genome.fa.s9625.2.7.7.80.10.50.1000.16.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: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

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   

This is table  16  of  25  ( 2922 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)
4711706--4711778	15	4.7	15	80	11	67	43	0	0	56	0.99
4711704--4711767	3	22.0	3	78	12	71	40	0	0	59	0.97
4713075--4713116	20	2.2	19	86	4	57	35	0	0	64	0.94
4714040--4714088	13	3.8	13	91	0	80	36	34	10	18	1.85
4715840--4715921	33	2.5	33	85	0	101	30	1	43	24	1.62
4717810--4717888	24	3.2	24	77	10	86	43	6	29	21	1.77
4717832--4717856	12	2.1	12	100	0	50	48	8	28	16	1.74
4719006--4719104	44	2.3	44	83	1	119	48	23	18	10	1.78
4722917--4722943	2	13.5	2	100	0	54	48	0	0	51	1.00
4723520--4723689	85	2.0	86	86	5	238	25	12	22	38	1.89
4726706--4726762	23	2.7	21	75	19	64	35	17	19	28	1.94
4732977--4733008	2	16.0	2	93	0	55	53	0	0	46	1.00
4733680--4733833	29	5.4	29	88	3	222	40	21	3	34	1.69
4733680--4733833	56	2.7	57	88	4	220	40	21	3	34	1.69
4740556--4740589	2	17.0	2	100	0	68	50	0	0	50	1.00
4740589--4740616	4	7.0	4	100	0	56	25	0	0	75	0.81
4741288--4741474	59	3.2	58	84	9	227	44	13	1	40	1.50
4741288--4741474	29	6.3	30	82	8	206	44	13	1	40	1.50
4741288--4741453	90	1.8	90	87	5	246	43	13	1	41	1.52
4741403--4741459	17	3.6	17	68	24	52	43	14	0	42	1.44
4748585--4748623	12	3.1	12	85	7	51	12	41	30	15	1.85
4748620--4748879	129	2.0	130	85	5	357	30	17	15	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4755754--4755790	18	2.1	18	89	0	56	21	43	18	16	1.88
4758220--4758302	24	3.5	24	75	6	78	24	12	18	45	1.82
4764222--4764469	44	5.7	44	74	5	162	18	25	22	32	1.97
4764222--4764474	87	2.9	87	82	4	285	18	26	22	32	1.97
4764455--4764576	39	3.1	39	82	2	147	23	28	16	31	1.96
4770483--4770524	16	2.6	16	88	0	66	23	47	14	14	1.80
4771338--4771616	44	6.3	44	74	5	199	20	25	20	32	1.97
4771338--4771569	87	2.6	87	86	2	304	20	25	21	33	1.97
4783324--4783362	2	20.0	2	94	5	71	48	0	0	51	1.00
4789509--4789550	12	3.6	12	74	6	50	35	14	19	30	1.91
4789499--4789560	23	2.7	23	100	0	124	43	12	16	27	1.84
4789489--4789560	11	6.4	11	73	6	63	45	13	13	26	1.81
4798956--4799014	20	2.8	21	82	7	66	18	25	30	25	1.98
4805506--4805590	44	2.0	43	83	2	107	36	20	9	34	1.85
4809184--4809209	4	6.5	4	100	0	52	0	26	0	73	0.84
4809837--4810306	41	11.5	41	74	8	244	34	17	17	31	1.93
4809841--4810055	83	2.6	83	80	6	238	31	17	19	31	1.95
4809984--4810162	81	2.2	81	79	5	193	38	17	15	28	1.90
4813905--4813936	17	1.9	17	93	6	57	46	9	6	37	1.61
4815856--4815960	24	4.4	23	78	7	77	20	17	20	41	1.90
4817365--4817419	24	2.3	24	93	0	92	30	45	7	16	1.74
4825266--4825372	44	2.4	44	89	3	153	29	19	19	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4825794--4825833	20	2.0	21	85	5	55	30	0	12	57	1.36
4825805--4825850	20	2.2	21	85	11	60	21	0	15	63	1.31
4825860--4825902	13	3.3	13	87	6	61	34	11	9	44	1.73
4827621--4827654	12	2.7	13	90	9	61	47	8	5	38	1.59
4829344--4829448	24	4.4	24	75	0	84	20	16	21	41	1.90
4834511--4834601	33	2.8	33	85	3	114	26	16	19	37	1.93
4842319--4842393	34	2.4	30	80	10	78	57	6	2	33	1.39
4844093--4844137	22	2.0	22	86	0	63	40	22	4	33	1.74
4848378--4848651	137	2.0	137	94	1	487	41	18	11	28	1.85
4852356--4852380	13	1.9	13	100	0	50	28	24	16	32	1.96
4852691--4852720	15	2.0	15	100	0	60	46	13	13	26	1.80
4852929--4853292	183	2.0	183	98	0	710	40	15	16	27	1.89
4858812--4858883	30	2.4	30	97	0	135	36	5	22	36	1.78
4861026--4861098	31	2.4	31	83	4	94	53	13	8	24	1.67
4868586--4868626	16	2.6	16	100	0	82	63	4	12	19	1.46
4870305--4870361	4	14.8	4	92	7	100	26	0	22	50	1.49
4870852--4870931	42	1.9	42	86	0	115	43	16	15	25	1.86
4888365--4888412	20	2.5	20	86	10	64	31	14	4	50	1.62
4888519--4888755	115	2.1	115	93	0	402	42	3	20	33	1.70
4889825--4890527	55	12.8	55	88	0	931	37	18	18	25	1.93
4890729--4890786	29	2.0	29	86	0	80	44	8	22	24	1.80
4897239--4897280	15	2.8	15	81	0	57	28	7	2	61	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4899918--4899973	28	2.0	28	96	0	103	35	10	23	30	1.89
4900077--4900152	35	2.2	35	97	0	143	40	10	19	28	1.85
4900523--4900563	15	2.6	16	81	14	50	29	7	2	60	1.36
4900553--4900614	2	32.5	2	90	9	103	48	0	0	51	1.00
4900868--4900911	17	2.5	18	85	3	63	13	4	2	79	0.98
4901077--4901161	42	2.1	42	86	8	122	32	4	7	55	1.48
4901148--4901186	2	19.5	2	100	0	78	48	0	0	51	1.00
4902193--4902230	10	3.8	10	89	0	58	15	2	2	78	0.97
4905673--4905741	14	4.7	14	75	7	57	78	5	14	1	1.01
4905679--4905717	11	3.7	10	83	10	51	79	7	12	0	0.93
4905674--4905722	21	2.3	21	86	6	73	79	6	14	0	0.91
4905672--4905735	23	2.9	22	81	13	78	79	6	12	1	0.98
4905669--4905736	16	4.5	15	78	12	61	77	7	13	1	1.03
4906801--4906836	18	2.0	18	94	0	63	16	8	33	41	1.78
4907289--4907384	36	2.6	36	85	1	120	26	19	15	38	1.92
4908065--4908908	106	8.0	106	85	5	1029	33	21	19	24	1.97
4908162--4908764	305	2.0	306	91	0	983	34	21	19	24	1.97
4908470--4908908	210	2.1	211	88	2	650	33	20	20	25	1.97
4909392--4909463	35	2.1	35	100	0	144	40	11	20	27	1.87
4909924--4909952	2	14.5	2	100	0	58	48	0	0	51	1.00
4909940--4910090	78	1.9	80	81	10	188	33	7	1	56	1.38
4910142--4910193	17	2.7	19	74	20	54	23	3	0	73	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4910356--4910435	40	2.0	40	86	9	112	31	5	7	56	1.49
4910424--4910448	2	12.5	2	100	0	50	48	0	0	52	1.00
4913887--4913932	23	2.0	23	100	0	92	34	26	8	30	1.86
4920629--4920773	45	3.2	44	84	6	143	25	28	22	24	1.99
4920650--4920785	45	3.0	45	87	5	161	25	29	22	23	1.99
4928882--4928912	12	2.6	12	100	0	62	29	12	19	38	1.89
4930687--4930747	23	2.7	23	86	0	86	19	22	26	31	1.98
4930687--4930755	23	3.0	23	84	0	66	20	21	24	33	1.97
4947780--4947868	41	2.2	41	100	0	178	31	31	12	24	1.92
4949975--4950003	12	2.4	12	100	0	58	51	6	10	31	1.62
4955513--4955613	21	4.7	21	76	13	107	23	7	22	45	1.79
4955513--4955633	44	2.8	44	80	12	135	23	8	23	44	1.80
4955564--4955631	21	3.2	20	69	29	50	26	10	19	44	1.82
4962058--4962125	23	3.0	23	75	14	79	26	13	22	38	1.91
4972275--4972330	18	2.9	19	84	10	69	41	7	14	37	1.73
4983785--4983829	23	2.0	23	100	0	90	48	0	8	42	1.34
4984435--4984503	24	2.9	24	86	4	86	13	11	15	59	1.61
4984438--4984504	14	5.1	14	82	14	79	11	11	17	58	1.63
4984767--4984812	13	3.8	12	81	18	51	6	10	21	60	1.52
4984768--4984808	10	3.8	10	82	17	55	7	9	21	60	1.52
4984760--4984825	23	2.8	23	86	6	89	6	10	24	59	1.53
4988071--4988118	16	2.8	17	90	6	71	45	2	0	52	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4991515--4991563	19	2.7	17	84	9	53	26	20	28	24	1.99
4992247--4992290	18	2.4	19	84	7	63	47	6	2	43	1.42
4992463--4992540	41	1.9	41	83	0	102	47	15	14	23	1.81
4997213--4997270	24	2.4	24	79	0	71	46	13	18	20	1.83
4999627--4999658	6	5.3	6	100	0	64	53	15	15	15	1.74
5008213--5008295	21	3.9	21	75	6	67	26	37	20	15	1.93
5018741--5018845	35	2.9	36	78	10	117	33	14	20	31	1.93
5018706--5018845	71	2.0	71	87	5	203	33	15	20	30	1.94
5024917--5024945	14	2.1	14	100	0	58	31	6	13	48	1.69
5027866--5027912	21	2.2	21	77	7	51	12	14	10	61	1.56

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