genome.fa.s8757.2.7.7.80.10.50.1000.2.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: VEPZ01008757.1 Hibiscus syriacus cultivar Beakdansim tig00111849_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  497375

Tables:   1   2   3   

This is table  2  of  3  ( 251 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)
254208--254263	26	2.1	27	83	3	69	60	0	3	35	1.14
254215--254288	27	2.9	27	82	9	75	58	2	4	35	1.31
254301--254340	2	20.5	2	94	5	73	50	0	0	50	1.00
257196--257309	29	3.9	29	95	2	203	14	37	28	19	1.91
257521--257581	15	4.1	15	73	26	67	19	24	37	18	1.94
257537--257607	29	2.4	29	97	0	133	21	25	33	19	1.97
257601--257625	12	2.1	12	100	0	50	16	0	60	24	1.36
257665--257732	35	1.9	35	96	0	127	29	29	16	25	1.96
258169--258212	21	2.1	21	86	0	61	29	0	18	52	1.46
258199--258281	38	2.0	42	82	15	104	48	0	6	45	1.27
258605--258631	14	1.9	14	100	0	54	7	3	14	74	1.18
258602--258634	17	1.9	17	88	11	50	9	3	15	72	1.21
258727--258770	23	1.9	23	85	0	61	40	0	9	50	1.34
258999--259063	26	2.6	25	79	13	62	50	6	1	41	1.36
261477--261509	3	11.0	3	93	0	57	63	0	33	3	1.10
274558--274643	26	3.3	25	82	12	86	41	4	1	52	1.30
274637--274693	30	1.9	30	85	7	80	36	1	1	59	1.18
275269--275299	2	15.5	2	100	0	62	48	0	0	51	1.00
276092--276118	2	13.5	2	100	0	54	48	0	0	51	1.00
279460--279495	17	2.1	18	89	5	56	22	0	0	77	0.76
288364--288485	58	2.1	59	95	1	219	34	23	9	32	1.86
291384--291763	188	2.0	190	94	4	680	33	25	12	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
291942--291992	2	25.5	2	100	0	102	49	0	0	50	1.00
293735--294975	647	1.9	643	84	6	1661	36	14	17	32	1.90
305775--305834	28	2.2	27	80	8	68	58	8	3	30	1.44
309863--309892	14	2.1	14	100	0	60	53	6	0	40	1.27
311260--311312	24	2.2	24	100	0	106	32	18	18	30	1.96
317144--317234	44	2.1	44	100	0	182	28	41	9	19	1.84
318839--318891	14	3.8	14	75	7	54	52	3	1	41	1.30
318839--318883	13	3.4	13	78	3	54	57	4	2	35	1.31
330945--331039	20	4.7	20	76	10	95	36	24	15	23	1.94
330987--331045	20	3.0	20	89	0	91	38	23	18	18	1.93
331472--331511	20	2.1	19	85	4	53	47	27	15	10	1.77
333063--333150	42	2.1	42	100	0	176	18	37	20	23	1.94
338561--338602	20	2.1	19	86	8	57	50	16	14	19	1.79
339877--339901	6	4.2	6	100	0	50	52	16	16	16	1.76
340091--340132	22	1.9	22	85	9	59	54	35	2	7	1.41
352395--352464	36	1.9	36	88	0	104	31	15	10	42	1.80
352270--352707	224	2.0	222	83	1	561	30	20	16	31	1.95
352646--353123	259	1.8	259	82	1	618	39	22	11	27	1.88
352625--353271	259	2.5	259	77	4	615	37	22	11	28	1.88
353877--353962	36	2.4	36	86	1	120	29	20	10	39	1.86
354169--354255	36	2.4	36	86	1	131	28	19	11	40	1.86
353645--354494	294	2.9	293	90	3	1251	36	19	13	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
355650--356184	42	12.7	42	79	5	481	32	26	18	22	1.97
355650--356184	84	6.4	85	81	6	538	32	26	18	22	1.97
355720--356184	162	2.8	163	81	4	504	32	26	18	22	1.97
355791--356144	120	2.9	120	80	4	332	32	27	17	22	1.96
356230--356465	42	5.6	42	77	2	213	27	27	20	25	1.99
356230--356490	126	2.1	126	81	2	310	28	27	21	23	1.99
356748--356781	3	11.3	3	93	0	59	64	2	32	0	1.08
362261--362292	13	2.5	13	100	0	64	84	0	6	9	0.78
364133--364184	15	3.9	15	76	21	53	5	9	75	9	1.20
365464--365507	15	3.1	15	80	9	56	29	0	0	70	0.88
366618--366663	23	2.0	23	83	8	58	30	6	13	50	1.66
366659--366766	20	5.5	19	72	17	87	28	12	18	40	1.86
366641--366766	39	3.3	39	84	7	159	30	11	17	40	1.85
366769--366986	81	2.7	81	85	0	292	35	13	24	26	1.93
366937--367024	40	2.2	40	100	0	176	30	11	29	28	1.92
367003--367117	60	1.9	60	91	3	187	38	14	21	25	1.92
368779--368828	16	3.1	16	79	0	55	50	0	0	50	1.00
368789--368835	16	2.9	16	75	12	51	40	0	0	59	0.97
378358--378399	6	7.0	6	100	0	84	33	16	50	0	1.46
381893--381966	37	2.0	37	89	0	112	39	14	9	36	1.79
384689--384718	15	2.0	15	100	0	60	60	0	20	20	1.37
384692--384726	15	2.3	15	90	0	52	65	0	17	17	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384843--384898	20	2.8	20	81	10	62	75	1	1	21	0.99
384855--384911	20	3.0	20	78	16	68	77	0	3	19	0.92
384806--384908	9	11.1	9	69	16	59	77	0	4	16	0.99
384858--384925	28	2.4	29	80	14	79	72	0	2	25	0.99
384858--384925	26	2.4	28	79	18	70	72	0	2	25	0.99
384977--385035	22	2.8	21	78	21	61	67	5	6	20	1.33
385361--385429	34	2.0	34	94	0	120	31	14	11	42	1.82
385978--386743	105	7.3	105	90	2	1096	22	17	26	33	1.96
387526--387706	65	2.8	65	90	0	290	36	11	20	30	1.89
387591--387946	102	3.5	102	92	0	586	36	12	20	29	1.90
387656--387964	37	8.9	37	68	19	216	36	13	21	28	1.91
387712--387871	50	3.2	50	62	10	126	36	12	20	31	1.89
387491--387808	167	1.9	169	92	2	543	36	12	20	30	1.89
387860--387964	36	2.9	36	89	1	156	38	14	22	24	1.92
388826--388876	22	2.3	22	96	0	93	25	11	27	35	1.91
389559--389610	16	3.2	16	79	12	54	0	13	7	78	0.94
390765--390803	8	5.0	8	84	6	53	58	12	17	10	1.61
390765--390803	15	2.5	15	87	4	51	58	12	17	10	1.61
391324--391363	18	2.2	18	100	0	80	35	12	32	20	1.90
393291--393320	15	2.0	15	93	0	51	63	0	16	20	1.31
393421--393446	9	2.9	9	100	0	52	80	0	19	0	0.71
393442--393499	20	2.9	20	78	19	59	75	0	3	20	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
393455--393537	26	3.2	26	73	20	68	69	0	1	28	0.96
393460--393529	23	3.1	21	78	8	68	70	0	1	28	0.96
393490--393546	26	2.1	27	90	3	89	66	0	0	33	0.92
393555--393609	26	2.1	26	83	6	67	67	3	1	27	1.17
393460--393623	65	2.6	65	77	9	160	67	2	2	28	1.16
393580--393632	24	2.3	23	83	9	63	71	3	5	18	1.21
393968--394036	34	2.0	34	94	0	120	31	14	11	42	1.82
406561--406618	21	2.8	21	91	0	98	34	20	20	24	1.97
407597--407629	16	2.2	15	89	10	50	51	0	0	48	1.00
419114--419197	41	2.0	41	90	0	132	27	19	14	39	1.90
419129--419215	41	2.1	41	80	4	95	31	18	13	36	1.90
427702--428156	228	2.0	227	96	3	853	32	18	10	38	1.85
428269--428306	17	2.2	17	86	13	60	31	0	5	63	1.17
428272--428309	18	2.2	18	95	4	69	34	0	5	60	1.19
428362--428411	26	2.0	25	88	7	75	22	4	10	64	1.41
428760--428831	31	2.4	29	76	17	83	51	6	12	29	1.65
429335--429376	3	14.3	3	95	5	77	33	0	0	66	0.92
429338--429372	17	2.1	17	100	0	70	34	0	0	65	0.93
429335--429375	20	2.0	20	100	0	82	34	0	0	65	0.93
431505--431586	24	3.4	24	89	6	130	54	7	4	32	1.49
431748--431782	17	2.1	16	89	5	52	45	2	0	51	1.16
432312--432340	9	3.3	9	90	9	51	31	0	68	0	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
436312--436354	21	2.0	21	90	0	68	32	27	23	16	1.96
436888--437005	37	3.1	38	65	21	95	21	14	26	38	1.91
437094--437147	23	2.4	23	81	3	65	22	20	27	29	1.98
448919--448974	23	2.3	23	81	6	67	42	3	1	51	1.29
457916--457988	36	2.0	36	100	0	146	36	30	10	21	1.88
474283--474390	33	3.2	34	78	11	89	35	0	3	61	1.14
474314--474386	34	2.2	34	81	13	91	39	0	1	58	1.06
476165--476258	21	4.5	21	92	5	129	18	35	26	20	1.95
476780--476876	33	2.9	34	85	3	133	55	4	3	37	1.35
476778--476883	34	3.2	33	82	8	133	54	4	2	37	1.36

Tables:   1   2   3