genome.fa.s8123.2.7.7.80.10.50.1000.3.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: VEPZ01008123.1 Hibiscus syriacus cultivar Beakdansim tig00110677_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  770294

Tables:   1   2   3   4   

This is table  3  of  4  ( 471 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)
422786--422890	34	3.1	33	86	8	156	32	20	22	23	1.98
422786--422890	35	3.1	34	86	8	151	32	20	22	23	1.98
426530--426596	31	2.2	30	84	7	82	40	7	20	31	1.80
430960--431005	19	2.4	19	100	0	92	21	17	15	45	1.85
431829--431886	20	3.3	20	65	34	60	39	3	10	46	1.55
431849--431912	2	31.0	2	84	9	76	45	1	4	48	1.32
431828--431898	32	2.2	32	100	0	142	40	2	8	47	1.48
432148--432243	34	2.8	34	87	4	140	32	21	20	25	1.98
436355--436535	91	2.0	91	98	0	353	37	14	12	35	1.85
436802--436835	17	1.9	18	88	5	52	14	17	0	67	1.23
436802--436835	9	3.9	9	88	7	52	14	17	0	67	1.23
440289--440338	20	2.5	20	84	15	59	18	8	0	74	1.06
443032--443074	14	3.0	14	80	16	52	13	2	4	79	1.00
443036--443079	23	1.9	23	81	9	54	18	2	2	77	0.98
445895--445944	20	2.5	20	84	15	59	18	8	0	74	1.06
448768--448813	19	2.3	20	81	7	58	28	30	15	26	1.96
448847--448899	21	2.6	21	87	3	72	39	16	22	20	1.92
448909--448981	21	3.5	21	75	3	67	24	20	17	36	1.94
448971--449082	20	5.6	20	84	4	136	37	20	20	21	1.94
448847--449090	41	6.0	41	71	11	153	34	19	18	27	1.95
450134--450224	42	2.2	42	85	0	128	20	14	41	23	1.89
450162--450222	21	2.9	21	71	9	61	21	11	42	24	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
450566--450646	20	4.1	20	85	0	81	34	25	17	22	1.95
450592--450664	20	3.7	20	84	0	92	35	24	21	17	1.95
450704--450839	19	7.6	19	69	17	76	13	20	22	43	1.87
450726--450784	14	3.9	14	74	20	55	11	16	22	49	1.78
450709--450800	33	2.8	33	96	0	166	13	18	20	47	1.81
450785--450839	20	2.8	19	83	8	65	16	23	23	36	1.94
451380--451426	17	2.7	18	90	3	78	14	12	44	27	1.82
452746--452804	20	3.0	20	87	0	73	44	22	18	15	1.87
453053--453096	22	2.0	22	90	0	70	18	13	45	22	1.84
453283--453355	20	3.7	20	83	0	101	26	16	27	30	1.97
455001--455121	38	3.3	38	72	11	135	21	14	22	41	1.90
459797--459880	23	3.7	23	95	0	150	29	27	26	16	1.97
463025--463250	112	2.0	112	93	0	389	31	26	14	27	1.94
469752--470032	143	2.0	141	92	4	467	40	6	17	35	1.76
477102--477158	20	2.8	20	83	2	69	22	31	19	26	1.98
478516--478563	20	2.5	19	80	6	60	50	6	10	33	1.62
479494--479692	20	10.0	19	72	11	141	41	22	15	20	1.89
479473--479692	40	5.5	41	79	10	192	41	22	15	20	1.90
479473--479692	60	3.7	59	84	7	234	41	22	15	20	1.90
481924--481973	21	2.4	21	82	0	64	16	16	32	36	1.90
482196--482241	4	11.5	4	80	0	56	26	2	4	67	1.21
483903--483939	14	2.6	14	91	0	65	29	0	18	51	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
484156--484201	20	2.3	20	84	0	56	19	19	19	41	1.91
484167--484205	20	2.0	20	94	0	69	17	15	25	41	1.89
484491--484526	18	2.0	18	94	0	63	16	2	25	55	1.55
486571--486637	28	2.4	28	97	2	127	17	38	0	43	1.50
487956--488362	204	2.0	202	99	0	796	33	10	25	29	1.90
489058--489097	21	1.9	21	84	0	53	10	27	37	25	1.88
489080--489139	23	2.8	21	85	12	77	21	25	33	20	1.97
489080--489141	21	2.9	21	88	9	81	20	25	32	20	1.98
496386--496439	24	2.2	24	93	0	90	40	20	18	20	1.91
497151--497184	14	2.4	14	95	0	59	70	0	2	26	1.01
497322--497528	20	10.5	20	84	8	155	23	14	23	38	1.92
497343--497433	19	4.7	19	95	2	155	28	12	23	36	1.90
498367--498415	21	2.3	21	92	0	89	26	30	24	18	1.98
499823--499881	23	2.6	23	88	0	91	28	28	25	16	1.97
500104--500163	31	2.0	30	83	9	77	36	23	3	36	1.71
500206--500267	25	2.4	25	81	7	72	41	8	12	37	1.73
506572--506610	18	2.0	20	85	9	55	56	5	17	20	1.60
506770--506831	23	2.7	23	87	0	97	25	25	27	20	1.99
507450--507605	64	2.4	64	80	4	163	25	19	21	33	1.97
509652--509684	17	1.9	17	93	0	57	42	9	12	36	1.74
513021--513075	22	2.6	21	83	11	69	45	0	1	52	1.11
513018--513075	20	2.8	21	80	14	66	46	0	1	51	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
514076--514230	57	2.7	56	80	11	161	47	7	16	29	1.73
514065--514230	59	2.8	59	79	9	187	47	7	15	30	1.72
514355--514503	57	2.6	57	84	5	194	38	13	12	35	1.83
515664--515802	70	2.0	71	92	2	237	37	6	7	48	1.56
521481--521518	20	2.0	20	89	5	60	36	2	34	26	1.71
522028--522079	2	26.0	2	92	0	86	48	1	1	48	1.24
529423--529448	8	3.2	8	100	0	52	0	61	11	26	1.30
531447--531490	22	2.0	23	87	12	67	38	4	4	52	1.42
531652--531721	31	2.3	31	87	0	95	30	21	11	37	1.89
535724--535784	16	3.8	16	88	0	95	55	22	11	9	1.64
536709--536768	14	4.3	14	89	0	93	48	25	16	10	1.77
536709--536768	28	2.1	28	96	0	111	48	25	16	10	1.77
536800--536909	40	2.8	40	90	1	168	36	14	9	40	1.78
543753--543807	21	2.6	21	82	2	65	29	9	50	10	1.68
550894--550923	2	15.5	2	93	6	53	46	0	0	53	1.00
563338--563362	13	1.9	13	100	0	50	92	8	0	0	0.40
563561--564231	105	6.4	105	95	0	1126	32	25	19	22	1.97
577183--577249	26	2.6	26	100	0	134	11	25	23	38	1.89
577235--577296	20	3.0	20	69	6	54	20	17	22	38	1.93
577982--578059	6	13.5	6	98	1	135	0	16	52	30	1.44
578158--578229	22	3.4	22	69	11	78	40	25	16	18	1.91
578136--578228	41	2.3	41	94	0	159	41	23	15	19	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
581862--581921	31	2.0	30	83	3	75	28	11	5	55	1.57
582875--582912	2	19.0	2	100	0	76	50	0	0	50	1.00
583371--583437	20	3.4	18	73	20	55	64	1	13	20	1.36
589719--589940	122	1.8	122	99	0	435	36	14	11	36	1.83
589939--589964	6	4.3	6	100	0	52	19	0	30	50	1.48
593597--593656	23	2.6	23	97	0	111	36	25	11	26	1.90
593903--593946	21	2.1	21	91	0	70	29	0	15	54	1.42
593916--593981	28	2.4	28	82	10	98	31	0	12	56	1.36
594442--594500	16	3.4	16	72	20	55	38	0	11	49	1.40
594462--594504	22	2.0	22	81	4	52	39	0	9	51	1.34
594735--594794	26	2.3	25	80	11	68	46	8	1	43	1.43
597786--597849	23	2.8	23	87	0	92	29	26	25	18	1.98
597865--598180	103	3.1	103	96	0	569	36	23	13	27	1.92
599868--599912	21	2.1	21	87	0	63	13	22	31	33	1.92
601188--601234	22	2.1	22	100	0	94	31	8	10	48	1.68
601389--601599	49	4.3	48	93	3	341	42	0	10	46	1.39
601816--601979	8	21.2	8	70	22	79	35	1	10	52	1.44
601807--601989	35	5.5	35	82	12	233	35	1	10	51	1.47
601860--601935	25	2.8	26	88	11	109	39	0	6	53	1.27
601800--602113	95	3.3	94	84	7	366	39	1	9	48	1.47
601929--601992	19	3.5	19	76	20	82	29	3	17	50	1.61
601983--602248	26	10.6	25	78	10	233	44	3	8	44	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
601972--602248	37	7.4	36	74	16	151	43	3	8	44	1.51
601842--602145	98	3.1	98	87	4	359	39	2	9	48	1.49
602352--602396	24	1.9	24	86	4	65	40	0	6	53	1.27
602363--602404	17	2.5	17	80	0	57	40	0	2	57	1.12
602376--602419	21	2.0	22	82	4	54	38	2	4	54	1.33
605162--605208	14	3.5	13	77	11	51	2	40	0	57	1.11
605414--605509	27	3.6	27	97	0	174	25	19	51	4	1.65
606796--606858	27	2.4	27	91	2	101	38	4	31	25	1.77
610949--610982	17	2.0	17	88	0	50	70	0	0	29	0.87
611411--611577	80	2.1	82	94	2	293	32	10	4	52	1.56

Tables:   1   2   3   4