genome.fa.s9634.2.7.7.80.10.50.1000.36.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  36  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)
7237140--7237191	20	2.5	20	82	11	70	23	3	0	73	1.00
7237126--7237193	21	3.2	20	78	16	66	27	2	0	69	1.03
7237356--7237433	40	2.0	40	85	9	108	30	5	7	56	1.49
7237500--7237524	9	2.8	9	100	0	50	20	0	0	80	0.72
7238495--7238540	10	4.8	10	81	10	60	19	2	2	76	1.00
7238494--7238533	18	2.2	18	90	0	62	20	2	2	75	1.04
7242004--7242060	16	3.2	16	73	21	60	78	7	14	0	0.94
7242005--7242053	21	2.3	22	83	16	68	79	6	14	0	0.91
7241997--7242029	16	2.1	16	88	5	50	75	9	15	0	1.03
7242004--7242060	19	3.1	19	75	14	73	78	7	14	0	0.94
7241996--7242066	37	1.9	35	86	8	97	74	11	12	1	1.13
7243124--7243159	18	2.0	18	94	0	63	16	8	33	41	1.78
7243646--7243721	36	2.1	37	90	7	120	23	22	15	38	1.93
7243893--7243962	36	1.9	36	85	0	95	27	21	12	38	1.90
7244476--7245018	110	5.0	106	89	4	818	34	24	18	23	1.96
7244476--7245216	216	3.5	213	87	6	1009	34	24	18	22	1.96
7244934--7245109	91	1.9	92	87	3	257	34	22	19	24	1.97
7244827--7245215	197	2.0	199	86	2	550	33	24	19	22	1.97
7246503--7246545	18	2.5	17	85	7	61	25	4	2	67	1.22
7246802--7246856	2	27.5	2	100	0	110	49	0	0	50	1.00
7247134--7247180	2	23.5	2	100	0	94	48	0	0	51	1.00
7248568--7248623	20	2.7	21	77	2	60	30	21	21	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7248650--7248716	19	3.2	21	89	8	93	35	5	29	28	1.81
7248647--7248717	22	3.3	21	92	7	101	36	5	29	28	1.80
7249086--7249126	19	2.0	20	86	9	57	31	21	21	24	1.98
7249176--7249228	20	2.7	20	96	0	97	22	18	30	28	1.98
7249287--7249432	40	3.7	40	71	12	129	26	17	27	29	1.97
7249327--7249433	20	5.3	20	67	12	58	25	16	27	30	1.97
7249287--7249436	80	1.9	80	95	0	273	26	16	26	30	1.97
7249798--7250309	263	1.9	265	89	3	791	38	9	15	36	1.80
7250332--7250370	14	2.8	13	88	11	60	66	12	2	17	1.35
7256250--7256333	23	3.7	23	95	0	141	38	9	19	33	1.84
7256370--7256417	23	2.1	23	84	0	60	35	12	14	37	1.84
7256435--7257143	200	3.5	198	82	7	765	31	16	13	38	1.88
7259676--7260035	200	1.8	198	88	1	533	31	15	13	39	1.87
7259780--7260271	251	2.0	251	86	4	697	31	16	14	37	1.89
7262165--7262229	21	3.1	21	93	0	103	15	30	12	41	1.84
7262353--7262401	18	2.7	18	90	0	71	10	55	4	30	1.52
7262353--7262402	9	5.6	9	79	9	57	10	54	4	32	1.52
7264999--7265055	2	28.5	2	100	0	114	49	0	0	50	1.00
7265258--7265355	2	49.0	2	97	0	187	48	0	1	50	1.07
7266756--7266811	9	5.5	11	75	23	52	7	30	26	35	1.83
7266747--7266813	30	2.2	30	91	0	107	11	29	25	32	1.92
7280206--7280239	2	17.0	2	100	0	68	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7293300--7293359	28	2.1	28	87	6	86	48	15	0	36	1.45
7294831--7294855	2	12.5	2	100	0	50	52	0	0	48	1.00
7306866--7306994	23	5.7	23	80	0	143	50	13	4	31	1.62
7306866--7306994	46	2.8	45	85	1	159	50	13	4	31	1.62
7306866--7306994	69	1.9	68	82	4	161	50	13	4	31	1.62
7313254--7313297	22	2.0	22	82	4	54	52	2	2	43	1.26
7314546--7314593	23	2.1	23	96	0	87	27	10	10	52	1.68
7315311--7315378	35	1.9	36	96	3	129	27	5	19	47	1.72
7315979--7316018	20	2.1	19	85	4	53	35	5	7	52	1.51
7319376--7319447	35	2.1	35	89	5	110	33	11	15	40	1.82
7322092--7322122	15	2.0	16	93	6	55	19	12	6	61	1.53
7324810--7324841	13	2.6	12	90	9	55	0	6	3	90	0.53
7329728--7329761	12	2.9	12	86	4	52	50	8	11	29	1.69
7338702--7339053	192	1.8	192	81	0	443	37	11	11	39	1.78
7338702--7339106	192	2.1	192	80	1	434	37	12	11	38	1.80
7339813--7339877	33	2.0	33	84	0	85	29	12	4	53	1.58
7340289--7340498	104	2.0	104	82	0	249	28	22	15	33	1.95
7340981--7341063	36	2.3	36	83	4	105	18	39	13	28	1.88
7341833--7341946	60	1.9	60	85	7	160	33	25	5	35	1.78
7342853--7343046	105	1.8	105	79	8	225	30	20	14	34	1.92
7346328--7346378	2	26.0	2	92	4	86	47	1	0	50	1.12
7347180--7347576	55	7.2	55	83	5	428	30	23	15	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7347180--7347551	165	2.3	165	84	6	493	30	23	15	30	1.95
7352259--7352308	2	26.0	2	88	8	77	50	2	0	48	1.12
7357669--7357699	2	15.5	2	100	0	62	48	0	0	51	1.00
7359529--7359562	16	2.1	16	88	5	50	58	0	0	41	0.98
7359789--7359843	24	2.3	23	81	3	65	60	10	0	29	1.31
7359924--7359965	12	3.5	12	87	9	59	66	2	4	26	1.23
7362912--7363127	65	3.3	65	75	13	192	29	25	18	26	1.98
7363097--7363145	19	2.6	19	84	9	57	24	28	20	26	1.99
7367175--7367217	14	3.0	15	83	10	54	76	6	0	16	0.99
7370406--7370454	23	2.1	23	85	7	64	59	12	2	26	1.44
7376098--7376192	44	2.2	45	81	11	108	27	26	17	28	1.98
7377740--7377783	21	2.1	21	82	0	52	11	40	15	31	1.83
7378899--7379060	65	2.5	65	84	7	197	29	23	18	28	1.98
7379030--7379078	19	2.6	19	84	9	57	24	28	20	26	1.99
7380635--7380675	20	2.0	20	90	0	64	31	7	4	56	1.48
7385077--7385155	33	2.4	32	87	4	104	44	18	22	13	1.86
7386392--7386427	10	3.6	10	84	0	54	22	38	0	38	1.54
7386389--7386427	20	1.9	21	94	5	71	25	35	0	38	1.56
7386471--7386549	12	6.6	12	70	15	56	27	1	3	67	1.16
7386497--7386546	16	2.8	18	77	17	59	28	0	4	68	1.08
7386466--7386517	23	2.2	24	80	10	63	26	1	3	67	1.18
7386490--7386549	20	3.2	20	75	20	67	28	0	3	68	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7386514--7386557	21	2.2	20	87	4	61	27	0	2	70	0.99
7386658--7386734	34	2.3	34	82	8	88	33	0	2	63	1.08
7392350--7392387	19	2.0	20	89	5	60	63	0	0	36	0.95
7396825--7396854	16	1.9	16	93	6	53	60	3	10	26	1.45
7397951--7398013	3	21.0	3	91	6	101	69	0	0	30	0.88
7398362--7398461	42	2.4	41	76	3	110	30	22	21	27	1.98
7398134--7398834	263	2.7	257	83	6	894	35	17	14	33	1.90
7400936--7400985	14	3.6	14	89	10	77	0	20	0	80	0.72
7400923--7400985	27	2.3	27	84	10	76	3	19	0	77	0.90
7400936--7400994	5	12.8	5	76	15	56	1	16	0	81	0.78
7400926--7400980	22	2.5	22	80	16	60	3	20	0	76	0.94
7403361--7403708	36	9.8	36	79	13	346	44	4	7	43	1.51
7403361--7403708	69	4.8	71	82	11	390	44	4	7	43	1.51
7405022--7405081	24	2.3	26	80	11	70	21	1	1	75	0.99
7405194--7405259	22	2.8	23	73	17	64	15	4	4	75	1.12
7405394--7405448	6	8.7	6	92	8	83	34	0	0	65	0.93
7405394--7405448	19	2.9	19	94	5	94	34	0	0	65	0.93
7405395--7405448	25	2.1	26	96	3	101	35	0	0	64	0.94
7407997--7408242	95	2.7	96	78	13	254	31	17	18	32	1.94
7409360--7409863	84	6.0	84	78	6	509	31	25	19	24	1.98
7409324--7409795	165	2.8	164	88	2	685	30	24	19	25	1.98
7410258--7410288	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7410272--7410630	36	9.9	37	80	10	377	45	3	6	44	1.47
7410276--7410634	73	4.9	73	86	8	416	45	3	6	43	1.48
7410276--7410628	37	9.8	35	81	12	371	45	3	6	43	1.48
7410505--7410569	30	2.2	29	94	2	112	46	4	6	43	1.49
7411880--7411958	34	2.2	36	78	17	94	18	12	1	67	1.30
7411885--7411955	15	4.0	19	77	20	73	18	14	1	66	1.33
7411883--7411958	19	4.3	18	76	21	81	18	13	1	67	1.30
7411978--7412038	18	2.9	22	67	20	58	19	3	3	73	1.11
7412009--7412062	11	4.4	12	73	26	51	18	7	0	74	1.05
7412157--7412243	8	10.6	8	70	16	54	17	3	2	77	1.02

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