genome.fa.s7984.2.7.7.80.10.50.1000.55.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   

This is table  55  of  65  ( 7696 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)
10850938--10850991	22	2.5	22	82	14	69	40	0	1	57	1.09
10852415--10852482	23	3.0	23	80	2	84	32	22	23	22	1.98
10856456--10856548	3	30.7	3	95	2	168	31	0	1	67	0.98
10856730--10856834	31	3.5	30	74	20	103	25	19	18	37	1.94
10858022--10858059	19	1.9	20	84	10	51	7	10	15	65	1.45
10859236--10859262	14	1.9	14	100	0	54	25	29	22	22	1.99
10865619--10865685	25	2.5	25	76	13	64	16	8	5	68	1.35
10866661--10866690	15	1.9	16	93	6	53	36	0	3	60	1.14
10867981--10868020	19	2.1	19	95	0	71	30	15	32	22	1.94
10869010--10869143	21	6.5	21	77	4	139	40	17	24	17	1.91
10869010--10869143	41	3.3	41	100	0	268	40	17	24	17	1.91
10869010--10869179	82	2.1	82	87	4	245	40	18	21	18	1.91
10869174--10869226	20	2.7	20	93	0	88	24	28	20	26	1.99
10869742--10869808	19	3.5	19	85	2	89	47	25	16	10	1.78
10869804--10869986	20	10.1	19	72	16	138	12	21	21	44	1.85
10869804--10869986	33	5.1	36	75	13	153	12	21	21	44	1.85
10871984--10872106	42	2.9	42	80	2	122	22	36	17	22	1.95
10872040--10872106	21	3.2	21	66	6	55	23	35	20	19	1.95
10873465--10873500	14	2.6	14	95	0	63	30	0	25	44	1.54
10873679--10873829	19	8.7	19	64	21	80	15	22	20	41	1.89
10873683--10873809	33	3.9	32	87	8	193	14	22	19	42	1.88
10873676--10873808	66	2.0	66	97	0	248	16	22	19	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10876102--10876126	12	2.1	12	100	0	50	0	28	0	72	0.86
10876301--10876354	24	2.2	24	90	0	81	38	20	16	24	1.92
10877412--10877469	20	2.9	20	89	0	89	37	20	22	18	1.94
10877492--10877565	19	4.5	16	83	16	66	13	20	18	47	1.82
10877488--10877555	19	3.8	19	87	12	101	13	22	17	47	1.82
10879579--10879642	19	3.3	19	82	4	83	37	23	25	14	1.92
10879631--10879688	14	3.9	14	79	16	71	48	25	17	8	1.75
10879615--10879693	32	2.4	33	95	2	142	46	24	18	10	1.80
10879722--10879811	14	5.9	14	76	19	90	11	17	23	47	1.79
10879712--10879827	32	3.6	32	97	1	214	12	18	21	47	1.81
10879812--10879866	20	2.8	19	83	8	65	16	23	23	36	1.94
10880339--10880383	18	2.5	18	85	0	63	15	15	42	26	1.87
10882003--10882046	22	2.0	22	100	0	88	18	13	45	22	1.84
10882234--10882327	20	4.7	20	80	2	89	23	18	24	34	1.96
10882254--10882331	41	1.9	41	86	0	111	21	16	21	39	1.92
10882214--10882328	20	5.7	20	78	5	88	23	17	23	35	1.95
10882254--10882349	41	2.3	41	80	3	104	20	19	21	37	1.94
10895955--10895992	18	2.1	18	95	0	67	23	21	28	26	1.99
10897435--10897656	111	2.0	111	92	1	374	45	9	8	36	1.67
10897780--10897820	10	4.1	10	84	12	57	39	0	29	31	1.57
10897931--10898057	51	2.5	51	85	1	166	20	29	33	16	1.95
10898706--10898837	58	2.2	62	82	8	157	41	4	0	53	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10898757--10898839	31	2.7	30	87	5	112	38	6	0	55	1.25
10898707--10898839	61	2.2	59	79	14	146	41	4	0	54	1.21
10898794--10898887	30	3.2	30	80	11	115	41	3	0	55	1.16
10898804--10898887	27	3.0	27	78	14	82	40	3	0	55	1.17
10898915--10898957	21	2.0	21	82	8	52	55	2	0	41	1.12
10898936--10898985	25	2.0	26	88	4	75	60	0	2	38	1.09
10899169--10899231	26	2.3	28	86	10	87	6	23	6	63	1.41
10900879--10900922	21	2.1	21	91	0	70	29	29	13	27	1.94
10901444--10901489	22	2.2	22	88	7	69	30	30	17	21	1.96
10902600--10902726	3	41.0	3	68	12	60	61	4	27	6	1.40
10902604--10902703	41	2.4	41	85	3	139	63	5	27	5	1.36
10903803--10903858	3	20.0	3	79	20	59	28	0	1	69	0.98
10903803--10903858	13	4.5	13	75	20	57	28	0	1	69	0.98
10903811--10903858	19	2.6	18	86	6	60	29	0	2	68	1.01
10903803--10903857	16	3.3	16	79	5	65	27	0	1	70	0.97
10905657--10905688	2	16.0	2	100	0	64	50	0	0	50	1.00
10906161--10906201	21	2.0	21	85	0	55	24	4	2	68	1.22
10908483--10908542	27	2.3	27	85	2	86	21	13	6	58	1.58
10908482--10908509	12	2.3	12	100	0	56	25	14	7	53	1.66
10910155--10910188	2	17.0	2	100	0	68	50	0	0	50	1.00
10910489--10910539	7	6.9	7	78	12	57	76	0	21	1	0.88
10910486--10910532	15	3.1	15	81	6	67	78	0	19	2	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10915563--10915998	113	3.9	113	88	1	631	37	14	19	28	1.91
10916319--10916374	3	20.0	3	79	20	59	28	0	1	69	0.98
10916319--10916374	13	4.5	13	75	20	57	28	0	1	69	0.98
10916327--10916374	19	2.6	18	86	6	60	29	0	2	68	1.01
10916319--10916373	16	3.3	16	79	5	65	27	0	1	70	0.97
10917806--10917843	12	3.2	12	85	3	51	28	2	2	65	1.19
10918173--10918202	2	15.0	2	100	0	60	50	0	0	50	1.00
10917989--10918204	115	1.9	114	81	9	260	42	6	6	44	1.54
10922334--10922704	132	3.1	113	79	16	399	48	8	5	38	1.56
10922447--10922695	132	1.9	131	91	0	408	48	8	4	37	1.56
10922262--10922704	242	1.8	237	87	6	660	48	7	5	38	1.54
10922486--10922734	132	1.9	127	83	6	282	49	7	5	36	1.55
10922772--10922835	7	9.1	7	100	0	128	0	57	0	42	0.98
10928176--10928313	70	2.0	70	82	2	170	32	9	14	43	1.77
10928855--10928891	14	2.6	14	91	8	58	51	0	29	18	1.47
10933971--10934012	20	2.0	21	90	4	68	35	14	9	40	1.78
10937009--10937045	19	1.9	19	88	0	56	40	8	16	35	1.78
10943663--10943722	22	2.7	22	84	7	68	23	31	26	18	1.97
10952466--10952553	18	4.9	18	87	0	122	26	31	23	18	1.97
10956484--10956563	18	4.4	18	80	0	106	28	30	21	20	1.98
10957382--10957441	24	2.5	24	100	0	120	25	28	21	25	1.99
10960714--10960793	18	4.4	18	85	0	106	30	31	20	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10963064--10963146	20	4.2	20	90	0	121	51	16	0	31	1.45
10963066--10963140	4	18.8	4	88	0	105	52	18	0	29	1.46
10963187--10963233	17	2.8	17	75	15	53	48	0	4	46	1.21
10964357--10964398	17	2.3	19	84	16	61	30	9	0	59	1.29
10968106--10968231	63	2.0	63	98	0	243	26	24	17	31	1.97
10972226--10972284	29	2.0	29	100	0	118	23	13	13	49	1.78
10976909--10976967	29	2.0	29	100	0	118	23	13	13	49	1.78
10980687--10980763	2	38.5	2	100	0	154	50	0	0	49	1.00
10984946--10985047	38	2.8	35	75	11	96	44	1	6	47	1.41
10985090--10985119	11	2.6	12	89	10	53	33	0	0	66	0.92
10985093--10985140	16	3.1	16	85	8	64	29	0	2	68	1.01
10987287--10987345	25	2.4	24	91	5	100	37	18	22	22	1.94
10987515--10987572	20	2.9	19	82	5	62	32	8	25	32	1.86
10991101--10991161	32	1.9	32	89	0	95	22	13	6	57	1.59
10992554--10992663	31	3.5	31	83	0	139	50	15	10	23	1.76
10993056--10993294	20	11.6	20	73	9	131	40	19	22	18	1.92
10993161--10993294	63	2.1	63	91	0	214	37	17	24	20	1.94
10993382--10993462	6	13.5	6	100	0	162	33	50	16	0	1.45
10994145--10994211	6	11.2	6	100	0	134	0	16	49	34	1.46
10994299--10994596	20	14.6	20	78	7	206	16	23	20	39	1.91
10994299--10994596	40	7.3	40	75	10	228	16	23	20	39	1.91
10994299--10994492	63	3.1	63	88	2	277	16	25	20	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10994546--10994596	19	2.6	20	90	3	77	15	17	23	43	1.88
10994701--10994729	2	14.5	2	100	0	58	51	0	48	0	1.00
10994937--10994983	21	2.2	21	81	11	51	57	2	10	29	1.44
11001803--11001885	42	2.0	41	83	6	105	27	30	6	36	1.81
11008476--11008510	15	2.2	16	95	5	63	40	14	14	31	1.86
11010549--11010633	31	2.8	30	79	10	102	44	5	4	44	1.49
11011240--11011265	13	2.0	13	100	0	52	61	0	0	38	0.96
11011328--11011358	2	15.5	2	100	0	62	48	0	0	51	1.00
11026492--11026530	17	2.4	17	86	4	53	58	7	0	33	1.26
11031159--11031194	18	2.0	18	94	0	63	0	19	5	75	1.00

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