genome.fa.s1836.2.7.7.80.10.50.1000.2.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: VEPZ01001836.1 Hibiscus syriacus cultivar Beakdansim tig00003715_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2428596

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

This is table  2  of  12  ( 1328 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)
379750--379803	29	1.9	29	88	7	85	29	22	0	48	1.51
379949--380003	13	4.1	13	75	9	56	47	5	1	45	1.36
379911--379994	26	3.2	26	77	12	73	41	4	3	50	1.41
379937--380070	13	8.8	15	66	17	55	44	3	3	47	1.38
380010--380043	18	1.9	17	94	5	59	47	0	5	47	1.26
392049--392089	22	1.9	22	85	5	57	41	21	7	29	1.80
393122--393177	24	2.3	24	93	0	103	28	16	16	39	1.89
397361--397397	2	18.5	2	100	0	74	51	0	0	48	1.00
399561--399606	2	22.5	2	82	12	58	47	0	4	47	1.21
399554--399620	30	2.2	30	83	0	80	41	0	8	49	1.34
399629--399736	35	3.0	36	75	18	118	41	1	6	50	1.39
399614--399740	36	3.5	36	78	14	136	43	1	6	48	1.37
399785--399817	16	2.2	15	89	10	50	27	3	6	63	1.32
399814--400021	37	5.4	36	82	14	231	43	2	6	47	1.42
399989--400049	29	2.2	28	85	5	79	40	3	9	45	1.53
401607--401648	2	21.0	2	90	9	68	47	0	2	50	1.14
401676--401723	20	2.4	20	82	6	62	56	2	0	41	1.11
403405--403430	2	13.0	2	100	0	52	50	0	0	50	1.00
406284--406313	15	2.0	15	100	0	60	33	13	6	46	1.69
411024--411219	95	2.0	97	96	3	360	25	20	14	39	1.91
411543--411571	2	14.5	2	100	0	58	51	0	0	48	1.00
418925--418965	18	2.3	18	95	0	73	19	29	9	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
418925--418967	8	4.8	9	83	16	54	18	27	9	44	1.80
419147--419194	21	2.3	21	100	0	96	43	8	33	14	1.75
419143--419213	11	6.8	11	70	10	51	39	7	33	19	1.79
424353--424391	17	2.3	17	90	0	60	15	25	43	15	1.86
424361--424418	19	3.2	18	76	9	64	8	24	48	18	1.76
431617--431649	14	2.3	15	89	5	50	3	24	51	21	1.62
431646--431715	9	7.3	9	85	9	86	32	28	25	12	1.93
431646--431715	19	3.7	18	83	9	86	32	28	25	12	1.93
434646--434675	2	15.0	2	100	0	60	50	0	0	50	1.00
435844--435897	16	3.4	16	94	0	90	22	9	16	51	1.72
437302--437353	22	2.3	23	77	9	54	21	13	5	59	1.55
439604--439650	19	2.5	19	96	0	85	25	27	21	25	1.99
440851--441029	76	2.3	76	82	7	202	30	14	12	42	1.82
441032--441257	117	1.9	118	91	0	373	29	15	16	38	1.89
441032--441257	39	5.8	39	88	0	317	29	15	16	38	1.89
441414--441607	90	2.1	89	87	7	284	28	18	21	32	1.96
442177--442208	2	16.0	2	100	0	64	50	0	0	50	1.00
447222--447269	19	2.5	19	93	3	78	27	16	35	20	1.94
451949--451991	20	2.3	19	92	8	70	58	9	4	27	1.49
453342--453375	17	2.0	17	94	0	59	67	11	0	20	1.21
456711--456828	38	3.4	37	76	22	146	43	5	0	50	1.26
456763--456820	28	2.0	29	93	3	100	44	6	0	48	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
457508--457552	19	2.4	18	82	10	54	62	2	0	35	1.08
457679--457737	2	29.5	2	100	0	118	49	0	0	50	1.00
462117--462205	30	3.0	28	79	14	81	73	1	10	15	1.16
462123--462216	42	2.2	46	76	21	105	71	2	11	14	1.24
462138--462196	4	14.0	4	77	10	55	72	1	6	18	1.15
462317--462376	12	4.7	12	75	19	50	75	0	5	20	0.99
462329--462499	6	27.2	6	67	20	50	72	1	5	19	1.14
462541--462594	25	2.2	24	84	15	67	66	1	5	25	1.23
465628--465670	22	2.0	22	90	0	68	0	18	2	79	0.85
465622--465659	14	2.7	14	87	0	58	0	21	2	76	0.91
472091--472166	38	2.0	38	100	0	152	34	21	15	28	1.94
476002--476099	51	1.9	51	84	10	130	73	1	9	16	1.14
476019--476094	28	2.7	29	70	22	72	73	1	9	15	1.14
476074--476117	18	2.4	18	84	3	52	77	2	9	11	1.08
476069--476117	23	2.1	23	81	7	55	77	2	8	12	1.07
486487--486512	3	8.7	3	100	0	52	0	0	65	34	0.93
486677--486731	22	2.5	22	78	0	65	32	7	21	38	1.81
492218--492283	32	2.1	32	94	0	114	30	22	33	13	1.93
495784--495871	43	2.0	43	100	0	176	31	9	15	43	1.79
502562--502610	21	2.3	21	86	6	64	30	6	2	61	1.32
502594--502694	13	8.3	13	72	18	92	31	7	0	59	1.33
502575--502706	35	3.7	36	87	5	189	31	7	0	60	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
502721--502749	14	2.1	14	100	0	58	44	0	6	48	1.29
502726--502791	23	2.8	23	77	6	71	42	0	1	56	1.08
502726--502791	11	5.6	11	76	8	60	42	0	1	56	1.08
502728--502900	37	4.8	36	77	15	180	38	1	1	58	1.16
502740--502870	34	3.8	35	82	15	175	38	2	0	58	1.16
502862--502886	10	2.5	10	100	0	50	28	0	0	72	0.86
502726--502872	34	4.1	37	75	17	152	38	2	1	57	1.19
502896--502992	50	1.9	50	87	2	140	58	1	4	36	1.24
502926--503007	35	2.3	35	85	8	103	57	1	6	35	1.31
503015--503040	2	13.0	2	100	0	52	50	0	0	50	1.00
504024--504079	21	2.9	19	78	17	71	28	8	10	51	1.66
504474--504535	21	3.0	21	95	0	106	30	24	24	20	1.99
504564--504603	20	1.9	21	85	10	55	37	37	10	15	1.80
505318--505393	32	2.4	31	79	16	84	71	6	2	19	1.21
505428--505493	16	4.1	17	73	26	72	63	1	1	33	1.13
508554--508588	18	1.9	18	100	0	70	28	0	2	68	1.04
508554--508596	16	2.6	15	85	14	50	27	2	2	67	1.15
511747--511779	4	8.2	4	93	0	57	54	21	0	24	1.45
514803--514846	17	2.6	17	85	0	52	31	25	25	18	1.97
527587--527635	19	2.6	19	96	0	89	26	30	22	20	1.98
527874--527933	29	2.1	29	100	0	120	41	10	10	38	1.72
538379--538446	12	5.8	12	92	3	120	26	41	0	32	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
538379--538446	35	1.9	36	93	3	120	26	41	0	32	1.56
545125--545177	12	4.5	12	85	2	72	30	37	0	32	1.58
551318--551351	13	2.6	13	95	0	59	23	26	0	50	1.50
572989--573042	24	2.2	25	77	9	58	57	11	5	25	1.55
573506--573606	28	3.6	28	82	5	107	39	21	20	17	1.92
573529--573642	28	4.0	28	82	4	122	39	20	18	21	1.92
573557--573645	29	3.1	29	85	1	108	38	20	17	23	1.93
573837--573871	16	2.2	16	100	0	70	45	37	0	17	1.48
574305--574361	23	2.5	23	85	5	80	35	15	21	28	1.94
577684--577715	16	2.0	17	88	11	50	31	9	6	53	1.58
582573--582614	20	2.1	20	86	0	57	30	33	0	35	1.58
582628--582661	17	1.9	18	88	5	52	29	0	5	64	1.17
582628--582698	29	2.5	30	82	13	96	32	1	2	63	1.18
588193--588217	12	2.1	12	100	0	50	64	0	0	36	0.94
590847--590878	2	16.0	2	100	0	64	50	0	0	50	1.00
591507--591598	23	4.0	23	86	1	121	40	18	18	22	1.92
592633--592684	21	2.5	21	81	3	61	38	19	25	17	1.93
593263--593343	19	4.5	19	73	16	73	46	24	17	11	1.80
593339--593523	19	10.1	19	75	14	156	11	21	22	43	1.85
593339--593523	33	5.1	38	76	12	156	11	21	22	43	1.85
593466--593523	20	2.9	20	80	10	64	13	24	18	43	1.87
595525--595647	42	2.9	42	80	2	122	22	36	17	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595581--595647	21	3.2	21	66	6	55	23	35	20	19	1.95
597006--597041	14	2.6	14	95	0	63	30	0	25	44	1.54
597168--597226	19	3.4	19	73	22	74	13	22	18	45	1.84
597149--597225	33	2.3	34	84	6	104	18	22	20	38	1.93
599519--599543	12	2.1	12	100	0	50	0	28	0	72	0.86
599718--599771	24	2.2	24	86	0	72	40	20	14	24	1.90
600831--600888	20	2.9	20	86	0	80	41	22	18	17	1.90
600911--600984	19	4.5	16	83	16	66	13	20	18	47	1.82
600907--600974	19	3.8	19	87	12	101	13	22	17	47	1.82
600888--601002	52	2.2	52	82	0	131	19	21	20	38	1.94

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