genome.fa.s9595.2.7.7.80.10.50.1000.3.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: VEPZ01009595.1 Hibiscus syriacus cultivar Beakdansim tig00116974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1046665

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 570 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)
374011--374078	14	4.9	14	77	0	64	25	0	19	55	1.43
374010--374076	28	2.4	28	85	5	91	25	0	19	55	1.43
374125--374168	14	3.1	14	76	0	52	29	2	15	52	1.55
384408--384520	12	9.4	11	71	17	66	38	0	0	60	1.03
384422--384516	24	3.8	27	76	15	89	43	0	1	55	1.06
384417--384574	64	2.5	64	92	4	259	41	0	1	56	1.07
384469--384557	38	2.3	37	81	12	101	43	0	1	55	1.07
384569--384630	19	3.3	19	78	15	58	37	1	0	61	1.06
385091--385151	31	2.0	31	86	0	86	47	6	4	40	1.51
393068--393098	2	15.5	2	100	0	62	48	0	0	51	1.00
395962--396034	24	3.0	24	88	4	67	10	15	24	49	1.76
395972--396027	14	4.3	14	82	17	75	8	14	25	51	1.70
395973--396047	24	3.1	23	90	3	96	12	12	21	54	1.69
396765--396839	10	7.7	10	69	21	61	9	12	21	57	1.62
396771--396835	16	4.1	16	95	0	121	7	12	23	56	1.61
396905--396937	16	2.1	16	94	0	57	9	12	21	57	1.62
397286--397319	17	1.9	18	94	5	61	38	11	8	41	1.73
404690--404729	21	1.9	21	89	0	62	25	40	25	10	1.86
409063--409117	23	2.4	23	87	0	74	43	9	14	32	1.77
409760--409819	18	3.3	18	76	0	66	36	5	21	36	1.76
411706--411797	30	3.1	28	84	9	103	41	8	14	35	1.76
414276--414308	17	1.9	17	100	0	66	33	12	18	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
414581--414637	18	3.2	18	92	0	96	26	21	29	22	1.99
414981--415081	18	5.6	18	73	9	89	43	1	19	34	1.63
414982--415099	36	3.3	36	82	0	164	40	1	21	36	1.63
415000--415100	18	5.6	18	70	9	62	39	0	21	37	1.60
416121--416177	23	2.7	20	85	15	87	49	0	40	10	1.37
416121--416184	23	3.1	19	83	16	74	50	0	39	10	1.38
416131--416187	23	2.5	23	94	5	98	54	0	36	8	1.32
422473--422519	9	4.9	10	84	5	53	65	2	0	31	1.04
424773--424845	31	2.4	31	86	4	103	26	28	13	31	1.94
426205--426295	32	2.9	31	79	12	105	32	21	16	28	1.95
428067--428116	20	2.5	20	100	0	100	14	24	10	52	1.71
428822--429161	170	2.0	170	100	0	680	28	13	13	44	1.82
430049--430123	31	2.4	31	90	0	114	37	14	24	24	1.93
432723--432748	12	2.2	12	100	0	52	26	26	30	15	1.96
433848--434017	92	1.9	92	84	1	234	22	21	23	31	1.98
442164--442269	3	35.7	3	74	5	63	37	1	38	21	1.65
452415--452780	183	2.0	183	98	1	716	42	10	27	18	1.84
455685--455741	30	1.9	30	82	7	71	56	8	7	28	1.56
460634--460719	45	1.9	45	90	0	136	27	16	26	29	1.97
461444--461473	14	2.1	15	93	6	53	63	26	3	6	1.35
463339--463492	64	2.4	64	82	4	184	32	18	25	23	1.97
463480--463537	20	2.7	20	84	10	71	32	20	20	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
464521--464617	35	2.8	36	80	13	96	32	0	19	47	1.50
467789--467950	64	2.5	63	77	4	171	31	18	24	25	1.98
467938--467995	20	2.7	20	84	10	71	32	20	20	25	1.97
470454--470533	22	3.6	22	77	11	92	25	25	25	25	2.00
470458--470552	21	4.4	21	75	13	79	25	22	25	27	2.00
477167--477212	19	2.4	19	96	0	83	52	6	26	15	1.67
477353--477430	31	2.5	31	89	0	111	32	12	29	25	1.93
480106--480165	30	2.0	30	86	3	84	46	11	1	40	1.50
487620--487663	20	2.3	19	84	7	54	38	9	29	22	1.85
490688--490728	21	1.9	22	85	5	57	56	17	2	24	1.53
496819--496890	24	3.0	24	85	2	101	50	18	12	19	1.78
496823--496914	12	7.8	12	71	16	66	47	18	15	18	1.82
496821--496911	47	1.9	48	84	10	125	48	17	15	18	1.82
496828--496914	24	3.7	23	84	3	93	47	18	14	19	1.83
499358--499416	31	1.9	31	92	0	100	18	16	44	20	1.87
501345--501370	2	13.0	2	100	0	52	50	0	0	50	1.00
501552--501623	24	3.0	24	83	2	92	50	18	11	20	1.77
501556--501647	12	7.8	12	71	16	57	47	18	14	19	1.82
501554--501644	47	1.9	48	82	10	116	48	17	14	19	1.81
507354--507739	182	2.1	185	92	3	649	42	3	9	44	1.54
509108--509132	13	1.9	13	100	0	50	48	12	16	24	1.79
514413--514528	58	2.0	58	100	0	232	29	17	27	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516048--516116	29	2.4	29	80	9	79	42	13	13	31	1.82
518105--518159	2	27.5	2	100	0	110	49	0	0	50	1.00
526646--526876	118	2.0	118	100	0	462	21	34	16	27	1.95
530465--530537	20	3.7	20	73	12	69	31	26	16	26	1.96
530505--530552	20	2.4	20	92	0	78	41	25	16	16	1.89
530729--530764	16	2.4	14	86	13	54	27	2	0	69	1.02
531087--531259	86	2.0	86	100	0	346	35	9	20	34	1.85
531398--531431	12	2.8	12	90	0	50	55	29	0	14	1.40
531557--531610	24	2.2	24	90	0	81	22	18	20	38	1.93
532492--532625	70	2.0	67	95	4	241	23	8	13	55	1.65
534225--534267	20	2.2	20	91	0	68	46	20	18	13	1.83
534349--534397	25	2.0	25	95	0	89	26	8	20	44	1.79
534787--534823	18	2.1	18	89	0	56	32	5	10	51	1.60
534779--534831	24	2.2	24	86	0	70	35	3	13	47	1.61
535133--535219	39	2.2	39	97	0	165	47	20	14	17	1.83
539305--539347	20	2.2	20	83	4	52	16	18	23	41	1.89
539783--539821	20	2.0	20	94	0	69	17	23	25	33	1.96
539849--539902	20	2.7	20	75	11	65	29	14	27	27	1.95
540318--540362	24	1.9	23	82	13	56	40	2	0	57	1.11
541816--541850	3	11.7	3	93	0	61	65	2	0	31	1.07
543202--543387	39	5.1	36	73	16	118	45	6	4	43	1.49
543202--543387	37	5.1	35	74	18	148	45	6	4	43	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
543191--543378	38	5.1	36	74	14	127	46	5	4	43	1.47
543338--543422	26	3.3	24	72	20	66	47	5	3	43	1.44
543194--543401	73	2.8	73	72	14	185	46	6	3	43	1.47
543267--543521	123	2.1	120	92	5	424	44	6	5	43	1.51
543390--543610	35	6.1	35	75	13	139	45	7	4	42	1.52
543483--543607	37	3.4	36	84	10	141	49	8	2	40	1.45
544216--544978	84	9.2	84	80	4	820	24	20	25	29	1.99
544213--544978	169	4.6	165	89	2	955	24	20	25	29	1.99
550150--550184	3	11.7	3	93	0	61	65	2	0	31	1.07
551470--551518	27	1.9	25	84	12	64	53	6	2	38	1.38
551480--551871	38	10.1	37	71	18	194	45	6	4	43	1.49
551622--551702	23	3.2	24	72	10	65	46	6	3	43	1.46
551548--551797	124	2.0	126	96	2	468	44	6	5	44	1.52
551731--551898	37	4.5	36	78	12	153	48	7	2	41	1.46
554802--554830	10	2.9	10	100	0	58	62	10	0	27	1.28
554733--554855	39	3.1	39	82	13	162	60	8	5	25	1.49
554847--554914	27	2.5	27	92	0	118	51	11	11	25	1.72
555106--555164	31	2.0	28	83	9	73	23	20	25	30	1.98
556462--556503	6	7.2	6	94	5	77	14	0	69	16	1.20
563153--563185	15	2.2	15	100	0	66	27	27	6	39	1.80
563853--563916	30	2.1	30	82	5	76	34	26	18	20	1.96
564585--564727	64	2.2	64	85	4	182	25	20	19	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568733--568875	64	2.2	64	83	4	173	25	19	19	35	1.95
577077--577117	6	6.8	6	100	0	82	34	34	0	31	1.58
589656--589684	2	14.5	2	100	0	58	48	0	0	51	1.00
593266--593324	31	1.9	30	83	10	75	45	11	1	40	1.51
598722--598837	20	5.8	20	82	2	144	38	25	15	20	1.92
598681--598851	20	8.6	20	74	8	134	35	25	14	24	1.93
599729--599782	24	2.2	24	93	0	90	20	18	20	40	1.91
602041--602076	18	2.0	18	94	0	63	55	25	2	16	1.55
602362--602405	20	2.2	20	95	0	79	47	27	11	13	1.77
602547--602596	25	2.0	25	92	0	82	28	8	22	42	1.81

Tables:   1   2   3   4   5