genome.fa.s190.2.7.7.80.10.50.1000.47.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   

This is table  47  of  62  ( 7381 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)
10837704--10837730	6	4.5	6	100	0	54	14	0	0	85	0.61
10839497--10839610	60	1.9	60	82	7	142	35	16	14	33	1.90
10841490--10841835	60	5.8	60	77	9	318	30	23	6	39	1.80
10841566--10841835	116	2.3	117	82	6	307	31	25	5	37	1.79
10841494--10841833	176	1.9	176	88	3	506	30	23	6	39	1.80
10841963--10842145	60	3.1	59	79	8	210	36	5	24	33	1.78
10843363--10843425	28	2.2	28	78	10	74	60	14	17	7	1.57
10844646--10844688	23	1.9	21	81	13	50	32	18	13	34	1.90
10859039--10859143	31	3.4	31	85	0	138	28	15	10	45	1.79
10859499--10859618	59	2.0	59	85	3	161	32	15	20	32	1.93
10859897--10859930	18	2.0	17	88	11	52	64	0	0	35	0.94
10869313--10869408	20	5.0	20	75	10	101	22	23	28	25	2.00
10869313--10869406	18	5.0	18	79	7	98	21	24	28	25	1.99
10869314--10869408	38	2.5	38	85	0	145	23	23	28	25	1.99
10872842--10872897	20	2.6	20	86	11	67	32	17	23	26	1.97
10872862--10872899	20	1.9	20	100	0	76	31	21	23	23	1.98
10873771--10873905	20	6.9	20	74	6	134	25	22	26	25	2.00
10873869--10873903	18	1.9	18	94	0	61	20	22	31	25	1.98
10890486--10890515	12	2.5	12	100	0	60	40	6	36	16	1.75
10892184--10892244	27	2.2	27	82	2	77	26	9	18	45	1.80
10893385--10893432	18	2.7	18	73	0	51	14	31	29	25	1.95
10893423--10893447	5	5.0	5	100	0	50	0	40	40	20	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10897720--10897771	19	2.7	19	96	0	95	30	15	30	23	1.95
10900557--10900600	17	2.6	17	92	0	70	45	11	11	31	1.76
10900701--10900777	27	2.9	27	78	7	102	25	19	19	35	1.95
10900945--10900975	16	1.9	16	100	0	62	19	12	25	41	1.87
10902610--10902662	27	1.9	28	84	3	72	50	0	9	39	1.35
10906960--10907054	24	4.0	24	83	5	113	20	12	16	50	1.77
10906963--10907054	48	1.9	48	86	8	134	19	13	16	51	1.77
10907212--10907250	2	19.5	2	100	0	78	48	0	0	51	1.00
10910957--10911011	21	2.6	22	72	11	53	29	10	18	41	1.84
10911026--10911078	23	2.3	23	86	0	79	18	28	26	26	1.98
10914700--10914793	12	7.8	12	69	9	57	18	11	19	51	1.76
10914701--10914795	24	4.0	24	84	5	122	18	11	18	50	1.77
10914952--10914986	2	17.5	2	100	0	70	48	0	0	51	1.00
10916210--10916239	2	15.0	2	92	0	51	53	0	46	0	1.00
10918162--10918187	13	2.0	13	100	0	52	30	15	38	15	1.88
10930999--10931038	20	2.0	20	95	0	71	40	17	5	37	1.72
10935618--10935709	20	5.0	20	68	24	67	41	17	5	35	1.72
10935611--10935725	52	2.2	52	92	1	196	46	16	6	30	1.71
10941232--10941309	36	2.2	36	95	0	138	30	15	26	26	1.96
10943234--10943373	31	4.5	31	77	2	129	30	8	12	48	1.71
10949243--10949267	2	12.5	2	100	0	50	48	0	0	52	1.00
10951672--10951727	14	3.9	14	80	19	62	76	0	3	19	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10951672--10951729	22	2.7	22	82	10	66	77	0	3	18	0.91
10951667--10951724	19	3.1	19	78	11	50	77	0	3	18	0.91
10951673--10951728	13	4.2	13	82	8	51	76	0	3	19	0.93
10951667--10951729	27	2.4	25	80	15	72	77	0	3	19	0.90
10960018--10960065	19	2.5	19	93	0	78	43	4	29	22	1.72
10960714--10960806	23	4.2	22	83	9	102	27	13	26	31	1.94
10960714--10960793	23	3.6	23	85	6	103	27	15	27	30	1.96
10962851--10962889	18	2.2	18	95	0	69	56	10	15	17	1.66
10966424--10966495	21	3.5	21	84	3	110	12	30	36	20	1.90
10966427--10966491	20	3.2	20	82	10	87	12	30	36	20	1.89
10966412--10966495	41	2.0	41	90	0	132	15	27	38	19	1.91
10966528--10966569	22	1.9	22	95	0	75	14	26	38	21	1.91
10967992--10968039	19	2.5	20	82	3	62	29	12	6	52	1.63
10969367--10969463	20	4.8	20	92	3	160	21	28	32	16	1.95
10972225--10972279	3	18.3	3	75	20	53	70	0	1	27	0.97
10973339--10973390	16	3.2	17	72	22	58	42	0	21	36	1.53
10973989--10974028	21	1.9	21	90	10	64	37	0	0	62	0.95
10973988--10974028	12	3.7	11	78	21	50	36	0	0	63	0.95
10983133--10983182	24	2.1	24	84	0	64	2	18	46	34	1.60
10983445--10984087	135	4.8	135	88	1	878	27	21	17	33	1.96
10985170--10985197	14	2.0	14	100	0	56	0	14	0	85	0.59
10998152--10998185	13	2.7	13	86	4	52	17	5	29	47	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10998573--10998641	20	3.5	20	95	0	120	13	21	26	39	1.90
11001180--11001263	11	7.2	11	70	17	62	65	1	2	30	1.13
11001661--11001724	21	3.3	21	62	20	57	28	14	15	42	1.86
11001802--11002132	164	2.0	165	99	0	655	28	20	19	31	1.97
11002435--11003275	105	8.0	105	94	2	1363	21	17	27	33	1.96
11003479--11003549	36	2.0	36	91	0	115	35	16	23	23	1.95
11003566--11003745	39	4.9	39	66	16	116	37	12	21	27	1.90
11003450--11003768	105	3.1	104	90	4	493	36	12	21	30	1.90
11003839--11004009	72	2.3	75	84	7	208	40	12	18	28	1.87
11005156--11005689	180	2.9	182	95	2	939	31	20	20	27	1.98
11009766--11009816	22	2.4	22	80	9	61	72	0	7	19	1.08
11009930--11009968	18	2.2	17	86	4	51	64	5	5	25	1.35
11010604--11010637	14	2.5	14	90	4	52	32	2	0	64	1.08
11011848--11011917	34	2.1	34	89	5	108	35	7	14	42	1.73
11012352--11012398	24	2.0	24	87	8	69	46	2	0	51	1.13
11012707--11012785	2	40.5	2	92	5	135	49	0	1	49	1.09
11021478--11021512	18	1.9	18	88	0	52	11	17	48	22	1.79
11027600--11027638	20	2.0	20	89	0	60	43	15	17	23	1.87
11027756--11027790	4	8.8	4	100	0	70	25	25	0	48	1.51
11031243--11031352	55	2.0	55	100	0	220	32	21	9	36	1.85
11035535--11035582	19	2.5	20	82	3	62	29	12	6	52	1.63
11036434--11036503	34	2.1	32	89	5	104	21	31	15	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11037115--11037174	29	2.0	31	87	6	88	43	16	6	33	1.74
11038790--11038995	75	2.7	75	87	2	279	23	31	24	20	1.98
11046777--11046827	9	6.2	8	76	19	52	13	0	27	58	1.36
11046779--11046822	17	2.6	17	85	7	63	13	0	29	56	1.38
11047097--11047139	21	2.0	21	95	0	77	39	2	27	30	1.69
11047431--11047634	74	2.8	74	84	1	248	24	29	24	22	1.99
11053185--11053228	21	2.1	21	87	8	63	31	20	9	38	1.84
11060154--11060253	23	4.2	24	88	5	150	35	20	19	26	1.96
11060153--11060253	47	2.1	47	90	3	159	35	19	18	25	1.95
11066754--11066792	20	2.0	20	89	0	60	28	10	2	58	1.44
11074362--11074405	18	2.5	17	78	10	52	75	6	2	15	1.12
11076823--11076866	23	1.9	23	95	0	79	27	20	22	29	1.99
11082422--11082462	19	2.1	20	86	13	59	17	4	19	58	1.56
11083649--11083709	23	2.7	23	87	5	79	19	22	26	31	1.98
11086379--11086427	21	2.3	21	92	0	80	26	0	28	44	1.54
11087219--11087334	21	5.4	21	76	11	110	25	13	25	34	1.93
11093980--11094032	21	2.5	21	87	6	72	18	18	30	32	1.96
11096949--11097024	39	1.9	39	81	5	91	36	13	0	50	1.42
11097632--11097661	13	2.3	13	94	0	51	30	3	0	66	1.07
11099409--11099444	17	2.1	17	100	0	72	30	5	13	50	1.65
11099541--11099573	16	2.1	16	88	11	50	72	0	6	21	1.05
11100421--11100473	23	2.3	24	80	9	65	13	18	13	54	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11104803--11104851	22	2.2	22	88	0	71	40	12	12	34	1.80
11107532--11107561	11	2.7	11	94	0	51	33	26	23	16	1.96
11108835--11108911	24	3.0	26	83	11	104	40	5	20	33	1.75
11109059--11109093	18	1.9	18	94	0	61	42	2	11	42	1.55
11115044--11115311	44	6.2	44	82	1	308	29	23	15	31	1.95
11115301--11115439	42	3.2	45	77	10	112	31	24	15	28	1.95
11126073--11126153	18	4.5	18	87	0	117	29	32	19	18	1.96
11130622--11130692	18	3.9	18	88	0	106	23	35	22	18	1.96
11130622--11130693	36	2.0	36	91	0	117	23	34	23	18	1.96
11133801--11133858	20	2.9	20	89	0	89	31	17	24	27	1.97

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