genome.fa.s8242.2.7.7.80.10.50.1000.10.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  10  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)
1950291--1950624	43	7.7	43	91	1	499	35	24	21	17	1.95
1955087--1955255	43	3.9	43	79	3	169	37	24	20	17	1.94
1955087--1955249	86	1.9	87	87	3	240	36	23	21	17	1.94
1958500--1958556	28	2.0	28	96	0	105	36	26	19	17	1.94
1960248--1960272	2	12.5	2	100	0	50	52	0	0	48	1.00
1962763--1962802	18	2.2	18	90	0	62	30	12	15	42	1.83
1973698--1974029	40	8.1	41	89	3	492	37	22	18	21	1.94
1973698--1974029	122	2.7	122	91	2	540	37	22	18	21	1.94
1973698--1974029	82	4.0	82	89	3	501	37	22	18	21	1.94
1974063--1974115	21	2.5	21	90	0	79	18	20	30	30	1.97
1976119--1976161	22	2.0	22	86	4	61	67	18	0	13	1.23
1976749--1976782	17	1.9	18	88	5	52	47	20	2	29	1.65
1976739--1976788	27	1.9	26	88	8	75	52	18	4	26	1.63
1977287--1977489	37	5.5	37	73	18	145	44	3	9	41	1.55
1977291--1977486	77	2.7	75	80	11	201	44	4	9	41	1.56
1977481--1977533	21	2.5	21	82	14	65	47	1	3	47	1.31
1977478--1977534	23	2.4	24	77	14	73	45	1	3	49	1.29
1977553--1977619	5	14.2	5	80	9	54	29	0	2	67	1.06
1977544--1977619	17	4.5	17	68	23	54	28	0	2	68	1.03
1977535--1977604	25	2.8	25	82	8	81	30	1	4	64	1.21
1977546--1977613	4	15.8	4	76	22	50	29	0	2	67	1.05
1977547--1977619	9	8.2	9	78	20	66	30	0	2	67	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1979768--1979811	23	1.9	23	85	0	61	15	18	2	63	1.41
1989628--1989690	21	3.0	20	80	15	74	25	39	23	11	1.88
1994471--1994555	22	3.9	22	73	6	82	30	20	17	31	1.95
1994471--1994556	44	2.0	44	88	0	127	30	20	17	31	1.96
1995243--1995268	2	13.0	2	100	0	52	50	0	0	50	1.00
2000511--2000556	19	2.3	21	78	14	53	41	4	6	47	1.49
2002252--2002283	10	3.3	10	95	4	57	62	0	0	37	0.95
2002254--2002291	16	2.4	16	87	12	53	65	0	0	34	0.93
2002487--2003336	124	6.9	123	78	11	752	27	17	15	40	1.89
2002759--2002956	109	1.8	109	90	2	317	28	18	16	37	1.92
2003006--2003336	122	2.7	121	88	3	477	26	18	13	41	1.88
2003551--2003733	76	2.4	76	92	0	294	31	20	21	26	1.98
2004782--2004937	54	2.9	54	92	0	249	23	24	14	37	1.93
2009345--2009403	9	6.2	9	79	16	66	1	15	0	83	0.74
2009345--2009397	21	2.7	19	83	11	70	1	16	0	81	0.79
2009345--2009396	10	5.2	10	77	9	61	1	15	0	82	0.75
2009392--2009445	26	2.0	26	89	3	81	3	16	11	68	1.33
2009732--2009761	2	15.0	2	100	0	60	50	0	0	50	1.00
2017978--2018038	26	2.3	26	94	5	106	24	27	13	34	1.93
2024158--2024182	13	1.9	13	100	0	50	44	0	24	32	1.54
2025433--2025536	37	2.8	37	85	0	127	40	14	11	33	1.82
2025694--2025725	12	2.7	12	95	0	55	18	0	0	81	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2030077--2030120	13	3.4	12	81	12	52	81	4	11	2	0.92
2030073--2030133	26	2.3	27	82	2	70	81	4	9	3	0.94
2030737--2030791	22	2.5	22	93	0	92	38	23	12	25	1.90
2031534--2032830	106	12.3	106	89	1	1892	34	24	18	23	1.96
2033564--2033743	37	4.8	37	81	5	209	40	16	12	31	1.86
2033553--2033704	76	2.0	76	100	0	304	39	18	11	30	1.87
2034298--2034341	23	2.0	22	86	13	63	27	4	0	68	1.09
2034429--2034469	11	3.6	11	87	6	55	24	4	4	65	1.32
2034593--2034656	32	2.0	31	82	8	76	25	4	1	68	1.17
2034691--2034721	2	15.5	2	100	0	62	48	0	0	51	1.00
2035057--2035107	27	2.0	24	81	11	57	15	5	3	74	1.16
2038654--2038921	40	6.8	39	80	6	260	33	14	13	38	1.85
2038694--2038762	20	3.5	20	70	7	68	36	13	15	34	1.87
2038682--2038780	20	4.9	21	64	8	62	37	13	11	38	1.80
2038665--2038960	80	3.8	80	77	10	263	31	13	14	40	1.84
2038860--2038923	18	3.4	18	67	28	53	25	14	17	43	1.86
2038894--2038954	20	3.2	19	72	6	61	29	14	19	36	1.92
2038705--2038976	40	7.0	36	77	12	136	32	13	13	39	1.84
2041741--2041806	2	33.5	2	90	3	107	46	1	1	50	1.20
2043436--2043476	22	1.9	22	90	5	66	12	17	4	65	1.42
2043434--2043484	21	2.4	22	80	3	68	9	15	3	70	1.29
2044090--2044140	20	2.5	20	87	0	75	23	19	23	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2046362--2046414	26	2.0	26	100	0	106	26	11	35	26	1.90
2049849--2049908	23	2.7	22	82	5	75	23	31	23	21	1.98
2049864--2049907	23	1.9	23	95	0	79	22	27	25	25	2.00
2050647--2050693	21	2.2	21	96	0	85	34	31	8	25	1.86
2052065--2052111	21	2.3	21	78	10	53	38	8	2	51	1.45
2053901--2054104	102	2.0	102	100	0	408	30	18	29	21	1.97
2055677--2055724	16	3.1	16	81	3	53	52	25	14	8	1.69
2056390--2056450	31	1.9	32	90	3	97	42	22	11	22	1.86
2059802--2059930	56	2.3	56	94	0	222	27	21	19	31	1.97
2059905--2060022	47	2.5	47	75	5	112	29	22	20	27	1.98
2061557--2061618	22	2.8	22	80	9	56	72	9	6	11	1.27
2071547--2071596	23	2.3	22	83	10	59	30	14	16	40	1.87
2074332--2074365	17	1.9	18	88	5	52	32	14	8	44	1.76
2074424--2074915	244	2.0	245	99	0	977	30	15	19	34	1.93
2076606--2076635	5	6.0	5	100	0	60	20	0	0	80	0.72
2076685--2076744	31	1.9	31	86	0	84	53	8	11	26	1.65
2077736--2077762	13	2.1	13	100	0	54	7	25	37	29	1.83
2077781--2077824	2	23.0	2	90	9	74	52	0	0	47	1.00
2082206--2082243	18	2.2	18	85	4	51	13	50	0	36	1.42
2091605--2091641	19	2.0	19	89	5	58	43	10	8	37	1.69
2092424--2092466	17	2.5	17	76	0	50	27	11	11	48	1.74
2092498--2092533	17	2.1	17	100	0	72	41	11	5	41	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2094285--2094331	24	2.0	24	86	0	67	29	12	25	31	1.93
2095429--2095478	17	2.9	17	84	0	64	44	10	2	44	1.49
2096560--2096604	22	2.1	21	83	4	54	71	0	17	11	1.14
2107856--2107899	22	2.0	22	95	0	79	27	22	15	34	1.95
2119239--2119323	24	3.5	24	85	9	111	0	20	1	78	0.81
2119239--2119305	8	8.5	8	91	8	111	0	22	1	76	0.87
2119248--2119322	6	12.8	6	69	19	52	0	20	1	78	0.82
2119280--2119333	17	2.9	18	81	18	58	1	12	3	81	0.91
2141033--2141075	9	5.0	9	85	2	54	58	0	0	41	0.98
2141393--2141464	35	2.1	35	82	10	85	25	20	13	40	1.90
2141592--2141673	20	4.1	20	91	0	137	37	18	18	25	1.93
2169626--2169684	21	2.7	22	73	5	66	22	23	20	33	1.97
2169669--2169806	20	6.9	20	84	3	143	29	23	21	24	1.99
2169981--2170023	22	2.0	22	95	0	77	23	41	16	18	1.89
2170411--2170452	19	2.2	19	83	8	50	14	21	21	42	1.88
2170420--2170532	40	2.8	39	80	4	136	16	18	23	41	1.90
2170420--2170532	20	5.7	20	89	1	120	16	18	23	41	1.90
2170499--2170542	20	2.2	20	91	0	70	11	13	20	54	1.69
2172252--2172301	18	2.8	17	91	8	82	30	20	8	42	1.80
2172519--2172574	20	2.8	20	88	0	85	19	21	25	33	1.97
2172519--2172585	20	3.5	18	82	11	80	17	20	26	34	1.96
2174749--2174802	20	2.7	20	82	0	63	44	24	18	12	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2174846--2175089	20	12.8	20	76	11	208	27	18	20	33	1.96
2174927--2175081	54	2.9	54	88	1	213	24	17	21	36	1.95
2175060--2175329	140	1.9	140	96	0	504	42	15	12	28	1.84
2175389--2175423	18	1.9	18	94	0	61	17	2	25	54	1.57
2177665--2177718	24	2.2	24	90	0	81	40	18	18	22	1.91
2178540--2178601	20	3.2	20	90	2	90	27	19	25	27	1.99
2178628--2178667	21	1.9	21	89	0	62	40	15	25	20	1.90
2180239--2180265	6	4.5	6	100	0	54	0	14	51	33	1.43
2180366--2180439	22	3.4	22	94	0	130	39	27	14	18	1.90
2180432--2180487	20	2.8	20	91	0	94	46	21	21	10	1.81

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