genome.fa.s9.2.7.7.80.10.50.1000.16.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  16  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)
4704735--4704771	13	2.9	12	92	8	56	35	0	8	56	1.29
4705255--4705311	28	2.0	28	86	0	78	31	26	7	35	1.83
4705437--4705477	14	3.1	14	76	20	52	17	36	0	46	1.48
4711164--4711244	6	13.3	6	76	12	76	48	13	19	18	1.81
4711196--4711266	19	3.8	19	81	10	83	42	12	25	19	1.87
4711185--4711269	37	2.3	37	87	0	125	44	11	23	20	1.84
4711866--4711972	27	4.0	27	90	4	146	36	20	22	20	1.95
4712198--4712313	54	2.1	54	80	3	126	28	18	16	36	1.93
4712227--4712313	27	3.2	27	91	0	138	27	17	16	39	1.90
4712304--4712786	27	17.9	27	83	1	538	40	9	21	28	1.85
4712306--4712786	81	5.9	81	86	1	597	40	9	21	28	1.84
4714591--4714639	26	2.0	25	84	8	64	67	8	4	20	1.34
4715128--4715174	22	2.2	21	84	3	58	36	21	8	34	1.84
4715145--4715204	17	3.2	19	86	13	88	35	16	10	38	1.82
4715721--4715968	44	5.6	43	68	14	119	26	24	18	29	1.98
4715619--4715974	134	2.6	134	87	2	419	27	23	17	30	1.97
4715696--4715974	134	2.1	134	93	0	468	27	24	17	29	1.98
4715608--4716545	353	2.7	350	78	6	928	27	23	17	31	1.97
4715970--4716212	130	1.9	132	81	10	302	26	21	17	34	1.95
4716145--4716553	44	9.3	44	76	9	334	26	24	17	31	1.97
4716163--4716452	87	3.3	87	85	4	370	27	25	16	29	1.97
4715802--4716540	219	3.4	219	75	11	649	27	23	17	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4716241--4716553	132	2.4	132	95	1	556	26	24	17	31	1.97
4717457--4717519	11	5.6	11	79	3	72	4	12	0	82	0.82
4717571--4717630	7	8.6	7	78	12	52	6	10	0	83	0.81
4717592--4717631	12	3.2	12	82	3	53	7	5	0	87	0.66
4717426--4717675	112	2.2	113	96	1	457	13	20	10	56	1.67
4722720--4722770	26	2.1	25	85	10	70	64	7	5	21	1.41
4723282--4723379	19	5.2	19	88	7	146	35	15	11	37	1.83
4723292--4723373	36	2.2	37	93	4	139	37	13	12	36	1.82
4723704--4723766	28	2.2	28	88	0	90	31	28	6	33	1.82
4724747--4724803	27	2.2	26	87	6	80	47	5	14	33	1.66
4725799--4725910	27	4.2	26	86	7	143	36	22	24	16	1.94
4725799--4725910	54	2.1	54	88	3	163	36	22	24	16	1.94
4727523--4727658	26	5.2	26	90	0	209	35	23	6	34	1.81
4731629--4731740	27	4.2	26	86	7	143	36	22	24	16	1.94
4731629--4731740	54	2.1	54	88	3	163	36	22	24	16	1.94
4733361--4733470	26	4.2	26	94	0	184	36	24	5	33	1.79
4734822--4734864	21	2.0	21	86	0	59	32	11	27	27	1.92
4737938--4738010	30	2.5	29	81	2	92	34	6	28	30	1.83
4738322--4738512	30	6.4	30	80	8	155	38	12	24	25	1.89
4737671--4738421	384	2.0	382	92	1	1272	32	13	21	31	1.92
4744944--4744977	12	2.8	12	95	0	59	61	0	14	23	1.33
4745853--4745900	20	2.5	20	82	3	62	62	2	4	31	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4745887--4745930	17	2.4	18	77	14	54	56	9	0	34	1.31
4745900--4745960	15	4.1	15	77	16	56	50	13	0	36	1.41
4746494--4746553	30	2.0	30	80	3	68	35	13	21	30	1.92
4746536--4746613	30	2.6	30	85	0	111	41	8	28	21	1.83
4746569--4746699	60	2.2	60	82	6	151	36	12	26	24	1.91
4746596--4746761	89	1.9	89	82	2	208	37	12	24	25	1.90
4746599--4746755	59	2.6	59	83	4	172	36	12	24	26	1.91
4746598--4746761	30	5.5	30	79	2	161	37	12	24	26	1.90
4748796--4748845	25	2.1	25	85	14	70	32	16	4	48	1.64
4751418--4751461	22	2.0	22	90	0	70	43	25	9	22	1.82
4756766--4756790	13	1.9	13	100	0	50	44	16	24	16	1.86
4756780--4756873	49	1.9	49	86	0	134	36	13	20	29	1.91
4762213--4762297	42	2.0	43	93	2	145	29	10	17	42	1.83
4769657--4769704	18	2.7	18	90	0	69	29	20	27	22	1.99
4769775--4769802	5	5.6	5	100	0	56	82	0	0	17	0.68
4774222--4774249	5	5.6	5	100	0	56	82	0	0	17	0.68
4775925--4775949	12	2.1	12	100	0	50	16	0	0	84	0.63
4780360--4780396	5	7.8	5	88	11	60	18	0	0	81	0.70
4780364--4780390	13	2.1	13	100	0	54	14	0	0	85	0.61
4780360--4780395	18	2.0	18	100	0	72	16	0	0	83	0.65
4786510--4786696	48	3.9	48	81	1	223	35	25	15	23	1.94
4786511--4786696	96	1.9	96	87	2	275	35	25	15	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4789196--4789222	9	3.0	9	100	0	54	66	0	0	33	0.92
4791287--4791318	10	2.8	12	86	13	50	34	0	3	62	1.11
4813365--4813425	30	2.0	31	81	9	72	68	0	6	24	1.13
4813410--4813457	15	3.4	13	78	16	51	77	2	0	20	0.88
4822147--4822273	63	2.0	63	81	1	148	27	6	29	37	1.81
4823249--4823367	21	5.7	21	80	4	123	40	0	31	26	1.62
4823271--4823367	7	13.9	7	88	0	104	38	0	34	27	1.57
4823249--4823367	14	8.5	14	83	0	121	40	0	31	26	1.62
4826991--4827044	27	2.1	24	83	10	63	31	3	0	64	1.11
4827204--4827251	22	2.2	22	81	7	53	37	2	2	58	1.22
4827206--4827254	12	4.4	11	77	12	55	36	2	2	59	1.21
4829464--4829515	19	2.7	21	77	16	60	48	0	1	50	1.12
4832023--4832076	27	2.0	27	100	0	108	48	11	7	33	1.67
4832640--4832674	17	2.1	17	100	0	70	40	17	5	37	1.73
4833225--4833279	28	2.0	28	100	0	110	16	10	14	58	1.64
4835569--4835631	16	3.9	15	73	17	54	68	1	23	6	1.22
4835557--4835629	34	2.1	34	89	0	119	67	1	24	6	1.23
4842839--4842950	48	2.3	47	83	3	125	27	32	17	22	1.97
4849197--4849239	6	7.0	6	78	5	50	18	6	0	74	1.04
4851260--4851359	48	2.1	48	83	3	121	28	32	18	22	1.97
4857005--4857153	60	2.5	60	78	7	142	28	22	18	30	1.98
4858638--4858671	12	2.8	12	100	0	68	70	0	29	0	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4877177--4877229	23	2.3	23	87	3	81	56	1	30	11	1.45
4880541--4880570	15	2.0	15	93	0	51	50	0	10	40	1.36
4880537--4880599	27	2.3	26	76	10	63	38	0	11	50	1.38
4880595--4880626	10	3.3	10	95	4	57	31	6	0	62	1.20
4890531--4890579	21	2.5	20	83	9	64	65	4	0	30	1.11
4893992--4894021	15	2.0	15	100	0	60	46	0	13	40	1.43
4897756--4897799	20	2.2	20	84	15	56	20	2	0	77	0.88
4899226--4899255	15	2.0	15	93	0	51	50	0	10	40	1.36
4899280--4899323	20	2.3	19	84	11	54	29	2	2	65	1.16
4903849--4903973	43	2.9	43	87	0	187	27	18	22	32	1.97
4905917--4905956	5	7.6	5	94	5	62	82	0	0	17	0.67
4905917--4905956	11	3.7	11	90	9	57	82	0	0	17	0.67
4906284--4906339	29	1.9	29	92	0	94	32	25	14	28	1.94
4910362--4910397	18	2.1	17	94	5	63	83	0	0	16	0.65
4913040--4913815	253	3.0	257	96	1	1456	32	18	14	34	1.91
4917147--4917197	24	2.1	24	88	0	75	21	3	35	39	1.72
4926321--4926379	31	1.9	31	89	0	91	35	15	11	37	1.84
4927323--4927387	32	2.0	32	100	0	130	27	3	30	38	1.72
4929374--4929487	27	3.9	28	72	19	90	24	26	21	27	2.00
4929516--4929571	20	2.8	20	83	2	69	33	23	16	26	1.95
4937691--4937736	22	2.2	20	84	7	56	43	8	0	47	1.34
4942069--4942099	15	2.1	15	100	0	62	38	25	12	22	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4942108--4942149	20	2.1	20	90	0	66	30	16	11	40	1.85
4942942--4942981	18	2.2	18	95	0	71	27	22	25	25	2.00
4945534--4945568	18	1.9	18	94	0	61	22	20	25	31	1.98
4946798--4946828	15	2.1	15	100	0	62	38	25	12	22	1.90
4946837--4946878	20	2.1	20	90	0	66	30	16	11	40	1.85
4952897--4952949	26	2.0	27	85	7	74	24	15	22	37	1.92
4954429--4954536	26	4.2	26	91	2	173	36	23	7	33	1.83
4959989--4960041	26	2.0	27	85	7	74	24	15	22	37	1.92
4961524--4961631	26	4.2	26	91	2	173	36	23	7	33	1.83
4962292--4962328	18	2.1	18	90	10	58	32	32	2	32	1.72

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