genome.fa.s19.2.7.7.80.10.50.1000.179.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: D06
Parameters: 2 7 7 80 10 50 1000
Length:  68668488

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   

This is table  179  of  230  ( 27491 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)
53532910--53532951	3	14.0	3	87	0	57	33	0	4	61	1.17
53533417--53533444	3	9.3	3	100	0	56	32	0	0	67	0.91
53534467--53534505	20	1.9	21	89	5	62	35	0	5	58	1.20
53548118--53548164	24	2.0	24	86	0	67	31	0	2	65	1.04
53558969--53559036	16	4.0	16	75	11	55	45	25	7	22	1.77
53559758--53559789	15	2.1	15	94	0	55	15	6	9	68	1.36
53561395--53561470	37	2.1	36	83	11	93	40	1	2	55	1.22
53561395--53561470	11	6.8	11	72	21	52	40	1	2	55	1.22
53568630--53568718	46	1.9	46	90	0	142	35	19	10	34	1.85
53576291--53576320	13	2.3	13	94	0	51	23	6	13	56	1.60
53577071--53577105	18	2.0	17	88	5	52	45	0	0	54	0.99
53577341--53577408	16	4.2	16	94	0	118	38	33	0	27	1.57
53579007--53579045	20	2.0	20	85	10	53	25	5	23	46	1.73
53582681--53582733	26	2.0	26	85	0	70	33	18	20	26	1.96
53582810--53583029	32	6.8	32	80	7	223	37	23	21	18	1.94
53582810--53583029	64	3.4	64	80	8	259	37	23	21	18	1.94
53582815--53583026	98	2.2	96	83	6	268	37	23	21	17	1.94
53583029--53583082	26	2.1	26	89	0	81	33	22	24	20	1.97
53584695--53584732	20	1.9	20	94	0	67	57	21	2	18	1.52
53587481--53587538	28	2.1	28	83	6	73	50	1	5	43	1.35
53588605--53588631	12	2.2	12	100	0	54	33	29	22	14	1.94
53589934--53590021	38	2.3	39	82	4	106	14	28	18	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53596301--53596357	22	2.6	20	79	17	60	40	10	1	47	1.48
53605052--53605449	50	7.8	50	85	1	472	27	20	28	23	1.99
53605059--53605498	150	2.9	149	82	6	508	27	20	28	24	1.99
53605116--53605498	50	7.7	49	82	6	218	27	20	28	23	1.99
53616295--53616348	28	1.9	28	85	7	74	50	9	7	33	1.62
53621725--53621764	17	2.5	16	84	11	55	2	20	2	75	1.04
53622415--53622658	104	2.3	105	85	2	312	24	22	31	21	1.98
53627916--53627956	21	2.0	21	85	0	55	46	24	17	12	1.82
53627945--53628002	21	2.8	21	72	0	71	36	18	29	15	1.92
53627921--53628068	42	3.5	41	77	2	143	42	17	22	17	1.89
53628543--53628616	39	1.9	38	94	5	132	35	13	4	47	1.62
53628553--53628611	17	3.2	17	70	21	55	30	13	3	52	1.57
53635489--53635582	21	4.5	21	72	0	71	44	17	20	18	1.87
53635486--53635612	21	6.1	20	68	9	58	44	15	20	19	1.87
53637816--53637870	24	2.2	26	93	6	96	40	21	16	21	1.91
53640425--53640474	24	2.1	24	100	0	100	48	20	12	20	1.80
53643104--53643137	17	2.1	16	88	5	50	44	2	0	52	1.16
53644779--53644859	31	2.6	31	86	0	117	41	14	18	24	1.88
53645222--53645255	18	1.9	18	94	5	61	38	0	5	55	1.24
53655882--53655913	12	2.6	13	85	14	50	6	25	0	68	1.12
53657033--53657070	19	2.0	20	89	5	60	31	18	13	36	1.89
53669318--53669359	19	2.2	19	100	0	84	38	16	4	40	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53679904--53679974	28	2.7	27	77	14	76	47	1	4	46	1.30
53701484--53701514	15	2.1	15	93	0	53	38	3	32	25	1.72
53708048--53708233	51	3.7	49	81	3	219	22	17	27	32	1.97
53708051--53708235	101	1.8	101	87	5	275	22	17	27	32	1.97
53708437--53708509	37	1.9	38	83	2	94	43	2	20	32	1.66
53711397--53711735	178	1.9	179	95	0	608	38	11	25	24	1.88
53716232--53716350	45	2.6	45	95	0	220	21	17	12	47	1.81
53728403--53728446	22	2.0	22	86	8	63	13	18	29	38	1.89
53729756--53729791	6	6.0	6	93	0	63	63	0	19	16	1.30
53729710--53729864	75	2.0	76	88	4	233	50	3	20	25	1.65
53729831--53729864	6	5.5	6	93	6	59	70	0	14	14	1.17
53736196--53736241	6	7.7	6	100	0	92	0	67	0	32	0.91
53750333--53750424	24	3.8	24	86	4	114	21	23	23	30	1.99
53760823--53760863	21	2.0	21	86	9	59	39	0	4	56	1.21
53761433--53761458	8	3.2	8	100	0	52	34	0	0	65	0.93
53762327--53762358	3	10.7	3	100	0	64	65	0	34	0	0.93
53765146--53765260	19	5.8	19	84	7	149	35	7	16	40	1.78
53765146--53765260	38	2.9	38	92	5	185	35	7	16	40	1.78
53765650--53765681	15	2.1	16	94	5	57	28	0	0	71	0.86
53770829--53770872	23	2.0	23	86	8	65	70	0	25	4	1.06
53772070--53772454	88	4.4	88	85	1	502	30	27	22	20	1.98
53772472--53772575	44	2.4	44	83	6	131	29	14	26	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53772924--53773457	217	2.5	218	85	4	688	31	21	21	25	1.98
53773067--53773445	44	8.6	45	74	12	256	30	21	22	25	1.99
53781141--53781175	18	1.9	19	88	11	56	45	8	14	31	1.75
53794729--53794755	14	1.9	14	100	0	54	33	0	0	66	0.92
53798304--53798360	23	2.6	21	78	10	69	35	0	3	61	1.13
53798309--53798358	23	2.2	23	88	0	73	32	0	4	64	1.12
53803439--53803493	6	9.0	6	86	4	74	63	16	1	18	1.39
53803500--53803567	9	7.6	9	84	0	82	30	11	17	39	1.86
53803500--53803567	27	2.5	27	87	0	100	30	11	17	39	1.86
53804072--53804267	30	6.6	30	80	2	189	16	17	27	38	1.91
53806209--53806237	9	3.2	9	100	0	58	31	0	20	48	1.50
53819506--53819816	83	3.7	84	76	13	232	36	21	16	25	1.94
53819473--53819842	29	13.2	28	79	7	314	36	21	16	25	1.94
53819411--53819842	28	15.5	27	76	9	263	34	22	17	25	1.95
53838732--53838791	20	3.0	20	73	24	54	31	1	1	65	1.13
53839493--53839533	18	2.3	18	91	0	64	53	4	0	41	1.22
53842647--53842743	6	15.7	6	68	6	59	68	3	19	9	1.31
53842647--53842743	18	5.2	18	71	6	68	68	3	19	9	1.31
53842731--53842765	18	1.9	18	88	11	54	57	0	20	22	1.41
53842753--53842791	18	2.3	18	86	8	55	69	0	17	12	1.19
53844962--53845025	20	3.2	20	86	4	76	26	28	12	32	1.93
53844952--53845017	10	6.8	9	73	14	51	24	31	12	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53850783--53850818	15	2.5	14	86	8	54	44	8	0	47	1.33
53855514--53855590	17	4.7	16	72	19	61	72	2	0	24	0.97
53855517--53855588	29	2.5	29	86	4	101	72	2	0	25	0.98
53855514--53855589	9	9.2	8	70	17	50	72	2	0	25	0.98
53855546--53855587	13	3.4	12	81	15	50	73	0	0	26	0.83
53859368--53859411	20	2.2	20	84	4	54	72	2	2	22	1.07
53861613--53861677	33	1.9	35	81	6	80	20	24	13	41	1.88
53879561--53879600	14	2.9	13	88	7	53	62	0	17	20	1.33
53880951--53882242	132	9.9	132	87	5	1797	28	19	23	28	1.98
53880951--53882220	389	3.2	388	87	5	1807	28	19	24	28	1.98
53880951--53882236	521	2.5	523	89	3	1893	28	19	24	28	1.98
53880951--53882242	653	2.0	653	97	0	2453	28	19	23	28	1.98
53884247--53884724	210	2.3	210	95	2	856	31	12	19	35	1.90
53885673--53885736	32	2.0	32	100	0	128	37	25	3	34	1.72
53890440--53890541	41	2.5	42	85	6	138	25	15	28	30	1.96
53890895--53890928	14	2.4	14	90	0	50	23	0	41	35	1.55
53890941--53890988	15	3.3	15	76	5	53	14	2	43	39	1.57
53891198--53891232	15	2.3	15	95	0	61	25	0	28	45	1.54
53891222--53891303	28	2.9	28	77	3	83	21	1	34	42	1.61
53891197--53891266	22	3.2	21	80	11	79	22	0	31	45	1.53
53893284--53893639	193	1.9	191	82	5	459	28	9	19	42	1.83
53894669--53894904	87	2.7	86	81	2	258	27	17	24	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53894659--53894900	43	5.6	43	82	1	270	27	17	25	29	1.98
53905660--53905709	5	10.0	5	83	12	59	74	4	22	0	0.99
53905660--53905714	19	2.8	19	81	13	58	74	3	20	1	1.06
53910389--53910448	27	2.2	28	85	8	79	46	1	5	46	1.34
53910867--53910922	21	2.7	21	91	0	94	16	8	41	33	1.79
53912071--53912103	17	1.9	18	88	11	52	42	0	15	42	1.46
53918343--53918380	13	2.8	13	92	8	58	23	0	2	73	0.95
53922305--53922377	28	2.6	28	80	8	87	73	2	19	4	1.11
53922336--53922373	17	2.2	17	86	13	51	78	2	15	2	0.97
53923007--53923144	71	1.9	71	98	0	267	33	15	14	36	1.89

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