genome.fa.s11.2.7.7.80.10.50.1000.143.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   

This is table  143  of  210  ( 25152 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)
43576934--43577031	17	5.8	17	68	20	55	53	3	3	40	1.32
43581632--43581679	18	2.7	17	81	9	60	41	4	16	37	1.68
43582301--43582362	21	3.0	21	74	25	62	58	6	3	32	1.40
43583164--43583246	17	4.4	18	72	23	64	48	1	2	48	1.22
43583197--43583246	6	8.7	6	77	14	52	50	2	0	48	1.12
43583197--43583246	11	4.3	12	78	12	52	50	2	0	48	1.12
43584337--43584409	34	2.1	34	92	0	119	42	27	19	10	1.84
43588490--43588526	2	18.5	2	100	0	74	51	0	0	48	1.00
43591040--43591078	20	2.0	20	89	0	60	74	5	2	17	1.12
43592497--43592569	19	3.8	18	74	13	56	52	1	4	42	1.29
43592540--43592660	40	3.0	41	72	14	108	60	0	3	35	1.19
43592577--43592631	19	2.7	19	81	13	58	63	1	1	32	1.15
43592978--43593058	29	2.7	29	80	5	90	32	8	14	44	1.76
43592978--43593062	31	2.8	30	76	7	91	32	8	15	43	1.76
43594313--43595062	114	6.6	114	81	5	734	26	23	18	31	1.98
43594313--43595062	227	3.3	223	82	5	828	26	23	18	31	1.98
43595387--43595439	22	2.4	21	81	12	54	56	0	7	35	1.28
43595387--43595426	21	1.9	20	89	5	53	55	0	10	35	1.34
43596618--43596664	8	6.2	8	80	14	55	36	0	2	61	1.08
43596620--43596661	21	2.0	21	90	0	66	28	0	2	69	1.01
43603623--43603657	2	17.5	2	100	0	70	48	0	0	51	1.00
43608254--43608293	20	2.1	19	85	4	53	55	5	2	37	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43608309--43608338	2	15.0	2	100	0	60	50	0	0	50	1.00
43612580--43612613	8	4.2	8	88	0	50	23	0	26	50	1.50
43612766--43612923	43	3.5	43	67	16	122	41	0	20	37	1.57
43612606--43613115	96	5.4	95	90	4	718	40	1	19	38	1.61
43613152--43613561	125	3.3	124	88	1	572	35	16	19	28	1.93
43616833--43616893	21	2.9	20	82	4	59	6	19	42	31	1.77
43619430--43619496	34	1.9	35	87	3	100	31	10	13	44	1.77
43619445--43619484	20	2.0	20	85	0	53	27	12	12	47	1.77
43628305--43628350	2	23.0	2	95	0	83	50	2	0	47	1.13
43628540--43628579	18	2.2	18	86	8	55	62	7	2	27	1.35
43634306--43634422	58	2.0	58	100	0	234	52	6	25	15	1.67
43651407--43651474	34	2.0	33	91	2	109	33	25	5	35	1.80
43662039--43662168	42	3.1	42	81	0	134	40	14	26	19	1.90
43664621--43664670	20	2.5	20	83	6	66	42	14	14	30	1.84
43670465--43670535	19	3.6	19	84	5	88	39	0	7	53	1.28
43677617--43677649	3	11.0	3	100	0	66	33	0	0	66	0.92
43682185--43682224	22	1.9	21	90	10	64	67	2	0	30	1.04
43683040--43683166	63	2.0	63	100	0	254	29	17	17	35	1.93
43700715--43700744	15	2.0	15	93	0	51	63	13	13	10	1.52
43712255--43712290	16	2.2	17	90	5	56	58	11	13	16	1.63
43719792--43719885	49	1.9	48	95	2	170	34	18	13	34	1.90
43727424--43727463	20	2.0	21	85	5	55	70	5	10	15	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43727424--43727463	21	2.0	20	85	5	53	70	5	10	15	1.32
43731244--43731304	32	1.9	32	100	0	122	24	6	21	47	1.74
43731753--43731819	20	3.3	20	91	0	107	46	4	25	23	1.71
43737458--43737531	20	3.7	20	85	0	103	52	2	24	20	1.59
43737458--43737534	40	1.9	40	89	0	118	54	2	23	19	1.56
43738842--43738891	21	2.2	23	89	10	77	24	14	8	54	1.66
43738842--43738893	12	4.6	12	79	13	65	25	13	7	53	1.65
43740403--43740483	27	3.0	27	100	0	162	14	18	7	59	1.58
43741460--43741506	13	3.5	14	77	8	53	51	14	14	19	1.77
43742004--43742037	17	1.9	18	94	5	61	11	35	32	20	1.89
43753887--43754055	84	2.0	83	87	3	241	31	20	16	31	1.95
43753887--43754055	42	4.0	42	79	2	189	31	20	16	31	1.95
43753902--43754075	84	2.1	84	85	3	235	31	20	17	30	1.96
43764917--43764960	3	14.7	3	100	0	88	31	0	0	68	0.90
43767151--43767227	36	2.1	36	83	9	95	29	9	24	36	1.86
43767161--43767231	36	2.0	36	88	5	108	28	11	22	38	1.88
43770697--43770753	28	2.0	28	100	0	114	28	14	10	47	1.76
43788984--43789071	43	2.0	45	84	4	117	51	3	22	22	1.63
43789914--43789964	26	2.0	26	84	7	68	19	29	5	45	1.74
43797890--43797915	13	2.0	13	100	0	52	23	15	30	30	1.95
43799093--43799133	22	1.9	21	85	5	55	31	14	14	39	1.87
43800442--43800526	43	2.0	43	90	4	136	50	2	23	23	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43811062--43811163	42	2.4	42	76	0	105	13	37	26	22	1.92
43814015--43814066	7	7.6	7	95	2	88	76	0	0	23	0.78
43815377--43815405	2	14.5	2	100	0	58	51	0	0	48	1.00
43815843--43815921	33	2.3	34	80	4	88	37	25	16	20	1.93
43815881--43815946	28	2.4	27	82	7	87	36	24	18	21	1.95
43816278--43816388	27	4.0	27	76	11	84	25	18	22	34	1.96
43816309--43816427	27	4.3	27	79	6	123	21	16	25	36	1.94
43816309--43816427	54	2.2	56	84	3	161	21	16	25	36	1.94
43819618--43819729	35	3.2	34	82	7	143	43	19	6	30	1.76
43819607--43819717	36	3.1	36	84	5	154	45	18	5	29	1.72
43822949--43823083	13	11.1	12	67	25	52	53	17	2	26	1.58
43822976--43823016	18	2.4	18	88	8	59	60	9	0	29	1.28
43822947--43823125	63	2.9	61	80	3	173	53	17	3	25	1.60
43823001--43823098	13	7.8	13	67	18	55	52	20	4	23	1.64
43822970--43823127	63	2.5	62	78	8	192	54	18	3	23	1.60
43823894--43823923	15	2.0	15	100	0	60	20	0	6	73	1.05
43824095--43824164	29	2.5	28	90	4	106	47	17	15	20	1.83
43828764--43828828	29	2.2	29	83	0	85	38	13	23	24	1.91
43833739--43833838	35	2.8	35	78	4	94	28	25	25	22	1.99
43840313--43840355	22	2.0	22	95	0	77	9	20	27	41	1.83
43840769--43840838	21	3.3	21	83	0	86	5	41	17	35	1.73
43840836--43840966	66	2.0	66	87	3	192	14	24	19	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43846328--43846540	25	9.0	25	72	17	168	34	0	17	46	1.55
43846315--43846616	9	34.9	9	68	16	149	33	2	18	45	1.62
43846315--43846616	16	17.4	18	66	17	149	33	2	18	45	1.62
43846422--43846537	46	2.6	45	86	4	128	37	0	14	48	1.44
43846468--43846537	21	3.1	21	73	15	77	34	0	12	52	1.40
43846525--43846614	25	3.8	24	68	20	73	30	4	18	46	1.69
43846569--43846629	20	3.1	20	81	9	72	36	0	14	49	1.44
43846600--43846642	20	2.2	20	86	0	59	51	0	9	39	1.34
43846614--43846659	20	2.4	19	85	3	56	50	0	2	47	1.13
43846860--43846889	13	2.3	13	100	0	60	16	6	30	46	1.73
43848664--43848874	101	2.1	101	88	4	307	26	12	13	48	1.77
43848824--43849078	135	1.9	130	86	7	363	26	15	15	41	1.87
43849113--43849151	10	3.6	10	81	18	51	46	0	2	51	1.14
43849373--43849450	15	5.3	15	76	11	63	37	38	1	23	1.63
43849391--43849448	22	2.6	22	80	0	80	36	41	1	20	1.63
43849463--43849489	14	1.9	14	100	0	54	37	37	0	25	1.57
43849459--43849507	15	3.4	15	83	8	57	38	36	0	24	1.56
43849680--43849747	15	4.7	15	74	17	63	32	44	1	22	1.62
43849766--43849792	14	1.9	14	100	0	54	37	37	0	25	1.57
43849277--43849878	303	2.0	303	91	5	984	41	28	2	27	1.70
43849925--43850138	114	1.9	114	88	5	326	29	24	21	23	1.99
43850372--43850428	15	3.9	15	71	13	55	35	36	0	28	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43850427--43850453	14	1.9	14	100	0	54	37	37	0	25	1.57
43850538--43851260	115	6.3	115	84	3	908	27	26	20	25	1.99
43850538--43851260	228	3.2	224	82	5	889	27	26	20	25	1.99
43850541--43851260	343	2.1	341	83	3	926	27	26	20	25	1.99
43862470--43862703	35	6.6	34	69	11	116	33	23	21	20	1.97
43862594--43862668	34	2.2	34	82	2	87	34	22	20	22	1.96
43862465--43862783	143	2.2	143	82	1	388	33	23	21	21	1.97
43870798--43870875	33	2.4	33	86	0	120	37	24	12	25	1.91
43872256--43872307	18	2.9	18	81	15	63	19	0	0	80	0.71
43872257--43872307	8	6.1	8	77	8	57	17	0	0	82	0.67

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