genome.fa.s9634.2.7.7.80.10.50.1000.78.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   

This is table  78  of  78  ( 9351 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)
16979067--16979134	36	2.1	33	81	15	79	44	14	1	39	1.55
16981242--16981276	12	2.8	13	86	8	54	74	0	25	0	0.82
16982907--16982980	14	5.2	15	76	16	68	37	8	9	44	1.67
16982930--16983044	29	3.9	29	73	18	101	36	10	6	46	1.65
16982911--16982995	27	3.1	26	79	12	80	35	8	10	45	1.69
16982921--16983040	14	8.2	14	70	16	66	35	10	7	47	1.65
16984472--16984532	11	5.5	11	76	7	70	78	18	1	1	0.91
16984473--16984539	21	3.2	21	73	19	68	76	19	2	1	1.00
16991779--16991815	15	2.4	16	90	4	58	13	10	5	70	1.32
16992165--16992233	31	2.2	30	87	10	95	81	11	7	0	0.88
16992177--16992233	10	5.6	10	81	4	51	80	10	8	0	0.90
16992166--16992233	11	6.5	11	85	8	79	82	10	7	0	0.85
16996494--16996530	15	2.4	16	90	4	58	13	10	5	70	1.32
16999930--16999954	12	2.1	12	100	0	50	68	0	16	16	1.22
17001868--17002358	246	2.0	246	98	0	946	36	14	12	36	1.84
17004305--17004372	2	34.0	2	100	0	136	50	0	0	50	1.00
17005683--17005722	20	2.1	19	86	9	55	10	10	15	65	1.48
17008043--17008110	3	22.7	3	92	0	100	60	0	4	35	1.17
17012181--17012489	170	1.8	170	97	0	582	26	11	17	44	1.83
17012535--17012599	29	2.2	29	88	0	94	18	24	15	41	1.89
17013371--17013425	23	2.4	23	93	0	92	38	9	9	43	1.68
17019319--17019352	14	2.4	14	95	0	59	61	8	0	29	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17024833--17024866	18	1.9	18	88	5	52	35	2	0	61	1.11
17025091--17025123	16	2.0	17	88	5	50	24	9	0	66	1.20
17027157--17027236	35	2.2	37	91	4	128	31	37	3	27	1.74
17031059--17031138	35	2.2	37	91	4	128	31	37	3	27	1.74
17031510--17031557	26	2.0	23	84	12	60	75	8	16	0	1.04
17031579--17031625	14	3.1	15	75	12	51	72	6	19	2	1.17
17035301--17035380	35	2.2	37	88	4	119	31	37	2	28	1.71
17043537--17043734	87	2.3	87	83	0	252	40	9	16	32	1.81
17045639--17045672	2	17.5	2	93	6	61	50	0	0	50	1.00
17045639--17045681	19	2.3	19	84	8	52	48	6	0	44	1.29
17047402--17047540	5	27.8	5	100	0	278	39	0	20	40	1.52
17048806--17048857	25	2.1	25	96	0	95	23	17	30	28	1.97
17049360--17049413	26	2.1	26	96	0	99	42	1	16	38	1.59
17050108--17050197	6	15.0	6	98	0	171	50	32	0	17	1.47
17050283--17050358	2	38.5	2	89	7	120	47	0	1	51	1.09
17050742--17050781	17	2.3	18	91	8	73	52	5	5	37	1.45
17050949--17051054	30	3.6	30	76	9	94	54	5	17	21	1.63
17050967--17051054	30	3.0	29	79	9	106	55	3	17	23	1.56
17051359--17051383	11	2.3	11	100	0	50	92	0	8	0	0.40
17051517--17051689	38	4.6	38	75	11	135	46	2	8	42	1.49
17051524--17051689	76	2.2	75	84	7	203	45	3	9	42	1.51
17051656--17051714	23	2.5	24	86	8	86	44	5	6	44	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17051620--17051739	60	2.0	60	85	8	163	44	5	8	42	1.56
17051695--17051788	42	2.3	42	85	7	122	42	3	5	48	1.41
17051681--17051777	40	2.5	37	78	17	106	43	4	6	46	1.47
17051737--17051778	17	2.6	16	77	7	50	45	2	2	50	1.27
17051786--17051856	17	4.2	17	81	13	76	28	0	0	71	0.86
17051790--17051854	13	5.3	12	74	18	55	29	0	0	70	0.87
17051775--17051850	17	4.4	16	76	18	73	30	0	1	68	0.98
17051786--17051856	4	16.8	4	78	16	72	28	0	0	71	0.86
17051785--17051865	24	3.2	25	81	15	87	27	1	0	71	0.93
17055204--17055435	63	3.7	63	83	4	272	31	28	11	29	1.91
17055228--17055435	63	3.3	63	84	1	274	30	27	11	30	1.92
17062881--17062943	27	2.3	27	78	5	65	68	3	4	23	1.24
17062999--17063199	104	2.0	102	81	10	241	46	5	3	43	1.46
17063000--17063209	68	3.0	71	79	13	204	46	6	4	43	1.48
17063000--17063209	36	5.9	36	77	13	197	46	6	4	43	1.48
17063134--17063255	61	2.0	62	85	6	167	46	7	3	42	1.48
17063206--17063325	38	3.3	36	78	12	138	45	10	1	41	1.49
17063952--17065139	84	14.4	83	77	5	1147	24	20	25	29	1.99
17063952--17065121	248	4.7	248	89	1	1710	24	20	25	30	1.99
17063952--17065121	495	2.4	495	88	1	1708	24	20	25	30	1.99
17066199--17066425	95	2.6	87	79	14	266	31	20	18	29	1.96
17066257--17066444	95	2.0	94	89	3	288	31	19	15	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17070160--17070231	2	36.0	2	100	0	144	50	0	0	50	1.00
17070356--17070424	26	2.7	26	81	2	86	76	2	4	15	1.06
17070378--17070426	18	2.9	16	81	9	53	79	2	4	14	0.97
17070356--17070407	14	3.8	14	72	12	54	76	1	5	15	1.05
17070658--17070709	26	2.0	26	84	0	68	30	28	17	23	1.97
17071596--17071682	44	2.0	44	84	10	117	52	6	2	37	1.41
17071653--17071812	69	2.3	69	78	10	173	49	6	3	40	1.46
17071653--17071825	37	4.8	37	76	15	159	49	6	4	40	1.47
17071786--17071839	26	2.0	27	85	3	74	48	7	3	40	1.49
17071813--17071885	35	2.1	35	82	7	87	47	9	1	41	1.44
17071822--17071941	38	3.3	36	75	12	120	45	11	2	40	1.54
17073251--17073443	103	1.9	102	89	3	298	47	3	4	44	1.39
17079378--17079408	14	2.2	14	94	0	53	80	3	16	0	0.83
17081624--17081685	21	3.0	21	76	4	63	27	12	17	41	1.86
17083674--17083755	41	2.0	41	100	0	164	29	7	17	46	1.74
17083882--17083925	2	22.0	2	100	0	88	50	0	0	50	1.00
17085236--17085301	3	22.0	3	79	11	73	62	1	1	34	1.14
17092398--17092430	9	3.7	9	95	0	57	72	27	0	0	0.85
17097868--17098012	74	2.0	74	97	0	272	27	8	21	42	1.83
17101470--17101763	139	2.1	137	80	6	319	31	9	13	45	1.75
17102183--17102463	49	5.7	49	84	2	357	28	19	14	37	1.92
17102666--17102759	49	1.9	49	84	0	125	26	21	13	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17102364--17102958	296	2.0	296	96	0	1109	33	18	11	36	1.86
17105353--17105400	21	2.3	21	88	0	69	29	20	18	31	1.97
17112937--17112989	20	2.6	20	90	3	79	41	32	3	22	1.72
17113762--17113823	31	2.0	31	96	0	115	27	19	17	35	1.94
17113795--17113981	49	3.8	49	86	0	248	27	20	13	38	1.90
17113780--17113987	98	2.1	97	78	6	238	28	20	13	37	1.90
17113958--17113997	18	2.2	18	95	0	71	37	22	10	30	1.87
17119744--17119786	6	7.2	6	83	0	59	76	2	4	16	1.05
17121916--17122040	59	2.1	59	86	0	169	28	18	23	30	1.97
17129067--17129196	59	2.2	59	90	0	197	27	16	24	30	1.97
17129304--17129429	47	2.8	46	85	8	161	38	7	22	32	1.81
17139755--17139784	8	3.9	8	91	8	53	93	6	0	0	0.35
17139754--17139784	15	2.1	15	100	0	62	93	6	0	0	0.35
17144035--17144079	11	4.1	11	85	5	56	15	11	2	71	1.24
17148128--17148177	14	3.5	15	78	5	50	76	8	4	12	1.15
17148128--17148177	22	2.3	21	80	12	57	76	8	4	12	1.15
17151568--17151623	14	3.9	14	81	4	67	41	5	19	33	1.74
17151568--17151625	29	2.0	29	93	0	98	41	6	18	32	1.78
17151846--17151919	31	2.5	29	74	21	73	50	0	1	48	1.09
17151916--17151964	24	2.0	25	84	4	64	48	0	4	46	1.20
17152119--17152210	43	2.2	43	82	9	109	51	13	14	21	1.76
17153515--17153593	36	2.3	34	82	4	95	18	37	10	32	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17154804--17155345	138	3.9	138	80	5	560	30	12	14	42	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   74   75   76   77   78

The End!