genome.fa.s9462.2.7.7.80.10.50.1000.62.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  62  of  91  ( 10815 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)
14153336--14153514	95	1.9	94	82	3	225	26	21	13	38	1.91
14153539--14153594	21	2.7	21	94	0	94	26	30	17	25	1.97
14161399--14161772	67	5.5	64	78	12	295	39	13	19	27	1.89
14161461--14161652	36	5.4	36	87	2	298	39	14	21	24	1.91
14161512--14161612	21	5.4	21	64	26	73	37	14	24	22	1.92
14161461--14161653	72	2.7	71	94	2	343	39	14	21	24	1.91
14161512--14161648	21	7.4	20	62	29	54	38	13	23	24	1.91
14161750--14161921	36	4.7	37	73	7	109	37	11	17	33	1.86
14161750--14161908	37	4.3	37	74	8	103	38	11	18	31	1.86
14161779--14161919	72	1.9	74	85	2	196	36	10	17	34	1.85
14167936--14169474	768	2.0	768	99	0	3033	40	13	14	31	1.85
14171156--14171490	124	2.6	126	87	5	458	24	22	16	36	1.94
14172589--14172988	53	7.7	53	77	12	348	40	17	9	33	1.81
14173161--14173186	4	6.5	4	100	0	52	26	0	23	50	1.50
14174235--14174294	29	2.1	29	96	0	111	21	3	31	43	1.69
14180276--14180358	38	2.2	39	79	16	93	56	12	3	27	1.52
14180294--14180347	25	2.2	25	89	0	81	59	7	5	27	1.47
14181588--14181622	17	2.1	17	94	0	61	14	31	37	17	1.89
14181988--14182169	73	2.5	72	87	3	267	40	13	19	26	1.88
14181988--14182170	36	5.1	36	79	2	197	40	13	20	26	1.89
14182320--14182428	36	3.0	35	73	6	110	35	11	14	38	1.82
14183881--14183930	12	4.3	12	85	10	59	50	8	0	42	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14183890--14183935	2	23.0	2	90	0	74	50	4	0	45	1.21
14183890--14183935	14	3.3	14	96	0	83	50	4	0	45	1.21
14190436--14190487	14	4.0	14	76	16	58	57	7	7	26	1.54
14190439--14190486	25	1.9	25	95	0	87	58	8	6	27	1.51
14190438--14190492	25	2.2	24	87	9	83	60	7	7	25	1.49
14194962--14195008	14	3.6	14	75	16	55	59	6	6	27	1.46
14197522--14197574	14	4.1	14	76	16	60	60	7	3	28	1.41
14199858--14199911	25	2.2	25	89	0	81	59	7	5	27	1.47
14209553--14209626	37	2.0	37	82	10	89	55	9	5	29	1.54
14209576--14209628	24	2.2	25	89	3	81	56	7	7	28	1.54
14209573--14209626	14	4.2	14	73	20	55	57	7	7	27	1.53
14210912--14210945	16	2.1	17	88	5	52	35	0	0	64	0.94
14214289--14214330	20	2.0	21	90	4	68	54	4	0	40	1.21
14214296--14214342	20	2.4	20	80	20	55	53	2	0	44	1.12
14214329--14214399	20	3.7	20	70	19	69	38	1	1	59	1.15
14214367--14214412	16	2.8	17	80	6	51	47	0	0	52	1.00
14214347--14214485	64	2.3	62	77	15	153	44	1	1	52	1.18
14214410--14214468	25	2.3	25	85	11	75	47	1	1	49	1.21
14215909--14216604	200	3.5	196	82	7	766	31	14	14	40	1.85
14220578--14221749	201	5.9	198	84	4	1381	31	16	13	38	1.87
14220632--14221747	401	2.8	400	87	3	1550	31	16	13	38	1.87
14221748--14221786	15	2.6	15	87	0	51	35	7	17	38	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14224095--14224128	2	17.0	2	100	0	68	50	0	0	50	1.00
14225101--14225211	56	2.0	56	87	0	159	24	11	18	45	1.83
14224901--14225409	256	2.0	256	97	0	955	28	15	16	39	1.89
14225157--14226204	200	5.2	200	83	4	1249	31	16	14	37	1.89
14225157--14226204	402	2.6	398	84	4	1315	31	16	14	37	1.89
14226554--14226602	19	2.6	19	96	0	89	55	10	2	32	1.45
14228118--14228180	18	3.5	18	97	0	117	0	38	0	61	0.96
14228368--14228467	33	3.0	33	94	0	173	24	45	0	31	1.54
14228501--14228544	21	2.1	21	95	0	79	13	34	11	40	1.81
14231168--14231221	20	2.7	20	94	0	90	16	18	18	46	1.85
14231189--14231745	182	3.1	181	87	3	798	28	17	14	40	1.88
14231578--14231963	162	2.4	162	92	0	621	28	15	14	40	1.87
14234444--14234722	146	1.9	147	81	7	345	37	7	9	45	1.65
14235216--14235272	28	2.1	28	84	12	75	31	5	0	63	1.17
14239311--14239391	21	3.8	22	79	9	78	16	24	34	24	1.95
14239312--14239393	20	3.9	21	78	10	69	15	25	32	25	1.96
14246223--14246308	43	2.0	43	90	0	136	30	9	24	36	1.87
14254635--14254714	22	3.6	22	93	0	133	31	15	13	40	1.86
14255583--14255681	39	2.5	39	90	0	144	49	8	21	21	1.74
14255619--14256055	121	3.6	120	89	4	632	40	15	19	24	1.90
14256396--14256446	3	17.0	3	84	8	68	29	0	1	68	1.00
14256396--14256446	14	3.4	14	83	8	57	29	0	1	68	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14256400--14256446	17	2.8	17	90	3	69	29	0	2	68	1.02
14257885--14257965	41	2.0	41	80	9	94	28	2	4	64	1.27
14258111--14258388	146	1.9	147	81	5	339	39	6	7	47	1.57
14259251--14259296	24	1.9	24	90	0	74	47	21	19	10	1.80
14266860--14266929	35	2.0	35	100	0	140	25	20	14	40	1.90
14267909--14267949	20	2.0	21	95	4	75	29	14	24	31	1.95
14269800--14269836	12	3.1	12	88	0	56	29	0	48	21	1.50
14275299--14275356	27	2.1	27	93	0	98	18	22	17	41	1.90
14277656--14277699	20	2.2	20	84	8	54	40	2	9	47	1.48
14284160--14284281	64	1.9	64	86	0	172	35	22	16	26	1.95
14284178--14284322	64	2.3	63	80	7	159	33	22	17	26	1.96
14289909--14290030	64	1.9	64	84	0	163	35	21	18	25	1.95
14311139--14311228	29	3.1	29	79	9	103	42	15	18	23	1.89
14311247--14311315	29	2.4	29	85	9	88	37	14	23	24	1.92
14323323--14323352	12	2.5	12	94	0	51	53	0	3	43	1.17
14323360--14323582	37	6.0	37	72	13	163	43	3	9	43	1.54
14323364--14323582	75	2.9	74	81	8	239	44	3	9	42	1.54
14323447--14323563	36	3.1	37	72	15	114	45	4	7	42	1.52
14323566--14323600	2	17.5	2	100	0	70	51	0	0	48	1.00
14323634--14323684	22	2.3	22	82	0	66	49	1	3	45	1.32
14323653--14323723	29	2.3	33	85	9	96	46	0	4	49	1.21
14325010--14325103	46	2.1	44	82	4	107	19	9	0	71	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14330437--14330473	18	2.1	18	100	0	74	45	21	0	32	1.52
14331765--14331807	22	1.9	23	90	4	70	34	16	23	25	1.95
14332032--14332119	42	2.1	42	80	2	97	39	15	20	23	1.91
14332138--14333207	201	5.3	200	85	2	1322	33	17	18	29	1.95
14332179--14333189	399	2.5	400	83	3	1260	34	17	18	29	1.95
14333039--14333379	174	2.0	173	83	2	434	36	17	15	30	1.91
14334147--14334176	12	2.5	12	94	0	51	53	0	3	43	1.17
14334170--14334377	37	5.6	37	77	13	180	43	2	11	42	1.56
14334348--14334392	23	1.9	24	90	4	74	46	4	6	42	1.50
14334379--14334413	2	17.5	2	100	0	70	51	0	0	48	1.00
14334547--14334594	25	1.9	25	86	0	69	37	2	0	60	1.09
14335733--14335775	23	1.9	23	95	4	79	13	6	0	79	0.93
14335724--14335799	37	2.0	38	82	7	93	19	7	0	72	1.09
14335748--14335821	37	1.9	39	84	10	100	20	6	1	71	1.16
14335840--14335870	4	8.0	4	92	7	55	25	0	0	74	0.82
14341596--14341918	111	2.8	111	78	10	291	40	13	17	28	1.87
14341597--14342018	118	3.6	117	79	7	400	41	13	18	27	1.88
14341847--14341910	20	3.2	20	70	18	62	43	12	18	25	1.85
14344225--14344287	30	2.0	32	84	6	85	31	9	12	46	1.74
14344871--14344913	18	2.4	18	80	11	52	34	0	2	62	1.08
14345790--14345826	17	2.1	18	90	5	58	54	0	2	43	1.14
14346794--14346840	17	2.6	17	83	12	58	76	6	0	17	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14346817--14346875	9	6.8	9	76	7	50	72	1	3	22	1.08
14346949--14347006	23	2.5	24	83	8	68	68	1	0	29	0.99
14346948--14347006	3	20.7	3	73	16	54	69	1	0	28	0.98
14348078--14348111	12	2.8	13	91	8	54	70	0	5	23	1.09
14348054--14348114	15	4.0	15	78	14	54	70	0	8	21	1.13
14348104--14348159	25	2.3	26	87	9	82	55	1	0	42	1.10
14348116--14348175	13	4.7	13	73	10	52	48	1	0	50	1.11
14349020--14349107	45	1.9	46	86	2	124	31	19	21	27	1.97
14351775--14351869	44	2.2	44	84	7	122	25	20	28	26	1.99
14356196--14356395	36	5.3	37	85	9	244	44	7	2	46	1.45

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   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91