genome.fa.s7.2.7.7.80.10.50.1000.94.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   

This is table  94  of  290  ( 34714 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)
31607715--31607922	55	3.9	54	80	8	244	35	16	25	22	1.95
31607722--31607924	108	1.9	110	88	4	313	33	17	25	23	1.96
31608161--31608191	16	1.9	16	93	0	53	41	0	22	35	1.54
31614813--31614849	19	1.9	19	89	10	58	21	0	18	59	1.38
31623111--31623145	12	3.0	12	91	4	54	37	0	8	54	1.31
31629968--31630001	17	2.0	17	88	0	50	58	11	8	20	1.59
31633637--31633820	40	4.6	40	81	6	221	26	23	25	25	2.00
31633637--31633820	80	2.3	80	86	3	246	26	23	25	25	2.00
31642706--31642755	25	2.0	25	92	0	82	34	6	30	30	1.81
31642840--31642903	21	3.3	19	70	18	51	45	3	1	50	1.27
31643135--31643170	18	2.0	18	94	0	63	47	22	2	27	1.65
31653747--31653777	14	2.2	14	88	0	53	38	0	12	48	1.42
31653748--31653774	14	1.9	14	100	0	54	29	0	14	55	1.40
31658630--31658670	20	2.0	20	100	0	82	53	9	4	31	1.55
31659149--31659565	216	1.9	216	82	5	513	35	8	18	37	1.82
31660437--31660582	59	2.5	56	82	12	163	26	13	11	47	1.77
31661360--31661428	26	2.7	26	97	0	129	53	5	2	37	1.40
31662500--31662570	28	2.5	28	93	4	117	28	23	9	38	1.87
31665308--31665394	44	2.0	44	93	0	147	28	19	12	39	1.88
31673201--31673243	18	2.4	18	76	0	50	25	6	11	55	1.60
31675077--31675122	19	2.4	19	85	7	58	19	19	13	47	1.81
31682131--31682189	30	2.0	30	82	0	73	77	8	5	8	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31683266--31683393	64	2.0	64	95	0	229	29	18	14	37	1.90
31683722--31684406	177	3.9	177	87	3	873	28	18	24	28	1.98
31683996--31684282	89	3.3	89	67	10	237	27	19	25	27	1.99
31683763--31684406	352	1.8	352	87	3	963	27	18	25	28	1.98
31687761--31687806	20	2.3	21	82	14	62	26	17	28	28	1.98
31689531--31689753	40	5.6	40	86	3	236	24	21	27	26	1.99
31689606--31689788	79	2.3	80	82	1	226	25	20	27	25	1.99
31690367--31690651	142	2.0	143	95	0	518	31	14	25	28	1.95
31698993--31699212	40	5.6	40	83	5	270	26	27	22	22	1.99
31698993--31699212	79	2.8	80	86	4	295	26	27	22	22	1.99
31703141--31703272	66	2.0	66	95	0	237	19	19	23	37	1.94
31703515--31703665	75	2.0	75	100	0	302	33	7	9	49	1.64
31704239--31704281	18	2.4	18	76	0	50	27	6	9	55	1.57
31730772--31730815	23	1.9	23	85	0	61	15	6	27	50	1.70
31737196--31737231	18	2.0	18	100	0	72	38	0	27	33	1.57
31737523--31737695	43	4.0	43	72	11	156	26	18	23	31	1.97
31740012--31740059	23	2.1	23	96	0	87	64	8	6	20	1.43
31740677--31740887	46	4.6	45	77	9	162	25	28	17	28	1.97
31741270--31741317	23	2.1	23	96	0	87	64	8	6	20	1.43
31741935--31742145	46	4.6	45	77	9	162	25	28	17	28	1.97
31758496--31758552	24	2.4	24	90	0	87	33	14	19	33	1.91
31761457--31761547	46	2.0	46	95	0	164	28	21	21	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31766073--31766097	2	12.5	2	100	0	50	52	0	48	0	1.00
31766897--31766935	3	13.0	3	100	0	78	33	0	0	66	0.92
31768333--31768386	23	2.3	23	84	9	65	50	1	7	40	1.41
31774961--31775019	29	2.0	29	86	0	82	22	37	22	18	1.94
31775583--31775614	14	2.2	15	94	5	57	75	0	0	25	0.81
31777426--31777511	37	2.3	37	81	0	109	27	31	17	23	1.97
31777655--31777929	46	6.0	46	96	0	487	24	32	8	34	1.86
31777946--31778017	22	3.1	22	64	24	58	23	29	13	33	1.93
31777903--31778046	47	3.1	47	92	0	225	27	28	10	34	1.90
31789964--31789988	13	1.9	13	100	0	50	24	12	32	32	1.91
31802518--31802581	26	2.4	26	89	5	101	14	10	9	65	1.47
31805272--31805317	22	2.0	22	83	4	56	23	26	13	36	1.91
31805278--31805378	23	4.4	23	78	9	109	16	27	19	35	1.94
31808827--31808916	45	2.0	43	89	4	135	42	10	21	26	1.84
31811283--31811405	48	2.5	48	82	2	156	27	23	21	26	1.99
31813908--31813991	27	3.1	27	82	1	98	38	15	23	22	1.92
31824536--31824657	43	2.8	43	80	8	124	26	15	24	33	1.95
31827962--31828020	28	2.1	28	93	0	100	27	16	27	28	1.97
31832023--31832084	27	2.3	27	80	0	70	30	12	12	43	1.81
31832065--31832254	27	7.0	27	78	2	175	31	8	19	40	1.83
31832037--31832250	54	3.9	54	80	8	193	32	8	17	41	1.80
31832065--31832255	81	2.4	80	82	6	226	31	8	19	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31835564--31835716	43	3.6	43	72	13	127	23	15	25	35	1.94
31838710--31838752	16	2.7	16	96	0	77	9	6	11	72	1.29
31847944--31847996	24	2.2	25	82	3	63	33	26	18	20	1.96
31847960--31848055	25	3.8	25	83	0	93	32	21	20	25	1.98
31860145--31860173	14	2.0	15	93	6	51	51	20	0	27	1.47
31865231--31865399	42	4.0	43	77	9	141	24	17	24	34	1.96
31883231--31883343	58	1.9	58	89	0	172	23	25	19	31	1.98
31883304--31883375	34	2.1	34	86	0	99	27	23	25	23	2.00
31886648--31886738	45	2.0	45	95	0	164	21	20	20	36	1.95
31888382--31888457	31	2.3	34	76	17	88	43	18	7	30	1.78
31892125--31892318	47	4.1	47	93	0	316	23	29	11	35	1.90
31892175--31892296	22	5.3	22	63	24	63	23	29	13	33	1.93
31900578--31901406	47	17.7	47	94	3	1442	23	19	29	27	1.98
31901682--31901719	19	2.0	20	85	15	53	36	0	23	39	1.55
31903879--31904011	69	1.9	69	92	3	223	25	15	31	27	1.96
31907796--31907945	75	2.0	75	98	0	291	38	6	21	34	1.78
31908354--31908595	47	5.1	47	100	0	484	23	19	29	27	1.98
31908819--31908856	19	2.0	20	85	15	53	36	0	23	39	1.55
31912846--31912924	6	14.8	5	77	15	63	75	1	5	17	1.04
31912866--31912944	6	13.5	6	81	5	74	75	1	6	16	1.06
31912846--31912943	12	8.4	11	76	10	81	74	1	6	18	1.08
31912856--31912928	17	4.3	17	81	10	69	75	1	5	17	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31912889--31912948	27	2.2	27	85	5	77	78	0	3	18	0.89
31923660--31923770	55	2.0	55	96	0	204	27	9	25	36	1.88
31924577--31924801	40	5.7	40	87	5	296	24	22	27	25	2.00
31924577--31924834	119	2.2	119	81	8	285	25	21	27	25	2.00
31928710--31928738	14	2.1	14	100	0	58	44	34	0	20	1.52
31931338--31931428	42	2.1	43	82	6	105	32	26	17	23	1.96
31931883--31931924	8	5.1	8	91	2	66	59	23	2	14	1.47
31934894--31935171	50	5.7	49	79	5	285	26	27	19	26	1.99
31934893--31935221	50	6.6	48	73	9	198	27	27	18	25	1.98
31934893--31935215	98	3.2	98	83	5	391	28	27	18	25	1.98
31934945--31935181	97	2.4	95	85	5	296	28	27	18	25	1.98
31943344--31943564	48	4.8	45	74	11	155	27	20	29	21	1.98
31943484--31943588	48	2.2	49	81	5	115	31	20	26	20	1.98
31943338--31943655	141	2.2	139	80	9	315	27	19	28	24	1.98
31944652--31944686	18	1.9	18	94	0	61	25	8	22	42	1.82
31946407--31946473	29	2.3	29	87	5	91	31	29	13	25	1.94
31950320--31950388	29	2.4	28	80	2	84	28	26	13	31	1.93
31950628--31950664	16	2.3	16	100	0	74	21	24	5	48	1.71
31964165--31964224	27	2.3	26	85	2	75	40	20	20	20	1.92
31964969--31965165	54	3.7	54	80	2	227	27	19	15	37	1.92
31964996--31965165	27	6.3	27	81	1	198	27	18	14	38	1.90
31964985--31965165	80	2.2	81	84	0	229	27	18	16	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31967590--31967654	28	2.3	29	81	7	71	43	1	24	30	1.64
31969175--31969210	15	2.4	15	90	0	54	11	22	36	30	1.89
31974818--31974995	27	6.6	27	83	3	196	30	28	14	26	1.95
31974839--31974994	82	1.9	81	86	3	224	30	28	14	26	1.95
31977975--31978140	27	6.1	27	84	4	185	28	24	8	38	1.84
31977975--31978140	81	2.0	81	88	2	244	28	24	8	38	1.84
31991636--31991684	19	2.6	19	90	0	80	18	22	12	46	1.82
31995443--31995473	11	2.8	11	100	0	62	64	25	9	0	1.24
31995975--31996010	16	2.2	16	95	0	63	50	5	22	22	1.70
32002504--32002687	76	2.4	78	81	3	210	33	25	20	21	1.97

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   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290