genome.fa.s7847.2.7.7.80.10.50.1000.2.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: VEPZ01007847.1 Hibiscus syriacus cultivar Beakdansim tig00110204_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1444154

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 668 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)
333341--333408	23	3.0	23	91	0	100	20	27	26	25	1.99
339936--339998	30	2.1	30	84	0	81	42	3	20	33	1.68
340213--340280	23	3.0	23	91	0	100	20	25	26	27	1.99
342054--342093	21	1.9	21	85	10	55	35	7	2	55	1.42
351839--351871	13	2.4	14	90	10	50	24	9	6	60	1.49
351840--351887	17	3.1	16	81	18	50	22	6	6	64	1.39
359025--359062	2	19.0	2	100	0	76	50	0	0	50	1.00
359007--359062	16	3.5	16	90	0	67	48	1	1	48	1.22
368545--368598	22	2.3	24	84	9	67	27	5	1	64	1.26
369233--369264	2	16.0	2	100	0	64	50	0	0	50	1.00
371840--371891	24	2.2	23	83	10	61	46	5	1	46	1.38
372366--372454	29	3.1	29	85	0	124	17	40	28	13	1.88
372671--372754	29	2.9	29	83	0	96	13	29	39	17	1.88
373891--373915	13	1.9	13	100	0	50	80	0	12	8	0.92
376459--376491	12	2.8	12	95	4	59	12	15	18	54	1.71
383345--383476	60	2.2	59	81	4	149	33	14	17	34	1.90
384691--384737	21	2.2	21	84	0	67	19	27	17	36	1.93
388122--388195	33	2.3	33	90	2	114	44	18	24	12	1.84
388227--388285	19	3.4	19	73	22	74	13	22	18	45	1.84
388205--388285	33	2.4	34	91	2	128	12	20	20	45	1.83
388235--388285	17	3.1	17	69	25	54	13	23	17	45	1.84
388385--388419	14	2.5	14	90	0	61	45	20	0	34	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
390302--390535	95	2.5	95	92	0	398	47	18	12	21	1.82
392233--392294	20	3.2	20	83	4	90	48	16	20	14	1.81
392231--392351	19	6.8	19	69	19	100	47	18	21	12	1.81
392231--392351	33	3.5	33	85	6	152	47	18	21	12	1.81
392383--392454	20	3.5	20	84	5	92	12	16	19	51	1.76
393004--393215	20	10.4	20	75	3	208	19	18	24	37	1.94
393004--393256	41	6.2	41	86	3	318	19	18	24	37	1.94
393026--393379	20	17.5	20	74	8	110	18	18	23	39	1.92
393285--393358	19	3.7	21	76	7	64	16	18	24	40	1.90
393327--393379	19	2.8	19	97	0	97	11	16	20	50	1.76
394755--394849	35	2.7	35	85	3	120	47	18	23	10	1.80
408174--408203	14	2.1	14	93	0	51	10	13	16	60	1.59
408393--408453	24	2.5	24	89	0	95	13	16	16	54	1.72
408436--408466	14	2.2	14	94	0	53	9	16	19	54	1.68
408809--408852	21	2.1	21	95	0	79	50	9	27	13	1.72
411218--411346	14	8.5	15	78	15	131	46	0	2	50	1.19
411349--411391	22	2.0	22	100	0	86	39	0	9	51	1.34
411328--411891	32	19.3	32	70	25	296	35	0	11	52	1.38
411328--411494	54	3.1	54	98	0	316	36	0	10	52	1.36
411403--411445	22	2.0	22	95	0	77	37	0	11	51	1.39
411448--411495	22	2.4	18	73	23	51	33	0	14	52	1.42
411425--412080	80	8.0	82	84	9	728	34	0	12	52	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411537--411579	22	2.0	22	100	0	86	34	0	13	51	1.42
411505--412081	54	10.6	54	78	12	556	35	0	12	52	1.39
411622--411706	14	5.5	14	69	20	62	35	0	8	56	1.29
411709--411751	22	2.0	22	100	0	86	34	0	13	51	1.42
411763--411827	22	3.0	22	97	0	121	38	0	10	50	1.37
411816--411869	14	3.6	14	72	18	54	37	0	3	59	1.15
411942--411989	22	2.4	18	73	23	51	33	0	14	52	1.42
412035--412073	21	1.9	21	94	5	71	35	0	12	51	1.40
411328--412080	414	1.8	404	85	8	1035	35	0	12	52	1.39
412096--412154	31	1.9	31	92	0	100	42	10	6	40	1.65
412719--412791	3	23.7	3	83	5	74	42	0	0	57	0.98
412746--412788	19	2.3	19	91	0	68	41	0	0	58	0.98
413863--413897	18	1.9	18	100	0	70	34	11	0	54	1.37
413967--414031	3	22.3	3	80	17	75	27	0	1	70	0.96
414224--414265	20	2.2	19	86	4	57	33	0	2	64	1.07
414128--414350	112	2.0	112	80	7	247	37	8	8	46	1.64
419593--419669	26	3.0	27	88	5	106	70	7	19	2	1.24
419630--419703	8	9.2	8	78	14	64	81	1	16	1	0.84
419632--419667	17	2.1	18	94	5	65	75	0	25	0	0.81
419607--419703	25	3.9	25	80	10	85	77	4	16	2	1.02
421912--422252	113	3.0	113	92	0	556	32	14	20	32	1.92
424229--424430	54	3.8	52	81	6	205	39	15	20	24	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
424783--424862	22	3.6	22	87	0	115	35	13	12	38	1.83
425402--425461	17	3.6	16	72	18	59	50	8	20	21	1.74
425526--425570	24	1.9	23	82	13	56	51	6	24	17	1.70
425259--426610	113	12.0	113	90	3	2075	37	13	18	29	1.90
425259--426610	342	4.0	342	95	1	2387	37	13	18	29	1.90
425259--426610	455	3.0	449	90	3	2087	37	13	18	29	1.90
426881--426950	3	22.7	3	82	5	86	40	0	0	60	0.97
428202--428237	18	2.0	18	94	0	63	33	13	0	52	1.41
428203--428313	48	2.3	49	73	18	108	28	9	1	60	1.37
428318--428379	3	21.3	3	78	18	60	25	0	1	72	0.94
431220--431294	37	2.0	37	82	5	89	38	18	4	38	1.70
433570--433599	9	3.3	9	90	0	51	56	0	43	0	0.99
441048--441169	60	2.0	60	81	9	142	43	6	18	31	1.76
441410--441482	15	4.8	16	89	5	107	39	12	19	28	1.88
441559--441621	23	2.7	23	92	0	99	26	20	15	36	1.93
442138--442166	15	1.9	15	100	0	58	58	13	6	20	1.58
442212--442314	33	3.2	32	89	5	154	44	14	7	33	1.74
442309--442350	21	2.0	21	95	0	75	47	7	14	30	1.71
457932--457994	31	2.0	31	96	0	117	26	15	20	36	1.93
464675--464742	28	2.4	27	80	11	66	30	14	2	51	1.57
465870--465911	20	2.1	20	90	0	66	26	28	19	26	1.98
467137--467197	22	2.8	22	92	0	104	32	16	27	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
467630--467689	2	30.5	2	93	3	104	46	1	0	51	1.10
471345--471491	21	6.9	21	70	11	102	34	24	13	27	1.93
476593--476820	55	4.4	54	74	14	199	30	24	16	28	1.96
476619--476760	51	2.7	51	81	15	155	28	24	17	28	1.97
476728--477019	51	5.8	51	87	10	415	26	29	14	29	1.95
476728--477019	98	2.9	100	88	9	418	26	29	14	29	1.95
478135--478218	19	4.1	19	71	21	62	5	21	0	72	1.05
478164--478227	26	2.5	25	82	9	76	4	23	1	70	1.15
478215--478259	16	2.6	17	86	13	56	8	17	2	71	1.23
486195--486241	23	2.0	23	83	8	58	19	25	8	46	1.77
489381--489426	24	1.9	24	86	8	67	41	13	13	32	1.82
497444--497518	15	4.4	17	78	18	68	36	20	20	24	1.95
497449--497525	19	4.3	18	79	17	97	37	19	18	24	1.94
497449--497525	35	2.1	36	88	9	113	37	19	18	24	1.94
497631--497696	27	2.4	27	92	0	105	43	33	3	19	1.66
497734--497799	22	3.0	22	90	0	105	24	39	15	21	1.91
498131--498218	20	4.4	20	89	1	115	15	18	25	40	1.90
500060--500183	20	6.5	20	80	10	143	38	21	19	20	1.93
500083--500204	34	3.4	34	76	15	120	40	21	20	18	1.92
500062--500204	74	1.9	74	91	2	234	39	20	20	18	1.92
500228--500275	20	2.5	20	93	3	80	14	20	25	39	1.91
500747--500848	21	4.9	21	72	8	73	22	34	19	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500748--500853	42	2.5	41	78	4	113	22	34	18	23	1.96
502398--502482	33	2.5	33	88	1	116	15	20	17	47	1.83
502465--502553	20	4.4	20	91	2	144	16	22	25	34	1.95
504949--505001	24	2.2	24	90	3	81	41	18	18	20	1.91
505841--505970	20	6.3	20	74	19	115	19	20	22	38	1.93
505967--506012	21	2.2	21	92	0	74	39	17	26	17	1.91
510351--510406	28	2.0	28	100	0	112	39	17	14	28	1.89
512540--512609	33	2.1	35	91	5	117	45	21	17	15	1.85
516642--517071	214	2.0	214	95	4	769	37	15	11	35	1.84
517022--517089	28	2.5	28	95	2	120	33	25	11	29	1.91

Tables:   1   2   3   4   5   6