genome.fa.s9.2.7.7.80.10.50.1000.122.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  122  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)
39477204--39477377	46	3.7	47	80	7	194	30	20	27	21	1.98
39496848--39496951	27	3.9	27	77	8	104	18	26	19	35	1.95
39503327--39503352	13	2.0	13	100	0	52	38	15	7	38	1.76
39505248--39505293	22	2.1	22	91	0	74	39	19	34	6	1.78
39506673--39506957	136	2.1	136	92	1	473	33	24	18	23	1.97
39508742--39508823	26	3.2	26	92	0	146	35	24	7	32	1.83
39514678--39514750	3	24.3	3	77	10	69	38	0	1	60	1.06
39514680--39514750	9	8.6	9	81	18	84	39	0	1	59	1.06
39514675--39514750	18	4.6	17	80	19	99	38	0	1	60	1.05
39515475--39515509	17	2.0	18	88	5	54	48	0	25	25	1.51
39515990--39516053	21	3.0	22	70	9	60	20	18	23	37	1.94
39517691--39517743	21	2.5	21	90	0	88	26	7	35	30	1.84
39521219--39521435	22	9.4	23	61	24	66	31	11	29	26	1.91
39521239--39521311	23	3.2	23	64	28	57	30	8	28	32	1.86
39521212--39521484	93	2.9	91	89	4	404	31	10	30	27	1.91
39521206--39521511	140	2.2	138	87	6	422	32	10	29	27	1.90
39521211--39521505	47	6.3	47	89	3	411	32	10	29	27	1.90
39524053--39524292	40	6.1	40	87	1	331	24	21	27	25	1.99
39527523--39527826	47	6.4	47	90	3	425	33	9	29	26	1.88
39530125--39530158	14	2.3	15	90	5	52	38	2	2	55	1.30
39530178--39530234	25	2.3	24	82	14	64	36	5	1	56	1.32
39530206--39530248	15	2.8	15	76	16	52	37	2	0	60	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39535806--39535879	24	3.1	24	86	0	103	25	12	29	32	1.92
39549166--39549349	40	4.6	40	78	10	189	26	27	21	24	1.99
39549168--39549350	79	2.3	81	83	7	223	26	27	21	24	2.00
39553867--39554034	43	3.9	42	73	9	124	30	23	16	29	1.96
39564607--39564646	21	2.0	21	85	5	55	15	32	22	30	1.94
39568846--39568903	25	2.3	25	93	0	98	27	12	22	37	1.89
39568870--39568987	50	2.4	49	80	4	128	30	16	22	30	1.96
39568900--39568977	25	3.1	24	82	14	95	30	20	23	25	1.98
39577578--39577688	50	2.2	50	83	0	132	36	19	18	24	1.94
39577618--39577691	25	3.0	24	78	5	76	40	20	18	20	1.92
39578077--39578108	6	5.3	6	92	0	55	71	0	0	28	0.86
39585159--39585241	29	2.9	29	94	0	139	27	30	14	27	1.95
39585161--39585254	29	3.2	29	87	3	127	27	27	12	31	1.93
39585557--39585604	24	2.0	24	95	0	87	39	29	10	20	1.86
39589643--39589712	29	2.4	29	88	2	115	30	31	10	28	1.89
39589643--39589729	29	3.0	29	81	8	106	31	31	10	27	1.90
39589806--39589842	19	2.0	18	89	5	56	18	40	16	24	1.90
39589815--39589851	19	1.9	19	88	0	56	16	37	18	27	1.92
39589955--39590000	24	1.9	24	90	0	74	13	23	13	50	1.76
39597535--39597588	25	2.1	26	82	3	65	3	29	0	66	1.09
39600116--39600146	16	1.9	16	93	0	53	9	6	32	51	1.60
39604885--39605115	48	4.9	48	78	9	224	25	19	24	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39607480--39607567	27	3.3	27	88	3	79	30	25	10	34	1.89
39607497--39607690	27	7.2	27	85	2	246	26	22	10	40	1.87
39607695--39607889	27	7.2	27	83	2	212	36	17	18	26	1.94
39607695--39607890	54	3.6	54	84	2	241	36	18	18	26	1.94
39607694--39607888	81	2.4	81	85	0	246	36	17	18	26	1.93
39608089--39608167	27	3.0	26	86	3	104	21	22	20	35	1.96
39608482--39608555	27	2.8	27	83	6	80	18	24	20	36	1.95
39608677--39608853	6	29.2	6	77	17	170	20	16	13	48	1.80
39608677--39608848	79	2.2	79	94	0	299	20	16	13	48	1.81
39613246--39613302	30	1.9	30	82	7	71	40	12	8	38	1.74
39616730--39617026	43	7.0	42	82	4	303	30	23	20	25	1.98
39616742--39617026	84	3.4	84	83	5	353	29	23	20	26	1.99
39617328--39617368	21	2.0	21	95	0	73	0	51	19	29	1.47
39617927--39617964	19	2.1	18	85	9	51	52	0	7	39	1.31
39626942--39626972	7	4.4	7	100	0	62	61	0	0	38	0.96
39628199--39628245	23	2.0	23	95	0	85	48	10	19	21	1.78
39631189--39631236	25	1.9	25	100	0	96	39	25	6	29	1.80
39631649--39631828	41	4.4	41	92	1	281	18	21	25	35	1.96
39631882--39631906	12	2.1	12	100	0	50	44	32	16	8	1.76
39636877--39637319	51	8.8	49	80	4	427	29	24	18	26	1.98
39636878--39637319	101	4.4	101	84	1	609	29	24	19	26	1.98
39640970--39641034	28	2.3	28	86	5	87	33	30	6	29	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39641140--39641229	27	3.2	28	81	7	112	18	24	24	32	1.97
39641152--39641240	27	3.2	28	79	4	72	22	26	19	31	1.97
39644336--39644388	27	1.9	28	92	3	90	35	18	15	30	1.92
39644937--39644967	13	2.4	13	100	0	62	22	0	19	58	1.40
39657244--39657379	40	3.4	40	81	7	143	33	28	16	21	1.95
39670672--39670896	79	2.8	80	79	11	246	26	21	26	25	2.00
39670672--39670896	40	5.7	40	85	5	253	26	21	26	25	2.00
39670672--39670895	119	1.9	120	81	10	280	26	21	25	25	2.00
39670725--39670929	79	2.6	79	81	9	188	27	20	26	25	1.99
39675018--39675060	20	2.2	20	95	0	77	11	34	34	18	1.87
39675320--39675423	42	2.5	42	87	3	120	24	32	21	22	1.98
39676979--39677038	27	2.2	27	87	0	84	33	21	10	35	1.87
39676990--39677094	27	3.9	27	84	0	138	30	20	8	40	1.83
39677071--39677177	27	4.0	27	78	8	78	42	19	7	30	1.79
39676977--39677121	54	2.7	54	76	2	139	35	20	7	35	1.81
39677085--39677177	27	3.5	27	80	4	109	44	18	7	30	1.77
39677705--39677879	26	6.8	26	89	0	255	26	22	22	28	1.99
39677705--39677879	52	3.4	52	95	1	309	26	22	22	28	1.99
39678024--39678115	42	2.2	42	92	0	148	29	14	21	34	1.93
39679357--39679488	48	2.8	48	87	1	167	31	27	16	25	1.97
39684950--39685303	40	9.1	40	87	6	503	23	27	20	27	1.99
39685150--39685212	31	2.0	31	93	0	108	19	23	22	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39685075--39685292	111	2.0	111	96	0	400	23	26	19	30	1.98
39685027--39685303	151	1.8	151	96	0	518	24	27	19	28	1.99
39691106--39691352	48	5.2	48	69	17	176	29	26	19	25	1.99
39698163--39698244	40	2.0	41	83	11	105	34	9	3	52	1.52
39703127--39703162	10	3.7	10	85	7	56	11	8	11	69	1.37
39703130--39703165	11	3.5	11	78	21	51	8	11	8	72	1.29
39703125--39703165	19	2.2	19	100	0	82	9	12	9	68	1.40
39705684--39705742	29	2.0	30	83	3	75	15	3	38	42	1.63
39709396--39709455	29	2.1	28	81	9	68	46	1	23	28	1.62
39727414--39727590	40	4.4	40	82	4	216	24	21	27	26	1.99
39727818--39727859	22	1.9	22	85	9	59	33	9	14	42	1.78
39732997--39733047	23	2.2	23	96	0	93	15	15	25	43	1.86
39735281--39735314	10	3.3	10	84	8	50	29	8	8	52	1.62
39740691--39740799	27	4.0	26	77	8	110	16	21	22	39	1.92
39743047--39743223	27	6.6	27	81	5	169	28	28	15	27	1.96
39743068--39743222	82	1.9	80	88	5	231	28	28	16	27	1.97
39751263--39751440	27	6.6	27	82	3	178	30	28	14	26	1.95
39751284--39751439	82	1.9	81	86	3	224	30	28	14	26	1.95
39760411--39760684	48	5.8	48	71	14	176	28	26	20	25	1.99
39765092--39765269	27	6.6	27	84	3	205	29	28	15	26	1.96
39765113--39765268	82	1.9	81	88	3	233	29	28	15	26	1.96
39770801--39770881	39	2.0	43	86	13	118	33	9	3	53	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39771748--39771772	7	3.6	7	100	0	50	76	0	0	24	0.80
39778173--39778231	29	2.0	30	83	3	75	15	3	38	42	1.63
39779965--39780122	43	3.7	42	79	9	149	31	26	20	22	1.98
39783852--39783997	48	3.0	48	94	0	247	34	5	28	31	1.80
39789372--39789504	45	3.0	45	88	0	194	26	25	23	24	2.00
39796288--39796461	45	3.9	45	87	6	223	24	27	22	24	2.00
39798051--39798140	28	3.2	27	82	4	99	32	21	24	22	1.98
39798249--39798310	28	2.2	28	94	0	106	30	8	27	33	1.86
39800520--39800695	46	3.8	46	75	4	165	21	18	29	30	1.97
39800516--39800688	93	1.9	93	88	0	265	21	19	30	28	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