genome.fa.s6565.2.7.7.80.10.50.1000.2.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: VEPZ01006565.1 Hibiscus syriacus cultivar Beakdansim tig00016066_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1014065

Tables:   1   2   3   4   

This is table  2  of  4  ( 428 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)
287459--287503	23	2.0	23	86	0	63	37	20	11	31	1.87
289598--289933	54	6.2	54	87	3	455	37	19	17	25	1.93
295642--295985	54	6.4	53	81	5	377	37	17	17	27	1.92
295642--295985	162	2.1	162	85	3	478	37	17	17	27	1.92
301584--301616	16	2.1	16	88	11	50	30	3	3	63	1.24
310241--310405	75	2.2	75	86	2	233	27	17	22	32	1.96
312457--312811	46	7.7	46	91	0	541	23	21	19	35	1.96
312939--312971	15	2.2	15	94	0	57	42	0	0	57	0.98
314481--314527	22	2.0	24	88	8	71	38	2	0	59	1.09
315370--315806	47	9.3	47	89	1	658	20	21	12	45	1.84
315538--315609	20	3.2	20	71	23	63	19	23	12	44	1.85
315679--315918	114	2.1	112	94	1	381	20	23	12	43	1.86
315632--315927	161	1.8	161	92	0	502	21	22	11	43	1.85
315793--315927	47	2.9	47	97	0	252	20	23	11	45	1.83
315727--315873	67	2.2	67	96	0	267	20	25	11	42	1.86
318595--318659	32	2.0	32	100	0	130	18	27	12	41	1.86
328312--328437	63	2.0	63	98	0	243	26	20	15	37	1.93
328605--329076	237	2.0	236	97	2	887	21	11	5	61	1.49
339467--339501	6	5.8	6	90	9	54	88	11	0	0	0.51
340343--340953	105	5.9	105	92	3	974	34	25	18	22	1.96
340660--340956	94	3.0	94	88	5	378	34	25	17	21	1.96
342468--342592	63	2.0	62	96	1	232	26	20	16	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
342762--343234	238	2.0	235	98	1	910	21	11	4	61	1.48
344892--344935	23	1.9	23	90	0	70	43	20	4	31	1.72
348397--348442	22	2.1	22	87	0	65	26	21	21	30	1.99
350847--350880	16	2.1	16	100	0	68	47	11	0	41	1.40
351655--351712	24	2.5	24	80	8	66	68	3	10	17	1.31
358078--358132	26	2.2	25	87	6	76	70	3	5	20	1.22
364405--364461	24	2.4	24	86	11	82	73	3	5	17	1.16
370951--371002	25	2.2	24	86	6	70	73	3	7	15	1.21
377482--377523	12	3.5	12	81	18	52	66	4	4	23	1.30
377483--377534	23	2.2	22	83	10	59	71	3	7	17	1.25
381455--381534	35	2.3	35	78	8	92	46	21	1	31	1.59
381704--381999	153	2.0	146	90	4	457	36	5	9	47	1.60
382482--382578	35	2.7	35	87	4	133	28	1	25	44	1.61
387319--387394	15	5.3	15	65	9	59	50	0	0	50	1.00
394990--395050	23	2.7	22	80	7	77	22	29	19	27	1.98
395524--395564	13	3.1	13	92	3	64	36	14	7	41	1.74
407551--407588	17	2.3	16	83	16	51	60	0	0	39	0.97
408502--408882	191	2.0	191	98	0	744	42	17	13	26	1.86
412224--412257	9	3.7	9	96	4	59	44	0	0	55	0.99
423690--423759	20	3.3	22	71	23	60	42	2	2	51	1.31
426218--426294	18	4.6	18	78	15	101	12	20	49	16	1.79
426213--426290	31	2.5	31	93	0	138	15	21	46	16	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426212--426272	13	4.3	13	77	18	68	16	21	45	16	1.85
428436--428535	24	4.2	24	74	5	94	48	17	12	23	1.80
428434--428537	48	2.2	48	83	0	136	49	16	12	22	1.79
431005--431035	7	4.3	7	92	8	53	25	25	35	12	1.92
430995--431051	8	7.5	8	77	22	61	21	26	36	15	1.93
430995--431051	15	3.8	15	88	9	73	21	26	36	15	1.93
431012--431056	13	3.3	13	90	6	63	17	24	42	15	1.88
443409--443461	15	3.5	15	71	0	52	33	13	9	43	1.76
443409--443502	30	3.1	30	84	3	127	32	19	9	38	1.84
453365--453428	21	3.3	21	62	20	57	45	14	12	28	1.81
453361--453465	37	2.8	37	88	0	147	42	14	13	29	1.83
453903--453953	10	5.1	10	78	7	59	25	1	0	72	0.95
453951--453983	2	16.5	2	100	0	66	48	0	0	51	1.00
453900--453986	20	4.3	20	77	16	72	34	1	0	64	1.01
454290--454330	15	2.6	16	81	14	50	14	7	0	78	0.96
458752--458816	29	2.2	28	79	15	69	80	4	13	1	0.95
458772--458805	18	1.9	18	94	5	61	79	5	14	0	0.91
458749--458827	25	3.1	26	79	18	78	78	6	12	2	1.04
458746--458816	30	2.4	31	79	11	76	78	5	14	1	0.99
458752--458827	20	3.9	19	77	19	68	78	5	13	2	1.02
459659--459721	24	2.6	24	84	2	90	36	19	3	41	1.67
460212--461297	106	10.3	106	89	1	1635	34	24	17	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
460212--461297	423	2.6	423	90	1	1685	34	24	17	23	1.96
460212--461297	529	2.1	529	91	2	1752	34	24	17	23	1.96
461920--462024	37	2.8	37	86	0	147	40	15	14	29	1.86
462848--462880	2	16.5	2	100	0	66	48	0	0	51	1.00
462885--462933	4	12.2	4	89	8	55	16	2	0	81	0.78
462892--462964	8	9.2	8	80	8	51	15	5	0	79	0.90
462892--462948	12	4.8	12	82	4	53	14	3	0	82	0.80
463365--463401	19	1.9	19	88	0	56	27	0	8	64	1.21
463444--463483	19	2.0	20	90	4	64	22	0	2	75	0.93
463449--463494	19	2.6	18	86	10	60	19	0	0	80	0.71
463695--463734	19	2.1	19	95	0	71	15	27	2	55	1.53
466712--466765	22	2.6	21	76	5	65	35	12	29	22	1.91
467066--467608	54	10.1	54	86	2	736	30	19	17	32	1.95
467066--467605	214	2.5	215	87	2	755	31	19	16	32	1.94
474694--477734	54	56.2	54	76	7	2250	31	17	17	33	1.93
487795--487868	21	3.5	21	94	0	112	31	29	20	18	1.97
487872--488061	21	9.3	19	71	18	132	21	20	24	34	1.97
487880--488033	21	7.4	21	75	15	151	20	20	26	33	1.97
487864--488058	42	4.7	42	89	2	290	20	19	24	35	1.96
488917--489031	19	5.6	19	70	15	77	35	18	20	26	1.95
488923--489062	42	3.4	42	89	2	194	35	21	18	24	1.95
488923--489087	21	7.9	20	70	11	102	35	21	19	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
489102--489148	21	2.2	21	96	0	85	19	14	31	34	1.92
490822--490853	5	6.6	5	96	3	57	0	40	21	37	1.54
490850--490886	6	6.2	6	100	0	74	0	16	48	35	1.46
491026--491073	20	2.4	20	96	0	87	50	22	18	8	1.74
491062--491135	21	3.6	21	70	3	78	35	24	17	22	1.95
491046--491139	41	2.3	41	90	5	154	39	22	18	20	1.92
495887--495961	2	38.0	2	81	7	82	46	1	1	50	1.18
495961--495995	18	2.1	18	89	10	56	54	0	0	45	0.99
495959--496006	18	2.6	19	74	9	55	52	0	0	47	1.00
502416--504068	84	19.8	84	84	0	1905	32	24	19	23	1.97
504436--504890	37	12.1	37	82	9	453	43	4	5	46	1.46
504673--504792	40	3.3	34	81	14	100	45	5	3	45	1.41
504895--504934	18	2.2	17	86	8	53	25	2	0	72	0.97
504897--504959	7	8.3	7	78	13	54	19	4	0	76	0.96
506145--506209	23	2.8	23	71	17	62	26	7	0	66	1.19
514537--514662	64	2.0	65	93	1	218	26	28	11	33	1.92
527823--528155	42	7.7	42	72	10	199	29	18	19	32	1.96
527958--527982	13	1.9	13	100	0	50	32	24	20	24	1.98
527978--528086	22	5.1	22	67	8	91	29	17	19	33	1.95
527970--528155	84	2.2	82	83	4	221	27	19	18	33	1.96
528577--529050	53	8.9	53	84	1	590	32	21	25	21	1.98
533411--533711	65	4.6	65	89	2	426	33	23	14	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
533411--533713	129	2.3	130	88	0	446	33	23	14	29	1.94
534577--534634	29	2.0	29	83	12	75	37	10	1	50	1.47
540105--540143	20	2.0	20	84	0	51	23	7	23	46	1.78
540299--540379	21	3.8	21	76	13	76	18	24	33	23	1.97
540322--540381	20	2.8	21	87	7	77	18	26	33	21	1.96
561529--561572	19	2.3	20	84	7	56	47	2	0	50	1.13
566979--567024	2	23.0	2	95	0	83	47	0	2	50	1.13
569427--569585	77	2.0	79	85	7	218	36	11	5	46	1.63
571671--571710	2	20.0	2	100	0	80	50	0	0	50	1.00
575483--575700	43	5.1	43	89	3	314	26	21	23	28	1.99

Tables:   1   2   3   4