genome.fa.s4.2.7.7.80.10.50.1000.44.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  44  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)
11889514--11890044	226	2.5	208	85	9	708	27	21	18	32	1.96
11889612--11890161	226	2.4	224	86	3	719	27	21	18	32	1.97
11889612--11890275	113	5.9	113	78	6	571	27	22	18	31	1.97
11889612--11890244	226	2.8	225	82	5	650	27	22	18	31	1.97
11889624--11890267	338	1.9	339	80	6	752	27	22	18	31	1.97
11890426--11890452	12	2.2	12	100	0	54	51	25	14	7	1.68
11897076--11897169	7	13.4	7	73	0	71	22	2	34	41	1.66
11897077--11897142	28	2.4	28	89	0	96	22	1	36	39	1.64
11903934--11903991	23	2.5	23	86	5	73	22	15	27	34	1.94
11907040--11907103	20	3.2	20	84	8	87	39	1	4	54	1.31
11913709--11913745	19	2.0	19	89	5	58	37	0	5	56	1.22
11913709--11913770	18	3.4	18	80	12	56	45	0	3	51	1.17
11913714--11913769	20	2.9	19	84	10	69	44	0	3	51	1.18
11913712--11913785	27	2.7	28	82	12	91	44	0	2	52	1.15
11913753--11913779	8	3.4	8	100	0	54	48	0	0	51	1.00
11913714--11913771	19	3.0	19	76	16	57	43	0	3	53	1.17
11916194--11916251	29	2.0	29	96	0	107	17	15	31	36	1.91
11918874--11918929	21	2.7	21	81	13	71	35	10	14	39	1.81
11919312--11919378	32	2.1	32	82	0	80	43	2	0	53	1.16
11919607--11919667	26	2.3	26	94	0	104	37	14	13	34	1.85
11923130--11923276	68	2.1	68	82	1	177	42	14	14	28	1.85
11926420--11926473	24	2.3	24	87	3	74	62	12	12	11	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11929471--11929513	19	2.3	19	84	11	54	39	0	0	60	0.97
11929471--11929518	13	3.8	13	76	20	57	39	0	0	60	0.97
11932046--11932094	21	2.3	21	79	6	55	26	26	36	10	1.88
11932202--11932387	60	3.1	59	72	8	171	24	30	21	23	1.99
11939869--11940002	46	2.8	49	76	16	147	29	27	20	22	1.98
11941287--11941329	18	2.4	18	100	0	86	34	16	25	23	1.95
11950078--11950201	30	4.1	30	91	1	194	25	24	7	43	1.79
11950088--11950195	15	7.2	15	67	12	69	25	22	8	44	1.80
11954771--11954894	30	4.1	30	91	1	194	26	23	6	43	1.78
11954781--11954888	15	7.2	15	69	12	78	26	21	7	44	1.78
11958051--11958076	3	8.7	3	100	0	52	69	0	30	0	0.89
11958423--11958476	22	2.8	18	72	20	54	38	0	0	61	0.96
11959246--11959304	27	2.2	27	100	0	118	37	0	6	55	1.26
11960537--11960620	41	2.0	41	93	0	141	51	20	3	25	1.63
11960882--11960946	22	3.4	19	71	17	55	29	1	1	67	1.09
11960912--11960946	14	2.5	14	85	0	52	28	0	0	71	0.86
11960876--11960946	28	2.5	26	81	16	81	28	1	1	69	1.06
11965552--11965656	43	2.4	43	80	0	111	49	15	10	24	1.76
11968906--11968936	16	1.9	16	93	0	53	16	16	25	41	1.88
11969039--11969070	12	2.7	12	100	0	64	37	0	0	62	0.95
11969674--11969726	27	2.0	27	85	7	72	58	3	0	37	1.16
11969675--11969718	18	2.4	19	85	14	65	59	4	0	36	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11969674--11969756	27	3.2	26	75	11	71	59	3	0	37	1.15
11970171--11970209	21	1.9	20	89	5	60	61	7	2	28	1.37
11970360--11970405	23	2.1	22	84	15	60	36	4	2	56	1.31
11970738--11970796	31	2.0	30	83	6	75	49	13	3	33	1.59
11971916--11971974	22	2.7	23	82	10	72	64	5	15	15	1.45
11972438--11972463	9	2.9	9	100	0	52	42	34	0	23	1.54
11972684--11972718	17	2.0	18	88	5	54	28	11	17	42	1.83
11988183--11988297	51	2.3	51	92	0	185	20	25	22	31	1.98
11991004--11991066	27	2.3	28	81	10	85	53	0	0	46	1.00
11991011--11991051	22	2.0	21	90	9	66	48	0	0	51	1.00
11991011--11991051	20	2.0	19	86	13	55	48	0	0	51	1.00
11991451--11991505	16	3.4	16	92	0	92	36	5	27	30	1.79
11991634--11991773	61	2.4	59	85	6	176	51	2	0	45	1.21
12005890--12005922	11	3.1	11	86	8	50	63	0	27	9	1.24
12007624--12007873	46	5.5	46	85	2	308	42	14	24	19	1.88
12007634--12007846	92	2.3	92	91	0	345	41	15	24	18	1.89
12019318--12019361	20	2.4	18	88	11	63	0	34	0	65	0.93
12019413--12019449	14	2.6	15	83	12	51	37	5	0	56	1.22
12030280--12030312	14	2.3	15	89	5	50	33	0	9	57	1.30
12032102--12032171	3	22.7	3	74	11	61	31	1	2	64	1.17
12032871--12032928	31	1.9	31	86	10	84	34	5	6	53	1.50
12045191--12045373	73	2.5	73	86	5	253	25	19	26	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12045098--12046037	234	4.0	232	91	3	1466	23	17	23	34	1.96
12045425--12045607	73	2.5	74	89	5	273	26	18	27	27	1.98
12045661--12045844	73	2.5	74	85	0	244	26	17	26	29	1.98
12045973--12046278	87	3.4	90	76	7	266	30	15	18	35	1.92
12046209--12046241	15	2.2	15	94	0	57	21	6	3	69	1.24
12048011--12048059	22	2.1	23	88	7	73	34	4	2	59	1.28
12048203--12048278	3	24.7	3	74	10	64	31	2	2	63	1.22
12048405--12048446	21	2.0	22	85	4	59	38	11	2	47	1.53
12048513--12048570	22	2.5	22	80	5	62	34	13	1	50	1.52
12051607--12051808	54	3.8	54	81	5	239	35	18	25	21	1.96
12051623--12051843	107	2.0	108	82	5	268	35	16	25	21	1.94
12057086--12057207	47	2.6	47	94	0	217	36	11	24	27	1.90
12057195--12057382	55	3.5	54	81	5	202	35	18	25	20	1.95
12061891--12061927	9	4.1	9	85	0	56	48	13	8	29	1.71
12062426--12062482	17	3.2	17	73	14	53	35	3	3	57	1.33
12064562--12064594	15	2.2	15	94	0	57	30	30	12	27	1.92
12066112--12066154	20	2.2	20	86	0	59	27	2	2	67	1.15
12066112--12066150	19	2.0	20	85	5	53	28	2	2	66	1.18
12070620--12070677	10	5.9	10	80	11	75	18	12	1	67	1.31
12070621--12070677	29	1.9	30	86	10	82	19	12	1	66	1.32
12073142--12073373	46	5.0	46	89	2	306	23	22	14	39	1.91
12080123--12080193	16	4.5	16	77	13	76	19	2	1	76	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12080122--12080198	21	3.4	22	75	18	68	18	2	3	75	1.07
12080122--12080193	5	13.8	5	75	18	67	19	2	1	76	0.99
12080512--12080554	3	14.3	3	100	0	86	32	0	0	67	0.91
12081035--12081218	99	1.9	99	87	0	269	25	14	27	33	1.94
12081236--12081286	19	2.7	18	82	14	59	82	1	9	5	0.91
12081915--12081964	10	4.9	10	80	11	57	18	8	2	72	1.19
12086581--12086627	20	2.3	20	82	7	60	19	36	19	25	1.95
12091817--12091887	29	2.4	29	79	11	81	61	5	1	30	1.27
12095488--12095545	28	2.1	28	100	0	116	62	6	13	17	1.52
12097794--12097823	15	2.0	15	93	0	51	23	0	33	43	1.54
12098395--12098427	15	2.2	15	94	0	57	30	30	12	27	1.92
12099966--12100007	13	3.2	13	81	18	59	30	0	9	59	1.29
12101294--12101340	18	2.5	19	82	6	60	31	12	8	46	1.72
12106741--12106820	40	2.0	40	92	0	133	18	21	20	40	1.92
12108099--12108124	9	2.9	9	100	0	52	23	11	23	42	1.86
12113362--12113393	16	1.9	17	93	6	57	0	28	9	62	1.26
12114199--12114231	15	2.2	15	94	0	57	30	30	12	27	1.92
12118545--12118580	18	1.9	18	88	5	54	47	5	25	22	1.73
12120745--12120771	14	1.9	14	100	0	54	40	0	0	59	0.98
12122433--12122504	16	4.4	15	71	13	54	38	15	11	34	1.83
12123101--12123167	24	2.9	23	80	12	66	1	40	0	58	1.07
12125526--12125843	47	6.6	47	80	6	325	25	16	27	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12125573--12125761	100	1.9	99	88	1	288	25	14	26	32	1.95
12125464--12125812	147	2.4	147	93	1	605	25	16	28	29	1.97
12126168--12126211	24	1.9	22	81	9	52	45	6	22	25	1.77
12128176--12128236	21	2.9	21	75	2	59	19	14	21	44	1.86
12141643--12141684	15	2.8	15	86	10	59	71	9	0	19	1.13
12144078--12144216	39	3.6	39	77	5	147	30	20	21	27	1.98
12144076--12144244	78	2.2	79	83	2	216	30	18	21	29	1.97
12144076--12144305	40	5.8	40	77	8	177	30	20	21	28	1.98
12147929--12147982	27	2.0	27	88	0	81	37	20	24	18	1.94
12149868--12150132	40	6.7	40	88	2	338	29	28	18	23	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