genome.fa.s25.2.7.7.80.10.50.1000.127.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   

This is table  127  of  214  ( 25680 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)
38711568--38711634	20	3.2	21	73	14	59	44	7	0	47	1.31
38711582--38711652	23	3.3	22	74	12	60	52	7	2	38	1.44
38717101--38717169	35	2.0	35	94	0	120	40	8	14	36	1.77
38725557--38725609	20	2.6	20	75	3	61	32	5	7	54	1.52
38725700--38725805	33	3.2	33	81	2	124	16	24	16	43	1.87
38730474--38730534	31	2.0	29	84	12	77	37	18	18	26	1.93
38736318--38736347	15	2.0	15	93	0	51	23	20	43	13	1.86
38738193--38738261	31	2.2	32	82	7	88	47	8	8	34	1.65
38742514--38742627	44	2.6	44	83	6	140	29	22	13	34	1.92
38742835--38743017	45	4.1	45	77	2	156	25	24	19	31	1.98
38762679--38762734	24	2.3	25	81	6	69	39	0	3	57	1.16
38764011--38764086	23	3.3	23	88	0	116	26	18	25	30	1.98
38767851--38767885	17	2.1	17	88	0	52	17	40	17	25	1.90
38768557--38768751	38	5.2	38	88	0	266	33	31	18	15	1.93
38770737--38770766	15	2.0	15	100	0	60	40	6	0	53	1.27
38777407--38777475	25	2.8	25	80	2	77	31	20	27	20	1.97
38780617--38780700	30	2.8	31	89	7	122	33	23	3	39	1.72
38781305--38781397	24	3.8	24	76	19	93	73	0	26	0	0.84
38781308--38781400	7	12.3	7	73	17	53	74	0	25	0	0.82
38781308--38781399	13	7.2	13	80	6	73	73	0	26	0	0.83
38781788--38781817	16	1.9	16	93	6	53	36	3	0	60	1.14
38782308--38782357	17	2.9	17	90	0	82	24	12	10	54	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38782367--38782434	21	3.5	20	80	13	81	44	8	5	41	1.60
38782374--38782420	20	2.3	21	81	3	60	53	6	4	36	1.46
38782367--38782434	17	3.6	18	75	20	59	44	8	5	41	1.60
38782486--38782525	21	1.9	21	89	0	62	32	20	10	37	1.85
38782539--38782633	18	5.4	17	73	10	66	34	14	9	41	1.79
38782573--38782624	18	2.7	19	82	8	70	32	9	9	48	1.69
38787994--38788033	11	3.6	11	86	0	53	82	10	5	2	0.91
38787978--38788054	34	2.2	34	77	11	86	80	7	10	1	0.96
38787996--38788075	23	3.2	24	76	18	67	81	8	8	1	0.94
38788007--38788066	20	3.0	20	79	16	61	80	8	10	1	0.99
38788953--38790468	76	19.6	76	90	3	1954	27	16	19	36	1.93
38790677--38790761	30	2.9	31	89	6	124	34	23	2	40	1.68
38790689--38790816	59	2.2	59	80	9	136	33	23	4	38	1.76
38790662--38790816	30	5.2	29	76	9	107	32	23	3	40	1.73
38791365--38791453	13	6.9	13	73	16	78	74	0	25	0	0.82
38791369--38791441	38	1.9	37	84	13	96	71	0	28	0	0.87
38791364--38791452	6	14.5	6	74	9	81	74	0	25	0	0.82
38791771--38791800	11	2.6	12	89	10	53	83	0	16	0	0.65
38791853--38791882	16	1.9	16	93	6	53	36	3	0	60	1.14
38792372--38792417	17	2.7	17	93	0	74	26	10	10	52	1.69
38792431--38792499	18	3.6	19	78	9	77	42	8	7	42	1.63
38792548--38792590	21	2.0	21	90	0	68	39	18	9	32	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38792604--38792698	18	5.4	17	72	15	68	33	14	10	41	1.81
38792638--38792689	18	2.7	19	82	8	70	32	9	9	48	1.69
38796560--38797015	38	12.0	38	86	0	572	33	30	19	15	1.93
38803539--38803585	20	2.3	20	85	7	60	27	6	2	63	1.30
38806092--38806178	20	4.3	20	69	21	65	42	4	3	49	1.40
38813640--38813814	14	12.3	14	69	16	74	21	0	32	45	1.56
38813698--38813751	7	7.6	7	77	4	54	20	0	29	50	1.49
38813784--38813829	14	3.1	14	87	9	56	19	0	32	47	1.50
38813790--38813852	14	4.4	14	75	13	56	23	1	31	42	1.64
38813720--38813906	80	2.3	79	82	5	216	24	0	32	42	1.59
38818013--38818055	21	2.0	21	100	0	86	27	23	4	44	1.73
38818353--38818443	43	2.1	43	83	2	112	35	9	12	42	1.75
38818958--38819100	71	2.0	71	93	0	241	48	10	10	30	1.71
38820131--38820162	16	2.0	16	93	0	55	78	0	0	21	0.76
38820140--38820182	20	2.2	20	88	8	63	76	2	0	20	0.89
38820135--38820182	20	2.3	22	79	17	57	77	2	0	20	0.88
38821715--38821775	19	3.1	19	73	13	61	39	3	0	57	1.15
38821706--38821825	41	3.0	39	75	17	122	39	5	2	53	1.36
38822959--38823945	55	17.7	56	75	10	700	36	19	21	22	1.95
38822959--38823937	109	8.8	110	76	9	752	37	18	21	22	1.95
38825587--38825627	22	1.9	22	85	5	57	65	2	4	26	1.25
38825634--38825713	11	7.3	11	67	10	56	60	1	20	18	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38825667--38825714	16	2.9	16	78	3	51	68	2	12	16	1.29
38829885--38830138	108	2.4	105	80	6	275	22	24	19	34	1.97
38829893--38830156	52	5.0	52	76	8	230	23	23	20	32	1.97
38830265--38830413	52	2.9	52	78	11	144	23	23	17	35	1.95
38836504--38836554	17	2.7	18	82	14	59	64	1	0	33	1.05
38838645--38838675	3	10.0	3	93	6	53	32	0	0	67	0.91
38845092--38845194	46	2.3	45	93	3	172	29	24	14	32	1.95
38845092--38845208	46	2.6	46	87	2	157	29	23	14	33	1.94
38850262--38850304	23	1.9	22	90	4	68	58	6	4	30	1.45
38851814--38851915	31	3.4	29	75	15	93	21	9	16	51	1.73
38852774--38852839	35	1.9	33	87	6	96	36	9	9	45	1.68
38853845--38853871	2	13.5	2	100	0	54	0	48	0	51	1.00
38862220--38862267	21	2.3	20	75	10	51	72	2	16	8	1.18
38867506--38867530	8	3.1	8	100	0	50	76	0	0	24	0.80
38868130--38868176	22	2.1	22	88	0	67	38	6	8	46	1.60
38870232--38870258	5	5.4	5	100	0	54	81	0	0	18	0.69
38871171--38871215	16	3.1	15	84	12	58	55	8	0	35	1.31
38884557--38884625	23	3.2	23	62	26	60	46	7	14	31	1.72
38884546--38884629	41	2.0	41	100	0	168	46	7	14	32	1.71
38888645--38888695	23	2.2	23	89	0	75	43	21	7	27	1.80
38892366--38892483	59	2.0	61	88	3	177	50	3	3	42	1.35
38892775--38892818	13	3.4	13	77	0	52	38	15	4	40	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38895614--38895666	23	2.3	23	93	0	97	20	20	26	32	1.98
38897397--38897424	5	5.6	5	100	0	56	21	0	0	78	0.75
38899600--38899629	15	2.0	15	93	0	51	73	10	6	10	1.25
38902410--38902517	53	2.0	53	96	0	198	43	11	13	31	1.80
38904701--38904746	22	2.0	23	83	4	58	17	8	17	56	1.65
38910492--38910527	11	3.2	11	88	4	54	16	33	0	50	1.46
38910491--38910539	22	2.2	23	82	10	57	20	32	0	46	1.51
38910507--38910627	51	2.4	51	87	2	163	33	23	1	41	1.65
38911741--38911772	7	4.6	7	96	0	55	25	0	12	62	1.30
38911744--38911778	14	2.5	13	86	13	52	25	0	14	60	1.35
38912404--38912443	18	2.2	18	95	0	71	22	30	5	42	1.75
38912868--38912916	25	2.0	25	88	8	73	42	0	18	38	1.50
38912949--38913229	25	11.6	25	74	14	191	41	0	14	44	1.45
38912876--38913058	71	2.6	72	95	4	327	39	0	13	47	1.42
38912945--38913232	121	2.4	121	96	1	524	40	0	13	45	1.44
38913231--38913838	23	25.7	23	83	7	743	44	21	6	27	1.76
38913228--38913838	46	13.4	46	86	6	823	44	21	6	27	1.76
38913231--38913838	69	8.9	69	86	6	826	44	21	6	27	1.76
38913349--38913408	30	2.0	30	96	0	111	48	26	5	20	1.70
38913524--38913590	34	2.0	34	100	0	134	41	22	5	29	1.77
38917092--38917331	125	1.9	124	88	4	367	33	21	16	28	1.95
38917358--38917384	7	3.9	7	100	0	54	44	40	0	14	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38918294--38918322	13	2.2	13	100	0	58	20	10	20	48	1.79
38929388--38929480	43	2.2	42	82	3	116	32	18	15	34	1.92
38937086--38937129	23	1.9	23	100	0	88	45	9	22	22	1.80
38943648--38943701	19	2.8	21	75	16	62	40	0	0	59	0.98
38944218--38944242	6	4.2	6	100	0	50	84	0	0	16	0.63
38946104--38946153	26	2.0	24	84	7	64	46	0	0	54	1.00
38948786--38948849	24	2.7	24	87	0	83	48	10	4	35	1.59
38957205--38957242	16	2.3	17	95	4	69	21	63	5	10	1.46
38957905--38957951	23	2.0	23	91	0	76	40	2	23	34	1.67
38960882--38960924	6	7.0	6	81	5	50	16	4	13	65	1.43

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