genome.fa.s8613.2.7.7.80.10.50.1000.3.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: VEPZ01008613.1 Hibiscus syriacus cultivar Beakdansim tig00111569_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  647085

Tables:   1   2   3   4   

This is table  3  of  4  ( 443 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)
346342--346455	59	1.9	60	82	8	144	30	25	6	37	1.80
347129--347154	2	13.0	2	100	0	52	0	50	0	50	1.00
347159--347185	3	9.0	3	100	0	54	0	33	0	66	0.92
347264--347291	3	9.3	3	100	0	56	0	35	0	64	0.94
347890--347919	15	2.0	15	93	0	51	66	0	10	23	1.21
348013--348062	26	1.9	26	84	15	68	68	0	12	20	1.21
349013--349063	26	2.0	26	96	3	95	52	11	3	31	1.56
354713--354859	62	2.4	62	81	3	154	29	25	19	25	1.99
354773--354949	41	4.3	41	74	22	149	32	19	22	25	1.97
354753--354871	21	5.7	21	83	9	145	30	23	20	26	1.98
354842--354897	29	1.9	29	96	0	103	28	21	25	25	1.99
354885--354949	20	3.6	20	73	26	81	36	16	23	23	1.94
354890--354956	33	2.0	33	100	0	134	37	14	23	23	1.93
355186--355224	6	6.5	6	100	0	78	33	51	15	0	1.44
355714--355768	6	9.5	6	98	2	96	0	16	52	30	1.44
355765--355795	6	5.2	6	100	0	62	32	0	32	35	1.58
355910--356046	21	6.6	21	82	9	165	29	27	21	22	1.99
355930--356197	62	4.3	61	79	13	203	26	22	21	29	1.99
356028--356212	41	4.5	42	79	12	222	23	21	22	33	1.97
356032--356253	21	10.7	21	79	15	132	23	20	23	31	1.98
356055--356236	83	2.2	83	96	0	337	23	20	24	32	1.98
356096--356253	42	3.8	42	82	11	216	22	20	25	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
356031--356233	62	3.3	62	81	11	247	23	20	23	32	1.98
361451--361559	35	3.0	36	86	5	148	33	5	16	44	1.71
366081--366141	21	3.2	21	70	29	73	29	4	21	44	1.73
366073--366181	35	3.0	36	89	5	166	29	5	19	45	1.72
379943--379989	19	2.5	19	100	0	94	21	17	19	42	1.89
383205--383238	16	2.1	16	88	0	50	26	2	2	67	1.19
385092--385148	25	2.3	25	90	0	87	59	12	3	24	1.48
391057--391211	79	1.9	82	81	6	190	46	14	5	33	1.67
391059--391242	29	6.6	29	71	14	104	45	16	4	33	1.68
391252--391292	18	2.3	18	86	0	55	21	21	39	17	1.93
397078--397109	15	2.1	15	100	0	64	40	12	34	12	1.81
401308--401367	20	2.8	20	82	9	66	25	31	26	16	1.96
401308--401368	23	2.9	21	87	7	79	24	32	26	16	1.96
407815--407872	28	2.0	30	83	12	77	41	10	3	44	1.55
409903--409978	25	3.0	25	77	9	66	42	1	1	55	1.16
409940--409978	12	3.2	12	88	3	51	33	2	2	61	1.23
411234--411276	15	2.9	14	83	16	52	46	13	16	23	1.83
412048--412096	25	1.9	26	83	4	64	44	14	2	38	1.56
411994--412157	82	2.0	82	81	7	190	43	14	5	36	1.69
412183--412207	13	1.9	13	100	0	50	16	24	44	16	1.86
414127--414242	23	4.5	26	70	20	66	48	0	0	50	1.13
414115--414174	29	2.0	31	83	6	79	46	0	1	51	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
414409--414449	20	2.1	19	86	4	55	39	4	4	51	1.45
414461--414515	23	2.4	21	77	16	56	52	3	0	43	1.18
414443--414523	21	3.8	21	71	20	60	49	2	1	46	1.23
414664--414717	22	2.5	20	80	16	63	46	0	1	51	1.11
419622--419678	29	2.0	29	96	0	105	24	28	28	19	1.98
419689--419727	20	2.0	20	100	0	78	30	25	25	17	1.97
419709--419811	52	2.0	52	98	0	197	33	23	29	13	1.93
419851--419927	29	2.7	29	94	4	131	14	28	29	27	1.95
420335--420466	45	3.0	45	80	14	134	40	0	12	47	1.41
420507--420588	34	2.5	34	82	9	98	37	0	13	48	1.42
420629--420675	16	3.0	16	84	9	53	29	0	10	59	1.31
420650--420680	15	2.1	14	94	5	53	38	0	6	54	1.26
422903--423007	52	2.0	52	100	0	210	13	31	22	32	1.93
422987--423033	21	2.2	21	100	0	94	14	29	25	29	1.95
423034--423093	29	2.1	29	96	0	111	18	28	28	25	1.98
423227--423312	44	2.0	44	97	0	163	41	0	8	50	1.32
423493--423563	31	2.3	31	90	0	106	36	7	23	32	1.82
430899--430938	18	2.2	18	86	0	53	35	0	2	62	1.09
431213--431237	13	1.9	13	100	0	50	0	0	8	92	0.40
432750--432791	16	2.7	15	85	7	57	40	0	2	57	1.12
435281--435317	2	19.0	2	94	5	67	51	0	0	48	1.00
437983--438017	18	1.9	18	88	0	52	45	2	0	51	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
438319--438448	21	6.3	20	70	11	68	56	1	0	40	1.14
438319--438367	19	2.5	20	83	3	64	55	0	0	44	0.99
438345--438427	29	2.8	29	83	10	105	59	2	1	37	1.19
439222--439263	2	21.0	2	100	0	84	50	0	0	50	1.00
445820--445861	19	2.2	18	87	8	57	54	2	0	42	1.13
446386--446502	60	2.0	60	89	3	182	41	5	18	35	1.73
453183--453239	28	2.1	28	90	3	89	29	7	14	49	1.69
454813--454866	24	2.2	24	80	6	65	31	20	22	25	1.98
454869--454938	24	2.9	24	82	0	95	28	20	25	25	1.99
454826--454938	47	2.4	48	81	15	137	29	20	25	24	1.99
458643--458720	33	2.4	33	86	0	102	20	24	19	35	1.95
459535--459569	18	1.9	18	94	0	61	28	34	17	20	1.95
460252--460307	20	2.6	23	81	10	66	28	21	16	33	1.95
461305--461367	21	2.7	24	78	16	78	14	6	23	55	1.62
461305--461379	25	3.2	25	73	22	81	14	6	25	53	1.65
463311--463347	3	12.3	3	100	0	74	67	0	32	0	0.91
469527--469556	13	2.2	14	94	5	53	40	13	26	20	1.89
472763--472825	3	21.0	3	96	0	117	66	1	0	31	1.01
475133--475322	5	37.6	5	73	16	81	74	4	4	16	1.14
475243--475319	23	3.3	21	72	16	64	75	3	3	16	1.11
475284--475334	20	2.5	20	81	6	59	80	1	5	11	0.97
477715--478373	85	7.8	84	84	2	739	27	16	19	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
479616--479806	99	1.9	98	87	1	274	29	18	15	35	1.92
483370--483556	5	37.0	5	71	17	86	75	4	2	17	1.08
483370--483447	14	5.4	15	76	18	60	75	5	2	16	1.09
483330--483416	24	3.7	22	70	16	59	71	5	3	19	1.21
483387--483467	26	3.0	26	82	12	92	75	6	3	14	1.14
483372--483446	31	2.4	31	82	8	89	76	5	2	16	1.09
483397--483472	21	3.6	21	75	10	57	76	6	3	13	1.12
483397--483538	32	4.6	29	72	14	83	76	4	2	16	1.07
483474--483554	22	3.6	22	80	6	76	76	1	1	20	0.92
483489--483547	7	7.5	8	74	14	52	77	1	0	20	0.85
483384--483556	11	16.5	10	67	15	55	75	4	2	17	1.08
485008--485034	2	13.5	2	100	0	54	51	0	0	48	1.00
488005--488065	26	2.4	25	83	2	77	42	0	1	55	1.09
495022--495080	29	2.1	28	83	3	73	57	1	3	37	1.25
500754--500787	18	1.9	17	88	5	50	50	5	0	44	1.26
500769--500845	25	2.7	30	75	19	92	55	6	0	37	1.26
500790--500849	25	2.4	25	100	0	120	55	6	0	38	1.27
501118--501177	31	1.9	31	86	6	86	40	6	10	43	1.64
501630--501684	19	2.8	19	74	17	51	61	1	1	34	1.17
501692--501844	63	2.4	63	91	5	247	56	1	0	42	1.07
501752--501822	24	2.8	26	83	14	87	53	0	0	46	1.00
501692--501857	64	2.6	65	80	14	218	57	1	0	41	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
502382--502478	38	2.6	38	80	4	117	22	8	29	39	1.83
505681--505713	13	2.5	13	100	0	66	21	9	18	51	1.73
505885--505975	20	4.9	19	71	15	57	24	16	29	29	1.96
505987--506060	21	3.5	21	85	7	105	28	16	32	22	1.96
506140--506197	30	2.0	29	90	10	91	44	17	5	32	1.70
506140--506199	29	2.0	30	93	6	104	43	16	6	33	1.74
509454--509625	20	8.7	19	74	16	88	25	16	33	25	1.96
509530--509627	21	4.7	20	81	10	99	24	18	32	24	1.97
509710--509766	30	1.9	30	92	7	98	42	17	7	33	1.76
515687--515717	10	3.1	10	95	0	53	9	9	12	67	1.41

Tables:   1   2   3   4