genome.fa.s9149.2.7.7.80.10.50.1000.3.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: VEPZ01009149.1 Hibiscus syriacus cultivar Beakdansim tig00112673_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1143513

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 649 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)
401876--401959	14	5.3	14	68	25	51	10	26	19	44	1.83
401965--402047	20	4.2	20	72	15	64	22	20	22	33	1.97
404518--404571	24	2.2	24	93	0	90	40	20	18	20	1.91
404518--404585	24	2.8	24	84	0	64	38	20	17	23	1.93
405442--405577	21	6.6	21	85	3	161	36	17	22	23	1.95
405431--405581	81	1.9	80	88	4	232	35	17	21	25	1.95
405444--405560	60	1.9	61	89	1	182	36	17	22	23	1.95
405897--405930	15	2.4	14	90	5	50	26	2	0	70	1.01
407707--407751	22	2.0	22	86	0	63	22	17	13	46	1.83
408961--409000	16	2.5	16	87	0	53	40	7	20	32	1.80
420474--420521	21	2.2	23	85	7	64	27	2	0	70	0.98
420482--420529	19	2.5	20	79	3	62	29	0	0	70	0.87
420932--420986	24	2.3	25	82	14	64	50	5	0	43	1.25
420957--420989	13	2.5	13	86	13	50	51	0	0	48	1.00
425251--425294	23	1.9	23	81	9	54	11	13	0	75	1.06
432913--432991	23	3.7	21	76	14	81	21	18	35	24	1.96
433626--433695	25	3.0	24	75	8	72	54	2	1	41	1.24
433824--433863	21	1.9	21	94	0	71	47	37	0	15	1.45
433831--433928	21	4.7	21	80	2	108	39	35	5	19	1.74
433848--433916	7	9.9	7	79	0	66	36	37	7	18	1.79
433819--433928	14	7.9	14	83	0	94	39	39	4	17	1.70
435387--435474	23	3.9	23	91	4	135	30	21	23	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
435387--435473	11	7.6	11	72	10	68	31	21	24	22	1.99
438234--438275	22	1.9	22	85	0	57	23	7	0	69	1.13
441760--441802	11	4.0	11	84	3	52	44	41	0	13	1.44
442746--442817	29	2.5	29	88	0	90	20	9	8	61	1.53
442775--442821	15	3.2	15	72	6	51	19	8	10	61	1.53
442765--442821	29	2.0	29	96	0	105	19	7	10	63	1.49
442813--442908	30	3.2	29	77	10	95	18	16	10	54	1.70
442855--443014	30	5.4	29	73	4	122	19	10	13	56	1.65
444574--444620	17	2.8	17	93	0	76	21	12	36	29	1.91
444712--444835	63	2.0	63	83	0	158	25	20	12	41	1.88
446984--447031	22	2.2	21	92	3	78	79	4	16	0	0.89
446970--447006	14	2.6	14	100	0	74	72	5	21	0	1.04
448075--448162	33	2.7	32	83	1	104	28	13	22	35	1.92
448244--448316	37	1.9	38	83	8	96	28	20	12	38	1.89
448441--448552	46	2.5	44	84	5	136	21	32	20	25	1.98
448431--448772	128	2.7	128	88	1	488	24	30	19	25	1.98
449046--449082	19	1.9	19	89	10	58	32	0	2	64	1.07
449626--449703	3	26.3	3	93	2	131	33	0	1	65	1.01
450562--450626	29	2.2	29	88	0	94	23	12	6	58	1.56
450570--450635	29	2.3	29	91	0	105	21	7	9	62	1.50
450585--450777	29	6.6	30	73	12	102	19	11	10	59	1.60
451007--451071	29	2.2	29	88	0	94	21	13	6	58	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
451015--451080	29	2.3	29	91	0	105	19	9	9	62	1.52
451068--451222	30	5.3	29	72	9	107	18	11	10	60	1.59
456735--456778	19	2.3	19	80	0	52	27	6	6	59	1.49
460416--460489	37	2.0	37	97	0	139	16	33	21	28	1.95
467159--467187	5	5.8	5	100	0	58	62	0	0	37	0.96
468675--468726	24	2.2	24	82	6	61	40	1	1	55	1.22
480587--480699	60	1.9	60	85	3	156	30	16	13	38	1.87
481031--481083	26	2.1	26	86	10	74	37	0	3	58	1.16
487100--487132	15	2.3	15	89	5	50	66	6	21	6	1.35
494386--494448	21	3.3	21	62	25	57	44	25	9	20	1.82
494364--494474	36	3.1	36	93	3	181	46	20	8	24	1.77
495955--496005	20	2.5	21	83	6	68	37	1	9	50	1.47
497799--497827	2	14.5	2	100	0	58	48	0	0	51	1.00
498161--498186	2	13.0	2	100	0	52	50	0	0	50	1.00
512446--512511	29	2.3	29	80	14	84	27	16	4	51	1.64
513588--513682	3	31.7	3	86	0	64	52	0	12	34	1.39
513888--513942	20	2.7	21	77	5	58	40	16	23	20	1.91
513931--514065	20	6.7	20	79	7	112	33	24	17	25	1.96
513928--514065	61	2.3	61	84	0	186	34	23	16	24	1.95
514233--514276	22	2.0	22	90	0	70	22	43	15	18	1.88
514537--514595	20	3.0	20	87	0	73	16	18	22	42	1.89
514732--514786	25	2.2	24	78	15	58	20	9	18	52	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
515914--515958	18	2.5	18	88	0	72	26	44	15	13	1.83
516440--516495	20	2.8	20	81	2	60	37	21	23	17	1.94
516495--516552	14	3.9	14	77	16	62	48	22	17	12	1.80
516479--516569	32	2.8	33	91	3	148	47	19	18	14	1.83
516509--516574	19	3.8	19	71	22	72	46	21	19	12	1.82
516586--516643	14	3.9	14	77	16	62	12	17	22	48	1.80
516570--516659	33	2.8	32	91	3	135	13	17	22	46	1.83
516570--516659	32	2.8	33	89	6	139	13	17	22	46	1.83
516564--516659	19	5.7	18	71	21	73	14	18	21	44	1.86
516644--516687	20	2.2	20	84	4	54	20	25	18	36	1.95
518568--518603	14	2.6	14	90	0	54	30	0	22	47	1.52
518686--518724	20	2.0	20	94	0	69	46	30	10	12	1.75
518730--518794	19	3.7	19	84	15	95	46	18	21	13	1.84
518820--518909	20	4.6	20	84	1	119	14	22	27	35	1.93
519122--519172	20	2.5	20	100	0	102	19	31	19	29	1.97
520144--520168	12	2.1	12	100	0	50	72	0	28	0	0.86
522460--522590	19	7.7	19	66	23	94	42	19	22	14	1.88
522460--522586	33	3.8	33	88	4	202	42	19	22	14	1.88
522461--522593	66	2.0	66	97	0	248	41	19	22	16	1.90
522601--522657	14	3.7	14	75	20	60	8	24	22	43	1.81
522586--522675	33	2.7	33	94	0	153	13	22	21	43	1.87
522615--522675	19	3.5	19	72	21	69	11	22	21	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522782--522818	14	2.6	14	86	0	56	45	21	0	32	1.52
523850--524036	91	2.0	90	91	6	304	47	19	12	21	1.82
524180--524321	63	2.3	63	87	2	160	26	37	16	19	1.93
524203--524333	63	2.1	63	100	0	262	23	37	18	20	1.94
525786--525902	19	6.1	19	88	2	171	45	18	22	13	1.85
525898--525964	19	3.5	18	78	11	71	8	16	25	49	1.74
526479--526531	20	2.7	20	88	5	72	28	18	26	26	1.98
526540--526593	20	2.7	20	91	0	90	27	18	22	31	1.97
529402--529441	21	1.9	21	85	10	55	17	30	32	20	1.95
534672--534722	19	2.5	22	81	9	63	29	15	29	25	1.96
535281--535414	23	5.9	23	84	9	186	20	23	26	29	1.98
536511--536584	26	2.8	26	83	0	85	22	18	27	31	1.98
541620--541646	7	3.9	7	100	0	54	40	0	0	59	0.98
542783--542821	19	2.0	20	85	5	53	25	20	17	35	1.95
543454--543508	20	2.8	20	88	0	83	20	30	25	23	1.98
549211--549290	20	3.8	21	76	12	74	26	33	25	15	1.95
549252--549290	21	1.9	21	89	5	62	28	35	25	10	1.89
550922--550950	12	2.4	12	100	0	58	27	31	41	0	1.56
551540--551586	16	2.9	16	69	12	51	38	0	29	31	1.58
556438--556478	21	1.9	21	85	5	55	43	7	7	41	1.60
557673--557722	21	2.4	21	89	0	73	22	16	30	32	1.95
557686--557796	23	5.1	21	73	20	70	23	20	27	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
557716--557802	23	3.9	23	73	13	83	24	20	25	29	1.99
558185--558217	17	1.9	17	93	0	57	30	9	6	54	1.56
559595--559869	135	2.0	137	88	6	407	34	10	11	44	1.74
559708--559769	29	2.1	29	87	0	88	33	8	11	46	1.69
559600--559918	136	2.3	133	82	8	324	33	10	11	43	1.76
559947--560010	29	2.2	29	94	0	110	34	6	10	48	1.64
559844--560153	125	2.4	129	89	3	475	35	9	11	43	1.74
560074--560148	29	2.6	29	89	2	105	34	9	12	44	1.74
560253--560404	69	2.2	69	90	5	238	42	15	6	35	1.73
560510--560552	16	2.7	16	88	0	59	51	0	2	46	1.13

Tables:   1   2   3   4   5   6