genome.fa.s26.2.7.7.80.10.50.1000.185.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  185  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)
54894440--54894504	20	3.4	19	76	14	62	24	16	0	58	1.38
54894452--54894508	21	2.8	21	71	23	59	24	14	0	61	1.33
54894459--54894543	38	2.4	36	81	14	97	20	10	2	67	1.32
54894565--54894651	5	16.4	5	74	19	61	29	19	0	50	1.48
54894567--54894605	19	2.1	19	90	0	60	28	23	0	48	1.51
54894592--54894652	23	2.7	22	80	12	70	32	18	0	49	1.48
54894587--54894651	28	2.3	28	89	5	96	30	18	0	50	1.47
54894586--54894651	11	6.0	11	74	19	50	30	18	0	51	1.46
54894978--54895044	29	2.3	29	81	0	80	17	32	23	25	1.97
54895072--54895208	5	25.6	5	76	11	105	17	21	1	59	1.45
54895061--54895119	17	3.4	16	81	11	64	13	16	0	69	1.19
54895072--54895208	22	6.6	22	75	15	130	17	21	1	59	1.45
54895072--54895192	38	3.1	38	92	3	188	17	22	1	58	1.47
54895071--54895208	6	24.5	6	69	19	52	17	21	1	60	1.44
54895223--54895441	26	9.0	26	66	21	118	22	13	0	63	1.36
54895198--54895398	47	4.3	47	87	5	266	22	12	0	63	1.35
54895198--54895398	93	2.2	92	88	0	303	22	12	0	63	1.35
54895397--54895445	21	2.3	23	79	13	59	22	14	0	63	1.30
54895553--54895593	15	2.8	16	88	7	52	24	14	0	60	1.34
54895565--54895595	15	2.1	15	100	0	62	19	12	0	67	1.22
54895882--54895953	5	13.6	5	73	13	56	16	23	2	56	1.53
54895882--54895953	12	6.7	11	80	13	80	16	23	2	56	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54895896--54895953	6	10.3	6	73	12	52	17	24	3	55	1.57
54895896--54895953	23	2.6	23	86	8	52	17	24	3	55	1.57
54895946--54896165	22	9.4	22	70	21	128	21	12	0	65	1.31
54895944--54896151	27	8.4	27	66	21	93	22	12	0	63	1.34
54895962--54895997	17	2.2	17	90	5	56	13	11	0	75	1.06
54895993--54896171	47	3.7	48	87	8	256	22	12	1	63	1.35
54896088--54896144	28	2.0	27	86	10	78	22	12	1	63	1.38
54896132--54896171	20	2.0	20	85	9	55	17	12	2	67	1.33
54899616--54899655	3	13.0	3	89	5	62	62	0	2	35	1.09
54900307--54900353	19	2.6	18	76	6	51	76	0	14	8	1.01
54902063--54902407	96	3.5	97	75	11	330	38	17	16	27	1.91
54902038--54902402	198	1.9	191	84	7	493	37	17	15	29	1.91
54905542--54905604	30	2.1	30	93	0	108	25	3	14	57	1.52
54905714--54905767	23	2.4	24	79	17	62	59	0	0	40	0.98
54908676--54908707	16	2.0	16	93	0	55	46	0	12	40	1.42
54919743--54919798	20	2.8	20	86	0	76	41	8	7	42	1.63
54919807--54919883	40	1.9	40	83	0	100	38	16	9	35	1.81
54919998--54920111	20	5.7	20	71	8	97	40	8	14	36	1.76
54919998--54920111	60	1.9	60	83	3	149	40	8	14	36	1.76
54920212--54920313	20	5.0	19	75	15	89	36	5	15	42	1.72
54920518--54920620	20	5.2	20	69	13	61	41	5	8	43	1.59
54920518--54920623	40	2.7	40	82	5	108	41	5	8	44	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54925735--54925769	12	2.7	13	91	8	54	0	14	0	85	0.59
54926793--54926835	17	2.5	17	80	0	59	76	2	6	13	1.08
54932041--54932085	24	2.0	23	86	8	65	51	2	0	46	1.13
54938185--54938234	15	3.4	14	89	10	73	48	38	0	14	1.44
54938185--54938234	7	6.7	7	88	11	73	48	38	0	14	1.44
54944497--54944539	19	2.2	20	84	12	54	55	6	6	30	1.53
54944496--54944540	20	2.2	21	77	18	51	57	6	6	28	1.50
54958458--54958534	27	2.8	27	84	2	100	53	6	2	37	1.41
54958458--54958554	28	3.5	28	80	4	99	50	7	4	38	1.49
54961571--54961603	12	2.8	12	86	4	50	30	3	0	66	1.06
54963027--54964378	674	2.0	674	97	0	2542	31	16	20	31	1.95
54964363--54964415	24	2.2	25	86	3	72	26	22	7	43	1.80
54967150--54967217	9	7.8	9	79	12	61	82	13	2	1	0.86
54967148--54967216	28	2.5	28	88	4	97	84	11	2	1	0.81
54967149--54967216	18	3.8	17	80	7	73	83	11	2	1	0.82
54967646--54967696	12	4.2	12	78	7	50	82	3	13	0	0.81
54967647--54967688	8	5.2	8	80	11	50	83	2	14	0	0.75
54968700--54968745	24	1.9	24	90	0	74	36	13	19	30	1.90
54969092--54969719	50	12.6	50	69	5	356	32	21	20	26	1.98
54969075--54969719	100	6.5	100	83	0	790	32	21	20	25	1.98
54969066--54969719	200	3.3	200	89	0	988	32	21	20	25	1.98
54969784--54970356	44	13.8	40	69	14	214	31	22	20	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54969730--54970357	127	5.0	127	87	4	889	32	22	20	24	1.98
54969738--54970357	250	2.5	250	89	2	931	31	23	20	24	1.98
54972044--54972076	12	2.8	12	86	4	50	30	3	0	66	1.06
54974224--54974335	45	2.5	45	86	0	152	16	23	16	43	1.87
54983680--54983744	3	21.0	3	72	12	51	29	7	1	61	1.33
54986192--54986235	21	2.2	20	87	4	61	38	0	27	34	1.57
54988008--54988080	25	2.9	25	93	2	119	30	19	27	23	1.98
54988006--54988120	25	4.6	27	84	8	93	33	17	24	25	1.96
54988008--54988124	48	2.4	51	78	11	118	32	17	25	23	1.97
54991092--54991131	11	3.7	11	86	3	55	72	0	27	0	0.85
54995429--54995524	42	2.3	42	92	0	156	37	11	26	25	1.89
54997582--54997606	7	3.6	7	100	0	50	28	0	12	60	1.32
54998258--54998294	18	2.1	18	94	0	65	24	29	8	37	1.84
54998552--54998600	21	2.3	21	79	6	55	32	36	28	2	1.69
54998721--54998844	25	5.1	25	74	14	134	42	0	15	41	1.46
54998889--54999073	23	7.6	24	82	12	218	50	20	3	25	1.63
54998901--54999127	23	10.0	23	76	15	199	49	22	3	25	1.64
54998911--54999127	46	4.8	46	79	13	259	49	23	2	25	1.62
54998889--54999081	97	2.0	97	96	0	359	49	21	3	25	1.64
54999055--54999088	16	2.1	16	88	0	50	50	23	0	26	1.50
54999009--54999127	62	1.9	62	94	0	211	48	24	1	25	1.60
54999095--54999158	29	2.2	29	83	10	78	43	35	0	20	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54999113--54999161	16	3.2	16	73	26	61	42	36	0	20	1.52
54999250--54999293	20	2.2	20	100	0	88	45	9	9	36	1.68
54999161--54999408	135	1.8	135	88	6	385	41	10	7	40	1.66
55000537--55001744	604	2.0	604	98	0	2344	27	24	20	26	1.99
55003022--55003387	123	2.9	125	88	3	522	33	18	15	32	1.92
55009142--55009170	3	9.7	3	100	0	58	31	0	0	68	0.89
55013334--55013369	16	2.3	16	90	4	56	50	16	0	33	1.46
55016282--55016523	50	4.8	50	84	0	322	25	21	32	21	1.98
55016281--55016549	50	5.4	50	81	1	306	26	21	30	21	1.99
55016281--55016562	150	1.9	150	84	0	375	26	21	30	21	1.99
55023548--55023616	3	23.0	3	80	0	75	33	7	1	57	1.35
55023557--55023613	21	2.7	21	94	0	96	35	8	0	56	1.31
55026839--55026868	11	2.6	11	94	5	51	60	0	3	36	1.14
55026873--55026905	7	4.7	7	100	0	66	87	0	0	12	0.53
55033389--55033432	22	2.0	22	82	8	54	34	2	0	63	1.07
55041151--55041209	29	2.0	29	100	0	118	25	0	16	57	1.39
55041929--55041966	19	2.0	20	89	5	60	55	5	2	36	1.37
55042176--55042234	26	2.3	26	100	0	118	20	25	32	22	1.98
55042186--55042243	26	2.5	23	86	13	75	24	24	32	18	1.97
55043241--55043290	6	8.2	6	93	2	73	36	44	0	20	1.52
55043888--55043957	7	9.4	7	80	10	50	51	31	0	17	1.45
55043888--55043957	15	4.7	14	82	7	59	51	31	0	17	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55044266--55044295	12	2.5	12	94	0	51	60	3	10	26	1.45
55044289--55044354	12	5.4	12	72	15	55	66	1	1	30	1.10
55044286--55044324	15	2.7	14	78	21	53	64	0	0	35	0.94
55045687--55046284	143	4.2	143	90	0	901	28	22	19	29	1.98
55045922--55046285	45	7.7	45	69	15	216	27	23	20	28	1.99
55045917--55046177	44	5.7	44	70	10	162	26	24	20	29	1.99
55048181--55048266	45	1.9	45	92	0	145	33	22	16	27	1.95
55049554--55049720	45	3.7	46	79	9	166	27	22	18	31	1.97
55049549--55049720	90	1.9	90	81	2	211	26	22	18	31	1.97
55050901--55050942	16	2.6	17	85	7	52	9	9	0	80	0.89

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