genome.fa.s7961.2.7.7.80.10.50.1000.3.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: VEPZ01007961.1 Hibiscus syriacus cultivar Beakdansim tig00110388_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2700559

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  3  of  12  ( 1371 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)
435976--437025	81	13.0	81	93	0	1699	35	10	20	32	1.88
437688--437853	81	2.0	82	85	1	226	31	21	11	35	1.89
442123--442212	41	2.2	41	100	0	180	25	16	22	35	1.95
445962--445994	2	16.5	2	100	0	66	51	0	0	48	1.00
446187--446211	2	12.5	2	100	0	50	52	0	0	48	1.00
446548--446653	6	18.2	6	67	16	62	46	2	0	50	1.22
446548--446589	17	2.5	17	75	17	52	47	0	0	52	1.00
449655--449763	23	4.7	23	70	12	71	45	21	11	22	1.82
449656--449745	46	2.0	46	88	0	135	47	20	10	22	1.79
456098--456131	4	8.5	4	100	0	68	50	23	0	26	1.50
460047--460176	40	3.2	40	73	8	120	37	10	19	33	1.85
461027--461236	96	2.2	97	83	5	257	37	23	3	34	1.73
463044--463095	26	2.0	25	88	3	77	65	3	1	28	1.21
463239--463336	43	2.3	43	98	0	187	56	17	6	20	1.62
463522--463566	21	2.1	21	84	8	56	42	4	4	48	1.43
465405--465605	103	2.0	101	89	2	303	33	15	16	34	1.91
469066--469126	26	2.5	25	82	15	74	29	0	1	68	0.99
470615--470653	16	2.4	17	87	12	55	12	12	0	74	1.08
472475--472509	17	1.9	19	88	11	56	80	2	17	0	0.84
472480--472538	23	2.5	23	78	8	66	79	5	15	0	0.89
474382--474424	21	2.0	22	90	4	70	32	20	6	39	1.80
474400--474482	36	2.3	36	93	0	139	31	21	12	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
475034--475085	20	2.5	20	82	14	70	32	0	0	67	0.91
475034--475086	21	2.5	22	85	11	76	32	0	0	67	0.91
475708--475737	13	2.3	13	94	0	51	30	0	0	70	0.88
478244--478292	22	2.2	22	88	0	71	53	2	12	32	1.50
481382--481432	14	3.7	14	73	5	50	21	17	29	31	1.96
483213--483240	6	4.7	6	100	0	56	35	0	28	35	1.58
486878--486959	31	2.6	32	84	1	103	50	10	18	20	1.77
487568--487617	21	2.4	21	90	6	75	22	8	30	40	1.82
488047--488104	26	2.3	26	88	5	84	5	24	0	70	1.07
490477--490536	26	2.3	26	100	0	120	55	0	13	31	1.39
490489--490551	26	2.4	26	86	0	72	60	1	11	26	1.40
507093--507133	2	20.5	2	100	0	82	51	0	0	48	1.00
507412--507575	27	6.1	27	93	0	265	35	25	11	27	1.90
507785--507838	19	2.8	19	88	2	72	11	31	27	29	1.91
509230--509271	19	2.2	19	100	0	84	40	4	16	38	1.70
509236--509278	19	2.3	19	91	0	68	51	6	11	30	1.65
511736--511789	23	2.3	23	96	0	99	46	16	3	33	1.65
514547--514645	50	2.0	50	100	0	198	34	10	16	39	1.82
516480--516527	15	3.4	14	83	11	62	58	2	0	39	1.10
519684--519718	16	2.2	16	100	0	70	31	0	37	31	1.58
523883--523930	25	1.9	25	100	0	96	20	18	22	37	1.94
525532--525621	46	2.0	46	90	0	144	21	28	21	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
527502--528156	288	2.3	286	84	3	839	45	5	16	33	1.70
529097--529163	30	2.2	31	86	2	91	37	25	17	19	1.94
529123--529249	32	4.0	32	80	9	136	32	23	18	25	1.97
529124--529248	64	2.0	63	82	7	155	32	23	18	26	1.97
530230--530269	21	1.9	21	94	0	71	30	20	17	32	1.95
532017--532062	23	2.0	23	100	0	92	43	21	17	17	1.88
537891--538028	73	1.9	72	84	4	179	28	22	20	28	1.98
537810--537966	65	2.4	64	79	12	178	32	23	18	25	1.97
538000--538048	19	2.6	19	84	9	57	24	28	20	26	1.99
541893--542000	4	27.8	4	77	12	64	49	16	2	31	1.60
541876--541937	19	3.3	19	75	8	72	50	12	3	33	1.57
541994--542059	29	2.2	30	94	2	116	48	12	4	34	1.61
542017--542123	43	2.4	43	87	6	144	50	13	1	34	1.52
542205--542251	20	2.3	20	82	7	60	46	17	8	27	1.76
542349--542436	12	7.3	12	92	0	77	48	6	1	43	1.37
542378--542439	2	31.0	2	100	0	124	50	0	0	50	1.00
542899--542969	31	2.3	31	82	4	90	43	9	5	40	1.61
544071--544155	2	43.0	2	95	2	154	48	0	0	51	1.00
544231--544263	16	2.1	16	94	0	57	33	12	27	27	1.92
556416--556447	15	2.1	15	94	0	55	43	0	0	56	0.99
556451--556516	29	2.3	27	77	10	69	57	0	3	39	1.14
556511--556535	12	2.1	12	100	0	50	44	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558205--558262	19	2.9	21	82	7	66	41	18	18	20	1.91
558273--558322	20	2.5	20	83	6	66	44	26	18	12	1.84
558331--558421	21	4.4	20	77	4	101	37	26	17	18	1.93
558308--558423	20	5.7	20	75	10	110	35	26	17	20	1.95
558289--558421	41	3.3	41	79	6	146	38	26	15	19	1.92
560600--560726	64	2.0	64	90	1	202	22	10	16	51	1.74
560778--560935	19	8.7	19	72	16	129	46	22	19	11	1.82
560836--560892	14	3.7	14	77	20	60	45	21	22	10	1.82
560818--560911	33	2.8	33	95	0	170	45	21	22	10	1.82
560883--560945	19	3.3	19	88	4	92	44	26	17	11	1.82
560945--561038	33	2.8	33	86	0	125	10	19	22	47	1.79
560994--561020	14	1.9	14	100	0	54	7	25	22	44	1.79
561011--561062	21	2.6	20	81	6	70	17	19	17	46	1.85
561455--561577	42	2.9	42	80	4	115	24	36	16	22	1.94
563012--563047	14	2.6	14	95	0	63	33	0	22	44	1.53
563187--563461	33	8.1	33	87	6	379	14	22	18	44	1.85
563216--563336	14	7.6	14	68	24	71	11	24	18	45	1.82
563294--563427	19	7.5	19	69	18	90	15	22	19	42	1.89
563382--563413	14	2.3	14	100	0	64	15	21	18	43	1.87
565934--565987	24	2.2	24	93	0	90	40	20	18	20	1.91
565934--566001	24	2.8	24	84	0	64	38	20	17	23	1.93
566113--566146	12	2.8	12	90	0	50	14	0	29	55	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
566807--567080	20	13.4	20	80	6	282	18	18	24	38	1.93
566806--567080	41	6.8	41	85	7	341	18	18	24	38	1.93
567090--567141	20	2.6	20	78	6	61	13	15	25	46	1.82
570882--571016	20	6.7	20	79	7	112	33	23	17	25	1.96
570879--571010	61	2.2	61	85	0	174	35	23	16	24	1.95
571184--571227	22	2.0	22	86	0	61	20	40	15	22	1.90
571471--571534	20	3.2	20	86	0	83	15	18	21	43	1.87
571671--571725	25	2.2	24	78	15	58	20	9	18	52	1.71
572854--572898	18	2.5	18	88	0	72	26	44	15	13	1.83
573380--573425	20	2.3	20	84	0	56	36	23	21	17	1.94
573391--573435	20	2.3	19	81	11	56	37	17	24	20	1.93
573435--573492	14	3.9	14	77	16	62	48	22	18	10	1.78
573419--573509	32	2.8	33	93	3	157	47	20	19	12	1.81
573551--573606	20	2.8	20	89	2	78	16	21	23	39	1.92
573971--574058	41	2.1	41	85	2	122	21	43	14	20	1.88
575477--575526	14	3.6	14	94	0	82	34	0	22	44	1.53
575663--575711	19	2.6	19	96	0	89	51	16	18	14	1.77
575663--575718	19	2.9	19	86	5	78	51	16	19	12	1.75
575768--575826	20	2.9	21	72	10	68	15	18	20	45	1.85
576038--576129	20	4.6	20	73	2	76	20	18	21	39	1.93
577157--577181	12	2.1	12	100	0	50	72	0	28	0	0.86
578597--578639	21	2.0	22	86	9	61	30	25	20	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578679--578721	21	2.0	21	100	0	86	13	27	44	13	1.83
578755--578833	21	4.0	21	78	18	98	12	27	36	22	1.91
578756--578827	36	2.0	36	94	0	126	13	27	34	23	1.93
578777--578806	15	2.0	15	100	0	60	13	26	33	26	1.93
578923--578982	29	2.0	31	93	6	106	43	16	6	33	1.74
580775--580818	3	15.0	3	88	4	63	0	29	2	68	1.02
581806--581875	34	2.1	32	89	5	104	21	31	15	31	1.95
582090--582129	21	1.9	21	85	10	55	15	10	37	37	1.80
582159--582199	21	2.0	21	95	0	73	26	29	19	24	1.98
582409--582468	29	2.0	30	84	12	79	43	11	6	38	1.68

Tables:   1   2   3   4   5   6   7   8   9   10   11   12