genome.fa.s1465.2.7.7.80.10.50.1000.34.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  34  of  55  ( 6520 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)
6771299--6771345	24	2.0	24	87	8	69	25	14	21	38	1.92
6773846--6774176	19	18.4	19	83	12	441	47	17	20	15	1.83
6773874--6774198	52	6.0	52	92	3	488	46	16	20	15	1.83
6774205--6774306	19	5.6	19	85	12	151	14	23	17	44	1.86
6774412--6774448	14	2.6	14	91	0	65	45	21	0	32	1.52
6774443--6774515	12	6.0	12	67	20	53	57	16	1	24	1.47
6774429--6774501	38	1.9	38	97	0	137	53	16	1	28	1.51
6776313--6776447	19	7.6	19	75	16	110	45	25	18	9	1.80
6776369--6776425	14	3.7	14	72	20	51	45	28	19	7	1.76
6776350--6776442	33	2.8	33	91	0	159	47	24	19	8	1.77
6776313--6776447	52	2.5	54	77	18	149	45	25	18	9	1.80
6776443--6776571	19	7.3	19	75	17	125	8	17	28	45	1.77
6776443--6776534	33	2.8	33	93	3	150	7	18	28	45	1.76
6776615--6776994	93	4.1	93	98	0	744	46	18	12	22	1.83
6776615--6776994	185	2.0	186	98	0	744	46	18	12	22	1.83
6778698--6778787	14	5.7	14	74	23	81	42	23	25	8	1.83
6778690--6778804	33	3.5	33	95	0	212	45	20	24	9	1.81
6778697--6778809	19	6.8	18	72	23	88	43	22	24	9	1.83
6778805--6778875	33	2.2	33	92	0	115	9	21	25	43	1.83
6778816--6778897	33	2.5	33	87	2	110	10	24	21	42	1.85
6778996--6779066	33	2.2	33	92	0	115	47	18	22	11	1.80
6779248--6779302	22	2.5	22	81	0	74	20	16	40	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6779448--6779641	20	9.6	20	80	5	203	19	19	25	36	1.95
6779448--6779641	60	3.2	60	81	0	235	19	19	25	36	1.95
6779634--6779710	21	3.7	20	70	13	57	27	16	23	32	1.96
6779696--6779747	20	2.6	20	96	0	95	21	13	26	38	1.90
6783521--6783545	13	1.9	13	100	0	50	24	0	28	48	1.52
6784147--6784207	20	3.0	20	71	17	61	29	24	22	22	1.99
6784092--6784199	20	5.1	21	68	20	82	33	22	16	27	1.95
6784077--6784205	42	3.1	41	85	1	168	32	21	19	26	1.97
6784451--6784896	36	12.3	36	86	1	568	22	19	22	36	1.95
6784467--6784895	181	2.4	180	87	1	588	21	19	22	36	1.95
6786177--6786425	125	2.0	125	90	0	390	23	26	16	33	1.96
6789308--6789351	20	2.2	20	100	0	88	22	20	22	34	1.97
6789800--6789836	13	2.8	13	100	0	74	45	16	16	21	1.84
6789796--6789839	6	7.2	6	87	12	63	47	15	15	20	1.82
6789796--6789839	19	2.4	19	88	11	65	47	15	15	20	1.82
6800852--6800879	2	14.0	2	100	0	56	50	0	0	50	1.00
6803003--6803038	14	2.6	14	100	0	72	36	22	5	36	1.78
6803384--6803444	23	2.7	23	92	0	95	26	26	27	19	1.99
6803468--6803685	103	2.1	103	96	0	400	36	23	13	26	1.92
6808861--6809015	42	3.7	41	78	8	145	34	19	20	25	1.96
6808877--6809209	42	7.9	40	73	16	146	35	18	18	27	1.94
6808877--6809080	87	2.4	85	82	9	229	36	20	19	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6809050--6809251	82	2.5	82	84	10	236	35	17	15	31	1.91
6809091--6809251	41	3.9	40	83	3	178	36	16	15	31	1.91
6809073--6809268	41	4.7	41	76	11	141	35	16	15	32	1.90
6809820--6810186	42	8.8	42	83	3	431	27	19	19	33	1.96
6809820--6810186	83	4.4	82	84	4	452	27	19	19	33	1.96
6809820--6810186	125	3.0	124	90	1	549	27	19	19	33	1.96
6813065--6813120	3	18.7	3	100	0	112	66	0	0	33	0.92
6815067--6815319	43	5.9	43	79	0	229	33	25	18	21	1.97
6815026--6815364	43	7.9	43	77	4	227	31	25	18	24	1.97
6815112--6815364	86	2.9	86	83	1	301	32	26	17	23	1.97
6815069--6815362	129	2.3	128	79	3	286	31	26	18	23	1.97
6833622--6833655	5	6.8	5	96	0	50	11	5	0	82	0.83
6834285--6834436	20	7.5	20	76	9	121	41	23	14	21	1.89
6834285--6834436	41	3.8	41	81	5	168	41	23	14	21	1.89
6834285--6834436	61	2.5	61	79	4	155	41	23	14	21	1.89
6834584--6834641	22	2.6	22	94	0	98	24	44	13	17	1.85
6834980--6835025	20	2.3	20	96	0	83	52	23	13	10	1.71
6835031--6835085	20	2.8	20	85	0	74	10	14	18	56	1.67
6837179--6837260	21	3.9	21	83	0	101	21	32	19	25	1.97
6837225--6837295	21	3.4	21	80	7	72	21	35	19	23	1.96
6837181--6837271	42	2.2	42	80	4	103	23	34	18	24	1.96
6838704--6838757	28	1.9	28	84	0	72	31	0	20	48	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6838704--6838740	14	2.6	14	100	0	74	29	0	21	48	1.50
6838649--6838806	80	2.0	79	92	3	264	30	1	18	49	1.56
6838885--6838923	13	2.9	14	82	17	55	7	20	30	41	1.80
6838885--6838927	14	3.1	14	78	18	54	9	18	27	44	1.80
6841384--6841437	24	2.2	24	90	0	81	42	18	14	24	1.88
6842375--6842412	19	2.0	20	84	5	51	31	10	18	39	1.85
6842440--6842525	20	4.3	20	84	11	106	20	16	20	41	1.90
6842522--6842561	19	2.0	20	90	4	64	25	20	22	32	1.98
6854929--6854960	15	2.1	15	94	0	55	18	18	25	37	1.94
6855075--6855146	32	2.2	32	80	4	83	30	8	13	47	1.73
6855090--6855175	32	2.6	33	85	3	111	30	9	18	41	1.82
6855925--6856021	16	6.1	16	75	4	70	11	15	27	45	1.80
6856265--6856350	2	43.0	2	100	0	172	50	0	0	50	1.00
6859233--6859291	22	2.7	22	81	5	66	44	5	3	47	1.42
6861833--6861978	61	2.4	60	82	1	175	60	8	13	17	1.58
6861835--6861978	30	4.8	30	81	1	162	60	9	13	17	1.58
6861835--6861998	30	5.4	29	79	7	150	59	9	13	17	1.60
6863464--6863547	3	28.7	3	95	4	154	66	0	0	33	0.92
6863839--6864030	83	2.3	84	84	3	246	23	18	33	23	1.97
6864053--6864392	66	5.2	66	87	2	389	41	17	15	25	1.89
6864053--6864392	131	2.6	130	85	2	412	41	17	15	25	1.89
6865617--6865672	19	2.9	19	82	15	55	5	17	7	69	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6865599--6865664	33	2.1	31	81	13	73	6	15	4	74	1.18
6865639--6865679	19	2.2	19	86	8	57	0	21	7	70	1.11
6867282--6867323	21	2.0	21	95	0	75	26	28	21	23	1.99
6867438--6867493	15	3.5	15	76	21	60	19	25	35	19	1.95
6867436--6867520	33	2.5	34	92	5	145	17	27	35	20	1.95
6867486--6867546	21	3.0	21	88	7	90	14	29	36	19	1.92
6870499--6870647	30	5.0	30	79	3	129	59	9	10	20	1.57
6870499--6870640	60	2.4	60	80	2	151	58	9	10	21	1.59
6870781--6870825	23	2.0	23	81	0	54	55	20	4	20	1.60
6872240--6872285	22	2.1	22	91	0	74	21	23	19	34	1.96
6876865--6876910	22	2.1	22	87	0	65	23	21	19	34	1.96
6878726--6878781	21	2.7	21	100	0	112	17	32	26	23	1.97
6890266--6890318	21	2.5	21	100	0	106	30	30	0	39	1.57
6893425--6893494	34	2.1	32	84	5	86	22	30	14	32	1.94
6893777--6893818	21	2.0	21	95	0	75	26	28	21	23	1.99
6893924--6893979	19	2.9	19	89	0	76	35	10	12	41	1.78
6894054--6894144	31	3.0	31	95	3	159	42	16	6	34	1.74
6896471--6896537	22	3.0	22	82	0	89	31	25	19	23	1.98
6899314--6899378	30	2.2	30	91	0	112	27	32	24	15	1.95
6907427--6907461	2	17.5	2	100	0	70	51	0	0	48	1.00
6910313--6910341	2	14.5	2	100	0	58	51	0	0	48	1.00
6912545--6912882	2	177.5	2	73	17	258	41	1	3	53	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6914142--6914189	21	2.2	22	88	3	80	16	14	0	68	1.21
6914234--6914275	4	10.8	4	89	5	68	26	0	0	73	0.83
6915091--6915153	23	2.6	24	85	9	76	44	6	1	47	1.38
6930684--6930728	19	2.4	20	82	14	60	22	2	4	71	1.15
6936995--6937628	91	7.0	91	94	0	1115	24	22	16	36	1.94
6937996--6938210	67	3.2	66	81	7	247	39	14	19	26	1.91
6938026--6938426	72	5.8	67	84	4	258	38	16	20	23	1.93
6938094--6938707	36	17.2	36	82	6	653	38	16	20	24	1.93
6938603--6938672	20	3.7	20	67	29	53	41	18	18	21	1.91
6938250--6938809	252	2.2	248	86	5	779	39	16	19	24	1.91

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