genome.fa.s190.2.7.7.80.10.50.1000.35.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   

This is table  35  of  62  ( 7381 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)
8318884--8318912	14	2.1	14	100	0	58	51	20	6	20	1.70
8319189--8319228	21	1.9	21	94	0	71	50	15	5	30	1.65
8323620--8323677	27	2.1	27	80	3	62	58	0	5	36	1.20
8324869--8324908	21	1.9	21	100	0	80	20	22	25	32	1.98
8327227--8327274	19	2.5	20	82	3	62	52	6	12	29	1.63
8328683--8328765	20	4.1	20	87	3	121	19	39	26	14	1.90
8328683--8328765	41	2.0	41	88	2	123	19	39	26	14	1.90
8330783--8330822	13	3.0	13	85	14	55	50	2	10	37	1.50
8330845--8330888	20	2.1	21	84	12	56	65	13	0	20	1.26
8331681--8331750	34	2.1	32	86	5	95	22	30	15	31	1.95
8332174--8332216	22	1.9	23	90	4	70	20	20	32	25	1.97
8332160--8332258	42	2.4	41	82	16	107	23	19	35	22	1.96
8332203--8332258	21	2.7	21	94	0	94	23	19	35	21	1.96
8332338--8332395	30	2.0	29	90	10	91	44	17	5	32	1.70
8332338--8332397	29	2.0	30	93	6	104	43	16	6	33	1.74
8333649--8333696	19	2.5	20	82	3	62	29	12	6	52	1.63
8334559--8334628	34	2.1	32	86	5	95	22	30	15	31	1.95
8335225--8335283	29	2.0	30	93	6	102	44	16	3	35	1.65
8335225--8335283	30	2.0	28	90	9	91	44	16	3	35	1.65
8343885--8343934	23	2.2	23	89	3	84	20	34	24	22	1.97
8343892--8343952	19	3.0	20	83	9	61	24	31	26	18	1.97
8347776--8347815	21	1.9	21	94	0	71	20	22	22	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8348258--8348336	22	3.5	22	79	8	88	32	24	15	27	1.95
8349386--8349413	13	2.2	13	100	0	56	42	14	14	28	1.84
8349933--8349968	17	2.1	18	89	5	56	47	5	30	16	1.70
8351793--8351902	22	4.9	22	73	7	87	30	28	17	24	1.97
8352046--8352101	21	2.7	21	91	0	94	42	35	7	14	1.73
8352326--8352395	33	2.1	33	86	0	95	32	15	30	21	1.94
8352937--8353369	233	1.9	224	81	7	514	33	13	4	48	1.64
8353992--8354047	2	28.0	2	100	0	112	50	0	0	50	1.00
8354333--8354372	2	20.5	2	94	5	73	47	0	0	52	1.00
8355980--8356165	60	3.1	60	84	0	246	30	23	5	39	1.79
8356015--8356163	29	5.0	29	62	18	72	31	22	5	40	1.76
8356285--8356460	60	2.9	59	80	7	194	40	6	22	30	1.80
8361651--8361708	24	2.4	25	91	2	91	56	1	18	22	1.50
8363276--8363318	18	2.4	18	92	0	68	32	13	18	34	1.90
8363797--8363849	23	2.3	23	80	0	61	20	24	22	32	1.98
8371755--8371821	32	2.1	32	97	0	125	29	19	17	32	1.95
8372093--8372187	27	3.6	27	94	2	167	29	12	15	42	1.84
8376166--8376221	27	2.1	27	100	0	112	28	14	14	42	1.84
8391633--8391679	22	2.1	23	84	4	60	40	25	8	25	1.84
8399330--8399372	21	2.0	21	86	0	59	30	27	25	16	1.97
8403152--8403194	21	2.0	21	81	0	50	30	25	25	18	1.98
8403879--8403923	23	2.0	23	86	0	63	20	26	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8409628--8409670	21	2.0	21	81	0	50	30	25	25	18	1.98
8410197--8410265	25	2.8	25	97	0	129	18	28	24	27	1.98
8410380--8410424	23	2.0	23	86	0	63	20	26	26	26	1.99
8416530--8416567	20	1.9	20	88	0	58	23	34	31	10	1.89
8417030--8417098	25	2.8	25	97	0	129	18	28	24	27	1.98
8417213--8417257	23	2.0	23	86	0	63	20	26	26	26	1.99
8421370--8421423	21	2.6	21	93	0	90	38	12	12	35	1.82
8421451--8421623	94	1.8	95	89	1	276	36	13	23	26	1.91
8421966--8422285	54	6.2	50	89	4	344	32	14	18	35	1.90
8422001--8422285	54	5.4	54	91	2	434	32	13	17	35	1.89
8421966--8422285	106	3.1	106	87	5	449	32	14	18	35	1.90
8421966--8422282	160	2.0	151	86	7	429	32	13	17	35	1.90
8422007--8422342	106	3.1	107	86	4	349	32	13	18	35	1.90
8422009--8422342	160	2.1	159	83	4	413	32	14	18	34	1.91
8425091--8425121	13	2.4	13	94	0	53	0	35	0	64	0.94
8425092--8425121	10	3.0	10	95	0	51	0	36	0	63	0.95
8425562--8425604	21	2.0	21	81	0	50	27	30	25	16	1.97
8426281--8426339	23	2.6	23	91	0	91	20	27	25	27	1.99
8426673--8426710	16	2.4	16	95	4	69	50	13	13	23	1.76
8431925--8432088	74	2.2	75	83	3	197	37	14	22	25	1.92
8432412--8432643	54	4.3	54	84	0	302	31	12	17	37	1.88
8434654--8434819	91	1.8	91	92	0	278	25	19	14	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8435919--8436032	50	2.3	50	92	3	187	41	15	13	29	1.85
8436005--8436418	55	7.6	55	81	3	476	41	14	10	34	1.79
8435955--8436418	109	4.3	109	82	5	514	40	14	10	34	1.80
8436424--8436837	55	7.6	55	80	7	407	39	17	9	32	1.83
8436333--8436510	92	1.9	92	89	0	275	37	15	11	34	1.84
8436423--8436846	159	2.6	159	82	5	442	39	17	9	32	1.83
8442383--8443008	332	1.9	332	87	0	912	31	15	25	26	1.96
8444615--8444691	24	3.6	22	75	20	67	29	19	25	24	1.98
8445774--8445802	2	14.5	2	100	0	58	51	0	0	48	1.00
8446235--8446303	23	3.0	23	78	0	84	17	23	26	33	1.96
8449376--8449475	39	2.6	39	90	1	148	17	25	23	35	1.95
8449513--8449861	174	2.0	177	97	2	668	27	12	19	41	1.87
8455420--8455504	39	2.2	39	91	0	134	17	28	24	29	1.97
8456130--8456181	21	2.5	21	77	0	59	32	25	13	28	1.93
8458312--8458352	21	2.0	21	90	0	64	34	12	7	46	1.69
8461203--8461263	27	2.3	27	97	0	113	31	24	21	22	1.98
8461239--8461469	115	2.0	115	100	0	462	31	19	17	31	1.95
8465512--8466010	249	2.0	248	97	1	948	38	17	14	29	1.89
8466749--8466797	17	3.1	16	80	8	57	71	4	24	0	1.03
8468419--8468522	51	2.0	51	81	5	118	31	16	5	46	1.70
8483755--8483880	47	2.8	45	86	5	173	38	7	23	30	1.83
8490783--8490908	47	2.8	45	84	5	164	38	7	23	30	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8494227--8494307	24	3.4	24	79	8	85	28	12	18	40	1.87
8494482--8494548	2	33.5	2	100	0	134	49	0	0	50	1.00
8498505--8498535	7	4.6	7	96	4	55	41	0	9	48	1.36
8498467--8498606	65	2.1	66	79	12	153	38	9	11	40	1.73
8498092--8498733	262	2.5	256	82	7	790	32	16	16	34	1.91
8504402--8504452	3	17.3	3	83	4	59	60	1	0	37	1.08
8504401--8504482	9	9.8	8	68	19	51	60	2	1	35	1.17
8504530--8504573	17	2.4	18	81	14	54	47	2	2	47	1.27
8504740--8504795	22	2.5	22	82	2	67	57	3	0	39	1.16
8504750--8504816	17	3.8	17	79	14	73	56	2	1	38	1.24
8504748--8504827	3	28.3	3	69	12	53	58	3	1	36	1.24
8506631--8506678	19	2.5	19	93	0	78	39	16	14	29	1.88
8507036--8507195	65	2.5	63	83	6	196	28	23	21	26	1.99
8515721--8515782	28	2.2	28	94	0	106	25	24	20	29	1.99
8515656--8515836	93	2.0	92	84	5	240	28	23	19	28	1.98
8517477--8517503	12	2.2	12	100	0	54	62	0	0	37	0.95
8521038--8521084	20	2.5	20	89	6	71	59	17	6	17	1.57
8522460--8522498	20	2.0	20	85	10	53	30	17	20	30	1.96
8526287--8526318	3	10.7	3	100	0	64	34	0	0	65	0.93
8526480--8526555	26	2.9	25	90	3	98	17	47	10	25	1.79
8529314--8529355	22	1.9	22	95	0	75	28	23	28	19	1.98
8529379--8529443	14	4.7	14	86	1	78	24	20	24	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8531732--8532070	131	2.6	130	85	1	437	33	10	16	38	1.84
8539410--8540037	135	4.7	134	76	3	530	31	20	14	33	1.92
8539436--8540012	267	2.1	269	80	3	626	31	20	14	33	1.92
8541355--8541430	29	2.7	27	76	9	80	22	6	6	64	1.41
8542041--8542403	131	2.8	131	82	2	408	33	10	16	38	1.84
8543863--8544209	132	2.6	130	82	4	437	33	11	15	39	1.84
8546086--8546146	23	2.6	22	87	5	86	40	18	19	21	1.91
8547049--8547102	22	2.4	24	72	15	60	35	3	20	40	1.70
8555038--8555096	24	2.5	24	97	0	109	45	23	18	11	1.83
8557314--8557353	21	1.9	22	90	10	66	12	10	40	37	1.77

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