genome.fa.s8166.2.7.7.80.10.50.1000.3.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: VEPZ01008166.1 Hibiscus syriacus cultivar Beakdansim tig00110747_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2544747

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

This is table  3  of  10  ( 1195 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)
443768--443998	45	5.1	45	84	2	311	40	19	17	21	1.91
446201--446246	20	2.3	20	85	7	58	54	2	6	36	1.39
450023--450084	23	2.9	21	85	7	81	20	35	25	17	1.95
452043--452079	19	1.9	19	88	0	56	24	2	21	51	1.61
452175--452213	18	2.2	18	95	4	71	30	12	15	41	1.85
454092--454145	23	2.3	24	80	3	65	48	0	18	33	1.49
455895--455925	12	2.6	12	94	0	53	35	25	16	22	1.94
456283--456395	45	2.5	44	84	9	149	30	22	9	38	1.86
457427--457493	29	2.3	30	79	10	75	34	20	5	38	1.77
460901--460935	13	2.7	13	90	0	52	45	0	11	42	1.40
461277--461756	240	2.0	240	99	0	951	34	18	21	25	1.96
463369--463425	22	2.7	21	78	5	62	15	24	33	26	1.95
468935--468977	21	2.0	22	86	8	63	11	23	44	20	1.84
469851--470266	45	9.2	45	88	0	598	44	11	19	24	1.84
469967--470036	21	3.2	21	68	18	61	45	10	20	24	1.81
474518--474548	14	2.1	15	94	5	55	45	0	9	45	1.36
475886--475953	25	3.2	19	69	25	55	42	14	22	20	1.88
475784--476240	45	10.2	45	91	0	736	43	12	21	22	1.85
480096--480140	14	3.4	14	82	14	51	57	0	0	42	0.98
480351--480375	2	12.5	2	100	0	50	48	0	0	52	1.00
481357--481390	3	11.7	3	87	6	52	38	0	0	61	0.96
482801--482833	5	6.6	5	89	10	50	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
483270--483311	21	2.0	20	82	13	50	28	11	0	59	1.33
483813--483871	28	2.2	26	84	6	73	44	3	1	50	1.28
483875--483943	23	3.0	24	80	12	67	50	1	1	46	1.19
483904--483962	22	2.8	21	87	7	75	49	0	1	49	1.11
483909--483962	10	4.8	12	72	23	55	46	0	1	51	1.11
483898--483962	21	3.0	21	84	6	78	47	0	3	49	1.17
484113--484138	7	3.7	7	100	0	52	30	0	69	0	0.89
484690--484730	20	2.0	20	85	0	55	65	2	4	26	1.25
484690--484740	20	2.6	19	81	9	50	68	1	3	25	1.17
488800--488837	20	2.0	20	89	5	60	34	2	23	39	1.69
492693--492730	20	2.0	20	89	5	60	31	0	28	39	1.57
493531--493583	26	2.0	26	96	0	97	20	15	28	35	1.93
499641--499711	34	2.1	34	84	2	90	23	29	14	32	1.94
500484--500518	13	2.7	13	90	0	52	45	0	11	42	1.40
502713--502756	23	1.9	23	90	9	72	22	25	27	25	2.00
502711--502771	23	2.7	23	79	2	61	22	22	29	24	1.99
504628--504665	15	2.5	15	86	0	58	7	28	5	57	1.49
508512--508556	23	2.0	24	86	8	67	11	22	46	20	1.81
509446--509513	21	3.1	21	67	19	57	42	10	23	23	1.84
509430--509800	45	8.2	45	90	1	537	44	11	20	23	1.83
509546--509615	21	3.2	21	68	18	61	45	10	20	24	1.81
509663--509752	19	4.3	19	74	20	72	43	11	22	23	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509681--509752	21	3.3	21	70	24	67	44	11	22	22	1.84
509682--509760	26	3.3	26	71	23	91	45	11	21	21	1.83
516558--516625	19	3.2	19	67	25	55	39	14	25	20	1.91
516456--516912	45	10.2	45	93	0	779	43	12	22	21	1.86
521212--521242	12	2.6	12	100	0	62	16	6	0	77	0.97
522093--522145	21	2.5	21	93	0	88	28	30	22	18	1.98
522154--522297	21	7.0	21	70	10	111	20	19	24	35	1.96
522160--522382	40	5.3	42	88	7	328	21	19	23	35	1.96
522242--522382	48	3.0	48	88	7	213	23	19	22	34	1.96
522307--522378	21	3.4	21	76	14	85	22	19	20	37	1.94
522160--522382	90	2.6	86	89	6	332	21	19	23	35	1.96
523114--523185	21	3.4	21	76	14	85	37	23	19	19	1.94
523110--523204	42	2.3	42	98	0	181	35	25	18	20	1.95
523135--523210	21	3.6	21	77	13	93	34	27	19	18	1.95
525441--525482	21	2.0	20	82	13	50	28	11	0	59	1.33
525987--526046	25	2.5	24	83	5	68	45	5	1	48	1.34
526044--526113	23	3.0	24	80	10	67	50	1	1	47	1.19
526078--526133	23	2.5	22	88	5	76	44	0	1	53	1.11
526060--526163	53	1.9	56	81	13	128	48	0	2	49	1.16
526283--526308	7	3.7	7	100	0	52	30	0	69	0	0.89
526860--526900	20	2.0	20	85	0	55	65	2	4	26	1.25
526860--526910	20	2.6	19	81	9	50	68	1	3	25	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535451--535488	20	2.0	20	89	5	60	36	2	21	39	1.67
539366--539411	20	2.3	20	88	3	67	36	0	26	36	1.57
539707--539750	2	22.0	2	100	0	88	50	0	0	50	1.00
540137--540189	26	2.0	26	100	0	106	18	15	30	35	1.92
546284--546354	34	2.1	34	86	2	99	22	29	15	32	1.95
546726--546773	20	2.4	20	100	0	96	27	20	27	25	1.99
546740--546810	36	2.0	36	83	10	92	29	19	21	29	1.98
546837--546907	16	3.7	19	74	16	67	28	15	29	26	1.96
547132--547188	21	3.1	18	80	14	71	47	7	15	29	1.72
547697--547721	13	1.9	13	100	0	50	44	0	24	32	1.54
550292--550344	16	3.0	17	71	28	56	32	16	20	30	1.95
550307--550420	57	2.0	57	94	0	201	25	14	23	36	1.92
555842--556001	65	2.5	66	83	5	193	30	22	19	27	1.98
557458--557610	65	2.4	65	83	5	177	30	24	18	27	1.98
562030--562065	18	2.0	18	94	0	63	38	11	25	25	1.88
562715--562850	58	2.3	58	82	5	150	45	7	6	40	1.58
562715--562857	29	4.9	29	76	10	114	46	7	6	38	1.60
564179--564230	18	2.9	17	82	2	59	46	9	7	36	1.66
564560--564652	28	3.3	27	88	7	132	44	17	1	37	1.56
565501--565533	16	2.0	17	88	5	50	75	0	24	0	0.80
570616--570644	14	2.0	15	93	6	51	48	0	13	37	1.43
574283--574336	27	2.0	27	88	0	81	22	5	18	53	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578150--578189	21	1.9	21	90	10	64	62	7	7	22	1.47
581943--581984	20	2.1	20	90	0	66	21	9	16	52	1.72
587028--587133	50	2.3	48	82	11	123	52	12	1	33	1.49
593381--593405	12	2.1	12	100	0	50	52	8	32	8	1.60
594182--594223	22	1.9	22	85	0	57	61	4	4	28	1.36
594244--594591	98	3.5	94	71	14	236	47	11	4	37	1.58
594366--594422	22	2.6	22	75	8	62	49	8	5	36	1.57
594175--594963	198	4.1	195	81	8	828	47	10	5	36	1.61
596655--596747	43	2.2	43	84	1	116	29	16	23	31	1.96
597376--597428	18	2.9	18	94	0	88	28	30	22	18	1.98
597999--598162	64	2.6	65	77	13	151	25	18	20	35	1.95
604257--604309	18	2.9	18	97	0	97	28	32	22	16	1.96
604559--604592	2	17.0	2	100	0	68	50	0	0	50	1.00
604855--604907	20	2.7	20	84	0	70	30	24	18	26	1.98
605347--605387	18	2.3	18	87	8	57	39	19	7	34	1.80
608925--608961	8	4.2	9	83	16	51	2	8	0	89	0.58
608924--608977	15	3.4	16	80	16	67	3	12	0	83	0.78
608926--608970	23	2.0	23	90	0	72	4	11	0	84	0.76
608925--608977	9	6.4	8	82	12	63	3	11	0	84	0.73
608931--608977	23	2.1	23	88	4	69	4	10	0	85	0.74
609615--609769	75	2.0	77	90	2	242	18	32	12	36	1.88
610123--610170	3	16.7	3	78	8	55	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
610324--611094	133	5.8	134	84	4	963	31	19	18	29	1.96
611598--612070	45	10.8	45	76	8	332	41	17	17	24	1.90
611664--612693	38	25.4	43	78	7	369	39	17	18	25	1.92
611663--612106	87	5.1	86	75	9	359	41	17	17	23	1.90
612006--612785	38	20.0	38	80	5	779	38	17	18	25	1.92
614488--614531	16	2.8	15	83	16	54	9	18	0	72	1.10
614533--614605	22	3.3	22	83	11	94	8	19	0	72	1.09
616177--616216	20	2.0	20	85	0	53	42	5	30	22	1.75
619003--619053	18	2.7	20	73	14	54	60	3	1	33	1.26
620586--620746	78	2.1	78	93	0	277	18	33	11	37	1.86

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