genome.fa.s9.2.7.7.80.10.50.1000.177.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   

This is table  177  of  259  ( 31025 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)
57546702--57546754	21	2.5	22	82	11	67	67	3	3	24	1.23
57546709--57546772	18	3.6	18	79	6	60	64	4	7	23	1.40
57549949--57550000	27	1.9	27	84	0	68	44	5	3	46	1.45
57550703--57550732	14	2.1	15	93	6	53	23	0	6	70	1.11
57558292--57558338	24	2.0	24	100	0	94	42	17	21	19	1.89
57560290--57560333	22	2.0	22	86	0	61	52	0	0	47	1.00
57560353--57560393	13	2.9	14	77	22	50	53	0	0	46	1.00
57560435--57560475	21	1.9	22	85	5	57	53	0	0	46	1.00
57560910--57560960	20	2.6	21	78	12	63	50	5	0	43	1.26
57560939--57560976	14	2.7	14	88	8	51	39	5	2	52	1.38
57575794--57576010	46	4.7	46	90	1	301	39	14	24	21	1.91
57575745--57576010	138	2.0	130	84	7	345	38	14	24	22	1.92
57580927--57581057	69	1.9	69	88	0	199	32	13	26	26	1.94
57586092--57586132	21	2.0	21	90	0	64	19	29	21	29	1.98
57592030--57592086	30	1.9	30	88	0	87	28	22	10	38	1.87
57595471--57595520	26	1.9	26	95	0	91	32	16	16	36	1.90
57598193--57598245	26	2.0	26	100	0	106	50	7	0	41	1.30
57602640--57602700	32	1.9	32	100	0	122	37	21	6	34	1.79
57605667--57605795	42	3.1	42	85	0	150	37	17	18	27	1.93
57607100--57607259	41	3.9	41	84	1	178	21	21	22	34	1.97
57607082--57607256	82	2.2	80	79	6	199	20	21	24	34	1.97
57608749--57608866	42	2.8	42	75	10	116	42	15	16	26	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57609904--57609954	18	2.8	18	87	0	75	47	0	1	50	1.12
57609896--57609954	18	3.0	20	76	14	61	47	0	1	50	1.11
57633308--57633374	18	3.6	18	75	17	57	28	2	1	67	1.14
57640239--57640300	31	2.0	31	96	0	115	30	22	11	35	1.89
57648626--57648821	38	5.2	38	86	0	275	44	27	14	13	1.83
57649756--57649800	24	1.9	23	81	4	54	33	17	0	48	1.48
57655382--57655441	10	6.6	9	74	14	52	30	1	5	63	1.25
57655393--57655448	18	3.1	18	76	5	60	35	1	1	60	1.17
57658594--57658677	26	3.2	26	96	0	150	34	4	23	36	1.76
57661691--57661730	19	2.2	19	90	4	64	57	7	0	35	1.27
57662156--57662303	74	2.0	74	100	0	296	28	22	16	32	1.96
57665673--57665728	23	2.5	23	82	5	62	26	1	0	71	0.96
57666132--57666189	30	1.9	30	82	6	73	55	10	12	22	1.66
57673109--57673133	2	12.5	2	100	0	50	52	0	0	48	1.00
57677425--57677464	18	2.2	18	86	8	55	30	0	7	62	1.23
57677423--57677512	46	2.0	45	85	10	121	30	2	8	58	1.40
57677417--57677491	13	5.8	12	75	16	53	29	1	8	61	1.33
57677585--57677637	22	2.3	24	81	18	69	35	1	3	58	1.27
57677764--57677829	22	3.0	22	77	18	66	33	0	7	59	1.26
57677776--57677877	23	4.2	23	71	21	68	30	6	6	55	1.52
57678426--57678889	133	3.5	132	74	8	354	35	18	18	28	1.94
57681481--57682297	44	18.2	44	83	6	888	25	31	15	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57681481--57682297	132	6.1	132	85	5	1071	25	31	15	28	1.95
57681916--57682033	61	1.9	61	94	0	209	29	30	14	25	1.95
57681876--57682077	105	1.9	105	86	2	289	26	29	15	28	1.96
57681744--57682209	237	2.0	237	88	1	693	25	30	15	28	1.95
57682477--57682845	131	2.8	128	84	6	440	27	26	18	27	1.98
57682841--57683197	132	2.7	132	92	0	597	25	22	20	31	1.98
57682666--57683036	177	2.1	177	86	4	518	24	24	19	30	1.98
57682791--57683168	45	8.5	45	69	9	220	23	23	20	32	1.98
57686843--57686903	5	12.6	5	75	19	58	40	14	19	24	1.89
57686833--57686909	19	4.6	18	70	21	60	42	12	19	24	1.86
57686833--57686903	24	3.0	24	91	0	124	42	14	19	23	1.88
57688456--57688800	130	2.6	132	76	8	328	35	18	19	26	1.95
57701573--57701599	11	2.5	11	100	0	54	62	18	18	0	1.32
57702774--57702933	44	3.6	44	90	2	241	46	15	23	14	1.82
57703725--57703942	75	2.9	75	86	2	276	30	15	21	33	1.94
57703879--57704008	64	2.0	64	90	0	206	23	18	23	34	1.96
57703943--57704104	90	1.8	89	87	2	245	25	18	20	35	1.96
57704098--57704134	15	2.5	15	95	0	65	18	5	2	72	1.15
57704283--57704430	56	2.7	56	90	5	237	29	14	20	34	1.93
57704627--57704673	19	2.5	19	100	0	94	27	17	31	23	1.96
57706116--57706215	3	31.7	3	70	18	53	32	3	5	60	1.34
57706325--57706373	22	2.1	24	85	14	68	36	2	4	57	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57706502--57706568	22	3.0	22	77	18	68	32	0	7	59	1.25
57706502--57706616	23	4.8	23	72	20	69	31	6	6	55	1.51
57714078--57714147	22	3.3	22	64	28	60	48	25	7	18	1.73
57714076--57714160	42	2.0	42	95	4	154	47	23	9	20	1.79
57717505--57717542	20	1.9	20	88	0	58	36	15	10	36	1.82
57726185--57726209	4	6.2	4	100	0	50	24	0	0	76	0.80
57734296--57734445	75	2.0	75	97	0	282	47	8	18	26	1.76
57734860--57734914	18	3.1	17	82	10	65	56	0	0	43	0.99
57734860--57734914	17	3.1	18	82	12	69	56	0	0	43	0.99
57742248--57742285	18	2.1	19	90	5	60	34	5	0	60	1.19
57742248--57742292	19	2.3	19	85	11	56	33	6	0	60	1.23
57745009--57745053	19	2.3	19	80	7	54	24	4	2	68	1.19
57750812--57750885	15	4.6	16	70	18	55	63	0	0	36	0.95
57750813--57750871	32	1.9	30	86	6	82	61	0	0	38	0.96
57750829--57750888	22	2.7	22	82	12	61	60	0	0	40	0.97
57753452--57753488	8	4.5	8	96	3	65	10	10	2	75	1.14
57753453--57753497	16	2.9	15	84	12	56	13	8	2	75	1.13
57753462--57753522	23	2.6	22	84	7	68	13	8	4	73	1.22
57753556--57753617	26	2.7	23	80	14	65	41	0	1	56	1.09
57753852--57753907	26	2.1	28	86	6	80	62	0	0	37	0.95
57754278--57754326	21	2.4	21	81	15	59	61	0	0	38	0.96
57754386--57754435	22	2.3	23	80	13	61	62	2	0	36	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57754384--57754443	21	2.9	20	79	13	68	60	1	0	38	1.07
57754408--57754450	11	4.0	11	79	14	54	60	2	0	37	1.10
57754424--57754502	23	3.3	23	77	8	79	51	1	1	45	1.17
57754515--57754618	10	11.2	9	68	12	50	75	3	4	15	1.11
57758306--57758349	20	2.2	20	84	8	54	52	2	18	27	1.57
57759084--57759142	31	1.9	31	85	0	82	42	5	15	37	1.69
57763730--57763779	19	2.7	19	85	11	61	10	4	8	78	1.09
57768816--57768858	22	2.0	21	86	4	59	39	0	4	55	1.20
57771189--57771234	18	2.5	18	89	3	65	10	4	2	82	0.89
57771193--57771234	6	6.8	6	86	2	57	11	2	2	83	0.84
57771224--57771271	25	1.9	25	83	8	62	18	8	4	68	1.31
57771223--57771277	25	2.2	25	77	6	58	21	7	3	67	1.31
57774835--57774924	25	3.6	25	93	0	153	31	15	28	24	1.96
57774918--57775040	25	4.9	25	74	5	106	36	19	24	19	1.95
57774819--57774950	50	2.6	50	84	0	174	31	18	26	23	1.98
57774868--57775034	75	2.2	75	80	2	174	34	18	26	20	1.96
57781473--57781549	31	2.5	30	72	6	73	25	11	12	49	1.75
57781678--57782053	192	2.0	193	83	1	477	40	13	21	25	1.89
57786294--57786336	20	2.2	20	87	8	61	34	2	0	62	1.08
57788898--57788942	23	2.0	23	95	0	81	11	24	26	37	1.89
57789007--57789064	26	2.3	26	85	8	86	17	24	20	37	1.93
57795693--57795753	21	2.9	21	79	13	63	34	0	18	47	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57796547--57796786	45	5.3	45	93	0	381	18	19	20	40	1.91
57796766--57796808	6	7.2	6	94	0	77	18	16	13	51	1.77
57796972--57797254	18	15.3	18	72	12	180	36	11	15	37	1.84
57800931--57801613	317	2.1	320	82	5	848	27	16	25	30	1.97
57803820--57803848	14	2.0	15	93	6	51	44	0	6	48	1.29
57807419--57807472	28	1.9	28	85	7	74	35	11	3	50	1.56
57811730--57811760	14	2.3	13	94	5	53	16	0	0	83	0.64
57811729--57811763	13	2.7	13	87	12	54	22	0	0	77	0.78
57813337--57813398	24	2.6	24	84	0	70	29	16	11	43	1.82
57816899--57816961	31	2.0	31	96	0	117	42	9	23	23	1.83

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