genome.fa.s8359.2.7.7.80.10.50.1000.3.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: VEPZ01008359.1 Hibiscus syriacus cultivar Beakdansim tig00111098_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1252926

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 669 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)
485778--485840	23	2.7	23	92	0	99	38	20	4	36	1.74
484876--486514	491	3.3	489	97	0	3046	40	10	7	41	1.69
486259--486331	23	3.2	23	84	0	92	42	19	5	32	1.74
487365--488315	183	5.2	183	97	0	1812	33	16	15	34	1.90
489510--489587	9	8.7	9	78	0	75	24	32	6	37	1.81
489510--489587	6	13.0	6	81	0	75	24	32	6	37	1.81
489514--489591	24	3.1	24	77	10	84	23	32	7	37	1.83
489545--489599	12	4.6	12	90	0	83	18	34	10	36	1.86
489523--489599	36	2.1	36	92	0	127	20	33	9	36	1.85
491112--492240	200	5.7	200	96	0	2097	30	17	14	37	1.90
492347--492407	19	3.3	18	88	2	59	52	11	1	34	1.47
492359--492407	19	2.6	19	96	0	89	55	10	2	32	1.45
494130--494228	33	3.0	33	89	2	137	24	46	0	29	1.53
494262--494326	21	3.1	21	93	0	103	16	30	10	41	1.83
496333--496385	24	2.2	24	83	6	63	26	7	13	52	1.66
496628--496665	20	1.9	20	84	10	51	39	0	10	50	1.37
497766--497802	19	1.9	19	94	0	65	18	16	21	43	1.88
502584--502633	23	2.2	23	88	0	73	38	6	22	34	1.78
502547--502709	87	1.9	87	97	0	308	39	12	15	31	1.85
503092--503768	182	3.7	182	90	2	1031	27	16	13	43	1.85
507235--507276	21	2.0	22	85	4	59	40	14	19	26	1.89
507265--507807	199	2.7	197	82	5	644	33	13	16	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
507480--508642	194	5.9	193	81	7	1081	29	14	15	39	1.88
507667--508642	393	2.5	393	84	5	1206	28	15	15	41	1.87
508827--508873	24	2.0	24	91	0	76	48	14	2	34	1.56
511300--511343	15	2.9	15	86	0	70	25	4	50	20	1.67
511689--513181	199	7.5	199	89	1	2160	27	14	15	41	1.87
511693--513181	397	3.8	398	89	2	2163	27	14	15	42	1.86
511689--513181	596	2.5	596	91	2	2342	27	14	15	41	1.87
513531--513668	74	1.9	73	94	5	244	42	21	1	34	1.62
515107--515145	18	2.2	18	90	0	60	7	38	0	53	1.30
515753--515808	24	2.5	21	76	20	60	48	8	1	41	1.45
517540--518360	162	5.1	162	84	7	1002	27	16	12	44	1.83
517593--518929	365	3.9	323	86	8	1396	27	15	13	43	1.84
518171--518221	20	2.6	19	75	9	57	15	13	13	56	1.67
518013--518966	182	5.3	181	86	6	1303	27	14	13	44	1.83
518013--518966	365	2.6	361	89	4	1439	27	14	13	44	1.83
529180--529241	20	3.0	21	75	15	65	41	12	1	43	1.53
544991--545030	20	2.1	19	86	9	55	52	10	20	17	1.72
547361--547385	12	2.1	12	100	0	50	40	8	8	44	1.63
550715--550774	29	2.1	29	87	0	84	18	21	38	21	1.94
550765--550850	42	2.0	42	93	0	145	16	12	44	26	1.84
553829--553858	12	2.4	13	94	5	53	73	0	6	20	1.05
553875--553905	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
553956--553984	2	14.5	2	100	0	58	51	0	0	48	1.00
555392--555508	59	2.0	59	83	3	146	43	1	0	53	1.16
555629--555676	12	4.1	11	79	12	51	56	2	0	41	1.11
555631--555727	37	2.5	36	83	9	104	49	1	2	47	1.20
564851--564902	25	2.1	25	85	0	68	42	7	15	34	1.75
566579--566664	35	2.5	35	82	0	91	41	19	1	37	1.59
566633--566675	21	2.0	21	100	0	86	46	13	0	39	1.44
566799--566832	16	2.0	18	88	11	54	26	2	5	64	1.30
567291--567539	130	1.9	131	91	0	410	37	12	14	35	1.84
591125--591178	3	18.0	3	96	0	99	35	0	0	64	0.94
595483--595730	128	2.0	126	93	1	424	41	16	17	24	1.90
603515--603550	14	2.6	14	81	0	54	30	5	11	52	1.59
603782--603826	24	1.9	23	86	4	63	55	2	0	42	1.12
603815--603865	19	2.7	20	78	6	61	45	1	0	52	1.12
613488--613583	40	2.3	42	78	8	108	34	21	15	28	1.94
613792--613829	16	2.5	15	84	12	51	28	5	0	65	1.14
614566--614613	24	2.0	24	91	0	78	25	18	18	37	1.94
614572--614625	24	2.2	24	93	0	90	20	18	20	40	1.91
616935--616970	12	3.0	12	87	0	54	47	27	5	19	1.72
617929--618006	20	3.9	20	83	5	86	34	23	12	29	1.92
618006--618103	20	5.2	20	65	18	66	21	11	20	46	1.81
621311--621397	21	4.1	21	82	7	97	22	11	41	24	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
621768--621946	21	8.5	21	73	8	150	33	31	12	22	1.91
621768--621946	42	4.3	42	85	2	236	33	31	12	22	1.91
622058--622265	42	5.0	42	87	4	280	24	13	37	25	1.91
622462--622638	93	1.9	92	92	1	300	33	25	9	32	1.87
624652--624739	20	4.4	20	72	5	70	36	13	22	27	1.92
624650--624781	40	3.3	40	80	4	106	37	12	21	28	1.91
624679--624757	20	4.0	19	74	8	68	35	13	21	29	1.92
624791--624883	40	2.4	36	76	16	96	23	15	24	36	1.93
626104--626145	3	14.0	3	100	0	84	33	0	0	66	0.92
631736--631809	20	3.7	20	89	3	103	40	20	22	16	1.91
631753--631828	21	3.7	21	91	1	109	40	19	25	14	1.89
632408--632474	19	3.5	19	85	2	89	47	25	16	10	1.78
632470--632635	20	9.1	19	74	16	136	12	22	22	43	1.86
632475--632551	39	2.0	39	87	5	111	9	19	25	45	1.80
632523--632610	33	2.6	33	92	1	140	11	25	25	38	1.89
634641--634763	42	2.9	42	80	2	122	22	36	17	22	1.95
634697--634763	21	3.2	21	66	6	55	23	35	20	19	1.95
636121--636156	14	2.6	14	95	0	63	30	0	25	44	1.54
636295--636334	20	2.0	20	95	0	71	52	20	15	12	1.74
636335--636485	19	8.7	19	64	21	80	15	22	20	41	1.89
636339--636465	33	3.9	32	87	8	193	14	22	19	42	1.88
636332--636464	66	2.0	66	97	0	248	16	22	19	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
637546--637570	12	2.1	12	100	0	50	0	28	0	72	0.86
638855--638915	20	3.0	20	87	0	77	39	18	21	21	1.93
638938--639011	19	4.5	16	83	16	66	13	20	18	47	1.82
638934--639001	19	3.8	19	87	12	101	13	22	17	47	1.82
641022--641096	19	3.9	19	85	3	105	38	22	24	14	1.92
641022--641095	39	1.9	38	88	2	112	37	22	24	14	1.92
641003--641098	19	4.9	19	83	3	102	41	22	20	14	1.89
641072--641113	18	2.2	19	83	8	50	54	16	16	11	1.70
641154--641211	14	3.9	14	81	16	71	10	17	22	50	1.76
641137--641224	32	2.7	33	92	3	151	11	19	20	48	1.79
641212--641266	20	2.8	19	81	8	56	18	23	21	36	1.95
641748--641792	18	2.5	18	88	0	72	13	15	44	26	1.83
643112--643149	20	1.9	20	88	0	58	50	21	15	13	1.78
643399--643442	22	2.0	22	95	0	79	18	15	45	20	1.85
643630--643723	20	4.7	20	77	7	82	25	15	25	32	1.96
643610--643724	20	5.7	19	73	12	79	25	15	24	34	1.95
643713--643805	20	4.5	21	78	4	100	17	24	18	39	1.91
643656--643786	41	3.2	41	83	4	140	20	19	21	38	1.94
643713--643805	41	2.3	41	100	0	186	17	24	18	39	1.91
644499--644545	20	2.4	19	82	10	67	53	10	17	19	1.72
644286--644758	180	2.6	182	89	2	693	43	14	16	26	1.86
646566--646732	87	1.9	86	93	1	289	34	14	9	41	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
646650--646694	23	2.0	23	86	0	63	37	15	8	37	1.79
647007--647441	220	2.0	220	91	3	705	30	12	5	51	1.62
649146--649231	31	2.8	31	84	7	111	33	29	17	19	1.95
650413--650479	28	2.4	28	100	0	134	35	7	14	41	1.75
652992--653106	21	5.5	21	91	4	153	20	26	33	18	1.96
652998--653130	42	3.2	42	81	8	128	21	23	35	19	1.96
653110--653157	21	2.3	21	85	0	60	22	12	39	25	1.89
655420--655456	15	2.6	14	87	8	56	67	0	0	32	0.91
657285--657314	15	1.9	16	93	6	53	23	3	0	73	0.98
657388--657595	38	5.6	36	82	10	215	47	4	5	43	1.45

Tables:   1   2   3   4   5   6