genome.fa.s9.2.7.7.80.10.50.1000.124.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  124  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)
41852601--41852828	68	3.3	66	72	13	201	26	20	25	28	1.99
41852661--41852873	70	3.1	70	71	11	195	29	20	22	28	1.98
41855758--41855926	46	3.6	46	84	10	216	33	14	23	28	1.93
41856577--41856770	51	3.8	52	74	8	184	26	17	25	30	1.97
41856588--41856772	101	1.8	102	87	3	275	25	18	24	31	1.97
41856776--41856879	46	2.3	43	80	12	120	24	18	24	33	1.97
41861728--41861766	18	2.2	18	90	0	60	38	17	2	41	1.64
41862212--41862338	35	3.6	35	84	1	137	40	33	9	16	1.81
41868876--41868932	15	3.4	18	86	9	70	22	0	15	61	1.34
41868904--41868942	5	7.8	5	88	0	60	17	0	15	66	1.25
41869009--41869097	31	2.9	31	84	3	117	30	2	16	50	1.58
41869192--41869221	15	2.0	15	100	0	60	26	0	33	40	1.57
41870794--41870856	26	2.4	26	89	7	101	36	9	19	34	1.84
41874108--41874139	13	2.5	13	94	0	55	0	31	3	65	1.08
41876723--41876780	27	2.2	26	84	3	71	50	10	8	31	1.67
41876786--41876895	38	2.9	38	83	1	130	43	11	8	36	1.71
41876902--41876926	9	2.8	9	100	0	50	60	12	8	20	1.57
41879650--41879677	13	2.2	13	100	0	56	50	21	0	28	1.49
41879996--41880044	25	2.0	24	88	7	73	51	4	36	8	1.51
41880777--41880862	27	3.1	27	74	11	84	60	1	4	33	1.25
41880786--41880900	56	2.0	57	85	6	153	60	2	6	30	1.34
41880786--41880921	56	2.4	55	79	10	143	60	2	5	31	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41881070--41881095	10	2.6	10	100	0	52	42	0	0	57	0.98
41881087--41881205	46	2.5	44	80	15	116	34	2	2	60	1.24
41883808--41883837	15	2.0	15	100	0	60	20	13	20	46	1.83
41892853--41892913	9	6.7	9	72	10	52	62	1	1	34	1.15
41898336--41898417	38	2.1	39	84	8	105	39	20	8	31	1.83
41898593--41898706	41	2.8	41	94	0	201	21	29	22	26	1.99
41898593--41898736	41	3.5	40	84	11	177	21	28	22	27	1.99
41898593--41898747	82	1.9	81	83	10	199	21	28	23	26	1.99
41898943--41898972	15	2.0	15	93	0	51	23	20	23	33	1.97
41898991--41899087	43	2.3	43	96	0	176	22	32	20	23	1.98
41899593--41899654	25	2.4	26	89	2	90	40	1	14	43	1.55
41899593--41899664	17	4.2	17	72	13	58	40	1	13	44	1.53
41899757--41899816	17	3.5	17	80	8	68	36	0	16	46	1.47
41899760--41899843	34	2.3	36	88	8	118	34	0	16	48	1.47
41899760--41899816	9	6.8	8	80	7	60	33	0	17	49	1.47
41899768--41899940	46	3.6	46	72	13	159	34	1	17	46	1.56
41899760--41899845	17	4.8	17	73	16	66	34	0	16	48	1.46
41899784--41899919	53	2.6	54	70	14	120	33	1	18	46	1.58
41900553--41900599	21	2.2	21	84	0	58	46	0	12	40	1.42
41902226--41902594	103	3.6	103	94	1	614	30	29	20	20	1.97
41913057--41914007	397	2.4	397	93	0	1600	26	24	17	31	1.97
41913057--41914007	199	4.8	199	92	0	1591	26	24	17	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41913868--41914121	125	2.0	125	94	0	445	23	25	16	35	1.95
41914180--41914278	47	2.1	48	86	1	137	43	1	10	45	1.44
41914424--41914764	90	3.7	89	84	6	425	42	25	2	29	1.68
41914855--41914887	14	2.3	15	94	5	59	36	33	0	30	1.58
41916351--41916745	113	3.5	114	87	1	551	25	25	23	25	2.00
41916916--41916940	2	12.5	2	100	0	50	48	0	0	52	1.00
41922811--41923005	51	3.8	51	81	5	227	24	19	27	28	1.99
41922816--41923005	101	1.9	100	90	3	274	25	19	27	27	1.99
41923315--41923624	154	2.0	154	98	0	602	37	8	20	33	1.83
41925608--41925639	13	2.3	15	89	10	50	68	0	3	28	1.04
41925623--41925669	22	2.1	22	84	0	58	70	6	2	21	1.20
41929097--41929149	27	2.0	27	84	0	70	33	16	7	41	1.77
41929908--41929937	13	2.3	13	94	0	51	20	6	13	60	1.55
41929923--41930085	44	3.5	44	87	11	245	20	3	32	44	1.67
41929987--41930085	51	1.9	51	100	0	198	19	3	34	43	1.66
41939922--41940019	51	1.9	51	85	0	133	29	17	10	42	1.82
41954791--41954882	28	3.2	28	78	7	105	57	1	0	41	1.06
41954829--41954875	19	2.5	18	83	10	58	61	2	0	36	1.08
41954848--41954872	8	3.1	8	100	0	50	64	0	0	36	0.94
41959839--41959961	57	2.1	57	83	4	158	27	21	4	45	1.72
41965703--41965751	21	2.3	21	96	0	89	24	22	30	22	1.99
41966609--41966652	18	2.4	18	85	11	54	34	20	2	43	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41973605--41973640	18	1.9	19	88	5	56	19	25	0	55	1.43
41976470--41976547	38	2.1	38	95	0	138	26	14	11	47	1.78
41978356--41978472	44	2.7	44	83	11	143	29	29	17	22	1.97
41981973--41982011	20	2.0	20	90	10	62	15	23	5	56	1.59
41982212--41982412	49	3.9	52	72	10	146	23	26	18	30	1.98
41988463--41988581	25	4.7	25	76	3	87	31	22	26	19	1.98
41988541--41988597	25	2.3	25	85	8	73	33	21	24	21	1.97
41988746--41988792	25	1.9	24	91	4	76	38	17	25	19	1.92
41988744--41988802	25	2.4	25	80	2	75	32	20	28	18	1.96
41996175--41996293	25	4.8	25	86	1	123	33	21	24	20	1.97
41996180--41996320	50	2.9	48	78	5	140	33	19	24	21	1.97
41996415--41996523	24	4.5	24	73	8	78	36	18	26	18	1.94
41997017--41997060	20	2.3	19	84	11	54	29	6	9	54	1.58
41998832--41998879	16	2.9	16	82	14	62	70	4	4	20	1.21
41998833--41998879	4	11.2	4	78	17	51	70	4	4	21	1.22
41999892--41999920	9	3.2	9	100	0	58	55	0	20	24	1.44
42004251--42004282	16	2.0	16	100	0	64	12	25	37	25	1.91
42004267--42004363	23	4.2	23	89	0	149	22	20	25	30	1.98
42004493--42004565	38	1.9	37	86	8	103	45	1	21	31	1.61
42008286--42008343	27	2.1	27	84	6	73	46	20	15	17	1.84
42010002--42010057	18	2.9	18	73	17	58	28	17	23	30	1.97
42012173--42012226	27	2.0	27	85	7	74	40	20	11	27	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42013646--42013761	58	2.0	58	98	0	223	35	10	21	32	1.87
42014388--42014428	21	2.0	21	90	0	64	48	0	4	46	1.23
42025197--42025231	18	1.9	18	88	11	54	25	17	14	42	1.86
42026690--42026891	28	7.2	28	87	5	284	31	24	22	22	1.99
42026691--42026891	84	2.4	84	87	3	314	30	24	22	22	1.99
42027310--42027573	27	9.8	27	87	2	334	17	17	22	41	1.90
42027307--42027573	81	3.3	80	87	3	383	17	17	22	41	1.89
42032483--42032536	18	2.9	18	81	13	65	42	14	11	31	1.81
42035293--42035581	56	5.1	57	82	5	313	43	15	11	30	1.81
42035295--42035581	113	2.6	113	85	5	368	43	15	11	30	1.81
42037605--42037634	15	2.0	15	100	0	60	66	0	13	20	1.24
42037951--42037975	2	12.5	2	100	0	50	0	48	0	52	1.00
42042353--42042431	39	2.0	39	97	0	149	21	20	34	24	1.97
42042652--42042752	43	2.4	42	83	3	121	59	6	4	28	1.44
42042668--42042753	43	2.0	43	88	0	127	60	5	3	30	1.37
42051832--42051942	24	4.6	24	83	0	141	18	26	4	51	1.65
42056792--42056862	27	2.6	27	77	0	79	16	33	16	32	1.92
42064774--42064850	26	2.9	26	82	1	82	35	18	7	38	1.79
42067707--42067812	41	2.6	41	80	0	122	22	21	23	32	1.98
42076316--42076379	32	2.0	32	81	6	76	53	9	4	32	1.54
42077576--42077622	20	2.3	21	85	3	60	29	23	10	36	1.89
42085507--42085669	61	2.7	61	84	0	200	22	12	25	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42091541--42091570	14	2.1	14	93	0	51	63	20	0	16	1.31
42093737--42093966	40	5.8	40	85	0	289	36	18	29	16	1.93
42093737--42093966	120	1.9	120	86	0	325	36	18	29	16	1.93
42096254--42096310	24	2.4	24	93	0	96	5	28	45	21	1.73
42096082--42096277	96	2.0	96	84	1	250	22	27	26	23	2.00
42096258--42096310	12	4.4	12	75	0	52	5	30	41	22	1.77
42096164--42096386	120	1.9	119	87	3	331	19	29	29	21	1.98
42097263--42097415	37	4.2	37	89	1	227	37	29	14	18	1.90
42097263--42097415	73	2.1	74	91	1	245	37	29	14	18	1.90
42099293--42099360	30	2.2	31	84	2	84	48	5	17	27	1.70

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