genome.fa.s1547.2.7.7.80.10.50.1000.35.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   

This is table  35  of  51  ( 6083 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)
6795098--6795160	20	3.3	20	69	22	64	50	7	23	17	1.72
6795142--6795424	124	2.3	122	84	6	355	42	15	18	23	1.88
6795560--6795608	3	15.7	3	80	16	55	36	0	0	63	0.95
6799144--6799262	56	2.1	56	83	6	143	54	2	5	37	1.36
6799815--6799845	16	1.9	16	93	0	53	45	0	6	48	1.28
6800139--6800182	23	2.0	22	86	4	61	47	0	6	45	1.29
6811901--6812020	59	2.0	59	93	0	204	36	25	15	23	1.93
6813735--6813781	20	2.3	20	85	7	60	55	2	2	40	1.24
6822883--6822970	46	1.9	46	81	4	106	53	12	7	26	1.65
6823862--6823901	2	20.0	2	100	0	80	50	0	0	50	1.00
6823988--6824025	18	2.1	18	90	9	60	52	0	5	42	1.24
6824822--6824873	17	3.2	17	75	10	54	50	13	3	32	1.60
6825240--6825273	18	1.9	18	88	5	52	61	2	0	35	1.11
6827584--6827877	43	6.8	43	74	9	172	25	20	22	31	1.98
6828216--6828324	21	5.2	21	83	2	103	1	41	17	39	1.60
6837034--6837290	41	6.3	41	73	13	208	31	23	15	29	1.96
6839548--6839576	12	2.4	12	100	0	58	48	0	0	51	1.00
6840100--6840124	13	1.9	13	100	0	50	0	12	0	88	0.53
6840801--6840840	20	1.9	20	90	10	62	32	2	10	55	1.47
6843941--6844428	244	2.0	244	98	0	940	38	21	18	21	1.93
6844548--6844641	47	2.0	47	100	0	188	19	31	29	19	1.96
6852180--6852729	105	5.3	105	96	1	988	33	25	18	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6853194--6853222	12	2.4	12	100	0	58	48	0	0	51	1.00
6853746--6853770	13	1.9	13	100	0	50	0	12	0	88	0.53
6860018--6860082	28	2.3	28	86	7	87	63	7	1	27	1.31
6872041--6872102	30	2.1	29	81	6	70	35	1	11	51	1.47
6877233--6877665	216	2.0	217	99	0	859	26	15	28	29	1.96
6889258--6889944	368	1.9	368	94	1	1216	24	15	17	42	1.89
6894435--6894500	32	2.1	32	100	0	132	28	21	12	37	1.89
6898316--6898352	2	18.5	2	100	0	74	48	0	0	51	1.00
6919818--6919893	35	2.2	35	92	0	125	39	23	1	35	1.63
6920290--6920537	130	1.9	130	93	0	424	36	15	12	35	1.86
6920304--6920568	130	2.0	129	81	4	309	39	13	13	33	1.83
6920865--6920927	28	2.3	27	78	8	63	46	1	3	49	1.27
6921003--6921039	15	2.4	16	86	13	51	59	5	2	32	1.34
6921519--6921557	2	20.0	2	89	5	62	46	0	2	51	1.14
6922624--6922724	20	5.1	19	72	10	67	32	25	10	30	1.90
6922624--6922725	40	2.5	41	82	6	118	32	26	10	30	1.90
6922950--6922987	14	2.4	16	87	12	53	31	2	0	65	1.06
6926354--6926399	21	2.2	21	88	0	65	52	15	17	15	1.76
6926436--6926480	20	2.2	20	92	0	72	26	20	17	35	1.95
6927989--6928043	20	2.7	20	78	13	67	23	20	30	25	1.98
6928328--6928401	21	3.5	21	85	3	96	39	27	14	18	1.90
6928362--6928482	63	1.9	63	81	6	147	33	33	12	20	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6928474--6928519	21	2.2	21	84	0	56	30	39	13	17	1.87
6930220--6930272	20	2.7	19	82	8	70	49	22	13	15	1.79
6931696--6931753	24	2.5	24	88	2	82	55	5	3	36	1.39
6935916--6936230	157	2.0	157	100	0	630	40	14	8	35	1.77
6937401--6938676	255	5.0	254	83	5	1496	23	13	21	40	1.89
6944614--6944674	31	2.0	31	90	0	95	26	26	11	36	1.90
6945790--6945822	15	2.2	15	94	0	57	30	33	21	15	1.94
6952701--6952735	15	2.3	15	90	0	61	20	22	28	28	1.98
6953374--6953406	15	2.2	15	94	0	57	30	33	21	15	1.94
6959868--6959900	15	2.2	15	94	0	57	30	33	21	15	1.94
6961770--6961847	31	2.5	31	80	0	84	34	14	25	25	1.94
6972550--6972582	14	2.3	15	89	5	50	48	0	3	48	1.17
6973169--6973195	3	9.0	3	100	0	54	33	0	0	66	0.92
6974112--6974159	19	2.5	19	100	0	96	52	12	10	25	1.71
6975875--6975916	5	8.4	5	79	10	50	35	2	0	61	1.09
6977720--6977892	95	1.8	96	94	1	312	43	19	5	30	1.74
6979953--6979992	18	2.2	18	86	0	53	32	15	12	40	1.84
6981915--6981963	23	2.1	23	96	0	89	26	10	8	55	1.61
6982788--6982813	5	5.2	5	100	0	52	80	0	0	19	0.71
6983889--6984216	37	8.7	37	74	17	187	43	4	6	45	1.51
6983974--6984067	43	2.3	43	87	9	133	45	4	4	45	1.42
6984033--6984057	12	2.1	12	100	0	50	40	8	8	44	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6984019--6984262	37	6.8	36	75	12	161	40	4	7	47	1.53
6983885--6984219	75	4.4	75	76	13	237	42	5	6	45	1.52
6984170--6984327	64	2.4	65	79	8	169	41	3	6	48	1.46
6984837--6984911	36	2.1	36	85	5	98	46	1	4	48	1.29
6985042--6985082	18	2.4	17	84	11	57	19	24	12	43	1.85
6985049--6985083	18	1.9	18	100	0	70	17	22	11	48	1.79
6985050--6985090	18	2.3	18	91	0	64	19	26	9	43	1.82
6985152--6985197	16	2.7	17	90	10	76	28	39	23	8	1.84
6986138--6986198	26	2.3	26	83	8	79	26	6	0	67	1.15
6987893--6987949	26	2.2	25	79	11	62	15	17	8	57	1.63
6989888--6992009	105	20.2	106	93	1	3459	32	25	18	22	1.97
6989888--6992009	211	10.1	211	92	1	3465	32	25	18	22	1.97
6989888--6992009	316	6.7	316	92	1	3479	32	25	18	22	1.97
6992872--6993169	35	8.3	36	73	17	212	42	4	6	45	1.51
6992872--6993169	108	2.7	105	77	14	243	42	4	6	45	1.51
6993132--6993281	64	2.2	64	80	10	151	40	3	8	48	1.49
6993296--6993329	14	2.4	14	90	0	50	11	2	2	82	0.89
6993472--6993504	17	1.9	17	100	0	66	30	36	24	9	1.86
6994455--6994513	26	2.3	26	82	2	75	27	6	0	66	1.17
6998696--6998833	21	6.7	21	69	6	68	35	25	18	20	1.95
6998801--6999029	20	11.4	20	81	5	230	37	25	17	19	1.94
7000148--7000385	33	6.8	34	78	15	229	44	18	23	13	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7000162--7000385	53	4.2	52	88	5	285	45	17	22	14	1.85
7000148--7000379	86	2.7	90	90	7	358	45	18	22	13	1.84
7000287--7000341	14	3.6	14	73	21	56	45	20	23	10	1.82
7000356--7000471	53	2.2	52	86	3	160	18	23	18	38	1.93
7000375--7000491	53	2.2	53	98	1	227	13	23	17	44	1.85
7000394--7000491	19	5.4	19	84	13	143	14	22	17	45	1.84
7000600--7000634	14	2.5	14	90	0	61	45	20	0	34	1.51
7002638--7002694	14	3.7	14	72	20	51	43	21	22	12	1.85
7002619--7002707	33	2.7	33	94	0	160	46	20	21	12	1.83
7002544--7002707	19	9.1	19	77	13	150	46	23	19	10	1.81
7002712--7002757	19	2.3	20	88	7	76	8	15	28	47	1.74
7002731--7002822	33	2.8	33	86	5	123	10	18	25	45	1.81
7002724--7002790	19	3.8	18	73	18	61	8	19	25	46	1.79
7002920--7003233	93	3.4	93	94	0	551	45	18	13	22	1.84
7003980--7004076	20	5.2	20	72	18	100	46	17	24	11	1.81
7003978--7004042	21	3.1	21	82	4	96	47	15	26	10	1.78
7004027--7004083	14	3.7	14	75	20	60	43	22	24	8	1.81
7003978--7004100	33	3.5	33	90	8	165	46	18	24	10	1.81
7004145--7004218	21	3.5	21	80	7	96	14	20	17	47	1.83
7004298--7004367	33	2.1	33	91	0	113	47	17	22	12	1.81
7004742--7004913	20	8.6	20	89	2	247	18	19	28	33	1.95
7005528--7005608	29	2.8	29	82	0	90	22	37	23	17	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7005982--7006090	39	2.8	39	87	8	143	36	1	16	44	1.58
7006173--7006225	28	1.9	27	88	3	79	32	1	16	49	1.57
7006172--7006236	27	2.3	29	82	10	82	36	1	15	46	1.55
7006364--7006418	18	3.4	18	65	31	52	38	0	9	52	1.33
7006548--7006595	11	4.6	11	73	23	50	33	27	33	6	1.82
7007474--7007513	21	1.9	21	94	0	71	30	0	12	57	1.36
7007670--7007751	30	2.8	30	87	5	114	45	1	9	43	1.44
7007702--7007752	15	3.3	16	72	10	61	45	0	13	41	1.44
7007728--7007766	11	3.5	11	80	13	53	48	0	12	38	1.42
7007725--7007773	22	2.2	22	100	0	98	46	0	14	38	1.44

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