genome.fa.s8.2.7.7.80.10.50.1000.178.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_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

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   

This is table  178  of  279  ( 33431 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)
58638825--58638877	3	19.3	3	74	18	53	69	0	3	26	1.05
58639164--58639214	21	2.4	22	90	3	77	58	7	1	31	1.37
58639289--58639321	11	2.8	12	90	9	50	69	6	3	21	1.24
58641109--58641254	37	4.0	37	93	1	242	24	21	16	36	1.94
58641218--58641486	46	5.6	46	84	10	340	28	22	14	34	1.93
58641261--58641480	52	4.3	52	85	8	299	27	22	14	35	1.93
58641218--58641486	98	2.7	98	93	0	457	28	22	14	34	1.93
58644612--58644757	49	3.0	49	90	1	229	32	29	13	23	1.93
58646010--58646155	37	4.0	37	93	1	242	24	21	16	36	1.94
58646119--58646387	46	5.6	46	84	10	340	28	22	14	34	1.93
58646162--58646381	52	4.3	52	85	8	299	27	22	14	35	1.93
58646119--58646387	98	2.7	98	93	0	457	28	22	14	34	1.93
58648032--58648073	21	2.0	21	85	0	57	40	11	9	38	1.75
58648779--58648841	25	2.5	25	94	2	108	26	11	7	53	1.63
58649129--58649587	255	1.8	255	87	0	686	28	12	19	40	1.87
58658680--58658723	21	2.1	21	82	0	52	20	22	20	36	1.95
58659253--58659277	13	1.9	13	100	0	50	56	8	0	36	1.29
58661828--58661894	34	1.9	35	84	3	91	34	22	19	23	1.97
58664198--58664373	48	3.7	48	83	3	228	37	28	15	18	1.92
58664198--58664380	96	1.9	96	90	0	294	37	28	15	18	1.91
58671877--58672106	48	4.8	48	82	4	284	34	28	17	19	1.94
58671882--58672106	96	2.3	96	89	1	344	35	28	17	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58680420--58680473	15	3.5	16	80	12	60	74	3	0	22	0.98
58680435--58680479	16	2.9	15	80	6	54	77	2	0	20	0.87
58681350--58681454	24	4.2	24	71	14	68	33	10	3	52	1.54
58681513--58681545	16	2.0	17	88	5	50	36	6	3	54	1.41
58681746--58681775	15	2.0	15	100	0	60	26	6	6	60	1.47
58681777--58681846	27	2.7	26	78	10	72	31	5	8	54	1.54
58681787--58681846	27	2.3	27	85	2	86	33	5	6	55	1.48
58691670--58691707	12	3.2	12	88	0	58	65	0	0	34	0.93
58692770--58692809	10	4.0	10	86	0	53	27	5	7	60	1.45
58693393--58693432	19	2.1	19	85	4	53	70	2	0	27	1.01
58693999--58694048	3	17.3	3	89	8	50	44	0	0	56	0.99
58694146--58694202	11	5.0	11	75	8	51	36	1	5	56	1.32
58694150--58694256	24	4.2	25	77	14	94	35	1	4	57	1.30
58694213--58694245	15	2.2	15	100	0	66	33	0	0	66	0.92
58694240--58694352	25	4.6	25	73	18	87	33	6	3	56	1.41
58694430--58694504	25	2.9	24	70	18	62	33	6	2	57	1.39
58694642--58694695	22	2.5	22	81	0	63	42	7	1	48	1.42
58694764--58694821	18	3.2	18	79	18	66	31	3	1	63	1.21
58698187--58698231	22	2.0	22	86	0	63	28	15	6	48	1.70
58705112--58705166	28	2.0	28	82	13	69	23	14	3	58	1.52
58709854--58709994	75	1.9	75	93	0	246	26	19	22	31	1.98
58709939--58710058	64	1.9	64	89	3	188	23	20	25	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58710003--58710322	168	1.9	165	90	4	509	26	17	20	34	1.95
58710092--58710240	75	2.0	75	90	2	237	26	19	20	32	1.97
58712136--58712206	24	2.9	23	80	12	79	35	2	5	56	1.38
58712199--58712231	15	2.2	15	89	10	50	33	0	0	66	0.92
58712164--58712243	14	6.1	14	75	16	55	32	1	5	61	1.26
58712258--58712338	25	3.3	25	78	15	71	33	7	2	56	1.40
58712399--58712462	27	2.4	27	78	5	76	37	4	4	53	1.43
58712610--58712668	24	2.3	26	77	14	68	38	6	3	50	1.45
58712616--58712674	24	2.4	25	82	2	75	38	8	1	50	1.43
58712695--58712808	12	9.3	12	69	21	53	34	3	3	58	1.32
58712698--58712798	23	4.5	22	70	22	61	34	2	3	58	1.32
58712752--58712810	18	3.2	18	80	17	68	30	3	1	64	1.20
58718206--58718236	14	2.2	14	94	0	53	19	6	12	61	1.53
58724372--58724409	18	2.1	18	90	0	58	10	63	2	23	1.39
58730071--58730241	85	2.0	85	98	0	333	28	12	10	49	1.73
58737060--58737202	43	3.3	42	82	4	162	23	16	27	31	1.96
58737031--58737202	42	4.0	43	75	10	165	25	16	25	32	1.96
58745890--58745957	34	2.0	34	97	0	127	17	19	36	26	1.94
58749125--58749284	85	1.9	85	96	0	293	28	18	30	23	1.98
58749125--58749285	43	3.8	43	93	1	279	27	18	30	22	1.98
58749361--58749443	31	2.6	31	80	3	85	61	19	3	15	1.48
58750024--58750172	75	2.0	75	95	0	271	38	17	11	32	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58753527--58753552	12	2.2	12	100	0	52	30	26	7	34	1.85
58755384--58755500	9	12.3	9	73	10	99	31	1	22	44	1.63
58755386--58755498	57	2.0	57	85	0	154	30	1	23	45	1.63
58755693--58755809	9	12.3	9	73	10	99	31	1	22	44	1.63
58755695--58755807	57	2.0	57	85	0	154	30	1	23	45	1.63
58755376--58755997	309	2.0	309	99	0	1228	31	9	19	39	1.84
58759339--58759369	13	2.4	13	88	0	53	41	0	32	25	1.56
58759803--58759837	17	2.0	18	88	5	54	65	0	0	34	0.93
58759951--58760025	26	2.9	27	88	4	109	45	4	6	44	1.48
58760416--58760505	29	3.1	27	83	12	101	33	38	1	26	1.64
58760875--58760929	28	1.9	29	82	10	69	58	7	0	34	1.26
58760934--58761158	113	2.0	115	79	5	251	29	20	19	30	1.97
58761208--58761339	40	3.3	39	81	6	149	24	19	23	32	1.98
58768770--58768835	30	2.2	30	83	2	78	45	6	4	43	1.49
58775573--58775624	23	2.3	23	90	6	79	34	13	9	42	1.77
58779952--58779983	9	3.6	9	100	0	64	12	0	9	78	0.97
58780034--58780085	23	2.3	23	90	6	79	34	13	9	42	1.77
58782889--58782960	35	2.0	36	94	2	128	29	12	8	50	1.69
58787077--58787240	82	2.0	82	98	0	319	36	11	25	26	1.90
58792886--58793058	46	3.7	46	79	13	210	21	21	27	28	1.99
58792883--58793053	93	1.8	93	94	0	306	21	21	28	28	1.99
58796635--58796709	22	3.3	22	75	10	69	60	5	5	29	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58796641--58796703	25	2.5	24	84	7	72	58	6	4	30	1.43
58796726--58796855	23	5.6	25	75	10	98	56	3	5	35	1.38
58796654--58796763	29	4.0	28	73	15	97	58	4	6	30	1.43
58796654--58796787	29	5.1	27	71	18	81	56	4	6	32	1.45
58797140--58797178	16	2.4	16	86	0	51	43	28	5	23	1.75
58797336--58797434	30	3.3	30	94	0	180	20	6	47	26	1.73
58797812--58797853	21	2.0	21	90	0	66	28	28	9	33	1.88
58797968--58798313	86	3.8	89	76	10	278	37	17	14	30	1.90
58798065--58798311	91	2.7	94	82	7	292	36	17	15	30	1.92
58798005--58798313	91	3.4	90	79	8	276	36	17	14	31	1.90
58798316--58798348	14	2.4	14	90	10	50	60	6	12	21	1.53
58797968--58798513	93	6.0	92	74	10	348	38	17	15	28	1.90
58798450--58799006	73	7.6	74	87	4	781	31	21	16	30	1.95
58799008--58799054	13	3.4	14	80	8	51	72	2	10	14	1.21
58799110--58799156	13	3.4	14	80	8	51	72	2	10	14	1.21
58799123--58799300	90	2.0	90	84	3	234	38	20	16	23	1.93
58798970--58799215	102	2.4	102	99	0	483	41	19	15	23	1.89
58800176--58800208	17	1.9	17	88	11	50	3	12	0	84	0.72
58810589--58810643	25	2.3	23	78	12	58	43	3	16	36	1.65
58810928--58810966	16	2.4	16	86	0	51	43	28	5	23	1.75
58811125--58811252	30	4.3	30	94	0	211	17	6	50	25	1.69
58812615--58812656	22	1.9	22	85	9	59	26	9	0	64	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58814104--58814251	41	3.7	40	88	2	197	37	15	20	26	1.93
58814104--58814269	81	2.0	82	82	10	198	37	17	20	24	1.93
58814104--58814287	41	4.6	40	80	10	117	35	16	22	24	1.95
58814832--58814887	29	1.9	29	92	0	94	35	35	8	19	1.83
58815055--58815098	15	2.9	15	90	6	63	45	20	2	31	1.64
58816183--58816234	19	2.7	20	81	6	61	26	36	1	34	1.68
58816252--58816305	19	2.8	19	97	0	99	22	31	24	22	1.98
58816640--58816700	20	3.1	19	76	19	54	22	4	13	59	1.53
58818346--58818395	23	2.2	23	92	7	84	34	14	16	36	1.88
58819002--58819114	9	12.2	9	81	5	118	46	23	0	29	1.58

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