genome.fa.s9.2.7.7.80.10.50.1000.160.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  160  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)
52310395--52310430	14	2.5	15	90	4	56	41	5	0	52	1.24
52310495--52310550	21	2.7	21	81	10	69	35	1	5	57	1.32
52313736--52313775	15	2.7	14	88	11	62	70	5	25	0	1.08
52313735--52313783	19	2.4	21	80	16	59	67	6	26	0	1.14
52322584--52323062	77	6.1	77	87	6	653	28	16	20	34	1.94
52322584--52323230	154	4.1	154	81	12	700	28	16	20	34	1.94
52322958--52322987	14	2.1	14	93	0	51	16	10	6	66	1.41
52323045--52323079	15	2.2	16	90	5	54	14	11	5	68	1.37
52322881--52323159	94	3.1	89	89	6	418	28	14	18	38	1.90
52323214--52323261	14	3.5	14	88	2	71	20	12	6	60	1.54
52323317--52323351	14	2.5	14	100	0	70	17	20	5	57	1.60
52323227--52323510	88	3.2	87	86	4	365	26	18	18	36	1.94
52324814--52324869	29	1.9	29	100	0	112	48	14	23	14	1.80
52325347--52325488	20	7.2	20	67	26	65	35	2	4	57	1.32
52325437--52325471	17	2.0	18	88	5	54	28	2	2	65	1.21
52335956--52336341	48	8.0	48	93	2	652	34	6	27	31	1.82
52342443--52342497	28	2.0	28	88	0	83	41	14	16	27	1.87
52343871--52343981	38	3.0	37	72	18	97	38	1	2	56	1.24
52343931--52343985	20	2.7	20	81	16	67	40	1	1	56	1.21
52343922--52343988	26	2.6	26	79	9	66	37	1	1	59	1.16
52344275--52344312	13	2.8	14	84	4	51	76	0	7	15	1.01
52345375--52345487	45	2.5	45	86	2	174	20	18	19	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52345465--52345517	6	8.7	6	80	2	61	20	22	13	43	1.86
52345469--52345517	18	2.7	18	87	3	71	20	22	14	42	1.88
52346244--52346280	9	4.1	9	90	10	58	81	0	0	18	0.70
52346247--52346283	16	2.3	16	90	9	58	83	0	0	16	0.64
52346246--52346277	10	3.4	10	91	8	50	84	0	0	15	0.63
52356975--52357047	33	2.1	34	82	9	87	23	28	19	28	1.98
52359647--52359721	33	2.3	33	84	6	100	16	21	42	20	1.89
52371645--52371694	10	5.0	10	79	13	50	66	2	8	24	1.29
52371645--52371684	20	2.0	20	90	9	64	65	2	7	25	1.32
52372385--52372565	96	1.9	96	91	0	299	32	27	15	25	1.96
52373676--52373760	15	5.4	15	71	25	68	72	1	2	23	1.03
52373676--52373782	10	12.0	9	76	17	75	73	0	3	21	1.04
52373671--52373782	34	3.2	34	78	13	113	74	0	3	21	1.03
52373677--52373782	9	10.9	9	70	16	52	74	0	3	20	1.03
52377492--52377541	10	5.0	10	79	13	50	66	2	8	24	1.29
52377492--52377531	20	2.0	20	90	9	64	65	2	7	25	1.32
52385209--52385348	24	5.8	24	72	0	100	32	27	13	26	1.94
52390422--52390468	23	2.0	23	100	0	94	46	14	17	21	1.83
52393330--52393419	24	3.8	24	90	0	126	34	28	14	22	1.93
52398560--52398681	43	2.9	42	82	2	145	28	23	16	31	1.96
52432689--52432713	13	1.9	13	100	0	50	32	28	0	40	1.57
52438351--52438388	19	2.0	19	94	0	67	36	28	15	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52439067--52439122	13	4.5	13	78	13	73	50	14	0	35	1.43
52439080--52439123	23	1.9	23	95	0	79	52	13	0	34	1.41
52439649--52439807	40	4.0	40	84	5	171	35	22	22	19	1.96
52440111--52440164	15	3.7	15	76	16	51	22	1	35	40	1.65
52440112--52440166	21	2.6	21	80	8	58	23	1	36	38	1.66
52440181--52440230	22	2.3	22	79	3	57	28	2	34	36	1.69
52440405--52440454	22	2.3	21	79	3	55	22	0	34	44	1.53
52440424--52440451	7	4.0	7	100	0	56	14	0	42	42	1.45
52442437--52442611	45	3.8	45	74	10	167	21	20	29	28	1.98
52444064--52444231	40	4.2	40	82	8	148	27	27	20	24	1.99
52444099--52444284	80	2.3	80	83	9	229	27	27	20	23	1.99
52444101--52444284	40	4.6	40	83	7	205	27	27	21	23	1.99
52451109--52451280	42	4.1	43	76	8	138	27	15	26	30	1.96
52458872--52459044	41	4.3	41	87	2	224	31	15	28	24	1.95
52458872--52459044	82	2.1	82	89	2	260	31	15	28	24	1.95
52460551--52460601	15	3.4	15	76	15	52	52	5	3	37	1.44
52460560--52460597	17	2.2	18	85	4	51	65	5	2	26	1.27
52463674--52463727	26	2.1	26	82	3	65	51	3	3	40	1.37
52464592--52464639	18	2.7	17	81	9	51	50	0	4	45	1.21
52468083--52468150	17	3.8	17	79	12	64	32	2	1	63	1.18
52469595--52469646	19	2.7	19	79	8	52	38	0	3	57	1.17
52469606--52469646	18	2.2	19	86	4	57	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52470435--52470676	55	4.5	55	84	5	305	27	9	13	49	1.72
52470444--52470648	108	1.9	108	90	2	331	27	8	13	51	1.69
52470636--52470700	33	2.0	33	90	0	103	29	12	12	46	1.78
52479135--52479184	21	2.4	22	77	12	61	0	34	0	66	0.92
52479385--52479471	3	30.3	3	68	21	53	63	4	1	31	1.22
52479405--52479471	19	3.5	19	72	25	52	65	4	1	28	1.21
52481595--52481630	10	3.2	12	81	18	51	0	19	0	80	0.71
52481586--52481635	21	2.4	21	86	0	73	0	28	0	72	0.86
52481836--52481922	3	30.3	3	69	17	60	64	2	1	32	1.13
52481836--52481929	40	2.3	40	79	15	97	62	2	1	34	1.14
52482767--52482817	23	2.3	22	83	6	66	39	9	17	33	1.83
52482774--52482819	23	2.0	23	91	0	74	39	8	19	32	1.82
52484005--52484098	41	2.3	41	83	0	116	31	28	22	17	1.96
52490911--52490950	16	2.5	16	84	8	55	37	0	0	62	0.95
52493230--52493287	28	2.1	28	100	0	116	44	22	0	32	1.53
52495303--52495624	47	6.8	46	73	13	183	26	19	29	23	1.98
52495307--52495720	94	4.4	93	76	8	363	27	20	28	23	1.99
52495592--52495720	49	2.6	49	88	0	204	28	21	27	22	1.99
52495304--52495722	141	2.9	141	74	10	368	27	20	28	23	1.99
52502467--52502682	39	5.5	39	86	5	267	29	18	25	26	1.98
52502469--52502682	117	1.8	117	87	2	322	28	18	25	27	1.98
52503900--52503961	31	2.0	31	100	0	124	19	9	22	48	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52508605--52508963	47	7.6	46	73	12	232	27	20	30	21	1.98
52508608--52508925	94	3.4	93	82	6	376	27	21	30	21	1.98
52509720--52509839	55	2.2	53	81	10	134	21	24	29	25	1.99
52511687--52511716	12	2.6	11	90	10	51	20	0	6	73	1.05
52517438--52517518	42	1.9	42	95	5	146	37	6	4	51	1.48
52517619--52517699	40	2.0	40	97	0	153	22	14	13	49	1.78
52518314--52518356	22	1.9	23	86	13	63	53	0	0	46	1.00
52518627--52518716	44	2.0	44	100	0	180	25	20	4	50	1.67
52518773--52518830	24	2.4	24	82	5	73	48	0	34	17	1.47
52528504--52528538	18	2.1	17	89	10	54	45	0	17	37	1.48
52542743--52542994	126	2.0	126	100	0	504	41	14	9	34	1.78
52543448--52543549	49	2.1	49	94	1	179	32	12	5	49	1.65
52546291--52546328	20	2.0	20	89	5	60	52	5	7	34	1.53
52546964--52546999	3	12.0	3	87	0	54	0	2	61	36	1.11
52551263--52551311	24	2.0	24	92	0	80	46	18	8	26	1.76
52551263--52551319	24	2.4	24	85	5	62	45	19	10	24	1.81
52554357--52554415	5	11.6	5	82	10	50	76	1	0	22	0.88
52554368--52554412	6	7.2	6	83	16	56	82	0	0	17	0.68
52554368--52554407	7	6.0	7	91	5	57	82	0	0	17	0.67
52554368--52554412	19	2.4	19	88	7	65	82	0	0	17	0.68
52555725--52555769	22	2.1	22	84	12	58	35	0	11	53	1.37
52556491--52556653	87	1.9	86	85	3	229	27	13	20	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52558151--52558190	12	3.3	12	85	0	53	30	30	2	37	1.71
52564994--52565035	21	2.0	20	82	13	50	38	23	16	21	1.93
52587156--52587215	30	2.0	30	86	0	84	31	25	6	36	1.82
52601457--52601627	93	1.8	93	91	2	281	30	28	19	22	1.98
52601452--52601621	46	3.7	46	74	14	170	31	27	18	22	1.97
52604642--52604690	18	2.7	18	96	0	89	30	18	8	42	1.79
52607695--52607868	48	3.7	48	76	13	164	29	19	27	23	1.98
52607695--52607810	47	2.5	45	85	12	146	30	18	28	23	1.97
52607698--52608059	49	7.6	48	74	9	228	28	18	28	24	1.98
52607744--52608005	142	1.9	140	82	6	332	28	19	28	24	1.98

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