genome.fa.s5.2.7.7.80.10.50.1000.60.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   

This is table  60  of  208  ( 24913 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)
17191788--17191921	24	5.6	24	82	0	142	45	20	6	27	1.76
17191939--17192103	27	6.1	27	83	0	213	22	23	21	32	1.98
17201487--17201548	29	2.1	30	84	3	81	25	22	16	35	1.94
17201533--17201729	30	6.7	30	73	10	122	22	25	13	39	1.90
17201591--17201766	29	6.0	29	77	9	135	24	26	14	35	1.93
17201533--17201725	59	3.3	59	73	9	185	22	25	12	39	1.90
17201711--17201779	29	2.4	29	92	0	111	26	26	11	36	1.90
17221758--17221959	100	2.0	100	99	0	395	33	11	8	46	1.71
17224956--17225100	50	2.9	50	78	0	146	29	21	28	20	1.98
17232460--17232652	50	3.7	50	76	8	165	27	21	26	23	1.99
17232466--17232652	100	1.8	103	80	9	229	27	20	27	23	1.99
17232572--17232706	49	2.7	50	79	6	141	30	19	25	25	1.98
17232911--17232949	20	2.0	20	89	0	60	46	5	30	17	1.70
17243785--17243829	22	2.0	22	83	8	56	40	0	0	60	0.97
17249027--17249060	17	2.0	17	88	11	52	29	8	17	44	1.79
17249105--17249159	20	2.8	20	88	0	92	49	0	27	23	1.51
17256443--17256506	25	2.6	25	82	2	67	21	25	23	29	1.99
17256463--17256529	25	2.7	25	80	0	71	23	22	22	31	1.98
17266952--17267028	27	3.0	27	61	24	67	29	10	29	29	1.90
17270416--17270464	19	2.6	18	78	9	53	63	0	2	34	1.06
17270917--17270964	24	2.0	24	87	0	69	37	2	8	52	1.44
17271701--17271731	15	2.1	15	100	0	62	41	0	6	51	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17272520--17272566	10	4.3	11	82	15	53	59	0	0	40	0.97
17278704--17278846	71	2.0	71	100	0	286	39	23	8	27	1.84
17290478--17290504	2	13.5	2	100	0	54	51	0	0	48	1.00
17291323--17291372	25	2.0	25	100	0	100	52	20	8	20	1.71
17291942--17291988	21	2.2	21	100	0	94	29	14	23	31	1.95
17317784--17317839	27	2.1	27	86	0	76	37	21	19	21	1.94
17317821--17317889	27	2.6	27	76	0	75	39	13	26	21	1.90
17322512--17322567	21	2.6	22	75	8	62	37	33	16	12	1.86
17326865--17326890	6	4.3	6	100	0	52	15	0	0	84	0.62
17332608--17332649	21	2.0	21	90	0	66	30	21	21	26	1.98
17333811--17333850	17	2.4	17	100	0	80	42	15	12	30	1.83
17334264--17334325	27	2.3	27	85	0	79	41	14	22	20	1.89
17334278--17334335	27	2.1	27	81	6	64	39	15	22	22	1.91
17334366--17334443	27	2.9	27	72	0	66	34	17	25	21	1.96
17339295--17339395	41	2.5	40	81	9	109	34	14	20	29	1.93
17342173--17342201	14	2.0	15	93	6	51	48	20	3	27	1.66
17343219--17343274	19	3.0	19	89	7	80	39	0	5	55	1.23
17352642--17352688	21	2.1	23	81	14	55	36	19	4	40	1.71
17354584--17354614	14	2.2	14	94	0	53	29	16	9	45	1.79
17355704--17355781	18	4.3	18	80	0	93	46	8	17	26	1.78
17355704--17355781	36	2.2	36	88	0	111	46	8	17	26	1.78
17355793--17355831	18	2.2	18	90	0	60	33	7	15	43	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17362151--17362194	20	2.2	19	84	8	52	59	0	4	36	1.18
17362277--17362326	19	2.6	19	75	9	57	58	0	6	36	1.23
17362598--17362664	21	3.3	22	72	17	56	41	8	0	49	1.34
17367078--17367105	12	2.3	12	100	0	56	21	0	7	71	1.09
17369628--17369659	15	2.1	15	94	0	55	62	0	3	34	1.11
17370104--17370211	13	8.2	14	73	18	65	61	1	1	35	1.18
17370118--17370185	3	23.0	3	77	14	70	61	2	0	35	1.11
17370118--17370212	11	8.4	11	73	23	65	62	2	1	34	1.14
17377925--17378030	26	4.1	26	72	2	88	33	33	15	17	1.91
17379523--17379582	29	2.1	29	93	6	104	33	5	8	53	1.53
17383660--17383728	25	2.8	25	88	2	77	78	2	8	10	1.07
17386399--17386457	24	2.5	24	76	13	59	45	1	6	45	1.40
17387915--17387975	3	20.3	3	80	12	72	32	3	0	63	1.10
17387921--17387982	15	4.1	15	80	14	65	33	3	0	62	1.11
17387915--17387979	24	2.7	24	83	11	87	33	3	0	63	1.10
17387999--17388023	2	12.5	2	100	0	50	48	0	0	52	1.00
17388014--17388076	26	2.5	24	80	16	74	31	1	1	65	1.12
17388008--17388086	32	2.5	32	79	2	88	34	2	2	60	1.23
17392202--17392256	2	27.5	2	92	0	92	52	45	1	0	1.11
17394657--17394694	18	2.1	18	85	9	51	36	5	0	57	1.21
17394803--17394851	19	2.6	19	100	0	98	30	4	26	38	1.75
17395515--17395544	15	2.0	15	93	0	51	50	13	10	26	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17400416--17400460	23	2.0	23	82	8	56	35	13	4	46	1.63
17400572--17400997	20	21.3	20	82	1	415	41	20	26	11	1.86
17400572--17400988	80	5.2	80	84	1	487	41	20	26	11	1.86
17403505--17403543	12	3.1	12	79	13	51	46	5	0	48	1.24
17403770--17403807	17	2.3	17	86	4	51	34	2	5	57	1.35
17403750--17403789	20	2.1	19	85	4	53	27	0	7	65	1.20
17403751--17403822	37	2.0	35	86	5	99	34	1	6	56	1.35
17403755--17403821	20	3.5	19	69	19	50	35	1	7	55	1.37
17409762--17410112	126	2.8	125	89	3	555	28	15	22	33	1.94
17413192--17413522	116	2.9	116	96	0	599	41	8	9	39	1.69
17413590--17413778	29	6.4	29	92	2	306	25	0	29	45	1.54
17413581--17413778	59	3.4	59	92	2	326	25	0	28	45	1.53
17413739--17413800	23	2.7	23	74	0	70	20	0	30	48	1.50
17413794--17413906	25	4.7	25	69	12	94	41	12	0	45	1.48
17413814--17413920	35	3.1	35	66	15	103	42	13	0	43	1.49
17415053--17415077	7	3.6	7	100	0	50	60	12	0	28	1.32
17416256--17416311	22	2.5	22	97	2	103	39	0	32	28	1.57
17416272--17416328	10	5.2	11	74	21	57	43	0	35	21	1.52
17423573--17423645	19	3.8	19	88	0	119	38	10	15	35	1.82
17423853--17423897	23	2.0	23	81	0	54	22	0	15	62	1.33
17425695--17425738	23	1.9	23	85	0	61	40	9	6	43	1.63
17427404--17427430	12	2.2	12	100	0	54	40	7	0	51	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17427580--17427663	3	28.0	3	85	0	96	34	5	0	59	1.22
17430983--17431030	19	2.5	19	90	6	71	25	20	8	45	1.79
17439178--17439263	45	1.9	45	90	0	136	31	18	23	26	1.97
17444212--17444325	58	2.0	58	94	0	201	20	25	17	36	1.94
17445092--17445172	40	2.0	40	97	0	153	27	16	9	46	1.78
17446006--17446035	15	2.0	15	100	0	60	40	6	33	20	1.78
17450350--17450380	15	2.1	15	93	0	53	35	6	32	25	1.82
17451386--17451412	13	2.1	13	100	0	54	33	22	7	37	1.82
17451648--17451702	25	2.2	25	90	0	83	47	0	7	45	1.30
17455191--17455482	50	5.7	50	81	3	264	23	27	20	28	1.99
17458032--17458074	16	2.7	16	82	7	52	67	4	2	25	1.22
17468478--17468536	26	2.3	25	85	5	73	18	1	1	77	0.93
17470575--17470627	26	2.0	26	100	0	106	37	3	15	43	1.64
17477389--17477428	21	2.0	20	85	5	53	45	5	7	42	1.54
17479674--17479709	17	2.1	17	100	0	72	25	16	22	36	1.94
17484051--17484104	27	2.0	27	100	0	108	25	25	11	37	1.89
17484634--17484664	8	4.0	8	95	4	55	64	0	12	22	1.27
17485846--17485931	25	3.4	25	100	0	172	58	0	3	38	1.15
17488940--17489027	28	3.2	28	85	4	108	25	23	20	30	1.98
17497107--17497154	25	1.9	25	86	0	69	39	18	18	22	1.92
17500567--17500591	13	1.9	13	100	0	50	48	0	0	52	1.00
17501928--17501994	28	2.4	27	80	11	73	23	23	23	28	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17503526--17503563	20	1.9	20	94	0	67	36	7	5	50	1.54
17507542--17507582	14	2.9	14	88	0	64	21	29	24	24	1.99
17516728--17516815	43	2.0	43	97	0	167	54	7	18	19	1.67
17539464--17539491	14	2.0	14	100	0	56	50	14	7	28	1.69
17541755--17541814	28	2.1	28	82	11	70	36	1	1	60	1.17
17541754--17541813	27	2.2	27	80	13	70	35	1	1	61	1.16
17542186--17542258	19	3.9	19	70	13	55	49	0	5	45	1.25
17542336--17542382	23	2.0	23	87	0	67	38	8	6	46	1.60
17542284--17542624	173	2.0	168	86	2	475	44	7	4	43	1.52
17542756--17542797	18	2.2	19	84	16	52	73	4	0	21	1.01

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   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208