genome.fa.s10.2.7.7.80.10.50.1000.32.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  32  of  202  ( 24201 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)
9346182--9346242	29	2.1	29	100	0	122	21	3	29	45	1.67
9347310--9347370	30	2.0	30	87	6	88	34	3	4	57	1.36
9347678--9347718	18	2.3	18	86	0	55	26	0	7	65	1.18
9349538--9349570	6	5.5	6	100	0	66	15	15	18	51	1.77
9349556--9349657	53	1.9	53	87	0	150	23	8	21	46	1.79
9351841--9351877	9	4.1	9	89	0	56	29	8	13	48	1.71
9351930--9351960	9	3.4	9	90	0	53	38	22	12	25	1.90
9355591--9355633	20	2.2	20	100	0	86	39	4	18	37	1.72
9356016--9356041	12	2.2	12	100	0	52	34	7	15	42	1.75
9356028--9356075	19	2.4	20	93	6	80	37	10	14	37	1.81
9356033--9356098	19	3.0	22	82	12	66	37	7	16	37	1.77
9362311--9362862	44	12.5	45	78	4	534	28	14	26	30	1.95
9362328--9362853	265	2.0	264	91	0	854	28	14	26	30	1.95
9362311--9362850	132	4.1	132	90	0	846	28	14	26	30	1.95
9362383--9362977	265	2.2	263	82	3	595	28	17	26	27	1.97
9362844--9363073	88	2.6	88	90	0	370	27	29	23	18	1.98
9363073--9363282	44	4.8	44	85	3	289	26	18	26	28	1.98
9364070--9364095	12	2.2	12	100	0	52	34	7	15	42	1.75
9364082--9364129	19	2.4	19	86	6	69	37	10	12	39	1.77
9364087--9364152	23	3.0	23	78	12	68	37	7	15	39	1.75
9364419--9364487	20	3.4	21	72	18	65	26	1	4	68	1.17
9364600--9364705	33	3.4	32	70	19	89	34	11	1	51	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9364634--9364677	17	2.6	17	85	3	63	40	11	0	47	1.39
9364818--9364881	29	2.2	29	78	10	69	32	4	6	56	1.45
9364842--9364903	33	1.9	34	83	9	85	33	3	4	58	1.36
9365351--9365377	13	2.1	13	100	0	54	22	14	37	25	1.93
9366165--9366201	17	2.2	17	90	4	58	48	8	2	40	1.47
9368565--9368598	18	1.9	18	88	5	52	44	0	2	52	1.16
9368736--9368765	7	4.3	7	100	0	60	86	0	0	13	0.57
9368762--9368805	21	2.0	23	91	8	74	38	0	0	61	0.96
9372747--9372790	22	1.9	22	86	9	61	38	15	2	43	1.60
9373001--9373073	25	2.9	25	74	11	78	31	21	23	23	1.98
9375712--9375760	24	2.0	24	92	0	80	30	36	18	14	1.90
9378352--9378382	16	1.9	16	93	0	53	35	9	9	45	1.70
9378608--9378883	101	2.7	99	83	5	329	27	15	25	31	1.96
9378608--9378846	51	4.8	49	82	6	273	26	17	25	30	1.97
9384487--9384674	50	3.7	50	84	1	232	25	17	27	30	1.97
9384487--9384674	101	1.9	101	85	0	259	25	17	27	30	1.97
9390385--9390529	23	6.3	23	67	13	75	26	22	16	34	1.95
9390401--9390525	46	2.7	46	82	2	135	28	22	14	34	1.93
9392988--9393022	6	5.8	6	100	0	70	82	0	0	17	0.66
9397673--9397719	6	7.5	6	86	9	67	78	2	0	19	0.85
9403583--9403702	60	2.0	60	83	3	152	30	15	21	32	1.95
9409429--9409484	27	2.1	27	83	6	69	41	0	10	48	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9412236--9412288	24	2.2	23	80	9	61	26	24	20	28	1.99
9417655--9417692	15	2.3	17	86	13	53	10	21	0	68	1.19
9420742--9420770	7	4.1	7	100	0	58	13	0	0	86	0.58
9424588--9424735	57	2.5	60	86	9	214	21	26	22	29	1.99
9435830--9435884	19	2.8	19	80	5	56	32	7	0	60	1.24
9436087--9436199	38	3.0	37	84	3	145	32	12	19	35	1.89
9436342--9436393	22	2.4	21	78	6	59	34	15	15	34	1.89
9437756--9437827	36	2.0	36	88	0	108	20	19	16	43	1.89
9438084--9438148	33	2.0	33	87	6	96	33	26	21	18	1.96
9439800--9439852	26	2.0	26	92	0	88	49	3	1	45	1.31
9442099--9442433	123	2.7	123	90	1	528	29	16	22	31	1.96
9444441--9444722	29	9.9	29	92	3	466	29	1	26	42	1.64
9444441--9444722	57	4.9	58	93	3	466	29	1	26	42	1.64
9444441--9444722	86	3.3	86	94	2	489	29	1	26	42	1.64
9445957--9445988	15	2.1	15	94	0	55	37	3	12	46	1.57
9445972--9446157	29	6.2	29	84	9	248	28	3	25	43	1.70
9445972--9446047	28	2.8	25	90	8	80	31	2	22	43	1.67
9446027--9446128	36	3.0	36	75	19	128	26	2	23	47	1.66
9445999--9446128	65	2.0	64	93	1	224	26	3	23	46	1.67
9446187--9446264	25	3.1	25	88	1	111	43	12	1	42	1.51
9447428--9447459	7	4.6	7	100	0	64	59	12	0	28	1.34
9448594--9448711	51	2.3	52	94	2	206	44	0	27	27	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9448630--9448736	22	4.5	22	71	20	90	41	0	29	28	1.57
9448697--9448753	10	5.2	11	74	21	57	43	0	35	21	1.52
9449463--9449521	21	2.7	21	72	27	52	35	1	0	62	1.05
9449478--9449520	19	2.2	19	87	8	59	34	2	0	62	1.08
9449484--9449522	17	2.2	18	90	4	62	38	2	0	58	1.12
9449460--9449518	26	2.2	26	85	8	75	37	1	0	61	1.07
9451366--9451444	30	2.6	30	87	0	104	44	3	34	17	1.67
9451434--9451485	3	17.3	3	87	0	77	38	0	30	30	1.58
9455527--9456107	289	2.0	290	89	1	889	37	13	14	34	1.86
9460135--9460383	50	5.0	50	84	4	315	23	18	28	29	1.98
9460297--9460377	26	3.2	26	64	22	62	23	14	28	33	1.94
9463945--9463995	16	3.2	16	75	10	59	33	0	11	54	1.37
9465638--9465948	27	11.5	27	82	4	297	45	20	15	18	1.85
9466112--9466210	26	3.8	26	89	0	153	20	21	24	34	1.97
9467690--9467747	20	3.1	19	73	19	59	44	17	13	24	1.85
9476724--9476845	61	2.0	61	96	0	226	37	19	18	24	1.94
9479468--9479497	4	7.5	4	100	0	60	26	0	0	73	0.84
9498964--9499029	23	2.9	23	77	8	80	28	6	27	37	1.80
9506409--9506445	18	2.0	19	89	5	58	40	8	5	45	1.56
9512478--9512520	2	21.5	2	100	0	86	51	0	0	48	1.00
9524587--9524634	20	2.5	20	75	24	57	22	18	0	58	1.39
9524585--9524631	19	2.4	18	80	19	51	23	19	0	57	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9545395--9545445	22	2.3	22	89	0	75	33	13	13	39	1.84
9552824--9553026	27	7.5	26	76	9	149	45	20	13	21	1.84
9552885--9553036	81	1.9	81	94	2	270	45	21	13	19	1.85
9552895--9553052	27	5.9	27	87	0	208	43	20	15	20	1.87
9553439--9553672	28	8.4	27	86	4	263	23	24	21	30	1.99
9553439--9553672	56	4.2	55	84	7	303	23	24	21	30	1.99
9553439--9553672	84	2.8	82	84	6	310	23	24	21	30	1.99
9557697--9557744	23	2.1	23	96	0	87	35	22	10	31	1.88
9560497--9560618	60	2.0	60	98	0	235	23	26	13	36	1.93
9587700--9587738	16	2.4	18	76	24	50	56	0	0	43	0.99
9587706--9587743	16	2.5	15	87	12	51	55	0	0	44	0.99
9589175--9589207	14	2.3	15	89	5	50	60	9	0	30	1.27
9590157--9590427	27	10.0	27	81	3	258	17	17	20	44	1.87
9591418--9591473	24	2.3	24	75	0	58	21	39	1	37	1.64
9592996--9593025	12	2.5	12	100	0	60	6	26	40	26	1.81
9595169--9595220	26	2.0	26	92	0	86	25	17	13	44	1.85
9609680--9609764	40	2.1	40	82	0	98	24	29	16	29	1.97
9625497--9625757	41	6.4	41	75	7	228	21	27	15	35	1.94
9625497--9625766	82	3.3	81	79	8	269	21	27	15	35	1.94
9625497--9625751	123	2.1	123	82	2	316	21	27	15	35	1.93
9626727--9626765	11	3.6	11	79	6	53	61	2	10	25	1.41
9626727--9626768	21	2.0	21	100	0	84	61	4	9	23	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9627697--9627783	21	4.1	21	81	0	102	13	22	19	43	1.86
9627697--9627783	42	2.1	42	86	0	120	13	22	19	43	1.86
9647162--9647197	19	2.0	17	89	10	54	75	0	2	22	0.94
9647161--9647200	18	2.3	16	84	16	53	77	0	2	20	0.88
9647671--9647720	22	2.3	21	79	3	55	56	4	12	28	1.54
9650077--9650114	16	2.3	17	86	4	51	60	13	0	26	1.33
9653450--9653483	17	2.0	17	88	11	52	14	29	38	17	1.90
9660866--9660906	19	2.1	20	86	13	59	34	7	9	48	1.64
9664180--9664248	36	1.9	36	90	0	111	36	11	26	26	1.90
9675299--9675335	19	1.9	19	88	0	56	70	2	2	24	1.14

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