genome.fa.s12.2.7.7.80.10.50.1000.123.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_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  91551117

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   

This is table  123  of  276  ( 33102 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)
39524389--39524648	41	6.4	41	94	0	450	35	24	21	18	1.95
39524653--39524784	54	2.6	48	74	14	122	51	28	1	18	1.55
39524664--39524775	54	2.1	53	80	5	125	51	30	1	16	1.54
39524703--39524735	15	2.1	16	88	5	50	48	33	3	15	1.60
39525812--39525841	14	2.1	14	93	0	51	43	40	3	13	1.60
39525907--39525934	14	2.0	14	100	0	56	21	35	0	42	1.53
39526308--39526333	6	4.3	6	100	0	52	0	15	15	69	1.20
39537766--39537843	26	2.9	28	74	18	83	35	1	2	60	1.19
39537960--39538025	32	2.1	32	86	5	91	39	1	1	57	1.17
39540421--39540593	46	3.7	46	76	13	174	20	17	30	31	1.96
39540415--39540586	93	1.8	93	91	0	281	20	19	29	30	1.97
39547040--39547085	23	2.0	24	86	4	67	17	6	2	73	1.14
39550698--39550838	40	3.5	40	89	2	205	24	24	26	25	2.00
39556196--39556221	11	2.4	11	100	0	52	50	7	7	34	1.60
39564331--39564381	5	9.6	5	87	12	75	19	0	1	78	0.85
39564331--39564381	11	4.8	10	92	7	75	19	0	1	78	0.85
39564334--39564381	16	2.9	16	93	3	78	18	0	2	79	0.84
39577078--39577156	37	2.1	37	83	4	97	25	27	18	27	1.98
39577275--39578186	47	19.4	47	98	0	1734	29	29	8	32	1.87
39588472--39588556	41	2.1	40	82	2	98	29	11	9	49	1.71
39591744--39591768	13	1.9	13	100	0	50	40	48	0	12	1.40
39591846--39591931	9	9.6	9	81	5	93	29	8	15	47	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39591846--39591931	27	3.2	27	80	9	104	29	8	15	47	1.73
39592250--39592288	18	2.2	18	95	0	69	41	2	0	56	1.13
39597943--39598303	46	8.2	46	82	8	396	19	23	15	42	1.89
39598060--39598116	16	3.4	16	70	25	55	19	24	19	36	1.94
39598011--39598166	79	2.0	80	98	1	305	17	25	17	40	1.90
39600356--39600407	11	4.5	11	81	9	59	63	1	0	34	1.06
39607629--39607690	29	2.1	30	88	8	92	25	3	11	59	1.46
39609213--39609258	18	2.6	18	82	3	58	45	2	0	52	1.13
39611807--39611920	20	5.4	20	83	8	111	9	19	27	43	1.82
39613322--39613405	44	1.9	44	82	4	107	38	10	25	26	1.88
39613535--39613644	47	2.3	47	96	0	202	34	12	24	28	1.92
39613623--39613815	54	3.6	54	83	4	237	35	17	24	22	1.95
39613631--39613841	108	2.0	109	83	1	273	36	17	24	21	1.94
39617148--39617249	3	34.0	3	68	24	56	64	0	1	32	1.11
39617153--39617251	7	14.9	7	72	16	68	63	1	2	33	1.12
39617159--39617249	16	4.9	18	75	19	57	63	1	2	32	1.13
39617155--39617255	23	4.1	23	73	19	73	62	0	2	33	1.17
39618918--39619367	176	2.5	174	83	5	560	27	19	20	33	1.97
39619212--39619382	93	1.8	93	81	7	213	26	18	22	32	1.97
39630376--39630589	40	5.4	40	86	3	256	24	23	27	25	2.00
39641884--39641932	24	2.0	24	84	7	64	53	0	12	34	1.39
39651966--39652001	12	3.2	12	84	15	58	72	0	11	16	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39653743--39653801	30	2.0	30	83	6	75	74	0	5	20	1.00
39659926--39659981	22	2.5	23	88	5	80	57	5	19	17	1.59
39659927--39659993	22	3.0	21	79	12	55	58	5	17	17	1.59
39662646--39662692	12	4.0	12	76	15	53	46	23	10	19	1.80
39663990--39664172	43	4.3	42	81	4	204	31	30	14	23	1.94
39665577--39665651	33	2.3	33	81	6	82	40	16	22	21	1.91
39669596--39669667	35	2.1	35	97	0	135	22	20	5	51	1.68
39670574--39670692	46	2.6	45	84	9	143	27	18	28	25	1.98
39685083--39685160	23	3.3	23	80	12	79	24	25	19	30	1.98
39685118--39685171	23	2.3	23	81	6	65	25	24	18	31	1.97
39685311--39685351	20	2.0	20	95	0	73	39	0	17	43	1.49
39685315--39685361	20	2.3	20	85	0	58	29	4	19	46	1.68
39686235--39686319	43	1.9	44	90	4	136	24	35	21	18	1.96
39687888--39687959	23	3.2	23	78	3	58	48	23	1	26	1.59
39688823--39688862	21	1.9	21	85	10	55	35	20	7	37	1.81
39690893--39690943	22	2.3	23	83	12	72	54	1	9	33	1.44
39694993--39695073	21	4.0	20	72	4	72	53	12	12	22	1.71
39694991--39695122	45	3.1	41	79	7	113	52	11	11	25	1.70
39695045--39695213	45	3.8	45	85	3	202	57	11	8	23	1.60
39695045--39695118	21	3.4	21	70	17	69	50	10	13	25	1.74
39695050--39695213	87	1.9	87	84	6	222	57	11	7	22	1.59
39695106--39695188	21	3.8	21	74	14	69	59	13	3	24	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39696175--39696271	50	1.9	50	82	0	122	20	19	30	28	1.97
39697850--39697901	24	2.0	27	85	14	74	34	5	13	46	1.67
39701864--39701894	15	2.1	14	94	5	53	3	12	0	83	0.75
39724032--39724247	112	1.9	112	95	0	389	40	13	16	29	1.87
39724917--39725072	81	1.9	81	96	0	285	31	17	10	41	1.83
39729696--39729750	29	1.9	29	88	3	85	34	23	18	23	1.96
39732224--39732276	26	2.0	26	96	0	97	43	20	13	22	1.86
39737525--39737742	40	5.5	40	90	3	316	25	29	22	22	1.99
39739872--39739937	34	1.9	34	96	0	123	31	27	15	25	1.95
39739972--39740029	30	2.0	29	93	3	98	36	24	12	27	1.91
39751091--39751149	29	2.0	29	86	3	82	49	11	6	32	1.66
39751855--39751912	25	2.2	24	82	14	71	51	3	0	44	1.18
39757079--39757204	49	2.6	49	82	2	146	23	27	19	29	1.98
39765834--39766021	42	4.4	42	86	1	268	17	37	22	22	1.94
39766744--39766910	49	3.4	48	75	10	144	24	31	20	23	1.98
39766884--39766938	28	2.0	28	100	0	110	21	30	29	18	1.97
39766919--39767036	48	2.6	45	86	8	150	25	31	16	26	1.97
39776489--39776755	96	2.8	94	78	7	247	23	27	19	29	1.98
39782110--39782148	6	6.3	6	88	5	60	15	20	0	64	1.30
39782131--39782251	58	2.1	59	83	6	158	28	18	5	47	1.71
39784991--39785044	27	2.0	27	92	0	90	29	29	11	29	1.91
39788092--39788140	24	2.0	24	100	0	98	12	46	20	20	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39790877--39791015	58	2.4	58	79	5	140	33	20	20	26	1.97
39802522--39802605	39	2.2	39	88	0	123	23	34	5	35	1.80
39802734--39802765	15	2.1	15	100	0	64	37	25	18	18	1.94
39811380--39811487	26	4.2	26	93	0	180	33	7	23	36	1.83
39816584--39816616	13	2.5	13	95	0	57	15	30	36	18	1.91
39821157--39821186	15	2.0	15	93	0	51	50	33	13	3	1.58
39822618--39822812	98	2.0	98	100	0	390	25	26	22	25	2.00
39822742--39822959	40	5.5	40	89	2	298	24	27	23	23	2.00
39826394--39826509	43	2.7	43	90	0	187	28	33	16	21	1.95
39830691--39830773	41	2.1	40	88	6	125	24	18	15	42	1.89
39830946--39830976	7	4.4	7	95	0	53	22	0	0	77	0.77
39830949--39831001	8	6.4	8	79	16	54	30	0	1	67	1.01
39831680--39831724	21	2.1	22	87	4	65	37	37	0	24	1.56
39831749--39831790	15	2.9	15	82	3	50	52	28	0	19	1.46
39832319--39832414	40	2.4	40	85	1	120	29	25	18	27	1.98
39832402--39832430	12	2.4	12	100	0	58	48	31	13	6	1.69
39843286--39843478	43	4.5	43	84	1	237	33	24	15	26	1.95
39845495--39845572	38	2.1	38	100	0	156	41	20	23	15	1.90
39846594--39846685	36	2.6	36	91	0	139	39	11	9	39	1.75
39857855--39857886	14	2.4	13	90	10	55	18	6	12	62	1.50
39861583--39861714	55	2.4	55	80	0	156	21	25	27	25	1.99
39865202--39865377	46	3.8	47	77	12	193	22	19	27	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39865199--39865369	93	1.8	93	91	2	281	22	20	27	29	1.98
39880424--39880495	34	2.1	34	81	0	81	19	12	31	36	1.89
39880991--39881054	32	2.0	32	93	0	110	32	7	23	35	1.84
39882938--39883065	28	4.5	28	87	2	148	29	12	25	32	1.92
39882964--39883065	28	3.6	28	92	2	168	30	11	24	33	1.91
39895647--39896550	54	16.7	54	100	0	1808	22	13	36	27	1.91
39896552--39896625	29	2.6	29	89	4	105	25	16	32	25	1.96
39896935--39897152	40	5.5	39	80	8	183	23	22	28	25	1.99
39896935--39897083	79	1.9	81	83	5	196	24	22	27	25	2.00
39897053--39897169	40	2.9	40	85	0	153	23	21	30	24	1.99

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