genome.fa.s8.2.7.7.80.10.50.1000.105.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  105  of  190  ( 22705 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)
31855948--31856519	258	2.2	258	87	3	828	47	12	12	27	1.77
31862242--31862373	70	1.9	69	84	4	176	52	13	9	24	1.71
31862440--31862654	106	2.0	107	83	4	274	47	10	13	27	1.77
31862312--31863255	258	3.7	255	86	6	1299	44	13	14	27	1.82
31862699--31862910	104	2.0	105	81	3	248	46	13	13	27	1.80
31862945--31863161	106	2.0	108	88	4	325	49	11	11	27	1.74
31862932--31863644	397	1.8	390	90	4	1164	45	13	14	27	1.81
31863343--31863556	106	2.0	106	90	3	333	48	12	11	28	1.74
31863285--31863884	248	2.4	244	85	5	752	44	13	14	27	1.82
31863600--31863805	107	1.9	109	90	3	328	50	10	10	29	1.70
31869652--31869899	43	5.8	43	82	3	263	26	17	27	28	1.98
31869675--31869899	85	2.6	86	82	2	267	26	17	28	28	1.98
31873573--31873614	21	2.0	21	100	0	84	23	28	4	42	1.74
31876222--31876263	22	1.9	22	90	9	68	21	4	30	42	1.73
31876370--31876395	10	2.6	10	100	0	52	53	0	0	46	1.00
31876475--31876519	22	2.0	22	100	0	90	55	13	4	26	1.57
31883785--31884094	50	5.8	50	78	11	251	27	21	28	22	1.99
31883893--31883918	12	2.2	12	100	0	52	26	23	26	23	2.00
31883843--31883966	62	2.0	62	98	0	239	25	22	31	20	1.98
31883790--31884011	112	1.9	116	86	5	317	26	21	29	22	1.99
31888124--31888153	15	2.0	15	93	0	51	30	0	23	46	1.52
31889213--31889519	150	2.0	152	83	5	381	20	25	30	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31894656--31894900	50	4.9	50	80	3	258	33	22	17	26	1.96
31894657--31894900	25	9.7	25	75	4	186	33	22	17	26	1.96
31909396--31909449	27	2.0	27	82	7	65	44	5	3	46	1.44
31909609--31909645	16	2.2	18	85	9	51	37	5	0	56	1.22
31911353--31911621	27	10.0	27	78	13	268	40	19	16	23	1.91
31911783--31911837	26	2.1	26	82	0	65	18	18	29	34	1.94
31912619--31912656	18	2.0	21	85	15	55	31	5	21	42	1.75
31914157--31914509	27	13.1	26	85	4	427	41	21	16	19	1.90
31914686--31914756	26	2.7	26	82	4	99	18	23	28	29	1.98
31914866--31914976	28	4.0	28	92	1	179	23	21	23	31	1.98
31914953--31915053	33	3.1	33	95	0	175	27	22	22	26	1.99
31922348--31922381	16	2.2	15	89	5	50	44	0	0	55	0.99
31923138--31923191	25	2.1	26	86	3	74	29	5	1	62	1.28
31932945--31933260	58	5.4	58	80	4	334	37	14	26	20	1.91
31933060--31933221	88	1.9	87	83	8	213	38	14	27	19	1.90
31932943--31933213	146	1.9	144	81	6	332	38	14	26	20	1.91
31932904--31933261	29	12.3	29	76	10	277	37	14	26	20	1.92
31939244--31939310	33	2.0	33	94	0	116	43	11	11	32	1.78
31940286--31940512	29	7.8	29	80	4	233	37	13	28	20	1.91
31940286--31940512	89	2.6	87	84	4	262	37	13	28	20	1.91
31940319--31940512	57	3.3	57	82	5	219	38	13	29	19	1.89
31950871--31951036	27	6.3	27	84	6	223	42	21	18	18	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31951204--31951271	26	2.6	26	83	0	91	22	19	22	36	1.95
31951376--31951448	33	2.2	33	85	0	92	24	26	24	24	2.00
31955181--31955208	3	9.3	3	100	0	56	67	0	32	0	0.91
31957792--31957847	27	2.0	28	93	3	96	39	17	17	25	1.92
31957792--31957858	27	2.4	27	85	2	89	35	17	17	28	1.93
31960290--31960365	23	2.7	32	66	33	89	38	19	17	25	1.93
31960306--31960355	23	2.2	23	100	0	100	44	16	18	22	1.87
31960479--31960517	20	2.0	20	90	10	62	15	23	5	56	1.59
31960773--31960958	50	3.6	51	78	8	155	26	28	19	25	1.99
31970060--31970304	48	5.1	48	82	1	276	29	22	24	24	1.99
31970060--31970302	96	2.5	96	85	1	326	29	22	24	24	1.99
31970610--31970658	20	2.5	20	83	6	55	63	2	18	16	1.41
31974048--31974188	39	3.6	39	90	0	212	31	3	19	45	1.68
31976267--31976383	60	2.0	60	85	0	162	41	21	25	11	1.87
31976278--31976413	60	2.3	60	80	2	148	41	20	26	11	1.85
31979569--31979599	16	1.9	16	93	0	53	51	0	0	48	1.00
31979696--31979748	26	2.0	26	88	0	79	43	11	5	39	1.64
31981030--31981056	7	3.9	7	100	0	54	44	0	0	55	0.99
31981237--31981297	31	1.9	33	86	6	90	50	3	0	45	1.17
31981257--31981320	22	2.9	22	82	13	69	51	3	0	45	1.17
31981258--31981318	23	2.7	24	82	12	67	52	3	0	44	1.17
31986430--31986538	21	5.3	21	63	8	62	18	29	17	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31986352--31986541	41	4.6	41	86	2	256	19	26	17	36	1.94
31992012--31992196	51	3.7	50	78	4	201	31	26	17	24	1.97
31992007--31992192	101	1.8	99	87	5	266	31	26	17	24	1.97
31996575--31996608	14	2.3	15	85	5	52	14	17	0	67	1.23
32004379--32004514	67	2.0	67	92	2	229	33	16	25	24	1.96
32010603--32010658	25	2.2	25	87	6	78	30	14	10	44	1.79
32015712--32015819	40	2.7	40	85	2	128	37	15	25	21	1.93
32020427--32020496	25	2.8	25	84	0	95	37	14	12	35	1.84
32021574--32021750	39	4.5	39	82	1	201	44	21	3	30	1.70
32023885--32023924	17	2.4	17	87	4	55	50	7	17	25	1.72
32034487--32034535	22	2.3	22	89	3	73	22	12	24	40	1.88
32039591--32039642	26	2.1	24	82	7	59	46	1	1	50	1.23
32039995--32040029	18	2.0	17	88	5	52	45	0	0	54	0.99
32040194--32040284	45	2.0	45	85	2	121	37	28	6	27	1.82
32040265--32040300	16	2.2	16	100	0	72	38	36	0	25	1.56
32041188--32041316	27	4.7	28	86	3	181	34	24	13	27	1.93
32041188--32041323	55	2.5	55	86	2	184	33	23	14	27	1.94
32041430--32041634	53	3.9	53	76	1	205	30	21	13	34	1.92
32051313--32051355	6	6.8	6	84	10	50	30	0	0	69	0.88
32056229--32056302	24	3.0	23	77	11	76	27	18	24	29	1.98
32056241--32056301	25	2.5	25	83	2	88	24	19	26	29	1.99
32060474--32060507	8	3.8	9	88	11	52	20	2	0	76	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32058985--32060554	786	2.0	783	95	0	2793	29	13	16	39	1.87
32062666--32062695	9	3.3	9	100	0	60	56	0	13	30	1.37
32068043--32068157	45	2.6	45	82	0	140	35	16	22	25	1.95
32073861--32073984	25	5.0	25	70	11	83	29	22	19	28	1.98
32075507--32075689	51	3.6	50	77	7	165	24	19	26	29	1.98
32075917--32075948	16	2.0	16	93	0	55	59	0	15	25	1.36
32083288--32083322	18	2.0	17	94	5	61	45	11	11	31	1.76
32084706--32084759	25	2.2	25	89	0	81	31	24	18	25	1.97
32098497--32098548	22	2.5	22	93	6	90	17	25	11	46	1.81
32105465--32105512	22	2.1	24	85	14	66	39	2	0	58	1.10
32129847--32129958	33	3.2	36	79	11	112	33	25	10	29	1.90
32130153--32130362	41	5.1	41	91	0	339	23	27	20	29	1.99
32140669--32140863	98	2.0	98	92	0	327	35	24	11	27	1.91
32142339--32142449	19	5.8	19	88	0	168	37	16	9	36	1.82
32142634--32142920	44	6.6	45	75	13	226	28	23	20	27	1.99
32143190--32143689	44	11.4	44	65	15	151	28	24	17	28	1.98
32143257--32143645	88	4.4	89	67	11	226	28	23	18	28	1.98
32143759--32144099	44	7.8	44	64	15	123	24	24	20	30	1.99
32142920--32143810	132	6.8	132	95	0	1543	29	24	18	28	1.98
32143760--32144173	132	3.1	132	91	2	679	23	24	20	31	1.98
32142920--32144097	264	4.5	260	87	5	1377	27	24	19	28	1.98
32142920--32144086	396	3.0	391	87	5	1383	27	24	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32145453--32145493	6	7.0	6	88	5	66	0	0	14	85	0.60
32146205--32146261	24	2.3	25	79	11	64	56	1	12	29	1.46
32150986--32151180	98	2.0	98	92	0	327	36	25	11	27	1.90
32152658--32152768	19	5.8	19	88	0	168	37	16	9	36	1.82
32153002--32153026	10	2.5	10	100	0	50	20	0	8	72	1.10
32156547--32156579	15	2.2	15	94	0	57	24	30	12	33	1.91
32157332--32157390	30	2.0	30	83	6	75	32	1	13	52	1.50
32158609--32158739	65	2.0	65	91	2	210	24	16	29	29	1.97
32160988--32161033	3	15.3	3	100	0	92	67	0	0	32	0.91
32162606--32162697	41	2.3	41	81	3	107	28	25	18	28	1.98

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