genome.fa.s851.2.7.7.80.10.50.1000.17.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: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7304151

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   

This is table  17  of  31  ( 3618 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)
4117429--4117482	25	2.2	25	93	3	92	31	9	14	44	1.77
4122022--4122104	2	42.0	2	97	2	159	50	0	0	49	1.00
4124120--4124152	16	2.0	17	88	5	50	42	0	21	36	1.53
4125695--4125744	25	2.0	25	100	0	100	32	8	16	44	1.76
4130514--4130669	77	2.0	77	98	0	303	38	23	16	21	1.93
4132372--4132439	32	2.1	32	86	5	93	33	23	10	32	1.88
4132388--4132460	32	2.2	32	85	2	92	35	27	12	24	1.91
4136095--4136144	20	2.5	20	87	3	66	40	22	4	34	1.72
4137383--4137412	14	2.1	14	93	0	51	80	3	16	0	0.85
4151774--4152413	74	8.8	74	84	7	729	31	15	12	40	1.85
4151846--4152314	112	4.2	108	72	12	332	31	15	12	40	1.84
4152716--4152952	91	2.6	91	83	4	262	33	20	16	29	1.95
4154294--4154348	20	2.7	21	81	15	62	21	9	9	60	1.55
4172002--4172709	38	19.0	38	74	9	521	24	20	16	37	1.93
4172002--4172709	76	9.5	76	81	7	799	24	20	16	37	1.93
4172757--4172899	45	3.2	44	82	6	164	20	16	18	44	1.86
4173784--4174213	45	9.7	44	82	4	508	29	24	9	36	1.87
4174034--4174193	22	7.2	22	64	12	85	28	22	10	38	1.88
4178686--4178739	22	2.5	23	82	17	71	57	1	9	31	1.41
4184745--4184789	21	2.1	21	88	8	65	64	0	4	31	1.13
4186944--4186985	20	2.2	19	86	4	57	14	9	7	69	1.37
4200857--4200892	18	2.0	18	100	0	72	22	11	22	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4208706--4208756	20	2.6	19	74	14	50	27	11	0	60	1.31
4209560--4209615	15	3.8	15	76	4	51	42	30	8	17	1.80
4209619--4209728	52	2.1	51	83	5	132	42	29	2	25	1.69
4210410--4210447	2	19.0	2	100	0	76	50	0	0	50	1.00
4215556--4215595	19	2.2	18	90	4	62	37	10	12	40	1.77
4218156--4218255	50	2.0	50	100	0	200	38	8	18	36	1.80
4219175--4219352	90	2.0	90	94	2	313	37	10	6	46	1.64
4222780--4223848	533	2.0	533	96	0	1976	36	19	11	31	1.88
4224770--4224833	18	3.6	18	97	0	119	40	6	9	43	1.62
4229912--4229944	2	16.5	2	100	0	66	51	0	0	48	1.00
4230476--4230513	13	2.9	13	92	0	67	21	23	18	36	1.95
4230489--4230526	20	1.9	20	94	0	67	21	23	21	34	1.97
4231103--4231196	28	3.4	28	79	5	109	13	27	19	39	1.89
4236117--4236155	20	2.0	20	89	0	60	30	33	15	20	1.94
4236177--4236265	46	2.0	46	90	2	144	28	25	19	26	1.99
4243904--4243942	20	2.0	20	89	0	60	30	33	15	20	1.94
4243973--4244021	19	2.6	19	93	0	89	30	34	16	18	1.93
4244095--4244132	19	2.1	18	90	5	58	21	23	18	36	1.95
4245393--4245451	22	2.7	22	92	5	93	35	13	13	37	1.84
4246135--4246258	36	3.4	36	72	10	117	29	17	15	37	1.91
4246117--4246287	36	4.7	34	68	13	92	32	18	11	37	1.87
4246122--4246336	73	2.9	73	89	2	326	32	18	12	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4246633--4246696	17	3.2	20	64	27	55	42	6	21	29	1.78
4246371--4247640	137	10.0	123	78	11	1077	38	15	18	27	1.90
4247027--4247072	23	2.0	22	84	12	58	52	6	23	17	1.68
4248932--4249308	148	2.6	147	87	3	539	37	7	7	48	1.59
4249294--4249355	25	2.5	25	80	17	76	59	1	0	38	1.07
4249322--4249357	17	2.1	17	89	5	54	55	0	0	44	0.99
4252517--4252622	35	3.0	35	94	0	176	25	10	12	51	1.70
4253315--4253393	39	2.0	39	87	5	113	36	12	12	37	1.82
4253378--4253434	27	2.1	27	87	3	80	40	14	15	29	1.87
4256697--4256723	8	3.4	8	100	0	54	22	11	0	66	1.22
4263622--4263710	23	3.5	24	76	17	72	53	1	4	40	1.28
4264895--4264929	4	8.8	4	100	0	70	77	0	0	22	0.78
4266964--4266989	4	6.5	4	100	0	52	26	0	23	50	1.50
4268359--4268399	20	2.1	19	86	4	55	58	9	12	19	1.61
4274451--4274478	2	14.0	2	100	0	56	50	0	0	50	1.00
4279837--4280106	41	6.7	40	90	2	423	47	10	18	24	1.79
4279837--4280106	81	3.3	80	92	2	432	47	10	18	24	1.79
4285855--4285964	32	3.5	32	77	2	105	36	16	9	38	1.80
4285867--4285941	31	2.4	32	79	4	98	33	20	9	37	1.84
4285895--4286000	32	3.3	32	69	3	81	33	16	10	38	1.83
4285915--4286065	32	4.7	32	77	0	131	37	16	7	39	1.77
4288809--4288858	20	2.5	20	87	3	75	26	26	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4295371--4295412	22	2.0	21	86	13	59	28	0	7	64	1.20
4297720--4297807	30	3.0	30	74	12	85	35	14	6	43	1.73
4297720--4297807	29	3.0	30	80	6	101	35	14	6	43	1.73
4299430--4299482	20	2.6	20	78	3	61	39	22	11	26	1.88
4300105--4300147	17	2.5	17	96	0	77	39	18	18	23	1.92
4302997--4303073	40	1.9	40	86	0	109	46	2	9	41	1.49
4303446--4303908	245	1.9	245	87	2	680	39	8	15	36	1.78
4304787--4304823	20	1.9	19	89	10	58	51	10	18	18	1.75
4311012--4311143	13	10.5	12	70	16	81	74	0	4	20	1.04
4311047--4311172	4	30.8	4	72	12	60	69	0	2	26	1.06
4311044--4311143	17	6.0	16	71	12	76	74	1	2	23	0.99
4311049--4311165	53	2.2	55	84	9	161	69	0	2	27	1.07
4311013--4311172	49	3.2	51	79	13	149	71	0	4	23	1.08
4311049--4311200	53	3.0	52	80	13	160	69	1	2	26	1.10
4311013--4311194	49	3.5	52	77	14	146	71	1	4	23	1.10
4312319--4312407	39	2.4	35	83	7	106	30	5	21	42	1.76
4312394--4312627	36	6.6	36	78	15	229	39	13	20	26	1.89
4312428--4312614	102	1.8	102	85	6	263	39	12	19	28	1.88
4312663--4312851	37	5.4	37	67	17	107	38	13	19	28	1.89
4312663--4312875	102	2.1	102	89	1	320	36	12	19	31	1.89
4312784--4312962	87	2.1	87	93	0	304	36	12	17	33	1.88
4312680--4313067	189	2.1	188	83	5	489	38	12	18	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4313219--4313541	106	3.0	106	87	0	432	22	19	23	34	1.96
4314119--4314206	32	2.8	32	82	3	106	34	21	15	28	1.94
4315131--4315268	69	2.0	69	88	0	204	26	13	21	37	1.91
4318311--4318385	27	2.7	27	81	6	78	72	2	6	18	1.19
4318410--4318449	9	4.7	9	88	11	50	80	0	12	7	0.91
4318404--4318510	48	2.2	50	81	11	132	71	0	6	20	1.13
4318580--4318609	2	15.0	2	100	0	60	50	0	0	50	1.00
4320165--4320237	3	24.3	3	84	15	98	35	0	1	63	1.04
4320165--4320237	13	5.8	13	84	12	91	35	0	1	63	1.04
4320165--4320236	16	4.4	16	81	18	94	34	0	1	63	1.03
4321037--4321116	14	5.9	14	70	16	53	77	5	5	12	1.09
4321052--4321108	16	3.7	15	73	15	53	78	3	5	12	1.03
4321092--4321133	16	2.8	15	85	7	50	76	7	0	16	1.00
4322472--4322563	28	3.4	28	68	17	75	47	3	3	45	1.35
4322429--4322809	39	9.1	39	74	19	226	48	5	3	42	1.44
4322494--4322528	17	2.1	17	100	0	70	45	0	5	48	1.26
4322511--4322707	76	2.6	74	88	9	281	46	5	4	43	1.46
4322794--4322954	81	1.9	84	80	9	188	44	6	3	45	1.46
4322857--4322938	36	2.2	37	80	8	96	41	7	3	47	1.49
4326216--4326252	12	2.7	14	80	19	51	13	21	13	51	1.75
4328764--4328836	37	1.9	37	83	8	94	36	23	5	34	1.78
4328882--4328992	31	3.7	31	77	8	97	33	13	13	39	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4328882--4328996	30	3.9	30	75	16	89	34	13	13	38	1.84
4329082--4329442	134	2.7	130	80	6	370	26	31	16	25	1.97
4329341--4329494	40	3.8	40	82	5	200	24	30	19	25	1.98
4329341--4329539	83	2.4	83	96	1	364	24	30	18	26	1.98
4329244--4329525	43	6.5	43	71	12	220	25	31	18	24	1.98
4329695--4329725	3	10.0	3	93	6	53	32	0	3	64	1.09
4332083--4332115	17	1.9	17	88	11	50	63	0	3	33	1.10
4332181--4332223	16	2.7	16	79	10	52	44	2	0	53	1.13
4332188--4332223	17	2.2	16	90	5	54	41	2	0	55	1.14
4335278--4335320	18	2.4	18	92	0	68	32	20	18	27	1.96

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