genome.fa.s6047.2.7.7.80.10.50.1000.2.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: VEPZ01006047.1 Hibiscus syriacus cultivar Beakdansim tig00014304_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  680228

Tables:   1   2   3   

This is table  2  of  3  ( 282 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)
267847--268064	120	1.8	120	80	2	258	15	6	56	21	1.62
268093--268139	24	2.0	24	91	0	76	12	4	65	17	1.40
273960--273996	16	2.3	16	100	0	74	32	10	13	43	1.79
286981--287462	185	2.6	184	77	6	454	48	8	9	33	1.67
289115--289227	60	1.9	60	85	7	158	37	11	16	34	1.85
289319--289345	12	2.2	12	100	0	54	18	0	0	81	0.69
289505--289584	32	2.5	32	83	2	90	35	22	12	30	1.91
306555--306629	40	1.9	38	86	5	105	52	12	8	28	1.66
308083--308144	32	1.9	34	84	12	87	48	1	0	50	1.10
314066--314215	31	5.0	31	91	6	229	20	19	22	38	1.94
314066--314215	59	2.5	59	90	7	230	20	19	22	38	1.94
318374--318525	31	5.0	31	91	6	231	19	19	22	38	1.93
318374--318513	61	2.3	62	93	2	239	19	19	22	39	1.93
320358--320387	14	2.1	15	93	6	53	6	20	63	10	1.47
321669--321782	37	3.1	37	67	20	96	37	22	12	27	1.90
335107--335158	26	2.0	26	88	7	79	55	11	3	28	1.53
335141--335178	20	1.9	20	94	0	67	44	18	2	34	1.64
334914--335701	267	3.0	267	99	0	1560	45	11	9	34	1.71
335374--335425	26	2.0	26	88	7	79	55	11	3	28	1.53
335408--335445	20	1.9	20	94	0	67	44	18	2	34	1.64
335641--335692	26	2.0	26	88	7	79	55	11	3	28	1.53
341443--341565	60	2.0	60	93	0	210	41	8	19	30	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
346973--347015	11	4.0	11	84	6	61	37	9	0	53	1.33
346972--347011	21	1.9	21	94	0	71	35	10	0	55	1.34
351449--351504	28	2.0	28	100	0	112	28	28	7	35	1.84
360301--360344	23	1.9	23	90	0	70	72	4	0	22	1.02
370519--371351	279	3.0	278	94	1	1424	42	10	12	34	1.76
373261--373376	60	1.9	60	87	0	169	37	14	13	34	1.86
373781--374214	20	21.2	20	78	12	413	38	25	19	16	1.93
373783--374214	82	5.3	81	85	7	529	37	25	19	16	1.93
373781--374214	62	7.1	59	79	14	384	38	25	19	16	1.93
374310--374353	6	7.5	6	94	2	72	29	54	15	0	1.42
374850--374905	6	9.5	6	98	1	105	0	16	51	32	1.44
375004--375333	20	16.2	19	74	19	235	17	19	26	36	1.94
375001--375412	62	6.7	61	84	7	439	17	19	25	37	1.93
375008--375352	40	8.4	39	83	15	323	17	18	27	35	1.94
375256--375352	42	2.3	40	87	7	122	18	17	26	37	1.93
375364--375414	19	2.6	20	78	12	52	11	19	25	43	1.85
379036--379135	33	3.0	33	95	0	173	27	19	32	22	1.97
384641--384738	48	2.0	48	86	0	133	38	20	11	29	1.87
391454--391523	2	35.5	2	97	2	133	51	0	0	48	1.00
393981--394431	182	2.5	182	90	1	701	27	15	13	43	1.84
394302--394687	112	3.5	112	89	4	554	26	14	13	45	1.82
394595--394775	90	2.0	88	89	4	274	25	12	13	48	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
394477--394845	197	1.9	200	86	5	543	26	11	13	48	1.76
395804--395853	21	2.4	21	86	0	64	30	22	16	32	1.95
396265--396310	17	2.7	17	100	0	92	34	21	10	32	1.88
396660--396719	32	1.9	32	89	3	95	46	1	8	43	1.43
408105--408224	63	1.9	63	94	0	213	31	15	5	48	1.66
408200--408261	25	2.5	24	89	5	79	33	16	3	46	1.63
408202--408242	12	3.3	12	80	6	55	31	14	2	51	1.56
408214--408256	13	3.4	13	74	6	52	30	13	4	51	1.62
416601--416787	56	3.4	55	86	8	261	28	18	13	39	1.89
424014--424098	40	2.1	41	86	4	118	17	29	7	45	1.75
432374--432522	58	2.6	57	81	4	176	49	4	13	32	1.60
433006--433043	20	1.9	20	88	0	58	42	28	13	15	1.85
433628--433664	3	12.3	3	100	0	74	35	0	0	64	0.94
433693--433816	60	2.1	60	81	4	144	36	20	6	37	1.78
434051--434167	60	2.0	59	83	5	146	43	4	19	32	1.70
440037--440075	20	1.9	21	89	5	62	48	0	0	51	1.00
451015--451094	3	26.0	3	79	9	72	28	0	3	67	1.08
451188--451247	25	2.4	25	94	5	104	43	18	11	26	1.84
463033--463071	2	19.5	2	100	0	78	51	0	0	48	1.00
473032--473373	165	2.0	167	86	4	474	36	12	21	28	1.90
473577--473604	2	14.0	2	100	0	56	50	0	0	50	1.00
486248--486376	59	2.2	60	84	1	161	42	6	14	36	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492941--493016	38	2.0	38	86	0	107	42	11	14	31	1.82
512597--513217	313	2.0	311	87	5	892	29	20	13	36	1.90
515004--515481	237	2.0	239	99	0	942	30	18	19	31	1.96
517804--517922	39	3.0	39	81	2	130	23	25	22	28	1.99
523213--523354	75	1.9	74	85	4	196	21	11	25	41	1.87
525267--525343	39	2.0	39	87	5	111	44	0	6	49	1.28
528159--528190	5	6.6	5	92	7	57	0	21	18	59	1.38
529487--529526	21	1.9	21	85	10	55	65	0	0	35	0.93
531091--531122	11	2.8	12	90	9	57	62	0	0	37	0.95
533108--533165	19	3.0	19	75	17	57	70	1	1	25	1.06
533395--533432	15	2.7	14	84	11	51	65	2	5	26	1.27
533325--533440	57	2.0	55	82	14	137	58	2	3	35	1.29
533824--533924	34	2.9	35	86	11	152	27	15	12	43	1.84
534471--535227	105	7.3	105	89	4	1090	23	17	25	33	1.96
535162--535270	43	2.5	43	90	0	173	22	17	22	36	1.94
535979--536136	68	2.4	66	82	8	187	36	9	21	32	1.86
536117--536172	15	3.5	15	75	13	58	41	14	21	23	1.89
536101--536346	135	1.8	136	87	3	370	40	13	18	28	1.88
536145--536333	102	1.9	102	86	2	272	40	13	17	28	1.87
536246--536389	36	4.0	36	91	0	243	39	13	20	26	1.89
537274--537329	22	2.5	22	88	5	78	28	12	23	35	1.91
537287--537330	22	2.0	22	95	0	79	29	9	22	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
542231--542273	18	2.5	17	85	7	61	67	2	4	25	1.22
542152--542266	56	2.0	54	82	11	133	62	1	3	32	1.22
542666--542766	34	2.9	35	86	11	152	27	15	12	43	1.84
544030--544076	13	3.8	13	81	16	64	17	48	19	14	1.81
544084--544150	29	2.3	29	84	0	89	20	8	28	41	1.83
548708--549007	75	4.0	75	88	0	411	19	26	26	28	1.98
552612--552648	15	2.5	15	86	0	56	0	35	5	59	1.20
557024--557064	2	20.5	2	94	0	73	48	2	0	48	1.14
558434--558527	31	3.0	30	80	6	98	48	7	2	41	1.43
564846--564874	2	14.5	2	100	0	58	48	0	0	51	1.00
567149--567219	35	2.0	35	94	0	124	26	26	23	22	2.00
568196--568248	23	2.3	23	83	0	70	15	9	16	58	1.62
568785--568967	60	3.0	60	79	9	153	32	21	5	40	1.76
569097--569244	60	2.5	59	81	3	170	41	6	20	32	1.77
572954--573007	23	2.6	20	76	23	58	70	0	0	29	0.88
573212--573244	10	3.3	10	95	0	57	33	0	0	66	0.92
574166--574198	17	2.0	16	94	5	57	72	6	0	21	1.05
579879--580018	36	3.9	35	87	6	194	19	22	20	37	1.94
579879--580023	72	2.0	71	94	1	254	18	22	19	39	1.93
582260--582322	29	2.2	29	97	0	117	9	14	33	42	1.78
586899--586936	19	2.0	19	89	0	58	52	7	2	36	1.45
592387--592428	21	2.0	21	90	4	68	30	4	21	42	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
594481--594553	32	2.3	30	77	11	83	35	15	0	49	1.44
597715--597793	40	2.0	38	87	4	113	22	5	10	62	1.47
597798--597863	30	2.2	30	81	10	82	43	1	18	36	1.59
597880--597929	26	1.9	26	88	8	75	58	0	8	34	1.28
600823--601208	192	2.0	194	98	1	758	34	14	16	33	1.89
603605--603651	23	2.0	23	100	0	94	31	17	8	42	1.79
604383--604938	44	12.8	44	88	3	750	45	9	0	44	1.37
604383--604939	22	25.6	22	82	3	565	45	9	0	44	1.37
613552--613587	2	18.0	2	100	0	72	50	0	0	50	1.00
617076--617144	3	23.3	3	81	8	79	37	2	0	59	1.12

Tables:   1   2   3