genome.fa.s9611.2.7.7.80.10.50.1000.22.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: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6671611

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   

This is table  22  of  27  ( 3214 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)
5596017--5596057	20	2.0	21	95	4	75	51	4	4	39	1.45
5597501--5597538	18	2.1	19	90	5	60	39	0	0	60	0.97
5597622--5597697	40	1.9	40	91	2	127	34	26	5	34	1.79
5599003--5599067	21	3.1	21	93	0	112	23	23	24	29	1.99
5599755--5599811	22	2.7	21	83	5	78	21	24	22	31	1.98
5601159--5601230	22	3.2	22	70	14	74	40	4	20	34	1.72
5601142--5601240	46	2.2	46	92	0	162	42	5	22	30	1.75
5601478--5601599	64	1.9	64	86	3	174	35	21	18	25	1.95
5601501--5601640	64	2.2	64	84	5	176	34	22	17	25	1.96
5603404--5603436	17	1.9	17	93	0	57	66	3	27	3	1.21
5626686--5626745	31	2.0	28	84	9	75	33	15	18	33	1.92
5629584--5629655	21	3.5	21	86	7	94	45	16	19	18	1.85
5630031--5630097	20	3.3	20	80	0	89	19	14	22	43	1.87
5630031--5630130	40	2.5	40	87	6	132	20	16	23	41	1.90
5630043--5630109	20	3.3	20	79	8	82	17	13	25	43	1.86
5643433--5643519	6	15.6	5	92	3	59	44	0	1	54	1.07
5643446--5643520	2	38.0	2	97	2	143	49	0	0	50	1.00
5643618--5643696	39	1.9	39	80	16	90	17	10	2	69	1.27
5644745--5644773	13	2.2	13	100	0	58	6	20	6	65	1.40
5644744--5644778	13	2.5	14	86	13	54	8	17	5	68	1.35
5648244--5648295	16	3.3	15	82	12	61	78	7	13	0	0.94
5648257--5648295	11	3.7	10	83	10	51	79	7	12	0	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5648250--5648306	21	2.5	22	80	13	71	78	7	12	1	1.01
5648249--5648307	16	3.4	16	75	20	55	77	8	11	1	1.05
5648265--5648313	21	2.2	21	85	7	62	77	10	8	4	1.10
5649377--5649412	18	2.0	18	88	0	54	16	5	33	44	1.71
5650780--5651099	106	3.0	106	92	0	523	35	24	18	21	1.95
5652581--5652611	16	1.9	16	93	0	53	38	25	22	12	1.90
5655750--5655849	50	2.0	50	100	0	200	18	22	14	46	1.84
5656840--5656930	45	2.0	45	100	0	182	41	13	21	23	1.88
5657074--5657098	13	1.9	13	100	0	50	56	0	0	44	0.99
5657771--5657806	18	1.9	19	88	5	56	52	0	2	44	1.15
5665576--5665616	20	2.0	20	86	9	57	39	9	7	43	1.65
5667257--5667284	7	4.0	7	100	0	56	42	14	14	28	1.84
5668935--5669185	125	2.0	125	97	0	475	41	16	6	35	1.74
5669832--5669959	31	4.1	31	75	6	114	33	20	17	28	1.95
5670752--5670858	45	2.4	45	95	0	196	28	15	20	34	1.94
5673239--5673422	30	6.1	30	92	1	280	30	25	21	21	1.98
5673380--5673508	63	2.1	61	87	7	188	33	20	19	27	1.96
5673383--5673510	31	4.1	31	80	9	143	34	21	17	26	1.96
5674378--5674422	21	2.1	21	87	0	63	15	24	28	31	1.96
5676862--5676963	31	3.3	31	75	6	116	34	16	16	32	1.92
5676862--5676962	32	3.2	32	76	9	118	33	16	16	32	1.92
5680010--5680046	16	2.4	16	86	8	51	64	0	5	29	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5680184--5680259	20	3.9	19	77	16	75	38	11	22	27	1.89
5680204--5680281	40	2.0	40	86	0	111	35	14	19	30	1.91
5680205--5680270	20	3.3	20	70	16	55	34	15	19	30	1.93
5680318--5680394	20	3.8	19	79	6	82	19	18	19	42	1.89
5680356--5680396	21	2.0	21	90	0	64	17	19	21	41	1.90
5686922--5687007	37	2.3	37	91	0	145	34	24	15	25	1.94
5691405--5691430	2	13.0	2	100	0	52	0	50	0	50	1.00
5694557--5694581	12	2.1	12	100	0	50	16	0	32	52	1.44
5695590--5695657	23	3.0	23	80	6	68	22	5	20	51	1.68
5696904--5697196	146	2.0	147	99	0	579	35	11	15	36	1.84
5698617--5698693	24	3.2	26	83	10	92	32	24	5	37	1.78
5698650--5698697	12	4.0	12	94	0	87	35	25	6	33	1.81
5699012--5699047	11	3.5	11	78	21	51	27	25	22	25	2.00
5699008--5699055	19	2.5	19	96	0	87	25	27	22	25	2.00
5699023--5699143	64	1.9	62	83	3	152	23	19	22	34	1.96
5705314--5705382	24	2.8	26	83	12	85	31	24	5	37	1.79
5705347--5705382	12	3.0	12	91	0	63	36	25	5	33	1.79
5705697--5705732	11	3.5	11	78	21	51	27	25	22	25	2.00
5705690--5705740	19	2.7	19	100	0	102	27	25	21	25	1.99
5705690--5705741	8	5.8	8	76	24	50	26	25	21	26	1.99
5712049--5712109	18	3.4	18	75	8	70	60	0	3	36	1.13
5712053--5712109	17	3.2	17	70	18	53	61	0	3	35	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5712039--5712110	36	2.0	36	91	2	119	56	0	5	37	1.22
5713028--5713056	14	2.1	14	100	0	58	34	6	6	51	1.55
5720542--5720682	74	1.9	76	88	2	214	50	3	7	39	1.47
5720870--5720923	25	2.2	25	82	0	63	38	3	5	51	1.43
5723139--5723179	2	20.5	2	100	0	82	51	0	0	48	1.00
5729743--5729780	19	2.0	19	100	0	76	57	0	21	21	1.40
5732314--5732351	12	3.2	12	85	3	51	65	10	15	7	1.45
5732981--5733024	13	3.4	13	96	0	79	38	4	25	31	1.76
5734234--5734288	28	2.0	28	96	0	101	34	7	7	50	1.58
5742727--5742814	38	2.3	39	84	5	110	23	14	9	52	1.70
5745633--5745717	23	3.7	23	71	21	79	18	27	25	28	1.98
5746270--5746313	21	2.0	22	86	4	63	20	25	29	25	1.99
5747855--5747890	13	2.7	13	91	4	54	16	16	2	63	1.42
5748340--5748373	14	2.4	14	90	0	50	14	11	17	55	1.68
5748328--5748383	24	2.2	26	78	15	64	16	12	19	51	1.75
5755752--5755788	3	12.3	3	100	0	74	67	0	0	32	0.91
5755895--5755974	23	3.4	23	78	10	99	11	12	18	57	1.64
5759436--5759527	23	4.1	22	79	5	87	21	3	2	72	1.09
5760035--5760117	43	2.0	42	83	11	107	30	1	6	62	1.27
5765817--5765865	2	24.5	2	91	0	80	51	0	2	46	1.12
5765811--5765860	16	3.1	16	94	0	82	50	0	4	46	1.20
5768392--5768439	11	3.8	13	82	15	57	25	6	0	68	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5768392--5768426	13	2.7	13	91	8	54	22	8	0	68	1.16
5769062--5769118	29	2.0	29	96	0	105	15	35	29	19	1.93
5769181--5769261	29	2.8	29	86	0	117	14	38	25	20	1.92
5769269--5769351	33	2.5	33	84	3	96	13	37	22	26	1.91
5771239--5771509	122	2.2	121	80	8	273	37	9	20	32	1.84
5774185--5774382	5	39.6	5	71	20	109	53	5	1	40	1.32
5774192--5774389	2	104.5	2	67	28	98	52	5	1	40	1.34
5774189--5774395	22	10.0	21	76	17	152	52	5	1	40	1.34
5779515--5779551	19	2.0	19	94	5	67	45	0	0	54	1.00
5800178--5800258	40	2.0	40	92	2	137	38	0	7	54	1.29
5801631--5801655	2	12.5	2	100	0	50	52	0	0	48	1.00
5803434--5803512	21	3.8	20	88	1	113	39	24	18	17	1.92
5803436--5803528	21	4.5	21	86	4	91	40	24	17	17	1.90
5803435--5803528	42	2.3	41	83	1	116	40	25	17	17	1.90
5804431--5804534	40	2.6	41	84	4	140	25	16	25	33	1.96
5804441--5804537	20	4.9	19	75	16	81	24	17	24	32	1.97
5805542--5805584	21	2.0	21	90	0	68	39	25	20	13	1.90
5805623--5805697	21	3.6	21	85	3	89	40	25	8	26	1.83
5807562--5807666	33	3.2	33	81	9	99	35	0	3	60	1.15
5809387--5809431	21	2.1	21	83	0	54	24	37	13	24	1.91
5809438--5809531	21	4.5	21	92	5	129	18	35	26	20	1.95
5810053--5810149	33	2.9	34	86	4	135	54	4	3	38	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5810550--5811181	128	4.9	128	98	0	1210	32	19	25	23	1.98
5811249--5811289	8	5.2	8	82	5	57	36	29	0	34	1.58
5827316--5827362	19	2.5	19	86	6	60	38	4	6	51	1.47
5828260--5828310	23	2.2	23	85	0	66	13	15	13	56	1.67
5829728--5830096	20	18.5	20	85	4	458	34	26	18	20	1.96
5830770--5830816	24	2.0	24	87	8	69	25	14	21	38	1.92
5830990--5831014	12	2.1	12	100	0	50	72	0	28	0	0.86
5833321--5833627	19	17.4	19	78	17	351	47	17	20	14	1.83
5833349--5833627	52	5.2	52	89	8	347	47	16	20	15	1.83
5833388--5833627	71	3.4	71	82	13	348	47	17	20	15	1.82

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