genome.fa.s9344.2.7.7.80.10.50.1000.23.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: VEPZ01009344.1 Hibiscus syriacus cultivar Beakdansim tig00113124_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4287485

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  23  of  24  ( 2784 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)
4101965--4102192	65	3.5	64	77	6	215	41	11	14	32	1.82
4102089--4102316	120	1.9	119	82	4	289	42	11	15	30	1.82
4103034--4103137	35	2.9	35	82	2	127	39	10	17	32	1.84
4103478--4106389	4	736.8	4	97	2	5529	25	0	25	49	1.51
4106402--4106485	41	2.0	41	97	0	159	27	15	27	29	1.96
4107755--4107813	26	2.3	26	85	8	77	3	10	10	76	1.13
4114490--4114533	15	2.9	15	86	6	63	65	0	0	34	0.93
4116489--4116520	15	2.1	15	94	0	55	37	9	6	46	1.61
4117017--4117816	420	1.9	416	87	3	1158	39	8	8	43	1.66
4118305--4118373	29	2.4	29	100	0	138	44	34	0	20	1.52
4119932--4120014	32	2.6	32	92	0	130	56	4	4	33	1.42
4120023--4120347	98	3.3	96	66	16	234	48	9	5	36	1.61
4129311--4129360	24	2.1	24	85	7	66	22	2	16	60	1.46
4136216--4136258	20	2.1	21	87	8	63	13	16	0	69	1.19
4139472--4139521	24	2.1	24	85	7	66	22	4	14	60	1.51
4142328--4142390	28	2.2	30	85	5	85	66	1	0	31	1.01
4142839--4142888	21	2.4	21	100	0	100	34	20	20	26	1.96
4144506--4144554	15	3.0	17	73	11	57	57	0	0	42	0.99
4144506--4144578	32	2.3	32	81	9	87	57	0	0	42	0.98
4145229--4145270	21	2.0	21	86	13	61	14	7	42	35	1.73
4151297--4151355	17	3.4	17	73	15	50	77	1	6	13	1.03
4151311--4151371	18	3.4	19	77	11	58	77	3	4	14	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4153908--4153965	20	2.7	20	86	10	62	32	20	20	25	1.97
4153928--4153965	20	1.9	20	100	0	76	31	21	23	23	1.98
4154738--4154802	31	2.1	31	82	5	78	23	20	21	35	1.96
4154788--4154851	30	2.2	29	82	2	74	18	18	28	34	1.95
4158675--4158740	31	2.1	31	86	5	89	22	19	21	36	1.95
4158726--4158794	29	2.3	29	82	2	84	17	18	28	34	1.94
4158737--4158797	29	2.1	30	87	3	88	16	16	29	37	1.91
4159480--4159847	183	2.0	184	99	0	729	33	13	18	34	1.90
4172116--4172174	17	3.4	17	73	24	52	77	1	8	11	1.05
4172126--4172185	17	3.4	17	79	11	59	78	1	8	11	1.03
4172147--4172193	6	7.7	6	79	11	51	78	4	4	12	1.04
4172130--4172186	23	2.4	24	82	2	71	78	1	7	12	1.01
4172450--4172518	13	5.5	12	78	15	52	72	4	1	21	1.10
4172450--4172496	12	3.8	13	83	13	64	76	6	0	17	0.98
4172443--4172512	24	2.8	25	79	14	74	71	4	1	22	1.12
4172450--4172489	13	3.3	12	89	6	55	80	5	0	15	0.88
4173484--4173516	17	1.9	17	100	0	66	18	48	24	9	1.76
4173527--4173588	29	2.1	29	88	5	90	25	9	22	41	1.84
4173624--4173723	29	3.5	29	83	2	105	35	4	17	44	1.67
4174435--4174495	24	2.5	24	81	0	77	29	14	16	39	1.88
4178060--4178090	14	2.3	14	94	5	55	29	0	0	70	0.87
4178314--4178366	23	2.3	24	87	6	74	49	1	5	43	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4182953--4183053	24	4.2	24	79	0	112	25	16	9	47	1.78
4182953--4183058	48	2.2	48	82	1	131	25	17	10	46	1.80
4183258--4183301	23	1.9	23	85	0	61	36	20	15	27	1.93
4184826--4184876	22	2.3	22	89	0	84	31	11	13	43	1.80
4185827--4185861	2	17.5	2	100	0	70	51	0	0	48	1.00
4186863--4186916	2	27.0	2	92	7	92	48	1	0	50	1.11
4189614--4189661	23	2.2	21	85	7	60	35	8	0	56	1.30
4189978--4190003	7	3.7	7	100	0	52	84	0	0	15	0.62
4190017--4190072	21	2.9	19	72	12	60	51	0	0	48	1.00
4189991--4190072	39	2.1	39	84	11	105	54	2	1	41	1.21
4191058--4191086	2	15.0	2	92	7	51	48	0	0	51	1.00
4191298--4191418	59	2.1	59	93	0	206	34	22	17	25	1.95
4197354--4197393	13	3.2	12	89	10	55	5	0	12	82	0.82
4197461--4197489	10	2.7	11	94	5	51	41	24	10	24	1.86
4197688--4197808	59	2.1	59	90	0	188	36	23	16	23	1.94
4199251--4199297	24	1.9	25	91	4	78	38	17	21	23	1.93
4200000--4200033	6	5.7	6	96	0	50	73	0	26	0	0.83
4200000--4200036	12	3.1	12	92	0	56	72	0	27	0	0.84
4200204--4200292	30	3.0	30	73	15	71	55	0	0	44	0.99
4200232--4200292	24	2.5	26	77	17	69	55	0	0	44	0.99
4200250--4200289	19	2.1	19	85	0	53	55	0	0	45	0.99
4200290--4200351	12	5.2	12	74	3	54	27	43	12	16	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4211525--4211555	16	1.9	16	93	0	53	38	16	29	16	1.90
4214681--4214707	4	6.8	4	100	0	54	25	0	0	74	0.83
4215102--4215143	15	2.8	15	78	10	50	47	0	0	52	1.00
4225698--4225727	15	2.0	15	93	0	51	43	0	3	53	1.17
4225787--4225841	26	2.2	25	90	3	83	47	0	7	45	1.30
4225807--4226189	34	10.8	34	77	14	323	47	3	4	43	1.41
4225801--4225855	25	2.2	26	83	3	67	45	1	7	45	1.41
4226043--4226144	29	3.3	29	79	11	114	50	4	3	41	1.42
4226043--4226176	63	2.1	63	83	8	175	50	3	2	42	1.35
4226224--4226248	9	2.8	9	100	0	50	24	16	0	60	1.36
4226197--4226270	4	18.0	4	74	20	64	22	5	1	70	1.16
4227818--4227843	2	13.0	2	100	0	52	50	0	0	50	1.00
4228521--4228577	22	2.7	21	83	5	78	22	26	24	26	2.00
4229375--4229420	12	4.0	12	75	11	51	21	15	19	43	1.87
4233225--4233270	20	2.2	20	84	7	56	36	0	23	39	1.55
4234145--4234194	24	2.1	24	88	7	75	58	14	2	26	1.47
4239786--4239835	24	2.1	24	88	7	75	58	14	2	26	1.47
4240755--4240800	2	23.0	2	100	0	92	50	0	0	50	1.00
4241201--4241235	16	2.2	16	94	0	61	40	0	20	40	1.52
4241509--4241563	22	2.5	22	85	2	76	21	25	27	25	2.00
4242321--4242463	41	3.7	39	73	13	100	14	8	2	74	1.14
4242321--4242441	16	6.8	16	69	22	73	15	6	2	75	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4242408--4242463	25	2.2	25	87	6	78	8	10	1	78	1.03
4242425--4242472	15	2.9	16	84	9	53	10	14	0	75	1.06
4242438--4242487	15	3.2	16	76	18	52	10	16	0	74	1.08
4242427--4242487	15	3.8	17	72	26	51	11	14	0	73	1.09
4247603--4247742	72	1.9	72	85	8	176	29	17	13	39	1.88
4247761--4247823	20	3.2	20	62	20	51	25	14	15	44	1.84
4247757--4247948	39	5.0	39	83	2	208	27	18	15	38	1.91
4247964--4248049	36	2.4	36	90	0	127	24	20	13	40	1.89
4248027--4248109	31	2.7	31	80	10	91	36	19	12	32	1.88
4247915--4248204	96	3.0	96	87	3	393	33	19	11	36	1.87
4248210--4248362	65	2.3	67	84	6	197	28	23	13	34	1.93
4249270--4249305	18	2.1	17	89	5	54	36	0	2	61	1.11
4249273--4249316	20	2.2	20	83	0	52	43	0	4	52	1.22
4249436--4249485	11	4.4	11	78	9	55	48	8	4	40	1.51
4249312--4249791	36	13.3	37	67	21	182	46	4	5	44	1.46
4249455--4249579	44	3.0	43	78	14	122	46	3	4	46	1.37
4249380--4249579	37	5.2	40	75	19	135	45	4	5	45	1.44
4249551--4249607	27	2.1	29	83	12	84	52	3	7	36	1.46
4249585--4249790	35	5.8	36	74	18	130	47	3	3	45	1.38
4249676--4249740	29	2.3	29	83	2	87	49	3	4	43	1.39
4250903--4250945	2	21.5	2	95	0	77	48	2	0	48	1.14
4250973--4251036	30	2.1	30	83	11	78	17	6	0	76	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4250981--4251265	5	55.8	5	68	22	89	18	6	1	72	1.14
4251125--4251266	17	8.3	17	68	18	73	17	6	1	74	1.09
4251089--4251180	44	2.1	42	84	7	114	14	9	0	76	1.03
4251130--4251265	52	2.6	48	74	18	130	18	5	1	75	1.07
4251233--4251288	22	2.5	22	80	5	60	12	14	0	73	1.11
4251827--4251857	15	2.0	16	93	6	55	51	12	0	35	1.40
4255266--4255296	15	2.1	15	93	0	53	45	12	29	12	1.80
4256289--4256340	2	26.0	2	100	0	104	50	0	0	50	1.00
4257893--4257927	2	17.0	2	94	5	61	48	2	0	48	1.16
4265302--4265332	13	2.4	13	94	0	53	35	0	0	64	0.94

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