genome.fa.s4.2.7.7.80.10.50.1000.108.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  108  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)
34174857--34174995	47	3.0	46	71	19	128	30	28	18	23	1.98
34186080--34186252	55	3.1	55	83	9	219	32	16	15	35	1.89
34189911--34189958	21	2.3	21	88	0	69	22	33	22	20	1.97
34214297--34214420	39	3.2	39	88	0	158	28	26	20	24	1.99
34222068--34222178	27	4.1	26	82	7	132	38	23	22	15	1.92
34222068--34222178	54	2.1	54	87	3	161	38	23	22	15	1.92
34224779--34224832	27	2.0	27	82	7	65	29	18	18	33	1.95
34225143--34225225	28	2.9	28	82	8	89	19	19	26	34	1.95
34228225--34228285	29	2.1	29	93	0	104	19	19	36	24	1.95
34230832--34231001	40	4.3	40	84	3	211	27	25	21	25	2.00
34232595--34232819	40	5.7	40	83	5	260	25	21	27	26	1.99
34232648--34232842	80	2.5	79	83	5	198	26	20	26	26	1.99
34239673--34239884	40	5.3	39	80	6	187	25	20	28	25	1.99
34239713--34239884	40	4.3	40	86	2	213	25	19	29	25	1.99
34239707--34239856	79	1.9	80	87	4	223	26	18	29	26	1.98
34241241--34241332	40	2.3	40	94	0	157	27	28	22	21	1.99
34260930--34261075	37	3.9	37	96	0	247	26	30	19	23	1.98
34261284--34261817	47	11.1	47	87	5	726	26	29	12	30	1.93
34261284--34261817	145	3.7	144	89	5	783	26	29	12	30	1.93
34265617--34265729	27	4.2	26	82	8	118	37	22	23	17	1.94
34265617--34265729	55	2.1	54	83	5	138	37	22	23	17	1.94
34267148--34267218	24	3.0	24	95	0	124	25	38	1	35	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34270593--34270633	20	2.0	20	95	0	73	39	7	19	34	1.80
34285551--34285581	15	2.1	15	93	0	53	64	6	0	29	1.18
34290771--34290826	18	3.3	18	73	14	64	44	12	1	41	1.53
34290755--34290826	33	2.2	33	94	0	126	43	13	2	40	1.59
34290765--34290816	15	3.3	15	72	15	50	42	17	1	38	1.60
34293286--34293463	27	6.6	27	85	3	214	27	15	27	29	1.96
34293283--34293463	82	2.2	81	85	2	238	27	15	27	29	1.96
34301387--34301564	27	6.6	27	82	3	196	26	14	28	30	1.95
34301388--34301543	82	1.9	81	86	3	224	26	14	28	30	1.95
34301384--34301564	82	2.2	81	81	2	220	27	14	27	30	1.95
34303872--34304019	56	2.6	56	89	0	224	33	22	14	29	1.94
34305517--34305883	46	7.8	50	73	12	185	24	29	19	26	1.98
34314569--34314606	18	2.1	19	95	5	69	34	23	15	26	1.95
34317839--34317872	16	2.1	17	89	10	54	61	0	14	23	1.33
34325492--34325665	48	3.6	48	91	0	276	24	17	31	27	1.97
34325495--34325708	48	4.5	48	86	2	162	25	18	29	26	1.98
34325495--34325751	96	2.7	96	78	7	244	25	18	29	26	1.98
34330308--34330339	11	2.8	12	90	9	57	62	0	0	37	0.95
34332477--34332714	49	4.8	49	84	2	287	26	16	27	29	1.97
34332470--34332714	99	2.5	100	86	2	341	25	17	27	29	1.97
34334655--34334682	13	2.2	13	100	0	56	21	7	25	46	1.76
34338492--34338529	19	2.0	19	89	0	58	44	15	5	34	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34341426--34341522	30	3.2	31	73	5	92	30	27	12	28	1.93
34343197--34343231	11	3.1	11	92	8	61	71	8	0	20	1.11
34343199--34343244	12	3.7	12	88	5	65	73	6	4	15	1.19
34344174--34344230	11	5.5	10	73	22	55	78	0	17	3	0.88
34344174--34344230	5	11.0	5	75	20	55	78	0	17	3	0.88
34344299--34344323	12	2.1	12	100	0	50	76	0	16	8	1.02
34344293--34344348	18	3.1	18	76	5	51	69	3	19	7	1.27
34344299--34344380	30	2.7	31	79	5	96	63	1	23	12	1.35
34346494--34346590	30	3.2	30	76	2	97	29	26	13	29	1.94
34349772--34349973	61	3.4	59	82	6	180	32	14	22	30	1.93
34349828--34349973	61	2.4	61	88	0	229	32	13	21	32	1.92
34350180--34350225	14	3.1	15	81	9	58	50	4	15	30	1.63
34355078--34355212	69	2.0	69	90	0	216	38	21	21	18	1.93
34356511--34356712	61	3.4	59	82	6	180	32	14	22	30	1.93
34356567--34356712	61	2.4	61	88	0	229	32	13	21	32	1.92
34356920--34356965	14	3.1	15	81	9	58	50	4	15	30	1.63
34361821--34361955	69	2.0	69	90	0	216	37	21	22	18	1.94
34365887--34365945	29	2.0	29	86	0	82	16	11	33	37	1.86
34366036--34366087	24	2.2	24	89	0	77	40	5	5	48	1.51
34366036--34366099	24	2.7	23	83	9	74	40	6	7	45	1.58
34366846--34366879	13	2.6	13	100	0	68	8	41	26	23	1.83
34373785--34373868	32	2.6	32	78	10	82	29	4	25	40	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34374014--34374159	27	5.5	26	66	8	80	26	13	26	33	1.94
34374014--34374131	27	4.5	26	71	7	85	26	13	27	33	1.94
34374037--34374159	53	2.3	53	94	0	219	26	13	26	34	1.93
34383579--34383616	20	1.9	20	88	0	58	36	31	13	18	1.89
34386918--34386967	24	2.1	23	85	10	66	52	2	2	44	1.24
34390206--34390252	24	2.1	23	88	11	71	55	0	0	44	0.99
34390603--34390641	10	3.8	10	83	6	51	74	0	5	20	1.01
34391010--34391161	76	2.0	75	92	1	250	30	21	11	36	1.89
34392947--34392977	7	4.3	7	95	4	53	48	0	25	25	1.52
34393996--34394081	42	2.0	42	88	0	127	29	18	30	22	1.97
34396685--34396862	27	6.6	27	84	3	205	29	28	15	26	1.96
34396706--34396861	82	1.9	81	88	3	233	29	28	15	26	1.96
34398663--34398781	45	2.6	45	81	7	127	21	22	12	42	1.87
34403158--34403523	46	8.0	46	92	0	502	39	13	24	22	1.91
34403818--34403866	24	2.0	24	96	0	89	28	6	20	44	1.75
34406704--34406775	33	2.2	33	82	2	81	30	26	20	22	1.98
34406803--34406885	31	2.7	31	92	3	134	28	25	15	30	1.96
34407104--34407173	25	2.8	25	93	0	113	24	22	25	27	2.00
34408101--34408186	27	3.1	27	76	17	95	34	9	16	39	1.80
34408164--34408287	27	4.6	27	80	6	135	29	6	20	43	1.77
34408188--34408320	54	2.5	54	81	4	144	30	10	19	39	1.85
34408319--34408383	27	2.4	27	86	0	85	40	9	24	26	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34413164--34413297	44	3.0	44	98	0	259	45	24	4	25	1.72
34415012--34415080	28	2.5	28	88	9	97	31	26	14	27	1.95
34423682--34423724	22	2.0	22	95	0	77	39	11	18	30	1.86
34429529--34429676	64	2.2	68	78	10	160	31	16	28	22	1.96
34429553--34429736	67	2.8	64	77	10	187	28	15	30	24	1.96
34433978--34434024	24	1.9	25	86	4	69	21	27	10	40	1.86
34435869--34436049	79	2.3	81	82	7	219	25	21	26	25	2.00
34435871--34436049	40	4.5	40	81	6	195	26	21	25	26	2.00
34435918--34436082	79	2.1	79	82	6	192	27	21	26	25	1.99
34438401--34438445	20	2.2	20	84	11	56	53	2	20	24	1.57
34440776--34440835	27	2.2	27	87	0	84	45	18	8	28	1.78
34444031--34444070	19	2.1	19	85	0	53	42	12	7	37	1.71
34445034--34445074	22	1.9	21	85	5	55	63	4	19	12	1.46
34447873--34448029	27	5.9	26	84	8	192	29	12	21	37	1.89
34447877--34448029	53	2.9	54	87	4	220	28	11	20	38	1.88
34447877--34448029	80	1.9	81	95	1	281	28	11	20	38	1.88
34449435--34449481	24	1.9	25	82	4	60	27	38	10	23	1.88
34466255--34466330	38	2.0	38	100	0	152	31	13	23	31	1.93
34467518--34467662	40	3.6	40	84	4	184	25	24	26	22	2.00
34471261--34471342	26	3.2	26	92	0	137	32	7	23	36	1.82
34474333--34474390	25	2.3	25	82	8	64	41	3	5	50	1.42
34474454--34474502	11	4.1	11	78	17	53	46	2	0	51	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34474443--34474512	25	2.8	25	80	10	88	48	1	0	50	1.09
34474451--34474526	26	3.0	25	80	17	86	48	1	0	50	1.09
34475340--34475412	33	2.2	33	90	0	110	42	21	12	23	1.87
34480340--34480476	38	3.6	38	81	6	159	18	20	27	33	1.96
34484919--34485029	40	2.8	40	83	1	98	25	28	23	22	1.99
34484942--34485086	40	3.6	40	85	4	184	23	25	25	25	2.00
34486275--34486350	38	2.0	38	100	0	152	31	23	13	31	1.93
34487991--34488051	30	2.0	30	90	0	95	39	6	24	29	1.80
34496190--34496219	9	3.4	9	90	9	53	0	0	43	56	0.99
34497533--34497564	12	2.6	13	90	9	50	18	6	25	50	1.70

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