genome.fa.s7.2.7.7.80.10.50.1000.129.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: A07
Parameters: 2 7 7 80 10 50 1000
Length:  93829987

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   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   

This is table  129  of  295  ( 35342 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)
39415946--39415975	16	1.9	15	93	6	51	3	26	23	46	1.68
39425388--39425447	30	2.0	30	90	0	93	38	8	25	28	1.84
39429486--39429557	28	2.6	28	86	2	74	37	26	6	29	1.82
39429494--39429557	28	2.3	27	91	2	101	35	28	7	28	1.85
39429660--39429774	27	4.3	26	84	5	131	18	20	22	39	1.93
39456108--39456279	46	3.7	45	75	9	175	22	29	19	27	1.98
39458118--39458340	111	2.0	111	96	0	410	36	25	11	26	1.90
39460079--39460170	25	3.7	25	78	5	87	25	21	17	35	1.95
39460776--39460817	20	2.2	20	87	12	61	64	0	19	16	1.30
39462336--39462448	43	2.7	42	76	6	120	27	17	24	30	1.97
39466956--39467094	74	1.9	74	83	3	181	28	28	18	24	1.98
39466956--39467066	37	3.0	37	90	0	177	29	29	18	21	1.97
39467248--39467381	46	2.9	46	87	0	187	25	31	8	34	1.87
39467358--39467647	47	6.1	47	89	3	409	25	30	11	31	1.92
39467364--39467647	145	2.0	143	89	4	439	25	30	11	31	1.91
39478296--39478379	28	3.2	28	65	25	83	23	16	29	29	1.96
39478192--39478436	49	4.9	49	80	2	274	26	17	26	29	1.97
39484064--39484241	27	6.6	27	81	3	169	28	29	15	26	1.96
39484085--39484240	82	1.9	81	85	3	215	28	29	16	26	1.96
39484776--39484811	18	2.0	18	100	0	72	38	22	0	38	1.54
39493760--39493807	19	2.5	19	83	6	53	18	0	10	70	1.15
39494498--39494556	21	2.8	21	78	0	64	13	28	33	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39498045--39498124	31	2.5	31	87	2	106	25	25	17	32	1.97
39498339--39498503	23	7.1	23	90	0	258	31	21	19	27	1.97
39498339--39498503	46	3.6	46	94	0	285	31	21	19	27	1.97
39498511--39498588	39	2.0	39	100	0	156	38	30	5	25	1.78
39498593--39498633	20	2.0	20	95	0	73	34	21	9	34	1.87
39498676--39498723	25	1.9	25	86	0	69	25	14	22	37	1.92
39499888--39500170	27	10.4	27	79	3	138	34	9	20	35	1.85
39499977--39500116	54	2.6	54	85	4	192	30	8	22	37	1.84
39499841--39500101	81	3.2	79	72	10	213	30	10	19	38	1.86
39499977--39500181	54	3.8	54	80	2	160	35	8	21	34	1.84
39500068--39500277	80	2.6	80	83	2	197	39	7	22	30	1.82
39500094--39500277	27	6.9	27	86	3	219	40	7	23	28	1.81
39500095--39500277	80	2.3	81	87	2	253	39	7	24	28	1.81
39500283--39500372	27	3.3	27	82	3	110	31	12	16	40	1.85
39508936--39508974	20	2.1	19	85	9	53	2	28	17	51	1.59
39517711--39517886	49	3.6	49	76	8	155	27	28	16	26	1.97
39517708--39517833	47	2.6	47	82	5	146	28	27	18	25	1.98
39517861--39518024	46	3.6	44	76	10	143	22	29	18	29	1.98
39518408--39518464	30	1.9	30	85	7	80	29	26	8	35	1.87
39522767--39522814	19	2.6	18	77	6	51	45	0	6	47	1.27
39524025--39524057	2	17.0	2	87	6	50	45	0	0	54	0.99
39526086--39526165	23	3.5	22	83	8	97	33	15	17	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39526069--39526177	46	2.4	45	81	1	137	34	17	14	33	1.90
39528023--39528099	19	4.0	21	75	16	69	50	0	3	45	1.20
39534601--39534628	2	14.0	2	100	0	56	50	0	50	0	1.00
39549783--39550017	37	5.9	37	89	7	240	26	20	15	37	1.93
39549778--39550038	92	3.2	79	83	12	257	26	21	14	37	1.92
39549888--39550202	46	6.6	46	87	8	405	28	21	14	35	1.93
39549888--39550202	98	3.3	98	91	2	489	28	21	14	35	1.93
39549887--39550202	144	2.2	144	82	7	392	28	22	14	35	1.93
39559810--39559939	64	2.0	64	100	0	260	44	4	12	38	1.63
39563742--39563786	22	2.0	22	91	0	72	33	2	15	48	1.57
39568338--39568382	22	2.0	22	91	0	72	33	2	15	48	1.57
39570582--39570621	3	13.3	3	89	0	62	67	27	0	5	1.11
39572464--39572538	31	2.4	31	86	0	96	44	9	6	40	1.63
39573109--39573195	46	1.9	45	88	2	129	32	3	10	54	1.51
39579131--39579168	12	3.1	12	88	11	51	13	26	0	60	1.33
39579849--39579928	40	2.0	40	97	0	151	28	25	13	32	1.94
39584944--39585134	48	4.0	48	77	2	161	23	16	26	32	1.96
39584947--39585125	96	1.9	96	82	2	225	22	17	26	33	1.96
39592194--39592376	48	3.8	48	78	0	186	21	18	26	32	1.97
39592198--39592376	96	1.9	96	80	2	216	21	18	26	32	1.97
39597320--39597378	25	2.4	24	83	10	75	67	6	8	16	1.38
39600510--39600553	17	2.5	18	82	14	56	45	2	0	52	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39600526--39600653	68	1.9	69	90	1	204	40	3	3	51	1.39
39612906--39612994	5	17.2	5	80	15	53	77	1	7	13	1.04
39612906--39612979	6	12.8	6	87	7	57	77	1	9	12	1.07
39612946--39612978	12	2.8	12	100	0	66	84	0	15	0	0.61
39619157--39619187	13	2.4	13	94	0	53	19	32	32	16	1.94
39620921--39620993	35	2.1	35	89	5	112	30	15	20	34	1.93
39625039--39625120	28	2.9	28	87	0	110	34	10	25	29	1.90
39629784--39629829	6	7.3	6	83	9	56	21	2	0	76	0.90
39629796--39629829	13	2.7	13	90	4	52	17	2	0	79	0.86
39632150--39632195	20	2.3	20	82	14	60	28	28	17	26	1.98
39632162--39632205	19	2.2	20	84	4	54	34	25	18	22	1.96
39651099--39651152	12	4.5	11	78	13	54	24	1	0	74	0.92
39652506--39652747	89	2.7	89	81	1	288	23	22	18	35	1.96
39656088--39656528	43	10.2	43	89	1	623	26	16	26	30	1.97
39656488--39656721	56	4.2	56	84	1	299	29	14	22	34	1.93
39656488--39656721	112	2.1	112	88	1	344	29	14	22	34	1.93
39660066--39660193	47	2.6	48	79	9	145	25	32	17	25	1.97
39665715--39665786	32	2.2	32	83	9	85	54	19	2	23	1.57
39665717--39665766	9	5.6	9	79	6	57	54	22	2	22	1.55
39665717--39665786	18	4.1	18	70	22	60	54	20	2	22	1.58
39675321--39675575	45	5.8	45	80	6	283	24	16	27	31	1.96
39701267--39701316	25	2.0	25	96	0	91	24	22	20	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39704927--39705003	31	2.4	31	75	10	75	66	2	6	24	1.28
39705365--39705426	21	3.0	21	72	25	60	37	6	0	56	1.25
39705431--39705484	20	2.6	21	80	11	67	33	3	0	62	1.12
39705426--39705486	10	6.0	10	74	11	52	34	3	1	60	1.23
39706432--39706491	30	2.0	30	96	0	111	28	0	35	36	1.58
39714319--39714405	42	2.1	42	84	0	111	43	2	6	47	1.42
39717152--39717199	20	2.4	20	92	0	87	29	14	25	31	1.95
39738361--39738410	26	1.9	26	95	0	91	30	34	24	12	1.91
39738225--39738488	103	2.6	102	89	3	395	29	29	20	19	1.97
39738816--39738880	30	2.2	29	81	8	76	30	27	6	35	1.81
39738823--39738880	30	1.9	30	85	0	80	31	24	6	37	1.82
39750650--39750710	27	2.3	26	83	5	77	37	9	24	27	1.87
39750662--39750723	27	2.3	27	82	0	79	35	9	25	29	1.88
39751992--39752079	3	29.0	3	77	8	63	57	2	7	31	1.40
39752016--39752079	18	3.6	18	82	2	76	54	1	9	34	1.42
39752056--39752082	14	1.9	14	100	0	54	62	0	0	37	0.95
39752053--39752085	17	1.9	17	93	0	57	60	0	0	39	0.97
39752052--39752092	20	2.0	20	85	0	55	58	2	0	39	1.11
39754641--39754678	20	1.9	20	94	0	67	47	5	0	47	1.24
39755922--39755976	19	2.8	19	75	5	56	49	3	1	45	1.30
39758089--39758205	51	2.3	51	83	4	139	31	15	23	29	1.95
39758176--39758228	14	3.6	14	80	14	54	35	9	28	26	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39758181--39758213	7	4.7	7	85	14	50	39	12	30	18	1.87
39759630--39759674	23	2.0	23	86	8	65	40	0	15	44	1.47
39761893--39761950	28	2.1	28	100	0	116	31	10	10	48	1.71
39773430--39773505	22	3.5	21	66	25	59	34	17	25	23	1.96
39773433--39773520	44	2.0	44	100	0	176	36	15	22	25	1.94
39773455--39773520	22	3.0	22	68	24	66	39	15	21	24	1.91
39776064--39776154	44	2.1	44	87	0	128	50	8	10	29	1.68
39776217--39776512	147	2.0	147	100	0	592	27	32	12	28	1.92
39776780--39776839	30	2.0	30	83	9	77	35	5	6	53	1.49
39777414--39777501	19	4.7	18	73	19	65	59	2	2	36	1.23

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   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295