genome.fa.s7999.2.7.7.80.10.50.1000.22.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  22  of  50  ( 5918 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)
5641180--5641244	22	2.8	24	76	11	71	50	0	1	47	1.10
5654149--5654178	15	2.0	15	93	0	51	53	6	3	36	1.44
5655351--5655383	2	17.0	2	93	6	59	51	0	0	48	1.00
5655348--5655401	6	7.9	7	86	10	60	55	0	0	44	0.99
5655333--5655413	21	4.2	17	76	23	65	54	0	0	45	0.99
5655377--5655417	12	3.6	12	78	21	52	53	0	0	46	1.00
5655568--5656281	76	9.4	76	96	0	1293	35	21	19	24	1.96
5656794--5656832	18	2.2	18	100	0	78	23	17	10	48	1.78
5656977--5657031	22	2.5	22	90	0	92	41	14	10	32	1.81
5657397--5657550	54	2.9	54	82	3	190	25	21	14	38	1.91
5659542--5659774	115	2.0	114	90	2	360	30	21	16	32	1.95
5663840--5663929	36	2.5	36	78	7	94	57	10	14	17	1.64
5667129--5667158	15	2.0	15	93	0	51	53	6	3	36	1.44
5668314--5668382	3	23.0	3	78	14	63	57	0	0	42	0.98
5668327--5668382	16	3.7	16	80	15	66	58	0	0	41	0.98
5668314--5668380	19	3.5	19	81	15	68	58	0	0	41	0.98
5670265--5670290	9	2.9	9	100	0	52	30	0	23	46	1.53
5689809--5689857	24	2.0	24	100	0	98	48	8	16	26	1.73
5694188--5694268	31	2.7	30	77	7	85	49	2	16	32	1.58
5697918--5697972	28	2.0	27	82	10	67	47	1	1	49	1.23
5698202--5698232	16	2.0	15	93	6	53	70	0	0	29	0.87
5703154--5703251	35	3.0	33	73	15	96	45	8	1	44	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5703152--5703269	29	3.8	29	74	14	110	41	7	0	50	1.37
5703270--5703562	30	9.5	30	68	12	137	53	1	6	39	1.34
5703349--5703404	26	2.2	26	83	6	69	55	0	0	44	0.99
5703493--5703545	23	2.3	23	77	6	63	60	0	7	32	1.25
5703559--5703596	18	2.1	19	85	5	51	42	5	10	42	1.62
5708684--5708746	2	31.5	2	100	0	126	49	0	0	50	1.00
5708939--5708999	24	2.5	24	97	0	113	44	14	21	19	1.86
5710475--5710503	14	2.1	14	100	0	58	51	6	0	41	1.28
5716485--5716618	20	6.7	20	84	5	144	32	25	17	24	1.97
5717157--5717200	18	2.4	19	84	7	63	47	27	15	9	1.76
5717196--5717379	19	10.1	19	76	13	172	13	23	19	43	1.86
5717267--5717354	33	2.6	33	94	1	149	12	27	21	38	1.89
5717322--5717379	20	2.9	20	80	10	64	13	24	18	43	1.87
5719044--5719207	87	1.9	82	85	10	224	18	13	20	47	1.82
5719454--5719566	21	5.5	21	65	19	58	21	38	17	23	1.94
5719423--5719592	42	4.1	42	77	3	175	21	37	17	23	1.94
5719420--5719592	82	2.1	83	95	3	314	21	37	17	23	1.94
5719482--5719621	41	3.5	40	73	6	138	22	36	18	22	1.95
5719420--5719621	82	2.4	82	90	3	280	22	36	18	23	1.95
5720952--5720986	13	2.6	14	90	4	54	28	0	25	45	1.54
5720939--5720987	13	3.7	14	76	10	50	26	0	22	51	1.49
5721110--5721165	14	3.6	14	78	21	67	42	23	25	8	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5721092--5721165	33	2.2	33	95	0	130	43	21	24	10	1.84
5721092--5721152	19	3.5	19	76	21	69	42	21	24	11	1.86
5721181--5721306	33	3.9	32	83	9	166	15	22	19	42	1.88
5721249--5721306	16	3.4	19	68	24	56	15	22	17	44	1.86
5723770--5723823	24	2.2	24	90	0	81	40	20	16	22	1.91
5724625--5724702	20	3.9	20	80	6	77	34	23	19	23	1.96
5724621--5724711	40	2.3	40	81	7	112	38	21	18	20	1.93
5724621--5724711	20	4.6	20	73	5	76	38	21	18	20	1.93
5724923--5724989	20	3.4	20	75	4	82	38	23	20	16	1.92
5726460--5726532	38	1.9	38	83	5	94	19	15	41	24	1.89
5726885--5726937	19	2.7	19	82	2	70	35	22	26	15	1.93
5726921--5727029	32	3.4	32	96	1	193	46	22	18	11	1.81
5726937--5727024	14	5.8	14	73	20	70	47	23	17	11	1.79
5727037--5727204	19	9.6	19	70	18	89	13	20	22	44	1.86
5727059--5727149	14	5.9	14	74	20	83	10	17	23	48	1.79
5727042--5727165	33	3.8	33	96	2	232	12	18	21	47	1.81
5727042--5727165	65	1.9	66	96	1	232	12	18	21	47	1.81
5727150--5727204	20	2.8	19	83	8	65	16	23	23	36	1.94
5727681--5727725	18	2.5	18	88	0	72	13	15	44	26	1.83
5729028--5729067	19	2.1	19	85	0	53	47	22	17	12	1.81
5729036--5729087	20	2.7	19	90	3	77	36	26	19	17	1.94
5729542--5729608	21	3.2	21	71	12	66	20	17	22	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5729591--5729645	27	2.0	27	96	0	101	23	14	23	38	1.92
5729630--5729683	20	2.7	20	91	0	90	25	16	24	33	1.96
5729754--5729794	21	2.0	21	85	0	55	34	29	17	19	1.94
5731354--5731566	86	2.5	86	87	0	291	24	22	21	31	1.98
5731418--5731628	86	2.5	85	84	3	228	25	22	21	30	1.99
5731776--5734850	106	29.4	106	91	2	4988	21	18	26	33	1.96
5744366--5744491	42	3.0	42	86	1	189	38	15	8	37	1.79
5751519--5751580	10	5.0	14	64	28	50	54	17	12	14	1.70
5751519--5751596	24	3.2	24	92	0	129	57	17	10	14	1.64
5753203--5753236	11	3.1	11	82	0	50	35	32	0	32	1.58
5753189--5753236	22	2.2	22	92	0	78	41	29	0	29	1.56
5754055--5754086	16	2.1	15	94	5	55	65	21	6	6	1.38
5754142--5754181	20	2.0	20	95	0	71	55	22	15	7	1.65
5754164--5754194	14	2.2	14	94	0	53	58	25	12	3	1.50
5754141--5754180	10	4.0	10	90	0	62	57	22	12	7	1.60
5754151--5754243	23	4.0	22	81	9	98	62	20	7	9	1.50
5754210--5754258	13	3.6	13	81	10	62	71	24	0	4	1.03
5754202--5754276	28	2.5	28	75	18	71	64	21	2	12	1.39
5754502--5754557	14	4.0	14	92	0	85	58	14	12	14	1.63
5754513--5754569	24	2.3	25	85	11	73	57	15	10	15	1.64
5759010--5759577	288	2.0	284	97	1	1084	35	24	14	25	1.93
5761332--5761364	13	2.3	15	90	10	52	21	6	3	69	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5762875--5762936	27	2.3	27	94	2	108	37	20	8	33	1.83
5764823--5764856	16	2.1	16	89	10	52	38	0	0	61	0.96
5778452--5778478	14	1.9	14	100	0	54	29	7	37	25	1.83
5781307--5781348	19	2.2	19	83	8	50	52	4	0	42	1.22
5782883--5782947	28	2.3	28	82	15	73	30	7	7	53	1.57
5783797--5783842	2	23.5	2	95	4	85	50	0	0	50	1.00
5784122--5784177	27	2.1	27	89	0	85	35	26	10	26	1.89
5784386--5784430	20	2.3	20	84	3	56	11	35	24	28	1.90
5796599--5796663	2	32.5	2	100	0	130	50	0	0	49	1.00
5812859--5812901	20	2.1	21	86	4	61	39	4	6	48	1.51
5813671--5814012	187	1.8	187	87	3	510	39	9	16	35	1.81
5813919--5814153	77	3.1	73	74	16	196	35	10	16	37	1.83
5814868--5814910	18	2.4	18	96	0	77	72	4	4	18	1.20
5816672--5816826	65	2.4	63	83	8	172	29	21	16	32	1.95
5822344--5822462	33	3.6	33	85	2	159	15	9	29	45	1.78
5823195--5823219	12	2.1	12	100	0	50	60	8	16	16	1.58
5825314--5825393	36	2.2	36	93	0	133	28	12	40	18	1.87
5825633--5825680	24	2.0	24	84	11	64	25	12	35	27	1.92
5836469--5836516	20	2.4	21	80	16	57	2	25	2	70	1.09
5839313--5839358	21	2.2	21	88	0	65	39	10	4	45	1.59
5841109--5841254	66	2.2	66	85	0	184	28	13	25	32	1.93
5841296--5841353	25	2.3	25	90	0	89	34	22	17	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5848196--5848246	8	6.6	8	86	2	61	43	0	0	56	0.99
5850064--5850097	17	2.0	17	94	0	59	44	5	8	41	1.60
5852415--5852505	41	2.2	41	82	5	103	38	8	19	32	1.83
5855929--5855953	12	2.1	12	100	0	50	8	0	8	84	0.79
5863689--5863753	25	2.5	25	82	9	78	52	0	4	43	1.22
5863706--5863764	21	2.6	22	80	15	75	50	0	6	42	1.28
5866438--5866512	39	1.9	39	81	7	91	49	2	10	37	1.52
5867263--5867293	3	10.3	3	100	0	62	64	0	0	35	0.94
5867681--5867767	16	5.4	16	90	0	120	17	28	16	37	1.91
5868019--5868065	14	3.7	14	71	26	50	44	0	4	51	1.21

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