genome.fa.s190.2.7.7.80.10.50.1000.27.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   

This is table  27  of  62  ( 7381 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)
6372648--6373006	106	3.5	106	85	5	475	34	24	18	22	1.96
6374987--6375018	4	8.5	4	86	13	50	21	0	0	78	0.76
6374991--6375018	14	2.0	14	100	0	56	21	0	0	78	0.75
6377546--6377597	22	2.4	22	80	6	61	78	1	7	11	1.02
6377611--6377641	4	7.5	4	92	7	53	77	0	0	22	0.77
6377651--6377820	71	2.4	70	80	10	177	64	5	3	26	1.31
6380708--6380749	13	3.2	13	96	0	75	14	11	0	73	1.09
6387881--6387921	21	2.0	20	90	4	64	68	4	12	14	1.36
6391375--6391448	10	7.4	10	71	6	51	77	2	6	13	1.08
6391368--6391448	19	4.2	19	78	7	74	77	2	7	12	1.06
6392867--6392904	2	19.0	2	88	0	58	50	0	2	47	1.15
6393099--6393187	35	2.6	35	82	8	114	64	3	6	25	1.34
6394372--6394435	32	2.0	33	87	3	94	29	15	15	39	1.89
6394403--6394559	49	3.2	49	80	3	174	28	17	17	36	1.93
6394685--6394857	95	1.8	95	82	2	222	32	13	19	34	1.91
6394820--6394990	47	3.6	46	76	7	139	29	16	19	35	1.93
6399076--6399249	85	2.0	85	88	0	258	28	20	10	40	1.85
6401255--6401391	9	14.2	9	72	12	51	75	0	8	15	1.08
6401263--6401382	13	9.7	13	67	20	69	74	0	9	15	1.11
6401278--6401351	4	17.2	4	75	18	60	74	1	6	17	1.11
6401294--6401405	9	12.3	9	76	19	90	73	0	9	16	1.09
6401715--6401779	20	3.3	20	77	10	64	69	3	4	23	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6402842--6402886	23	1.9	24	86	4	65	62	2	0	35	1.08
6403344--6404482	84	13.6	84	82	3	1215	25	17	22	35	1.95
6403344--6404482	167	6.8	167	83	3	1198	25	17	22	35	1.95
6403344--6404475	250	4.5	251	84	3	1262	25	17	22	34	1.96
6406868--6406926	14	4.5	13	81	10	66	79	0	6	13	0.92
6406849--6406915	22	3.0	22	77	16	66	77	0	7	14	0.97
6406871--6406934	8	7.7	9	76	18	59	78	1	7	12	1.03
6406942--6406981	2	20.0	2	100	0	80	50	0	0	50	1.00
6412579--6412794	39	5.6	39	75	6	161	25	20	10	43	1.84
6412584--6412760	39	4.6	39	78	4	171	26	21	10	41	1.86
6412769--6412843	21	3.4	22	77	5	80	26	18	10	44	1.83
6412769--6412839	22	3.3	22	76	7	74	28	18	9	43	1.81
6414279--6414475	19	10.3	19	67	13	73	37	1	5	56	1.28
6414281--6414471	2	100.5	2	67	24	94	38	1	5	55	1.29
6414280--6414476	53	3.8	52	72	19	155	37	1	5	56	1.28
6414278--6414483	27	7.6	26	72	20	115	37	0	4	56	1.27
6414951--6414994	22	2.0	23	86	8	65	45	22	13	18	1.84
6425758--6425893	59	2.3	60	80	10	145	25	30	25	18	1.98
6433731--6433922	2	99.5	2	70	21	110	41	1	6	51	1.37
6433739--6433836	37	2.7	36	84	9	126	39	1	5	54	1.30
6433737--6433916	37	4.8	36	73	21	113	41	1	6	50	1.38
6441636--6442464	81	10.2	81	90	1	1275	30	20	12	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6447046--6447114	12	5.8	12	74	6	59	20	8	17	53	1.69
6447042--6447114	24	3.0	24	85	0	110	21	8	17	52	1.71
6447021--6447114	48	2.0	48	85	4	127	22	10	15	51	1.74
6451551--6451616	24	2.8	24	80	0	87	18	10	18	53	1.72
6453222--6453286	13	5.0	13	75	0	58	27	21	15	35	1.94
6453222--6453280	26	2.3	26	87	0	91	28	20	16	33	1.95
6453258--6453480	85	2.6	85	86	2	297	27	21	18	32	1.97
6457735--6457790	15	3.7	15	85	2	67	10	21	8	58	1.58
6460270--6460314	20	2.2	21	96	4	83	28	11	0	60	1.31
6464173--6464776	81	7.5	81	85	1	719	29	20	12	38	1.88
6467247--6467326	11	7.3	11	70	23	53	73	6	2	17	1.15
6468244--6468281	18	2.1	18	85	9	51	10	0	36	52	1.36
6468242--6468289	17	2.7	18	78	12	55	14	0	35	50	1.44
6468497--6469162	136	4.9	136	81	4	754	26	19	18	36	1.94
6468496--6469162	271	2.5	269	83	2	827	26	19	18	35	1.94
6470114--6470159	10	4.7	10	81	5	58	2	13	0	84	0.71
6470114--6470152	12	3.3	11	83	16	51	0	12	0	87	0.55
6470111--6470159	15	3.4	14	83	8	62	2	14	0	83	0.73
6473640--6473669	7	4.3	7	91	0	51	66	0	13	20	1.24
6480701--6480757	18	3.1	18	71	14	53	75	7	1	15	1.10
6480811--6480851	22	1.9	22	85	5	57	58	4	14	21	1.55
6482266--6482305	16	2.5	16	91	0	62	12	0	32	55	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6482904--6482963	22	2.7	22	70	27	54	38	3	8	50	1.49
6483213--6483244	3	10.7	3	100	0	64	34	0	0	65	0.93
6485132--6485172	10	4.1	10	90	0	64	60	9	9	19	1.55
6487044--6487079	18	1.9	18	88	5	54	38	5	27	27	1.79
6488999--6489071	27	2.7	27	93	0	128	38	9	26	26	1.87
6494334--6494615	131	2.2	129	85	2	368	32	10	15	40	1.83
6506505--6506860	135	2.6	135	83	1	464	30	22	17	29	1.97
6507042--6507078	3	13.3	3	83	16	53	29	0	0	70	0.88
6507041--6507079	16	2.4	16	91	4	60	30	0	0	69	0.89
6509096--6509450	131	2.7	130	81	6	428	32	9	15	41	1.80
6512164--6512196	17	1.9	17	88	11	50	33	3	0	63	1.10
6514889--6514951	13	4.5	13	78	18	72	15	47	22	14	1.81
6514903--6514957	18	2.9	18	91	8	83	16	47	21	14	1.82
6514885--6514951	31	2.2	31	97	0	125	16	49	20	13	1.79
6514925--6514964	8	5.5	8	77	22	52	15	40	25	20	1.90
6516641--6516703	13	4.5	13	78	18	72	15	47	22	14	1.81
6516655--6516709	18	2.9	18	91	8	83	16	47	21	14	1.82
6516637--6516703	31	2.2	31	97	0	125	16	49	20	13	1.79
6516677--6516716	8	5.5	8	77	22	52	15	40	25	20	1.90
6517140--6517231	3	30.0	3	78	4	94	41	1	1	56	1.13
6518680--6519072	157	2.6	148	83	7	434	39	7	7	45	1.61
6519416--6519472	28	2.0	28	96	0	105	35	14	1	49	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6520513--6520584	36	2.0	36	88	0	108	41	20	11	26	1.86
6528028--6528073	22	2.1	22	91	0	74	26	2	26	45	1.65
6532159--6532206	19	2.5	19	100	0	96	31	31	16	20	1.95
6532345--6532388	22	2.0	22	95	0	79	27	34	9	29	1.87
6534840--6534866	12	2.2	12	100	0	54	22	0	22	55	1.44
6535457--6535485	13	2.3	13	94	5	51	13	58	17	10	1.62
6535494--6535582	30	3.0	30	73	15	71	55	0	0	44	0.99
6535522--6535582	24	2.5	26	77	17	69	55	0	0	44	0.99
6535540--6535579	19	2.1	19	85	0	53	55	0	0	45	0.99
6535600--6535645	12	3.9	12	88	2	67	30	47	10	10	1.73
6535600--6535645	24	2.0	24	91	4	76	30	47	10	10	1.73
6546975--6547018	12	3.7	12	76	11	54	29	4	50	15	1.64
6546971--6547028	24	2.4	24	97	0	107	25	3	53	17	1.59
6548322--6548374	25	2.2	24	90	10	81	52	5	3	37	1.43
6548346--6548658	37	8.5	37	81	10	310	47	4	7	39	1.52
6548346--6548707	109	3.3	111	87	5	475	46	3	8	41	1.53
6548682--6548730	27	2.0	23	84	15	62	42	2	2	53	1.24
6549843--6549899	17	3.6	16	80	17	57	12	8	1	77	1.07
6561766--6561820	25	2.2	25	87	6	85	54	5	3	36	1.41
6561791--6562028	37	6.5	37	86	5	297	47	3	8	40	1.52
6561797--6562019	72	3.1	71	88	5	313	46	3	8	41	1.52
6564385--6564439	20	2.6	22	75	18	64	32	18	23	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6563500--6572449	257	34.9	256	80	5	9066	34	13	16	35	1.88
6563500--6584803	775	27.6	774	83	7	25195	34	13	16	35	1.89
6567461--6567515	20	2.6	22	77	13	71	30	18	23	27	1.97
6572469--6574462	257	7.7	257	79	4	2026	33	13	16	35	1.89
6575414--6577443	257	7.9	255	80	5	2143	33	13	17	35	1.89
6576267--6576333	20	3.2	22	77	12	77	31	19	22	26	1.98
6577448--6584803	257	28.6	257	79	5	7306	33	13	16	35	1.89
6579086--6579136	20	2.5	21	78	12	61	29	19	25	25	1.99
6586225--6586272	25	1.9	25	86	0	69	0	33	14	52	1.42
6586653--6586686	11	3.0	11	91	4	50	41	0	2	55	1.15

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