genome.fa.s8242.2.7.7.80.10.50.1000.55.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  55  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)
13007985--13008044	24	2.5	24	81	13	70	26	1	0	71	0.95
13008010--13008044	8	4.4	8	100	0	70	22	0	0	77	0.78
13010976--13011082	5	20.8	5	69	12	65	16	6	4	71	1.24
13010976--13011029	11	5.0	11	86	4	65	12	5	3	77	1.07
13011036--13011081	14	3.2	14	87	6	65	19	4	2	73	1.10
13011239--13011268	15	2.0	15	93	0	51	63	6	20	10	1.47
13012937--13013153	76	2.9	76	87	4	287	28	0	11	58	1.40
13013253--13013281	12	2.5	12	94	5	51	6	24	3	65	1.33
13013823--13013865	16	2.8	15	77	16	52	25	2	0	72	0.97
13016036--13016146	29	3.9	29	93	1	188	26	13	11	48	1.76
13020786--13020841	29	1.9	29	100	0	112	25	14	12	48	1.78
13023194--13023227	14	2.4	14	95	0	59	38	11	0	50	1.39
13024090--13024124	2	17.5	2	100	0	70	51	0	0	48	1.00
13026073--13026097	8	3.1	8	100	0	50	12	0	36	52	1.39
13026924--13026960	16	2.3	16	100	0	74	37	5	18	37	1.74
13027340--13027364	8	3.1	8	100	0	50	12	0	36	52	1.39
13028035--13028073	14	2.9	13	77	7	51	53	0	7	38	1.30
13028207--13028248	15	2.8	15	83	16	52	33	0	2	64	1.07
13029878--13029932	21	2.5	22	85	5	76	43	1	9	45	1.46
13031562--13031604	19	2.3	19	100	0	86	37	25	9	27	1.87
13032696--13032739	16	2.9	15	80	6	52	63	4	2	29	1.26
13046325--13046364	20	2.0	20	100	0	80	25	30	35	10	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13048708--13048772	24	2.7	24	97	0	121	24	7	40	27	1.82
13050876--13050919	18	2.4	19	81	7	56	45	6	4	43	1.51
13051254--13051893	56	11.5	56	85	2	718	26	23	17	32	1.96
13051254--13051893	111	5.8	112	83	3	688	26	23	17	32	1.96
13051894--13051976	37	2.2	37	80	4	96	18	18	16	46	1.84
13068756--13068796	18	2.3	18	100	0	82	39	24	7	29	1.82
13069603--13069697	37	2.6	36	80	14	97	70	5	2	22	1.18
13082962--13083007	20	2.3	20	75	10	51	45	4	21	28	1.71
13084380--13084441	2	31.0	2	100	0	124	50	0	0	50	1.00
13085703--13085781	2	39.5	2	100	0	158	50	0	0	49	1.00
13098501--13098550	22	2.3	22	96	0	91	44	6	0	50	1.26
13099049--13099113	31	2.1	31	97	0	121	43	16	10	29	1.82
13100363--13100388	12	2.2	12	100	0	52	7	23	0	69	1.14
13106909--13106956	25	1.9	25	95	0	87	22	22	8	45	1.79
13110246--13110286	17	2.4	18	80	12	50	48	7	7	36	1.59
13116775--13116830	24	2.3	24	84	0	76	30	39	21	8	1.84
13117984--13118089	25	4.5	24	69	19	82	22	8	8	60	1.53
13117982--13118200	97	2.2	98	80	7	239	21	7	10	59	1.56
13117984--13118174	50	3.9	46	83	6	202	21	7	11	58	1.58
13119986--13120036	24	2.0	26	85	7	70	19	17	7	54	1.67
13138427--13138471	19	2.4	19	82	14	58	33	6	0	60	1.23
13138427--13138472	18	2.5	18	86	10	58	32	6	0	60	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13138451--13138487	13	2.7	14	84	15	51	37	2	0	59	1.12
13139210--13139267	20	2.9	20	81	0	71	62	15	6	15	1.53
13140366--13140403	20	1.9	20	94	0	67	15	39	13	31	1.86
13140552--13140610	31	1.9	31	85	0	82	30	5	18	45	1.71
13143070--13143126	30	1.9	30	89	7	89	14	7	36	42	1.72
13143064--13143135	24	3.0	24	77	4	65	13	6	37	41	1.72
13143102--13143187	18	4.8	18	79	0	82	6	8	44	40	1.61
13143102--13143187	6	14.3	6	78	0	64	6	8	44	40	1.61
13143077--13143187	12	9.2	12	74	0	87	9	7	42	41	1.64
13143347--13143551	113	1.8	113	86	4	297	33	4	29	32	1.79
13143352--13143580	113	2.0	113	82	6	277	32	5	29	32	1.80
13143779--13143915	61	2.2	61	94	0	238	35	8	8	46	1.66
13143948--13144172	2	109.5	2	64	23	51	42	4	6	47	1.47
13144033--13144101	9	7.7	9	69	18	54	39	5	5	49	1.51
13144026--13144103	18	4.3	18	95	0	138	41	5	5	48	1.47
13144052--13144637	11	55.3	11	66	21	77	38	5	9	45	1.61
13144032--13144165	42	3.3	41	75	11	109	40	4	7	47	1.52
13144223--13144342	22	5.8	22	74	14	112	35	3	10	50	1.52
13144213--13144367	83	1.9	80	88	7	231	34	3	12	49	1.59
13144358--13144427	29	2.3	31	85	7	99	41	5	12	40	1.67
13144398--13144518	53	2.3	53	90	5	165	42	7	8	41	1.63
13144403--13144463	19	3.1	19	65	17	52	44	8	8	39	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13144403--13144465	21	3.1	21	62	25	53	44	7	7	39	1.63
13144457--13144589	9	13.4	9	68	22	56	39	6	10	44	1.64
13144032--13144637	20	29.8	20	66	21	103	38	5	9	45	1.61
13144513--13144627	30	3.8	30	75	16	87	37	5	11	46	1.62
13144623--13144682	30	2.1	30	87	6	88	41	10	3	45	1.54
13144820--13144875	22	2.7	21	88	5	78	44	3	3	48	1.37
13144891--13145072	2	89.5	2	67	19	92	48	3	3	43	1.39
13144921--13144973	15	3.4	15	76	19	54	52	3	3	39	1.37
13144901--13145074	13	13.6	13	70	17	82	47	3	4	44	1.40
13144929--13145067	52	2.7	51	82	9	176	49	3	3	43	1.37
13144901--13145065	20	8.3	19	72	16	104	48	3	4	43	1.40
13153134--13153209	20	3.8	20	89	5	109	15	28	36	18	1.92
13154720--13154766	23	2.0	23	87	0	67	38	6	21	34	1.79
13154837--13155335	198	2.5	196	81	6	551	31	15	14	38	1.87
13158551--13159504	200	4.8	200	84	7	1110	30	13	16	39	1.87
13158479--13159504	197	5.1	201	83	5	1109	31	13	15	39	1.87
13159886--13159937	24	2.2	24	82	6	61	51	11	3	32	1.56
13162406--13162457	15	3.5	15	91	0	77	32	0	46	21	1.52
13162836--13163742	198	4.6	198	93	1	1451	30	15	17	35	1.91
13163886--13163935	19	2.6	19	87	0	64	60	12	2	26	1.43
13165404--13165441	18	2.1	18	100	0	76	5	36	0	57	1.21
13166107--13166162	24	2.4	24	77	14	64	51	8	0	39	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13167981--13169696	182	9.4	182	93	1	2613	28	15	12	43	1.83
13170458--13170568	15	7.5	15	94	1	188	47	0	0	52	1.00
13170458--13170569	45	2.5	45	97	1	208	48	0	0	51	1.00
13170571--13170613	22	2.0	22	100	0	86	34	0	13	51	1.42
13170548--13171198	54	12.1	54	76	14	433	35	0	12	52	1.39
13170625--13170769	22	6.0	22	66	20	67	35	0	12	51	1.40
13170571--13171071	80	6.4	79	94	3	836	35	0	12	52	1.39
13170548--13171293	134	5.6	132	76	14	599	35	0	11	52	1.38
13170710--13170770	22	2.8	22	94	0	104	36	0	9	54	1.34
13170781--13171009	26	9.0	22	74	20	116	34	0	12	52	1.40
13171021--13171117	22	4.0	22	71	23	86	35	0	12	52	1.39
13170571--13171063	156	3.1	157	94	3	850	35	0	12	52	1.40
13171153--13171228	22	3.2	23	76	12	82	30	0	14	55	1.40
13170803--13171293	166	3.0	164	85	7	531	35	0	11	52	1.38
13171206--13171256	14	3.1	17	70	18	54	33	0	11	54	1.37
13170803--13171293	54	9.0	54	77	12	495	35	0	11	52	1.38
13171251--13171317	22	3.0	22	89	4	91	38	0	1	59	1.06
13173202--13173230	5	5.8	5	100	0	58	0	17	41	41	1.49
13173896--13173921	2	13.0	2	100	0	52	50	0	0	50	1.00
13175298--13175700	151	2.8	137	80	10	409	38	16	7	36	1.78
13177120--13177148	6	4.8	6	100	0	58	17	17	31	34	1.93
13178934--13178985	21	2.5	20	77	20	61	34	21	17	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13178947--13178992	21	2.2	21	84	0	56	39	21	15	23	1.92
13183504--13183528	2	12.5	2	100	0	50	52	0	0	48	1.00
13183970--13184009	21	1.9	21	89	0	62	10	25	40	25	1.86
13189739--13189815	21	3.7	21	96	0	145	19	32	24	23	1.97
13194695--13194728	17	2.0	17	100	0	68	35	17	11	35	1.87
13194931--13194985	21	2.6	21	78	18	60	32	20	16	30	1.94
13197417--13197548	21	6.4	21	74	7	83	29	0	67	3	1.06
13197415--13197571	18	9.1	18	69	20	65	31	0	66	2	1.05
13197473--13197526	7	7.7	7	91	6	83	16	0	81	1	0.78
13197534--13197568	6	5.8	6	100	0	70	34	0	65	0	0.93

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