genome.fa.s5.2.7.7.80.10.50.1000.41.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  41  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)
11263878--11263945	28	2.4	28	92	0	118	22	20	23	33	1.97
11266178--11266218	17	2.4	18	80	12	50	17	26	2	53	1.56
11276033--11276070	18	2.1	18	100	0	76	34	28	15	21	1.94
11277161--11277212	23	2.3	23	86	3	70	30	21	30	17	1.96
11279525--11279574	24	2.1	24	88	0	73	34	10	10	46	1.71
11281767--11281826	3	20.0	3	100	0	120	66	0	33	0	0.92
11282484--11282513	15	1.9	16	93	6	53	33	0	13	53	1.40
11282624--11282694	37	1.9	37	82	0	88	36	4	23	35	1.75
11283453--11283533	36	2.2	36	97	0	153	29	11	22	37	1.89
11284649--11284693	23	2.0	23	100	0	90	22	31	17	28	1.97
11285369--11285399	4	8.0	4	92	7	55	48	0	0	51	1.00
11285952--11285985	18	1.9	17	88	5	50	38	2	11	47	1.55
11289536--11289698	43	3.8	42	80	8	170	31	26	17	23	1.97
11289536--11289698	85	1.9	84	83	7	213	31	26	17	23	1.97
11296256--11296292	2	18.5	2	94	0	65	0	0	45	54	1.00
11302071--11302148	40	2.0	40	84	0	102	20	25	19	34	1.96
11308390--11308447	28	2.1	27	87	6	82	27	17	3	51	1.61
11308521--11308696	89	2.0	83	86	7	235	36	19	10	32	1.87
11308814--11308873	19	3.2	19	76	9	68	60	0	0	40	0.97
11308822--11308878	18	3.1	18	78	11	71	54	0	0	45	0.99
11309083--11309130	19	2.5	19	81	15	55	33	10	0	56	1.34
11309162--11309223	19	3.2	19	84	6	79	30	4	4	59	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11309191--11309263	19	3.7	19	70	21	51	21	4	6	67	1.32
11309573--11309597	13	1.9	13	100	0	50	64	0	0	36	0.94
11315696--11315720	12	2.1	12	100	0	50	44	0	0	56	0.99
11317026--11317079	27	2.0	27	92	0	90	38	3	9	48	1.53
11320729--11320764	19	1.9	18	88	5	54	58	5	8	27	1.50
11320733--11320773	19	2.2	19	86	0	55	63	4	4	26	1.35
11320952--11320998	3	15.7	3	100	0	94	68	0	0	31	0.90
11322585--11322781	44	4.4	44	75	5	182	28	24	16	30	1.96
11322779--11323015	89	2.7	89	94	1	404	21	24	26	27	2.00
11323947--11324256	51	6.3	51	87	5	431	28	23	16	32	1.96
11331570--11331620	16	3.2	16	88	0	75	52	11	13	21	1.72
11332506--11332557	19	2.8	19	82	2	61	63	7	5	23	1.43
11332767--11332818	3	17.3	3	91	0	86	65	0	3	30	1.10
11334397--11334449	22	2.4	22	83	0	70	20	26	26	26	1.99
11339849--11339883	18	1.9	18	88	11	54	40	5	11	42	1.65
11340836--11340914	28	2.8	28	86	0	95	41	16	13	27	1.86
11342290--11342316	4	6.8	4	100	0	54	77	0	0	22	0.76
11342725--11342800	21	3.7	21	92	3	120	36	9	14	39	1.78
11342745--11342823	21	3.6	24	89	6	91	35	8	13	41	1.76
11343093--11343131	4	10.8	4	84	15	50	25	0	0	74	0.82
11343094--11343137	7	6.4	7	85	15	65	27	0	0	72	0.85
11343119--11343178	20	2.9	20	76	14	59	26	1	6	65	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11343323--11343421	17	5.9	17	72	15	73	38	10	1	50	1.43
11347183--11347223	19	2.2	18	95	4	73	63	12	19	4	1.46
11347898--11347924	2	13.5	2	100	0	54	48	0	0	51	1.00
11348061--11348190	41	3.2	40	75	11	120	27	25	19	27	1.99
11356940--11356965	13	2.0	13	100	0	52	61	23	0	15	1.33
11358725--11359131	44	9.3	43	64	6	124	27	28	23	20	1.99
11358632--11359197	88	6.4	88	90	0	882	27	27	24	20	1.99
11359649--11359759	44	2.5	44	81	5	127	30	22	18	27	1.98
11360211--11360259	21	2.5	20	93	6	82	38	10	14	36	1.80
11360211--11360265	21	2.8	19	82	15	67	40	9	14	36	1.78
11360217--11360282	21	3.0	24	83	12	72	37	7	16	37	1.77
11360556--11360653	3	32.0	3	74	13	67	28	3	3	65	1.23
11360552--11360588	7	5.4	7	81	18	51	27	0	0	72	0.84
11360779--11360822	17	2.6	17	85	3	63	40	11	0	47	1.39
11360903--11360951	23	2.1	24	85	11	66	28	8	0	63	1.23
11360951--11360989	19	2.0	21	85	10	55	41	0	2	56	1.13
11360963--11361026	25	2.3	30	84	12	84	37	3	4	54	1.37
11361186--11361238	4	13.5	4	80	11	56	20	0	5	73	1.03
11361548--11361584	2	18.5	2	100	0	74	51	0	0	48	1.00
11367023--11367070	24	2.0	23	88	11	71	47	2	0	50	1.12
11367055--11367165	56	2.0	56	98	0	213	36	2	7	53	1.43
11376900--11376977	26	3.0	25	81	7	77	37	10	19	33	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11407731--11407779	23	2.0	24	84	7	64	42	2	6	48	1.39
11410983--11411180	50	3.8	50	86	5	243	22	30	22	24	1.99
11411519--11411576	30	1.9	30	82	6	73	32	22	6	37	1.81
11430862--11430961	45	2.3	44	83	13	127	45	9	20	26	1.80
11430947--11431022	6	12.7	6	91	0	125	55	0	27	17	1.42
11430947--11431039	18	5.2	18	92	0	132	59	0	25	15	1.36
11431184--11431243	26	2.3	26	85	0	84	36	5	15	43	1.68
11433621--11433652	7	4.6	7	96	0	55	40	0	15	43	1.47
11434882--11435043	80	2.0	80	96	0	297	20	14	16	48	1.80
11439231--11439400	58	3.2	50	74	17	162	28	21	6	43	1.77
11439284--11439398	58	2.0	58	94	0	203	27	18	6	47	1.72
11449629--11449721	25	3.8	25	81	11	95	33	25	18	22	1.97
11460290--11460316	2	13.5	2	100	0	54	51	48	0	0	1.00
11460724--11460759	16	2.2	16	100	0	72	25	0	36	38	1.56
11460740--11460830	45	2.0	45	85	2	121	27	6	28	37	1.82
11460750--11460853	44	2.5	42	80	12	115	32	6	26	33	1.83
11460995--11461029	18	2.0	17	88	5	52	54	0	0	45	0.99
11460882--11461197	156	2.0	157	95	0	571	42	2	5	49	1.41
11461131--11461172	15	2.7	16	82	14	52	47	2	0	50	1.14
11461134--11461358	120	1.9	119	93	0	387	46	6	1	45	1.36
11461271--11461305	18	2.0	17	88	5	52	54	0	0	45	0.99
11464839--11464911	23	3.3	23	66	11	71	47	4	2	45	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11468613--11468664	26	2.1	24	85	7	68	67	1	0	30	1.02
11470440--11470470	2	15.5	2	100	0	62	51	48	0	0	1.00
11473213--11473307	47	2.0	47	100	0	190	34	12	14	37	1.84
11479368--11479430	27	2.5	23	82	12	63	36	4	22	36	1.75
11480039--11480082	18	2.5	17	85	10	54	50	29	9	11	1.69
11480052--11480090	18	2.2	18	90	0	60	51	23	7	17	1.71
11480481--11480519	20	2.0	20	85	10	53	46	2	0	51	1.14
11489574--11489737	64	2.6	64	83	3	195	25	23	28	23	2.00
11490198--11490237	20	1.9	21	85	10	55	17	0	52	30	1.45
11490261--11490387	60	2.1	60	88	1	184	25	16	16	40	1.89
11494421--11494453	2	16.5	2	100	0	66	51	0	48	0	1.00
11497991--11498032	21	2.0	21	95	0	75	9	11	14	64	1.50
11499977--11500039	16	3.9	16	93	0	90	38	3	34	23	1.71
11500018--11500112	45	2.1	44	84	5	120	30	4	27	37	1.76
11500253--11500294	15	2.7	16	82	14	52	52	2	0	45	1.13
11500262--11500303	15	2.9	15	82	10	52	52	0	0	47	1.00
11500256--11500598	120	2.9	120	98	0	661	49	6	1	42	1.38
11500372--11500423	15	3.6	15	80	12	56	53	1	0	44	1.11
11500488--11500534	16	3.0	16	78	12	53	51	2	0	46	1.13
11504520--11504609	44	2.0	44	91	0	144	34	8	21	35	1.84
11510754--11510801	21	2.3	21	88	0	69	45	20	22	10	1.81
11512005--11512178	41	4.4	38	82	7	186	17	20	28	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11516665--11516691	2	13.5	2	100	0	54	48	0	0	51	1.00
11517442--11517507	22	3.0	22	93	0	105	33	15	25	25	1.95
11518986--11519054	11	5.9	12	69	28	51	47	0	1	50	1.09
11518987--11519096	55	1.9	55	87	8	159	47	2	0	49	1.22
11521706--11521747	21	2.0	21	86	13	61	28	0	7	64	1.20
11529879--11529917	13	3.0	13	78	14	53	25	15	7	51	1.70
11531125--11531165	22	2.0	22	85	9	59	36	26	4	31	1.78
11537359--11537392	12	2.9	12	86	4	52	20	0	11	67	1.21
11545074--11545127	23	2.3	23	100	0	108	11	0	48	40	1.39
11545074--11545114	13	3.4	13	74	19	52	12	0	46	41	1.41

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