genome.fa.s23.2.7.7.80.10.50.1000.184.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: D10
Parameters: 2 7 7 80 10 50 1000
Length:  67973905

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   

This is table  184  of  228  ( 27298 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)
54806459--54806521	25	2.6	24	76	14	67	57	0	0	42	0.99
54806492--54806583	48	1.9	48	82	8	116	54	10	0	34	1.36
54806715--54806748	17	2.0	17	94	0	59	26	0	2	70	1.01
54810194--54810225	16	2.0	16	100	0	64	31	12	6	50	1.65
54811480--54811513	17	2.0	17	94	0	59	44	14	5	35	1.70
54814752--54814797	24	1.9	24	95	0	83	52	19	0	28	1.47
54819315--54819348	17	2.0	17	100	0	68	23	17	17	41	1.90
54828083--54828184	25	4.1	25	80	7	109	21	31	15	31	1.95
54828096--54828198	50	2.1	50	84	0	134	21	30	16	32	1.95
54829303--54829336	17	2.0	17	100	0	68	5	23	23	47	1.73
54836814--54836856	22	1.9	22	85	4	59	53	4	0	41	1.21
54837146--54837185	20	2.0	20	85	0	53	32	20	2	45	1.64
54838629--54838669	15	2.7	15	84	0	55	65	14	14	4	1.42
54842884--54842921	19	2.0	19	85	10	51	42	0	15	42	1.47
54843390--54843419	14	2.1	14	100	0	60	73	0	6	20	1.05
54844712--54844819	23	4.9	23	76	7	73	18	17	25	38	1.92
54844758--54844805	21	2.3	21	92	0	78	14	27	29	29	1.95
54846088--54846249	28	5.8	28	74	7	130	24	17	3	54	1.57
54852886--54852939	24	2.2	24	80	0	63	40	3	5	50	1.44
54853586--54853678	28	3.4	28	81	1	89	24	12	7	54	1.64
54853568--54853686	28	4.2	28	76	3	87	21	16	8	53	1.69
54856226--54856461	90	2.6	90	83	0	301	27	24	14	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54856511--54856613	51	2.0	51	98	0	197	26	11	26	35	1.90
54857236--54857279	23	2.0	23	81	4	54	45	11	4	38	1.61
54858182--54858238	28	2.0	28	100	0	114	40	7	0	52	1.28
54859415--54859528	58	2.0	58	92	0	192	34	7	16	41	1.78
54859833--54859901	29	2.5	27	81	9	84	47	5	1	44	1.35
54860299--54860340	19	2.2	20	91	4	68	40	0	4	54	1.21
54869623--54869814	96	2.0	96	100	0	384	33	15	12	38	1.85
54871506--54871814	109	2.8	109	91	1	478	34	18	17	29	1.94
54871845--54871889	21	2.2	21	88	11	67	60	2	8	28	1.39
54874178--54874760	50	11.7	49	70	5	310	23	21	22	32	1.98
54874162--54874769	99	6.1	99	87	0	734	23	20	22	33	1.98
54880032--54880540	254	2.0	254	95	0	921	19	30	13	36	1.91
54886783--54887208	109	3.9	109	91	0	674	35	19	15	29	1.93
54887234--54887278	21	2.2	21	88	11	67	60	2	8	28	1.39
54887394--54887436	18	2.3	18	80	11	52	69	11	4	13	1.33
54888594--54888636	20	2.2	19	84	16	52	79	13	4	2	1.00
54889620--54889651	9	3.4	9	95	4	55	28	28	21	21	1.99
54897605--54897634	15	2.0	15	93	0	51	0	0	16	83	0.65
54900671--54900699	2	14.5	2	100	0	58	0	48	0	51	1.00
54900722--54900751	15	1.9	16	93	6	53	60	3	6	30	1.39
54902239--54902301	33	1.9	33	90	0	99	33	23	19	23	1.97
54905141--54905178	13	2.9	13	96	0	67	73	0	7	18	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54907110--54907134	5	5.0	5	100	0	50	20	0	0	80	0.72
54912246--54912286	22	1.9	22	90	5	66	34	7	7	51	1.58
54912355--54912389	17	2.0	18	88	5	54	60	2	0	37	1.12
54912996--54913040	19	2.4	18	81	7	54	55	2	8	33	1.43
54913004--54913049	21	2.2	22	77	14	53	45	2	6	45	1.41
54914050--54914078	10	2.9	10	100	0	58	20	20	27	31	1.98
54927126--54927158	17	1.9	18	88	11	52	42	9	0	48	1.35
54928750--54928934	101	1.8	102	84	3	257	24	16	25	33	1.96
54928746--54928932	51	3.7	50	76	4	169	24	16	26	33	1.96
54928943--54929029	45	1.9	45	92	0	147	26	16	24	33	1.95
54934223--54934361	59	2.4	58	86	7	201	38	12	29	18	1.88
54934502--54934608	33	3.2	33	71	15	85	48	12	18	20	1.80
54940216--54940247	16	2.0	16	93	0	55	53	0	6	40	1.26
54941872--54941972	49	2.1	47	82	14	118	19	23	19	36	1.95
54944569--54944618	16	3.1	16	85	2	55	42	8	12	38	1.71
54944757--54944796	3	13.3	3	100	0	80	35	0	0	65	0.93
54944988--54945019	5	6.4	5	100	0	64	21	0	0	78	0.76
54945039--54945070	12	2.6	13	90	9	50	37	0	0	62	0.95
54954602--54954633	5	6.4	5	92	0	55	25	18	15	40	1.90
54966943--54967120	27	6.6	27	82	3	178	30	28	14	26	1.95
54966943--54967120	54	3.3	55	82	3	200	30	28	14	26	1.95
54975032--54975209	27	6.6	27	84	3	205	29	28	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54975053--54975208	82	1.9	81	88	3	233	29	28	15	26	1.96
54975032--54975221	82	2.3	83	78	12	221	30	27	14	27	1.95
54981416--54981440	3	8.3	3	100	0	50	0	0	32	68	0.90
54999740--54999916	27	6.6	27	81	4	160	31	27	14	26	1.95
54999740--54999916	55	3.3	54	80	4	187	31	27	14	26	1.95
54999761--54999915	82	1.9	80	84	5	204	30	27	14	26	1.95
55007822--55007999	27	6.6	27	82	3	178	30	28	14	26	1.95
55007822--55007999	54	3.3	55	82	3	200	30	28	14	26	1.95
55011925--55011951	13	2.1	13	100	0	54	48	14	0	37	1.45
55016862--55017201	95	3.6	95	79	1	351	36	13	19	30	1.90
55016862--55017213	190	1.9	189	80	3	420	36	13	18	30	1.90
55017145--55017481	130	2.6	131	83	1	408	39	16	15	29	1.89
55021270--55021304	11	3.1	11	95	4	61	80	0	2	17	0.84
55023822--55023868	19	2.4	18	83	13	58	34	10	4	51	1.56
55047435--55047472	13	2.8	14	80	19	53	65	7	5	21	1.38
55047566--55047611	22	2.0	23	83	4	58	76	4	4	15	1.11
55048193--55048227	14	2.5	14	100	0	70	71	5	0	22	1.07
55048143--55048230	7	12.1	7	71	14	63	67	4	1	27	1.17
55051354--55051463	57	1.9	57	88	0	166	38	1	21	38	1.65
55053859--55053914	25	2.2	25	100	0	112	32	7	19	41	1.79
55061230--55061267	18	2.2	17	86	9	51	21	7	2	68	1.28
55065406--55065450	21	2.0	23	87	8	67	51	2	0	46	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55065517--55065542	13	2.0	13	100	0	52	53	0	0	46	1.00
55068446--55068562	2	58.5	2	78	6	85	41	2	54	1	1.24
55070447--55070498	24	2.2	23	83	12	70	7	23	13	55	1.63
55070450--55070498	25	2.0	26	92	8	84	8	24	14	53	1.68
55090404--55090620	112	1.9	112	93	0	371	27	16	22	33	1.96
55090924--55091408	87	5.6	86	79	6	382	34	13	10	42	1.78
55091094--55091387	85	3.4	83	82	9	292	34	13	11	40	1.81
55091589--55091764	91	1.9	93	82	6	225	46	11	11	31	1.75
55091611--55091908	87	3.4	87	78	8	271	45	10	10	33	1.72
55091900--55091924	13	1.9	13	100	0	50	36	8	0	56	1.29
55097927--55098248	31	10.4	31	75	8	273	46	13	4	34	1.66
55097927--55098267	92	3.7	91	83	4	382	46	13	5	34	1.67
55097927--55098332	92	4.4	89	79	7	350	45	15	6	32	1.71
55097927--55098335	31	13.3	31	72	12	207	45	15	6	32	1.71
55098418--55098703	91	3.1	90	70	9	263	42	20	7	29	1.80
55098262--55098783	184	2.8	184	92	1	821	42	20	8	28	1.81
55117859--55117935	3	26.3	3	80	10	61	31	1	6	61	1.30
55121407--55121471	9	7.0	9	75	17	62	35	0	0	64	0.94
55121406--55121471	29	2.4	27	82	10	80	36	0	0	63	0.95
55121410--55121457	10	4.9	10	82	12	55	35	0	0	64	0.94
55123135--55123168	17	1.9	18	88	5	52	70	2	17	8	1.25
55123557--55123590	17	2.0	17	94	0	59	38	0	5	55	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55129590--55129631	20	2.1	20	86	0	57	47	0	7	45	1.30
55139643--55139680	19	2.0	20	89	5	60	36	5	2	55	1.37
55144524--55144584	29	2.2	27	83	13	72	29	4	16	49	1.66
55145075--55145115	21	2.0	21	95	0	73	21	12	12	53	1.70
55146658--55146746	25	3.6	24	74	6	79	34	23	22	19	1.96
55146779--55146847	26	2.7	25	75	16	70	33	23	24	18	1.97
55146691--55146862	25	6.9	25	70	12	77	34	20	25	19	1.96
55148522--55148569	19	2.5	19	90	6	71	39	0	0	60	0.97
55148507--55148561	27	2.0	29	85	7	78	38	0	0	61	0.96
55148537--55148578	19	2.3	19	87	4	59	42	2	0	54	1.13

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