genome.fa.s9001.2.7.7.80.10.50.1000.20.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: VEPZ01009001.1 Hibiscus syriacus cultivar Beakdansim tig00112383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4740655

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   

This is table  20  of  24  ( 2777 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)
4038796--4038895	41	2.4	41	100	0	200	40	14	10	36	1.79
4039391--4039417	2	13.5	2	100	0	54	48	0	0	51	1.00
4040219--4040287	2	34.5	2	100	0	138	50	0	0	49	1.00
4041395--4041440	19	2.4	19	92	0	83	54	0	39	6	1.26
4042988--4043089	14	6.9	14	75	11	71	46	1	0	51	1.12
4043000--4043089	9	10.3	9	76	11	53	45	2	0	52	1.13
4042995--4043042	11	4.5	11	84	7	64	37	2	0	60	1.09
4042995--4043044	3	17.7	3	80	12	61	38	2	0	60	1.09
4047587--4047655	32	2.2	32	89	2	104	39	21	13	26	1.90
4047944--4048005	2	31.0	2	100	0	124	50	0	0	50	1.00
4056743--4056788	21	2.2	21	88	0	65	23	32	23	19	1.97
4068066--4068135	21	3.3	21	95	0	122	70	0	24	5	1.09
4078673--4079076	55	7.6	51	84	7	306	29	24	15	30	1.96
4078677--4079081	102	3.8	105	82	8	437	29	25	15	29	1.96
4078735--4079076	55	6.4	54	89	2	407	28	25	15	30	1.96
4079070--4079199	54	2.4	54	86	0	179	26	24	16	32	1.96
4080350--4080438	9	9.6	9	77	7	70	3	13	1	82	0.86
4080350--4080438	21	4.4	19	75	19	74	3	13	1	82	0.86
4080374--4080438	30	2.2	30	86	10	89	3	13	0	83	0.77
4099773--4100207	54	7.8	53	82	7	242	37	16	13	32	1.88
4099827--4100208	54	6.9	54	82	8	453	37	16	12	32	1.87
4100052--4100082	11	2.8	11	95	0	53	32	16	6	45	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4099998--4100136	65	2.1	65	86	2	190	39	15	10	34	1.81
4099944--4100190	119	2.1	119	92	0	413	39	16	10	33	1.83
4099891--4100208	173	1.8	172	89	0	501	37	16	12	33	1.86
4106786--4107234	54	8.3	54	85	3	600	37	16	13	32	1.88
4108834--4108887	20	2.6	21	82	8	67	27	14	25	31	1.95
4110813--4110860	21	2.3	21	100	0	96	18	29	25	27	1.98
4113342--4113448	56	1.9	54	81	7	126	29	15	31	22	1.95
4120809--4120895	31	2.9	30	81	3	93	28	19	14	36	1.92
4122867--4122952	31	2.8	31	78	0	91	33	15	16	34	1.90
4127273--4127703	220	1.9	223	93	3	751	29	21	16	32	1.95
4127834--4127940	13	7.7	13	70	19	65	47	0	0	50	1.13
4127846--4127948	20	5.4	20	71	17	62	47	0	0	50	1.14
4127834--4127896	33	1.9	33	90	0	99	44	0	0	55	0.99
4127838--4127939	25	4.0	24	75	15	89	46	0	0	51	1.14
4131682--4131933	133	1.9	134	84	4	339	45	7	7	39	1.61
4133877--4134160	123	2.3	120	86	6	392	25	17	14	42	1.88
4134103--4134167	20	3.3	20	66	20	55	20	23	6	50	1.70
4134100--4134199	39	2.6	39	98	0	191	23	21	8	48	1.76
4134123--4134186	19	3.3	19	64	20	51	18	23	7	50	1.73
4133977--4134322	162	2.1	163	94	1	597	24	19	13	42	1.87
4134823--4134902	22	3.6	22	87	0	115	35	13	12	38	1.83
4135236--4135301	20	3.3	20	86	0	96	28	21	16	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4135927--4135979	27	2.0	28	85	14	76	13	11	0	75	1.05
4135952--4135989	21	1.9	20	89	10	60	10	13	0	76	1.02
4135933--4135981	14	3.6	14	76	17	50	12	10	0	77	0.99
4135958--4135998	22	1.9	21	90	5	64	9	17	0	73	1.09
4146202--4146232	7	4.6	7	92	8	55	74	0	25	0	0.82
4146202--4146232	13	2.3	13	94	5	53	74	0	25	0	0.82
4146766--4147019	135	1.9	134	81	7	309	46	7	6	40	1.57
4154460--4154492	16	2.1	16	100	0	66	42	12	24	21	1.86
4154460--4154503	16	2.9	15	90	6	63	47	11	22	18	1.80
4154721--4154751	11	2.8	11	95	0	53	25	0	25	48	1.52
4158549--4158592	14	2.9	15	93	6	72	47	13	22	15	1.81
4159015--4159057	21	2.0	22	86	13	63	37	11	13	37	1.82
4164128--4164236	50	2.2	48	76	7	112	38	8	8	44	1.64
4165215--4165260	19	2.4	20	82	7	60	52	2	0	45	1.13
4166085--4166133	21	2.3	21	82	0	62	18	10	8	63	1.50
4167713--4167743	16	1.9	16	100	0	62	45	16	12	25	1.83
4169434--4169586	70	2.2	70	91	0	252	54	14	15	15	1.72
4169432--4169550	36	3.4	37	67	22	101	56	11	15	16	1.67
4171105--4171140	18	1.9	18	88	5	54	52	2	0	44	1.15
4172146--4172170	2	12.5	2	100	0	50	48	0	0	52	1.00
4174834--4174877	21	2.0	22	86	8	63	38	22	15	22	1.92
4175479--4175550	34	2.1	35	87	10	103	30	16	13	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4177490--4177552	14	4.5	13	83	13	81	50	20	17	11	1.76
4177493--4177564	7	10.3	7	73	0	63	51	18	16	13	1.77
4177490--4177561	28	2.6	28	90	0	117	52	18	16	12	1.74
4177490--4177561	14	5.1	14	77	12	76	52	18	16	12	1.74
4179777--4179833	29	1.9	30	82	3	71	15	36	26	21	1.93
4180083--4180143	26	2.4	25	88	2	86	49	9	32	8	1.66
4182890--4183010	59	2.1	56	87	4	170	48	9	3	38	1.51
4183095--4183275	14	14.1	14	74	16	160	43	7	2	46	1.47
4183117--4183236	35	3.3	35	87	6	143	42	7	2	47	1.45
4183082--4183419	26	13.7	25	75	10	227	44	8	3	42	1.51
4183235--4183435	72	2.8	71	97	0	339	46	11	2	38	1.56
4183090--4183428	11	27.6	11	68	21	151	45	9	2	42	1.51
4183591--4183863	49	5.6	49	90	4	401	45	11	0	42	1.43
4183712--4183788	22	3.3	22	65	28	59	45	10	0	44	1.38
4183825--4183880	25	2.2	25	79	14	62	46	14	1	37	1.55
4184270--4184328	29	2.0	29	96	0	109	35	20	11	32	1.89
4186430--4186490	17	3.4	17	72	16	59	47	11	0	40	1.40
4186973--4187035	28	2.2	30	94	5	112	57	12	0	30	1.36
4186977--4187042	28	2.4	28	87	10	107	56	12	0	31	1.36
4187012--4187060	21	2.3	21	85	3	71	53	16	0	30	1.43
4187542--4187605	29	2.2	29	94	0	110	20	37	23	18	1.94
4188442--4188560	39	3.1	40	77	10	122	36	16	1	44	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4188799--4188829	15	2.0	16	93	6	55	51	0	0	48	1.00
4189535--4189624	46	2.0	46	90	0	144	34	17	14	33	1.90
4189636--4189693	24	2.6	22	76	10	64	41	8	15	34	1.78
4191721--4191752	2	16.0	2	100	0	64	50	0	0	50	1.00
4193470--4193617	29	5.1	28	66	12	93	55	6	2	35	1.41
4193459--4193617	58	2.7	58	93	1	257	53	6	2	37	1.41
4193493--4193602	29	3.8	29	73	6	105	52	7	3	36	1.47
4194319--4194369	22	2.4	21	75	12	50	45	1	0	52	1.12
4194427--4194467	15	2.7	16	75	25	52	26	0	2	70	0.99
4194591--4194638	24	2.0	24	100	0	96	50	12	0	37	1.41
4195190--4195251	2	31.0	2	100	0	124	50	0	0	50	1.00
4196067--4196109	19	2.3	19	100	0	86	39	0	4	55	1.20
4197311--4197337	2	13.5	2	100	0	54	48	0	0	51	1.00
4196863--4197817	482	2.0	483	99	0	1894	26	13	13	46	1.81
4203347--4203524	43	4.2	43	80	9	188	25	17	6	50	1.69
4203354--4203524	86	2.0	83	85	5	227	25	16	6	51	1.68
4206091--4206140	20	2.5	19	78	9	55	28	18	22	32	1.97
4208628--4208682	27	2.0	28	85	3	76	67	1	9	21	1.28
4208726--4208755	3	10.0	3	100	0	60	66	0	0	33	0.92
4208861--4208924	32	2.0	32	84	6	85	50	17	9	23	1.75
4208963--4209016	22	2.6	20	78	16	65	59	7	9	24	1.54
4209035--4209075	21	2.0	21	100	0	82	70	4	9	14	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4209733--4209764	13	2.5	13	100	0	64	0	6	6	87	0.67
4210197--4210437	84	2.9	83	84	4	290	26	17	21	34	1.96
4210501--4210734	124	1.9	124	90	0	378	27	17	23	31	1.97
4210737--4210968	64	3.6	64	82	4	270	28	13	21	35	1.92
4210737--4210968	128	1.8	129	86	0	340	28	13	21	35	1.92
4215209--4215246	20	1.9	20	84	10	51	55	2	10	31	1.48
4215324--4215379	28	2.0	28	89	0	85	69	1	8	19	1.24
4215425--4215454	3	10.0	3	92	0	51	63	0	3	33	1.11
4226555--4226889	167	2.0	168	99	0	663	44	8	14	31	1.77
4227401--4227434	12	2.9	12	86	4	52	50	8	11	29	1.69

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