genome.fa.s9011.2.7.7.80.10.50.1000.3.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: VEPZ01009011.1 Hibiscus syriacus cultivar Beakdansim tig00112399_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  579188

Tables:   1   2   3   4   

This is table  3  of  4  ( 368 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)
382438--382786	55	6.5	52	86	2	364	29	26	16	27	1.97
382914--383841	463	2.0	466	98	0	1817	31	22	11	34	1.90
384622--384751	7	17.6	7	74	14	68	9	14	0	75	1.08
384604--384803	48	4.2	47	74	17	128	11	14	0	74	1.12
384623--384710	35	2.5	34	83	8	106	9	12	0	78	0.96
384701--384800	8	12.0	8	71	26	59	12	17	1	70	1.23
384685--384805	9	12.7	10	67	23	50	10	17	0	71	1.19
384701--384798	18	5.8	18	73	21	86	12	17	1	69	1.24
389947--390064	60	2.0	60	100	0	236	28	15	22	33	1.95
393049--393118	18	3.8	18	69	10	52	28	25	22	22	1.99
394327--394364	20	1.9	20	94	0	67	23	18	21	36	1.95
394391--394494	45	2.3	45	81	4	122	27	20	18	33	1.96
396348--396417	17	3.9	17	76	10	77	27	30	22	20	1.98
396350--396435	37	2.3	37	82	4	111	27	30	22	19	1.98
397624--397683	20	2.8	21	83	14	77	25	20	20	35	1.96
397624--397683	24	2.7	22	87	10	79	25	20	20	35	1.96
397669--397806	62	2.2	62	82	6	163	26	23	18	31	1.98
401818--401870	21	2.5	21	78	6	63	20	24	18	35	1.95
402458--402493	18	2.0	18	88	0	54	52	22	16	8	1.70
402493--402637	19	8.1	19	74	16	121	13	23	20	43	1.86
402515--402612	33	3.0	33	95	0	169	12	24	22	40	1.88
403835--404243	203	2.0	206	97	2	781	33	33	10	23	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
407817--407854	3	12.7	3	94	0	67	63	0	2	34	1.09
408062--408122	2	33.5	2	76	18	53	44	0	0	55	0.99
416606--416630	13	1.9	13	100	0	50	8	24	24	44	1.80
438247--438307	23	2.7	23	94	2	106	62	14	11	11	1.55
444414--444463	23	2.3	21	82	6	55	64	2	0	34	1.05
458683--458838	3	52.3	3	86	1	215	63	3	0	33	1.10
458970--459759	76	10.4	76	98	0	1492	36	21	20	21	1.95
460435--460489	22	2.5	22	93	0	101	40	14	10	34	1.81
463146--463353	82	2.5	83	91	0	328	37	22	12	27	1.90
465921--465948	2	14.0	2	100	0	56	50	0	0	50	1.00
470277--470317	20	2.0	21	85	4	57	65	0	9	24	1.22
472425--472562	3	46.3	3	89	1	197	64	2	0	33	1.06
473337--473435	29	3.3	29	68	15	85	40	1	24	34	1.62
473275--473447	60	2.9	60	85	3	224	41	4	21	33	1.72
481625--481660	2	18.0	2	100	0	72	50	0	0	50	1.00
483741--483799	11	5.5	11	71	15	52	59	1	0	38	1.08
483926--484050	7	18.1	7	69	3	56	43	32	4	20	1.71
483926--484023	41	2.4	41	89	0	151	46	29	2	21	1.62
483926--484048	41	3.0	41	84	0	120	43	31	4	20	1.70
484125--484150	7	3.7	7	100	0	52	46	26	0	26	1.53
484201--484243	14	3.1	14	86	0	59	37	39	2	20	1.66
484201--484243	7	6.1	7	77	0	50	37	39	2	20	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485905--485961	22	2.6	22	94	0	105	28	15	22	33	1.95
487449--487487	20	2.0	20	94	0	69	30	10	30	28	1.90
487681--487714	2	17.0	2	100	0	68	50	0	0	50	1.00
488244--488299	23	2.6	23	80	8	64	28	17	23	30	1.97
490236--490301	24	2.8	24	72	19	66	28	25	25	19	1.99
492573--492675	54	1.9	54	83	0	134	34	19	16	29	1.94
497260--497304	21	2.1	21	100	0	90	26	31	13	28	1.94
499157--499234	15	5.4	15	64	14	56	47	1	2	48	1.23
499122--499219	43	2.3	43	84	6	121	45	2	5	46	1.36
500474--500512	20	2.0	20	84	0	51	38	2	15	43	1.60
500526--500565	20	2.0	21	90	5	64	35	5	15	45	1.68
500473--500622	53	2.9	51	92	4	246	34	5	12	48	1.63
500579--500618	20	2.0	20	90	0	62	40	5	10	45	1.60
505182--505272	20	4.9	20	68	20	72	34	5	15	45	1.69
505181--505330	53	2.9	52	96	3	275	32	6	13	48	1.67
505287--505326	20	2.0	20	95	0	71	37	5	12	45	1.64
507677--508549	442	2.0	435	84	6	1138	34	20	14	30	1.92
520360--520416	26	2.2	25	84	12	71	38	0	57	3	1.16
520359--520416	2	29.0	2	75	6	55	39	0	56	3	1.16
520466--520510	22	2.0	22	86	0	63	37	6	48	6	1.56
520615--520662	18	2.7	18	76	0	51	43	6	39	10	1.64
520585--520666	22	3.7	22	66	9	60	46	6	35	12	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520651--520694	12	3.7	12	78	0	52	38	0	50	11	1.39
520570--520670	44	2.3	44	92	0	166	43	5	38	11	1.66
520652--520737	32	2.7	32	83	3	111	40	0	47	11	1.40
520675--520714	18	2.2	18	86	8	55	45	0	47	7	1.31
520650--520731	16	5.1	17	75	7	73	42	0	45	12	1.41
522495--522525	16	1.9	16	100	0	62	12	51	0	35	1.40
522542--522588	14	3.2	14	84	6	58	14	53	0	31	1.42
522544--522581	16	2.4	16	95	0	67	10	52	0	36	1.36
523242--523281	18	2.2	18	86	0	53	15	42	0	42	1.46
523291--523351	30	2.0	32	87	6	90	13	36	0	50	1.41
523728--523776	16	3.1	16	80	11	55	20	30	0	48	1.50
523889--523961	2	36.5	2	76	5	67	4	45	2	47	1.36
524369--524418	20	2.4	22	80	6	59	18	44	4	34	1.68
525068--525154	38	2.3	37	84	11	106	11	40	1	47	1.47
525455--525560	2	53.5	2	72	12	67	3	44	4	47	1.42
525518--525558	15	3.0	14	86	10	50	2	41	2	53	1.27
525463--525562	36	2.7	36	80	6	103	4	44	6	46	1.47
526843--527000	16	9.7	16	69	11	79	9	42	0	48	1.36
526841--527000	18	9.6	18	67	16	85	9	42	0	48	1.35
526946--527015	33	2.1	33	89	0	104	8	35	1	54	1.40
526825--527000	2	89.5	2	71	13	71	9	42	0	47	1.36
527364--527388	2	12.5	2	100	0	50	48	52	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
527485--527527	20	2.2	20	91	0	68	11	32	0	55	1.36
527617--527677	19	3.4	19	66	25	60	6	40	3	49	1.45
527620--527676	17	3.4	17	71	9	62	5	42	3	49	1.42
527618--527682	34	2.0	33	93	6	114	6	43	3	47	1.43
527768--527923	10	15.6	10	64	21	51	11	37	3	47	1.56
527910--527950	16	2.4	17	80	19	50	4	51	4	39	1.45
527910--527952	18	2.5	17	81	7	52	6	51	4	37	1.50
528046--528120	12	6.1	12	76	4	51	10	30	1	57	1.41
528261--528285	12	2.1	12	100	0	50	0	44	0	56	0.99
528361--528412	21	2.5	19	77	17	59	13	42	3	40	1.62
528507--528617	55	2.0	57	85	8	156	18	36	1	44	1.60
528603--528635	17	1.9	17	93	0	57	15	33	0	51	1.43
528708--528768	14	4.5	13	75	17	52	6	49	4	39	1.50
528945--529037	21	4.3	21	75	14	73	7	41	3	47	1.48
528999--529072	17	4.3	17	72	14	53	12	44	5	37	1.65
528967--529080	2	57.0	2	73	13	74	7	44	4	42	1.53
529087--529154	25	2.7	25	82	11	84	4	47	13	35	1.63
529124--529179	20	2.9	19	76	10	60	1	50	12	35	1.51
529135--529198	24	2.7	24	85	0	92	3	48	9	39	1.51
529206--529244	16	2.4	16	86	0	51	10	43	5	41	1.61
533384--533448	30	2.2	29	81	10	78	41	3	0	55	1.15
537458--537562	35	3.0	35	71	8	95	33	18	16	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537451--537591	71	2.0	71	83	2	176	31	17	18	32	1.94
540831--540855	5	5.0	5	100	0	50	0	80	0	20	0.72
550375--550637	136	1.9	140	84	3	354	34	12	22	31	1.91
555454--555501	23	2.1	23	88	0	69	35	12	18	33	1.89
560136--560220	3	29.0	3	75	4	75	23	35	7	34	1.82
560148--560232	12	7.4	12	79	12	65	21	35	9	34	1.85
560169--560235	21	3.4	18	71	23	55	17	35	10	35	1.85
561682--562629	190	4.9	196	90	7	1483	32	15	15	36	1.89
564547--564612	33	2.0	33	87	0	96	24	45	1	28	1.62
566870--566911	19	2.3	18	88	11	68	19	16	11	52	1.74

Tables:   1   2   3   4