genome.fa.s9.2.7.7.80.10.50.1000.104.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_chr10
Parameters: 2 7 7 80 10 50 1000
Length:  95480121

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   

This is table  104  of  284  ( 34012 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)
34149974--34150011	19	2.0	19	100	0	76	63	5	5	26	1.37
34151790--34151818	14	2.0	15	93	6	51	20	6	17	55	1.65
34151936--34152112	50	3.5	50	86	0	237	37	14	20	27	1.91
34152092--34152205	31	3.7	31	85	2	158	28	21	24	25	1.99
34161884--34161913	12	2.5	12	94	0	51	53	0	10	36	1.35
34170288--34170600	48	6.6	48	75	8	232	25	31	18	23	1.97
34175361--34176268	46	19.7	46	96	2	1662	30	28	19	21	1.98
34179561--34179592	16	2.0	16	100	0	64	50	31	6	12	1.65
34182459--34182498	20	2.0	20	85	0	53	25	22	10	42	1.84
34184958--34185062	43	2.4	43	85	6	142	34	24	15	25	1.95
34194496--34194542	20	2.4	19	89	7	67	53	0	8	38	1.32
34194596--34194665	31	2.2	33	82	12	85	62	1	4	31	1.23
34194484--34194743	132	1.9	136	81	6	316	61	1	6	30	1.32
34200974--34201020	18	2.5	17	83	16	58	4	12	6	76	1.12
34201009--34201085	20	3.6	21	73	14	50	11	15	3	68	1.33
34201007--34201090	21	3.6	22	72	22	64	10	15	3	70	1.29
34204726--34204783	31	2.0	29	80	12	66	25	5	22	46	1.72
34209782--34209939	43	3.7	44	83	5	189	27	15	25	31	1.95
34214158--34214309	43	3.5	44	78	8	143	29	15	23	31	1.95
34223954--34224000	9	4.9	10	82	7	62	78	6	10	4	1.06
34223954--34224000	19	2.5	19	100	0	94	78	6	10	4	1.06
34229049--34229073	5	5.0	5	100	0	50	40	20	0	40	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34230792--34230857	32	2.1	32	97	0	123	36	16	0	46	1.47
34232968--34233126	84	1.9	84	81	5	196	45	1	3	49	1.31
34234120--34234374	124	2.1	124	89	3	388	30	16	22	30	1.96
34242002--34242068	26	2.5	26	85	7	82	41	1	2	53	1.25
34242375--34242422	23	2.1	23	100	0	96	43	4	8	43	1.53
34242445--34242558	9	12.4	9	71	15	83	45	0	1	52	1.11
34242445--34242558	19	6.2	19	74	14	87	45	0	1	52	1.11
34242445--34242575	9	14.0	10	70	18	61	43	0	2	54	1.13
34242459--34242542	44	1.9	44	86	11	120	45	0	1	53	1.08
34242511--34242575	20	3.2	20	86	4	87	40	0	3	56	1.15
34252205--34252344	68	2.1	68	97	0	262	46	14	15	24	1.82
34252982--34253114	56	2.4	57	84	3	189	33	23	14	28	1.94
34254153--34254333	46	3.9	46	89	1	256	20	24	13	41	1.88
34258856--34258888	18	1.9	17	88	11	50	24	9	6	60	1.49
34262681--34262715	12	3.0	12	87	8	54	20	0	0	80	0.72
34262751--34262803	15	3.6	15	78	16	58	16	5	3	73	1.17
34265153--34265262	43	2.6	43	95	0	202	30	32	25	10	1.90
34265255--34265362	38	2.8	38	81	0	117	27	25	23	23	2.00
34268700--34268757	19	3.4	19	64	26	56	24	5	13	56	1.57
34268695--34268758	32	2.0	32	100	0	128	25	6	12	56	1.59
34271619--34271684	31	2.3	29	80	14	82	53	10	6	30	1.60
34271633--34271698	31	2.1	31	91	0	105	48	12	6	33	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34274166--34274229	31	2.1	31	82	5	76	42	10	10	35	1.75
34274909--34274946	18	2.1	19	90	5	60	71	5	0	23	1.07
34275215--34275258	21	2.0	21	86	8	61	38	18	6	36	1.77
34275238--34275290	17	2.9	18	86	8	81	35	15	11	37	1.83
34275641--34275840	45	4.5	45	87	1	267	24	28	14	33	1.94
34275655--34275821	89	1.9	89	91	0	271	26	28	13	31	1.94
34276618--34276745	37	3.4	37	67	12	105	22	22	19	35	1.96
34275854--34276746	78	11.4	78	99	0	1723	26	21	19	32	1.97
34285871--34286009	70	2.0	70	95	0	251	38	16	17	26	1.91
34286199--34286231	17	1.9	17	88	11	50	69	0	0	30	0.88
34286199--34286232	18	1.9	17	88	5	50	70	0	0	29	0.87
34286488--34286531	21	2.0	22	86	4	63	43	15	4	36	1.68
34286488--34286544	22	2.6	22	86	2	71	40	17	5	36	1.72
34286514--34286561	19	2.5	19	75	25	55	33	16	8	41	1.78
34286526--34286603	36	2.2	36	88	9	115	37	12	12	37	1.82
34286523--34286595	19	3.9	19	92	7	132	35	15	10	38	1.82
34289133--34289196	31	2.1	31	90	0	101	50	10	4	34	1.59
34296877--34297047	93	1.8	93	94	0	306	28	28	21	21	1.98
34296872--34297044	46	3.7	46	77	13	201	29	27	20	21	1.98
34305144--34305195	26	2.0	26	92	0	86	38	17	13	30	1.88
34313894--34313949	22	2.6	21	83	8	76	44	1	3	50	1.29
34314458--34315101	84	7.7	83	73	6	474	33	20	15	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34314382--34315093	168	4.2	165	83	3	809	33	20	15	29	1.94
34314430--34315063	335	1.9	336	84	4	859	33	20	15	30	1.94
34315424--34315504	21	3.8	21	72	8	65	24	1	23	50	1.56
34315681--34315756	7	10.7	7	75	13	66	17	2	35	44	1.62
34316414--34316465	19	2.7	19	93	0	86	42	32	0	25	1.55
34318571--34318691	9	13.6	9	80	5	138	44	19	0	35	1.56
34318571--34318691	27	4.5	27	81	9	158	44	19	0	35	1.56
34318601--34318703	54	1.9	54	95	0	188	46	16	0	35	1.54
34324194--34324234	21	2.0	21	95	0	73	43	19	36	0	1.51
34324445--34324505	19	3.2	19	90	4	88	11	11	22	54	1.68
34324575--34324681	43	2.5	43	84	0	142	41	22	15	20	1.90
34324707--34324996	128	2.3	129	83	5	347	26	18	25	28	1.98
34324707--34325002	43	6.9	42	82	3	317	26	17	25	30	1.98
34326984--34327008	13	1.9	13	100	0	50	20	0	16	64	1.30
34329387--34329422	4	9.0	4	87	0	54	55	0	22	22	1.44
34332943--34332978	18	2.0	18	100	0	72	50	11	5	33	1.61
34335326--34335432	49	2.3	46	85	4	142	42	13	13	31	1.82
34338079--34338284	42	4.9	41	82	7	218	29	23	16	31	1.96
34357364--34357415	26	2.0	26	85	7	70	53	11	3	30	1.54
34368045--34368108	34	1.9	33	84	9	85	51	12	10	25	1.72
34371554--34371600	21	2.2	21	82	10	60	76	6	8	8	1.15
34373619--34373645	3	9.0	3	100	0	54	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34376662--34376981	46	7.0	46	90	0	417	21	24	13	40	1.89
34376863--34376934	21	3.2	21	68	21	65	26	23	9	40	1.85
34378798--34378856	24	2.6	22	83	5	82	62	1	0	35	1.05
34378798--34378853	11	4.9	11	85	8	76	62	1	0	35	1.06
34390268--34390316	19	2.5	20	80	6	55	28	26	0	44	1.54
34390317--34390434	52	2.3	54	79	8	154	23	35	1	38	1.65
34391741--34391806	32	2.1	30	83	13	80	34	3	3	59	1.28
34403166--34403226	30	2.1	28	81	6	68	32	0	11	55	1.36
34403403--34403430	14	2.0	14	100	0	56	57	0	0	42	0.99
34414189--34414517	163	2.0	164	98	1	633	33	16	14	35	1.90
34414655--34414696	22	1.9	22	85	0	57	85	11	2	0	0.68
34417061--34417107	9	4.5	10	77	17	51	31	4	0	63	1.13
34417617--34417824	109	1.9	109	92	2	346	30	16	19	33	1.94
34419188--34419231	19	2.3	20	84	7	56	27	22	11	38	1.88
34421130--34421164	18	1.9	18	88	0	52	14	11	11	62	1.54
34421866--34421895	8	3.6	8	91	8	51	73	13	0	13	1.10
34424054--34424192	44	3.2	44	64	11	113	28	24	22	25	2.00
34424086--34424223	43	3.2	43	66	15	120	28	20	24	26	1.99
34424050--34424347	88	3.4	88	86	2	379	29	22	22	25	1.99
34424050--34424393	88	3.9	88	85	3	378	29	22	22	25	1.99
34424571--34424898	169	1.9	170	84	4	439	30	20	22	26	1.98
34426722--34426760	13	3.1	13	85	14	55	43	2	0	53	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34429769--34429814	18	2.4	20	82	7	60	36	0	4	58	1.18
34429769--34429816	19	2.5	19	79	0	60	35	0	4	60	1.16
34429948--34429993	23	2.0	23	87	4	67	43	4	8	43	1.55
34430475--34430501	5	5.4	5	100	0	54	81	0	0	18	0.69
34438373--34438399	3	9.0	3	100	0	54	33	0	0	66	0.92
34447204--34447458	131	1.9	131	88	2	386	27	18	18	34	1.95
34460869--34461327	176	2.6	176	87	0	650	31	21	18	28	1.97
34471180--34471237	30	1.9	30	86	6	82	31	22	3	43	1.70
34471778--34471835	25	2.3	25	77	16	66	3	24	5	67	1.27
34471798--34471838	14	2.8	14	88	7	55	4	19	2	73	1.13

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