genome.fa.s9462.2.7.7.80.10.50.1000.50.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   90   91   

This is table  50  of  91  ( 10815 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)
10750368--10750396	15	1.9	15	100	0	58	24	20	0	55	1.44
10753109--10753137	15	1.9	15	100	0	58	24	20	0	55	1.44
10754020--10754048	15	1.9	15	100	0	58	24	20	0	55	1.44
10747876--10757011	914	10.0	914	99	0	17921	29	21	13	35	1.91
10758349--10758392	2	22.0	2	95	0	79	50	0	2	47	1.13
10760768--10760799	16	2.0	16	100	0	64	43	6	18	31	1.75
10762888--10762954	16	4.1	16	71	27	52	7	17	2	71	1.22
10765949--10765997	24	2.1	24	88	3	73	14	14	16	55	1.70
10769561--10769599	11	3.6	11	86	6	62	23	30	15	30	1.95
10769553--10769599	21	2.2	21	100	0	94	21	31	14	31	1.94
10802495--10802676	90	2.0	91	88	1	267	27	23	27	21	1.99
10802767--10802821	26	2.1	26	100	0	110	27	16	30	25	1.96
10802773--10802828	26	2.2	26	93	0	94	30	16	28	25	1.96
10806896--10807077	90	2.0	91	84	1	240	28	22	27	21	1.99
10815895--10815921	14	1.9	14	100	0	54	37	0	40	22	1.54
10818139--10818170	5	6.6	5	92	7	57	0	21	0	78	0.76
10818164--10818216	26	2.0	27	92	3	90	13	11	13	62	1.55
10824159--10824253	30	3.2	29	80	14	104	33	16	26	23	1.96
10825085--10825109	5	5.0	5	100	0	50	80	0	20	0	0.72
10827875--10828045	91	1.9	91	82	2	216	22	28	20	29	1.98
10833030--10833179	75	2.0	75	85	7	207	26	22	16	34	1.95
10839486--10839528	23	1.9	21	81	13	50	32	18	13	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10843724--10843774	19	2.6	20	90	3	77	43	5	15	35	1.71
10844672--10844731	30	2.0	31	86	3	86	53	10	8	28	1.63
10846047--10846085	18	2.1	19	86	13	55	28	28	2	41	1.69
10848637--10848696	30	2.0	31	86	3	86	53	10	8	28	1.63
10852555--10852605	24	2.1	24	85	7	68	13	13	17	54	1.70
10856265--10856359	30	3.2	29	77	14	95	32	16	28	22	1.96
10856277--10856359	29	2.8	28	80	10	85	32	16	28	21	1.96
10860385--10860416	16	2.0	16	100	0	64	43	6	18	31	1.75
10865593--10865637	20	2.1	22	88	8	67	20	37	11	31	1.87
10871408--10871513	37	2.9	36	92	2	169	29	36	5	28	1.80
10874175--10874226	22	2.4	22	83	6	61	30	25	15	28	1.96
10879279--10879382	33	3.1	33	82	9	95	30	36	1	30	1.69
10883304--10883407	33	3.1	33	82	9	95	30	36	1	30	1.69
10896706--10896758	21	2.4	23	75	6	56	64	1	26	7	1.31
10899063--10899092	13	2.4	13	94	5	53	43	0	30	26	1.55
10910656--10910685	13	2.4	13	94	5	53	43	0	30	26	1.55
10919366--10919433	17	3.9	17	78	3	64	39	8	14	36	1.78
10919389--10919432	18	2.5	18	85	10	56	43	11	9	36	1.72
10935355--10935410	24	2.3	24	93	0	94	30	23	14	32	1.94
10945648--10945774	36	3.7	34	82	10	82	29	3	34	32	1.73
10945685--10945797	36	3.2	35	88	6	156	28	3	35	32	1.74
10945702--10945797	13	7.9	12	70	18	56	30	3	35	31	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10946137--10946187	19	2.6	20	87	3	68	45	5	15	33	1.71
10949305--10949348	19	2.6	16	83	16	61	0	18	2	79	0.83
10949311--10949346	19	1.9	19	94	5	65	0	19	2	77	0.88
10949754--10949850	13	8.0	12	72	22	62	28	3	37	30	1.73
10949739--10949851	36	3.2	36	92	1	174	27	3	36	32	1.74
10952467--10952510	19	2.6	16	83	16	61	0	18	2	79	0.83
10952473--10952508	19	1.9	19	94	5	65	0	19	2	77	0.88
10952916--10953012	13	8.0	12	72	22	62	28	3	37	30	1.73
10952901--10953013	36	3.2	36	92	1	174	27	3	36	32	1.74
10953353--10953403	19	2.6	20	87	3	68	45	5	15	33	1.71
10961803--10961846	19	2.6	16	83	16	61	0	18	2	79	0.83
10961809--10961844	19	1.9	19	94	5	65	0	19	2	77	0.88
10962252--10962348	13	8.0	12	72	22	62	28	3	37	30	1.73
10962237--10962349	36	3.2	36	92	1	174	27	3	36	32	1.74
10962689--10962739	19	2.6	20	87	3	68	45	5	15	33	1.71
10974077--10974258	91	2.0	91	93	0	310	31	21	16	30	1.95
10987972--10988014	23	1.9	21	81	13	50	37	11	18	32	1.87
10993354--10993466	36	3.2	36	92	1	174	32	36	3	27	1.74
10993354--10993492	11	11.9	11	69	21	70	31	36	2	28	1.72
10993855--10993896	17	2.6	16	85	14	59	80	2	16	0	0.81
10999106--10999199	36	2.6	36	94	0	161	30	37	3	28	1.73
11001637--11001671	16	2.1	17	89	5	54	5	11	5	77	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11007110--11007159	19	2.6	19	93	0	82	44	6	16	34	1.72
11008058--11008117	30	2.0	31	86	3	86	53	10	8	28	1.63
11010528--11010598	20	3.7	19	80	10	65	5	15	5	73	1.21
11011302--11011352	19	2.6	20	90	3	77	43	5	15	35	1.71
11012214--11012274	30	2.0	31	84	9	81	52	9	8	29	1.63
11016054--11016093	21	1.9	22	90	10	66	2	5	15	77	1.04
11017970--11018021	21	2.6	21	90	6	81	34	13	5	46	1.67
11018799--11018845	11	4.1	11	75	20	51	27	2	36	34	1.69
11018794--11018878	35	2.4	37	86	4	111	29	2	36	31	1.70
11023284--11023370	35	2.4	37	88	5	124	31	3	36	28	1.74
11027908--11027936	15	2.0	15	93	6	51	0	20	3	75	0.94
11027929--11027990	29	2.2	28	79	2	70	9	14	14	61	1.57
11027983--11028019	6	6.2	6	87	0	56	2	13	2	81	0.92
11028781--11028954	91	1.9	91	89	0	267	28	21	27	22	1.99
11031537--11031583	24	2.0	24	82	0	58	27	23	17	31	1.96
11043479--11043522	10	4.8	10	94	5	60	0	9	11	79	0.93
11043466--11043495	13	2.3	13	100	0	60	0	13	6	80	0.91
11045246--11045294	19	2.6	19	96	0	89	57	6	12	24	1.58
11062255--11062336	43	1.9	43	82	9	105	30	0	18	51	1.47
11062735--11062776	22	1.9	22	90	9	68	14	11	4	69	1.34
11067684--11067711	14	2.0	14	100	0	56	57	28	0	14	1.38
11068090--11068129	20	2.0	21	90	5	64	57	0	22	20	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11068795--11068860	27	2.4	27	92	0	114	19	21	36	22	1.95
11071567--11071598	16	2.0	16	100	0	64	43	6	18	31	1.75
11078246--11078290	13	3.5	13	84	3	56	35	35	2	26	1.69
11079217--11079255	20	1.9	21	84	5	53	30	0	41	28	1.57
11079593--11079644	21	2.6	21	90	6	81	48	5	13	32	1.66
11083627--11083678	19	2.6	21	87	6	72	46	3	13	36	1.62
11086035--11086059	10	2.5	10	100	0	50	92	8	0	0	0.40
11093432--11093499	24	2.8	24	81	0	82	33	17	19	29	1.95
11093439--11093515	24	3.2	23	78	10	75	36	19	16	27	1.93
11106349--11106373	8	3.1	8	100	0	50	36	0	36	28	1.58
11111148--11111199	21	2.6	21	87	6	63	34	13	5	46	1.67
11111611--11111650	19	2.0	20	86	13	57	22	10	0	67	1.20
11112380--11112431	19	2.6	21	84	6	72	44	7	13	34	1.72
11113945--11114069	36	3.5	36	95	0	214	25	36	4	32	1.77
11113934--11114085	72	2.1	72	85	0	205	28	37	3	30	1.75
11118488--11118620	36	3.7	36	93	0	212	25	37	4	32	1.76
11118485--11118636	72	2.1	72	85	0	205	28	37	3	30	1.75
11119427--11119466	19	2.0	20	86	13	57	67	0	10	22	1.20
11119878--11119929	19	2.6	21	90	6	81	46	7	13	32	1.72
11122944--11123012	33	2.1	33	83	5	86	31	1	36	30	1.67
11126976--11127014	18	2.1	19	85	4	53	2	17	5	74	1.12
11127432--11127500	33	2.1	33	83	5	86	31	1	36	30	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11132817--11132874	1	58.0	1	80	0	62	0	1	8	89	0.55
11132817--11132873	10	5.5	10	88	12	80	0	1	8	89	0.55
11132817--11132875	11	5.5	11	90	9	88	0	1	10	88	0.60
11135484--11135519	18	1.9	20	88	11	58	69	0	8	22	1.15
11135935--11135983	21	2.4	21	90	6	75	44	8	12	34	1.71
11138284--11138315	13	2.5	13	100	0	64	34	37	21	6	1.79
11138989--11139162	90	1.9	91	86	1	251	28	21	27	21	1.99
11140938--11140992	23	2.3	25	84	6	78	61	12	16	9	1.55
11142250--11142304	24	2.3	25	81	6	60	32	16	21	29	1.95
11144843--11144897	23	2.3	25	84	6	78	61	12	16	9	1.55

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   90   91