genome.fa.s7999.2.7.7.80.10.50.1000.29.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  29  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)
7050602--7050754	61	2.4	65	80	9	158	30	18	18	32	1.95
7053794--7053898	23	4.6	23	76	8	108	28	20	24	25	1.99
7061050--7061120	2	35.5	2	100	0	142	49	0	0	50	1.00
7066744--7066791	22	2.1	23	88	11	73	41	8	14	35	1.76
7067844--7068009	84	2.0	84	85	7	230	34	16	16	32	1.92
7075110--7075908	400	2.0	400	87	0	1161	33	16	19	30	1.94
7077343--7077504	44	3.7	43	87	3	200	30	24	16	27	1.97
7077344--7077504	88	1.8	86	85	2	223	30	24	16	27	1.97
7077494--7077576	43	1.9	43	87	0	121	33	26	16	22	1.96
7077494--7077598	43	2.4	43	83	0	120	37	26	14	21	1.92
7079153--7079204	18	2.9	18	94	0	86	19	17	34	28	1.94
7079387--7079440	20	2.7	20	97	0	99	50	5	11	33	1.61
7084151--7084209	26	2.2	28	85	8	79	47	3	0	49	1.18
7084151--7084212	27	2.3	27	81	10	74	48	3	0	48	1.17
7093695--7093800	55	1.9	55	94	0	185	23	26	21	28	1.99
7093841--7093907	29	2.3	30	89	2	100	22	38	25	13	1.90
7096963--7097006	19	2.3	19	88	0	61	27	20	27	25	1.99
7096971--7097032	19	3.3	19	75	6	54	32	17	27	22	1.97
7097057--7097090	12	2.8	12	95	0	59	58	8	17	14	1.61
7099906--7099975	18	3.6	18	77	12	68	28	24	15	31	1.96
7106490--7106544	20	2.6	22	83	11	71	30	23	14	30	1.94
7107667--7107706	21	1.9	21	100	0	80	15	25	5	55	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7109640--7109681	13	2.9	15	79	17	52	42	2	0	54	1.13
7109641--7109716	29	2.6	28	84	12	91	46	2	0	51	1.15
7109844--7109889	15	3.0	16	81	6	51	63	0	2	34	1.07
7109856--7109904	14	3.4	14	80	8	53	59	2	0	38	1.09
7110946--7110970	10	2.5	10	100	0	50	28	32	12	28	1.92
7113460--7113530	3	23.7	3	97	0	133	64	0	1	33	1.02
7113777--7114401	113	5.5	113	90	2	952	30	18	12	38	1.89
7113777--7114396	227	2.7	226	91	2	1012	30	18	12	38	1.89
7115130--7115702	83	6.9	83	99	0	1119	35	21	14	28	1.92
7116816--7116888	6	12.5	6	75	13	64	0	17	0	82	0.68
7116817--7116885	16	4.2	16	83	10	95	0	15	0	84	0.63
7116816--7116888	22	3.5	20	88	7	101	0	17	0	82	0.68
7116819--7116879	26	2.3	27	86	10	83	0	16	0	83	0.64
7127509--7127543	15	2.5	13	90	9	52	68	2	5	22	1.24
7127552--7127622	28	2.6	28	76	12	76	61	0	5	32	1.19
7129733--7129803	3	23.7	3	97	0	133	64	0	1	33	1.02
7133344--7133383	18	2.2	18	90	4	62	67	0	0	32	0.91
7133257--7133479	118	1.9	117	82	4	279	45	9	7	37	1.65
7133551--7133592	2	21.0	2	90	0	66	45	0	0	54	0.99
7133590--7133621	13	2.3	15	84	15	50	75	0	0	25	0.81
7134958--7135008	3	17.0	3	80	15	61	64	0	0	35	0.94
7134958--7135005	19	2.7	18	87	9	71	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7135303--7135827	113	4.6	113	91	3	698	25	19	16	38	1.92
7135426--7135827	113	3.6	112	95	0	705	25	19	16	38	1.93
7135797--7135857	30	2.0	30	100	0	122	9	27	9	52	1.66
7135684--7135969	142	2.0	143	97	0	538	23	20	15	41	1.90
7139894--7139973	10	8.6	9	81	9	90	3	12	0	83	0.77
7139894--7139973	19	4.3	19	83	3	99	3	12	0	83	0.77
7144031--7144091	28	2.2	28	83	11	74	59	3	4	32	1.35
7144586--7144821	119	2.0	122	82	6	295	48	7	7	36	1.60
7146260--7146310	3	17.0	3	80	15	61	64	0	0	35	0.94
7146260--7146307	19	2.7	18	87	9	71	64	0	0	35	0.94
7149911--7150596	121	5.7	121	98	0	1304	31	13	8	47	1.72
7149911--7150596	241	2.8	242	98	0	1304	31	13	8	47	1.72
7149911--7150596	362	1.9	362	97	0	1302	31	13	8	47	1.72
7150813--7150837	13	1.9	13	100	0	50	16	0	8	76	1.02
7151086--7151114	3	9.7	3	100	0	58	31	0	0	68	0.89
7152171--7152463	148	2.0	148	93	2	509	46	9	7	36	1.65
7152610--7152686	35	2.2	35	88	0	109	32	1	23	42	1.62
7154752--7154791	21	1.9	21	94	0	71	27	5	17	50	1.67
7158328--7158375	15	3.2	15	90	0	78	8	16	66	8	1.42
7171546--7171586	12	3.2	13	86	10	57	60	0	0	39	0.96
7175605--7175816	34	5.6	34	67	22	109	28	21	10	38	1.87
7175549--7175871	79	4.1	79	89	0	441	27	22	11	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7175639--7175782	45	3.4	45	68	21	132	29	22	11	36	1.89
7175549--7175871	158	2.0	158	89	0	493	27	22	11	39	1.88
7176305--7176424	55	2.2	55	89	1	179	27	19	18	35	1.95
7179417--7179463	22	2.1	22	92	0	76	27	14	12	44	1.82
7184647--7184689	21	2.0	21	86	0	59	27	11	18	41	1.85
7193775--7193859	13	6.8	13	72	21	74	61	3	4	30	1.33
7194634--7194678	23	2.0	23	95	0	81	28	20	8	42	1.82
7196664--7196715	20	2.5	20	78	3	59	28	17	19	34	1.94
7202156--7202281	35	3.6	34	74	12	105	42	5	3	49	1.42
7202147--7202373	71	3.2	68	85	6	283	43	5	3	47	1.42
7202198--7202373	36	4.9	36	74	13	157	43	6	2	47	1.43
7208087--7208201	35	3.3	36	77	12	132	44	4	10	40	1.58
7209373--7209460	44	2.0	44	91	4	142	48	9	6	35	1.61
7214060--7214104	2	22.5	2	100	0	90	48	0	0	51	1.00
7215029--7215066	3	12.7	3	100	0	76	65	0	0	34	0.93
7215191--7215534	134	2.6	134	85	1	465	33	19	17	29	1.95
7215843--7215894	20	2.5	21	90	3	79	42	1	26	28	1.66
7215856--7215900	20	2.2	20	80	0	54	53	2	22	22	1.57
7216135--7216269	50	2.6	51	86	6	168	40	20	16	22	1.91
7216363--7216579	45	4.8	44	86	2	256	41	17	18	22	1.90
7216413--7217340	42	22.2	42	78	8	677	40	16	17	25	1.90
7216458--7217340	167	5.3	164	75	11	635	39	16	17	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7219197--7219402	7	29.4	7	74	14	115	5	18	0	75	0.99
7219217--7219381	11	15.7	10	68	14	75	5	18	0	76	0.97
7219197--7219402	36	5.5	37	73	20	137	5	18	0	75	0.99
7219280--7219419	74	1.9	75	81	11	171	6	18	0	74	1.08
7219363--7219420	24	2.4	22	76	18	53	10	13	1	74	1.15
7230151--7230208	20	3.0	20	84	2	64	34	22	8	34	1.85
7243565--7243621	19	3.1	19	85	14	91	49	15	0	35	1.45
7243564--7243624	18	3.3	18	84	13	88	50	16	0	32	1.45
7249421--7249452	15	2.1	15	100	0	64	18	43	0	37	1.51
7251457--7251494	19	2.0	20	89	5	60	28	5	23	42	1.76
7251673--7251770	45	2.2	44	83	8	119	29	19	22	28	1.98
7255574--7255613	21	1.9	21	85	10	55	35	7	2	55	1.42
7255868--7255923	27	2.1	27	100	0	112	28	17	21	32	1.96
7257554--7257740	64	2.9	63	80	11	186	31	15	22	30	1.95
7258925--7258964	17	2.4	17	95	0	71	42	5	5	47	1.47
7258952--7259119	82	2.1	81	87	5	241	46	4	4	45	1.41
7258969--7259142	81	2.1	82	85	7	230	47	4	4	43	1.42
7258969--7259165	81	2.4	82	82	8	206	46	5	4	43	1.47
7266825--7266868	22	2.0	22	100	0	88	45	18	4	31	1.69
7272107--7272148	22	1.9	22	85	0	57	38	11	23	26	1.90
7278587--7278628	17	2.5	17	100	0	84	66	19	0	14	1.25
7286769--7287679	106	8.6	106	94	0	1545	33	25	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7297891--7297968	23	3.4	23	80	5	86	39	14	6	39	1.71
7298030--7298075	16	2.9	16	78	12	58	28	4	19	47	1.68
7298139--7298177	16	2.4	16	86	0	60	41	7	7	43	1.62
7298239--7298300	4	15.5	4	77	12	56	46	22	0	30	1.52
7298281--7298359	28	2.7	30	72	20	76	39	21	6	32	1.79
7298420--7299172	286	2.6	285	83	6	848	32	13	6	47	1.69
7318018--7318069	24	2.1	24	89	7	77	28	5	15	50	1.67
7318193--7318236	21	2.1	21	83	8	54	45	2	2	50	1.27
7319502--7319527	4	6.5	4	100	0	52	0	0	23	76	0.78
7321383--7321425	18	2.4	18	100	0	86	20	11	37	30	1.89

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