genome.fa.s26.2.7.7.80.10.50.1000.12.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: D13
Parameters: 2 7 7 80 10 50 1000
Length:  64892201

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   

This is table  12  of  221  ( 26413 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)
3987213--3987261	25	2.0	24	84	11	64	46	0	2	51	1.12
3987222--3987265	21	2.1	21	87	8	63	47	0	0	52	1.00
3987226--3987275	18	2.6	19	80	20	59	44	0	0	56	0.99
3990664--3990692	6	4.8	6	100	0	58	65	0	0	34	0.93
3990677--3990732	22	2.5	23	82	2	69	51	1	1	44	1.22
3990708--3990747	16	2.5	16	91	0	62	47	2	7	42	1.45
3990736--3990878	68	2.1	67	94	2	261	41	4	9	45	1.55
3990820--3990847	9	3.1	9	100	0	56	32	0	10	57	1.33
3991213--3991265	19	2.9	18	83	8	63	66	0	0	33	0.92
3993976--3994077	30	3.4	30	84	2	125	29	22	3	44	1.71
3995301--3995340	17	2.4	17	83	8	55	40	15	5	40	1.68
3995396--3995444	16	3.0	16	83	16	73	30	14	12	42	1.82
3995476--3995586	18	6.4	17	80	11	93	33	10	10	45	1.74
3995508--3995585	17	4.5	17	82	7	86	29	12	10	47	1.75
3999285--3999343	16	3.7	16	81	4	75	84	3	10	1	0.80
3999285--3999344	22	2.7	22	82	7	59	85	3	10	1	0.79
4001529--4001717	72	2.7	72	89	3	269	30	14	19	35	1.92
4001717--4002050	72	4.8	72	89	5	474	30	15	18	35	1.92
4002054--4002289	72	3.2	71	88	5	337	32	15	18	33	1.92
4002054--4002288	75	3.2	72	88	7	350	31	15	18	34	1.92
4002201--4002726	145	4.0	128	77	13	443	30	15	18	35	1.93
4002462--4002751	145	2.0	146	94	2	512	30	17	18	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4002454--4002760	73	4.2	73	92	3	505	29	16	17	36	1.92
4002671--4002990	87	3.6	87	79	11	348	26	18	18	36	1.94
4002942--4003315	54	6.9	54	94	1	644	28	15	18	37	1.91
4003589--4003690	30	3.4	30	84	2	125	29	22	3	44	1.71
4004912--4004951	17	2.4	17	83	8	55	40	15	5	40	1.68
4005006--4005054	16	3.0	16	83	16	73	30	14	12	42	1.82
4005053--4005101	20	2.4	20	82	3	62	34	14	14	36	1.86
4005052--4005144	19	4.8	18	72	15	60	34	11	11	41	1.78
4005052--4005109	21	2.9	19	78	12	62	39	12	13	34	1.82
4005086--4005196	18	6.4	17	80	11	93	32	10	11	45	1.75
4005118--4005195	17	4.5	17	82	7	86	29	12	10	47	1.75
4007197--4007221	9	2.8	9	100	0	50	60	0	8	32	1.26
4012007--4012190	42	4.3	42	80	1	188	37	22	16	22	1.94
4012111--4012205	43	2.2	43	86	0	118	36	28	14	20	1.92
4012607--4012676	35	2.0	35	97	0	131	44	20	10	25	1.82
4013208--4013251	22	2.0	21	82	4	52	40	9	0	50	1.34
4013755--4013779	13	1.9	13	100	0	50	28	0	8	64	1.22
4015809--4016083	41	6.6	40	76	7	226	37	25	14	23	1.92
4015805--4016042	84	2.8	84	90	0	377	38	25	14	21	1.91
4032230--4032286	25	2.3	25	87	0	78	21	22	19	36	1.95
4034311--4034394	33	2.6	33	88	1	125	52	2	16	28	1.56
4037255--4037357	45	2.3	45	93	0	170	32	20	3	43	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4039983--4040013	15	2.1	15	100	0	62	48	0	32	19	1.49
4044032--4044068	7	5.3	7	90	0	56	59	0	16	24	1.37
4049704--4049768	4	16.2	4	90	0	94	43	26	1	29	1.64
4052138--4052178	17	2.4	18	88	12	68	0	17	2	80	0.82
4052129--4052178	6	8.3	6	76	24	52	0	18	2	80	0.82
4052134--4052179	17	2.9	16	90	6	67	0	19	2	78	0.86
4056568--4056624	3	19.0	3	96	0	105	33	31	0	35	1.58
4059790--4059840	27	1.9	27	88	4	77	64	1	5	27	1.27
4063104--4063135	12	2.6	13	90	9	50	28	21	0	50	1.49
4064867--4065113	122	2.0	122	100	0	494	27	32	21	18	1.97
4065221--4065276	25	2.3	24	76	11	60	41	0	5	53	1.24
4070062--4070111	25	2.0	25	96	0	91	54	0	10	36	1.34
4071919--4071970	24	2.2	24	89	0	77	55	9	1	32	1.43
4073889--4073940	24	2.2	24	89	0	77	55	9	1	32	1.43
4076435--4076465	12	2.6	12	89	0	53	51	22	19	6	1.69
4080705--4080734	12	2.5	12	94	0	51	26	46	26	0	1.53
4081544--4081574	12	2.6	12	89	0	53	51	22	19	6	1.69
4081970--4082192	43	5.2	43	85	1	268	25	26	18	30	1.98
4084302--4084418	9	13.9	9	64	16	54	32	4	21	41	1.72
4084280--4084348	29	2.3	31	82	12	81	31	0	20	47	1.50
4084300--4084391	25	3.7	24	71	17	80	33	2	20	43	1.64
4084335--4084476	29	4.6	29	77	12	131	29	4	23	42	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4084402--4084476	29	2.6	29	97	0	141	28	2	22	46	1.65
4084306--4084479	16	11.0	16	66	14	101	30	3	22	43	1.70
4084459--4084522	25	2.9	22	77	13	69	25	3	21	50	1.64
4084387--4084599	83	2.7	78	76	13	193	27	4	20	47	1.69
4084551--4084585	16	2.2	16	100	0	70	25	0	17	57	1.40
4087972--4088025	15	3.7	15	80	2	56	35	44	0	20	1.52
4088431--4088680	74	3.4	73	87	2	331	27	26	20	26	1.99
4088598--4088911	114	2.8	114	88	0	432	28	28	18	24	1.98
4088812--4088947	72	1.9	72	86	3	193	26	26	22	24	2.00
4088972--4089058	39	2.2	41	82	12	101	28	20	18	32	1.96
4106807--4106847	21	2.0	21	85	0	55	7	12	46	34	1.69
4108624--4108668	18	2.5	18	82	10	56	64	2	2	31	1.18
4108779--4108818	11	3.6	11	86	6	55	52	0	25	22	1.47
4115727--4115969	50	4.8	50	90	2	371	20	29	23	26	1.99
4116064--4116093	13	2.3	13	94	0	51	50	13	3	33	1.58
4117013--4117060	21	2.4	19	80	19	53	33	6	8	52	1.57
4117037--4117474	17	24.6	18	68	15	105	44	10	11	33	1.74
4117037--4117085	18	2.8	18	87	6	57	42	10	12	34	1.76
4117228--4117309	22	4.1	20	83	13	89	43	8	7	40	1.63
4117228--4117309	21	4.1	20	83	11	98	43	8	7	40	1.63
4117428--4117483	18	3.1	19	76	7	62	41	14	10	33	1.80
4117478--4117528	18	2.9	17	77	8	57	47	7	9	35	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4118022--4118098	7	10.1	7	80	19	84	0	18	0	81	0.68
4118030--4118098	15	4.5	15	87	7	95	0	17	0	82	0.67
4118021--4118098	24	3.3	23	82	13	97	0	17	0	82	0.68
4118232--4118256	12	2.1	12	100	0	50	0	8	8	84	0.79
4118390--4118435	3	15.0	3	82	13	58	0	36	0	63	0.95
4118404--4118432	10	2.9	10	100	0	58	0	37	0	62	0.96
4118390--4118435	13	3.7	13	81	18	62	0	36	0	63	0.95
4118491--4118540	10	5.2	10	80	7	59	0	30	0	70	0.88
4118495--4118537	19	2.3	19	88	11	63	0	30	0	69	0.88
4118784--4118900	30	3.9	29	77	11	94	44	3	21	30	1.69
4118799--4118900	30	3.4	30	83	2	125	44	3	21	30	1.70
4119173--4119422	53	4.7	54	89	6	377	35	18	15	30	1.92
4119434--4119465	13	2.5	13	100	0	64	68	9	9	12	1.39
4119548--4120591	71	14.8	72	94	4	1773	33	18	17	30	1.94
4119548--4120591	145	7.4	143	93	4	1774	33	18	17	30	1.94
4119544--4120591	216	5.0	215	94	4	1829	33	18	17	30	1.94
4137153--4137278	30	4.2	30	81	4	130	35	16	6	41	1.74
4137625--4137664	3	13.0	3	89	5	62	65	0	35	0	0.93
4137654--4137687	17	1.9	18	88	5	52	82	0	17	0	0.67
4137760--4137810	20	2.6	19	87	12	68	78	5	11	3	1.06
4137944--4137995	5	10.2	5	77	10	52	82	0	17	0	0.66
4137946--4138036	10	9.5	10	80	5	55	80	0	19	0	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4137946--4138036	11	7.5	11	71	22	58	80	0	19	0	0.72
4137944--4138037	26	3.4	29	80	11	99	78	0	21	0	0.75
4137955--4138009	25	2.2	24	81	12	67	80	0	20	0	0.72
4137944--4138038	17	5.7	17	68	21	67	77	0	22	0	0.76
4138197--4138239	21	2.0	21	81	0	50	34	0	2	62	1.08
4138349--4138412	18	3.5	18	71	12	58	39	12	7	40	1.72
4138352--4138418	20	3.5	20	69	19	61	40	11	7	40	1.70
4138588--4138893	18	17.2	17	71	12	172	31	12	11	45	1.77
4138595--4138660	34	1.9	35	90	3	107	25	13	13	46	1.80
4138582--4138894	35	8.8	36	74	10	209	30	12	11	45	1.77

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