	86	8	83	41	0	3	54	1.16
5884190--5884263	13	6.0	13	75	20	54	43	0	2	54	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5884198--5884267	26	2.6	26	80	11	70	40	0	2	57	1.14
5886423--5886450	12	2.3	12	100	0	56	75	0	0	25	0.81
5887952--5887991	21	1.9	21	94	0	71	20	7	10	62	1.50
5888382--5888428	23	2.0	23	83	4	58	48	0	6	44	1.28
5893050--5893074	6	4.2	6	100	0	50	16	0	0	84	0.63
5899759--5899799	21	1.9	22	85	5	57	48	2	0	48	1.14
5904673--5904776	23	4.5	23	76	2	100	20	22	24	33	1.97
5904672--5904821	70	2.1	70	90	2	239	24	20	23	31	1.98
5906833--5906876	2	22.0	2	100	0	88	50	0	0	50	1.00
5907238--5907337	23	4.3	23	80	6	114	20	23	26	31	1.98
5907238--5907350	46	2.4	47	82	8	126	20	23	24	31	1.98
5909191--5909215	13	1.9	13	100	0	50	56	4	0	40	1.18
5909468--5909641	87	2.0	87	97	0	330	37	20	14	26	1.92
5910729--5910764	16	2.2	16	95	0	63	30	11	0	58	1.33
5914553--5914613	26	2.3	26	97	0	113	21	18	21	39	1.93
5917036--5917073	17	2.1	19	85	9	53	52	0	2	44	1.14
5919365--5919419	19	2.9	19	74	15	60	65	1	9	23	1.31
5919522--5919575	12	4.5	12	77	15	58	68	0	1	29	1.00
5919509--5919571	28	2.3	27	81	8	74	68	0	3	28	1.05
5919521--5919595	20	3.3	22	80	14	73	65	0	4	30	1.11
5919507--5919597	20	4.3	21	73	17	66	65	0	4	29	1.11
5919807--5919872	23	2.8	24	79	11	64	68	1	1	28	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5921100--5923534	106	23.0	106	90	1	3686	23	18	24	34	1.96
5925122--5925193	7	10.1	7	74	14	58	0	15	5	79	0.91
5925122--5925205	31	2.9	28	80	18	100	0	16	5	77	0.96
5928634--5928679	20	2.3	20	88	0	74	2	36	32	28	1.69
5929496--5929552	19	2.9	19	75	14	62	66	1	7	24	1.26
5929653--5929695	13	3.4	14	81	18	58	69	0	0	30	0.88
5929638--5929766	21	5.9	22	70	14	72	66	0	3	28	1.14
5930386--5930487	37	2.8	37	81	0	114	32	13	13	40	1.84
5931946--5932029	24	3.5	23	85	3	96	27	15	20	36	1.93
5932889--5933041	65	2.4	64	82	5	175	30	20	15	32	1.94
5933781--5933831	2	27.0	2	88	11	81	50	0	0	49	1.00
5936291--5936324	15	2.2	16	89	5	52	58	8	0	32	1.29
5937803--5937937	70	1.9	70	84	3	182	30	22	19	28	1.98
5937903--5937966	33	1.9	33	96	0	119	21	18	25	34	1.96
5937835--5938186	103	3.4	102	85	4	433	28	21	19	31	1.97
5938006--5938070	33	2.0	33	93	0	112	21	16	23	38	1.93
5939584--5939629	20	2.3	20	88	3	67	36	26	0	36	1.57
5942977--5943020	16	2.8	15	83	10	61	52	20	13	13	1.74
5949912--5949953	22	1.9	22	95	0	75	14	21	23	40	1.90
5950735--5950794	24	2.5	24	97	0	111	48	13	23	15	1.79
5954167--5954209	22	2.0	22	86	9	61	41	23	6	27	1.80
5958106--5958135	6	5.0	6	91	0	51	33	36	0	30	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5960104--5960143	20	2.0	21	95	5	73	50	22	15	12	1.77
5960079--5960938	182	4.7	182	86	2	1124	44	13	14	27	1.83
5960068--5961438	182	7.7	170	82	7	1100	44	13	15	27	1.83
5960079--5961438	528	2.5	531	86	4	1830	44	13	15	27	1.83
5961821--5961870	19	2.6	19	83	3	64	44	2	16	38	1.59
5962121--5962159	18	2.2	18	86	9	53	46	5	7	41	1.55
5963415--5963448	9	3.8	9	88	0	50	35	8	52	2	1.47
5963854--5963892	18	2.2	18	90	0	60	53	0	38	7	1.30
5965360--5965408	19	2.6	19	93	3	82	32	0	10	57	1.32
5965754--5966453	199	3.5	199	94	0	1186	42	15	14	27	1.85
5966780--5966837	15	3.7	15	83	6	71	24	48	1	25	1.61
5969415--5969462	22	2.2	22	88	3	71	45	14	14	25	1.83
5969431--5970282	199	4.3	199	87	3	1161	42	16	13	27	1.85
5972777--5973486	198	3.6	195	80	8	718	39	15	14	30	1.87
5975418--5975450	11	2.8	12	86	9	50	9	9	3	78	1.05
5977022--5977133	57	2.0	57	100	0	224	23	28	15	33	1.95
5987744--5987840	45	2.2	45	90	0	149	16	40	12	30	1.85
5991738--5991809	29	2.5	29	97	0	135	30	16	11	41	1.83
5993221--5993301	32	2.7	29	76	19	76	59	6	8	25	1.51
5994440--5994505	25	2.7	25	84	11	82	7	1	37	53	1.39
5994674--5995193	134	3.8	135	80	9	497	29	20	15	34	1.94
5994666--5995193	140	3.9	139	82	7	580	29	20	15	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5995080--5995288	95	2.2	94	87	2	294	34	16	17	31	1.92
5994811--5995565	369	2.0	374	86	4	1040	29	20	16	33	1.94
5995174--5995759	140	4.3	135	85	5	762	29	20	16	34	1.94
5995174--5995759	275	2.1	272	87	5	822	29	20	16	34	1.94
6018722--6018771	20	2.6	19	83	3	55	36	10	18	36	1.84
6022174--6022198	13	1.9	13	100	0	50	72	0	4	24	1.02
6030220--6030288	3	23.0	3	100	0	138	33	0	0	66	0.92
6035569--6035736	85	2.0	85	86	0	237	30	19	20	29	1.97
6035708--6035749	13	3.2	13	90	6	59	38	19	19	23	1.93
6039189--6039317	42	3.1	42	59	14	97	26	12	20	41	1.87

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