genome.fa.s4.2.7.7.80.10.50.1000.101.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: At_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  101  of  235  ( 28198 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)
34829465--34829522	29	1.9	29	83	13	73	32	18	1	46	1.60
34835972--34836057	42	2.0	42	93	0	145	31	13	16	38	1.88
34839527--34839574	23	2.1	23	100	0	96	58	20	4	16	1.55
34840756--34840786	12	2.6	12	94	0	53	32	9	9	48	1.69
34862450--34862496	20	2.3	20	100	0	94	53	19	14	12	1.73
34862490--34862551	21	3.0	21	75	0	79	41	19	24	14	1.88
34862490--34862603	42	2.7	42	82	1	131	45	16	21	16	1.85
34862488--34862559	21	3.4	21	74	0	72	45	16	22	15	1.84
34889153--34889281	67	1.9	67	89	6	199	20	27	27	25	1.99
34889298--34889454	72	2.2	73	88	1	235	27	24	26	21	1.99
34889927--34890089	42	3.9	42	78	1	112	43	15	23	17	1.87
34903172--34903206	6	5.7	6	96	3	61	31	0	0	68	0.90
34908466--34908697	115	2.0	116	93	1	394	40	23	4	31	1.75
34909204--34909249	9	5.6	9	80	17	55	26	0	0	73	0.83
34909204--34909249	24	1.9	24	95	0	83	26	0	0	73	0.83
34909212--34909247	16	2.2	17	90	9	58	25	0	0	75	0.81
34920304--34920428	44	2.8	44	87	0	178	47	11	16	24	1.80
34926798--34926875	39	2.0	39	97	0	147	34	23	24	17	1.96
34933208--34933358	80	1.9	80	94	2	268	30	15	2	50	1.58
34934481--34934527	19	2.3	21	79	13	55	44	4	12	38	1.62
34934649--34934769	60	2.0	60	98	0	233	31	4	8	56	1.48
34934896--34934951	5	10.6	5	77	11	58	37	0	3	58	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34936047--34936103	15	3.9	15	86	2	80	35	0	10	54	1.35
34936162--34936202	22	1.9	21	90	5	64	48	0	19	31	1.49
34936488--34936583	21	4.5	22	84	9	117	14	21	26	37	1.92
34936499--34936583	42	2.0	42	90	0	134	14	23	27	35	1.93
34936501--34936583	21	4.0	21	88	0	121	14	22	27	34	1.93
34940404--34940599	65	3.0	65	90	0	302	22	18	9	50	1.75
34941120--34941237	44	2.7	44	85	1	155	27	17	24	30	1.97
34941302--34941478	44	4.1	43	75	9	153	33	16	20	28	1.95
34941302--34941469	85	2.0	85	83	2	212	32	17	21	28	1.96
34941548--34941651	44	2.3	43	75	10	102	35	15	22	26	1.94
34946014--34946056	20	2.0	22	86	8	63	62	2	0	34	1.08
34951867--34951901	17	1.9	19	88	11	56	60	2	31	5	1.35
34952960--34953016	24	2.5	24	82	5	64	40	3	8	47	1.52
34954897--34955027	66	2.0	66	98	0	253	42	9	15	32	1.78
34958149--34958213	25	2.6	25	75	0	67	40	15	26	18	1.90
34961828--34961864	20	1.9	18	89	10	56	37	2	13	45	1.58
34962110--34962148	19	2.1	19	85	9	53	51	10	5	33	1.58
34965166--34965195	15	2.0	15	93	0	51	3	20	0	76	0.92
34965244--34965282	19	2.1	19	85	9	53	33	5	10	51	1.58
34965305--34965346	15	2.8	16	82	10	61	26	4	0	69	1.08
34965889--34965918	15	2.0	15	93	0	51	3	20	0	76	0.92
34965967--34966005	19	2.1	19	85	9	53	33	5	10	51	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34964640--34966089	723	2.0	723	100	0	2900	33	16	4	46	1.66
34966028--34966069	15	2.8	16	82	10	61	26	4	0	69	1.08
34966533--34966612	27	3.0	27	86	0	106	36	22	8	32	1.85
34970527--34970570	22	2.0	22	95	0	79	40	15	15	27	1.88
34988496--34988583	42	2.1	42	82	0	104	43	14	22	19	1.87
34989733--34989861	29	4.4	29	76	5	118	23	28	9	38	1.85
34989931--34989955	13	1.9	13	100	0	50	60	16	0	24	1.36
34993295--34993333	16	2.4	16	91	0	60	0	30	0	69	0.89
34993362--34993407	16	2.8	17	83	6	58	13	13	0	73	1.09
34993358--34993395	10	3.7	10	86	13	51	5	15	0	78	0.91
34996931--34996970	20	2.0	20	85	5	53	57	2	5	35	1.34
34997413--34997443	15	2.1	15	100	0	62	29	6	19	45	1.75
35006194--35006244	20	2.6	20	93	3	86	41	19	7	31	1.80
35010995--35011103	21	5.2	21	70	0	74	44	15	22	17	1.86
35010997--35011103	42	2.5	43	80	3	128	45	15	21	16	1.85
35012723--35012758	15	2.3	16	90	9	65	47	0	27	25	1.52
35021023--35021241	46	4.7	46	75	12	171	27	16	32	23	1.96
35021019--35021242	93	2.4	93	78	9	224	27	16	32	22	1.96
35022032--35022681	132	4.9	130	77	4	493	34	17	18	28	1.94
35025786--35026036	132	1.9	132	86	4	364	27	23	19	29	1.99
35037642--35038283	132	4.9	131	74	9	434	33	18	18	28	1.95
35039193--35039218	12	2.2	12	100	0	52	42	0	7	50	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35051955--35052004	22	2.3	22	78	0	55	36	4	4	56	1.37
35059447--35059536	44	2.0	44	80	4	101	32	21	20	26	1.97
35060691--35060737	21	2.1	22	81	14	53	12	4	8	74	1.19
35060912--35060961	18	2.7	19	90	6	77	56	4	0	40	1.18
35060888--35060969	42	1.9	43	85	7	114	57	3	0	39	1.16
35061047--35061118	33	2.2	32	85	11	94	52	5	0	41	1.24
35066980--35067044	21	3.1	21	75	6	69	36	24	16	21	1.94
35076621--35076724	52	2.0	52	94	0	181	31	9	20	38	1.85
35077368--35077463	48	2.0	48	97	0	183	26	16	17	39	1.91
35078032--35078064	3	11.3	3	93	6	59	30	0	0	69	0.88
35079840--35079874	3	11.7	3	93	0	61	65	2	0	31	1.07
35082202--35082706	131	3.8	131	75	7	337	34	18	19	27	1.95
35088812--35088999	26	7.2	26	97	0	340	36	26	5	31	1.79
35092550--35092596	20	2.3	20	100	0	94	42	14	12	29	1.83
35096508--35096568	32	1.9	32	83	6	79	22	3	1	72	1.09
35096550--35096583	6	5.3	6	86	13	50	14	2	2	79	0.97
35096545--35096583	20	2.0	20	94	0	69	12	2	5	79	1.00
35096551--35096610	17	3.4	17	77	11	50	10	8	3	78	1.07
35096673--35096716	20	2.1	21	87	4	63	13	4	0	81	0.83
35117334--35117368	17	1.9	19	88	11	56	65	11	2	20	1.37
35126761--35126803	21	2.1	20	83	12	52	41	16	16	25	1.88
35129417--35129472	19	3.1	18	82	12	53	57	8	0	33	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35130197--35130245	20	2.4	22	83	13	68	63	0	0	36	0.95
35130199--35130244	21	2.2	21	88	7	67	67	0	0	32	0.91
35138687--35138720	15	2.3	15	89	0	50	58	0	8	32	1.29
35138850--35138878	3	9.7	3	100	0	58	34	0	0	65	0.93
35140210--35140317	48	2.3	46	84	9	130	28	16	30	24	1.96
35140303--35140329	12	2.2	12	100	0	54	37	7	33	22	1.82
35140321--35140443	46	2.7	45	87	7	160	26	17	30	25	1.97
35146508--35146546	21	1.9	20	84	5	51	7	30	7	53	1.57
35148783--35148867	42	2.0	42	93	0	143	30	8	10	50	1.66
35167614--35167720	33	3.3	32	79	6	108	34	23	10	31	1.88
35169109--35169150	22	1.9	22	90	0	66	59	4	2	33	1.31
35170615--35170834	43	5.1	43	83	4	293	25	16	28	30	1.97
35170613--35170830	86	2.5	86	90	1	339	25	16	27	29	1.97
35172003--35172041	10	3.8	10	90	6	60	30	15	17	35	1.91
35172003--35172042	21	1.9	21	94	0	71	30	15	17	37	1.90
35172080--35172130	25	2.0	25	88	0	75	27	19	23	29	1.98
35179717--35179768	25	2.1	25	82	10	63	28	23	17	30	1.97
35179815--35179853	10	3.8	10	93	6	69	30	17	17	33	1.94
35179815--35179854	21	1.9	21	100	0	80	30	17	17	35	1.93
35179894--35179943	24	2.0	25	88	3	75	26	20	24	30	1.98
35182275--35182341	33	2.0	33	100	0	134	23	8	17	49	1.75
35185049--35185083	6	5.7	6	86	6	52	57	0	25	17	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35185048--35185083	13	2.8	13	87	4	56	58	0	25	16	1.38
35187078--35187180	30	3.4	30	79	7	111	30	2	21	45	1.66
35189672--35189705	17	1.9	18	88	5	52	11	47	26	14	1.79
35197295--35197332	6	6.5	6	81	6	51	81	0	2	15	0.80
35198868--35198922	26	2.2	25	83	9	67	30	5	3	60	1.37
35212287--35212651	48	7.7	47	73	11	255	23	27	18	29	1.98
35212336--35212513	99	1.8	97	84	6	241	24	29	18	26	1.98
35212290--35212654	92	3.8	93	75	12	282	24	28	18	28	1.98
35212290--35212651	47	7.6	47	73	11	224	24	28	18	29	1.98
35215373--35215636	46	5.7	46	94	0	368	39	13	24	22	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