genome.fa.s8620.2.7.7.80.10.50.1000.56.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   

This is table  56  of  64  ( 7674 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)
11338968--11339161	20	9.6	20	81	5	221	35	25	19	19	1.95
11338968--11339161	60	3.2	60	83	0	253	35	25	19	19	1.95
11339308--11339361	22	2.5	22	78	3	65	24	38	16	20	1.92
11339542--11339612	33	2.2	33	92	0	115	11	22	18	47	1.80
11339731--11339800	33	2.2	32	89	2	104	41	25	24	8	1.83
11339796--11339893	19	5.7	19	70	22	81	10	24	22	42	1.84
11339818--11339907	14	5.7	14	74	23	81	8	25	23	42	1.83
11339801--11339915	33	3.5	33	95	0	212	9	24	20	45	1.81
11341611--11341897	93	3.1	93	98	1	567	22	12	18	46	1.83
11341941--11342069	19	7.3	19	75	17	125	45	28	17	8	1.77
11341977--11342069	33	2.8	32	91	4	150	46	27	18	7	1.76
11341941--11342069	52	2.5	52	74	14	140	45	28	17	8	1.77
11342065--11342199	19	7.6	19	75	16	128	11	19	23	45	1.82
11342087--11342143	14	3.7	14	77	20	60	10	21	22	45	1.82
11342070--11342162	33	2.8	33	95	0	168	10	20	21	47	1.80
11343994--11344029	12	3.0	12	83	0	54	19	0	16	63	1.30
11344096--11344131	14	2.6	14	95	0	63	33	0	22	44	1.53
11344238--11344337	19	5.6	18	85	12	136	43	18	24	15	1.87
11344366--11344672	19	17.4	19	79	16	358	14	20	18	47	1.83
11344366--11344605	71	3.4	71	83	11	355	15	20	17	47	1.83
11344334--11344672	142	2.4	136	89	6	504	14	20	18	46	1.83
11344366--11344644	52	5.2	52	90	6	354	14	20	17	47	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11345379--11345747	20	18.5	20	85	4	449	20	18	26	34	1.96
11346270--11346341	37	1.9	37	85	2	99	18	22	20	38	1.93
11346344--11346384	20	2.0	20	100	0	82	29	9	9	51	1.67
11346507--11346546	17	2.4	17	86	0	53	57	0	2	40	1.12
11346679--11346714	13	2.8	13	100	0	72	41	0	5	52	1.24
11349761--11349848	36	2.5	36	92	1	151	17	14	30	37	1.90
11349868--11349957	38	2.4	38	90	3	137	10	12	40	37	1.76
11350118--11350180	28	2.3	28	88	2	101	17	7	31	42	1.78
11351172--11351308	2	73.5	2	68	28	81	40	1	2	54	1.24
11351166--11351308	7	20.1	7	77	18	111	40	1	2	55	1.23
11351166--11351309	21	6.9	21	76	18	124	40	1	2	55	1.23
11351169--11351301	51	2.6	49	80	14	155	40	1	3	54	1.25
11351883--11351936	17	3.3	17	71	7	58	64	22	9	3	1.38
11352375--11352457	36	2.3	36	87	0	112	31	10	39	18	1.85
11352512--11352589	33	2.4	32	80	6	93	48	0	0	51	1.00
11352528--11352589	28	2.3	29	81	13	78	50	0	0	50	1.00
11353060--11353140	9	8.8	9	69	17	51	22	4	1	71	1.12
11361000--11361334	2	176.5	2	69	24	203	40	1	3	54	1.25
11361012--11361368	66	5.2	66	77	18	326	40	1	3	55	1.24
11361000--11361348	7	50.4	7	73	20	265	40	1	3	55	1.25
11363359--11363399	22	1.9	21	95	5	73	14	17	43	24	1.86
11374255--11374293	18	2.2	18	85	0	51	61	15	7	15	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11386272--11386320	24	2.2	21	85	10	62	12	26	40	20	1.87
11387425--11387463	16	2.5	16	87	4	53	28	2	0	69	1.02
11394350--11394389	21	2.0	21	85	5	55	27	37	25	10	1.88
11396960--11397021	23	2.7	23	100	0	124	24	41	20	12	1.87
11399908--11399981	32	2.3	32	100	0	148	14	16	25	43	1.86
11401909--11401976	2	34.5	2	97	2	129	50	0	0	50	1.00
11408976--11409041	28	2.3	28	84	10	80	24	7	15	53	1.68
11412084--11412115	2	16.0	2	100	0	64	50	0	0	50	1.00
11412121--11412179	11	5.4	10	80	15	55	67	1	1	28	1.10
11412121--11412179	22	2.7	22	84	5	75	67	1	1	28	1.10
11412942--11412968	13	2.1	13	100	0	54	0	37	0	62	0.95
11413501--11413551	3	16.7	3	80	11	59	62	1	0	35	1.06
11413498--11413551	22	2.5	22	81	3	74	61	1	0	37	1.07
11413690--11414556	76	11.4	76	96	0	1563	34	22	19	23	1.96
11414553--11414883	166	2.0	166	93	1	565	38	11	15	35	1.83
11415394--11415448	22	2.5	22	90	0	92	40	16	10	32	1.83
11417830--11418044	114	1.9	114	90	0	340	32	20	14	33	1.93
11420163--11420225	9	7.2	9	75	10	60	1	20	0	77	0.85
11420179--11420225	17	2.7	18	86	6	69	2	21	0	76	0.89
11423031--11423128	36	2.7	36	78	7	101	55	9	17	18	1.68
11425451--11425496	11	3.8	12	77	16	51	73	0	0	26	0.83
11426268--11426317	22	2.2	23	86	10	68	68	2	4	26	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11427657--11427711	3	18.7	3	85	10	78	63	0	0	36	0.95
11427661--11427717	9	6.4	9	83	4	62	59	0	0	40	0.97
11429525--11429929	202	2.0	202	96	1	751	39	11	12	36	1.80
11430088--11430119	16	1.9	17	93	6	57	40	12	3	43	1.58
11431393--11431610	69	3.1	69	85	7	282	46	21	9	22	1.80
11431393--11431610	70	3.1	69	86	6	282	46	21	9	22	1.80
11436027--11436053	14	1.9	14	100	0	54	77	7	0	14	0.97
11436223--11436255	15	2.1	16	88	11	50	66	6	6	21	1.35
11437261--11437303	3	15.0	3	80	9	54	67	0	2	30	1.03
11437519--11438151	113	5.7	113	83	3	753	29	17	14	38	1.89
11437519--11438182	225	3.0	223	82	4	775	29	17	14	38	1.90
11438877--11439227	93	3.8	93	92	2	573	36	19	15	28	1.92
11439700--11439746	17	2.6	19	90	6	71	53	6	8	31	1.57
11440074--11440119	7	6.7	7	85	9	60	0	15	0	84	0.62
11440074--11440127	17	3.1	17	86	10	74	0	16	0	83	0.65
11440082--11440125	10	4.2	10	91	8	70	0	13	0	86	0.57
11440075--11440127	27	1.9	28	92	3	90	0	15	0	84	0.61
11440075--11440131	20	2.9	18	79	20	62	0	17	0	82	0.67
11447761--11448335	286	2.0	285	98	1	1107	21	20	13	44	1.86
11452741--11452803	3	21.3	3	81	15	69	65	0	0	34	0.93
11452741--11452805	32	2.0	32	88	5	96	66	0	0	33	0.92
11457838--11457887	24	2.1	24	88	0	73	32	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11457846--11457902	24	2.4	24	85	2	71	36	0	0	63	0.95
11458067--11458131	2	32.5	2	100	0	130	49	0	0	50	1.00
11459910--11459954	3	15.0	3	100	0	90	66	0	0	33	0.92
11463959--11463995	12	3.0	12	88	4	56	10	16	51	21	1.74
11464566--11464617	26	2.0	26	81	7	61	21	11	21	46	1.82
11466689--11466743	25	2.2	25	83	3	67	36	7	10	45	1.67
11475537--11475593	3	19.0	3	100	0	114	66	0	0	33	0.92
11477660--11477723	19	3.2	20	72	14	53	43	1	1	53	1.19
11477669--11477718	20	2.5	20	78	12	59	40	2	2	56	1.22
11477636--11477722	31	2.8	30	79	10	95	41	1	3	54	1.25
11478438--11478524	31	2.8	30	81	10	95	54	3	1	41	1.25
11478433--11478500	19	3.5	20	73	15	54	54	1	2	41	1.24
11479502--11479573	16	4.4	16	74	17	58	76	8	0	15	1.01
11479522--11479547	9	2.9	9	100	0	52	80	7	0	11	0.89
11479519--11479558	21	1.9	21	85	10	55	77	10	0	12	0.99
11479540--11479584	23	2.0	23	86	8	65	77	4	0	17	0.92
11480708--11481215	91	5.6	91	89	1	732	24	20	16	39	1.91
11481983--11482020	17	2.2	18	90	4	60	18	47	21	13	1.82
11482033--11482154	29	4.2	29	92	0	190	33	5	16	44	1.71
11483081--11483372	117	2.5	117	89	2	435	18	16	32	32	1.93
11489329--11489358	13	2.3	13	94	0	51	16	43	23	16	1.87
11489359--11489572	29	7.4	29	90	0	284	34	5	16	43	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11490504--11490798	117	2.5	116	91	2	459	18	16	33	31	1.93
11492358--11492481	42	3.0	41	80	5	142	29	22	22	25	1.99
11492641--11492754	42	2.7	41	77	6	113	30	21	21	26	1.98
11492243--11492908	273	2.4	275	89	4	1020	36	20	15	28	1.93
11492791--11492944	53	2.7	55	73	17	131	45	16	9	28	1.78
11492792--11492962	53	3.1	52	73	13	130	44	16	8	29	1.78
11493525--11494928	6	244.0	6	86	11	1969	67	0	0	32	0.94
11494929--11494991	6	10.8	6	88	6	94	36	30	15	17	1.91
11494941--11495000	28	2.1	30	90	6	97	35	30	13	21	1.92
11494990--11495160	6	28.7	6	91	1	236	40	26	0	33	1.56

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