genome.fa.s11.2.7.7.80.10.50.1000.41.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: 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  41  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)
12882061--12882157	31	3.0	31	85	7	131	39	1	13	46	1.50
12885712--12885751	21	1.9	21	84	0	53	45	40	2	12	1.56
12885761--12885810	25	1.9	26	84	8	66	52	32	2	14	1.53
12885825--12885876	25	2.0	26	85	10	72	48	23	3	25	1.68
12885935--12885975	13	3.1	14	82	6	50	46	24	7	21	1.77
12887571--12887601	16	1.9	16	93	0	53	35	22	0	41	1.54
12888194--12888231	13	2.8	13	84	15	51	2	15	0	81	0.80
12890623--12890665	22	1.9	23	85	4	61	58	20	0	20	1.40
12893221--12893640	228	1.8	228	79	2	493	38	19	14	28	1.90
12895317--12895386	19	3.5	19	73	17	70	20	0	18	61	1.35
12895275--12895389	41	2.9	40	80	8	128	22	0	21	55	1.43
12895392--12895475	29	2.9	29	80	3	98	46	5	15	32	1.70
12898554--12898598	23	2.0	23	100	0	90	40	15	22	22	1.91
12903225--12903276	16	3.4	17	68	26	53	28	1	3	65	1.21
12908014--12908254	50	4.7	50	80	4	234	22	27	21	27	1.99
12908596--12908653	30	1.9	30	82	6	73	29	24	10	36	1.88
12908921--12908983	22	3.0	22	88	6	78	28	19	22	30	1.98
12908934--12908983	22	2.3	22	96	0	91	28	18	22	32	1.97
12911185--12911238	21	2.7	20	77	5	56	42	1	11	44	1.50
12919815--12919843	15	1.9	15	100	0	58	34	0	0	65	0.93
12920082--12920185	31	3.5	30	75	7	113	42	13	20	24	1.87
12920054--12920185	59	2.2	60	85	8	180	40	12	20	26	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12921510--12921542	16	2.1	16	88	5	50	57	18	0	24	1.40
12928628--12929105	44	10.9	44	86	0	652	29	21	23	26	1.99
12947607--12947647	19	2.2	19	95	0	73	39	4	12	43	1.63
12951449--12951487	19	2.1	19	95	0	69	38	5	12	43	1.65
12951527--12951608	41	2.0	41	100	0	164	29	7	14	48	1.71
12959803--12959833	14	2.2	14	100	0	62	41	6	25	25	1.79
12961123--12961169	21	2.2	22	85	11	62	44	4	0	51	1.21
12964258--12964291	17	1.9	18	94	5	61	32	0	0	67	0.91
12964937--12964988	25	2.1	25	96	0	95	46	9	3	40	1.55
12966400--12966436	14	2.6	14	91	0	56	16	5	59	18	1.55
12967838--12967897	29	2.0	30	96	3	113	48	10	10	31	1.70
12968577--12969019	114	3.9	114	88	3	604	25	21	28	23	1.99
12968933--12969092	73	2.2	74	90	3	252	27	22	25	25	2.00
12968992--12969362	114	3.2	114	90	0	589	26	21	25	26	2.00
12968803--12969206	187	2.1	188	85	3	537	26	21	28	24	1.99
12968689--12969321	303	2.1	302	87	2	912	26	21	27	24	1.99
12969294--12969371	41	1.9	41	94	0	138	26	21	23	28	1.99
12972595--12972626	16	2.1	15	94	5	55	43	0	9	46	1.35
12973342--12973529	43	4.4	43	93	0	331	18	17	30	32	1.94
12980230--12980270	20	2.0	20	95	0	73	31	19	17	31	1.95
12981823--12981854	15	2.1	15	94	0	55	28	6	31	34	1.82
13010036--13010087	18	2.6	21	74	22	58	51	3	28	15	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13017070--13017108	20	2.0	20	85	5	53	33	2	17	46	1.62
13020505--13020662	42	3.7	43	75	11	137	23	17	27	32	1.96
13020961--13021005	17	2.6	18	76	16	51	44	0	20	35	1.51
13027616--13027668	26	2.0	26	100	0	106	45	0	15	39	1.46
13027616--13027678	26	2.4	26	92	5	92	44	0	15	39	1.47
13034917--13034976	9	6.7	9	78	0	57	6	30	1	61	1.31
13035368--13035556	48	3.9	48	91	1	272	21	23	17	37	1.94
13037901--13037957	29	2.0	29	85	0	78	28	7	15	49	1.71
13040979--13041027	18	2.6	19	87	6	64	20	22	2	55	1.54
13042665--13042711	2	24.0	2	95	4	87	48	0	0	51	1.00
13044565--13044601	18	2.0	19	85	15	51	40	5	0	54	1.24
13044610--13044654	2	23.0	2	86	4	56	48	4	2	44	1.35
13045589--13045970	198	1.9	199	92	0	640	26	25	22	24	2.00
13048826--13048863	12	3.2	12	85	14	60	81	0	2	15	0.80
13052856--13052908	24	2.1	25	82	6	63	50	7	5	35	1.54
13053449--13053501	27	1.9	28	84	3	72	26	3	39	30	1.74
13068411--13068529	36	3.3	36	81	6	125	15	10	31	42	1.81
13069688--13069717	4	7.5	4	100	0	60	23	0	26	50	1.50
13072059--13072511	13	34.5	13	68	14	207	34	20	2	43	1.64
13072059--13072511	40	11.5	40	85	5	541	34	20	2	43	1.64
13072059--13072511	80	5.7	81	87	4	597	34	20	2	43	1.64
13072955--13073014	27	2.2	28	82	8	70	53	16	0	30	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13081606--13081646	20	2.1	20	90	4	66	78	0	19	2	0.87
13083700--13083733	17	2.0	17	100	0	68	52	5	11	29	1.61
13091255--13091318	28	2.3	28	76	12	69	26	23	25	25	2.00
13092840--13092913	32	2.3	31	82	13	87	28	33	10	27	1.90
13095635--13095752	61	1.9	61	89	0	182	36	2	9	51	1.48
13095640--13095744	31	3.4	31	68	7	97	34	2	8	54	1.46
13103557--13103611	23	2.4	23	93	3	94	41	27	7	23	1.80
13104812--13104849	16	2.4	16	90	0	58	31	42	2	23	1.68
13105428--13105457	12	2.5	12	94	0	51	13	20	10	56	1.65
13114405--13114488	36	2.3	37	83	2	98	34	7	17	40	1.77
13119641--13119686	24	1.9	24	100	0	92	54	10	17	17	1.70
13124437--13124714	126	2.2	123	92	1	457	26	16	22	34	1.95
13127900--13128028	22	5.5	22	74	16	116	43	0	27	28	1.55
13127864--13128030	73	2.3	73	94	1	291	44	0	27	26	1.59
13128013--13128045	10	3.0	11	86	13	50	45	0	36	18	1.49
13129175--13129239	32	2.0	32	94	5	114	23	20	3	53	1.59
13131262--13131331	34	2.0	35	83	8	90	17	7	18	57	1.62
13133936--13134419	174	2.8	175	90	2	733	41	17	13	27	1.86
13140961--13141006	6	7.7	6	95	0	83	32	2	0	65	1.05
13141358--13141397	17	2.3	18	91	4	64	45	2	5	47	1.38
13145478--13145521	19	2.5	18	85	10	56	6	22	6	63	1.43
13149112--13149205	26	3.5	27	76	9	77	42	1	1	55	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13149141--13149199	26	2.3	25	85	8	82	42	0	0	57	0.98
13149180--13149226	23	2.0	24	84	15	64	40	2	4	53	1.32
13149317--13149405	44	2.0	46	86	8	130	38	30	4	26	1.76
13149691--13149740	21	2.6	18	81	15	55	46	18	6	30	1.73
13154935--13155011	24	3.3	22	78	10	73	63	2	5	28	1.29
13154935--13155005	22	3.0	23	81	8	72	63	1	5	29	1.26
13157331--13157397	3	23.3	3	78	14	70	34	2	1	61	1.20
13157331--13157408	27	3.2	25	80	14	83	35	3	1	58	1.24
13157331--13157408	24	3.3	24	79	15	83	35	3	1	58	1.24
13169216--13169283	3	23.3	3	78	11	70	33	4	1	60	1.26
13169216--13169294	25	3.0	25	85	9	88	35	5	1	58	1.28
13169215--13169280	22	3.0	21	84	8	78	33	4	1	60	1.26
13172319--13172374	15	3.9	14	76	23	62	28	12	1	57	1.46
13173726--13173818	21	4.4	21	88	0	114	3	40	17	38	1.65
13179339--13179588	9	28.8	9	71	18	165	32	1	18	48	1.56
13179328--13179539	25	8.6	25	77	8	159	32	0	18	49	1.52
13179299--13179555	34	7.8	32	73	16	154	32	0	18	48	1.54
13179495--13179561	25	2.7	25	86	9	84	29	1	22	46	1.61
13179475--13179569	34	2.8	33	87	4	136	29	1	20	49	1.56
13179584--13179612	12	2.4	12	100	0	58	41	0	10	48	1.37
13179845--13180006	18	8.5	18	66	18	78	40	2	12	44	1.55
13179926--13179969	13	3.4	13	93	0	70	36	4	13	45	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13179952--13180009	17	3.4	17	83	4	80	41	1	13	43	1.55
13179955--13180029	35	2.3	34	82	13	86	38	1	17	42	1.58
13181591--13181620	15	2.0	15	93	0	51	0	16	6	76	0.99
13181704--13181764	32	1.9	31	86	3	86	32	16	18	32	1.93
13182332--13182377	23	2.0	23	83	4	58	43	4	0	52	1.21
13183506--13183708	83	2.4	84	80	6	200	37	28	18	15	1.91
13183494--13183789	42	7.1	41	74	8	181	35	28	18	17	1.94
13183506--13183789	41	6.9	41	75	10	179	36	28	17	16	1.92
13185140--13185199	29	2.1	29	87	6	86	35	3	1	60	1.23
13195100--13195134	2	18.0	2	94	5	63	48	0	0	51	1.00

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