genome.fa.s7984.2.7.7.80.10.50.1000.43.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   

This is table  43  of  65  ( 7696 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)
8770562--8770599	2	19.0	2	100	0	76	50	0	0	50	1.00
8770649--8770703	27	2.0	27	100	0	110	38	21	14	25	1.92
8774972--8774998	2	13.5	2	100	0	54	48	0	0	51	1.00
8775238--8775308	33	2.2	33	92	0	115	40	15	9	33	1.80
8775545--8775682	41	3.4	41	76	2	143	35	23	16	23	1.95
8775549--8775655	20	5.3	20	77	6	90	30	27	16	25	1.97
8776155--8776213	20	3.0	20	87	0	73	15	18	22	44	1.87
8777525--8777572	18	2.7	18	93	0	87	27	45	12	14	1.81
8778107--8778173	20	3.4	20	79	2	73	40	22	20	16	1.91
8778146--8778242	19	5.6	19	70	22	88	47	21	18	12	1.81
8778162--8778219	14	3.8	14	75	20	62	50	24	15	10	1.75
8778146--8778237	33	2.8	33	96	0	166	48	21	17	11	1.79
8778287--8778334	20	2.4	20	85	0	69	20	27	20	31	1.98
8780202--8780240	14	2.8	14	84	0	51	35	0	17	46	1.49
8780377--8780444	19	3.8	19	85	14	101	47	17	22	13	1.82
8780471--8780560	20	4.5	20	80	5	119	16	21	24	37	1.93
8780767--8780824	20	2.9	20	89	0	80	25	20	24	29	1.99
8780813--8780864	20	2.5	21	87	3	70	21	23	17	38	1.93
8781061--8781094	12	2.9	12	86	4	52	17	41	5	35	1.74
8781649--8781702	24	2.2	24	90	0	81	22	16	20	40	1.91
8783979--8784106	33	3.8	33	86	6	186	42	17	23	15	1.88
8783980--8784113	67	2.0	66	94	1	232	41	17	23	17	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8784117--8784208	47	2.0	47	93	0	157	14	21	21	42	1.88
8784316--8784352	14	2.6	14	91	0	65	45	24	0	29	1.53
8785681--8785747	21	3.2	21	68	4	55	19	20	35	23	1.95
8785681--8785803	42	2.9	41	79	7	113	22	18	36	21	1.95
8786021--8786200	89	2.0	90	92	5	303	46	18	12	22	1.82
8787882--8788036	19	8.8	19	68	22	106	45	18	23	12	1.83
8787931--8788019	14	5.6	14	69	23	61	43	21	24	10	1.83
8787907--8788036	33	3.9	33	94	1	224	43	20	24	10	1.84
8788037--8788107	19	3.7	19	83	9	90	11	18	23	46	1.81
8788637--8788792	20	7.7	20	66	14	59	29	18	19	32	1.96
8788666--8788721	20	2.7	21	80	5	69	42	16	21	19	1.89
8788665--8788731	21	3.2	21	78	4	73	38	16	22	22	1.92
8788741--8788792	20	2.5	20	87	3	68	21	23	17	38	1.93
8792879--8792925	14	3.5	14	88	11	64	31	0	2	65	1.04
8793030--8793072	18	2.4	18	92	3	70	39	37	18	4	1.72
8793150--8793232	22	3.8	22	91	0	130	16	44	14	24	1.85
8794940--8795238	120	2.5	121	91	2	469	30	8	19	41	1.82
8797200--8797233	3	11.3	3	87	12	52	32	0	0	67	0.91
8797182--8797233	27	1.9	27	84	0	68	38	1	0	59	1.08
8808150--8808799	137	4.7	137	88	1	899	35	23	15	26	1.94
8808955--8808996	16	2.9	15	83	13	52	38	0	2	59	1.10
8809078--8809113	18	1.9	19	94	5	65	41	30	16	11	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8809083--8809125	18	2.4	18	88	3	61	41	32	18	6	1.77
8811472--8811536	23	2.8	23	97	0	121	27	3	46	23	1.67
8812209--8812263	22	2.6	21	85	5	83	29	21	23	25	1.99
8814307--8814338	11	2.8	11	95	4	55	43	0	0	56	0.99
8814334--8814398	3	21.7	3	96	0	121	64	0	1	33	1.03
8814703--8815429	223	3.3	227	83	9	853	29	19	12	38	1.89
8814703--8815436	114	6.6	117	82	10	881	29	19	12	38	1.89
8816180--8816899	84	8.7	84	92	4	1158	35	22	13	28	1.92
8817662--8817708	16	2.7	18	90	9	71	53	8	6	31	1.57
8818036--8818078	1	43.0	1	80	0	50	0	9	0	90	0.45
8818035--8818085	8	6.4	8	86	6	68	0	13	0	86	0.58
8818036--8818082	19	2.5	19	93	6	78	0	10	0	89	0.49
8828678--8828714	15	2.7	15	88	12	53	62	8	5	24	1.44
8830877--8830908	11	2.8	11	95	4	55	43	0	0	56	0.99
8830904--8830971	3	22.7	3	96	0	127	64	0	1	33	1.02
8848682--8848706	2	12.5	2	100	0	50	52	0	0	48	1.00
8849249--8849324	37	2.1	37	100	0	152	50	5	7	36	1.54
8853269--8853486	103	2.1	103	98	0	418	25	12	24	38	1.90
8853503--8853565	23	2.7	23	85	4	83	20	25	26	26	1.99
8855577--8855616	2	20.0	2	100	0	80	50	0	0	50	1.00
8866658--8866903	129	1.9	129	82	3	307	32	19	14	33	1.92
8872491--8872515	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8873521--8873564	22	2.0	22	86	8	63	65	2	4	27	1.23
8873955--8874057	46	2.2	46	92	0	179	44	25	9	20	1.82
8874779--8874815	2	18.5	2	94	0	65	54	0	0	45	1.00
8875099--8875132	2	17.0	2	93	0	59	50	2	0	47	1.16
8875236--8875289	20	2.7	19	75	8	63	33	31	18	16	1.93
8875236--8875351	21	5.6	21	68	7	67	33	25	18	21	1.97
8875339--8875391	20	2.7	20	82	5	63	43	20	20	15	1.88
8875419--8875573	20	7.7	20	82	7	163	39	23	18	18	1.92
8875400--8875572	40	4.3	40	82	3	186	38	23	18	19	1.93
8876135--8876226	20	4.6	21	77	9	86	53	18	16	11	1.73
8876190--8876242	19	2.8	19	91	0	79	50	20	18	9	1.74
8876238--8876317	20	4.1	19	80	6	88	15	20	18	46	1.84
8878013--8878391	94	4.1	94	94	1	638	21	12	18	47	1.82
8878578--8878629	14	3.4	14	72	23	50	9	25	21	44	1.82
8878587--8878671	19	4.6	19	73	16	81	11	21	21	45	1.83
8878556--8878647	33	2.8	33	94	0	157	11	22	18	46	1.82
8879125--8879191	21	3.2	21	66	6	55	23	35	20	19	1.95
8880508--8880543	14	2.6	14	90	0	54	30	0	22	47	1.52
8880650--8880729	33	2.4	33	89	0	115	46	20	20	13	1.84
8880741--8880886	19	8.4	19	67	22	106	14	23	17	44	1.86
8880739--8880832	33	2.8	33	91	0	161	13	24	17	44	1.85
8880844--8880871	14	2.0	14	100	0	56	14	21	21	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8880783--8880885	53	2.0	52	92	1	170	14	23	19	42	1.88
8880826--8880919	33	2.8	34	83	3	127	15	22	21	40	1.91
8880892--8880965	20	3.7	20	66	16	53	25	17	24	32	1.97
8884225--8884481	20	12.8	19	74	11	126	20	19	22	37	1.94
8884233--8884462	40	5.7	39	86	6	248	20	18	22	38	1.94
8884231--8884481	60	4.2	59	85	4	281	20	19	23	37	1.94
8886963--8887030	3	22.0	3	88	5	100	36	0	0	63	0.95
8887748--8887776	13	2.2	13	100	0	58	0	31	62	6	1.22
8887817--8887841	11	2.3	11	100	0	50	56	8	28	8	1.57
8888637--8888678	20	2.2	19	86	4	57	33	0	2	64	1.07
8888532--8888784	120	2.1	120	81	9	288	35	9	7	47	1.65
8890683--8890768	43	2.0	43	90	0	136	30	10	24	34	1.89
8890842--8890884	13	3.1	13	78	18	50	18	9	11	60	1.57
8891025--8891063	15	2.7	15	88	4	53	20	15	12	51	1.76
8894353--8894403	24	2.0	26	88	7	79	68	11	13	5	1.37
8894388--8894466	8	9.4	8	71	24	56	79	1	17	1	0.86
8894388--8894444	10	6.3	9	75	25	50	77	0	21	1	0.86
8894388--8894458	17	4.0	17	79	15	81	78	1	18	1	0.89
8894388--8894458	18	4.0	18	79	12	76	78	1	18	1	0.89
8894411--8894466	22	2.6	22	82	2	69	82	1	14	1	0.84
8896703--8896925	114	2.0	114	92	0	374	34	15	20	30	1.93
8899390--8899466	22	3.5	22	89	0	118	32	14	14	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8899874--8900744	113	7.9	113	83	7	938	37	14	18	29	1.90
8900053--8900703	216	3.0	214	81	10	769	37	13	18	29	1.90
8899868--8900601	329	2.2	327	85	6	987	37	15	18	29	1.91
8900553--8900736	101	1.8	101	92	0	314	41	11	19	27	1.86
8900706--8900898	84	2.3	83	88	2	278	37	16	16	30	1.90
8901147--8901207	3	20.0	3	89	3	95	36	0	0	63	0.94
8901922--8901950	13	2.2	13	100	0	58	0	31	62	6	1.22
8902801--8902842	20	2.2	19	86	4	57	33	0	2	64	1.07
8902696--8902933	120	2.0	121	82	8	299	36	9	8	45	1.67
8907974--8908023	17	3.1	17	68	26	54	52	22	6	20	1.68

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65