genome.fa.s4.2.7.7.80.10.50.1000.169.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  169  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)
55420823--55420859	18	2.1	18	89	0	56	43	8	18	29	1.79
55424755--55424779	7	3.6	7	100	0	50	60	12	0	28	1.32
55425705--55425756	25	2.1	24	86	10	70	69	3	0	26	1.06
55425926--55425994	30	2.3	30	89	0	102	39	4	26	30	1.75
55430732--55430938	75	2.8	75	88	2	292	34	22	15	27	1.94
55442050--55442160	7	16.1	7	95	2	199	72	0	13	13	1.11
55444519--55444563	22	2.0	22	95	0	81	20	26	11	42	1.85
55459757--55459931	75	2.3	75	79	2	192	23	20	21	34	1.96
55464116--55464291	46	3.8	46	79	14	209	20	20	29	29	1.98
55464113--55464284	93	1.8	93	95	2	310	20	20	29	28	1.98
55471861--55472090	113	2.0	114	88	0	345	32	18	13	35	1.90
55473155--55473232	40	2.0	40	86	0	111	32	33	15	19	1.93
55483918--55483967	21	2.4	21	93	0	82	22	26	26	26	2.00
55501247--55501298	27	1.9	27	88	7	79	32	23	23	21	1.98
55501446--55501488	22	2.0	22	85	0	59	32	23	27	16	1.96
55509367--55509426	27	2.2	27	88	5	86	25	13	25	36	1.92
55514113--55514209	43	2.3	43	83	3	124	26	15	22	35	1.94
55521591--55521706	43	2.7	43	80	0	133	29	15	24	31	1.95
55544948--55544988	19	2.2	19	86	8	57	53	7	4	34	1.50
55549352--55549570	46	4.7	46	75	9	158	22	28	19	28	1.98
55551818--55551848	16	1.9	16	100	0	62	35	0	6	58	1.24
55553660--55553700	15	2.8	14	92	3	64	12	2	7	78	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55561918--55562021	24	4.5	23	76	9	104	27	22	18	31	1.97
55561918--55562023	23	4.6	23	78	4	124	27	21	17	33	1.96
55566775--55567041	48	5.6	48	78	2	232	25	27	19	26	1.99
55566775--55567041	96	2.8	96	82	3	306	25	27	19	26	1.99
55566741--55567041	144	2.1	143	82	8	351	25	27	19	26	1.99
55567025--55567057	16	2.1	16	100	0	66	24	27	18	30	1.98
55571852--55571883	16	2.1	15	94	5	55	43	31	12	12	1.80
55572757--55572786	16	1.9	15	93	6	51	33	23	0	43	1.54
55572999--55573116	49	2.4	50	90	4	177	30	29	16	22	1.96
55572999--55573126	50	2.6	49	88	3	177	31	28	17	21	1.97
55574463--55574747	151	1.9	151	86	0	408	28	18	23	29	1.98
55574413--55574739	50	6.5	50	76	6	320	27	18	25	28	1.98
55576336--55576454	29	4.2	29	81	2	134	27	13	27	31	1.94
55586212--55586252	20	2.0	20	95	0	73	24	21	14	39	1.91
55586479--55586648	48	3.5	48	83	4	175	25	27	18	28	1.98
55586367--55586648	96	2.9	96	78	6	268	28	26	17	28	1.98
55586377--55586646	144	1.9	146	82	6	343	27	26	17	28	1.98
55586522--55586663	48	3.0	48	86	5	171	28	29	16	25	1.97
55589517--55589624	26	4.2	26	92	0	180	32	7	23	37	1.82
55591110--55591162	26	2.0	26	85	7	72	37	18	15	28	1.91
55595501--55595559	24	2.6	22	84	10	91	25	22	18	33	1.96
55595512--55595583	24	2.9	25	89	4	110	25	23	19	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55597938--55598093	78	2.0	78	97	0	294	29	6	31	32	1.83
55615089--55615280	40	4.8	40	88	1	199	27	27	20	24	1.99
55615060--55615279	80	2.8	80	78	4	221	28	27	20	24	1.99
55623832--55623897	28	2.4	28	92	2	107	27	27	9	36	1.87
55623828--55623906	28	2.8	29	88	3	101	29	25	10	35	1.88
55625885--55625921	17	2.1	18	85	14	51	54	2	10	32	1.49
55626207--55626474	3	91.0	3	66	12	94	60	5	7	26	1.46
55631386--55631413	14	2.0	14	100	0	56	50	21	0	28	1.49
55633200--55633237	19	2.0	20	89	5	60	28	0	18	52	1.45
55633340--55633484	50	3.0	48	84	5	184	29	16	27	26	1.97
55634718--55635076	47	7.6	47	73	10	236	22	29	19	28	1.98
55634758--55635071	94	3.4	93	81	7	343	23	29	19	28	1.98
55642363--55642664	47	6.4	47	74	11	228	24	28	19	27	1.98
55642401--55642708	94	3.3	91	77	11	293	24	29	18	27	1.98
55642401--55642715	47	6.8	45	69	15	137	24	29	18	27	1.98
55651463--55651701	50	4.8	50	82	3	259	30	18	26	24	1.98
55651463--55651678	100	2.2	98	86	3	299	30	18	27	24	1.98
55659304--55659456	28	5.5	28	91	1	229	31	29	13	25	1.94
55659304--55659456	83	1.8	83	88	2	236	31	29	13	25	1.94
55659303--55659481	56	3.2	55	88	2	232	31	30	13	25	1.94
55673203--55673246	22	2.0	22	86	0	61	72	2	0	25	0.96
55673203--55673260	23	2.6	21	77	20	55	72	3	0	24	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55678558--55678594	14	2.7	14	80	19	51	59	10	10	18	1.59
55691525--55691691	43	3.9	43	79	8	171	26	14	25	33	1.95
55706845--55706984	57	2.5	57	83	4	158	30	17	22	29	1.96
55707277--55707313	18	2.1	18	100	0	74	21	16	18	43	1.88
55707755--55707862	54	2.0	54	100	0	216	31	16	20	31	1.95
55713350--55713442	33	2.8	33	96	1	168	20	27	24	26	1.99
55713873--55713949	27	2.9	26	78	5	82	27	14	22	36	1.92
55713885--55713956	27	2.7	27	82	0	90	27	13	23	34	1.93
55721835--55721867	13	2.6	13	90	4	50	48	12	0	39	1.40
55728258--55728493	27	8.7	27	87	0	292	30	22	8	38	1.83
55728472--55728558	27	3.2	27	78	3	77	44	22	4	27	1.72
55728361--55728520	54	3.0	54	84	1	142	33	20	6	40	1.77
55728538--55728718	53	3.4	53	80	5	195	40	20	10	28	1.85
55728486--55728717	27	8.7	27	78	5	186	41	20	9	28	1.83
55728538--55728692	80	1.9	80	84	2	204	39	20	10	29	1.87
55728673--55728780	27	3.9	27	74	13	94	42	18	7	31	1.78
55728821--55728898	27	2.9	27	74	11	79	37	19	20	23	1.95
55729595--55729650	20	2.9	20	85	12	73	37	8	19	33	1.83
55729700--55729874	26	6.8	26	92	0	282	26	22	22	27	1.99
55729700--55729874	52	3.4	52	96	1	318	26	22	22	27	1.99
55730019--55730110	42	2.2	42	94	0	157	28	11	21	38	1.89
55738520--55738667	57	2.6	58	77	8	160	27	16	22	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55738873--55738919	23	2.1	22	84	11	60	44	4	19	31	1.70
55741941--55742166	40	5.7	39	88	3	292	24	28	22	24	2.00
55744169--55744209	20	2.0	20	100	0	82	58	0	21	19	1.39
55744679--55744801	43	2.9	43	82	2	131	27	16	24	31	1.96
55748286--55748331	15	3.2	15	81	6	51	58	0	4	36	1.18
55751685--55751734	23	2.2	23	82	7	57	24	32	10	34	1.88
55760583--55760691	37	2.9	37	95	0	191	26	31	19	22	1.98
55760837--55761020	98	1.9	96	91	4	298	29	26	6	36	1.82
55760837--55761021	48	3.8	48	89	4	282	30	26	6	36	1.82
55760837--55761149	94	3.3	96	83	8	297	27	27	9	34	1.88
55760943--55761184	47	5.1	47	88	2	299	26	28	10	34	1.89
55761084--55761155	22	3.1	22	64	24	58	23	29	13	33	1.93
55761106--55761185	25	3.3	25	66	16	69	30	27	8	33	1.87
55765465--55765522	30	1.9	30	85	0	80	34	12	24	29	1.91
55765914--55766130	48	4.6	46	77	10	199	27	21	29	22	1.99
55766909--55767028	55	2.2	55	84	0	159	19	20	35	25	1.95
55769513--55769767	65	4.0	64	83	2	305	34	13	17	34	1.89
55773005--55773069	33	2.0	32	85	11	89	64	13	7	13	1.48
55773125--55773198	35	2.1	35	87	5	105	18	28	21	31	1.97
55778498--55778537	21	2.0	21	85	5	55	22	27	40	10	1.86
55779710--55779891	96	1.9	98	86	5	262	23	32	19	24	1.97
55779710--55779932	96	2.3	95	82	8	251	24	32	18	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55779756--55780070	46	6.7	46	78	10	234	24	29	17	28	1.97
55779807--55780073	92	2.9	92	78	9	265	23	29	17	28	1.97
55779711--55780070	138	2.5	142	80	7	342	23	30	17	28	1.97
55780889--55781025	39	3.5	39	89	2	204	24	23	21	29	1.99
55790698--55790959	46	5.6	45	80	12	221	24	30	16	28	1.97
55790698--55790967	92	2.9	91	81	9	307	24	30	16	27	1.97
55790603--55790959	138	2.5	142	80	8	336	24	29	17	29	1.97
55791028--55791059	15	2.1	15	100	0	64	34	18	0	46	1.49
55794048--55794087	20	2.0	20	100	0	80	25	0	5	70	1.08
55794973--55795046	37	2.0	38	84	7	98	32	8	24	35	1.85

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