genome.fa.s4.2.7.7.80.10.50.1000.129.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   

This is table  129  of  255  ( 30512 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)
41323170--41323313	66	2.2	66	83	6	175	15	22	18	43	1.88
41329259--41329312	25	2.1	26	86	10	76	40	3	7	48	1.49
41329619--41329656	20	2.0	20	89	5	60	68	5	0	26	1.11
41329614--41329657	19	2.3	18	81	11	52	65	4	0	29	1.12
41332009--41332192	67	2.8	64	77	8	194	29	16	30	23	1.96
41336199--41336294	41	2.4	41	87	5	142	22	18	25	33	1.97
41338381--41338533	42	3.6	42	79	4	137	28	17	25	28	1.98
41344462--41344500	19	2.2	17	86	9	51	35	0	0	64	0.94
41346421--41346458	17	2.1	19	85	14	53	68	0	7	23	1.16
41347723--41347829	24	4.5	23	77	10	99	18	10	33	37	1.85
41348908--41349064	43	3.6	44	74	9	135	33	26	15	25	1.95
41357000--41357034	16	2.2	16	90	5	54	42	17	0	40	1.49
41365246--41365832	48	12.0	48	90	4	843	36	6	25	31	1.81
41365246--41365832	198	3.0	195	89	4	896	36	6	25	31	1.81
41365246--41365829	246	2.4	247	95	1	1048	36	6	25	31	1.82
41365979--41366087	37	2.9	37	91	0	173	23	18	30	27	1.98
41369747--41369872	46	2.7	46	98	0	243	28	30	21	19	1.97
41373018--41373171	43	3.7	43	73	10	138	25	17	25	31	1.97
41373344--41373382	20	1.9	21	89	5	62	48	0	15	35	1.45
41381026--41381195	41	4.2	40	74	18	161	27	26	22	23	1.99
41384589--41384752	57	2.9	57	94	0	274	21	18	23	36	1.95
41384724--41384835	41	2.7	41	76	13	104	25	18	26	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41385007--41385045	20	1.9	21	89	5	62	48	0	15	35	1.45
41388792--41388969	27	6.6	27	83	3	178	30	28	14	25	1.95
41388813--41388968	82	1.9	81	89	3	242	30	28	14	26	1.95
41396484--41396661	27	6.6	27	83	3	178	30	28	14	25	1.95
41396505--41396660	82	1.9	81	89	3	242	30	28	14	26	1.95
41398617--41398800	40	4.6	40	84	6	239	25	23	26	24	2.00
41398617--41398800	80	2.3	80	88	3	264	25	23	26	24	2.00
41405891--41406074	40	4.6	40	84	6	239	25	23	26	25	2.00
41412762--41412852	45	2.0	45	89	0	137	37	23	14	25	1.92
41417239--41417350	27	4.2	26	83	7	134	38	23	23	15	1.92
41417239--41417350	54	2.1	54	86	3	154	38	23	23	15	1.92
41418768--41418814	24	2.0	24	91	0	76	23	38	2	36	1.67
41422966--41423076	27	4.1	26	85	7	141	37	22	24	15	1.93
41422966--41423076	54	2.1	54	87	3	161	37	22	24	15	1.93
41424505--41424564	24	2.5	24	100	0	120	28	38	0	33	1.57
41427200--41427224	13	1.9	13	100	0	50	28	24	8	40	1.83
41433947--41433979	11	3.0	11	90	0	57	69	18	0	12	1.18
41434368--41434446	41	1.9	41	97	0	149	35	13	0	50	1.42
41438814--41438883	28	2.5	28	88	9	99	27	14	27	31	1.95
41446500--41446569	28	2.5	28	88	9	99	27	14	27	31	1.95
41452889--41452974	40	2.1	40	93	2	145	45	8	18	27	1.78
41453604--41453681	41	1.9	41	82	10	97	23	17	28	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41457355--41457442	29	3.1	28	67	15	72	34	17	23	25	1.96
41459046--41459094	18	2.8	18	76	14	57	44	0	2	53	1.12
41459539--41459579	21	2.0	21	90	0	64	46	0	0	53	1.00
41462513--41462537	13	1.9	13	100	0	50	24	0	4	72	1.02
41466751--41466829	38	2.1	37	86	6	106	26	30	17	25	1.97
41466950--41467563	47	13.0	47	92	1	940	27	32	9	30	1.89
41471848--41472023	46	3.8	46	77	14	182	22	19	27	29	1.98
41471845--41472016	93	1.8	93	91	2	283	23	20	27	28	1.99
41474091--41474210	49	2.4	49	87	2	161	21	25	20	32	1.98
41474245--41474351	46	2.3	46	80	3	126	22	30	17	28	1.97
41477559--41477644	43	2.0	44	86	2	120	26	19	29	24	1.99
41477941--41478154	38	5.6	38	92	0	347	20	21	25	32	1.98
41478158--41478281	45	2.9	43	85	8	155	23	21	30	24	1.99
41482240--41482417	27	6.6	27	83	6	198	26	15	28	29	1.96
41482237--41482417	82	2.2	81	82	4	222	27	16	27	29	1.97
41490445--41490622	27	6.6	27	82	6	189	27	15	27	29	1.96
41497034--41497211	27	6.6	27	83	6	198	26	15	28	29	1.96
41497031--41497211	82	2.2	81	82	4	222	27	16	27	29	1.97
41512581--41512613	13	2.6	13	90	4	50	48	12	0	39	1.40
41513106--41513132	13	2.1	13	100	0	54	22	22	14	40	1.90
41515537--41515616	6	13.5	6	79	12	85	78	0	3	17	0.89
41520686--41520710	5	5.0	5	100	0	50	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41520990--41521022	13	2.6	13	90	4	50	48	12	0	39	1.40
41532890--41533009	49	2.4	49	83	2	143	20	27	16	35	1.94
41532988--41533143	46	3.4	46	75	10	124	28	27	17	26	1.98
41540640--41540695	21	2.7	21	85	0	76	28	33	23	14	1.94
41542195--41542244	10	5.0	10	81	13	59	22	8	2	68	1.26
41550779--41550961	79	2.3	80	83	7	230	26	27	21	24	1.99
41550758--41550961	40	5.1	40	81	8	238	25	27	21	24	1.99
41553226--41553450	40	5.6	40	91	1	362	26	26	22	24	2.00
41559647--41559698	6	8.5	6	82	18	63	21	1	0	76	0.87
41560443--41560641	95	2.1	96	84	3	258	30	14	25	30	1.94
41561303--41561354	10	5.1	10	83	2	59	26	1	1	69	1.10
41564707--41564739	15	2.2	16	89	10	52	60	0	3	36	1.12
41565707--41566094	194	2.0	194	90	2	609	32	17	16	33	1.93
41566907--41566984	39	2.0	38	92	2	129	39	15	3	41	1.65
41567410--41567440	15	2.1	15	100	0	62	12	25	12	48	1.77
41570870--41570921	16	3.2	16	73	10	52	50	1	19	28	1.58
41571081--41571266	58	3.2	57	80	13	218	54	1	1	42	1.17
41571769--41571830	21	3.0	20	81	4	79	48	16	14	20	1.81
41571762--41571838	20	3.8	20	79	3	73	50	15	12	20	1.77
41573545--41573647	50	2.1	50	100	0	206	23	28	15	33	1.95
41574308--41574364	27	2.1	28	83	9	73	47	8	10	33	1.69
41578101--41578157	24	2.3	25	81	3	62	31	21	17	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41582461--41582619	43	3.7	43	73	8	119	27	25	20	26	1.99
41582855--41582943	46	1.9	46	100	0	178	32	17	7	41	1.79
41598401--41598528	40	3.2	40	91	4	202	24	19	23	32	1.97
41598401--41598528	42	3.1	42	93	2	206	24	19	23	32	1.97
41604933--41605085	27	5.7	27	83	4	186	28	29	15	26	1.96
41604914--41605086	27	6.6	27	82	5	185	29	28	15	26	1.96
41604914--41605086	54	3.3	53	84	7	210	29	28	15	26	1.96
41612884--41613061	27	6.6	27	83	3	196	30	28	15	25	1.96
41612905--41613060	82	1.9	81	88	3	233	30	28	15	25	1.96
41624500--41624670	48	3.6	48	88	1	245	23	16	29	29	1.97
41624491--41624700	96	2.2	96	78	6	235	25	17	27	29	1.98
41628813--41628864	26	2.1	26	85	7	72	67	3	28	0	1.08
41635485--41635652	43	4.0	42	73	12	137	28	14	24	32	1.95
41643437--41643480	15	2.9	15	100	0	88	47	6	0	45	1.29
41644112--41644169	26	2.2	26	96	3	107	43	3	20	32	1.69
41644780--41644843	31	2.1	31	84	0	83	43	15	17	23	1.87
41644854--41644920	29	2.3	29	84	0	89	32	16	22	28	1.95
41650752--41650850	27	3.7	27	91	0	162	28	13	20	38	1.90
41650760--41650866	27	4.0	27	87	2	90	27	15	18	38	1.91
41662139--41662246	18	6.1	18	75	2	110	43	15	5	35	1.70
41662222--41662272	26	2.0	26	88	0	75	35	17	11	35	1.87
41662269--41662320	18	2.8	18	75	16	52	50	5	7	36	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41662679--41662722	22	2.0	23	86	13	65	40	6	0	52	1.28
41671501--41671569	21	3.3	21	70	8	52	20	28	21	28	1.98
41671481--41671573	42	2.2	42	78	14	102	20	29	21	29	1.98
41671681--41671724	20	2.2	21	92	8	74	25	0	20	54	1.45
41678241--41678421	40	4.6	39	86	5	240	29	26	22	22	1.99
41678241--41678420	80	2.3	80	89	3	267	29	26	22	21	1.99
41695808--41695902	41	2.3	42	88	1	138	20	33	26	20	1.96
41701372--41701407	14	2.6	14	95	4	65	41	0	13	44	1.44
41706883--41707007	47	2.7	46	80	13	139	27	17	29	25	1.98
41708783--41708814	16	2.0	16	100	0	64	25	0	31	43	1.55

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