genome.fa.s8527.2.7.7.80.10.50.1000.34.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: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

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   

This is table  34  of  37  ( 4336 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)
8245667--8245727	30	2.0	30	87	6	88	44	4	4	45	1.46
8250836--8250884	2	24.5	2	95	0	89	46	0	0	53	1.00
8251959--8252045	46	1.9	46	88	2	131	37	14	6	40	1.73
8255975--8256003	10	2.9	10	100	0	58	37	10	0	51	1.36
8256402--8256480	3	26.3	3	100	0	158	32	0	0	67	0.91
8257168--8257319	44	3.5	42	72	14	119	25	14	6	53	1.64
8257243--8257371	41	3.1	41	82	3	132	28	17	3	49	1.64
8257168--8257332	89	1.8	90	83	7	219	24	15	6	53	1.66
8259933--8259961	2	14.5	2	100	0	58	48	0	0	51	1.00
8259980--8260014	16	2.2	16	100	0	70	17	20	17	45	1.85
8263467--8263563	40	2.4	41	84	1	124	32	20	18	27	1.96
8263550--8263585	18	2.0	18	94	0	63	36	27	19	16	1.93
8263588--8263971	41	9.4	40	85	5	475	26	18	19	35	1.95
8263588--8263971	82	4.7	82	88	5	551	26	18	19	35	1.95
8263568--8263971	123	3.3	122	85	5	530	26	18	19	35	1.95
8264405--8264465	22	2.9	21	90	9	97	59	4	0	36	1.19
8264380--8264443	10	6.1	11	71	8	53	50	1	1	46	1.20
8265786--8265824	21	1.9	21	94	5	71	23	30	25	20	1.98
8267077--8267105	15	1.9	15	100	0	58	27	3	20	48	1.66
8267208--8267409	43	4.8	41	87	4	253	40	18	19	22	1.92
8267200--8267419	86	2.6	84	89	1	323	40	19	18	20	1.91
8267181--8267467	127	2.2	128	77	4	301	36	19	18	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8271883--8272001	31	3.7	31	75	8	112	24	25	11	38	1.89
8275281--8275312	4	8.0	4	100	0	64	50	25	0	25	1.50
8278444--8278488	12	3.9	11	80	8	54	64	0	0	35	0.94
8288945--8288991	24	2.0	25	87	8	71	51	6	0	42	1.27
8289584--8289615	15	2.1	15	100	0	64	40	12	12	34	1.81
8292910--8292974	25	2.6	25	80	0	85	35	9	13	41	1.77
8293316--8293392	23	3.5	22	84	7	93	35	3	20	40	1.71
8293657--8293706	25	2.0	25	96	0	91	26	8	22	44	1.80
8294093--8294129	18	2.1	18	89	0	56	32	5	10	51	1.60
8294085--8294131	24	2.0	24	86	0	67	34	4	14	46	1.64
8294399--8294485	39	2.2	39	93	0	147	49	20	12	17	1.79
8294904--8294976	23	3.2	23	88	0	101	34	2	21	41	1.68
8295330--8295402	23	3.2	23	92	0	110	34	4	23	38	1.74
8294702--8295752	426	2.5	430	96	1	1918	42	7	11	38	1.69
8297061--8298130	228	4.7	226	81	3	1009	23	23	21	31	1.98
8299032--8299153	62	2.0	62	96	0	226	48	1	7	42	1.41
8299037--8299178	62	2.3	60	89	3	205	45	2	7	44	1.45
8299347--8299389	20	2.0	20	86	8	59	60	0	0	39	0.97
8299879--8299942	19	3.2	20	72	14	53	43	1	1	53	1.19
8299888--8299937	20	2.5	20	78	12	59	40	2	2	56	1.22
8299855--8299941	31	2.8	30	79	10	95	41	1	3	54	1.25
8300663--8300748	31	2.8	29	79	11	91	53	4	1	40	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8300859--8300907	20	2.5	20	89	0	80	38	6	24	30	1.80
8310985--8311078	19	4.8	19	76	8	91	19	25	25	29	1.98
8310985--8311078	10	9.7	10	76	11	81	19	25	25	29	1.98
8310986--8311084	29	3.4	28	83	5	108	18	27	25	29	1.98
8311080--8311118	17	2.3	17	95	0	69	17	43	23	15	1.87
8314557--8314581	2	12.5	2	100	0	50	52	0	0	48	1.00
8320466--8320494	13	2.2	13	100	0	58	41	6	10	41	1.66
8323612--8323663	25	2.1	26	85	7	72	23	15	3	57	1.54
8328278--8328398	59	2.1	59	84	6	156	39	14	14	31	1.86
8328970--8329020	26	2.0	26	96	0	93	5	29	0	64	1.17
8337118--8337153	3	12.7	3	88	11	58	30	0	0	69	0.89
8339132--8339314	36	5.2	37	82	10	240	47	3	4	44	1.41
8339139--8339312	68	2.5	71	90	4	273	47	3	4	44	1.40
8340052--8340110	25	2.4	24	77	5	64	23	1	3	71	1.11
8340141--8340244	19	5.9	18	70	18	60	25	3	1	68	1.17
8340168--8340217	4	12.8	4	79	12	59	24	0	0	76	0.80
8343969--8344930	110	8.8	110	89	1	1395	34	23	17	24	1.96
8345178--8345247	34	2.1	32	84	5	86	24	28	15	31	1.96
8345583--8345656	20	3.7	20	80	3	85	29	22	27	20	1.98
8345677--8345775	21	4.7	21	78	8	112	23	19	33	24	1.97
8345876--8346663	246	3.2	249	87	1	1082	31	25	18	24	1.97
8345870--8346809	165	5.7	165	78	6	853	30	25	18	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8347479--8347709	37	6.3	37	83	9	287	46	3	5	44	1.44
8347479--8347709	73	3.2	73	89	3	324	46	3	5	44	1.44
8347531--8347824	37	9.0	30	76	19	161	46	4	4	44	1.43
8347675--8347798	29	4.2	28	83	13	144	45	6	3	44	1.45
8347640--8347827	59	3.1	58	82	13	195	46	5	3	44	1.44
8347640--8347827	29	6.2	29	76	17	134	46	5	3	44	1.44
8347886--8347921	14	2.6	14	95	0	63	11	11	0	77	0.99
8348955--8349016	30	2.1	30	81	6	72	30	6	0	62	1.20
8349715--8349755	18	2.2	19	91	4	66	48	0	9	41	1.36
8354183--8354252	28	2.4	30	83	7	90	47	7	4	41	1.50
8375291--8375472	97	1.9	97	100	0	364	19	18	6	56	1.63
8380355--8380395	18	2.3	18	91	0	64	39	17	9	34	1.82
8380357--8380415	30	2.0	30	86	0	82	38	22	10	28	1.86
8380355--8380404	6	8.3	6	84	0	55	38	18	12	32	1.87
8380353--8380398	12	3.8	12	85	0	65	39	17	10	32	1.84
8380416--8380562	53	2.6	55	88	10	217	27	17	17	38	1.91
8388507--8388543	7	5.6	7	81	12	51	0	62	0	37	0.96
8388505--8388543	13	3.0	13	96	0	69	0	64	0	35	0.94
8392557--8392592	14	2.6	14	100	0	72	8	38	0	52	1.32
8410700--8410740	21	2.0	21	90	0	64	63	0	21	14	1.30
8427182--8427212	4	7.8	4	100	0	62	25	0	0	74	0.82
8434048--8434085	20	1.9	20	100	0	76	42	21	2	34	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8434184--8434216	12	2.6	13	90	4	50	48	0	0	51	1.00
8435988--8436044	29	2.0	29	89	0	87	40	26	15	17	1.90
8443451--8443490	2	20.0	2	100	0	80	50	0	0	50	1.00
8449205--8449244	20	2.0	21	90	5	64	62	0	2	35	1.09
8459346--8459376	2	15.5	2	100	0	62	0	48	0	51	1.00
8460439--8461016	260	2.2	254	87	6	819	41	18	10	28	1.84
8464575--8464621	22	2.1	23	84	4	60	23	8	25	42	1.82
8473148--8473194	21	2.2	22	88	3	69	72	0	8	19	1.10
8491921--8491977	6	9.5	6	100	0	114	50	0	17	31	1.46
8493238--8493281	22	2.0	23	86	4	63	65	4	4	25	1.30
8494973--8494999	9	3.0	9	100	0	54	66	0	22	11	1.22
8498709--8498746	20	1.9	20	89	10	60	28	21	34	15	1.94
8500969--8501044	30	2.5	30	97	0	143	39	7	18	34	1.80
8507268--8507406	43	3.3	43	82	1	181	24	19	18	37	1.94
8510317--8510643	42	7.9	41	78	4	255	29	17	22	30	1.96
8510484--8510559	41	1.9	41	86	5	111	30	17	22	30	1.96
8511489--8511523	15	2.3	15	100	0	70	62	0	0	37	0.95
8514836--8514878	21	2.0	21	81	0	50	30	30	25	13	1.94
8515420--8515723	149	2.0	149	96	0	554	27	15	20	36	1.93
8515702--8515746	23	2.0	23	86	0	63	20	24	28	26	1.99
8522373--8522676	149	2.0	149	96	0	563	27	15	20	36	1.93
8522655--8522699	23	2.0	23	86	0	63	20	24	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8524785--8524874	47	1.9	47	90	0	144	27	13	10	48	1.74
8526419--8526628	20	10.5	20	83	5	228	36	26	18	19	1.94
8527320--8527366	24	2.0	24	87	8	69	25	14	21	38	1.92
8527541--8527565	12	2.1	12	100	0	50	72	0	28	0	0.86
8529817--8530025	19	11.7	19	80	16	259	45	17	22	14	1.85
8529817--8530025	72	2.9	72	86	6	291	45	17	22	14	1.85
8529803--8530019	53	4.1	52	87	10	318	46	17	22	13	1.84
8530034--8530112	19	4.4	19	80	16	105	13	22	17	45	1.84
8530219--8530256	14	2.7	15	88	12	62	47	18	0	34	1.49
8531697--8531783	45	1.9	45	85	0	120	21	16	41	20	1.90

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