genome.fa.s17.2.7.7.80.10.50.1000.55.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  55  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)
15734600--15734652	14	3.7	14	78	12	54	52	0	5	41	1.25
15737794--15737823	13	2.3	13	94	0	51	30	0	10	60	1.30
15740341--15740520	51	3.5	51	78	5	161	23	16	27	32	1.96
15740442--15740522	26	3.2	26	62	22	62	23	14	28	33	1.94
15740529--15740615	45	1.9	45	95	0	156	26	14	22	35	1.94
15743261--15743296	18	1.9	19	88	5	56	52	0	8	38	1.32
15743670--15748638	954	5.2	955	86	2	6676	29	13	23	33	1.93
15748745--15748794	22	2.1	22	82	10	55	2	18	12	68	1.30
15748637--15750719	945	2.2	955	87	3	3009	29	13	22	34	1.92
15752446--15752484	20	2.0	20	89	0	60	43	10	20	25	1.83
15752901--15752969	31	2.2	31	92	0	111	55	7	10	27	1.60
15753081--15753125	19	2.3	20	80	7	56	51	4	15	28	1.63
15753216--15753360	72	2.0	72	95	0	263	33	6	20	39	1.78
15753637--15753758	59	2.1	58	84	9	158	20	31	1	46	1.60
15755548--15755602	24	2.3	24	90	3	85	10	32	0	56	1.34
15756174--15756270	49	2.0	48	95	2	176	47	10	3	39	1.53
15756246--15756294	24	2.2	21	85	10	62	48	12	0	38	1.41
15767320--15767384	31	2.1	31	82	5	78	43	16	15	24	1.87
15769279--15769444	78	2.1	78	98	0	323	26	20	22	30	1.98
15773198--15773222	2	12.5	2	100	0	50	48	0	0	52	1.00
15777704--15777755	23	2.2	24	86	3	70	36	3	9	50	1.54
15778291--15778327	18	2.0	19	89	5	58	10	0	29	59	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15780815--15780872	28	2.0	29	83	9	75	15	3	31	50	1.61
15780820--15780880	28	2.2	28	82	5	70	16	4	31	47	1.68
15798903--15798979	13	5.9	13	90	0	118	23	10	25	40	1.86
15798903--15798979	39	2.0	39	94	0	136	23	10	25	40	1.86
15799677--15799723	22	2.1	24	84	11	64	57	4	10	27	1.51
15800617--15800687	29	2.4	29	100	0	142	50	15	0	33	1.44
15807540--15807624	27	2.9	28	84	10	100	17	22	30	29	1.97
15807605--15807823	33	5.5	43	65	27	142	23	17	25	33	1.96
15807568--15807859	76	3.8	76	90	1	413	22	19	26	31	1.98
15818744--15818814	27	2.6	27	86	0	88	26	9	18	45	1.81
15820696--15820747	23	2.3	22	80	9	59	53	0	0	46	1.00
15820709--15820770	28	2.3	27	81	10	65	62	1	0	35	1.05
15822191--15822251	32	1.9	32	86	0	86	32	0	3	63	1.10
15831189--15831250	30	2.1	30	93	6	108	27	3	11	58	1.48
15831774--15831811	18	2.0	21	85	15	55	31	2	7	57	1.41
15832983--15833052	36	1.9	36	100	0	140	18	10	31	40	1.84
15852291--15852315	13	1.9	13	100	0	50	8	0	24	68	1.16
15853898--15853999	41	2.5	41	91	3	161	27	18	25	28	1.98
15857844--15857895	17	3.1	17	72	2	52	59	3	0	36	1.16
15858118--15858173	24	2.3	25	84	9	80	32	0	3	64	1.11
15858129--15858174	24	1.9	24	95	0	83	36	0	4	58	1.18
15861500--15861528	2	15.0	2	92	7	51	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15865909--15865950	21	2.0	22	85	4	59	28	14	2	54	1.52
15867661--15867830	63	2.7	63	76	5	146	31	32	6	29	1.83
15867717--15867841	63	2.0	63	84	3	162	32	30	7	29	1.84
15871584--15871651	34	1.9	35	82	5	84	4	25	17	52	1.63
15875032--15875203	72	2.4	72	88	4	269	25	6	13	54	1.62
15883759--15883834	15	5.3	14	72	10	55	51	5	1	42	1.33
15885833--15885915	42	2.0	42	95	0	148	34	16	9	38	1.82
15893374--15893414	19	2.2	19	86	0	55	26	2	7	63	1.33
15898441--15898514	16	4.6	17	66	19	59	79	5	6	8	1.04
15898441--15898540	33	3.0	33	85	11	134	77	7	8	8	1.14
15898454--15898562	31	3.3	33	74	24	97	75	7	8	9	1.20
15900690--15901262	88	6.5	88	92	0	887	27	25	23	23	2.00
15901352--15901450	44	2.3	43	82	7	110	31	22	20	26	1.98
15901656--15901690	12	2.9	12	91	8	54	74	5	0	20	1.02
15902724--15902764	19	2.2	19	86	0	55	26	2	7	63	1.33
15905170--15905239	34	2.2	31	87	7	95	21	22	20	35	1.96
15908334--15908377	17	2.7	17	89	6	65	36	2	18	43	1.63
15908591--15908760	41	4.1	41	93	0	277	28	18	28	24	1.98
15908598--15908760	82	2.0	82	98	0	317	28	19	28	23	1.98
15908841--15908912	36	2.0	36	100	0	144	30	5	19	44	1.73
15908983--15909100	37	3.5	34	78	15	113	28	10	25	35	1.89
15909011--15909100	37	2.5	37	85	7	116	28	10	25	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15916249--15916294	17	2.6	18	83	12	60	36	2	17	43	1.61
15916249--15916291	19	2.4	19	88	7	63	39	2	13	44	1.57
15916508--15916677	41	4.1	41	91	0	268	28	18	28	23	1.98
15916515--15916677	82	2.0	82	97	0	308	28	19	28	23	1.98
15916873--15916982	37	3.3	34	79	14	106	28	10	27	33	1.90
15916893--15916982	37	2.5	37	85	7	116	28	10	25	35	1.88
15922148--15922200	26	2.0	26	100	0	106	30	22	11	35	1.89
15928004--15928085	42	2.0	42	80	4	94	37	10	10	40	1.76
15928777--15928859	43	1.9	43	92	0	139	28	13	2	55	1.51
15938654--15938798	41	3.5	40	81	5	130	26	24	19	29	1.98
15939197--15939222	10	2.6	10	100	0	52	50	7	0	42	1.31
15940382--15940406	13	1.9	13	100	0	50	68	24	0	8	1.16
15940641--15940682	18	2.3	19	91	4	68	54	0	23	21	1.44
15945765--15945826	21	2.8	22	72	20	58	56	0	3	40	1.15
15951174--15951213	21	1.9	21	85	10	55	55	2	32	10	1.47
15951652--15951677	11	2.4	11	100	0	52	15	30	26	26	1.96
15952134--15952321	30	6.4	30	79	6	147	42	13	26	17	1.87
15952193--15952261	28	2.4	28	85	4	93	39	10	26	24	1.87
15952104--15952349	117	2.1	118	85	4	336	39	14	26	19	1.90
15952737--15952771	17	2.1	17	94	0	61	11	2	28	57	1.48
15954823--15954892	20	3.5	19	77	12	70	30	20	35	14	1.92
15959078--15959339	17	15.4	17	76	4	206	22	9	24	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15962613--15962678	33	2.0	34	85	8	91	53	27	0	19	1.46
15963076--15963147	27	2.7	27	84	0	99	23	22	27	26	1.99
15966946--15967051	50	2.2	48	79	6	115	7	27	1	63	1.32
15966946--15967051	48	2.2	49	80	11	119	7	27	1	63	1.32
15974463--15974507	23	2.0	23	91	4	74	40	17	4	37	1.70
15974450--15974507	22	2.6	22	84	12	75	41	18	3	36	1.68
15974479--15974531	17	3.0	17	73	10	52	33	18	5	41	1.74
15982455--15982481	6	4.5	6	100	0	54	0	14	14	70	1.17
15986670--15986706	6	6.0	6	96	3	65	32	0	32	35	1.58
15989928--15989969	13	3.4	12	84	12	50	50	14	2	33	1.56
15991702--15991742	10	3.7	11	81	18	50	70	0	2	26	0.99
15991702--15991746	22	2.0	23	86	4	65	71	0	2	26	0.98
15992015--15992101	30	2.9	30	84	5	113	14	29	32	22	1.94
16001962--16002019	28	2.1	27	84	6	73	27	0	5	67	1.12
16002616--16002657	16	2.7	16	81	3	50	35	4	0	59	1.19
16003339--16003562	110	2.0	110	100	0	448	32	23	6	37	1.80
16007234--16008006	50	15.6	51	68	8	314	23	20	22	33	1.97
16007394--16007568	89	2.0	89	83	6	221	22	21	20	35	1.96
16007641--16008011	200	1.9	200	90	0	589	22	19	22	35	1.96
16007483--16008035	100	5.5	101	78	5	529	23	20	22	33	1.97
16008026--16008393	170	2.1	171	86	3	504	29	19	18	32	1.96
16008415--16008623	44	4.5	44	68	16	111	31	20	16	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16008395--16008596	98	2.1	98	96	0	368	30	20	15	33	1.94
16008655--16009019	131	2.8	131	89	0	561	24	24	21	29	1.99
16010228--16010278	13	3.8	13	89	2	75	13	15	1	68	1.30
16010228--16010277	20	2.5	20	87	6	75	14	16	2	68	1.31
16010228--16010278	7	7.6	7	86	8	70	13	15	1	68	1.30
16011118--16011160	15	2.8	15	85	3	50	2	16	0	81	0.79
16017523--16017763	50	4.7	50	80	5	232	24	28	21	26	1.99
16017523--16017767	100	2.4	102	81	6	273	23	28	20	26	1.99
16018994--16019028	19	1.9	17	88	11	52	65	14	0	20	1.26
16019037--16019079	22	2.0	22	85	0	59	53	6	13	25	1.65

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