genome.fa.s8242.2.7.7.80.10.50.1000.27.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  27  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)
6425719--6425881	62	2.6	60	76	13	152	45	5	18	30	1.72
6426283--6426366	32	2.6	32	90	0	132	23	3	21	51	1.64
6438805--6438982	44	4.0	43	83	4	239	41	12	20	26	1.87
6444547--6444572	7	3.7	7	100	0	52	46	0	53	0	1.00
6445720--6445800	25	3.5	25	65	25	68	39	11	23	25	1.88
6445689--6445902	44	4.9	44	90	0	311	40	11	21	26	1.87
6448337--6448422	43	2.0	43	97	0	163	36	16	10	37	1.83
6451244--6451288	18	2.5	18	92	0	72	46	13	20	20	1.83
6452797--6452857	3	21.7	3	85	12	85	34	0	1	63	1.04
6452794--6452873	11	7.6	10	80	17	74	40	0	1	58	1.06
6452797--6452857	8	7.2	9	83	14	85	34	0	1	63	1.04
6452853--6452877	11	2.3	11	100	0	50	52	0	0	48	1.00
6454898--6454945	18	2.7	18	81	9	55	25	0	2	72	0.95
6465190--6465263	18	3.8	19	79	20	82	82	0	14	2	0.78
6465193--6465248	14	4.0	14	84	13	71	85	0	10	3	0.71
6465190--6465259	13	5.7	12	73	20	56	82	0	14	2	0.77
6466468--6466616	47	3.0	51	91	8	247	24	17	22	35	1.95
6467394--6467819	107	4.0	108	88	7	595	35	12	19	31	1.90
6468061--6468142	3	27.7	3	92	2	139	34	1	1	63	1.10
6468138--6468167	11	2.8	11	95	5	53	56	0	0	43	0.99
6474295--6474349	24	2.3	25	81	6	60	32	14	21	30	1.93
6476915--6476996	40	2.0	40	92	0	137	25	15	24	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6477101--6477319	44	5.0	44	89	0	312	38	6	21	33	1.79
6486150--6486193	22	2.0	22	95	0	79	22	31	20	25	1.98
6488731--6488774	13	3.4	13	78	12	54	36	20	22	20	1.95
6488745--6488786	18	2.3	18	87	4	57	38	21	21	19	1.94
6493431--6493719	144	2.0	145	99	0	571	32	19	19	29	1.96
6494347--6494396	20	2.5	20	96	3	91	36	20	20	24	1.95
6496669--6496697	14	2.1	14	100	0	58	44	6	13	34	1.71
6500569--6500622	21	2.5	22	82	14	60	62	1	31	3	1.23
6501948--6502016	36	1.9	36	87	0	102	39	13	13	34	1.83
6502951--6503071	51	2.4	48	80	11	145	38	16	10	33	1.83
6502975--6503363	51	7.6	51	75	5	149	41	20	5	32	1.76
6502951--6503365	102	4.1	101	76	3	235	41	19	6	33	1.76
6503087--6503366	153	1.8	153	87	1	418	42	21	3	32	1.70
6503090--6503366	51	5.4	51	77	4	272	42	21	3	32	1.70
6503750--6503889	41	3.4	41	82	3	140	29	17	13	39	1.88
6504946--6504988	18	2.5	17	85	7	61	67	2	4	25	1.22
6505345--6505449	37	2.8	37	82	0	129	31	14	13	40	1.84
6505992--6506622	105	6.0	105	90	2	914	21	18	26	33	1.96
6506821--6506896	36	2.1	36	92	0	125	40	14	22	22	1.90
6506797--6507113	104	3.1	104	93	2	518	36	11	20	30	1.89
6507016--6507090	39	1.9	39	83	5	98	38	12	22	26	1.89
6507229--6507342	36	3.2	36	73	2	113	44	13	16	25	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6507184--6507353	72	2.3	75	85	8	217	42	12	17	26	1.85
6508772--6508805	17	2.0	17	88	0	50	52	32	0	14	1.42
6510748--6510828	21	3.8	21	77	7	74	14	23	35	25	1.93
6514663--6514702	21	1.9	21	85	10	55	35	10	2	52	1.48
6518095--6518448	183	1.9	183	94	1	629	30	21	20	27	1.98
6523454--6523513	19	3.1	19	73	15	50	56	1	6	35	1.35
6523545--6523587	14	3.0	14	82	3	50	67	4	4	23	1.28
6526547--6526762	51	4.3	50	76	10	165	42	23	6	27	1.80
6535899--6535937	18	2.2	18	85	0	51	33	15	10	41	1.81
6545761--6545810	20	2.5	20	78	9	59	16	18	0	66	1.26
6555273--6555342	34	2.1	32	86	5	95	22	30	15	31	1.95
6555780--6555839	20	2.9	21	90	2	95	15	28	35	21	1.93
6558826--6558863	20	1.9	20	94	0	67	15	23	39	21	1.92
6559284--6559373	20	4.6	20	94	4	148	41	8	14	35	1.77
6563020--6563174	77	2.0	79	85	7	210	45	5	10	38	1.62
6571166--6571237	37	1.9	37	82	0	90	54	8	16	20	1.68
6575987--6576029	23	1.9	21	81	13	50	34	13	18	32	1.90
6577238--6577267	15	2.1	15	93	6	53	0	20	3	76	0.92
6586786--6586810	13	1.9	13	100	0	50	16	0	0	84	0.63
6590733--6590780	22	2.3	22	85	7	64	37	16	16	29	1.91
6593802--6593844	21	2.0	21	100	0	86	58	13	4	23	1.55
6602093--6602133	19	2.2	19	100	0	82	53	0	4	41	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6603313--6603368	29	1.9	29	85	0	76	25	28	25	21	1.99
6609436--6609627	84	2.3	84	77	13	207	34	11	18	34	1.87
6609708--6609863	82	1.9	83	81	4	190	29	17	17	35	1.93
6609706--6609882	41	4.3	41	76	4	135	27	16	16	38	1.90
6611938--6612355	46	9.1	46	85	3	583	43	12	21	22	1.86
6611944--6612343	20	17.7	20	66	23	120	42	12	22	22	1.87
6612010--6612088	26	3.3	26	62	26	64	45	12	18	22	1.84
6611964--6612049	26	3.5	26	69	18	94	43	12	22	22	1.87
6611938--6612355	91	4.6	93	87	3	598	43	12	21	22	1.86
6611938--6612355	137	3.0	136	88	1	604	43	12	21	22	1.86
6620923--6620972	21	2.4	21	86	0	64	20	2	24	54	1.55
6620923--6620981	21	2.8	21	81	0	55	18	3	23	54	1.59
6623385--6623490	54	1.9	55	84	1	142	30	15	17	36	1.91
6623401--6623505	54	1.9	54	80	3	122	28	16	17	38	1.91
6627121--6627166	15	3.0	16	75	9	51	50	0	0	50	1.00
6627641--6627949	128	2.3	128	87	6	413	25	19	13	41	1.88
6627898--6627980	36	2.3	37	97	2	159	15	26	14	43	1.85
6629497--6629546	22	2.3	22	89	0	73	46	2	34	18	1.60
6636184--6636267	24	3.4	26	78	16	90	54	1	3	40	1.25
6636184--6636250	25	2.8	24	82	13	75	53	1	4	40	1.30
6637019--6637086	31	2.2	30	87	7	93	52	5	5	35	1.50
6637606--6637637	15	2.1	15	94	0	55	6	34	3	56	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6639062--6639095	17	1.9	18	94	5	61	50	0	0	50	1.00
6639067--6639109	17	2.6	17	81	3	52	62	0	0	37	0.95
6646771--6646821	22	2.4	22	96	3	95	35	19	19	25	1.95
6648369--6648405	19	1.9	19	94	0	65	35	13	8	43	1.74
6650943--6650971	13	2.2	13	100	0	58	17	13	0	68	1.20
6657104--6657330	5	47.0	5	92	7	382	59	0	0	40	0.97
6658434--6658488	28	2.0	28	100	0	110	34	10	18	36	1.86
6659872--6659915	12	3.7	12	87	0	61	18	6	13	61	1.54
6660072--6660402	66	5.1	66	82	4	375	32	25	12	29	1.93
6660093--6660402	129	2.4	131	83	5	385	33	24	12	29	1.92
6661083--6661140	3	21.0	3	78	16	54	31	0	3	65	1.09
6661074--6661133	19	3.1	18	76	11	57	26	0	5	68	1.10
6661083--6661140	5	10.5	6	85	7	54	31	0	3	65	1.09
6663340--6663389	20	2.4	21	83	9	59	28	2	2	68	1.12
6665615--6665646	15	2.1	15	94	0	55	25	18	9	46	1.79
6667758--6667787	14	2.1	14	100	0	60	33	13	6	46	1.69
6670010--6670103	36	2.6	35	77	14	93	43	4	5	46	1.45
6670066--6670298	12	17.8	13	78	11	90	48	3	3	45	1.33
6670064--6670299	14	16.7	15	75	15	111	47	2	2	46	1.32
6670057--6670128	26	2.7	27	80	6	85	44	6	2	45	1.45
6670184--6670433	2	126.5	2	78	9	264	47	2	3	46	1.31
6670516--6670556	21	2.0	21	85	0	55	46	26	2	24	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6670620--6670650	16	1.9	16	100	0	62	48	0	6	45	1.28
6670750--6670861	18	6.0	20	72	10	69	45	5	6	42	1.52
6670766--6670861	2	47.0	2	78	12	88	46	5	4	43	1.45
6670782--6670862	24	3.5	23	83	8	103	46	4	3	44	1.42
6671915--6671968	23	2.3	24	96	3	101	48	9	0	42	1.35
6676962--6677229	45	6.0	45	93	0	446	42	7	19	30	1.79
6677051--6677170	24	5.2	24	60	25	62	46	6	17	29	1.73
6677630--6677686	2	29.5	2	92	7	100	49	0	0	50	1.00
6679825--6679964	6	22.8	6	78	11	124	80	1	13	5	0.95
6679824--6679964	61	2.4	57	79	14	155	80	1	13	4	0.95

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