genome.fa.s9235.2.7.7.80.10.50.1000.2.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: VEPZ01009235.1 Hibiscus syriacus cultivar Beakdansim tig00112857_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1478786

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 628 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)
346882--346910	2	14.5	2	100	0	58	48	0	0	51	1.00
356542--356623	29	2.8	29	94	1	137	32	14	9	42	1.79
361310--361391	29	2.8	29	94	1	137	32	14	9	42	1.79
364969--365001	17	1.9	17	93	0	57	36	6	12	45	1.66
368670--368709	19	2.0	21	90	9	66	60	5	5	30	1.40
380750--380792	23	2.0	22	86	9	61	32	23	9	34	1.87
380771--380802	15	2.1	15	94	0	55	28	31	6	34	1.82
380998--381037	18	2.2	18	90	0	62	45	10	0	45	1.37
383882--383949	2	34.0	2	100	0	136	50	0	0	50	1.00
384511--384547	12	3.1	12	100	0	74	48	8	0	43	1.32
392937--393005	36	1.9	36	88	5	104	26	18	13	42	1.87
393427--393501	20	3.8	20	75	7	73	33	33	12	21	1.90
393511--393557	21	2.2	21	80	0	58	23	25	14	36	1.93
393553--393601	20	2.5	20	89	0	71	38	24	16	20	1.92
393573--393702	40	3.3	39	81	9	154	43	24	12	20	1.86
393595--393733	20	6.9	19	79	14	138	42	24	13	19	1.87
393573--393748	80	2.2	80	82	3	228	42	22	13	21	1.88
393595--393760	40	4.1	39	80	12	158	42	24	13	20	1.87
393625--393760	60	2.2	60	83	8	161	42	23	13	20	1.87
394588--394621	12	2.8	12	90	0	50	55	29	0	14	1.40
394734--394801	24	2.8	24	86	4	93	20	17	22	39	1.92
397395--397538	66	2.2	64	93	2	243	50	17	2	29	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
398909--399007	21	4.7	21	77	5	74	24	18	35	22	1.96
398885--399007	42	2.9	42	81	4	124	23	18	35	21	1.95
401505--401547	22	2.0	22	90	0	68	20	11	44	23	1.84
401712--401947	20	11.8	20	80	8	264	19	13	23	43	1.87
401712--401982	60	4.5	60	82	11	286	19	14	22	42	1.88
401726--401982	40	6.4	41	76	12	212	19	14	22	42	1.88
403834--403869	2	18.0	2	100	0	72	50	0	0	50	1.00
406205--406302	21	4.8	20	76	10	74	37	21	19	21	1.94
406270--406498	20	11.4	20	83	5	248	36	25	17	19	1.94
407191--407237	24	2.0	24	87	8	69	25	14	21	38	1.92
407412--407436	12	2.1	12	100	0	50	72	0	28	0	0.86
409735--409957	53	4.2	52	94	1	367	45	17	21	15	1.85
409735--409957	19	12.7	19	75	19	225	45	17	21	15	1.85
409721--409900	86	2.1	84	85	12	233	46	17	22	13	1.84
409721--409900	33	5.2	33	72	18	161	46	17	22	13	1.84
409788--409951	33	4.8	33	74	16	154	45	17	22	14	1.84
409947--410063	53	2.2	53	98	1	227	13	23	17	44	1.85
409966--410063	19	5.4	19	84	13	143	14	22	17	45	1.84
410170--410206	14	2.6	14	91	0	65	45	21	0	32	1.52
411245--411341	20	5.2	20	72	18	100	46	17	24	11	1.81
411243--411307	21	3.1	21	82	4	96	47	15	26	10	1.78
411292--411348	14	3.7	14	75	20	60	43	22	24	8	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411243--411365	33	3.5	33	90	8	165	46	18	24	10	1.81
411393--411485	21	4.6	20	81	7	116	13	20	18	47	1.82
411393--411485	42	2.3	40	87	5	132	13	20	18	47	1.82
411565--411635	33	2.2	33	92	0	115	49	16	22	11	1.78
412018--412207	20	9.4	20	84	5	231	19	18	26	35	1.95
415186--415269	14	6.1	14	83	13	113	15	13	15	55	1.69
415217--415268	10	5.4	10	73	17	56	15	11	13	59	1.61
415203--415253	24	2.1	24	100	0	102	15	11	13	58	1.63
415187--415270	38	2.2	40	91	6	145	16	11	15	55	1.68
415541--415602	24	2.7	23	87	2	97	12	9	16	61	1.56
424723--424834	56	2.0	56	96	0	206	39	17	13	29	1.88
439814--439874	30	2.0	30	100	0	122	36	29	0	34	1.58
440101--440138	12	3.2	12	92	0	67	7	15	50	26	1.72
440103--440155	24	2.2	24	82	0	61	15	15	45	24	1.84
440153--440231	24	3.3	25	74	16	69	45	0	0	54	0.99
443444--443675	41	5.7	41	84	3	270	26	21	18	34	1.96
443445--443674	123	1.9	123	84	1	309	26	21	18	34	1.96
447648--447677	14	2.1	14	93	0	51	16	0	43	40	1.48
447976--448033	28	2.1	28	84	12	75	22	1	41	34	1.64
448560--448586	14	1.9	14	100	0	54	18	0	37	44	1.50
448735--448778	21	2.1	21	83	8	54	13	15	38	31	1.87
470052--470119	30	2.3	30	100	0	136	41	4	36	17	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
478947--478993	23	2.0	23	91	0	76	12	17	21	48	1.79
478947--479006	23	2.6	23	89	0	75	13	16	21	48	1.80
479968--479999	2	16.0	2	100	0	64	50	0	0	50	1.00
481540--481576	19	1.9	19	88	0	56	0	56	10	32	1.34
482205--482353	29	5.0	28	65	16	77	45	17	9	27	1.79
482185--482353	60	2.8	60	92	1	286	44	17	9	28	1.80
482390--482521	32	4.2	32	77	3	133	38	6	9	45	1.62
482405--482557	31	4.8	32	73	14	84	42	4	7	45	1.52
497147--497206	31	1.9	31	89	0	93	31	13	21	33	1.92
498739--498795	25	2.2	25	81	9	60	54	0	7	38	1.28
498745--498796	25	2.0	28	85	11	74	51	0	7	40	1.30
500061--500094	16	2.1	17	88	5	52	76	0	2	20	0.92
500118--500145	5	5.6	5	100	0	56	64	0	0	35	0.94
500118--500163	15	3.2	15	84	9	60	67	0	2	30	1.03
500179--500266	40	2.2	39	80	11	92	68	2	4	25	1.20
501344--501379	15	2.4	15	95	0	63	77	0	2	19	0.88
501439--501498	24	2.5	23	74	12	59	46	6	5	41	1.52
501466--501677	35	6.3	31	73	18	103	44	8	4	43	1.53
501459--501634	38	4.9	38	74	15	126	42	7	3	45	1.52
501667--501736	37	1.9	36	91	2	113	48	4	1	45	1.30
501667--501736	36	1.9	38	88	8	110	48	4	1	45	1.30
501661--501742	37	2.2	37	82	2	112	50	4	1	43	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
501547--501754	33	6.1	35	72	19	104	45	7	2	44	1.46
510503--510532	12	2.5	12	100	0	60	0	6	6	86	0.70
519059--519114	29	1.9	29	96	0	103	32	5	33	28	1.80
519414--519461	4	12.0	4	79	16	55	22	2	4	70	1.15
519410--519461	20	2.6	20	85	11	79	21	1	5	71	1.17
519463--519543	23	3.3	24	78	10	76	17	8	1	72	1.15
519456--519563	48	2.3	48	80	15	118	19	6	0	73	1.11
519549--519640	13	7.6	11	72	15	58	16	4	3	76	1.08
519587--519632	21	2.3	19	85	14	58	19	0	4	76	0.96
519587--519640	18	2.9	18	84	13	58	18	0	3	77	0.91
523956--524111	43	3.4	43	69	13	141	34	25	18	21	1.96
523782--525302	106	15.0	105	89	7	2229	33	25	18	22	1.96
523782--525257	200	7.3	200	93	3	2253	34	25	17	22	1.96
524156--524311	43	3.4	43	67	13	132	34	26	17	21	1.96
523782--525245	294	4.8	287	91	7	2004	33	25	17	22	1.96
524356--524605	43	5.4	43	65	14	140	34	25	18	22	1.96
524650--524797	43	3.3	43	67	14	125	34	25	16	22	1.95
526670--526725	29	1.9	29	96	0	103	32	5	33	28	1.80
527069--527149	23	3.3	24	78	10	76	17	8	1	72	1.15
527062--527169	48	2.3	48	80	15	118	19	6	0	73	1.11
527193--527234	11	3.6	11	77	22	50	16	0	2	80	0.81
545565--545640	36	2.1	36	85	7	100	47	1	3	47	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550947--550996	25	1.9	25	84	8	64	42	0	4	54	1.19
558701--558748	20	2.4	20	82	0	60	10	29	58	2	1.43
558718--558749	17	1.9	16	93	6	55	9	31	59	0	1.29
571928--571952	2	12.5	2	100	0	50	52	0	48	0	1.00
572240--572345	31	3.4	31	78	7	106	33	6	15	45	1.72
574617--574704	35	2.5	36	87	5	128	39	0	1	59	1.05
585579--585648	27	2.7	27	76	8	76	12	10	17	60	1.59
585589--585639	13	3.8	13	82	5	57	11	7	17	62	1.51
587305--587359	15	3.6	15	78	4	65	41	12	12	32	1.81
587528--587580	21	2.5	21	93	0	88	28	28	22	20	1.99

Tables:   1   2   3   4   5   6