genome.fa.s9.2.7.7.80.10.50.1000.156.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  156  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)
51020860--51020926	21	3.0	23	76	21	72	64	0	5	29	1.17
51020893--51020938	15	2.9	15	90	6	65	67	0	6	26	1.15
51020908--51021009	14	7.2	13	72	25	59	64	1	7	25	1.31
51020903--51021024	29	4.2	30	69	16	76	63	2	7	26	1.33
51022093--51022121	3	9.7	3	100	0	58	65	0	34	0	0.93
51023048--51023279	18	12.9	18	89	4	346	37	11	14	36	1.82
51023056--51023279	35	6.3	35	92	3	351	37	12	13	36	1.82
51023048--51023279	53	4.3	53	93	2	376	37	11	14	36	1.82
51027682--51027731	24	2.1	24	96	0	91	32	10	8	50	1.65
51029002--51029036	13	2.8	12	86	4	52	2	34	0	62	1.10
51029906--51030034	38	3.4	37	74	12	91	33	18	14	33	1.92
51030114--51030284	91	1.9	91	87	2	254	29	25	12	32	1.93
51030500--51030537	18	2.1	18	85	9	51	21	5	13	60	1.52
51032236--51032260	12	2.1	12	100	0	50	48	0	0	52	1.00
51034967--51035028	32	1.9	32	96	0	115	17	24	27	30	1.97
51038057--51038149	39	2.4	38	82	5	98	35	19	13	31	1.91
51038228--51038442	91	2.4	91	82	6	267	32	25	13	28	1.94
51041425--51041558	27	5.0	26	78	7	126	41	20	17	21	1.91
51041422--51041543	54	2.3	54	82	2	147	39	22	17	20	1.92
51041707--51041775	36	1.9	36	96	0	129	26	27	27	18	1.98
51043094--51043166	35	2.1	35	100	0	146	23	24	23	28	1.99
51049357--51049390	16	2.2	16	89	5	52	55	20	2	20	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51052038--51052171	26	5.2	26	93	0	214	33	8	23	35	1.84
51058802--51058901	26	4.0	26	78	12	129	33	8	24	35	1.84
51058815--51058883	21	3.0	21	81	10	75	34	8	24	31	1.86
51062480--51063144	96	7.0	94	94	1	1105	32	8	29	29	1.87
51062480--51063144	143	4.6	142	95	1	1118	32	8	29	29	1.87
51062480--51063142	239	2.8	239	97	0	1222	32	8	29	29	1.87
51063264--51063336	36	2.0	36	86	5	103	21	19	31	27	1.97
51072501--51072537	3	12.3	3	88	0	56	64	2	0	32	1.07
51074442--51074570	46	2.8	46	87	0	168	31	27	20	20	1.98
51082764--51082873	26	4.2	26	94	2	177	33	4	24	37	1.76
51084047--51084074	8	3.5	8	100	0	56	57	21	21	0	1.41
51085905--51086003	29	3.0	34	76	22	120	23	15	21	40	1.90
51087217--51087272	23	2.6	22	83	10	64	35	8	16	39	1.80
51092916--51092968	23	2.2	24	90	3	81	84	0	15	0	0.61
51092927--51092968	12	3.4	13	83	9	61	88	0	11	0	0.53
51093918--51094397	43	11.5	43	63	21	164	30	22	21	25	1.99
51093919--51094444	84	6.3	84	88	4	778	30	22	22	24	1.99
51094586--51094907	134	2.4	134	85	3	425	31	18	23	26	1.98
51094586--51094863	44	6.2	44	69	9	170	30	18	23	27	1.97
51094720--51095131	220	1.9	220	81	4	497	31	19	22	26	1.98
51094879--51095040	89	1.8	87	82	10	204	30	19	23	27	1.98
51095073--51095493	78	5.4	78	88	2	623	32	17	24	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51095073--51095493	156	2.7	156	92	1	693	32	17	24	25	1.97
51095463--51095630	89	1.9	89	88	2	257	30	15	28	25	1.96
51095463--51095644	45	4.1	45	86	1	231	31	15	27	25	1.95
51095472--51095649	89	2.0	89	86	3	250	32	16	26	24	1.96
51095990--51096081	19	4.9	19	93	5	161	38	11	15	34	1.84
51095990--51096088	36	2.7	38	89	9	161	38	11	16	34	1.84
51095990--51096104	19	5.8	22	88	8	96	37	10	15	36	1.82
51097501--51097526	12	2.2	12	100	0	52	38	0	15	46	1.46
51097941--51097977	5	7.4	5	100	0	74	40	18	0	40	1.51
51100698--51100761	32	2.0	32	100	0	128	34	9	9	46	1.68
51103529--51103832	47	6.4	47	91	1	428	27	29	8	34	1.87
51107198--51107586	40	9.8	40	91	0	591	26	28	21	24	1.99
51107639--51107713	38	2.0	38	86	5	107	24	26	18	30	1.98
51110142--51110445	47	6.4	47	91	1	428	27	29	8	34	1.87
51113916--51113965	21	2.4	21	93	0	82	32	36	8	24	1.84
51115602--51115665	21	3.0	22	70	9	60	37	23	18	20	1.94
51116146--51116180	18	2.0	18	88	5	54	25	25	0	48	1.51
51116904--51116974	9	8.6	9	83	16	84	59	1	0	39	1.06
51116904--51116976	3	24.3	3	75	10	69	60	1	0	38	1.06
51116904--51116979	18	4.6	17	80	19	99	60	1	0	38	1.05
51122840--51122921	26	3.2	26	92	0	146	32	7	24	35	1.83
51124709--51124995	137	2.1	137	94	0	493	24	18	24	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51126390--51126435	22	2.1	22	91	0	74	6	34	19	39	1.78
51128337--51128362	13	2.0	13	100	0	52	38	7	15	38	1.76
51134736--51134839	27	3.9	27	76	8	104	35	19	26	18	1.95
51134735--51134872	27	5.1	27	75	3	89	39	21	24	15	1.91
51151234--51151337	27	3.9	27	77	8	104	18	26	19	35	1.95
51157662--51157687	13	2.0	13	100	0	52	38	15	7	38	1.76
51182713--51182799	43	2.0	43	90	0	138	29	26	18	25	1.98
51184939--51185018	39	2.1	39	97	0	151	17	17	22	42	1.89
51195169--51195199	15	2.0	16	93	6	55	51	3	0	45	1.17
51196635--51196689	24	2.6	21	80	13	51	61	7	0	30	1.23
51196866--51196932	21	3.0	23	72	21	63	64	1	5	28	1.26
51196899--51196944	15	2.9	15	90	6	65	67	0	6	26	1.15
51197796--51197885	32	2.8	29	78	17	90	24	1	7	66	1.25
51199900--51199947	21	2.3	22	85	7	64	31	2	4	62	1.26
51202166--51202273	26	4.2	26	92	0	180	32	6	24	37	1.81
51210281--51210434	81	1.9	81	93	0	263	28	45	1	24	1.61
51214356--51214393	19	2.0	19	100	0	76	42	5	21	31	1.75
51215340--51215383	21	2.0	22	86	4	63	34	13	2	50	1.55
51217575--51217607	17	1.9	17	93	0	57	27	21	3	48	1.64
51217707--51217742	13	2.8	14	84	16	51	27	25	0	47	1.52
51217694--51217734	18	2.2	19	87	12	59	29	24	0	46	1.53
51217896--51217981	21	3.9	23	80	10	90	37	25	22	15	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51218358--51218395	15	2.5	15	95	0	67	50	10	0	39	1.37
51219116--51219161	15	2.8	17	80	16	60	6	26	8	58	1.52
51219336--51219390	21	2.5	22	72	16	60	65	5	0	29	1.15
51222086--51222217	55	2.4	55	91	3	205	29	30	18	21	1.97
51225027--51225079	23	2.4	22	76	20	56	9	18	1	69	1.25
51228221--51228276	29	1.9	29	88	0	85	25	26	16	32	1.96
51229304--51229365	31	2.1	29	85	11	81	37	12	25	24	1.91
51229948--51229974	2	13.5	2	100	0	54	0	0	48	51	1.00
51234330--51234427	25	3.8	25	89	6	151	30	23	20	25	1.98
51238353--51238544	58	3.3	57	81	3	213	35	9	21	32	1.86
51238632--51239414	138	5.7	136	73	6	478	23	20	22	33	1.97
51238563--51239414	69	12.5	69	73	6	358	23	20	22	33	1.97
51244327--51244450	41	3.0	41	77	5	133	30	25	16	28	1.96
51248028--51248085	23	2.4	25	82	8	75	39	17	22	20	1.92
51252354--51252395	21	2.0	21	100	0	84	33	23	9	33	1.87
51252828--51252857	5	6.2	5	92	7	53	83	0	16	0	0.65
51252828--51252854	14	1.9	14	100	0	54	85	0	14	0	0.61
51266667--51266705	19	2.1	19	85	9	53	41	0	2	56	1.13
51266666--51266698	17	1.9	17	88	11	50	36	0	3	60	1.12
51269708--51269741	17	2.0	17	88	0	50	52	0	0	47	1.00
51277045--51277099	28	2.0	28	85	7	76	52	9	0	38	1.33
51277391--51277449	32	1.9	30	86	6	82	45	3	3	47	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51277391--51277456	32	2.2	30	83	8	80	46	3	3	46	1.33
51277429--51277486	22	2.8	22	77	15	70	48	3	0	48	1.18
51278342--51278376	16	2.2	16	100	0	70	40	0	14	45	1.45
51285796--51285836	18	2.2	19	86	4	57	58	0	0	41	0.98
51286701--51286748	23	2.1	23	84	7	62	37	0	2	60	1.09
51289992--51290085	40	2.4	40	82	8	122	37	36	11	14	1.83
51290450--51290483	17	1.9	18	88	5	52	11	44	32	11	1.77
51291632--51291796	47	3.5	48	87	2	226	27	29	16	26	1.97
51304609--51305024	48	8.7	48	79	3	372	23	29	18	28	1.98
51304609--51305024	191	2.2	192	83	3	509	23	29	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   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