genome.fa.s9634.2.7.7.80.10.50.1000.38.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  38  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)
7608116--7608198	17	4.5	19	73	19	61	3	15	2	78	1.00
7608152--7608206	12	4.5	12	78	17	51	3	18	0	78	0.90
7649817--7649923	30	3.6	30	81	0	124	59	19	6	14	1.56
7649820--7649938	6	19.8	6	74	0	58	61	18	6	13	1.53
7649892--7649942	21	2.4	21	80	6	59	62	17	7	11	1.51
7649826--7649932	33	3.1	35	74	15	107	59	17	7	14	1.58
7649951--7649991	18	2.3	18	86	0	55	60	21	7	9	1.52
7649963--7650308	12	28.9	12	65	8	78	61	20	6	11	1.51
7649962--7650335	18	19.5	18	67	12	131	61	20	6	11	1.51
7649962--7650021	3	20.0	3	72	6	50	65	26	3	5	1.29
7650070--7650310	15	15.9	15	71	9	121	60	21	7	10	1.53
7650059--7650215	24	6.5	24	68	14	92	63	17	7	12	1.49
7650130--7650226	27	3.7	27	72	18	87	61	17	8	12	1.54
7650150--7650245	27	3.6	27	76	0	84	63	16	6	13	1.49
7650150--7650382	30	8.0	29	72	13	131	59	21	6	12	1.55
7650255--7650310	3	18.7	3	81	0	67	60	30	3	5	1.36
7650355--7650394	21	1.9	21	84	0	53	57	22	5	15	1.57
7650072--7650385	18	17.8	18	69	10	78	59	20	7	12	1.56
7650406--7650440	15	2.3	15	90	0	52	57	20	5	17	1.60
7651829--7651875	20	2.3	20	86	13	78	14	17	25	42	1.87
7653510--7653799	142	2.0	140	88	5	384	34	13	16	34	1.89
7656450--7656481	17	1.9	16	93	6	55	68	6	0	25	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7663264--7663296	17	1.9	17	93	0	57	45	6	0	48	1.27
7664901--7664940	21	2.0	20	85	14	55	12	5	20	62	1.48
7669701--7669769	34	2.0	35	83	8	88	39	8	7	44	1.63
7669702--7669772	17	4.1	17	77	1	70	39	7	7	46	1.58
7672184--7672216	11	3.0	11	83	16	50	36	42	3	18	1.66
7674727--7674774	11	4.5	11	82	12	55	35	39	6	18	1.76
7674737--7674779	20	2.0	22	86	8	63	37	41	4	16	1.69
7678682--7678792	7	15.9	7	70	10	66	23	0	36	40	1.55
7678670--7678744	35	2.1	35	87	0	105	24	0	30	45	1.53
7678752--7678790	13	2.9	13	88	7	60	17	0	46	35	1.49
7689392--7689426	16	2.2	16	94	0	61	5	14	0	80	0.89
7710717--7710800	3	28.0	3	77	13	84	39	2	0	58	1.11
7712244--7712296	18	2.8	20	80	16	67	30	0	3	66	1.10
7712212--7712296	18	4.6	18	70	20	59	34	2	2	61	1.22
7712332--7712382	26	1.9	27	84	4	68	31	1	3	62	1.24
7713657--7713742	3	29.0	3	73	15	72	39	2	0	58	1.11
7719830--7719861	2	16.0	2	100	0	64	50	0	0	50	1.00
7720935--7720963	12	2.4	12	100	0	58	68	0	0	31	0.89
7721086--7721148	3	21.7	3	93	6	112	30	0	0	69	0.88
7725144--7725176	16	2.1	16	100	0	66	18	0	36	45	1.49
7726140--7726175	16	2.2	17	90	9	58	30	5	19	44	1.73
7726303--7726382	31	2.5	32	88	8	128	22	18	20	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7727246--7727438	94	2.0	95	88	3	282	40	12	21	24	1.88
7727774--7728017	54	4.5	54	88	2	355	33	12	16	37	1.86
7733203--7733279	30	2.5	31	79	16	88	54	3	7	33	1.48
7734205--7734235	10	3.0	10	95	4	53	51	0	0	48	1.00
7737835--7737905	24	2.9	24	91	2	97	39	14	18	28	1.89
7737850--7737905	24	2.3	24	100	0	112	37	16	17	28	1.91
7739453--7739489	17	2.2	17	90	4	58	32	0	0	67	0.91
7749775--7749808	2	17.0	2	100	0	68	50	0	0	50	1.00
7749986--7750101	55	2.1	57	85	4	155	23	14	24	37	1.92
7750008--7750140	55	2.4	55	81	5	142	23	14	25	36	1.92
7750113--7750233	48	2.5	48	79	0	134	20	16	28	34	1.94
7750411--7750548	30	4.7	31	75	14	91	47	5	20	26	1.72
7751649--7751731	25	3.3	25	96	0	157	44	22	8	24	1.80
7754642--7754776	61	2.2	61	89	0	207	28	12	17	42	1.85
7755423--7755504	27	3.0	27	92	0	128	30	19	25	24	1.98
7757395--7757441	3	15.3	3	82	12	60	38	0	0	61	0.96
7757917--7757959	2	21.5	2	100	0	86	51	0	0	48	1.00
7758877--7758914	12	3.2	12	81	3	51	28	2	2	65	1.19
7758928--7758959	2	16.0	2	100	0	64	50	0	0	50	1.00
7759056--7759116	31	2.0	31	86	0	86	42	0	1	55	1.09
7762193--7762234	7	6.0	7	83	10	59	14	16	9	59	1.60
7762197--7762259	20	3.0	20	81	9	65	14	11	9	65	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7765418--7765469	17	2.8	19	80	13	65	84	1	13	0	0.70
7765422--7765484	8	8.1	8	76	3	58	82	1	15	0	0.74
7765418--7765477	10	5.9	10	73	15	52	83	1	15	0	0.73
7765418--7765470	26	2.0	28	88	7	83	84	1	13	0	0.69
7765418--7765477	20	3.0	20	85	7	70	83	1	15	0	0.73
7766178--7766236	29	2.0	29	96	0	109	23	8	16	50	1.72
7769042--7769079	11	3.5	11	80	20	53	13	15	21	50	1.78
7770396--7770715	165	1.9	163	91	3	525	35	12	13	38	1.83
7770714--7771163	73	6.2	73	97	0	837	30	19	12	37	1.89
7771229--7771509	45	6.3	45	94	0	483	25	23	16	34	1.95
7771642--7771686	3	14.3	3	86	9	63	37	0	0	62	0.96
7773082--7773119	12	3.2	12	81	3	51	28	2	2	65	1.19
7773246--7773306	31	2.0	31	86	0	86	42	0	1	55	1.09
7773388--7773422	17	2.0	18	88	5	54	40	5	8	45	1.58
7779911--7779951	17	2.4	17	91	4	64	17	31	17	34	1.93
7780515--7780715	15	13.5	15	93	0	323	49	0	0	50	1.00
7780697--7781044	32	11.3	32	68	27	195	34	0	12	53	1.39
7780718--7780760	22	2.0	22	100	0	86	34	0	13	51	1.42
7780697--7781667	54	18.1	54	73	18	705	34	0	12	53	1.41
7780829--7780881	14	3.5	14	72	18	52	37	0	5	56	1.23
7780843--7780899	18	3.4	18	72	18	68	35	0	10	54	1.35
7780884--7780926	22	2.0	22	95	0	77	37	0	11	51	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7780938--7780980	22	2.0	22	100	0	86	34	0	13	51	1.42
7781028--7781142	22	4.8	22	74	19	104	37	0	10	52	1.36
7781072--7781174	32	3.5	32	75	24	136	34	0	12	52	1.40
7781154--7781222	26	3.0	22	76	15	84	31	0	15	52	1.44
7781100--7781747	80	8.2	79	81	13	771	33	0	13	52	1.43
7781202--7781308	32	3.7	32	75	23	135	33	0	14	52	1.41
7781234--7781330	22	4.0	22	71	23	86	34	0	14	51	1.43
7781319--7781386	14	4.6	14	79	13	82	35	0	5	58	1.22
7781347--7781406	18	3.6	17	72	19	63	28	1	11	58	1.43
7781333--7781650	32	9.4	32	70	19	148	33	0	11	54	1.41
7781388--7781452	22	3.0	22	86	0	103	35	1	10	52	1.46
7781256--7781754	100	4.7	104	73	16	361	33	0	12	53	1.43
7781455--7781502	22	2.4	18	73	23	51	33	0	14	52	1.42
7781544--7781585	22	1.9	22	95	0	75	35	0	11	52	1.38
7780697--7781762	166	6.4	166	75	17	743	34	0	12	53	1.41
7781710--7781752	22	2.0	22	100	0	86	34	0	13	51	1.42
7781512--7781762	54	4.6	54	75	11	258	34	0	12	52	1.39
7783597--7783758	60	2.7	60	85	2	184	32	16	3	48	1.63
7784087--7784119	16	2.1	16	94	0	57	36	18	6	39	1.75
7786417--7786525	29	3.7	29	73	7	85	35	3	24	35	1.73
7786415--7786579	60	2.8	60	82	0	222	40	4	21	33	1.73
7786456--7786556	31	3.3	31	74	10	100	39	2	21	35	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7786430--7786526	29	3.3	29	72	11	88	36	4	23	36	1.74
7796215--7796268	17	3.4	17	70	15	60	27	11	1	59	1.42
7796206--7796280	31	2.4	31	100	0	150	29	13	4	53	1.58
7800240--7800328	21	4.1	21	72	15	65	31	25	17	24	1.97
7800243--7800329	44	2.0	44	93	0	147	29	26	19	24	1.98
7800240--7800310	22	3.2	22	73	15	83	30	23	16	28	1.97
7802366--7802415	21	2.3	22	93	6	93	14	24	16	46	1.83
7807784--7807854	22	3.2	22	73	15	83	30	23	16	28	1.97
7807793--7807863	21	3.3	20	71	21	63	29	26	19	23	1.98
7809905--7809953	21	2.5	19	87	9	64	32	26	10	30	1.89

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