genome.fa.s9.2.7.7.80.10.50.1000.193.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  193  of  226  ( 27023 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)
61426132--61426173	14	2.9	14	86	6	57	35	35	0	28	1.58
61426128--61426174	15	3.3	15	85	8	62	40	31	0	27	1.57
61426524--61426835	41	7.6	41	87	0	392	28	28	20	23	1.99
61432908--61432947	18	2.2	18	86	0	53	70	0	5	25	1.08
61435362--61435420	17	3.4	17	69	17	57	57	1	1	38	1.19
61435802--61435876	33	2.2	33	84	9	98	24	28	4	44	1.72
61435802--61435878	22	3.5	22	78	18	79	24	27	3	44	1.71
61435802--61435878	11	6.9	11	71	21	63	24	27	3	44	1.71
61437718--61437757	18	2.2	18	86	0	53	17	30	7	45	1.76
61445840--61446081	125	1.9	127	87	1	353	31	21	17	30	1.96
61450412--61450450	17	2.3	16	83	12	51	12	20	33	33	1.91
61452428--61452458	13	2.4	13	94	0	53	16	6	16	61	1.54
61462551--61462601	13	3.9	13	74	7	50	35	7	23	33	1.84
61464667--61464712	23	2.0	23	83	8	58	45	15	23	15	1.84
61466709--61466758	14	3.6	14	76	17	52	52	0	0	48	1.00
61466709--61466758	15	3.6	14	75	22	52	52	0	0	48	1.00
61466710--61466772	26	2.4	26	82	12	83	53	0	1	44	1.10
61471081--61471195	4	28.8	4	100	0	230	25	0	24	50	1.50
61472753--61472940	50	3.6	50	85	7	225	25	20	29	24	1.99
61472905--61473039	49	2.8	49	86	0	189	30	20	23	25	1.98
61475210--61475255	24	1.9	24	86	8	67	30	6	6	56	1.50
61475904--61475946	16	2.6	16	85	3	50	4	23	0	72	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61476826--61476953	38	3.4	38	87	0	184	35	19	14	31	1.91
61480750--61480776	13	2.1	13	100	0	54	29	0	22	48	1.51
61481857--61481981	42	2.9	42	68	14	103	24	16	28	31	1.96
61484891--61485082	71	2.6	73	87	4	262	53	9	9	27	1.63
61485275--61485340	33	2.0	33	87	0	96	25	7	46	19	1.76
61487370--61487660	103	2.8	103	87	6	403	53	16	1	28	1.49
61487856--61487974	60	2.0	60	93	0	202	52	12	0	34	1.39
61496098--61496133	18	1.9	19	88	5	56	36	0	0	63	0.94
61499957--61500002	20	2.2	21	80	7	58	41	0	8	50	1.33
61504107--61504264	86	1.8	86	81	5	194	39	15	7	37	1.76
61505368--61505412	23	2.0	23	86	8	65	17	37	0	44	1.49
61505799--61505828	3	10.0	3	100	0	60	66	0	33	0	0.92
61525345--61525434	47	1.9	47	100	0	180	46	20	13	20	1.83
61531462--61531507	2	23.5	2	91	4	76	52	0	0	47	1.00
61539568--61539636	32	2.2	32	82	7	88	49	1	2	46	1.25
61540336--61540382	24	2.0	24	84	16	62	31	0	17	51	1.46
61540602--61540677	40	1.9	40	83	0	98	25	14	23	36	1.93
61542874--61542928	28	2.0	26	86	13	76	34	1	0	63	1.05
61546827--61546868	21	2.0	21	95	0	75	26	26	23	23	2.00
61549540--61549576	2	18.5	2	100	0	74	48	0	0	51	1.00
61553509--61553551	21	2.0	21	86	8	61	46	11	6	34	1.67
61554899--61554966	28	2.4	29	88	7	97	41	8	36	13	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61557287--61557385	30	3.3	29	71	10	76	24	9	18	48	1.76
61557943--61557971	2	14.5	2	100	0	58	48	0	0	51	1.00
61561947--61562005	31	1.9	31	82	0	73	33	10	13	42	1.78
61575326--61575465	62	2.3	62	81	2	165	25	28	23	22	1.99
61575371--61575500	62	2.1	62	86	2	181	20	28	28	23	1.98
61577550--61577581	16	2.0	16	93	0	55	25	15	0	59	1.36
61579875--61579909	17	2.1	17	89	10	54	60	0	5	34	1.21
61580197--61580240	18	2.4	18	85	7	54	40	6	4	47	1.50
61580716--61580795	39	2.1	39	97	0	151	37	6	17	38	1.75
61580735--61580796	19	3.2	19	65	13	54	37	4	19	38	1.73
61580889--61580971	20	4.2	20	78	7	82	59	3	1	36	1.23
61580890--61580974	39	2.2	37	79	8	98	56	4	1	37	1.28
61581686--61581723	2	19.0	2	100	0	76	50	0	0	50	1.00
61582065--61582209	34	4.2	33	77	14	118	65	0	34	0	0.93
61582078--61582174	28	3.5	28	73	17	103	65	0	34	0	0.93
61582095--61582187	20	4.9	20	78	13	108	64	0	35	0	0.94
61582079--61582177	15	7.2	13	71	25	55	66	0	33	0	0.92
61582065--61582200	55	2.5	54	82	11	154	63	0	36	0	0.94
61582094--61582211	10	11.0	10	68	16	67	67	0	32	0	0.91
61582085--61582212	34	3.7	35	80	9	140	67	0	32	0	0.91
61582541--61583603	301	3.5	301	86	7	1503	50	7	10	31	1.63
61582541--61583594	454	2.3	452	80	9	1222	51	7	10	31	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61582716--61583608	152	5.8	153	80	9	985	50	7	10	32	1.63
61588681--61588727	23	2.0	23	84	8	60	59	14	2	23	1.46
61588916--61588965	24	2.0	26	84	7	68	72	10	2	16	1.21
61589039--61589069	3	10.3	3	92	0	53	0	38	0	61	0.96
61589101--61589187	27	3.2	27	91	0	129	10	34	31	24	1.89
61590198--61590232	18	1.9	18	94	0	61	54	0	0	45	0.99
61590887--61590934	23	2.0	24	84	4	62	66	4	2	27	1.21
61595728--61595770	21	2.0	21	100	0	86	30	23	13	32	1.93
61595851--61595913	25	2.5	25	76	5	65	26	25	19	28	1.98
61597756--61597848	42	2.2	42	88	3	134	40	19	24	15	1.90
61597741--61597906	21	7.9	21	72	5	84	43	16	21	17	1.87
61599799--61599875	40	1.9	40	89	0	118	15	29	33	20	1.94
61600524--61600567	23	1.9	22	82	17	54	38	22	0	38	1.55
61600731--61600931	51	4.0	51	77	8	221	29	28	18	23	1.98
61600739--61600923	101	1.8	102	89	3	293	30	27	18	23	1.98
61602463--61602518	28	2.0	28	100	0	112	35	21	14	28	1.92
61611461--61611700	50	4.7	50	80	3	221	27	21	27	23	1.99
61614239--61614295	29	2.0	29	82	6	71	40	7	19	33	1.78
61616357--61616525	59	2.8	59	80	5	153	23	18	16	41	1.90
61616420--61616536	59	2.0	60	88	5	175	22	20	16	41	1.90
61617602--61617649	20	2.4	20	85	0	60	50	0	8	41	1.33
61621384--61621418	17	2.1	17	94	0	61	42	0	2	54	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61632546--61632574	11	2.6	11	100	0	58	37	31	24	6	1.82
61635530--61635564	18	1.9	18	94	0	61	20	11	8	60	1.57
61640882--61640908	5	5.4	5	100	0	54	40	0	22	37	1.54
61645984--61646042	26	2.3	26	93	0	100	35	11	15	37	1.84
61658773--61658838	5	12.8	5	80	6	69	40	1	19	37	1.61
61659313--61659362	24	2.1	24	81	7	57	12	26	20	42	1.86
61661495--61661667	88	2.0	88	93	2	294	43	8	5	42	1.58
61662994--61663051	24	2.4	24	77	5	64	39	6	36	17	1.76
61664436--61665083	323	2.0	323	96	0	1188	27	22	25	25	2.00
61668931--61668963	15	2.2	15	89	10	50	6	3	9	81	0.95
61670566--61670601	17	2.1	17	100	0	72	36	5	16	41	1.72
61670739--61670796	27	2.1	27	100	0	116	34	36	10	18	1.85
61674236--61674297	22	2.6	24	82	10	74	40	40	6	12	1.69
61679910--61679994	39	2.2	40	81	10	95	75	4	12	7	1.17
61679924--61680003	13	6.2	13	71	9	56	75	2	16	6	1.12
61680178--61680247	35	2.0	35	100	0	140	25	22	22	28	1.99
61682158--61682513	87	4.1	87	92	0	586	29	23	24	23	1.99
61682305--61682441	42	3.2	43	64	13	109	29	26	21	22	1.99
61682503--61682920	131	3.2	131	89	0	640	31	21	24	22	1.99
61685142--61685182	2	20.5	2	100	0	82	48	0	0	51	1.00
61685249--61685278	10	3.0	10	90	0	51	56	0	10	33	1.32
61685386--61685417	3	10.7	3	100	0	64	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
61685872--61685916	23	2.0	22	91	4	72	35	17	8	37	1.81
61685872--61685967	19	4.8	19	85	5	120	36	15	9	38	1.80
61696556--61696582	14	1.9	14	100	0	54	44	7	0	48	1.31
61718593--61718676	33	2.6	32	76	10	91	41	3	3	51	1.36
61718724--61718795	27	2.7	27	82	8	85	30	1	19	48	1.57
61723302--61723385	33	2.5	33	88	0	114	23	13	26	36	1.91
61729505--61729725	63	3.4	63	81	7	282	29	8	17	44	1.77
61734362--61734480	33	3.3	33	70	22	105	18	17	26	36	1.93
61734395--61734527	42	3.4	41	73	18	147	21	15	29	33	1.94
61734358--61734533	75	2.3	75	93	0	298	20	18	27	33	1.96

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   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226