genome.fa.s11.2.7.7.80.10.50.1000.17.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  17  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)
5967045--5967096	23	2.3	23	89	0	77	42	23	7	26	1.81
5973054--5973097	23	1.9	23	86	9	63	45	9	0	45	1.35
5982098--5982129	16	2.0	16	93	0	55	25	15	0	59	1.36
5982357--5982479	48	2.5	50	80	12	137	31	27	17	23	1.97
5984257--5984316	30	2.0	31	86	3	86	40	0	40	20	1.52
5986727--5986802	23	3.3	23	71	10	73	34	9	30	26	1.87
5986769--5986894	23	5.4	23	75	3	110	30	18	32	19	1.95
5986778--5986894	46	2.5	46	80	5	148	29	18	32	18	1.95
5988125--5988171	2	23.5	2	100	0	94	48	0	0	51	1.00
5989571--5989602	16	1.9	17	93	6	57	37	21	0	40	1.54
5989763--5989926	43	3.9	42	77	16	169	31	29	17	21	1.96
6000029--6000206	25	7.1	25	72	6	94	19	26	19	34	1.95
6000014--6000279	50	5.3	50	70	9	150	20	25	19	34	1.96
6005206--6005233	14	2.0	14	100	0	56	28	28	7	35	1.84
6006131--6006195	30	2.1	31	91	2	105	35	15	4	44	1.67
6007235--6007278	12	3.6	12	84	6	52	43	2	4	50	1.35
6018033--6018084	24	2.2	24	85	0	68	53	9	3	32	1.51
6024627--6024675	22	2.2	22	88	0	71	22	20	20	36	1.95
6030242--6030460	51	4.3	52	78	4	223	26	16	26	30	1.97
6030332--6030428	50	1.9	50	91	0	158	24	16	27	30	1.96
6034146--6034241	43	2.2	42	80	8	104	9	11	21	57	1.62
6034171--6034259	43	2.1	43	100	0	178	6	7	24	60	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6051462--6051499	20	1.9	20	88	0	58	39	13	10	36	1.79
6054155--6054366	51	4.3	51	85	8	285	33	13	22	30	1.93
6054206--6054365	44	3.5	44	85	6	194	33	13	23	30	1.92
6059339--6059429	14	6.7	14	77	9	75	32	20	2	43	1.64
6059356--6059429	27	2.8	27	88	10	91	36	20	1	41	1.61
6059342--6059428	40	2.1	41	85	6	115	33	20	2	43	1.65
6059367--6059429	13	4.7	13	80	5	72	34	20	0	44	1.52
6059367--6059429	27	2.3	26	92	7	108	34	20	0	44	1.52
6062819--6063015	98	2.0	98	94	0	349	27	9	25	37	1.86
6066972--6067000	14	2.0	15	93	6	51	55	3	20	20	1.58
6073713--6073762	17	2.9	16	75	13	55	46	16	18	20	1.85
6073691--6073849	18	8.8	17	70	10	102	43	11	15	30	1.81
6073691--6073849	36	4.4	35	73	10	115	43	11	15	30	1.81
6073733--6073848	54	2.1	56	84	4	157	43	11	14	30	1.80
6074319--6074370	20	2.6	19	88	8	77	0	21	0	78	0.74
6074319--6074375	11	5.5	11	82	16	59	0	21	0	78	0.74
6074327--6074376	18	2.6	20	90	6	77	0	18	0	82	0.68
6074328--6074377	25	2.0	26	92	4	84	0	18	0	82	0.68
6074574--6074608	18	1.9	18	88	0	52	0	17	45	37	1.48
6074837--6074880	16	2.8	16	86	3	54	0	25	2	72	0.96
6075268--6075402	58	2.3	59	85	11	188	38	1	23	36	1.64
6075267--6075413	30	5.0	30	80	6	167	38	2	23	35	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6075931--6076118	18	9.7	19	67	19	86	59	3	3	33	1.31
6075978--6076135	10	16.3	10	67	14	64	62	3	3	31	1.27
6076013--6076059	22	2.1	23	84	4	60	63	0	0	36	0.94
6075985--6076117	28	4.6	31	76	10	97	60	3	3	33	1.27
6081908--6081964	26	2.1	27	83	3	71	35	3	3	57	1.33
6082737--6082868	22	6.0	22	84	3	149	31	28	0	39	1.57
6082735--6082862	66	1.9	66	87	6	188	32	28	0	39	1.57
6082761--6082861	11	9.2	10	68	23	53	31	29	0	38	1.58
6085241--6085275	18	2.0	18	88	5	54	48	20	0	31	1.50
6085229--6085446	28	8.6	24	74	18	167	46	22	0	30	1.52
6085261--6085438	28	6.5	28	83	7	242	46	21	0	32	1.51
6085251--6085446	51	3.8	52	87	7	272	47	21	0	30	1.51
6088143--6088221	22	3.7	21	68	13	54	50	2	1	45	1.23
6089442--6089535	18	5.6	16	72	16	66	27	3	1	68	1.12
6091257--6091297	21	2.0	21	85	0	55	63	7	0	29	1.21
6097784--6097835	21	2.5	21	100	0	104	23	25	23	28	1.99
6099475--6099716	50	4.7	50	85	3	286	26	23	28	20	1.99
6099475--6099724	100	2.4	103	87	5	353	26	23	28	21	1.99
6104105--6104207	11	10.2	11	68	24	50	58	0	2	37	1.20
6104109--6104180	16	4.0	17	73	18	65	62	0	1	36	1.04
6104066--6104212	40	3.6	39	86	6	168	62	1	2	34	1.15
6104131--6104193	29	2.1	29	86	13	85	61	1	3	33	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6106371--6106396	13	2.0	13	100	0	52	76	0	7	15	0.99
6106500--6106542	4	11.0	4	95	5	79	48	0	0	51	1.00
6111687--6111736	23	2.1	24	85	7	66	24	4	18	54	1.61
6118057--6118111	27	1.9	29	85	10	78	21	1	7	69	1.23
6118076--6118122	22	2.2	21	84	3	58	23	6	4	65	1.33
6118374--6118425	21	2.3	22	83	9	61	65	0	5	28	1.16
6118374--6118425	22	2.3	21	81	15	52	65	0	5	28	1.16
6119490--6119532	2	21.5	2	100	0	86	0	48	0	51	1.00
6128020--6128086	31	2.2	31	86	5	93	62	2	2	31	1.25
6128816--6128873	28	2.1	29	87	6	84	24	3	5	67	1.27
6135093--6135119	13	2.1	13	100	0	54	29	14	7	48	1.71
6139134--6139180	17	3.0	15	77	20	51	36	2	0	61	1.08
6140529--6140558	15	1.9	15	93	6	51	66	10	16	6	1.41
6140516--6140558	16	2.8	16	82	13	54	69	9	16	4	1.31
6140533--6140599	25	2.5	25	79	16	64	70	4	23	1	1.14
6146868--6146967	43	2.3	43	82	3	121	31	24	14	31	1.94
6149287--6149324	19	2.1	19	90	5	60	55	7	0	36	1.29
6149681--6149730	24	2.1	24	84	0	64	46	0	0	54	1.00
6149841--6149869	13	2.1	14	93	6	51	0	17	0	82	0.66
6156110--6156146	18	2.1	18	89	0	56	56	2	0	40	1.13
6160245--6160278	16	2.1	16	88	0	50	73	2	14	8	1.19
6161098--6161137	20	2.0	20	90	0	62	30	10	10	50	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6161084--6161149	34	1.9	34	87	6	98	33	7	12	46	1.69
6162153--6162712	280	2.0	280	94	0	976	31	18	9	41	1.81
6162819--6162903	24	3.7	23	69	12	66	47	15	15	22	1.82
6170014--6170061	22	2.2	21	86	13	71	54	0	2	43	1.12
6170218--6170254	16	2.3	17	81	13	51	48	0	0	51	1.00
6174565--6174653	26	3.4	26	89	3	126	15	24	24	34	1.95
6174700--6174748	24	2.0	24	88	0	71	20	28	16	34	1.94
6174766--6174823	25	2.3	25	84	0	80	22	27	15	34	1.94
6181658--6181713	21	2.7	21	94	0	94	28	8	33	28	1.87
6184787--6184830	6	7.2	6	89	5	70	38	0	61	0	0.96
6187181--6187242	18	3.2	20	72	11	65	54	0	1	43	1.09
6187184--6187240	20	2.9	19	74	25	57	52	0	1	45	1.11
6191449--6191728	140	2.0	138	84	4	366	32	20	18	28	1.97
6201633--6201672	21	1.9	21	100	0	80	40	10	25	25	1.86
6208308--6208446	23	6.2	23	81	5	176	23	20	26	28	1.99
6208308--6208434	43	2.9	43	89	3	191	22	21	27	28	1.99
6210313--6210369	28	2.0	28	86	6	80	52	1	5	40	1.34
6211442--6211589	64	2.3	64	90	2	226	31	8	18	40	1.82
6211738--6211854	41	2.8	42	80	10	134	18	19	29	32	1.96
6212525--6212559	15	2.3	15	90	9	54	25	0	22	51	1.48
6214609--6214643	15	2.3	15	90	9	54	25	0	22	51	1.48
6215984--6216041	2	29.0	2	96	0	107	48	1	0	50	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6216464--6216608	41	3.5	40	90	1	218	27	21	28	22	1.99
6219096--6219183	23	4.0	23	89	5	128	42	21	18	18	1.90
6219862--6219888	13	2.1	13	100	0	54	55	0	0	44	0.99
6219711--6219989	149	1.8	150	79	8	325	39	10	4	45	1.60
6220021--6220090	28	2.4	29	86	11	90	55	4	1	38	1.28
6236030--6236504	258	1.8	258	98	0	914	28	14	22	35	1.93
6239330--6239361	13	2.5	13	94	0	55	31	0	12	56	1.37
6239456--6239697	50	4.7	50	87	3	322	26	23	29	20	1.99
6239456--6239697	100	2.3	103	90	4	382	26	23	29	20	1.99
6244838--6244923	43	2.0	44	88	2	129	34	18	18	27	1.95

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