genome.fa.s8242.2.7.7.80.10.50.1000.3.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   

This is table  3  of  73  ( 8740 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)
360145--360195	22	2.3	22	100	0	102	29	21	13	35	1.92
371239--371306	3	22.7	3	100	0	136	0	32	0	67	0.91
372632--372665	2	17.0	2	93	0	59	50	2	0	47	1.16
376534--376626	29	3.0	29	79	17	100	40	5	0	53	1.24
376791--376830	2	20.0	2	100	0	80	50	0	0	50	1.00
376834--376909	29	2.6	30	85	2	100	67	2	2	27	1.18
377777--377830	23	2.3	24	83	3	65	68	0	7	24	1.15
377798--377853	29	1.9	29	82	7	69	66	0	3	30	1.09
378105--378179	22	3.6	21	70	15	66	61	2	1	34	1.18
378655--378762	37	2.9	37	84	0	144	31	14	13	39	1.86
379413--380140	106	6.9	106	87	3	999	23	18	23	33	1.97
379413--380936	318	4.7	313	75	16	1284	23	18	24	34	1.96
380069--380210	70	2.0	73	93	4	245	22	15	26	35	1.94
379962--380517	175	3.0	178	85	10	676	23	17	24	34	1.96
380142--380936	102	7.8	102	91	5	1197	23	17	24	34	1.96
380142--380936	306	2.6	304	93	3	1329	23	17	24	34	1.96
381741--381839	22	4.5	22	93	0	153	20	13	26	40	1.89
382235--382581	172	2.0	173	93	3	601	24	17	20	36	1.94
387230--387256	8	3.4	8	100	0	54	74	0	14	11	1.08
387316--387341	2	13.0	2	100	0	52	50	0	0	50	1.00
387356--387409	21	2.8	18	81	15	56	62	3	3	29	1.29
387360--387410	18	2.6	19	79	11	59	62	3	3	29	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
387389--387471	29	2.6	33	74	18	84	67	7	2	22	1.27
387628--387716	19	4.6	19	74	17	76	62	2	2	32	1.19
388187--388294	37	2.9	37	87	0	162	30	15	14	38	1.88
389873--389907	16	2.2	16	94	0	61	40	25	11	22	1.88
392495--392604	40	2.7	40	78	12	116	20	19	38	21	1.94
392146--392610	134	3.5	133	80	4	524	24	17	32	25	1.97
392623--392705	28	2.9	28	87	1	103	46	13	15	24	1.81
392927--393020	28	3.4	28	88	2	136	48	12	11	26	1.75
393091--393162	37	1.9	38	83	8	94	37	11	11	40	1.76
393229--393315	30	2.9	30	80	8	97	42	12	16	28	1.84
393230--393424	29	6.5	29	67	18	103	42	14	13	30	1.84
393355--393436	29	2.8	30	81	7	89	42	15	10	30	1.82
393775--393975	106	1.9	105	89	3	314	41	10	15	32	1.81
393942--394010	36	1.9	35	85	5	93	42	11	14	31	1.82
394344--394389	10	4.3	10	81	13	56	30	4	8	56	1.49
396057--396302	65	3.8	63	80	6	226	26	17	26	29	1.97
396185--396235	19	2.7	19	85	8	70	25	15	35	23	1.94
396208--396351	65	2.2	65	97	0	270	25	18	24	31	1.98
401880--401919	21	1.9	21	85	10	55	35	10	2	52	1.48
403846--404026	64	2.8	63	81	3	209	27	17	25	29	1.97
403974--404024	19	2.7	19	85	8	70	25	15	35	23	1.94
403867--404026	65	2.5	65	84	3	207	28	16	25	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
404418--404492	33	2.2	34	79	13	84	4	18	6	70	1.25
406547--406604	30	1.9	30	93	6	100	56	12	17	13	1.66
408226--408258	16	2.1	16	94	0	57	36	27	15	21	1.93
408462--408493	4	8.0	4	100	0	64	75	0	0	25	0.81
413649--413692	12	3.8	12	84	3	54	0	25	0	75	0.81
414699--414868	84	2.0	84	81	4	200	31	17	17	34	1.93
418481--418534	21	2.6	21	90	0	81	27	7	16	48	1.73
418631--418825	42	4.6	42	80	1	219	22	21	21	35	1.96
418627--418788	85	1.9	85	92	0	270	22	21	21	33	1.97
419595--419657	31	2.1	31	85	8	85	41	4	11	42	1.61
419772--419829	28	2.1	27	83	3	71	41	10	12	36	1.76
419772--419871	31	3.4	27	77	11	65	43	7	11	39	1.67
421816--421898	15	5.3	15	70	16	51	61	4	2	31	1.30
421858--421896	17	2.3	17	86	0	51	66	5	0	28	1.12
421863--422010	49	3.1	45	72	21	126	62	3	1	33	1.20
421928--422002	15	4.6	16	69	23	50	65	1	1	32	1.09
422464--422624	66	2.5	64	85	4	216	29	23	16	30	1.96
436470--436521	19	2.7	19	90	0	86	32	28	17	21	1.96
437947--438004	23	2.6	22	78	5	55	27	27	22	22	1.99
439108--439716	304	2.0	303	90	1	959	31	16	17	34	1.92
439877--439920	21	2.1	21	86	0	61	6	40	15	36	1.74
440527--440556	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
441358--441385	10	2.8	10	100	0	56	71	21	7	0	1.09
442104--442134	15	2.1	15	93	0	53	32	9	6	51	1.60
442769--442827	15	4.0	15	84	4	66	38	5	20	35	1.75
442776--442827	15	3.5	15	86	5	70	36	5	19	38	1.76
443145--443195	23	2.2	23	82	0	57	45	1	1	50	1.24
443187--443280	29	3.3	30	78	11	90	54	2	0	43	1.12
443206--443279	28	2.6	30	82	6	91	55	2	0	41	1.14
443278--443324	18	2.6	19	83	6	53	42	2	0	55	1.12
443287--443382	31	3.0	32	76	11	90	47	0	1	51	1.07
443316--443362	22	2.1	23	88	4	69	53	0	2	44	1.12
443324--443367	22	2.0	22	82	8	54	54	0	2	43	1.12
443534--443575	22	1.9	22	90	0	66	47	11	16	23	1.80
443593--443681	42	2.1	42	87	4	126	57	16	5	20	1.59
445591--445635	21	2.1	21	92	8	74	46	0	22	31	1.52
445456--445759	150	2.0	150	92	0	509	40	7	26	25	1.82
450759--450912	76	2.0	76	100	0	308	18	14	22	44	1.85
462123--462198	30	2.5	30	77	8	82	35	14	9	40	1.78
463065--463096	3	10.7	3	93	0	55	68	0	31	0	0.90
464195--464723	199	2.7	196	84	6	681	31	14	14	39	1.87
464806--464844	20	2.0	19	90	5	60	35	15	2	46	1.60
464550--464893	176	1.9	178	86	3	489	33	13	13	40	1.83
467373--467421	19	2.6	19	83	0	71	53	8	4	34	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
468939--469449	201	2.6	197	84	5	677	33	16	12	36	1.87
469886--469946	24	2.5	24	91	0	95	13	11	19	55	1.67
469862--469942	34	2.4	34	78	12	94	14	13	19	51	1.75
471026--471084	16	3.7	16	84	8	84	10	10	23	55	1.63
471295--471475	65	2.8	64	85	9	244	30	22	16	29	1.96
471442--471493	19	2.7	19	100	0	104	21	26	21	30	1.98
482867--482910	21	2.1	21	82	0	52	6	38	18	36	1.77
484468--484921	200	2.3	200	84	4	578	31	14	15	38	1.87
485212--485292	30	2.7	30	83	5	85	48	12	8	30	1.71
488277--488333	18	3.2	18	92	0	96	7	35	1	56	1.37
488517--488616	33	3.0	33	95	0	182	26	46	0	28	1.53
488650--488693	21	2.1	21	95	0	79	13	36	11	38	1.81
490748--491326	173	3.3	176	84	10	742	26	18	14	40	1.89
492268--492301	16	2.2	16	89	5	52	58	14	0	26	1.36
493196--493247	21	2.5	21	81	3	61	38	19	25	17	1.93
493236--493330	20	4.7	20	79	7	93	32	25	18	23	1.97
495121--495165	18	2.5	18	88	0	72	26	44	15	13	1.83
495635--495701	20	3.4	20	81	2	73	38	23	22	14	1.92
495690--495747	14	3.9	14	75	16	62	50	24	15	10	1.75
495674--495764	32	2.8	33	91	3	157	48	21	17	12	1.80
495635--495769	19	7.6	19	70	19	67	43	22	20	13	1.86
495781--495871	14	5.9	14	72	20	74	12	17	21	48	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
495776--495887	33	3.4	33	95	1	199	12	18	21	47	1.81
495872--495927	20	2.8	19	84	7	67	17	25	21	35	1.95
497783--497818	14	2.6	14	90	0	54	30	0	22	47	1.52
497945--497998	14	3.5	14	77	22	63	48	20	20	11	1.80
498022--498097	20	3.8	20	72	6	64	17	19	19	43	1.88
498311--498356	20	2.3	20	96	0	83	28	17	26	28	1.98
498387--498459	21	3.5	21	90	1	103	23	23	15	38	1.92
498656--498689	12	2.9	12	86	4	52	17	41	5	35	1.74
499243--499296	24	2.2	24	86	0	72	24	16	18	40	1.90
501542--501590	18	2.7	18	96	0	89	44	26	0	28	1.54

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73