genome.fa.s4.2.7.7.80.10.50.1000.134.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  134  of  235  ( 28198 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)
45306839--45306890	21	2.5	20	87	9	70	32	1	3	61	1.25
45306839--45306891	20	2.6	21	88	8	74	32	1	3	62	1.24
45308257--45308301	19	2.3	19	85	11	56	48	6	0	44	1.29
45309893--45310223	42	7.9	42	85	4	355	30	20	21	27	1.98
45309904--45310139	125	1.9	126	93	0	411	31	20	22	25	1.98
45310292--45310325	14	2.4	14	95	0	59	52	20	8	17	1.71
45310550--45310619	21	3.3	21	79	0	77	2	44	18	34	1.65
45316070--45316158	9	10.0	9	69	27	66	34	0	20	44	1.51
45316115--45316419	26	12.1	26	81	12	318	32	0	20	46	1.51
45316201--45316348	18	7.4	18	71	23	102	35	0	19	44	1.51
45316160--45316431	68	4.1	66	73	16	213	32	0	20	47	1.51
45316862--45316906	13	3.5	13	87	0	72	51	2	6	40	1.41
45316862--45316920	26	2.4	25	86	8	77	50	3	6	38	1.45
45316878--45317033	44	3.7	40	83	12	204	46	2	8	41	1.49
45316900--45317036	44	3.1	44	92	0	238	45	2	8	43	1.47
45316999--45317050	17	3.1	17	91	5	79	40	0	9	50	1.35
45317085--45317127	17	2.5	17	96	3	77	34	0	16	48	1.46
45317100--45317317	109	2.0	108	91	5	359	41	8	11	38	1.73
45320482--45320682	84	2.4	83	92	2	321	29	17	19	32	1.95
45321066--45321091	12	2.2	12	100	0	52	19	34	7	38	1.80
45321704--45322053	112	3.1	112	94	1	576	26	28	19	25	1.99
45322018--45322094	40	1.9	40	91	0	127	20	29	15	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45326774--45326859	43	2.0	43	100	0	172	25	20	11	41	1.86
45331256--45331291	18	2.0	18	100	0	72	44	16	16	22	1.86
45334682--45334748	30	2.2	30	84	5	82	31	41	19	7	1.79
45334802--45334844	18	2.4	18	84	0	59	16	30	11	41	1.83
45335229--45335611	116	3.3	116	95	0	676	39	3	8	48	1.52
45335232--45335621	58	6.7	60	68	21	249	40	3	8	47	1.50
45337918--45338173	116	2.2	116	94	0	449	40	3	8	48	1.50
45337954--45338135	54	3.2	54	71	19	172	42	2	8	46	1.48
45338002--45338176	55	3.1	54	70	17	149	42	3	7	46	1.48
45341451--45341987	126	4.3	126	92	1	846	27	21	18	32	1.96
45342070--45342099	15	2.0	15	93	0	51	46	36	0	16	1.47
45342074--45342281	97	2.1	98	82	7	262	40	16	1	41	1.58
45342269--45342312	15	2.8	15	79	6	52	52	20	0	27	1.47
45344557--45344606	19	2.9	17	78	16	59	30	2	0	68	1.01
45344647--45344676	10	3.0	10	90	0	51	23	0	0	76	0.78
45350686--45350854	37	4.6	37	81	2	173	17	11	30	40	1.85
45367536--45367784	39	6.4	39	82	1	270	43	21	4	30	1.71
45367559--45367790	78	3.0	77	88	1	347	43	21	4	30	1.72
45367569--45367784	117	1.9	116	86	1	306	43	20	4	30	1.72
45368647--45368700	14	3.6	15	79	16	67	50	0	5	44	1.25
45380666--45380704	6	6.5	6	90	0	60	15	5	0	79	0.90
45380666--45380719	17	3.1	18	84	7	67	14	7	0	77	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45380665--45380719	12	4.8	11	83	14	58	16	7	0	76	1.00
45386378--45386415	16	2.4	16	86	8	51	63	7	5	23	1.42
45391968--45392025	19	3.1	19	79	16	68	24	25	0	50	1.50
45392433--45392462	15	1.9	16	93	6	53	46	13	6	33	1.69
45393927--45393965	19	2.1	18	90	4	60	51	2	0	46	1.14
45394564--45394637	28	2.5	30	72	14	73	41	1	1	55	1.17
45394539--45394600	21	2.7	23	73	19	67	46	0	0	53	1.00
45395340--45395386	13	3.8	12	78	21	53	42	0	0	57	0.98
45405686--45405737	14	3.8	14	78	12	63	71	3	5	19	1.22
45405943--45406004	20	3.1	20	78	0	70	58	1	8	32	1.37
45405967--45406014	23	2.0	24	88	8	71	64	0	6	29	1.18
45405965--45406019	25	2.2	25	81	12	69	63	0	5	30	1.17
45406061--45406288	3	74.3	3	67	16	103	59	3	8	28	1.42
45411698--45411728	16	1.9	16	93	0	53	29	6	0	64	1.18
45415370--45415414	6	7.5	6	100	0	90	15	33	15	35	1.89
45419377--45419444	12	5.3	12	72	19	57	45	1	2	50	1.26
45419406--45419480	38	2.0	38	82	7	91	46	5	2	45	1.40
45419473--45419497	13	1.9	13	100	0	50	40	0	4	56	1.18
45422864--45422906	13	3.2	13	80	9	50	41	0	0	58	0.98
45436661--45436689	15	2.0	15	93	6	51	0	20	0	79	0.74
45436693--45436743	21	2.4	21	100	0	102	15	19	9	54	1.68
45439252--45439286	10	3.5	10	84	0	52	17	5	20	57	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45439247--45439286	20	2.0	20	100	0	80	20	5	20	55	1.62
45439358--45439393	18	2.1	17	89	5	54	33	5	0	61	1.19
45450033--45450076	21	2.1	21	91	0	70	20	29	20	29	1.98
45456142--45456182	7	5.9	7	100	0	82	87	0	12	0	0.53
45456858--45456902	20	2.3	20	80	3	56	20	2	4	73	1.11
45470784--45470839	16	3.5	15	77	17	51	35	3	1	58	1.26
45472345--45472397	18	2.9	18	71	20	56	33	30	16	18	1.94
45494398--45494460	31	2.0	31	100	0	126	30	22	12	34	1.91
45494882--45494916	16	2.1	18	89	10	56	0	20	2	77	0.90
45494859--45494916	17	3.4	17	73	7	55	6	13	3	75	1.13
45497396--45497586	68	3.0	62	76	16	208	51	2	3	42	1.33
45503739--45503768	14	2.2	14	94	5	53	53	0	0	46	1.00
45507972--45508069	34	2.9	32	82	10	115	42	0	14	42	1.45
45516190--45516237	20	2.5	20	79	3	53	56	2	0	41	1.11
45520267--45520331	15	4.4	15	73	11	53	63	1	4	30	1.24
45523053--45523092	15	2.7	15	88	0	53	32	10	0	57	1.32
45525757--45525811	27	2.0	27	89	0	92	67	25	3	3	1.23
45526768--45526799	15	2.0	17	88	11	50	31	0	6	62	1.20
45527755--45527790	12	3.0	12	87	0	54	25	27	5	41	1.77
45527763--45527794	16	1.9	17	93	6	57	25	28	6	40	1.79
45535636--45535767	70	1.9	70	90	0	210	30	16	20	32	1.95
45537238--45537321	19	4.2	20	71	18	75	30	3	5	59	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45539217--45539373	78	2.0	78	96	0	287	45	10	7	36	1.66
45540208--45540272	33	2.0	33	90	0	103	24	4	18	52	1.64
45542149--45542212	33	1.9	33	87	6	94	53	10	4	31	1.57
45542813--45542868	20	2.8	19	76	15	51	32	8	0	58	1.29
45542848--45542954	57	1.9	56	84	5	144	44	2	4	47	1.38
45542864--45542975	57	1.9	58	80	5	129	49	3	4	42	1.40
45543025--45543072	16	2.9	16	81	9	53	29	0	2	68	1.01
45543036--45543085	25	2.0	24	84	3	64	30	0	2	68	1.01
45543041--45543092	25	2.1	25	81	0	59	34	1	1	61	1.18
45544179--45544222	23	1.9	23	86	9	63	47	4	9	38	1.56
45546263--45546327	29	2.2	28	83	5	85	50	12	4	32	1.60
45554886--45555586	173	4.0	173	83	5	752	38	11	10	38	1.77
45554886--45555543	345	1.9	336	82	8	743	39	11	11	37	1.77
45555666--45555704	20	2.0	20	84	0	51	38	2	2	56	1.27
45567043--45567089	24	2.0	25	84	16	64	68	10	10	10	1.41
45583900--45583934	14	2.5	14	95	0	61	42	0	0	57	0.99
45584114--45584204	45	2.0	45	85	2	121	37	28	6	27	1.82
45584185--45584237	16	3.2	16	94	5	97	37	37	0	24	1.56
45585848--45585876	13	2.1	14	93	6	51	55	20	24	0	1.44
45590198--45590364	46	3.7	44	83	3	174	25	20	31	22	1.98
45590147--45590358	92	2.3	90	82	3	235	25	20	32	22	1.98
45590195--45590401	46	4.6	44	80	11	170	24	20	30	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45595634--45595752	25	4.8	24	70	15	89	31	8	3	57	1.45
45595634--45595752	51	2.4	50	82	9	145	31	8	3	57	1.45
45595777--45595869	27	3.5	26	77	5	80	32	9	1	56	1.39
45596013--45596069	29	1.9	30	89	3	89	29	3	1	64	1.20
45597877--45597915	21	1.9	21	89	5	62	41	0	7	51	1.31
45597874--45597928	21	2.6	20	73	21	58	38	7	9	45	1.64
45597907--45598111	17	12.3	17	73	12	131	45	11	9	33	1.73
45597907--45598111	34	6.1	34	71	11	147	45	11	9	33	1.73
45609091--45609266	71	2.5	70	85	1	219	34	22	14	28	1.94
45621224--45621340	30	3.9	29	77	11	94	44	3	22	29	1.69

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