genome.fa.s20.2.7.7.80.10.50.1000.106.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  106  of  199  ( 23844 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)
30005760--30005806	14	3.3	15	82	8	62	27	0	31	40	1.57
30005825--30005873	7	6.9	7	76	4	53	20	0	46	32	1.51
30005821--30005888	15	4.7	15	80	10	63	22	0	44	33	1.53
30006449--30007144	204	3.4	198	76	12	644	49	11	12	26	1.74
30006557--30006719	85	2.0	79	84	7	209	53	10	10	25	1.66
30006954--30007140	106	1.8	101	83	5	248	51	10	11	26	1.70
30007031--30007394	151	2.5	150	90	6	565	47	11	13	27	1.77
30007671--30007699	3	9.7	3	100	0	58	0	31	0	68	0.89
30009261--30009299	16	2.4	17	87	12	55	30	0	2	66	1.05
30012182--30012408	43	5.3	43	88	0	310	22	17	31	28	1.97
30016938--30016975	20	2.0	18	90	10	58	60	5	7	26	1.46
30016942--30016983	20	2.2	19	86	4	57	61	4	9	23	1.45
30016998--30017222	41	5.5	40	90	3	333	31	25	20	22	1.98
30027848--30027881	16	2.1	16	88	5	50	82	5	8	2	0.93
30030164--30030391	94	2.4	94	87	2	325	37	8	21	32	1.84
30030527--30030581	26	2.0	28	86	6	78	54	1	0	43	1.10
30031463--30031496	14	2.4	14	85	0	50	44	2	0	52	1.16
30036290--30036678	165	2.4	165	85	4	518	29	12	14	43	1.82
30036852--30037726	324	2.7	324	86	1	1185	28	14	16	41	1.87
30036830--30037726	164	5.5	165	87	2	1155	28	15	15	40	1.88
30038154--30039029	165	5.3	165	75	8	641	28	13	18	40	1.88
30042637--30042689	23	2.3	23	86	0	79	41	20	13	24	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30045126--30045185	21	2.9	21	76	14	61	45	26	1	26	1.63
30045399--30045454	28	2.0	28	96	0	103	48	0	0	51	1.00
30045725--30045750	6	4.3	6	100	0	52	50	0	0	50	1.00
30050720--30050759	19	2.1	19	86	9	55	35	0	0	65	0.93
30058032--30058129	28	3.5	28	88	0	142	30	12	26	30	1.92
30058863--30059145	23	12.0	24	73	18	186	24	13	17	43	1.86
30058888--30059174	70	4.1	70	89	2	423	24	13	19	43	1.87
30058861--30059139	47	5.9	47	72	15	179	24	13	17	43	1.86
30058861--30059050	95	2.0	95	81	10	219	25	13	16	44	1.85
30058917--30059201	141	2.0	141	85	1	383	25	12	18	42	1.86
30065558--30065624	28	2.4	28	89	0	98	28	11	26	32	1.92
30066358--30066640	23	12.0	25	72	20	166	25	13	17	44	1.85
30066383--30066669	70	4.1	70	89	2	423	24	12	19	43	1.86
30066407--30066634	47	4.8	46	73	17	175	24	13	19	43	1.86
30066593--30066652	23	2.6	23	87	10	79	26	15	16	41	1.88
30066407--30066696	141	2.1	141	86	1	395	24	12	19	42	1.86
30067285--30067448	43	3.9	43	81	6	192	28	15	26	29	1.96
30068106--30068173	34	2.0	34	100	0	136	44	5	17	32	1.73
30073864--30073906	15	2.9	15	78	0	59	32	6	0	60	1.23
30075471--30075541	21	3.5	21	75	11	76	23	7	29	39	1.81
30075483--30075538	28	2.0	27	89	3	85	25	5	32	37	1.78
30075627--30075666	21	1.9	21	84	0	53	55	5	5	35	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30082220--30082285	29	2.2	30	89	5	98	22	13	13	50	1.77
30082586--30082644	25	2.3	26	82	8	68	32	1	13	52	1.50
30082697--30082913	84	2.4	93	87	8	285	24	1	15	58	1.45
30082698--30083042	187	1.9	178	79	12	378	27	1	13	57	1.45
30085383--30085654	49	5.6	49	85	3	345	42	11	11	34	1.77
30085383--30085651	146	1.8	145	85	4	380	43	11	11	33	1.77
30088518--30088553	17	2.1	17	89	0	54	11	19	0	69	1.18
30088618--30088691	27	2.7	27	80	0	85	21	24	31	22	1.99
30091923--30091982	30	2.0	30	100	0	120	36	23	16	23	1.94
30095998--30096029	14	2.3	14	100	0	64	28	28	0	43	1.55
30097260--30097290	5	6.2	5	92	0	53	45	19	16	19	1.86
30098317--30098353	9	4.1	9	89	0	56	32	10	10	45	1.74
30098406--30098436	9	3.4	9	90	0	53	38	22	12	25	1.90
30100941--30100966	13	2.0	13	100	0	52	38	15	7	38	1.76
30106876--30106933	29	2.0	29	89	0	89	46	8	3	41	1.51
30117221--30117282	30	2.0	31	90	3	99	33	9	0	56	1.32
30125495--30125641	33	4.5	33	73	9	104	27	2	44	25	1.68
30125744--30125847	51	2.0	51	86	0	145	28	7	27	35	1.85
30130965--30131062	37	2.6	40	75	20	97	40	4	5	50	1.44
30130999--30131050	25	2.0	26	82	10	63	38	5	5	50	1.51
30132379--30132435	28	2.0	28	100	0	114	35	7	10	47	1.65
30138860--30138891	13	2.5	13	100	0	64	6	21	9	62	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30147284--30147314	15	2.1	15	94	5	55	35	12	9	41	1.76
30150280--30150354	25	2.9	26	82	7	91	42	9	17	30	1.80
30163278--30163317	19	2.2	19	86	8	57	32	22	2	42	1.67
30172583--30172643	23	2.6	22	75	12	59	40	6	1	50	1.38
30174314--30174368	20	2.8	20	85	0	74	49	9	7	34	1.62
30179308--30179367	23	2.6	23	83	2	66	53	8	0	38	1.31
30182121--30182153	17	2.0	16	94	5	57	63	0	0	36	0.95
30186432--30186473	21	2.0	21	100	0	84	61	0	9	28	1.27
30194190--30194242	26	2.0	26	85	7	72	47	13	9	30	1.74
30202983--30203007	9	2.8	9	100	0	50	76	0	0	24	0.80
30202966--30203003	16	2.2	18	86	9	53	71	2	0	26	1.00
30203137--30203182	14	3.4	13	80	11	56	43	2	10	43	1.51
30210420--30210494	26	2.8	26	84	9	98	20	5	0	74	1.00
30210411--30210497	26	3.2	26	77	17	95	17	5	0	77	0.96
30210425--30210494	9	6.9	11	73	17	55	21	4	0	74	0.99
30212254--30212294	21	2.0	21	90	0	64	14	2	4	78	1.03
30212239--30212311	27	2.7	27	83	8	78	13	4	5	76	1.11
30212259--30212312	15	3.9	14	77	18	58	14	1	5	77	1.03
30212247--30212312	6	10.0	6	74	18	51	13	3	6	77	1.08
30224374--30224449	26	2.9	26	82	0	80	34	25	26	14	1.94
30224613--30224775	27	6.0	27	78	2	130	20	14	19	45	1.85
30224623--30224774	54	2.8	54	84	2	189	19	15	17	47	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30224624--30224772	81	1.8	81	85	2	210	19	14	17	48	1.81
30224803--30224867	27	2.4	27	92	0	103	23	21	18	36	1.95
30225765--30225801	18	2.0	19	89	5	58	67	13	18	0	1.23
30225770--30225807	18	2.1	19	85	5	51	73	5	21	0	1.02
30228566--30229796	614	2.0	614	99	0	2426	30	22	16	29	1.96
30232144--30232182	20	2.0	20	89	0	60	30	12	12	43	1.81
30232668--30232726	30	1.9	31	86	3	84	30	23	25	20	1.98
30233086--30233265	27	6.7	27	85	2	202	22	12	18	45	1.84
30233111--30233282	54	3.2	54	85	2	231	23	15	16	44	1.86
30233086--30233282	80	2.5	80	82	7	213	22	14	17	45	1.85
30234193--30234230	18	2.1	19	85	5	51	73	5	21	0	1.02
30238949--30239174	40	5.7	40	88	4	271	26	26	21	25	1.99
30241404--30241455	21	2.5	19	80	17	59	50	0	23	26	1.50
30249391--30249514	50	2.5	50	74	7	126	23	25	21	29	1.99
30249684--30249801	46	2.6	46	93	0	191	29	18	22	29	1.97
30249628--30249927	44	6.8	43	70	12	137	28	21	20	30	1.98
30249530--30249946	221	1.9	222	90	0	674	28	20	18	31	1.97
30257671--30257802	69	1.9	69	89	3	203	32	14	16	36	1.89
30259271--30259442	47	3.6	47	94	3	299	34	7	28	29	1.85
30259271--30259442	96	1.8	94	93	2	299	34	7	28	29	1.85
30259415--30259468	16	3.4	16	76	19	67	37	1	27	33	1.68
30259411--30259474	32	2.0	32	100	0	128	37	3	28	31	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30259364--30259521	79	2.0	79	98	0	307	34	6	28	30	1.82
30259315--30259564	126	2.0	127	95	1	457	34	6	28	30	1.83
30259443--30259613	47	3.6	47	93	0	279	33	7	30	28	1.85
30259271--30259613	173	2.0	174	91	1	562	33	7	29	28	1.85
30270888--30270917	14	2.1	14	93	0	51	40	0	16	43	1.48
30272364--30272958	44	13.7	44	72	10	240	25	20	22	31	1.98
30272273--30273059	130	6.1	130	91	0	1202	25	20	21	32	1.98
30273065--30273630	50	11.4	50	70	1	364	26	23	20	29	1.99
30273061--30273615	100	5.6	99	88	1	700	26	23	20	30	1.98
30273927--30273987	24	2.6	23	79	7	68	29	22	11	36	1.90

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