genome.fa.s9634.2.7.7.80.10.50.1000.59.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   74   75   76   77   78   

This is table  59  of  78  ( 9351 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)
11939168--11939197	15	1.9	16	93	6	53	46	0	6	46	1.29
11939228--11939441	55	3.9	55	84	1	261	31	21	17	29	1.96
11942829--11943036	76	2.7	76	86	3	276	25	32	23	19	1.98
11951449--11951657	76	2.8	77	88	3	300	24	32	22	20	1.98
11952258--11952309	26	2.0	26	100	0	104	23	15	11	50	1.76
11955274--11955542	55	4.9	55	86	0	351	31	21	18	28	1.97
11955683--11955714	2	16.0	2	100	0	64	50	0	0	50	1.00
11968384--11968415	16	2.0	16	93	0	55	46	0	3	50	1.17
11970544--11970573	15	2.0	15	93	0	51	16	40	23	20	1.91
11970571--11970605	18	1.9	18	94	0	61	20	28	25	25	1.99
11971379--11971500	39	3.2	37	79	6	111	20	27	20	31	1.98
11973822--11973878	26	2.2	26	93	0	96	40	14	10	35	1.80
11982241--11982296	27	2.1	27	86	0	76	32	21	23	23	1.98
11992663--11992726	20	3.1	21	77	6	60	31	20	15	32	1.94
11992659--11992755	41	2.3	42	81	13	121	34	21	14	29	1.93
11992786--11992872	20	4.3	20	71	5	59	26	21	13	37	1.91
11992746--11992854	40	2.7	40	80	2	103	28	22	10	39	1.86
11992786--11992915	60	2.2	60	80	2	145	28	20	12	38	1.89
11992743--11992915	20	8.6	20	63	6	55	29	20	10	39	1.87
11995630--11995665	12	3.0	12	87	0	54	47	30	5	16	1.70
11995921--11995967	13	3.6	13	91	0	67	34	17	12	36	1.87
11996132--11996166	2	17.5	2	100	0	70	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11999883--11999911	15	1.9	15	100	0	58	65	0	34	0	0.93
12000631--12000689	27	2.2	27	96	0	109	45	20	11	22	1.83
12000675--12000705	14	2.2	14	94	0	53	41	29	16	12	1.85
12000684--12000737	20	2.7	20	80	8	65	44	22	12	20	1.85
12000762--12000812	26	1.9	26	84	4	66	25	21	15	37	1.93
12003162--12003257	21	4.6	21	82	7	115	23	15	39	20	1.91
12003625--12003815	42	4.5	42	82	2	222	35	31	12	20	1.90
12003625--12003805	21	8.6	21	73	8	145	35	32	12	19	1.90
12003953--12004080	42	3.0	42	90	0	202	26	12	35	25	1.91
12003921--12004080	84	1.9	83	84	3	216	25	13	35	25	1.92
12003998--12004064	21	3.2	21	62	29	52	25	13	35	25	1.92
12005557--12005594	20	1.9	20	88	0	58	34	18	10	36	1.85
12005590--12005662	34	2.1	34	94	0	128	17	13	19	49	1.80
12006074--12006132	22	2.7	22	89	0	91	20	13	47	18	1.82
12006297--12006411	40	2.9	40	78	8	108	40	13	20	24	1.89
12006287--12006411	20	6.2	20	64	14	60	42	14	20	23	1.88
12006357--12006425	20	3.5	19	69	15	50	37	8	24	28	1.85
12010595--12010647	23	2.3	24	84	12	67	66	0	16	16	1.26
12015233--12015285	19	2.8	19	80	5	54	79	5	0	15	0.91
12020695--12020735	15	2.6	16	81	14	50	78	0	7	14	0.96
12020670--12020750	13	6.4	13	72	11	51	72	0	9	17	1.10
12021066--12021103	19	2.0	19	85	10	51	63	0	2	34	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12021626--12021730	37	2.8	37	83	0	138	30	14	14	40	1.85
12022460--12023306	106	8.0	106	86	2	1073	23	18	24	34	1.96
12024249--12024325	22	3.5	22	94	0	136	20	14	27	37	1.91
12024721--12025067	172	2.0	172	91	3	563	25	17	20	37	1.93
12025103--12025175	16	4.7	15	76	20	55	2	10	8	78	1.07
12026342--12026377	8	4.6	8	89	6	56	55	13	16	13	1.69
12026342--12026377	15	2.3	15	90	4	54	55	13	16	13	1.69
12029657--12029698	16	2.6	16	81	7	50	76	2	7	14	1.10
12030021--12030058	19	2.0	19	85	10	51	63	0	2	34	1.09
12030586--12030690	37	2.8	37	88	0	156	29	15	15	40	1.88
12031906--12031936	14	2.1	15	94	5	55	12	9	0	77	0.99
12032676--12032738	32	2.0	32	87	6	92	26	17	3	52	1.60
12034834--12035002	92	1.9	91	88	2	259	47	6	12	33	1.67
12041634--12041807	90	1.9	90	90	0	276	43	7	11	37	1.69
12049798--12049827	15	1.9	16	93	6	53	20	6	6	66	1.38
12051194--12051259	19	3.2	22	60	27	54	27	3	27	42	1.70
12051171--12051263	39	2.4	38	89	7	136	29	3	25	41	1.71
12054958--12054984	14	1.9	14	100	0	54	14	22	14	48	1.81
12057527--12057551	12	2.1	12	100	0	50	20	8	16	56	1.65
12061287--12061324	19	2.1	18	90	5	58	23	13	18	44	1.85
12074147--12074236	46	2.0	46	90	0	144	22	21	11	45	1.82
12074159--12074442	66	4.2	65	75	15	272	21	23	11	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12074246--12074468	26	9.5	26	70	21	170	21	22	13	42	1.87
12074225--12074500	46	6.0	46	91	0	426	22	21	12	43	1.86
12074147--12074348	112	1.8	112	93	0	350	22	21	10	44	1.83
12081226--12081567	46	7.6	46	89	3	525	21	22	12	43	1.85
12081226--12081567	132	2.5	136	88	5	494	21	22	12	43	1.85
12081238--12081613	178	2.1	181	90	3	596	21	22	12	43	1.86
12081226--12081613	66	5.7	66	73	19	309	21	22	12	43	1.85
12081226--12081624	112	3.5	112	78	14	413	21	21	12	44	1.85
12081238--12081613	92	4.2	88	85	8	472	21	22	12	43	1.86
12082105--12082153	20	2.5	20	89	0	71	24	28	8	38	1.84
12087034--12087058	13	1.9	13	100	0	50	24	16	32	28	1.96
12090908--12091001	45	2.1	45	100	0	188	38	8	14	38	1.77
12091975--12092037	22	2.8	22	79	9	74	26	19	23	30	1.98
12094203--12094241	17	2.3	17	100	0	78	41	5	30	23	1.76
12096618--12096695	40	1.9	41	84	2	104	19	23	8	48	1.76
12096822--12096863	22	1.9	22	95	0	75	47	0	14	38	1.44
12097081--12097114	17	2.1	17	88	5	52	47	2	0	50	1.16
12102411--12102440	12	2.6	11	90	10	51	53	0	3	43	1.17
12102455--12102501	22	2.2	21	88	3	67	40	2	12	44	1.54
12102474--12102652	38	4.7	38	78	12	181	43	4	7	44	1.53
12102465--12102652	75	2.5	76	87	0	252	42	4	8	44	1.54
12102614--12102670	22	2.5	23	88	5	80	45	5	5	43	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12102675--12102725	16	2.9	18	78	16	63	47	5	7	39	1.57
12102556--12102799	130	1.8	133	82	6	318	41	4	9	44	1.58
12102781--12102859	29	2.7	31	88	7	112	36	1	3	58	1.24
12102938--12102967	12	2.5	12	100	0	60	23	23	36	16	1.94
12104312--12104341	7	4.3	7	95	0	51	26	3	0	70	1.03
12106026--12106191	83	2.0	83	100	0	332	33	16	26	22	1.96
12110245--12110274	12	2.6	11	90	10	51	53	0	3	43	1.17
12110254--12110322	26	2.6	26	84	9	77	50	2	4	42	1.37
12110259--12110331	26	2.9	24	80	15	76	50	2	2	43	1.30
12110299--12110452	38	4.2	36	77	14	156	43	4	8	43	1.55
12110361--12110389	14	2.1	14	100	0	58	41	6	6	44	1.58
12110491--12110535	24	1.9	24	86	4	65	42	4	8	44	1.56
12110527--12110601	28	2.6	28	85	10	91	37	1	5	56	1.31
12111828--12111909	39	2.1	40	86	8	116	28	10	0	60	1.30
12117994--12118018	2	12.5	2	100	0	50	0	48	0	52	1.00
12121111--12121151	21	2.0	21	85	9	57	43	12	4	39	1.63
12126959--12127084	39	3.2	39	73	21	102	46	12	10	30	1.76
12135439--12135551	57	2.0	57	96	0	208	44	5	16	33	1.71
12148562--12148824	81	3.3	81	89	2	388	43	19	9	27	1.81
12151612--12151819	42	5.2	42	81	9	263	25	3	18	51	1.62
12151689--12151805	34	3.2	33	77	14	90	27	4	17	50	1.65
12152120--12153296	424	2.8	425	91	1	1921	25	10	17	45	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12153287--12153342	23	2.4	23	87	0	76	46	14	12	26	1.80
12153303--12153348	23	2.0	23	82	0	56	45	15	10	28	1.79
12153336--12153405	30	2.2	30	80	7	77	51	18	10	20	1.74
12153357--12153474	34	3.4	36	67	17	81	55	17	9	17	1.68
12154324--12154662	34	9.9	34	68	5	173	28	13	21	37	1.91
12154248--12154662	103	4.1	101	81	4	443	29	13	20	36	1.91
12154731--12154802	37	2.0	35	86	13	101	20	23	30	25	1.99
12154681--12154846	83	2.0	84	83	3	210	19	19	33	27	1.97
12155415--12155473	29	2.0	29	86	0	82	45	16	8	28	1.77
12158871--12158903	16	2.1	16	88	5	50	60	0	6	33	1.21

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   74   75   76   77   78