genome.fa.s8087.2.7.7.80.10.50.1000.27.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  27  of  37  ( 4336 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)
6244635--6244679	19	2.4	19	100	0	90	28	17	22	31	1.97
6244635--6244679	10	4.8	9	78	10	54	28	17	22	31	1.97
6245183--6245271	14	6.9	14	67	19	59	10	11	20	58	1.61
6245146--6245238	24	4.0	24	77	5	100	13	12	19	53	1.72
6245183--6245271	38	2.3	38	86	0	115	10	11	20	58	1.61
6245180--6245239	24	2.5	24	91	0	102	10	10	20	60	1.57
6245460--6245539	23	3.4	23	84	1	97	13	10	16	60	1.59
6246593--6246824	22	10.6	22	84	0	322	48	9	0	42	1.35
6246593--6246824	88	2.7	87	89	3	358	48	9	0	42	1.35
6247083--6247133	21	2.4	21	96	0	93	23	17	17	41	1.90
6247083--6247141	21	2.9	20	90	5	66	27	18	16	37	1.93
6248005--6248332	42	7.8	40	83	7	223	34	25	19	20	1.96
6248002--6248348	105	3.3	105	92	2	558	34	24	19	21	1.96
6248002--6248340	63	5.4	63	85	9	324	34	24	20	21	1.97
6248093--6248348	42	6.1	42	84	9	262	34	24	19	20	1.96
6248920--6248973	28	2.0	27	82	10	65	66	1	5	25	1.23
6254823--6254903	32	2.6	30	79	9	90	28	18	23	29	1.98
6254886--6254957	30	2.4	30	95	0	126	25	20	23	30	1.99
6261778--6262139	41	8.8	41	83	5	417	27	21	18	32	1.97
6261800--6262139	124	2.7	124	88	2	502	28	22	18	31	1.97
6261778--6262139	83	4.4	82	86	1	474	27	21	18	32	1.97
6265651--6265892	128	1.9	128	82	5	310	25	21	19	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6265634--6265872	43	5.6	42	80	5	264	23	22	20	32	1.98
6267025--6267078	15	3.5	15	82	5	72	12	64	16	5	1.45
6268366--6268433	15	4.5	15	88	3	109	10	66	17	5	1.41
6270003--6270086	42	2.0	42	88	2	123	23	3	19	53	1.60
6271074--6271103	11	2.7	11	94	0	51	36	0	3	60	1.14
6274004--6274051	3	15.3	3	81	16	53	66	2	4	27	1.21
6276104--6276155	2	26.0	2	100	0	104	50	0	0	50	1.00
6276873--6276925	22	2.5	22	81	3	63	39	3	1	54	1.29
6286358--6286426	33	2.1	33	91	0	111	28	15	17	37	1.91
6289665--6289697	2	16.0	2	93	6	57	48	0	3	48	1.17
6289966--6290061	31	3.1	31	80	3	113	25	17	22	34	1.96
6293048--6293091	23	1.9	23	100	0	88	22	18	15	43	1.88
6299645--6299676	2	16.0	2	100	0	64	50	0	0	50	1.00
6300341--6300375	3	11.3	3	93	6	61	34	0	0	65	0.93
6301854--6301936	20	3.9	22	71	17	59	32	0	2	65	1.06
6301866--6301938	6	10.6	7	73	24	50	32	0	1	65	1.01
6301927--6302342	136	3.1	134	76	11	411	41	6	6	45	1.55
6306746--6306831	35	2.5	35	84	0	100	40	20	1	37	1.61
6306800--6306842	21	2.0	21	100	0	86	46	13	0	39	1.44
6306964--6306997	16	2.0	18	88	11	54	26	2	5	64	1.30
6307465--6307712	130	1.9	130	92	0	415	37	13	14	35	1.85
6322289--6322368	38	2.1	38	97	0	151	11	15	26	47	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6323091--6323749	105	6.4	105	88	5	966	23	18	25	33	1.97
6334002--6334035	10	3.4	10	87	0	50	73	0	5	20	1.04
6336471--6336550	38	2.1	38	100	0	160	10	15	27	47	1.77
6346210--6346241	16	2.0	16	93	0	55	34	25	6	34	1.81
6369238--6369262	2	12.5	2	100	0	50	48	0	0	52	1.00
6369931--6369994	11	5.8	12	75	12	50	48	3	0	48	1.17
6369939--6370020	32	2.6	31	88	1	119	45	2	2	50	1.28
6369938--6370003	11	6.2	11	78	5	64	46	3	1	48	1.26
6378779--6378842	3	20.7	3	81	9	67	64	0	0	35	0.94
6378777--6378849	17	4.6	17	70	25	61	65	0	0	34	0.93
6378774--6378845	23	3.2	22	88	11	110	68	0	0	31	0.90
6378893--6378966	38	1.9	38	94	0	130	50	9	0	40	1.35
6379015--6379110	34	2.8	35	93	3	167	43	6	4	45	1.48
6379015--6379196	34	5.2	33	77	12	154	42	7	3	46	1.49
6378991--6379196	107	1.9	106	82	6	256	43	7	4	45	1.51
6378954--6379232	70	3.9	68	72	17	201	41	6	3	48	1.46
6378954--6379232	69	3.9	72	75	13	220	41	6	3	48	1.46
6379221--6379254	2	17.5	2	93	6	61	50	0	0	50	1.00
6382184--6382236	26	2.0	26	96	0	97	20	18	11	49	1.78
6388336--6388375	19	2.2	19	86	8	57	60	0	0	40	0.97
6391337--6391379	3	14.3	3	100	0	86	67	0	0	32	0.91
6392762--6392791	2	15.5	2	93	6	53	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6399128--6399184	29	2.0	28	82	3	69	45	0	3	50	1.18
6410274--6410465	20	9.6	20	84	4	244	33	27	19	19	1.96
6410847--6410917	33	2.2	33	94	0	124	11	23	16	47	1.79
6411016--6411072	14	3.7	14	75	20	60	43	22	24	8	1.81
6411009--6411088	33	2.4	33	95	0	142	47	22	21	8	1.78
6411084--6411211	19	7.1	19	71	19	87	10	25	18	45	1.82
6411106--6411162	14	3.7	14	75	20	60	8	24	22	43	1.81
6411089--6411211	33	3.5	33	88	10	165	10	24	18	46	1.81
6411147--6411211	21	3.1	21	82	4	96	10	26	15	47	1.78
6412899--6413214	93	3.4	93	99	0	614	21	13	18	45	1.85
6413344--6413405	19	3.6	18	72	20	60	45	27	17	9	1.80
6413312--6413416	33	3.2	33	88	1	138	45	26	17	10	1.80
6413361--6413416	14	3.6	14	74	21	58	48	28	14	8	1.74
6413412--6413565	19	8.6	19	73	14	139	11	20	22	45	1.82
6413434--6413490	14	3.7	14	75	20	51	10	22	22	43	1.84
6413417--6413547	33	3.8	33	84	9	181	9	21	22	46	1.80
6415491--6415526	14	2.6	14	95	0	63	33	0	22	44	1.53
6415639--6415685	20	2.4	20	96	3	87	46	17	21	14	1.83
6415700--6416022	53	6.1	52	91	7	512	13	22	17	46	1.83
6415718--6415883	33	4.8	33	74	17	167	13	23	17	45	1.83
6415700--6416022	105	3.1	105	93	5	523	13	22	17	46	1.83
6415700--6416008	72	4.4	71	79	13	343	13	22	17	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6415700--6416022	158	2.0	155	91	7	526	13	22	17	46	1.83
6418307--6418331	12	2.1	12	100	0	50	0	28	0	72	0.86
6418506--6418552	24	2.0	24	87	8	69	38	21	14	25	1.92
6419245--6419454	20	10.5	20	85	5	228	20	17	25	36	1.94
6421751--6421863	45	2.5	45	88	0	172	18	23	15	41	1.89
6424544--6424595	15	3.2	17	76	13	65	38	19	0	42	1.51
6429741--6429775	18	1.9	18	88	0	52	51	0	0	48	1.00
6431380--6431457	32	2.5	31	83	4	102	37	3	12	46	1.61
6448243--6448303	30	2.0	30	93	6	106	22	27	36	13	1.92
6462647--6462726	36	2.2	36	90	0	124	41	10	26	22	1.85
6471080--6471104	6	4.2	6	100	0	50	0	16	36	48	1.46
6474974--6475009	18	2.0	18	100	0	72	50	0	16	33	1.46
6475206--6475289	37	2.3	37	85	0	105	15	38	2	44	1.60
6476494--6476534	7	6.0	7	85	2	57	68	0	29	2	1.03
6482771--6482883	37	3.1	37	92	0	190	27	6	19	46	1.73
6498392--6498489	30	3.3	30	88	0	142	32	13	32	21	1.92
6504156--6504449	138	2.1	138	96	0	543	38	15	25	21	1.92
6505219--6505765	276	2.0	276	82	3	672	37	15	23	23	1.93
6506859--6507597	339	2.2	338	80	3	824	37	17	22	22	1.94
6507624--6507955	177	1.9	177	80	2	398	34	15	26	23	1.95
6507797--6508413	339	1.8	339	80	6	759	35	17	24	23	1.95
6508407--6508787	195	2.0	193	83	4	455	37	16	23	22	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6509104--6509137	18	1.9	17	88	5	50	47	8	32	11	1.71
6509129--6509173	18	2.5	18	85	0	54	42	8	31	17	1.80
6508887--6509247	195	1.9	195	82	1	454	36	14	24	24	1.93
6508406--6509557	489	2.4	489	85	2	1528	37	16	23	22	1.94
6509422--6509460	18	2.2	18	85	0	51	38	7	33	20	1.81
6509681--6510194	252	2.0	253	86	1	717	34	19	23	21	1.96
6510323--6510362	18	2.2	18	86	8	55	47	12	25	15	1.80
6510780--6510811	16	1.9	17	93	6	57	37	3	0	59	1.13
6513030--6513143	31	3.7	31	77	4	113	47	7	4	41	1.50
6526616--6526645	14	2.1	14	93	0	51	23	20	6	50	1.71

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