genome.fa.s8361.2.7.7.80.10.50.1000.2.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: VEPZ01008361.1 Hibiscus syriacus cultivar Beakdansim tig00111100_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1124086

Tables:   1   2   3   4   

This is table  2  of  4  ( 454 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)
275049--275094	11	4.5	10	89	10	67	17	2	19	60	1.46
275036--275091	10	5.4	11	85	8	73	17	1	21	58	1.47
277268--277298	15	2.1	15	93	0	53	41	0	0	58	0.98
298406--298522	57	2.1	57	100	0	234	32	29	17	21	1.96
306577--306612	2	18.0	2	100	0	72	50	0	0	50	1.00
308921--309007	31	2.8	30	81	10	104	41	0	4	54	1.21
308954--308996	20	2.1	21	87	8	63	44	0	2	53	1.13
312296--312358	18	3.5	18	91	4	101	58	9	31	0	1.30
312296--312379	36	2.3	36	88	8	118	55	8	35	0	1.30
312296--312388	18	5.2	18	85	5	84	54	9	35	0	1.33
318702--318775	3	25.0	3	97	2	141	66	0	33	0	0.92
322388--322422	12	2.8	13	86	8	54	48	17	0	34	1.47
325182--325262	39	2.1	39	84	11	105	48	1	3	46	1.27
325315--325418	29	3.3	29	67	21	82	36	23	2	37	1.70
325300--325433	67	2.0	67	97	0	250	37	24	3	34	1.74
325471--325512	20	2.2	19	95	4	75	23	19	9	47	1.78
328083--328128	2	23.0	2	100	0	92	50	0	0	50	1.00
328661--328713	18	2.7	19	77	14	54	20	24	30	24	1.99
329811--329918	42	2.5	42	87	1	162	52	15	3	27	1.60
335974--336015	21	2.0	21	100	0	84	38	28	23	9	1.86
336814--336896	2	41.5	2	100	0	166	50	0	0	49	1.00
341510--341608	48	2.1	48	100	0	198	16	27	10	46	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
342517--342590	20	3.7	20	80	3	94	40	18	22	17	1.91
342517--342594	41	1.9	41	100	0	156	38	17	25	17	1.92
342625--342697	20	3.7	20	88	0	110	26	27	19	27	1.99
342885--342928	22	2.0	22	95	0	79	20	45	15	18	1.85
343189--343247	20	3.0	20	87	0	73	16	18	22	42	1.89
344560--344604	18	2.5	18	88	0	72	26	44	15	13	1.83
345085--345130	20	2.3	20	85	7	58	39	26	19	15	1.91
345096--345151	20	2.8	20	81	2	69	41	21	21	16	1.90
345140--345197	14	3.9	14	77	16	62	48	22	17	12	1.80
345124--345214	32	2.8	33	93	3	157	47	20	18	13	1.82
345226--345348	20	6.7	19	76	12	105	13	19	24	43	1.86
345215--345348	39	3.6	37	71	18	111	12	18	25	43	1.85
347329--347384	14	3.6	14	74	21	58	46	17	21	14	1.84
347338--347387	14	3.0	17	75	24	61	48	18	22	12	1.80
347310--347387	33	2.4	33	88	0	111	42	20	23	14	1.88
347406--347463	20	2.9	20	94	0	98	15	20	24	39	1.91
348492--348545	24	2.2	24	90	0	81	24	16	20	38	1.92
348720--348744	12	2.1	12	100	0	50	72	0	28	0	0.86
350943--351023	21	3.9	21	69	6	65	24	22	32	20	1.98
350928--351036	42	2.6	41	82	5	112	22	20	33	22	1.97
351266--351452	91	2.0	90	89	6	286	47	18	12	21	1.81
352977--353055	19	4.1	19	83	3	95	46	16	22	13	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
353649--353701	20	2.7	20	93	0	88	26	20	28	24	1.99
353710--353760	20	2.5	20	96	0	93	25	19	23	31	1.98
353650--353766	61	1.9	61	83	0	153	24	17	23	33	1.97
353801--353841	21	2.0	21	85	0	55	34	31	17	17	1.93
354461--354524	21	2.9	21	88	6	83	31	1	1	65	1.11
359341--359473	66	2.0	66	100	0	266	44	7	7	40	1.61
359665--359708	13	3.5	13	78	3	54	52	0	0	47	1.00
361181--361220	20	2.0	21	85	5	55	22	2	7	67	1.28
363304--363332	15	2.0	15	93	6	51	27	3	6	62	1.37
387196--387545	175	2.0	174	99	0	691	35	14	19	30	1.91
397370--397399	12	2.5	12	94	0	51	50	23	6	20	1.71
401080--401143	31	2.1	31	84	0	83	23	23	10	42	1.86
406802--406843	7	6.0	7	94	0	75	0	45	0	54	0.99
406797--406843	21	2.3	21	92	3	78	0	44	0	55	0.99
407812--407867	29	1.9	29	85	7	78	12	32	30	25	1.92
408002--408059	29	2.0	29	83	6	73	24	27	32	15	1.95
409089--409142	25	2.1	27	86	6	76	14	9	24	51	1.71
410371--410414	20	2.2	20	87	0	61	38	27	0	34	1.57
411516--411579	27	2.4	25	75	25	69	57	1	6	34	1.33
420797--420821	13	1.9	13	100	0	50	32	0	0	68	0.90
424183--424220	18	2.1	18	90	0	58	44	0	0	55	0.99
432217--432299	42	2.0	42	100	0	166	36	20	14	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
434923--435085	15	10.5	15	84	10	202	48	0	1	49	1.11
434923--435085	30	5.2	30	86	10	238	48	0	1	49	1.11
434923--435118	45	4.2	45	81	12	225	46	0	3	50	1.19
435065--435283	32	6.4	32	74	13	179	37	0	10	52	1.36
435088--435547	54	8.3	54	78	15	485	33	0	13	52	1.40
435142--435627	80	5.9	80	86	7	679	33	0	13	52	1.41
435331--435378	22	2.4	18	73	23	51	33	0	14	52	1.42
435387--435610	32	7.7	32	77	18	224	33	0	13	53	1.41
435411--435467	18	3.4	18	69	18	59	33	0	12	54	1.38
435461--435530	36	1.9	36	83	11	90	34	0	10	55	1.33
443836--443869	13	2.5	13	95	4	59	79	8	11	0	0.94
443851--443888	20	1.9	20	88	0	58	78	10	10	0	0.95
464103--464235	71	1.9	71	96	0	248	31	14	12	42	1.82
481457--481567	30	3.6	30	79	2	105	39	15	8	36	1.77
481503--481576	30	2.5	30	84	4	87	43	14	2	39	1.60
491723--491885	84	1.9	84	84	0	218	26	26	12	34	1.92
496258--496297	20	2.1	19	86	13	55	0	22	2	75	0.93
496271--496305	16	2.2	16	90	10	54	0	17	5	77	0.96
496678--496718	11	3.6	11	83	3	55	53	0	0	46	1.00
496689--496748	3	21.0	3	74	16	56	61	1	0	36	1.06
496719--496754	19	1.9	18	94	5	63	63	2	0	33	1.08
497033--497057	1	25.0	1	100	0	50	0	0	0	100	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
496886--497211	175	1.9	173	93	1	562	34	19	17	28	1.95
497053--497622	76	7.5	76	98	0	1070	35	21	20	22	1.96
498678--498904	54	4.3	53	87	3	296	25	20	13	40	1.89
500963--501281	114	2.8	114	94	0	541	34	21	14	30	1.93
501235--501457	84	2.7	84	98	1	430	36	22	14	26	1.93
508905--508945	20	2.0	21	85	4	57	58	2	2	36	1.24
508959--509011	16	3.0	18	83	10	65	69	5	0	24	1.09
509769--509808	20	2.1	19	86	13	55	0	22	2	75	0.93
509782--509816	16	2.2	16	90	10	54	0	17	5	77	0.96
510199--510264	3	22.0	3	76	11	64	60	3	0	36	1.12
510188--510264	24	3.0	25	90	7	111	58	2	0	38	1.12
510236--510270	18	1.9	18	100	0	70	62	2	0	34	1.10
511147--511199	24	2.2	25	83	6	65	41	0	1	56	1.10
512039--512489	182	2.5	177	86	3	600	28	15	12	43	1.83
512365--513047	112	6.1	112	89	2	975	26	15	12	45	1.82
513560--513668	50	2.2	50	86	0	146	13	34	29	22	1.92
513933--514154	111	2.0	111	92	1	374	35	6	10	46	1.65
516027--516112	3	28.7	3	83	0	100	34	26	32	5	1.80
516030--516112	24	3.5	24	86	0	112	34	26	32	6	1.81
516033--516119	21	4.1	21	84	0	120	34	25	32	8	1.85
521293--521325	4	8.2	4	100	0	66	24	0	0	75	0.80
522543--522587	18	2.9	15	87	12	56	48	2	2	46	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522652--522722	29	2.4	29	80	2	79	38	4	1	56	1.28
523194--523249	20	3.1	17	82	12	58	57	3	1	37	1.27
523194--523239	20	2.4	19	83	16	60	56	4	2	36	1.31
526347--526499	30	5.0	30	77	15	161	24	13	15	47	1.81
529304--529386	2	41.5	2	100	0	166	49	0	0	50	1.00
534696--534738	15	2.9	15	79	6	52	46	2	18	32	1.62
540805--540851	24	1.9	25	95	4	87	12	21	21	44	1.85
541418--541568	75	2.0	75	97	0	284	23	31	18	26	1.98
547139--547165	2	13.5	2	100	0	54	48	0	0	51	1.00
550183--550218	2	18.0	2	94	0	63	47	0	0	52	1.00

Tables:   1   2   3   4