genome.fa.s4.2.7.7.80.10.50.1000.168.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  168  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)
55088166--55088238	22	3.2	23	72	20	80	36	5	12	45	1.65
55088162--55088232	23	3.1	23	73	18	85	35	7	11	46	1.67
55088568--55088606	20	1.9	20	89	5	60	23	2	7	66	1.30
55093989--55094029	21	2.0	21	90	0	64	29	21	29	19	1.98
55097556--55097616	32	1.9	32	100	0	122	45	11	8	34	1.70
55098114--55098141	13	2.2	13	100	0	56	25	21	14	39	1.91
55098137--55098213	41	1.9	41	83	2	102	23	15	19	41	1.89
55099729--55099771	23	1.9	23	85	4	61	41	2	9	46	1.48
55101054--55101106	26	2.0	26	100	0	106	58	3	11	26	1.49
55104245--55104292	25	2.0	25	87	4	71	31	16	14	37	1.89
55105843--55105888	25	1.9	25	86	8	69	39	2	4	54	1.32
55106894--55106967	35	2.1	35	100	0	148	47	17	5	29	1.70
55108503--55108543	19	2.1	20	86	4	57	31	9	2	56	1.45
55108883--55108954	6	11.2	6	74	15	56	0	18	4	77	0.92
55110422--55110640	41	5.4	40	88	1	285	36	21	21	20	1.95
55110695--55110744	17	3.0	17	75	18	52	50	34	0	16	1.45
55112267--55112374	26	4.2	26	93	0	189	36	25	6	32	1.81
55119340--55119447	26	4.2	26	93	0	189	36	25	6	32	1.81
55122542--55122595	6	8.7	6	76	15	56	20	1	3	74	1.07
55122606--55122650	20	2.2	20	100	0	90	44	0	4	51	1.21
55129261--55129448	40	4.7	40	94	0	295	29	21	27	21	1.99
55132793--55132914	41	3.0	40	87	3	172	16	23	18	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55133205--55133239	17	2.1	17	100	0	70	51	11	17	20	1.75
55137258--55137301	19	2.3	18	81	14	52	27	2	4	65	1.23
55137741--55137780	20	1.9	22	90	10	66	60	0	2	37	1.11
55137966--55138000	15	2.2	16	90	5	54	31	0	0	68	0.90
55138183--55138218	17	2.2	17	95	5	65	25	5	0	69	1.10
55140848--55140877	15	1.9	16	93	6	53	70	0	0	30	0.88
55142229--55142290	6	9.7	6	77	16	54	22	0	1	75	0.88
55144532--55144728	105	1.9	102	83	7	254	25	24	15	34	1.95
55144618--55144697	33	2.4	32	77	6	88	26	22	15	36	1.93
55149959--55150001	13	3.6	12	81	18	54	51	16	0	32	1.45
55149959--55150033	23	3.3	23	84	0	105	49	13	2	34	1.56
55152894--55152918	13	1.9	13	100	0	50	32	20	16	32	1.94
55153464--55153642	27	6.6	27	80	5	173	26	15	29	29	1.96
55153464--55153641	54	3.3	55	81	5	200	26	15	28	29	1.96
55153465--55153620	82	1.9	81	88	3	233	26	15	28	29	1.96
55153461--55153642	82	2.2	81	82	3	231	26	15	28	29	1.96
55154991--55155164	49	3.6	50	77	13	172	25	18	31	24	1.98
55158023--55158185	89	1.8	89	85	0	227	30	24	17	27	1.97
55159936--55159987	24	2.2	24	85	0	68	51	7	3	36	1.49
55161694--55161803	42	2.6	43	82	5	134	25	18	26	30	1.98
55168454--55168478	13	1.9	13	100	0	50	32	4	24	40	1.73
55169245--55169269	12	2.1	12	100	0	50	44	0	8	48	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55169588--55169756	43	3.9	43	80	6	207	24	17	27	31	1.97
55169598--55169755	86	1.8	85	86	4	228	24	17	27	31	1.97
55173782--55173811	15	2.0	15	100	0	60	26	26	13	33	1.93
55176105--55176151	10	4.6	10	85	12	51	61	4	0	34	1.15
55181541--55181645	3	35.7	3	75	5	81	59	1	7	31	1.37
55181913--55181981	3	24.0	3	72	8	54	60	2	5	30	1.34
55181913--55181989	26	3.3	23	68	12	57	59	2	6	31	1.36
55182050--55182132	12	7.0	12	70	16	57	61	0	12	26	1.31
55182088--55182176	12	7.7	12	69	14	53	53	2	15	28	1.54
55182342--55182465	3	42.3	3	73	16	100	62	0	6	30	1.26
55189594--55189619	5	5.2	5	100	0	52	57	0	0	42	0.98
55197604--55197709	3	35.3	3	75	9	74	65	0	6	27	1.24
55197776--55197800	8	3.1	8	100	0	50	88	0	0	12	0.53
55197867--55197929	3	21.0	3	100	0	126	66	0	0	33	0.92
55198587--55198625	17	2.4	17	91	4	62	84	0	7	7	0.77
55207769--55207824	26	2.2	26	100	0	112	35	26	7	30	1.83
55211125--55211253	46	2.8	46	93	0	213	30	27	21	20	1.98
55215901--55215950	26	1.9	27	84	8	68	24	16	22	38	1.93
55217440--55217495	26	2.2	26	100	0	112	35	26	7	30	1.83
55217969--55217999	13	2.4	13	100	0	62	29	0	19	51	1.47
55219105--55219274	43	4.0	44	80	4	186	22	17	27	31	1.97
55223520--55223642	43	2.9	43	85	2	149	23	17	27	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55228248--55228286	21	1.9	20	89	5	60	12	2	2	82	0.89
55229077--55229187	3	37.3	3	74	1	80	28	9	1	60	1.37
55229077--55229187	15	7.5	15	79	2	107	28	9	1	60	1.37
55229125--55229196	32	2.2	31	80	9	81	27	8	4	59	1.45
55233697--55233769	15	4.9	15	82	0	92	57	16	15	10	1.65
55233756--55233810	25	2.2	25	78	15	60	49	20	14	16	1.80
55235444--55235486	19	2.3	19	84	4	61	16	34	27	20	1.94
55235479--55235512	13	2.6	13	90	0	59	5	41	26	26	1.78
55240779--55240843	32	2.0	32	100	0	130	35	15	6	43	1.72
55240866--55240897	16	2.0	16	100	0	64	37	6	12	43	1.68
55242818--55242934	43	2.7	43	83	6	166	29	22	17	31	1.96
55250029--55250142	42	2.7	43	78	9	135	24	17	25	32	1.97
55255019--55255075	29	2.0	29	100	0	114	24	17	21	36	1.94
55257465--55257574	43	2.6	43	77	7	134	30	18	20	30	1.96
55259348--55259382	18	1.9	18	88	0	52	22	31	31	14	1.94
55260888--55261115	40	5.7	40	90	3	361	25	26	22	25	2.00
55260855--55261111	80	3.2	80	90	4	371	25	26	22	25	2.00
55274651--55274776	39	3.2	39	93	0	198	21	20	30	27	1.98
55274651--55274794	78	1.8	78	83	2	191	21	22	29	26	1.99
55274651--55274794	39	3.7	39	89	1	164	21	22	29	26	1.99
55282483--55282514	16	1.9	17	93	6	57	37	6	6	50	1.53
55285550--55285599	20	2.5	20	80	0	55	24	12	22	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55286838--55286891	25	2.2	25	86	3	74	20	22	5	51	1.67
55289210--55289259	26	1.9	26	88	8	75	8	10	12	70	1.35
55289482--55289528	14	3.4	14	77	16	62	48	10	17	23	1.77
55289476--55289528	27	2.0	27	100	0	106	43	11	18	26	1.84
55293093--55293263	93	1.8	93	96	0	315	28	28	21	21	1.99
55293085--55293260	46	3.8	46	79	12	216	28	28	21	21	1.98
55294579--55294753	45	3.9	45	83	3	194	22	21	14	41	1.90
55294579--55294744	90	1.8	90	84	5	228	24	20	15	40	1.90
55314908--55315085	41	4.3	40	77	8	144	26	29	21	21	1.99
55322850--55322883	10	3.3	10	88	8	50	58	14	20	5	1.57
55328514--55328775	46	5.6	46	74	14	189	30	16	27	25	1.97
55328698--55328831	49	2.7	50	80	7	166	26	19	29	25	1.99
55329304--55329385	40	2.0	40	100	0	164	34	14	17	34	1.90
55343691--55343722	13	2.3	15	89	10	50	71	0	15	12	1.14
55351557--55351590	10	3.4	10	87	0	50	29	2	11	55	1.50
55358195--55358373	27	6.6	27	82	5	182	28	27	15	27	1.96
55358921--55358945	13	1.9	13	100	0	50	32	16	20	32	1.94
55360779--55360812	13	2.6	13	100	0	68	23	32	23	20	1.98
55364887--55364935	22	2.2	22	96	0	89	20	14	26	38	1.91
55367504--55367862	176	2.0	176	96	0	664	37	17	13	31	1.88
55376647--55376807	80	2.0	80	100	0	322	35	12	22	29	1.91
55383966--55384000	11	3.2	11	87	0	52	17	2	0	80	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55383965--55383996	16	1.9	17	93	6	57	15	6	0	78	0.95
55394581--55394629	21	2.4	19	77	12	53	53	10	2	34	1.47
55396662--55396698	5	7.8	5	96	3	60	64	0	13	21	1.27
55397524--55397586	30	2.1	30	84	0	81	20	34	22	22	1.96
55404585--55404617	16	2.1	16	94	0	57	18	21	6	54	1.64
55406141--55406186	16	2.9	16	90	3	67	19	28	0	52	1.47
55408440--55408505	29	2.3	29	84	5	80	36	28	3	31	1.73
55412477--55412528	25	2.1	25	100	0	104	51	11	17	19	1.75
55416314--55416385	35	2.1	35	100	0	144	37	8	16	37	1.79
55417461--55417499	20	2.0	20	85	10	53	7	28	23	41	1.82

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