genome.fa.s9.2.7.7.80.10.50.1000.168.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   

This is table  168  of  259  ( 31025 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)
54527201--54527461	45	5.8	45	78	10	117	29	24	16	29	1.97
54527414--54527983	177	3.2	177	77	4	560	26	25	18	29	1.98
54527628--54527713	44	2.0	44	81	9	104	30	25	11	32	1.91
54527925--54528350	44	9.8	44	72	7	260	25	23	21	28	1.99
54527925--54528350	130	3.3	130	88	3	604	25	23	21	28	1.99
54528041--54528242	86	2.3	86	81	9	223	25	24	21	28	1.99
54530090--54530127	20	2.0	20	89	5	60	5	10	5	78	1.06
54536564--54536714	55	2.8	53	78	13	134	62	1	5	29	1.28
54538178--54538246	22	3.2	22	72	14	54	69	5	7	17	1.32
54538215--54538318	3	35.0	3	68	19	58	62	2	3	30	1.28
54538196--54538246	25	2.2	25	82	10	63	70	3	5	19	1.24
54538194--54538255	30	2.1	29	82	11	72	69	4	4	20	1.26
54538259--54538340	28	2.9	28	82	8	87	57	1	7	34	1.34
54538559--54538619	3	20.3	3	80	12	72	65	0	1	32	1.02
54538561--54538619	21	2.8	21	94	0	100	66	0	1	32	1.02
54563068--54563121	22	2.4	22	84	6	72	24	12	24	38	1.90
54564531--54564575	23	2.0	22	82	4	54	66	6	11	15	1.42
54564568--54564642	3	24.0	3	76	15	64	65	2	1	30	1.15
54564872--54564901	12	2.5	12	88	0	51	70	0	3	26	1.03
54565792--54565851	23	2.5	24	78	5	68	26	15	46	11	1.79
54566277--54566931	44	14.7	43	69	13	200	27	22	18	30	1.97
54566505--54566843	45	7.6	45	70	10	192	28	22	18	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54566727--54566986	45	5.8	45	78	10	117	28	24	16	30	1.97
54566872--54567488	177	3.5	178	77	4	541	26	25	18	29	1.98
54567152--54567237	44	2.0	44	81	9	104	30	25	11	32	1.91
54567449--54567874	44	9.8	44	72	7	260	25	23	21	28	1.99
54567449--54567874	130	3.3	130	88	3	604	25	23	21	28	1.99
54567565--54567766	86	2.3	86	81	9	223	25	24	21	28	1.99
54569613--54569651	20	2.0	20	89	0	60	5	10	5	79	1.04
54576024--54576110	21	4.2	19	72	16	50	62	3	2	32	1.25
54576121--54576231	59	1.9	59	87	7	167	62	2	4	30	1.29
54577696--54577764	22	3.2	22	72	14	54	69	5	7	17	1.32
54577733--54577837	3	35.0	3	70	17	67	62	2	3	30	1.27
54577714--54577764	25	2.2	25	82	10	63	70	3	5	19	1.24
54577712--54577773	30	2.1	29	82	11	72	69	4	4	20	1.26
54577777--54577855	28	2.8	28	79	9	72	56	1	7	34	1.35
54578079--54578139	3	20.3	3	80	12	72	65	0	1	32	1.02
54578081--54578139	21	2.8	21	94	0	100	66	0	1	32	1.02
54591363--54591401	20	2.0	20	85	10	53	46	0	5	48	1.24
54594055--54594200	56	2.6	56	78	11	147	39	13	3	43	1.60
54594850--54594878	14	2.0	15	93	6	51	34	3	0	62	1.12
54594882--54594920	17	2.3	17	86	8	53	33	2	5	58	1.33
54599473--54599515	19	2.3	19	80	8	52	37	9	2	51	1.47
54604157--54604228	37	1.9	37	100	0	144	20	22	25	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54606882--54606942	20	3.2	20	75	17	76	34	16	14	34	1.89
54607284--54607394	51	2.2	52	85	4	145	47	14	1	36	1.55
54607611--54607699	39	2.3	39	80	7	101	46	2	0	51	1.13
54607770--54607811	14	3.0	15	83	13	54	59	0	0	40	0.97
54607838--54607899	15	3.8	15	74	17	61	50	0	1	48	1.10
54608358--54608396	14	2.8	14	92	0	60	33	17	7	41	1.79
54613068--54613133	29	2.2	30	78	2	71	34	4	15	45	1.66
54614888--54614918	16	1.9	16	100	0	62	12	25	12	48	1.77
54615767--54615803	8	4.8	8	86	6	58	29	0	0	70	0.88
54617486--54617528	18	2.3	19	88	4	61	65	2	0	32	1.06
54621778--54621829	2	26.0	2	100	0	104	0	50	0	50	1.00
54628667--54628691	13	1.9	13	100	0	50	68	0	0	32	0.90
54629145--54629169	12	2.1	12	100	0	50	92	0	0	8	0.40
54629546--54629600	22	2.5	23	85	5	69	34	0	0	65	0.93
54630220--54630269	13	3.6	14	82	17	68	68	2	0	30	1.01
54630221--54630264	23	1.9	23	86	9	63	68	2	0	29	1.02
54636267--54636309	11	3.8	11	80	17	52	30	2	2	65	1.18
54636270--54636313	23	1.9	23	90	0	70	31	2	4	61	1.28
54645194--54645250	30	1.9	30	85	0	78	24	36	28	10	1.88
54649273--54649315	23	1.9	23	85	4	61	62	4	2	30	1.28
54651396--54651486	44	2.1	44	87	0	128	47	3	7	41	1.48
54651923--54652004	33	2.5	31	75	16	76	60	3	0	35	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54652103--54652129	4	6.8	4	100	0	54	22	0	0	77	0.76
54659085--54659122	6	6.3	6	100	0	76	31	52	0	15	1.43
54664618--54664659	20	2.1	20	100	0	84	40	4	14	40	1.67
54664622--54664667	20	2.6	17	86	13	58	41	4	13	41	1.63
54684083--54684123	21	2.0	21	85	9	57	21	4	21	51	1.67
54690166--54690191	13	2.0	13	100	0	52	53	0	15	30	1.42
54691997--54692059	30	2.1	30	90	0	99	25	4	12	57	1.55
54692180--54692207	11	2.5	11	100	0	56	75	0	0	25	0.81
54693830--54693857	14	2.0	14	100	0	56	21	7	28	42	1.79
54694064--54694113	19	2.5	20	87	12	68	14	12	6	68	1.39
54696048--54696072	11	2.3	11	100	0	50	36	16	0	48	1.46
54696178--54696221	19	2.4	19	85	11	56	27	2	0	70	0.99
54714330--54714392	30	2.1	30	93	0	108	39	20	20	19	1.92
54714417--54714473	30	1.9	30	92	0	96	36	22	21	19	1.95
54714325--54714524	81	2.5	81	94	0	346	35	18	23	23	1.96
54715518--54715598	39	2.1	39	84	9	103	37	6	6	50	1.52
54721572--54721618	22	2.2	22	84	3	60	19	0	14	65	1.26
54735499--54735810	151	2.1	151	99	0	615	28	14	13	42	1.84
54737251--54737289	8	4.6	8	84	9	51	35	0	0	64	0.94
54737251--54737305	17	3.2	16	78	12	56	38	0	0	61	0.96
54737251--54737305	18	3.2	16	82	12	65	38	0	0	61	0.96
54740917--54740976	28	2.0	30	81	15	72	30	5	6	58	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54741378--54741417	21	1.9	21	90	10	64	42	0	0	57	0.98
54741636--54741698	26	2.4	25	81	7	72	58	1	0	39	1.07
54742040--54742109	30	2.4	29	80	7	79	34	20	7	38	1.80
54759194--54759265	36	2.0	36	83	5	92	65	2	4	27	1.25
54759277--54759640	182	2.0	180	82	5	446	39	9	12	38	1.76
54759693--54759747	28	2.0	28	82	7	67	29	5	1	63	1.27
54759779--54759851	37	2.0	37	81	10	87	39	0	4	56	1.19
54759883--54760049	85	2.0	85	84	7	223	35	8	15	39	1.79
54759876--54760083	85	2.4	84	76	13	208	33	9	17	38	1.83
54762632--54762676	15	2.9	15	80	6	54	17	4	6	71	1.25
54765747--54765777	16	1.9	16	93	0	53	32	19	0	48	1.49
54773480--54773504	2	12.5	2	100	0	50	0	48	0	52	1.00
54776030--54776055	3	8.7	3	100	0	52	30	0	0	69	0.89
54776358--54776423	29	2.3	29	80	12	73	59	3	4	33	1.33
54776611--54776652	21	2.0	21	85	0	57	26	21	9	42	1.83
54776870--54776894	13	1.9	13	100	0	50	36	0	0	64	0.94
54785632--54785696	31	2.1	31	94	5	114	23	13	9	53	1.68
54793032--54793107	22	3.7	21	76	15	68	40	17	6	35	1.75
54793061--54793158	35	2.7	37	87	12	150	35	16	10	37	1.82
54793068--54793158	19	4.9	19	92	8	161	36	15	10	37	1.83
54793277--54793315	21	1.9	20	84	5	51	10	2	15	71	1.23
54793508--54793643	45	3.0	45	82	2	184	26	25	14	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54793680--54793892	78	2.7	78	91	0	336	23	23	19	32	1.97
54794055--54794424	78	4.7	78	91	1	580	23	24	19	31	1.98
54794457--54794618	89	1.8	89	84	5	222	27	24	18	30	1.98
54793680--54794570	454	2.0	451	81	7	1059	24	24	18	32	1.97
54803192--54803249	22	2.6	22	81	7	64	41	15	5	37	1.70
54803228--54803318	19	4.9	19	92	8	161	36	15	10	37	1.83
54803221--54803318	35	2.7	37	87	12	150	35	16	10	37	1.82
54803437--54803475	21	1.9	20	84	5	51	10	2	15	71	1.23
54809228--54809292	22	3.0	22	80	8	64	44	7	1	46	1.41
54814069--54814196	47	2.7	47	81	0	148	32	27	17	22	1.96

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