genome.fa.s6985.2.7.7.80.10.50.1000.4.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: VEPZ01006985.1 Hibiscus syriacus cultivar Beakdansim tig00017996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  663392

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 560 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)
433114--433418	13	22.9	13	66	19	62	48	3	4	43	1.40
433114--433416	15	20.0	15	64	19	62	48	3	4	43	1.40
433164--433325	28	5.7	28	75	15	136	50	5	3	40	1.44
433141--433319	89	2.0	86	88	5	261	49	5	3	41	1.43
433474--433515	14	3.0	14	82	0	57	45	33	0	21	1.52
433630--433699	20	3.5	20	73	11	70	40	7	11	41	1.69
433810--433851	21	2.0	20	90	4	66	52	28	0	19	1.46
433950--433990	17	2.3	18	87	4	57	46	7	4	41	1.53
433932--434023	20	4.5	22	73	21	76	43	7	6	42	1.59
433932--434008	37	2.1	37	82	4	93	42	7	6	42	1.59
434069--434121	21	2.5	21	81	0	70	37	7	7	47	1.60
434161--434395	34	6.9	35	70	20	135	45	3	1	48	1.29
434139--434393	65	3.9	65	79	11	256	45	3	1	49	1.30
434164--434274	21	5.2	21	68	11	64	45	4	2	47	1.37
434272--434423	6	24.3	6	74	18	75	47	1	1	50	1.18
434252--434414	31	5.3	30	75	23	121	47	1	0	50	1.16
434287--434416	28	4.0	33	77	19	125	47	1	0	50	1.10
434301--434413	21	5.2	20	70	24	70	48	0	0	50	1.06
434132--434412	131	2.2	131	79	12	309	44	3	2	49	1.30
434332--434425	15	6.7	15	77	20	80	48	0	1	50	1.07
434332--434435	28	3.7	27	76	13	86	50	0	0	48	1.07
435223--435480	6	43.8	6	74	5	114	41	44	6	6	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
435300--435420	30	4.1	29	79	9	129	47	46	1	4	1.34
435235--435438	35	5.8	35	82	5	187	42	45	5	6	1.53
435302--435483	41	4.4	40	75	6	132	43	45	5	5	1.50
435253--435467	29	7.3	29	74	9	132	41	45	6	6	1.54
435222--435483	12	22.2	12	76	5	185	42	44	6	6	1.57
435982--436022	14	2.9	14	80	20	50	19	9	0	70	1.14
436134--436163	15	2.0	15	100	0	60	40	20	13	26	1.89
437602--437730	63	2.0	63	100	0	258	12	21	17	48	1.79
454607--454700	36	2.6	37	85	6	120	24	19	17	39	1.92
454992--455082	36	2.5	36	85	5	112	29	16	13	40	1.86
455022--455409	66	5.9	66	83	4	480	26	21	14	38	1.91
455016--455409	131	3.0	131	87	2	524	26	21	13	38	1.91
457119--457144	4	6.5	4	100	0	52	23	0	0	76	0.78
456947--457223	139	2.0	134	88	4	412	22	16	15	45	1.84
457355--457391	16	2.3	17	81	13	51	29	27	5	37	1.79
463170--463232	28	2.2	28	88	0	90	30	1	23	44	1.63
465002--465249	68	3.6	68	82	4	259	23	26	20	29	1.99
465456--465504	25	1.9	26	83	4	64	38	16	12	32	1.86
465380--466234	76	11.3	76	84	2	1071	40	20	11	27	1.86
465378--466234	151	5.7	152	83	3	1068	40	20	11	27	1.86
465380--466234	227	3.8	226	85	3	1103	40	20	11	27	1.86
471551--471874	164	2.0	160	96	3	596	31	15	9	42	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474826--474892	18	3.9	18	84	13	88	19	23	25	31	1.98
474862--474887	7	3.7	7	100	0	52	15	23	30	30	1.95
474825--474896	25	2.9	25	71	8	74	18	25	25	31	1.97
475732--475821	39	2.3	39	88	3	128	25	25	17	31	1.97
475739--476077	169	2.0	168	97	2	644	23	23	23	29	1.99
480785--480815	2	16.0	2	93	6	55	48	0	0	51	1.00
480783--480815	17	1.9	17	100	0	66	48	0	0	51	1.00
480787--480815	15	1.9	15	100	0	58	48	0	0	51	1.00
481933--482163	39	5.9	39	85	1	239	18	25	24	32	1.97
484067--484115	2	26.0	2	88	12	77	51	0	0	48	1.00
484067--484115	13	3.7	14	86	13	77	51	0	0	48	1.00
485964--486142	69	2.6	68	82	5	216	20	27	23	28	1.99
486105--486173	31	2.2	31	94	0	120	13	27	24	34	1.92
486031--486228	100	2.0	100	84	4	256	18	27	22	31	1.97
486411--486935	76	6.9	76	85	0	638	40	20	10	28	1.85
486411--487299	228	4.0	227	80	5	1002	40	20	11	28	1.86
486726--487134	210	1.9	210	87	0	593	40	20	10	28	1.86
486808--487070	134	2.0	134	84	0	346	39	20	10	29	1.86
486936--487297	76	4.8	76	82	4	399	38	19	11	29	1.87
486936--487299	152	2.4	152	83	1	444	39	19	11	29	1.87
486580--487297	362	2.0	362	85	2	958	40	20	10	28	1.86
487986--488047	20	3.0	21	77	15	74	69	0	9	20	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
489408--489451	12	3.6	12	93	3	70	18	50	20	11	1.77
489557--489587	12	2.6	12	94	0	53	22	48	19	9	1.78
489677--489728	25	2.1	25	88	0	77	17	11	44	26	1.83
493696--493738	23	1.9	22	85	4	59	11	13	4	69	1.33
502387--502444	13	4.5	13	82	0	71	25	18	20	34	1.96
502387--502444	26	2.2	26	87	0	80	25	18	20	34	1.96
502435--502730	85	3.5	85	93	0	486	29	21	16	31	1.96
502778--502818	2	20.5	2	100	0	82	48	0	0	51	1.00
514322--514364	21	2.1	20	83	12	52	81	0	6	11	0.87
514370--514461	5	18.8	5	77	18	88	59	2	0	38	1.09
514357--514465	37	2.8	40	80	14	106	59	3	0	36	1.15
514371--514461	19	4.4	22	76	20	90	59	2	0	38	1.10
514370--514488	46	2.6	46	80	9	127	57	3	0	38	1.15
514460--514944	37	13.9	37	79	15	399	43	8	2	45	1.48
514460--514951	39	14.1	38	74	20	219	44	8	2	44	1.48
514456--514658	97	2.1	95	88	2	307	45	7	2	44	1.45
514502--514619	58	2.0	60	90	5	186	43	8	2	45	1.48
514676--514789	28	4.1	28	100	0	228	42	7	3	46	1.48
514456--514952	65	7.3	67	69	19	262	44	8	2	44	1.48
515669--515700	14	2.3	14	94	0	55	53	3	0	43	1.16
524900--524968	26	2.6	26	88	2	102	14	15	27	42	1.86
527229--527284	3	18.3	3	82	10	69	64	0	3	32	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
527531--527595	20	3.2	20	70	8	67	35	21	20	23	1.96
527514--527595	42	2.0	42	95	0	146	32	23	20	23	1.98
527717--528079	39	9.3	39	92	0	546	35	18	17	28	1.94
528082--528395	76	4.1	76	83	7	408	41	14	14	29	1.85
529499--529525	13	2.1	13	100	0	54	40	22	7	29	1.81
532622--532699	42	1.9	40	84	5	102	25	37	8	28	1.86
534373--534410	19	2.0	19	94	0	67	60	13	10	15	1.59
535655--535719	3	21.3	3	84	9	87	64	0	1	33	1.03
546886--546911	9	2.9	9	100	0	52	46	0	0	53	1.00
548418--548478	23	2.5	25	78	13	72	9	0	27	62	1.27
548429--548478	23	2.1	23	88	3	73	8	0	30	62	1.24
548435--548484	24	2.0	25	84	3	66	12	0	26	62	1.30
548747--548781	12	2.8	13	86	8	54	45	8	5	40	1.58
551033--551060	3	9.3	3	100	0	56	67	0	32	0	0.91
551514--551634	9	13.0	9	70	13	68	77	0	19	2	0.93
551514--551602	8	11.4	8	74	15	55	79	1	15	3	0.92
551514--551608	40	2.4	38	78	16	104	78	1	16	3	0.93
551514--551596	17	5.1	16	73	17	73	79	1	15	3	0.93
551523--551634	23	5.4	21	72	20	76	77	0	19	1	0.91
551555--551629	22	3.6	22	73	20	72	77	1	21	0	0.85
552254--552317	28	2.3	28	83	0	83	39	35	4	20	1.73
553750--553852	42	2.5	40	83	10	127	23	23	21	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
554066--554143	41	1.9	41	83	0	102	26	25	20	26	1.99
554156--554363	58	3.7	55	74	14	178	32	11	19	37	1.87
555089--555413	117	2.8	117	91	1	517	36	15	24	24	1.94
555323--555965	139	4.6	139	86	2	805	35	16	21	26	1.95
561429--561545	7	16.6	7	76	21	95	84	0	13	0	0.71
561442--561561	19	6.0	20	76	19	108	83	0	15	0	0.74
561439--561538	23	3.8	26	80	16	93	85	1	14	0	0.66
561427--561549	30	4.1	30	82	10	144	83	0	14	0	0.73
561472--561547	1	76.0	1	78	0	80	89	1	9	0	0.54
561429--561570	48	3.0	47	81	11	139	82	0	15	1	0.78

Tables:   1   2   3   4   5