genome.fa.s4.2.7.7.80.10.50.1000.116.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  116  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)
39621668--39621728	30	2.0	30	83	0	77	31	22	8	37	1.84
39623985--39624039	5	10.6	5	85	14	60	81	0	0	18	0.68
39623980--39624048	6	11.5	6	87	10	81	78	1	0	20	0.83
39631006--39631044	20	1.9	20	89	5	60	58	7	12	20	1.58
39643514--39643552	21	1.9	20	89	5	60	23	0	10	66	1.22
39663091--39663161	22	3.0	22	70	15	54	66	5	1	26	1.22
39670128--39670174	17	2.6	17	86	6	58	85	2	10	2	0.78
39670142--39670175	12	2.8	12	86	0	50	85	0	14	0	0.60
39670142--39670176	11	2.9	12	91	8	54	82	0	17	0	0.66
39677136--39677293	82	1.9	81	85	1	217	31	18	20	29	1.97
39677217--39677861	176	3.6	175	81	6	690	26	24	19	29	1.98
39677488--39677573	43	2.0	45	84	9	115	24	29	13	32	1.94
39677308--39677861	179	3.1	175	82	7	618	27	24	18	29	1.98
39688281--39688313	17	1.9	17	88	11	50	69	0	0	30	0.88
39688281--39688314	18	1.9	17	88	5	50	70	0	0	29	0.87
39688363--39688447	19	4.6	19	88	8	140	36	15	11	36	1.84
39688369--39688439	35	2.0	36	94	2	126	36	14	12	36	1.84
39691258--39691519	39	6.7	40	87	7	337	25	22	27	24	2.00
39699274--39699496	39	5.7	40	86	7	273	25	22	27	24	2.00
39699274--39699496	79	2.8	81	85	8	282	25	22	27	24	2.00
39699274--39699529	79	3.3	79	82	9	224	26	21	27	24	1.99
39704084--39704115	14	2.3	14	100	0	64	6	15	46	31	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39709210--39709241	14	2.3	14	100	0	64	6	15	46	31	1.71
39711521--39711562	12	3.6	12	80	3	50	64	0	11	23	1.27
39711522--39711551	16	1.9	15	93	6	51	63	0	10	26	1.26
39720719--39720867	44	3.4	44	77	0	109	29	20	26	23	1.99
39720471--39720880	177	2.3	178	79	5	434	29	19	24	27	1.98
39720742--39720858	44	2.6	44	82	1	135	28	21	25	24	1.99
39720835--39721166	182	1.8	181	86	3	479	33	17	20	28	1.96
39722139--39722171	12	2.8	12	95	0	57	63	0	12	24	1.28
39723072--39723120	10	5.0	10	83	11	66	71	2	8	18	1.21
39723372--39723403	14	2.3	14	100	0	64	31	46	15	6	1.71
39723509--39723871	155	2.3	155	100	0	726	33	14	17	35	1.89
39724965--39725001	2	18.5	2	88	0	56	45	2	2	48	1.30
39727501--39727598	35	2.7	37	87	12	150	37	10	16	35	1.82
39727501--39727591	19	4.9	19	92	8	161	37	10	15	36	1.83
39727570--39727614	23	2.0	22	82	4	54	40	4	17	37	1.70
39727788--39727829	20	2.2	19	87	8	59	11	11	11	64	1.51
39736211--39736602	195	2.0	195	92	0	658	36	17	20	25	1.94
39736686--39736979	78	3.8	77	86	4	392	32	19	23	25	1.97
39737011--39737177	89	1.9	88	88	1	253	28	13	30	28	1.94
39736996--39737191	44	4.4	45	84	3	236	31	13	29	26	1.94
39737541--39737638	35	2.7	37	87	12	150	37	10	16	35	1.82
39737541--39737631	19	4.9	19	92	8	161	37	10	15	36	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39737541--39737654	19	5.8	22	87	10	96	36	9	15	37	1.81
39737921--39737955	18	2.0	17	88	5	52	28	0	0	71	0.86
39741815--39741850	16	2.2	16	90	5	54	11	2	8	77	1.08
39751865--39751900	16	2.2	16	90	5	54	11	2	8	77	1.08
39761711--39761748	19	2.0	20	84	5	51	34	0	18	47	1.49
39763664--39763716	25	2.1	25	100	0	106	49	3	15	32	1.62
39765398--39765510	38	3.0	38	98	1	219	42	18	17	21	1.89
39767476--39767522	25	1.9	24	83	12	60	34	2	17	46	1.59
39774067--39774135	34	2.0	34	100	0	138	39	14	20	26	1.91
39781608--39781663	13	4.5	13	80	13	73	48	17	0	33	1.48
39781606--39781650	23	2.0	23	95	0	81	44	20	0	35	1.51
39782506--39782563	10	6.2	9	77	18	57	36	1	0	62	1.06
39782511--39782562	19	2.8	18	78	13	61	32	1	0	65	1.04
39782512--39782566	27	2.0	28	82	10	69	38	1	0	60	1.08
39787068--39787140	6	12.2	6	100	0	146	49	16	0	34	1.46
39805592--39805865	46	6.0	46	88	1	345	21	23	13	41	1.89
39808224--39808265	17	2.3	18	88	8	59	0	28	0	71	0.86
39808294--39808337	12	3.8	12	81	3	54	9	15	0	75	1.05
39808482--39808531	21	2.5	19	72	27	50	48	2	0	50	1.12
39811022--39811071	24	2.1	24	100	0	100	24	24	16	36	1.94
39821404--39821472	25	2.7	25	82	13	79	31	15	23	28	1.95
39826906--39826946	21	2.0	21	100	0	82	41	14	29	14	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39827689--39827754	30	2.2	30	94	0	114	56	18	3	22	1.55
39830896--39830968	23	3.1	22	77	11	56	27	23	19	30	1.98
39830914--39830968	24	2.3	23	79	11	58	27	21	16	34	1.95
39836735--39836786	25	2.0	26	85	3	70	40	11	3	44	1.59
39836895--39837012	62	2.0	61	86	5	168	48	4	5	42	1.44
39838687--39838716	15	1.9	16	93	6	53	53	6	13	26	1.64
39843355--39843387	13	2.4	14	90	10	50	15	0	0	84	0.61
39847409--39847459	26	2.0	26	96	0	93	13	11	41	33	1.81
39850801--39850907	7	15.7	7	68	20	50	57	0	4	38	1.20
39850839--39850903	21	3.1	21	78	8	62	61	0	4	33	1.16
39850841--39850901	28	2.2	29	77	19	67	59	0	4	36	1.19
39850923--39850953	12	2.5	13	89	10	55	64	0	0	35	0.94
39850928--39850958	16	2.0	15	93	6	53	64	0	0	35	0.94
39851261--39851367	17	5.9	18	85	6	146	36	13	11	39	1.80
39851261--39851367	35	3.0	35	94	4	178	36	13	11	39	1.80
39861209--39861237	12	2.3	13	94	5	51	65	3	0	31	1.09
39861136--39861250	21	5.8	20	68	17	64	60	1	2	34	1.20
39861545--39861677	18	7.5	17	86	5	176	36	12	10	39	1.78
39861545--39861686	35	4.0	35	93	2	230	37	13	9	39	1.78
39865641--39865745	43	2.4	43	88	0	165	23	20	29	25	1.99
39865793--39865854	33	1.9	34	83	9	85	27	17	24	30	1.97
39874889--39874913	13	1.9	13	100	0	50	36	16	8	40	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39880529--39880878	175	2.0	175	100	0	700	28	16	21	33	1.95
39883442--39883481	21	1.9	21	89	0	62	25	17	30	27	1.97
39883574--39883636	6	10.8	6	79	6	76	14	6	0	79	0.92
39883580--39883636	23	2.5	23	100	0	114	14	7	0	78	0.94
39884606--39884651	4	11.5	4	90	0	74	50	19	0	30	1.48
39884606--39884651	12	3.8	12	97	0	83	50	19	0	30	1.48
39888774--39888862	44	2.0	44	93	0	151	23	16	33	25	1.96
39890891--39890920	11	2.7	11	89	0	51	10	50	10	30	1.69
39890984--39891031	17	2.8	17	78	12	62	25	0	2	72	0.95
39894968--39894998	8	3.9	8	100	0	62	12	9	0	77	0.99
39895209--39895251	9	4.6	9	80	11	50	11	4	9	74	1.20
39896365--39896397	17	1.9	17	93	0	57	21	30	9	39	1.84
39901343--39901386	22	2.0	21	86	4	61	29	0	0	70	0.88
39901343--39901381	15	2.7	15	88	4	62	30	0	0	69	0.89
39901375--39901413	15	2.6	16	88	12	64	25	5	2	66	1.25
39903016--39903097	6	13.3	6	76	17	62	15	2	3	78	1.01
39903016--39903076	5	11.6	5	78	13	52	14	3	3	78	1.00
39903063--39903143	25	3.3	25	77	14	73	20	3	3	71	1.17
39905091--39905294	102	2.0	102	95	1	365	31	23	22	23	1.98
39906545--39906699	43	3.6	43	76	5	127	30	24	16	27	1.97
39909451--39909480	12	2.5	12	94	0	51	53	0	10	36	1.35
39910850--39910882	4	8.2	4	100	0	66	24	0	0	75	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39914761--39914795	18	1.9	18	88	0	52	17	37	25	20	1.94
39914793--39914847	24	2.3	24	100	0	110	23	41	21	12	1.88
39916067--39916100	16	2.1	16	88	0	50	61	0	0	38	0.96
39916819--39916911	48	2.0	48	97	2	179	46	8	12	32	1.73
39919643--39919720	38	2.1	38	95	0	138	46	5	25	23	1.73
39925692--39925736	23	2.0	23	86	0	63	44	2	6	46	1.42
39925829--39925891	20	3.2	20	73	8	65	17	19	12	50	1.77
39926343--39926413	20	3.3	20	75	21	63	16	8	11	63	1.51
39931728--39931761	17	2.0	17	100	0	68	52	17	0	29	1.45
39941862--39941894	10	3.5	10	84	16	52	63	0	6	30	1.18

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