genome.fa.s1129.2.7.7.80.10.50.1000.70.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  70  of  89  ( 10573 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)
16789243--16789310	30	2.3	30	82	7	84	35	17	5	41	1.74
16791412--16791460	25	2.0	25	84	8	64	34	10	8	46	1.67
16792076--16792112	18	2.0	19	89	5	58	40	2	0	56	1.13
16792868--16792920	28	1.9	27	81	11	63	45	5	13	35	1.67
16793212--16793245	16	2.1	16	100	0	68	70	5	0	23	1.09
16793165--16793290	5	25.0	5	67	19	66	69	4	3	23	1.22
16793250--16793289	19	2.1	19	86	9	55	70	2	2	25	1.13
16793250--16793698	131	3.4	130	79	8	379	50	11	13	24	1.75
16793346--16793698	133	2.7	133	86	3	466	49	12	13	23	1.76
16793673--16793773	29	3.3	28	78	15	103	52	2	13	30	1.56
16793678--16793750	34	2.1	34	94	0	128	57	2	10	28	1.47
16799063--16799089	9	3.0	9	100	0	54	66	0	0	33	0.92
16799047--16799107	24	2.6	24	80	12	81	72	0	0	27	0.85
16799425--16799471	24	1.9	25	86	4	69	57	0	14	27	1.38
16799459--16799491	15	2.1	16	88	5	50	57	0	12	30	1.35
16801133--16801313	49	3.7	48	76	11	170	40	19	17	22	1.91
16801133--16801317	25	7.5	25	80	5	189	40	20	17	22	1.91
16801131--16801317	74	2.5	74	84	3	234	40	20	17	21	1.91
16805698--16805932	25	9.6	25	83	2	262	36	21	20	21	1.96
16805729--16805934	74	2.8	74	87	0	286	36	21	19	21	1.95
16809942--16810001	9	6.4	9	76	14	50	66	1	0	31	1.01
16809956--16810001	15	3.1	15	81	9	58	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16810375--16810487	49	2.3	50	92	3	185	33	23	19	23	1.97
16810375--16810487	25	4.6	25	92	3	185	33	23	19	23	1.97
16811493--16811523	15	2.1	15	100	0	62	19	22	0	58	1.40
16812538--16812578	20	2.0	20	85	0	55	17	0	34	48	1.47
16812549--16812588	13	2.9	14	85	14	57	20	0	32	47	1.50
16812824--16812853	15	1.9	16	93	6	53	36	0	3	60	1.14
16813394--16813435	20	2.1	20	90	0	66	50	7	19	23	1.72
16815540--16815569	12	2.5	12	100	0	60	26	50	16	6	1.70
16821273--16821299	13	2.1	13	100	0	54	22	22	22	33	1.97
16821213--16821362	77	2.0	76	84	4	194	32	20	23	24	1.98
16822543--16822610	23	3.0	23	82	0	82	19	26	26	27	1.99
16824054--16824104	21	2.4	21	80	6	59	29	9	11	49	1.72
16825629--16825653	6	4.2	6	100	0	50	36	48	16	0	1.46
16826153--16826228	20	3.8	19	77	14	82	18	17	28	35	1.93
16826138--16826227	40	2.2	40	82	7	103	22	16	25	35	1.95
16827271--16827367	48	2.0	48	93	0	167	30	20	15	32	1.94
16833655--16833752	18	5.1	18	68	17	56	46	1	2	50	1.19
16833673--16833750	27	2.9	27	71	9	68	43	1	1	53	1.16
16833731--16833773	18	2.5	17	85	7	59	53	0	2	44	1.13
16835094--16835148	27	2.3	23	75	22	58	21	27	18	32	1.96
16835100--16835153	27	2.0	27	96	0	99	24	25	16	33	1.96
16837144--16837174	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16838717--16838795	29	2.7	29	98	0	149	31	21	8	37	1.84
16839116--16839156	18	2.3	18	91	4	66	29	4	2	63	1.28
16841167--16841192	9	2.9	9	100	0	52	34	23	34	7	1.83
16841164--16841198	12	2.9	12	91	0	52	34	22	34	8	1.85
16845192--16845234	18	2.4	18	81	14	61	51	0	0	48	1.00
16845205--16845280	27	2.7	29	74	12	77	48	3	1	46	1.29
16845666--16845717	23	2.3	23	86	0	68	42	7	17	32	1.77
16845814--16846515	200	3.5	199	83	6	823	30	15	14	39	1.87
16847095--16847268	96	1.8	96	100	0	348	25	14	22	36	1.93
16848995--16849022	3	9.3	3	100	0	56	32	0	0	67	0.91
16849289--16849348	23	2.4	25	76	17	72	35	1	6	56	1.35
16859564--16859604	20	2.0	20	85	0	55	29	12	19	39	1.88
16859737--16859794	20	2.9	21	74	7	66	37	15	24	22	1.93
16859736--16859828	40	2.3	41	87	5	127	39	15	20	24	1.91
16862347--16862470	8	17.4	7	80	12	89	45	0	0	53	1.11
16862345--16862464	22	5.6	20	82	14	82	44	0	0	54	1.11
16862369--16862470	2	53.5	2	87	9	151	48	0	0	51	1.00
16863999--16864101	2	51.0	2	70	19	63	44	1	7	45	1.43
16864022--16864101	32	2.5	31	84	6	106	42	1	8	47	1.42
16869390--16869429	17	2.3	18	86	4	55	20	7	0	72	1.08
16872567--16872630	19	3.4	18	79	14	67	51	0	0	48	1.00
16873862--16874010	65	2.3	63	82	5	167	35	16	4	42	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16873862--16874047	63	2.9	64	80	5	164	32	16	5	45	1.71
16874177--16874343	36	4.6	36	71	11	117	32	13	9	44	1.76
16874163--16874352	72	2.6	73	83	8	235	34	14	9	41	1.79
16874163--16874352	36	5.2	35	70	17	111	34	14	9	41	1.79
16874604--16874735	70	1.9	70	85	1	185	25	19	10	44	1.82
16877033--16877071	8	4.8	8	81	6	51	15	41	23	20	1.90
16877042--16877104	17	3.6	17	86	2	90	19	44	20	15	1.87
16877112--16877290	29	6.3	28	77	6	121	28	7	22	41	1.81
16877146--16877252	55	1.9	55	87	7	155	34	7	17	40	1.78
16877146--16877218	26	2.6	29	74	8	80	31	8	19	41	1.81
16877141--16877291	29	5.3	29	78	6	141	31	7	20	41	1.80
16886560--16886589	13	2.3	13	94	0	51	20	43	23	13	1.86
16886511--16886581	18	4.0	18	88	3	117	16	46	22	14	1.83
16886626--16886779	29	5.3	29	74	4	114	30	6	22	40	1.79
16886713--16886779	29	2.3	29	94	0	116	26	4	25	43	1.74
16887483--16887551	24	2.9	24	77	0	75	24	13	18	43	1.86
16887799--16887830	2	16.0	2	100	0	64	50	0	0	50	1.00
16888251--16888345	45	2.1	47	82	4	113	49	1	2	47	1.20
16888279--16888345	14	4.6	14	71	10	53	47	1	1	49	1.19
16890094--16890182	31	3.0	28	76	10	88	40	10	11	38	1.75
16890142--16890198	29	2.0	29	82	0	69	38	12	15	33	1.85
16893446--16893501	3	18.7	3	100	0	112	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16894834--16894906	24	3.0	24	81	0	92	52	15	12	20	1.74
16894836--16894921	24	3.6	24	80	0	91	48	15	16	19	1.81
16895294--16895323	12	2.5	12	100	0	60	26	26	13	33	1.93
16897081--16897113	13	2.4	14	85	10	50	21	21	30	27	1.98
16902930--16902972	20	2.2	20	87	4	61	34	9	6	48	1.62
16903480--16903525	15	2.9	15	81	18	58	8	30	0	60	1.26
16905818--16905869	23	2.3	23	78	21	56	71	5	0	23	1.07
16905838--16905871	11	3.0	11	87	8	50	76	2	0	20	0.92
16915263--16915297	14	2.5	14	90	0	52	28	5	5	60	1.43
16917835--16920946	174	17.8	174	89	1	4456	36	15	11	36	1.84
16918893--16918923	15	2.1	15	100	0	62	74	0	19	6	1.03
16918719--16919097	189	2.0	189	91	1	616	40	14	10	34	1.81
16920940--16920985	22	2.1	22	83	0	56	32	4	2	60	1.28
16921508--16921539	15	2.1	15	100	0	64	37	28	6	28	1.81
16923743--16924091	131	2.7	131	83	0	437	40	17	10	31	1.83
16926152--16926195	3	15.7	3	81	13	58	70	0	0	29	0.88
16926662--16926708	23	2.0	23	87	0	67	23	12	17	46	1.82
16927196--16927234	21	1.9	20	84	5	51	33	28	12	25	1.93
16943679--16943719	16	2.4	18	76	8	50	80	2	2	14	0.92
16945335--16945518	96	1.9	97	89	3	291	23	23	16	36	1.94
16945432--16945905	135	3.5	136	89	2	704	25	20	17	36	1.94
16945268--16945714	232	1.9	231	80	4	524	25	20	19	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16947052--16947117	27	2.4	27	100	0	132	69	4	10	15	1.32
16949704--16949736	12	2.8	12	95	4	59	84	6	0	9	0.76
16954772--16954821	21	2.4	21	80	12	59	78	8	0	14	0.97
16954769--16954817	23	2.2	22	80	16	57	77	8	0	14	0.98
16959159--16959234	33	2.3	33	97	0	143	55	13	2	28	1.51
16962730--16963447	360	2.0	358	97	2	1370	37	14	20	27	1.91
16964994--16966426	174	8.3	174	91	2	2226	36	14	11	36	1.83
16967679--16967724	22	2.1	22	88	8	67	32	2	4	60	1.28
16968338--16968623	58	5.1	56	73	7	206	34	9	15	40	1.80
16968620--16968730	42	2.7	41	80	8	127	27	21	21	29	1.99

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   79   80   
          81   82   83   84   85   86   87   88   89