genome.fa.s17.2.7.7.80.10.50.1000.43.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  43  of  185  ( 22116 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)
12028188--12028297	44	2.5	44	84	0	139	24	18	25	31	1.97
12032957--12033075	25	4.8	25	81	6	116	18	27	21	32	1.96
12032983--12033125	50	2.9	50	78	2	144	20	26	19	32	1.97
12032958--12033100	75	1.9	74	81	5	171	18	27	20	33	1.96
12032993--12033126	25	5.4	25	78	8	85	21	26	19	32	1.97
12033060--12033195	25	5.5	24	69	13	80	25	27	16	30	1.97
12042412--12042665	138	1.8	138	87	0	382	37	11	19	31	1.87
12045173--12045212	17	2.3	18	91	4	64	67	5	5	22	1.30
12047768--12047850	41	2.0	41	90	0	130	38	27	1	32	1.65
12053342--12053429	44	2.0	44	88	4	133	30	25	20	23	1.98
12060500--12060594	42	2.2	41	81	7	118	30	25	17	26	1.98
12076054--12076092	18	2.2	18	85	0	51	20	2	5	71	1.17
12090231--12090284	27	2.0	27	85	0	72	24	24	12	38	1.90
12090299--12090474	53	3.3	52	86	3	253	27	22	9	40	1.84
12090299--12090470	26	6.5	27	73	4	145	28	22	7	41	1.81
12098922--12098999	33	2.4	32	80	6	84	32	17	24	25	1.97
12106965--12107027	18	3.7	17	78	14	76	44	1	0	53	1.10
12110894--12110940	15	3.3	15	82	11	71	38	14	19	27	1.91
12110899--12110941	13	3.2	13	81	12	59	41	11	20	25	1.86
12111529--12111712	43	4.3	43	76	6	194	31	26	17	23	1.97
12116592--12116808	100	2.2	101	83	4	260	39	12	18	29	1.88
12116692--12117044	134	2.6	134	82	1	429	40	13	16	30	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12116692--12116971	136	2.1	136	88	1	411	41	12	15	30	1.84
12116920--12117142	98	2.3	98	84	0	266	35	13	18	32	1.90
12117018--12117521	134	3.8	133	79	4	505	37	12	18	31	1.88
12122353--12122397	24	1.9	24	86	13	67	46	8	6	37	1.61
12128231--12128307	26	2.9	26	75	5	66	38	2	22	36	1.68
12134484--12134538	25	2.2	26	83	9	69	49	20	7	23	1.74
12134562--12134802	27	8.9	26	84	6	284	19	15	21	43	1.87
12137420--12137453	16	2.1	16	88	5	50	8	8	2	79	1.03
12144841--12144869	14	2.1	14	100	0	58	41	13	17	27	1.87
12151665--12151706	16	2.8	16	79	13	54	69	2	0	28	1.01
12151704--12151744	18	2.3	18	86	0	55	58	2	4	34	1.32
12151767--12151811	21	2.1	21	84	8	56	57	2	11	28	1.45
12151683--12151796	55	2.1	55	86	6	160	59	2	6	31	1.36
12151979--12152047	36	1.9	36	85	11	97	30	2	4	62	1.29
12152004--12152093	47	1.9	46	84	6	119	32	3	2	62	1.24
12151990--12152093	46	2.3	46	80	9	115	33	2	1	61	1.22
12152152--12152357	89	2.3	91	83	5	267	36	7	18	37	1.79
12159404--12160503	361	3.0	361	88	3	1553	30	9	22	37	1.86
12160491--12160531	18	2.2	20	86	8	59	41	2	12	43	1.55
12162519--12162599	26	3.1	26	90	0	126	33	24	22	19	1.97
12162765--12162900	27	5.0	27	80	3	148	18	13	22	45	1.84
12162762--12162900	54	2.6	54	80	0	170	18	14	22	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12164693--12164789	37	2.6	37	95	0	158	30	20	19	28	1.97
12164597--12164851	141	1.8	141	84	0	348	30	20	19	30	1.97
12174809--12174847	20	2.0	20	84	0	51	53	0	23	23	1.46
12181067--12181107	17	2.3	19	80	20	52	51	4	0	43	1.23
12196702--12196734	17	1.9	17	100	0	66	24	27	6	42	1.78
12198622--12198652	9	3.4	9	90	0	53	25	12	22	38	1.90
12201507--12201542	17	2.1	17	89	0	54	22	19	2	55	1.56
12201747--12201809	23	2.8	23	81	11	69	77	4	3	14	1.05
12201748--12201805	21	2.7	21	82	17	66	77	5	3	13	1.07
12206106--12206188	24	3.2	27	85	11	129	37	2	10	49	1.51
12206106--12206204	26	3.8	24	80	18	85	37	2	11	49	1.50
12206106--12206210	50	2.1	51	94	1	185	36	1	11	50	1.50
12208601--12208694	45	2.1	45	88	2	136	28	27	11	31	1.92
12214163--12214258	3	32.0	3	83	4	68	29	40	3	27	1.71
12214177--12214289	57	2.0	57	94	0	199	27	43	6	23	1.77
12214273--12214304	3	10.7	3	100	0	64	34	65	0	0	0.93
12215364--12215406	22	2.0	22	81	9	52	46	20	9	23	1.79
12216299--12216339	17	2.4	17	95	0	73	41	19	17	21	1.90
12216468--12216502	18	1.9	18	94	0	61	28	11	25	34	1.91
12216495--12216603	21	5.2	21	76	4	85	34	10	17	37	1.83
12221834--12222009	41	4.3	41	86	2	246	25	19	23	31	1.98
12221834--12222009	82	2.1	83	89	2	273	25	19	23	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12222566--12222740	89	2.0	89	85	2	235	25	0	29	45	1.54
12225089--12225191	43	2.4	44	88	4	147	28	19	22	30	1.98
12225830--12225893	28	2.1	31	86	11	89	59	4	6	29	1.42
12236122--12236217	28	3.6	28	79	16	123	30	10	25	34	1.89
12236151--12236192	22	1.9	22	100	0	84	28	9	23	38	1.86
12236123--12236217	50	1.9	50	93	0	163	30	9	25	34	1.88
12237003--12237267	23	11.2	23	69	17	118	25	12	18	43	1.85
12236998--12237384	46	8.1	46	73	8	267	27	13	18	41	1.87
12237013--12237384	94	3.9	95	91	2	543	27	12	18	41	1.87
12238836--12238900	5	12.4	5	77	18	62	20	1	3	75	1.02
12247740--12247844	31	3.4	31	74	7	115	35	2	7	54	1.44
12247733--12247850	61	2.0	60	91	1	191	36	2	8	52	1.45
12249360--12249560	112	1.8	110	81	11	248	27	19	15	36	1.93
12249791--12250340	274	2.0	274	94	0	967	32	24	12	31	1.92
12254296--12254334	19	2.0	20	85	5	53	56	0	10	33	1.33
12254870--12254932	31	2.1	30	82	14	76	15	25	1	57	1.48
12256911--12256949	19	2.2	17	90	9	60	35	2	0	61	1.10
12264011--12264438	213	2.0	213	100	0	856	26	10	24	39	1.88
12267028--12267071	20	2.2	20	95	0	79	40	27	2	29	1.68
12277845--12277936	35	2.6	35	70	13	80	25	19	17	38	1.93
12279256--12279501	64	3.9	64	77	7	243	34	20	23	21	1.97
12279261--12279498	127	1.9	128	84	7	324	34	19	24	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12282136--12282170	18	2.0	18	94	5	63	11	45	31	11	1.76
12285688--12285766	27	3.0	27	76	9	90	25	24	11	39	1.88
12285930--12285991	27	2.3	28	83	5	74	25	24	11	38	1.88
12288669--12288694	10	2.6	10	100	0	52	34	0	0	65	0.93
12290667--12290704	20	1.9	19	85	15	51	50	2	2	44	1.30
12293742--12293783	21	2.0	21	100	0	84	33	4	9	52	1.55
12298596--12298636	21	2.0	21	95	0	73	29	7	21	41	1.80
12298847--12298890	22	1.9	24	86	9	65	40	13	2	43	1.57
12301479--12301516	20	1.9	20	94	0	67	44	13	18	23	1.85
12305300--12305336	19	1.9	19	100	0	74	24	27	21	27	1.99
12307285--12307325	13	2.9	15	75	14	50	46	43	0	9	1.36
12313683--12313723	18	2.2	20	86	8	59	24	0	9	65	1.22
12313724--12313756	11	2.9	12	86	13	52	66	0	0	33	0.92
12322944--12323016	19	3.8	19	80	8	69	23	26	0	50	1.49
12332385--12332426	22	1.9	22	90	9	68	26	7	2	64	1.32
12334257--12334281	5	5.0	5	100	0	50	40	0	0	60	0.97
12339715--12339793	30	2.6	31	84	6	99	58	3	0	37	1.16
12360866--12361311	68	6.6	68	82	2	538	36	17	21	25	1.94
12374826--12374885	23	2.4	25	81	13	79	50	0	1	48	1.11
12374840--12374912	23	3.1	23	86	2	101	52	0	1	46	1.09
12374840--12374878	13	3.2	13	82	17	57	48	0	0	51	1.00
12378691--12379310	198	3.2	195	83	5	729	43	10	14	31	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12391418--12391445	14	2.0	14	100	0	56	35	14	14	35	1.86
12393592--12393644	24	2.3	22	87	6	70	41	9	0	49	1.35
12393605--12393653	24	2.0	24	84	0	62	46	10	0	42	1.37
12393632--12393666	14	2.6	13	86	8	52	54	0	0	45	0.99
12393951--12394004	26	2.1	26	92	0	90	35	12	11	40	1.79
12395611--12395641	9	3.4	9	90	0	53	25	12	22	38	1.90
12395695--12395740	9	5.1	9	89	0	74	45	10	10	32	1.74
12395953--12396012	30	2.0	31	83	9	79	20	38	0	41	1.52
12396933--12397001	27	2.5	28	83	2	86	24	2	20	52	1.60
12396969--12397037	35	1.9	36	97	2	131	26	2	18	52	1.60

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