genome.fa.s8.2.7.7.80.10.50.1000.107.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  107  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)
33947132--33947196	28	2.3	28	94	0	112	30	7	27	33	1.85
33953508--33953563	26	2.2	26	96	0	103	37	26	5	30	1.79
33957329--33957441	58	1.9	58	82	7	140	36	13	24	25	1.92
33960180--33960231	21	2.5	21	87	0	68	13	28	36	21	1.91
33965721--33965789	29	2.5	26	75	15	68	68	2	4	24	1.22
33969849--33969908	18	3.3	18	75	9	68	31	13	11	43	1.80
33970636--33970804	27	6.3	27	87	1	187	25	16	20	37	1.93
33970638--33970912	54	5.1	54	73	11	206	28	13	19	38	1.90
33970759--33970914	27	5.8	27	82	3	188	30	8	21	39	1.84
33970897--33971076	81	2.2	80	79	2	207	36	7	21	33	1.82
33970918--33971063	27	5.4	27	86	0	220	41	8	21	28	1.82
33970762--33971088	27	12.1	27	80	4	160	34	8	21	35	1.84
33970836--33971088	54	4.7	54	78	3	197	36	7	21	33	1.83
33972013--33972045	6	5.5	6	96	0	57	45	15	21	18	1.85
33975153--33975407	39	6.6	39	89	1	361	23	21	25	28	1.99
33978830--33978960	70	1.9	70	95	0	235	24	14	29	32	1.94
33981059--33981091	15	2.1	17	88	11	52	57	3	0	39	1.14
33984039--33984091	22	2.3	24	77	9	65	5	20	0	73	1.03
33984028--33984098	23	3.1	22	79	4	70	5	21	1	71	1.14
33991204--33991260	20	2.7	21	76	15	55	40	5	1	52	1.34
33999756--33999906	53	2.8	53	89	4	214	30	27	16	25	1.97
34005038--34005083	23	2.0	23	91	0	74	36	0	4	58	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34008043--34008135	48	2.0	47	85	6	125	37	11	19	31	1.88
34029133--34029170	18	2.2	18	86	13	53	44	0	0	55	0.99
34036373--34036398	12	2.2	12	100	0	52	57	0	0	42	0.98
34058519--34058617	46	2.2	46	82	14	116	34	8	2	55	1.41
34058535--34058628	46	2.0	46	80	10	102	38	8	4	48	1.53
34058859--34058893	15	2.3	15	90	0	52	34	8	20	37	1.83
34065917--34065983	29	2.2	30	81	5	82	50	10	0	38	1.37
34066347--34066465	55	2.1	55	84	6	150	42	3	12	42	1.59
34066840--34066927	39	2.2	40	85	2	115	40	3	3	52	1.35
34071171--34071229	29	2.0	30	86	3	84	33	3	11	50	1.56
34072720--34072752	17	1.9	17	93	0	57	24	18	15	42	1.88
34077312--34077341	15	1.9	15	93	6	51	66	0	13	20	1.24
34078968--34079467	250	2.0	250	97	0	937	35	18	13	32	1.90
34080540--34080570	3	10.0	3	93	6	53	67	0	0	32	0.91
34080539--34080570	13	2.5	13	95	5	57	68	0	0	31	0.90
34082700--34082976	86	3.2	86	79	6	335	19	21	21	37	1.94
34082835--34083104	129	2.1	128	92	0	450	21	21	22	35	1.96
34082741--34083191	215	2.1	214	81	5	518	19	21	22	36	1.95
34082703--34083244	42	12.6	43	69	14	307	19	21	21	36	1.95
34082956--34083245	86	3.4	86	83	5	390	18	22	22	35	1.96
34082964--34083274	172	1.8	172	94	1	552	20	22	21	35	1.96
34082649--34083274	301	2.1	300	92	0	1056	20	22	21	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34082740--34083241	215	2.3	214	76	8	500	19	21	22	36	1.95
34086031--34086064	17	2.0	17	100	0	68	35	0	23	41	1.55
34088335--34088391	18	3.2	18	94	0	96	26	26	17	29	1.97
34095709--34095768	18	3.4	17	79	6	66	66	1	1	30	1.11
34095722--34095777	18	3.2	18	76	5	60	64	3	3	28	1.27
34100060--34100122	5	11.8	5	81	11	63	42	0	3	53	1.16
34101392--34101451	30	2.0	30	93	0	102	28	1	11	58	1.43
34102070--34102416	173	2.0	173	98	0	676	35	12	20	30	1.91
34104996--34105055	29	2.0	30	81	15	72	61	0	18	20	1.34
34106136--34106202	26	2.6	26	80	2	82	22	20	20	35	1.96
34106276--34106332	26	2.2	26	87	6	80	14	22	22	40	1.90
34110679--34110703	5	5.0	5	100	0	50	60	40	0	0	0.97
34121551--34121575	13	1.9	13	100	0	50	64	0	0	36	0.94
34121700--34121739	20	2.0	21	90	5	64	32	2	10	55	1.47
34122701--34122749	22	2.3	22	79	13	57	63	12	2	22	1.39
34125031--34125152	32	3.7	32	83	6	172	19	24	17	38	1.93
34125022--34125162	67	2.1	67	93	0	237	19	21	16	42	1.89
34142271--34142322	20	2.6	20	100	0	104	57	17	9	15	1.64
34147236--34147295	31	2.0	30	83	3	75	33	15	11	40	1.83
34160401--34160663	40	6.6	40	88	3	325	24	20	27	26	1.99
34160440--34160698	80	3.3	80	85	3	256	25	20	27	25	1.99
34168353--34168615	40	6.6	40	88	3	325	24	20	27	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34168392--34168650	80	3.3	80	85	3	256	25	20	27	25	1.99
34172374--34172439	34	1.9	34	90	0	105	30	15	19	34	1.93
34178731--34178761	9	3.4	9	100	0	62	19	32	0	48	1.49
34180565--34180595	16	1.9	16	93	0	53	48	9	6	35	1.62
34180734--34180785	26	2.0	26	81	7	61	46	0	3	50	1.20
34180746--34180781	18	2.1	18	94	5	65	38	0	2	58	1.13
34185974--34186048	29	2.6	29	71	2	69	20	38	20	21	1.93
34189440--34189625	99	1.9	96	84	5	248	26	17	17	38	1.92
34194076--34194164	31	3.0	30	77	4	90	48	5	3	42	1.43
34196607--34196639	6	5.3	6	92	7	57	51	0	0	48	1.00
34196607--34196639	13	2.7	12	95	4	57	51	0	0	48	1.00
34210404--34211269	435	2.0	435	93	0	1480	32	12	30	23	1.92
34219144--34219219	31	2.6	29	80	4	80	35	6	14	43	1.71
34219179--34219238	29	2.0	30	84	9	79	30	10	13	46	1.75
34224217--34224242	12	2.2	12	100	0	52	23	0	46	30	1.53
34228108--34228145	14	2.7	14	80	15	51	44	2	10	42	1.52
34235380--34235431	23	2.2	24	86	3	70	69	0	5	25	1.10
34237500--34237672	51	3.5	51	76	11	191	28	19	17	34	1.94
34237208--34237714	95	5.3	95	78	7	501	29	20	16	32	1.95
34237260--34237806	44	11.8	45	70	11	165	29	21	16	33	1.95
34247570--34247697	64	2.0	64	98	0	247	34	36	10	17	1.85
34251236--34251298	33	1.9	32	84	15	85	55	7	0	36	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34252280--34252336	28	2.0	28	100	0	114	17	21	26	35	1.95
34256695--34256761	34	2.0	34	93	0	116	28	20	19	31	1.97
34260586--34261344	356	2.1	356	99	0	1500	35	22	9	32	1.87
34261342--34261498	38	4.1	38	92	0	260	33	24	21	20	1.97
34266351--34267109	356	2.1	356	99	0	1509	34	23	9	32	1.86
34267107--34267414	38	8.1	38	91	0	501	31	25	22	20	1.98
34271876--34272193	44	7.2	42	66	14	151	33	20	24	21	1.97
34271809--34272293	88	5.5	88	89	0	718	33	20	24	21	1.97
34271910--34272239	44	7.5	43	66	14	174	33	20	23	22	1.97
34272442--34272564	41	2.9	42	84	4	140	30	21	21	26	1.98
34272865--34272918	19	2.8	19	72	5	56	51	35	3	9	1.52
34273991--34274052	28	2.2	27	81	13	72	27	3	3	66	1.23
34274021--34274062	15	2.8	15	82	7	50	26	2	2	69	1.13
34274126--34274167	22	1.9	22	90	0	66	40	7	0	52	1.29
34274124--34274190	20	3.2	20	82	4	71	37	5	1	55	1.34
34274276--34274357	41	2.0	41	80	4	94	28	9	4	57	1.51
34274217--34274439	3	74.0	3	68	9	87	30	11	2	56	1.48
34275981--34276029	23	2.1	23	82	14	57	42	0	0	57	0.99
34277188--34277231	21	2.1	21	86	0	61	25	18	25	31	1.97
34281194--34281223	15	2.0	15	93	0	51	50	0	10	40	1.36
34281248--34281279	10	3.3	10	95	4	57	31	6	0	62	1.20
34282073--34282097	7	3.6	7	100	0	50	12	0	0	88	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34287908--34287944	19	1.9	19	100	0	74	21	13	10	54	1.69
34297364--34297522	43	3.7	43	72	8	117	31	15	23	29	1.95
34299289--34299407	30	4.0	30	91	0	175	23	21	27	27	1.99
34312325--34312790	126	3.7	124	89	3	693	34	17	21	26	1.96
34317586--34317626	11	3.7	11	81	12	57	36	0	34	29	1.58
34317572--34317627	22	2.5	22	91	2	85	39	1	30	28	1.67
34320782--34320821	2	20.0	2	100	0	80	50	0	50	0	1.00
34322276--34322317	4	10.5	4	94	0	75	50	23	0	26	1.50
34322340--34322400	2	30.5	2	96	0	113	50	0	49	0	1.00
34324372--34324444	36	2.0	36	100	0	146	50	2	5	41	1.40

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