genome.fa.s4.2.7.7.80.10.50.1000.160.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   

This is table  160  of  255  ( 30512 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)
52363661--52363697	19	1.9	19	88	0	56	32	0	35	32	1.58
52368263--52368298	18	2.0	18	88	0	54	30	22	8	38	1.83
52370287--52370490	40	5.1	40	89	1	293	26	27	22	23	1.99
52389156--52389332	35	5.0	35	75	4	151	28	11	18	40	1.86
52394223--52394356	46	2.9	46	78	5	162	21	20	29	27	1.98
52397279--52397358	15	5.4	15	77	7	83	10	18	13	57	1.64
52397270--52397357	30	3.0	30	80	11	92	10	18	15	55	1.68
52399057--52399107	25	2.0	25	100	0	102	43	0	15	41	1.47
52400985--52401117	46	2.9	43	76	11	131	28	28	20	22	1.98
52400989--52401132	46	3.1	44	70	21	107	29	27	20	22	1.98
52403305--52403495	40	4.8	40	78	10	176	25	28	23	23	1.99
52403312--52403495	79	2.3	79	83	8	214	26	27	23	22	2.00
52411394--52411610	40	5.5	40	81	6	228	24	29	22	23	1.99
52415718--52415775	30	2.0	30	96	3	109	25	17	25	31	1.97
52418458--52418627	40	4.3	40	83	0	189	25	30	20	24	1.99
52418458--52418604	79	1.9	80	83	1	197	25	29	19	24	1.98
52426872--52426954	38	2.2	38	85	6	107	26	24	25	24	2.00
52428570--52428606	19	1.9	19	88	0	56	40	8	8	43	1.64
52429811--52429880	32	2.3	31	76	18	76	10	31	11	47	1.73
52433007--52433071	21	3.1	21	65	12	53	21	35	10	32	1.88
52432992--52433087	41	2.3	41	87	3	131	28	29	12	30	1.93
52445384--52445463	40	2.0	40	92	0	133	42	3	27	26	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52446434--52446475	22	2.0	21	95	4	75	14	40	23	21	1.90
52447367--52447414	20	2.4	20	100	0	96	43	14	22	18	1.87
52448504--52448563	31	1.9	31	83	12	79	35	8	18	38	1.81
52453053--52453197	40	3.6	40	85	4	193	23	26	24	25	2.00
52454384--52454459	38	2.0	38	97	0	143	31	22	13	32	1.92
52456963--52457078	51	2.3	51	80	5	119	29	28	12	29	1.94
52457018--52457130	51	2.2	51	80	4	129	28	24	17	29	1.97
52463827--52463873	24	2.0	24	100	0	94	53	8	8	29	1.61
52464660--52464833	50	3.4	50	80	4	161	31	26	17	24	1.97
52464700--52464833	52	2.6	50	82	4	153	32	26	14	25	1.95
52467739--52467797	6	10.5	6	78	14	72	37	0	11	50	1.39
52467747--52467797	10	5.3	10	88	9	70	37	0	11	50	1.39
52467738--52467793	22	2.5	22	97	0	103	39	0	10	50	1.37
52469443--52469625	25	7.3	25	70	20	123	21	16	24	37	1.93
52469432--52469706	50	5.5	50	78	6	252	24	16	21	38	1.92
52471306--52471345	18	2.2	18	86	8	55	60	0	7	32	1.25
52473148--52473183	18	2.0	18	100	0	72	44	0	27	27	1.55
52479381--52479444	28	2.3	28	86	5	94	31	31	7	29	1.86
52479550--52479639	27	3.2	28	78	7	94	18	25	23	32	1.97
52479560--52479650	27	3.2	28	79	4	76	20	27	19	31	1.97
52480103--52480141	19	2.1	19	85	0	51	15	5	7	71	1.26
52480514--52480589	38	2.0	38	94	0	134	22	22	27	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52487294--52487357	28	2.3	28	83	5	85	31	32	7	28	1.85
52487473--52487544	27	2.6	27	77	4	81	22	25	19	33	1.97
52487473--52487563	27	3.2	28	76	4	76	21	25	19	32	1.97
52490642--52490997	47	7.8	48	72	17	172	26	17	30	25	1.97
52501653--52501706	1	54.0	1	100	0	108	0	0	0	100	0.00
52501850--52501884	17	2.0	18	88	5	54	65	0	5	28	1.15
52505572--52505840	39	6.9	39	96	0	486	18	23	29	28	1.97
52510222--52510397	46	3.8	46	79	4	201	22	21	28	28	1.99
52510218--52510389	93	1.8	93	92	0	290	22	21	29	27	1.99
52513349--52513398	15	3.4	15	83	8	59	10	16	12	62	1.55
52515795--52515925	46	2.8	48	75	16	148	22	19	28	29	1.98
52518381--52518417	17	2.2	17	100	0	74	32	40	10	16	1.83
52521755--52522275	262	2.0	258	92	2	873	33	24	16	25	1.96
52524382--52524476	39	2.5	38	78	8	104	43	5	6	45	1.52
52527515--52527750	125	1.9	123	89	1	364	27	19	16	37	1.93
52527540--52527777	125	1.9	124	85	4	309	28	19	13	38	1.90
52527775--52527953	64	2.8	63	83	6	225	44	10	1	43	1.46
52527989--52528029	16	2.8	15	89	10	59	46	31	0	21	1.52
52527992--52528038	13	3.4	13	88	8	58	44	36	0	19	1.51
52531129--52531289	44	3.5	47	76	8	161	24	27	20	27	1.99
52538798--52538961	49	3.5	48	73	14	144	28	27	15	28	1.96
52540793--52540865	36	2.0	36	97	0	137	32	20	10	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52552944--52552994	25	2.0	25	100	0	102	52	3	11	31	1.56
52556309--52556597	54	5.4	54	85	0	346	30	22	7	39	1.81
52556334--52556587	27	9.4	27	87	0	330	29	21	7	41	1.80
52556289--52556689	27	14.9	27	81	2	142	34	21	6	37	1.81
52557809--52557922	42	2.7	42	78	2	113	34	24	12	28	1.92
52561424--52561507	37	2.3	37	85	6	109	23	27	17	30	1.97
52561481--52561614	42	3.2	42	76	2	108	29	26	17	26	1.98
52561561--52561748	48	3.9	48	87	2	261	29	24	18	28	1.98
52561523--52561748	96	2.4	90	79	8	263	30	25	17	27	1.97
52569957--52569990	13	2.6	13	95	0	59	47	20	0	32	1.51
52570498--52570536	17	2.2	17	86	4	51	58	2	0	38	1.12
52570783--52570823	21	2.0	21	85	0	55	26	14	9	48	1.75
52572810--52573112	46	6.5	46	75	11	217	27	17	31	23	1.97
52572810--52573163	138	2.5	140	77	10	341	26	18	31	23	1.97
52580281--52580504	40	5.7	40	82	9	239	25	27	22	25	2.00
52580281--52580504	79	2.8	78	81	9	256	25	27	22	25	2.00
52580281--52580504	39	5.7	40	84	8	257	25	27	22	25	2.00
52597605--52597657	23	2.4	22	76	20	56	9	18	1	69	1.25
52600795--52600848	20	2.7	20	82	0	63	24	20	18	37	1.94
52600795--52600868	30	2.5	31	82	12	93	22	20	17	39	1.92
52600795--52600869	20	3.8	20	73	16	57	22	20	17	40	1.92
52602369--52602404	11	3.3	11	92	7	56	75	8	2	13	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52603428--52603564	12	11.4	12	69	16	52	67	2	20	8	1.30
52603464--52603567	18	5.6	18	75	5	82	71	3	18	6	1.24
52603460--52603567	6	17.7	6	70	6	74	71	3	18	6	1.23
52603528--52603565	13	2.8	13	82	17	51	73	0	18	7	1.06
52603529--52603579	21	2.4	21	74	6	50	74	1	17	5	1.11
52612749--52612801	23	2.4	22	76	20	56	9	18	1	69	1.25
52616447--52616498	27	1.9	27	88	0	77	30	3	11	53	1.54
52617113--52617158	20	2.3	20	84	0	56	23	19	17	39	1.92
52617105--52617178	30	2.5	30	84	8	80	22	20	18	37	1.94
52618762--52618792	10	3.0	10	95	4	53	77	9	3	9	1.10
52618763--52618845	12	6.7	12	71	24	50	72	6	8	13	1.27
52619897--52620037	42	3.5	38	75	18	124	69	3	19	7	1.28
52619910--52620017	6	17.7	6	67	10	58	71	3	18	6	1.23
52619978--52620015	13	2.8	13	82	17	51	73	0	18	7	1.06
52619877--52620015	12	11.6	12	69	16	65	69	2	20	7	1.27
52619979--52620029	21	2.4	21	74	6	50	74	1	17	5	1.11
52620032--52620094	33	1.9	33	84	12	85	53	6	26	12	1.62
52621384--52621430	22	2.1	22	96	0	85	31	4	40	23	1.74
52622610--52622636	4	6.8	4	100	0	54	22	0	0	77	0.76
52632452--52632506	10	5.0	11	72	14	51	16	9	1	72	1.18
52632455--52632507	24	2.3	24	80	6	65	13	7	1	77	1.06
52632646--52632682	19	2.0	18	89	5	56	18	24	13	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52635429--52635475	23	2.1	23	84	7	62	51	12	4	31	1.59
52639456--52639501	23	2.0	22	95	4	83	73	8	2	15	1.16
52639455--52639499	11	4.0	11	88	5	72	73	8	2	15	1.18
52639458--52639502	12	3.8	12	85	14	67	75	6	2	15	1.11
52641874--52641917	22	2.0	22	95	0	79	25	36	4	34	1.76
52659316--52659356	21	2.1	19	86	9	55	58	7	7	26	1.51
52669511--52669641	68	1.9	68	93	0	226	25	20	12	41	1.87
52669474--52669651	68	2.6	68	83	5	225	24	19	14	41	1.89
52682889--52683002	57	2.0	57	94	0	201	31	11	21	35	1.89
52685980--52686026	17	2.6	18	86	6	60	23	25	12	38	1.90

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