genome.fa.s9634.2.7.7.80.10.50.1000.49.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  49  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)
9714684--9714812	45	2.8	46	77	13	142	27	27	5	40	1.78
9714769--9714845	35	2.2	35	86	2	102	29	28	3	37	1.75
9717673--9717731	29	2.0	29	86	0	82	23	22	11	42	1.86
9717699--9717868	81	2.1	81	82	5	209	28	21	11	37	1.89
9718030--9718642	109	5.6	109	85	2	750	27	18	18	35	1.94
9718030--9718646	164	3.8	162	83	2	734	27	18	18	35	1.94
9718029--9718642	273	2.3	272	85	2	829	28	18	18	35	1.94
9718964--9719186	95	2.3	96	84	5	283	26	23	15	34	1.94
9720617--9720651	17	2.1	17	88	0	52	42	14	11	31	1.81
9723424--9723483	28	2.1	29	84	3	77	25	23	10	41	1.85
9723454--9723620	81	2.1	81	90	2	264	28	20	11	39	1.88
9723757--9724368	54	11.3	54	85	5	729	27	18	18	34	1.95
9723759--9724368	109	5.6	108	85	4	761	27	19	18	34	1.95
9723776--9724368	164	3.6	161	86	5	793	27	18	18	35	1.95
9725381--9725568	95	2.0	95	90	2	297	23	25	17	34	1.96
9727611--9727760	58	2.7	56	90	5	248	42	6	4	46	1.51
9727785--9727860	39	1.9	39	84	5	100	52	2	2	42	1.29
9727916--9727957	19	2.2	19	91	0	66	42	21	0	35	1.53
9732428--9732484	23	2.5	24	91	8	100	42	7	15	35	1.75
9736168--9736210	20	2.2	20	91	0	68	32	25	4	37	1.77
9736352--9736448	3	30.0	3	80	10	61	37	3	3	56	1.31
9736391--9736430	2	20.5	2	85	14	57	45	2	0	52	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9736351--9736445	16	5.6	17	76	18	76	37	3	3	55	1.32
9737394--9737450	24	2.4	24	81	0	69	38	21	19	21	1.93
9737431--9737534	23	4.5	23	81	2	111	32	27	23	16	1.96
9737447--9737537	46	2.0	46	89	4	139	32	26	23	17	1.96
9738832--9739116	139	2.1	139	89	1	437	25	22	12	38	1.90
9743355--9743455	31	3.3	31	80	4	107	39	9	8	41	1.70
9744886--9744972	3	28.7	3	87	4	95	40	0	0	59	0.97
9745416--9745458	16	2.9	14	80	16	50	76	2	20	0	0.89
9745426--9745458	16	2.1	16	94	0	57	78	0	21	0	0.75
9746458--9746490	16	2.2	15	89	10	50	69	0	0	30	0.88
9757761--9757832	15	4.7	15	83	14	85	81	0	18	0	0.68
9757760--9757835	31	2.5	31	87	10	111	82	0	17	0	0.66
9757766--9757838	9	7.8	9	75	14	67	82	0	17	0	0.68
9758990--9760373	83	16.5	84	95	2	2420	28	13	21	36	1.91
9761100--9761644	113	4.8	113	82	6	667	38	13	18	29	1.89
9761095--9761644	226	2.4	225	91	3	874	38	13	18	29	1.89
9761902--9761976	3	24.7	3	81	8	80	41	0	0	58	0.98
9761899--9761964	20	3.2	20	87	8	89	40	0	0	59	0.98
9762417--9762459	16	2.9	14	80	16	50	76	2	20	0	0.89
9762427--9762459	16	2.1	16	94	0	57	78	0	21	0	0.75
9763006--9763061	30	1.9	29	89	7	87	42	10	1	44	1.49
9763336--9763360	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9776142--9776176	14	2.5	13	90	9	52	0	11	11	77	1.00
9777527--9777563	20	1.9	19	89	10	58	45	10	24	18	1.81
9777737--9777810	37	2.0	37	84	7	98	48	4	1	45	1.29
9778899--9778930	13	2.5	13	95	5	57	46	15	0	37	1.46
9779856--9779887	15	2.1	15	94	0	55	28	9	18	43	1.81
9783368--9783413	19	2.4	19	89	7	67	23	0	15	60	1.34
9784722--9784755	18	1.9	18	88	5	52	47	5	11	35	1.65
9786276--9786368	45	2.1	45	93	0	159	38	6	16	38	1.74
9786491--9786558	24	3.0	22	79	14	75	16	14	27	41	1.87
9786502--9786558	23	2.4	23	91	2	96	14	15	28	42	1.86
9792616--9792661	19	2.4	19	89	7	67	23	0	15	60	1.34
9793941--9793974	18	1.9	18	88	5	52	47	5	11	35	1.65
9795499--9795588	43	2.1	43	87	6	128	38	6	14	40	1.72
9795499--9795610	43	2.6	45	83	5	124	36	6	16	41	1.73
9795710--9795777	23	3.0	23	85	6	93	16	14	27	41	1.87
9804334--9804435	23	4.4	23	75	7	91	32	23	20	23	1.98
9804565--9804637	15	4.8	15	78	8	76	30	21	9	38	1.86
9804869--9804943	2	39.0	2	89	7	120	48	1	0	50	1.09
9809533--9809605	24	3.0	24	100	0	146	30	20	24	24	1.99
9809737--9809817	15	5.4	15	75	10	76	32	20	8	38	1.83
9809726--9809813	45	1.9	45	83	4	113	32	21	11	34	1.89
9810056--9810095	2	20.0	2	94	0	71	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9811031--9811058	10	2.8	10	100	0	56	21	25	10	42	1.85
9811181--9811212	4	8.0	4	100	0	64	0	25	0	75	0.81
9811744--9811799	21	2.8	20	83	5	76	33	25	21	19	1.97
9813760--9814230	112	4.2	112	88	3	682	33	11	12	43	1.78
9814488--9814537	23	2.2	23	92	0	82	32	18	12	38	1.87
9814565--9814634	23	3.0	23	89	0	104	37	18	5	38	1.75
9815293--9815325	15	2.2	15	94	0	57	36	33	12	18	1.88
9815437--9815505	24	2.8	26	83	12	85	31	24	5	37	1.79
9815470--9815505	12	3.0	12	91	0	63	36	25	5	33	1.79
9815813--9816033	64	3.5	63	84	4	248	27	19	20	33	1.96
9820221--9820271	23	2.2	23	89	0	75	33	19	9	37	1.85
9820041--9820297	87	3.0	87	92	0	433	31	14	11	42	1.81
9824276--9824324	22	2.2	22	100	0	98	42	34	4	18	1.69
9830953--9831152	84	2.4	84	81	5	208	17	23	17	42	1.89
9835397--9835453	22	2.5	23	91	5	98	15	22	43	17	1.87
9835775--9835808	17	2.0	17	100	0	68	29	41	0	29	1.57
9845028--9845105	30	2.5	31	85	2	104	64	8	6	20	1.45
9845028--9845130	30	3.4	30	81	5	84	61	8	8	21	1.52
9846533--9846566	3	11.7	3	87	6	52	64	2	0	32	1.08
9846723--9847008	40	6.7	40	72	14	189	25	17	33	23	1.96
9846727--9847139	171	2.4	173	82	4	449	26	17	31	24	1.97
9846944--9847290	134	2.6	131	79	5	374	27	17	30	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9847299--9847439	37	3.8	37	81	10	162	34	12	17	36	1.87
9847445--9847591	67	2.2	67	81	7	174	42	15	16	25	1.88
9847602--9847807	30	6.9	31	66	22	102	44	12	12	30	1.79
9848433--9848473	14	3.1	14	93	6	68	19	0	29	51	1.47
9849514--9849552	2	20.0	2	94	5	71	51	0	0	48	1.00
9853100--9853186	31	2.8	31	84	1	95	59	9	9	21	1.56
9853100--9853246	30	4.8	31	76	4	111	57	8	12	21	1.63
9856956--9856994	15	2.5	16	84	16	55	46	0	2	51	1.14
9859900--9859928	2	15.0	2	92	7	51	51	0	0	48	1.00
9862393--9862468	30	2.6	29	78	12	84	25	14	0	60	1.34
9863289--9863343	27	2.0	27	82	0	65	41	9	3	45	1.53
9863324--9863358	15	2.4	15	95	4	63	45	2	0	51	1.16
9863370--9863404	17	2.2	17	90	10	56	42	0	11	45	1.40
9863424--9863793	18	21.8	16	71	20	135	44	4	6	43	1.51
9863431--9863819	51	7.8	48	79	12	342	44	5	6	43	1.52
9863615--9863775	33	4.7	33	83	7	171	44	4	6	44	1.50
9863594--9863777	69	2.7	71	84	5	218	45	4	7	43	1.51
9863424--9863777	9	40.7	9	66	22	122	44	4	6	43	1.51
9863499--9863811	155	2.1	148	85	6	414	45	4	6	43	1.50
9863424--9863793	2	175.0	2	64	24	106	44	4	6	43	1.51
9863669--9863845	86	2.1	86	85	6	234	45	5	5	44	1.47
9863879--9864015	61	2.2	61	90	0	220	47	6	10	35	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9864651--9864703	6	8.8	6	82	0	61	35	45	11	7	1.69
9864681--9864733	6	9.0	6	87	4	54	43	47	5	3	1.45
9864707--9864742	12	3.0	12	91	0	54	47	44	2	5	1.41
9864693--9864733	18	2.3	18	91	4	66	46	46	2	4	1.37
9867320--9867368	20	2.5	20	86	0	71	10	8	18	63	1.50
9868080--9868119	13	3.0	13	83	16	55	60	0	0	40	0.97
9870051--9870113	24	2.6	24	94	0	108	23	22	22	31	1.98
9870050--9870135	24	3.6	23	76	19	79	22	22	23	32	1.98
9871619--9871656	16	2.4	16	90	0	58	47	10	31	10	1.72
9883804--9883841	2	19.0	2	100	0	76	50	0	0	50	1.00

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