genome.fa.s8817.2.7.7.80.10.50.1000.2.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: VEPZ01008817.1 Hibiscus syriacus cultivar Beakdansim tig00111983_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1047399

Tables:   1   2   3   4   

This is table  2  of  4  ( 420 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)
328255--328382	63	2.0	64	98	1	249	28	34	14	23	1.93
331935--332009	36	2.1	36	94	2	132	33	10	14	41	1.81
335827--335883	29	2.0	29	100	0	114	21	36	17	24	1.94
338493--338535	17	2.5	17	84	0	50	32	4	4	58	1.39
343004--343059	2	28.0	2	100	0	112	50	0	0	50	1.00
350311--350373	20	2.8	24	81	16	80	30	20	30	19	1.97
354337--354443	52	2.0	54	96	3	200	36	14	20	28	1.92
355505--355529	12	2.1	12	100	0	50	48	0	0	52	1.00
357651--357721	34	2.1	34	100	0	142	22	23	8	45	1.80
371601--371640	20	2.0	20	85	0	53	52	15	15	17	1.75
375501--375557	29	2.0	29	92	0	96	15	33	29	21	1.94
375686--375793	10	10.1	10	70	9	63	10	31	33	25	1.89
375671--375733	33	1.9	33	90	0	99	9	38	28	23	1.86
375734--375791	20	2.9	20	89	0	89	12	25	36	25	1.91
380548--380603	24	2.3	24	90	0	85	14	8	21	55	1.66
380825--380914	33	2.7	33	92	0	153	28	26	20	24	1.99
382135--382209	10	7.7	10	68	21	52	9	10	21	58	1.59
382141--382205	16	4.1	16	91	0	112	7	10	23	58	1.57
382275--382306	16	2.0	16	100	0	64	6	12	25	56	1.59
396044--396079	18	2.0	18	94	0	63	8	47	16	27	1.75
399449--399487	12	3.2	12	81	0	51	15	56	2	25	1.52
402192--402229	19	2.0	19	89	0	58	7	13	73	5	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
402407--402555	24	6.2	24	63	12	63	26	57	8	8	1.57
402413--402456	18	2.4	18	80	0	52	22	63	4	9	1.42
402417--402594	30	5.9	30	71	5	126	24	57	8	9	1.58
402509--402577	24	2.9	24	77	0	75	21	60	7	10	1.52
402566--402608	18	2.4	18	88	0	59	25	60	9	4	1.47
402375--402589	60	3.6	60	73	7	211	24	55	8	11	1.63
402407--402659	120	2.1	120	82	2	303	25	57	7	9	1.57
402672--402709	12	3.4	12	82	17	55	34	57	7	0	1.28
402675--402699	9	2.8	9	100	0	50	32	60	8	0	1.26
402672--402711	21	1.9	21	94	0	71	35	57	7	0	1.27
402694--402750	30	1.9	30	85	7	80	28	56	7	8	1.56
402693--402912	36	6.2	36	67	12	132	27	55	5	11	1.56
402725--402850	12	10.8	12	68	13	57	28	57	4	8	1.49
402724--402851	18	7.3	18	63	18	54	28	57	4	8	1.49
402779--402837	30	2.0	30	89	0	91	28	59	3	8	1.43
402764--402892	66	2.0	66	88	0	195	28	55	4	11	1.56
402871--402930	30	1.9	32	83	16	81	20	58	5	16	1.56
402908--402977	15	4.5	15	73	16	61	18	61	7	12	1.54
402905--403012	48	2.2	48	81	0	135	23	59	6	11	1.54
403129--403296	42	3.9	42	76	3	140	28	55	4	10	1.54
403205--403302	24	4.2	24	76	10	105	29	57	2	11	1.45
403259--403311	15	3.9	15	70	27	55	26	60	1	11	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
412411--412652	125	1.9	125	90	5	382	42	6	14	36	1.71
418225--418274	21	2.4	21	93	0	82	30	32	26	12	1.92
428783--428871	21	4.3	21	81	5	119	20	20	26	32	1.97
428823--428874	19	2.6	20	78	6	61	17	21	23	38	1.93
428882--429039	21	7.6	21	73	13	139	35	24	20	20	1.96
428872--429033	42	3.9	42	93	1	265	35	22	19	21	1.96
449411--449528	59	2.0	59	100	0	236	27	16	16	38	1.91
457541--457570	7	4.1	7	95	4	51	56	0	0	43	0.99
460412--460474	31	2.0	32	84	3	83	26	7	7	57	1.55
462755--462788	16	2.1	16	94	0	59	38	0	2	58	1.13
462911--463028	60	2.0	60	83	3	148	33	15	5	45	1.70
463189--463347	60	2.6	60	80	10	164	44	4	16	35	1.68
469013--469169	60	2.6	60	74	9	160	32	24	5	37	1.79
476649--476685	19	1.9	19	88	0	56	32	0	5	62	1.18
488534--488639	41	2.6	41	79	11	110	35	16	11	35	1.85
493583--493624	21	2.0	20	86	4	57	38	14	7	40	1.73
493626--493663	20	1.9	20	94	0	67	39	13	10	36	1.79
499300--499356	24	2.4	24	96	0	105	22	15	8	52	1.70
500754--503464	916	3.0	916	93	2	4604	33	20	15	31	1.93
503443--503476	15	2.3	15	89	0	50	35	32	17	14	1.91
503563--503672	29	3.7	29	89	4	159	18	18	17	46	1.85
503620--503668	14	3.4	14	72	5	53	20	18	18	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
504238--504294	21	2.7	21	100	0	114	31	21	19	28	1.97
504876--504909	17	2.1	17	88	5	52	11	35	0	52	1.38
505673--505723	20	2.5	20	69	12	50	35	7	25	31	1.85
507472--507544	2	36.5	2	100	0	146	49	0	0	50	1.00
525555--525581	14	1.9	14	100	0	54	70	0	7	22	1.12
526320--526351	15	2.1	15	100	0	64	18	43	18	18	1.88
528083--528134	21	2.6	19	78	6	59	21	19	23	36	1.95
528210--528242	6	5.5	6	100	0	66	33	51	15	0	1.43
528736--528775	5	7.3	6	91	8	52	0	17	50	32	1.47
528966--529031	19	3.3	19	68	12	60	39	19	19	21	1.93
528966--529055	41	2.2	41	91	0	153	37	20	20	22	1.94
528852--529058	96	2.2	96	80	4	240	38	22	17	21	1.93
528966--529074	41	2.6	41	85	4	139	39	21	19	20	1.93
529047--529139	20	4.6	20	78	2	105	40	25	19	13	1.89
529067--529160	41	2.3	41	94	0	161	37	26	18	18	1.93
529087--529181	21	4.6	21	82	2	129	31	27	17	23	1.97
529044--529182	62	2.3	61	88	1	197	37	25	17	19	1.93
529443--529499	21	2.7	21	97	0	105	26	15	28	29	1.96
530616--530668	22	2.4	22	100	0	106	54	3	3	37	1.36
532620--532695	23	3.3	23	76	10	91	11	10	18	59	1.60
534332--534367	12	3.0	12	100	0	72	50	0	8	41	1.33
543280--543344	26	2.5	26	78	14	64	46	0	3	50	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
543302--543379	12	6.3	13	69	20	60	43	0	1	55	1.08
543332--543391	26	2.4	26	86	8	81	43	0	0	56	0.99
543431--543481	23	2.3	22	83	12	68	50	1	1	45	1.24
543444--543513	22	3.1	23	82	10	74	50	1	1	47	1.19
543428--543545	54	2.2	55	82	13	138	52	2	0	44	1.20
543865--543919	2	27.5	2	100	0	110	49	0	0	50	1.00
553602--553658	24	2.4	24	100	0	114	54	17	24	3	1.59
553491--554162	153	4.3	154	86	3	897	45	23	18	12	1.83
555110--555164	18	3.4	18	72	27	68	38	0	3	58	1.16
555110--555167	15	3.6	17	75	20	70	37	0	3	58	1.15
555105--555167	30	2.1	30	100	0	126	36	0	3	60	1.13
572747--573195	5	89.0	5	85	12	566	40	1	0	57	1.10
574485--574518	2	17.0	2	100	0	68	50	0	0	50	1.00
575073--575113	9	4.6	9	84	0	55	78	0	4	17	0.93
575553--575604	2	27.5	2	84	11	74	51	0	1	46	1.12
575542--575604	23	2.8	24	80	7	62	53	0	3	42	1.16
576008--576108	34	2.8	36	86	11	154	28	13	14	42	1.85
576653--577716	105	10.3	105	89	5	1480	22	18	26	33	1.96
576653--577716	205	5.1	205	90	4	1531	22	18	26	33	1.96
578318--578474	67	2.4	64	85	7	199	36	9	21	32	1.86
578318--578500	65	2.8	64	82	8	199	38	9	21	31	1.85
578450--578727	36	8.0	35	77	11	241	39	14	19	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578431--578683	138	1.8	136	88	1	389	40	13	18	26	1.88
578588--578727	35	4.0	35	89	2	219	39	14	21	25	1.91
578587--578723	71	1.9	70	92	1	229	37	14	21	26	1.92
578450--578778	105	3.1	105	74	14	270	39	15	19	26	1.91
579196--579230	17	2.0	18	88	5	54	40	31	8	20	1.82
579593--579642	22	2.3	22	92	0	82	26	12	26	36	1.91
580261--580307	22	2.2	21	85	11	60	0	14	6	78	0.93
584427--584471	18	2.5	17	86	10	63	71	2	0	26	0.98
584425--584472	21	2.2	21	85	10	62	70	2	0	27	0.98
584849--584942	31	2.7	35	81	17	117	29	13	13	42	1.83

Tables:   1   2   3   4