genome.fa.s8082.2.7.7.80.10.50.1000.21.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: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6025995

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   

This is table  21  of  28  ( 3312 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)
4275556--4275626	36	1.9	37	85	2	99	28	18	26	26	1.98
4275851--4275927	35	2.2	35	92	0	127	28	0	23	48	1.51
4278378--4278467	45	2.0	45	93	0	153	41	6	20	32	1.78
4283666--4283732	22	3.0	22	80	8	66	46	0	2	50	1.16
4285172--4285248	32	2.4	32	85	6	95	11	14	35	38	1.82
4288906--4288947	16	2.5	17	76	3	50	52	0	7	40	1.29
4289132--4289177	23	2.0	24	87	12	69	60	0	0	39	0.97
4289133--4289189	23	2.4	24	80	11	64	61	0	0	38	0.96
4290398--4290428	15	2.1	15	94	5	55	74	0	6	19	1.03
4290440--4290504	4	15.8	4	72	12	51	75	1	4	18	1.05
4290439--4290516	28	2.9	26	80	14	72	75	1	6	16	1.07
4290826--4290864	12	3.2	12	83	16	53	79	0	5	15	0.90
4292081--4292206	39	3.4	37	77	13	109	43	7	3	45	1.49
4292068--4292314	107	2.3	107	78	12	256	44	8	4	42	1.54
4292550--4292575	5	5.2	5	100	0	52	42	0	0	57	0.98
4303759--4303792	16	2.1	16	100	0	68	70	0	0	29	0.87
4308809--4308833	13	1.9	13	100	0	50	64	0	8	28	1.22
4308855--4308879	13	1.9	13	100	0	50	28	0	0	72	0.86
4310962--4311024	33	1.9	33	90	0	99	30	23	12	33	1.92
4317514--4317819	105	2.9	105	85	1	425	23	19	17	38	1.93
4318745--4318820	7	10.6	7	73	16	57	9	13	0	77	0.99
4318766--4318825	21	2.9	21	82	12	79	10	16	0	73	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4318766--4318825	20	3.0	20	79	18	70	10	16	0	73	1.09
4318762--4318824	7	9.0	7	79	19	69	9	15	0	74	1.06
4318743--4318824	28	2.9	27	82	14	85	10	13	0	75	1.04
4329962--4329994	2	17.0	2	93	6	59	51	0	0	48	1.00
4331596--4331723	65	2.0	66	81	4	152	33	17	20	28	1.95
4331715--4331770	20	2.8	20	78	10	69	37	21	14	26	1.92
4332487--4332543	21	2.7	21	86	0	69	24	22	26	26	2.00
4333849--4333891	15	3.0	15	76	13	54	51	9	2	37	1.47
4333883--4333927	23	2.0	22	91	4	72	62	6	0	31	1.21
4334450--4334499	20	2.4	21	83	3	57	22	20	28	30	1.98
4334463--4334502	21	2.0	20	90	5	62	25	15	30	30	1.95
4335795--4335866	25	3.1	22	79	14	81	59	8	1	30	1.35
4336375--4336431	21	2.7	21	88	0	78	24	21	28	26	1.99
4337717--4337759	15	3.0	15	76	13	54	51	9	2	37	1.47
4337751--4337795	23	2.0	22	91	4	72	62	6	0	31	1.21
4338308--4338364	21	2.7	21	88	0	78	24	21	28	26	1.99
4339644--4339686	15	3.0	15	76	13	54	51	9	2	37	1.47
4340233--4340278	21	2.2	21	84	0	56	23	19	28	28	1.98
4341516--4341558	15	3.0	15	76	13	54	51	9	2	37	1.47
4341550--4341594	23	2.0	22	91	4	72	62	6	0	31	1.21
4342118--4342174	21	2.7	21	88	0	78	24	21	28	26	1.99
4343483--4343525	15	3.0	15	76	13	54	51	9	2	37	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4343517--4343561	23	2.0	22	91	4	72	62	6	0	31	1.21
4345039--4345067	6	4.8	6	100	0	58	0	65	17	17	1.27
4345058--4345131	35	2.1	35	82	5	87	17	31	13	37	1.89
4348320--4348366	20	2.4	19	79	10	58	51	10	19	19	1.75
4348109--4348754	181	3.6	181	87	4	927	41	14	16	27	1.87
4348675--4348721	20	2.4	19	82	10	67	53	8	17	21	1.70
4352236--4352275	21	1.9	21	100	0	80	10	10	10	70	1.36
4352141--4352598	112	4.1	112	93	0	745	25	12	13	47	1.79
4352344--4352386	20	2.2	20	95	0	77	13	11	11	62	1.54
4352456--4352503	20	2.4	20	100	0	96	10	12	16	60	1.58
4352942--4353010	24	2.9	25	79	18	76	52	2	1	43	1.25
4353025--4353097	14	5.3	14	67	8	51	49	1	1	47	1.18
4353025--4353097	28	2.6	28	74	6	78	49	1	1	47	1.18
4353225--4353275	23	2.2	23	85	0	66	35	23	5	35	1.79
4353150--4353390	87	2.8	87	90	0	374	31	15	9	42	1.80
4359039--4359097	31	1.9	31	89	0	91	27	10	8	54	1.63
4361997--4362291	113	2.6	113	86	5	397	37	14	23	24	1.93
4361997--4362326	113	2.9	109	80	11	346	36	15	22	25	1.94
4363385--4363616	64	3.6	63	77	9	195	31	24	18	24	1.98
4363570--4363612	19	2.4	19	84	7	54	23	27	20	27	1.99
4365063--4365094	6	5.3	6	92	0	55	53	0	43	3	1.16
4365066--4365100	18	1.9	18	88	0	52	57	0	40	2	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4371710--4371747	19	2.0	19	100	0	76	42	0	21	36	1.53
4372176--4372208	17	1.9	17	93	0	57	27	39	18	15	1.90
4372160--4372342	64	2.9	62	80	8	199	29	24	20	25	1.99
4372111--4372342	64	3.6	63	78	9	195	30	25	19	25	1.98
4374400--4374527	37	3.5	37	82	1	150	30	13	11	44	1.79
4376902--4377188	143	2.0	140	81	6	328	28	13	14	43	1.84
4378425--4378449	13	1.9	13	100	0	50	48	0	0	52	1.00
4378522--4378665	36	3.8	38	79	8	150	42	4	5	47	1.48
4378646--4378686	21	2.0	21	100	0	82	34	4	4	56	1.42
4378693--4378784	37	2.7	32	80	16	112	39	1	6	53	1.34
4378771--4378838	31	2.2	30	84	7	84	39	0	10	50	1.37
4379023--4379070	21	2.3	21	77	0	60	27	20	18	33	1.96
4379064--4379179	41	2.8	41	85	2	108	36	24	17	22	1.95
4379084--4379159	21	3.7	21	75	10	84	36	25	17	21	1.94
4379106--4379196	20	4.5	20	78	8	103	28	28	19	23	1.98
4379910--4379963	24	2.2	24	90	0	81	20	16	20	42	1.89
4382320--4382578	129	2.0	129	95	0	464	29	13	14	42	1.84
4382549--4382679	20	6.8	20	76	13	96	32	22	19	25	1.98
4382551--4382724	94	1.9	94	85	4	244	34	21	19	24	1.96
4382719--4382782	20	3.2	20	86	0	83	15	15	20	48	1.81
4384321--4384443	42	2.9	42	79	7	133	24	17	35	21	1.95
4384321--4384430	21	5.2	21	76	0	103	21	19	36	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4384919--4384961	20	2.2	20	91	0	68	51	23	11	13	1.74
4385025--4385100	33	2.3	34	86	2	100	14	19	18	47	1.83
4385092--4385140	20	2.5	20	90	6	73	18	22	26	32	1.97
4387050--4387135	20	4.4	20	80	4	95	50	22	15	12	1.77
4387705--4387835	20	6.4	21	73	13	112	20	14	26	38	1.91
4387705--4387873	41	4.1	41	89	2	234	23	15	24	36	1.94
4387720--4387873	20	7.6	20	73	11	125	24	16	25	33	1.96
4387888--4387933	19	2.4	19	85	3	56	26	17	26	30	1.97
4387897--4387935	19	2.1	19	90	0	60	25	15	25	33	1.95
4389372--4389423	27	1.9	27	84	0	68	9	11	3	75	1.18
4389382--4389434	27	2.1	26	82	10	65	11	11	5	71	1.29
4389533--4389561	12	2.3	13	94	5	51	31	0	0	68	0.89
4393217--4393242	2	13.0	2	100	0	52	50	0	0	50	1.00
4393233--4393493	95	2.7	95	88	3	362	32	18	18	31	1.95
4394615--4394834	84	2.6	84	82	4	273	33	22	19	25	1.97
4395910--4396429	84	6.3	83	79	6	421	31	22	19	26	1.97
4395908--4396446	249	2.2	248	78	7	565	32	22	19	26	1.97
4396214--4396447	83	2.9	81	80	5	274	29	19	22	28	1.98
4397016--4397193	40	4.4	40	78	12	168	43	3	6	46	1.46
4397173--4397200	2	14.0	2	100	0	56	50	0	0	50	1.00
4397225--4397312	39	2.4	36	84	5	113	37	1	4	56	1.27
4397289--4397343	27	2.0	27	89	0	83	47	0	1	50	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4397419--4397490	3	24.0	3	80	10	85	33	4	1	61	1.24
4398738--4398767	16	1.9	16	93	6	53	20	3	0	76	0.92
4401295--4401406	36	3.1	36	90	0	170	30	29	11	28	1.92
4402892--4402949	26	2.2	26	100	0	116	36	27	6	29	1.83
4407177--4407207	6	5.2	6	100	0	62	16	32	16	35	1.91
4408193--4408233	18	2.3	18	87	4	57	29	7	2	60	1.36
4413305--4413333	12	2.5	12	94	5	51	37	0	34	27	1.57
4416933--4416973	18	2.3	18	82	0	55	36	31	9	21	1.86
4419728--4419838	51	2.2	51	83	6	136	25	27	30	16	1.96
4419746--4419854	51	2.1	51	78	6	114	23	29	31	15	1.95

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