genome.fa.s17.2.7.7.80.10.50.1000.15.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  15  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)
4107730--4107767	19	2.0	19	85	10	51	39	7	2	50	1.46
4109825--4109866	19	2.2	20	83	12	52	38	4	0	57	1.20
4112133--4112219	30	2.9	30	79	17	83	37	3	0	58	1.15
4112134--4112260	40	3.2	40	91	1	200	37	3	0	58	1.20
4112196--4112253	29	2.0	29	90	6	91	37	3	1	56	1.26
4112144--4112260	11	11.3	11	70	23	76	37	3	0	58	1.21
4113700--4114290	152	3.9	152	96	0	1069	22	14	26	36	1.93
4124004--4124080	14	5.0	15	71	20	52	42	14	9	33	1.77
4124020--4124059	20	2.0	20	90	0	62	50	12	10	27	1.72
4124008--4124074	34	1.9	35	90	3	109	46	13	8	31	1.74
4125741--4126013	138	2.0	138	94	1	485	28	14	17	39	1.89
4126273--4126367	28	3.4	28	73	23	76	49	3	0	47	1.17
4126342--4126399	26	2.3	25	77	13	66	50	0	0	50	1.00
4126320--4126395	22	3.4	22	75	12	66	46	1	0	52	1.08
4131908--4131966	24	2.8	21	78	17	61	44	0	3	52	1.17
4141701--4141753	21	2.5	22	78	12	65	62	22	7	7	1.47
4141673--4141753	22	3.7	22	77	6	67	61	18	8	11	1.54
4142477--4142502	2	13.0	2	100	0	52	0	50	0	50	1.00
4151244--4151281	3	12.7	3	100	0	76	65	0	34	0	0.93
4152618--4152660	20	2.2	19	83	4	50	58	2	0	39	1.11
4155663--4155696	9	3.8	9	92	0	50	47	14	11	26	1.79
4162567--4162617	15	3.4	15	73	10	50	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4166609--4166673	26	2.5	25	80	5	67	44	1	1	52	1.19
4168881--4168920	20	2.1	19	86	13	55	22	0	15	62	1.32
4168840--4168931	46	2.0	47	85	10	127	26	3	17	53	1.59
4171756--4171844	44	2.0	44	100	0	178	46	8	13	31	1.74
4175372--4175436	26	2.5	25	80	5	67	44	1	1	52	1.19
4179907--4179940	3	11.3	3	100	0	68	32	0	0	67	0.91
4180029--4180093	32	2.1	32	94	2	114	30	9	10	49	1.69
4180640--4180690	9	4.8	12	75	24	60	78	13	7	0	0.96
4180637--4180690	21	2.6	21	87	0	81	79	12	7	0	0.92
4180645--4180739	50	1.9	49	87	6	138	75	11	10	2	1.12
4180675--4180728	19	2.8	19	78	13	65	74	9	12	3	1.20
4180637--4180741	10	10.4	10	72	13	72	76	11	10	1	1.11
4180761--4180792	13	2.5	13	94	0	55	75	12	12	0	1.06
4185213--4185237	3	8.3	3	100	0	50	32	0	0	68	0.90
4185326--4185390	32	2.1	32	94	2	114	32	9	10	47	1.70
4195592--4195629	19	2.0	19	89	0	58	26	5	26	42	1.76
4200265--4200297	14	2.4	14	94	0	57	69	0	0	30	0.88
4201161--4201198	18	2.1	18	85	9	51	15	15	7	60	1.57
4208484--4208526	22	2.0	22	85	0	59	30	41	0	27	1.56
4210766--4210803	18	2.1	18	85	9	51	60	7	15	15	1.57
4222223--4222282	18	3.2	19	76	23	56	50	0	0	50	1.00
4222229--4222285	25	2.3	25	82	11	64	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4224562--4224605	21	2.2	19	84	8	52	34	0	4	61	1.16
4233476--4234067	294	2.0	294	97	0	1132	27	20	14	37	1.92
4234761--4234790	13	2.3	13	94	0	51	6	10	16	66	1.41
4238398--4238438	21	2.0	21	100	0	82	34	0	9	56	1.32
4238752--4238795	16	2.8	16	89	0	70	27	31	2	38	1.69
4239267--4239309	18	2.6	16	85	10	59	46	0	2	51	1.13
4252230--4252299	31	2.3	31	84	0	86	35	8	8	47	1.65
4252256--4252316	31	2.0	31	87	3	88	31	8	8	52	1.60
4255657--4255782	62	2.0	62	93	3	218	50	3	12	33	1.59
4256597--4256650	24	2.3	23	81	12	65	50	0	1	48	1.11
4264287--4264351	29	2.2	29	81	5	78	49	7	13	29	1.70
4267227--4267646	114	3.7	113	89	1	606	23	21	27	27	1.99
4267901--4267931	15	2.1	15	93	0	53	19	0	45	35	1.51
4268170--4268216	14	3.3	15	82	8	62	27	0	31	40	1.57
4268231--4268297	15	4.7	15	78	14	54	22	0	41	35	1.54
4268906--4269095	105	1.8	105	89	2	301	52	12	11	23	1.72
4268913--4269856	255	3.8	254	80	11	989	47	13	13	25	1.79
4269144--4269354	102	2.0	101	84	8	271	47	14	12	25	1.78
4269422--4269592	85	2.0	88	90	3	276	51	11	10	26	1.70
4269276--4269734	226	2.0	226	85	9	617	48	13	12	25	1.77
4269642--4269841	108	1.9	107	89	4	312	52	12	11	24	1.72
4269023--4269918	481	1.8	481	84	8	1204	47	13	13	25	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4269967--4270008	21	2.0	22	90	4	68	28	47	0	23	1.52
4271544--4271669	66	1.9	66	98	0	243	26	38	18	17	1.92
4271791--4271938	57	2.5	60	86	9	214	21	26	22	29	1.99
4276228--4276275	22	2.0	23	84	11	62	54	2	2	41	1.24
4276303--4276550	43	5.8	43	88	0	336	24	18	31	25	1.98
4277106--4277168	6	10.2	6	76	11	56	3	53	1	41	1.26
4277124--4277157	13	2.8	12	90	4	50	5	58	0	35	1.22
4279678--4279717	20	2.0	20	90	0	62	50	12	10	27	1.72
4279666--4279732	34	1.9	35	87	3	100	46	11	8	32	1.72
4279701--4279740	14	2.9	14	84	0	53	42	17	7	32	1.77
4280785--4280868	25	3.4	24	82	12	82	21	25	23	29	1.99
4280776--4280873	50	2.0	49	84	6	126	22	24	21	31	1.98
4280800--4280879	25	3.2	25	84	7	99	25	25	21	28	1.99
4287741--4287781	4	10.0	4	84	5	55	68	0	0	31	0.90
4294512--4294606	31	3.1	30	76	8	102	51	4	3	41	1.37
4298524--4298604	34	2.3	35	80	16	98	55	1	1	41	1.15
4298570--4298615	21	2.2	20	81	11	58	56	0	2	41	1.11
4301833--4301966	19	6.7	21	78	10	77	39	14	6	39	1.72
4301833--4301890	22	2.6	22	81	7	64	41	17	5	36	1.72
4301869--4301979	19	5.8	19	86	0	168	36	13	9	40	1.76
4301869--4301972	38	2.7	38	96	0	190	37	12	8	41	1.74
4305338--4305414	39	2.0	39	97	0	145	36	24	20	18	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4307208--4307256	21	2.3	21	89	0	71	26	8	38	26	1.84
4314337--4314411	34	2.3	32	78	15	82	53	2	1	42	1.23
4321820--4321868	5	9.8	5	90	0	71	42	16	20	20	1.89
4327397--4327427	15	2.1	15	93	0	53	64	19	6	9	1.45
4329501--4329614	29	3.8	29	69	13	81	52	2	0	43	1.21
4329884--4329937	26	2.1	26	100	0	108	37	3	14	44	1.63
4331809--4331860	23	2.3	23	96	0	95	46	15	0	38	1.46
4333334--4333394	27	2.3	26	77	2	68	55	4	3	36	1.38
4333358--4333414	30	1.9	30	89	7	89	57	3	3	35	1.33
4333576--4333619	17	2.6	17	85	3	63	47	0	11	40	1.39
4333747--4333771	3	8.3	3	100	0	50	68	0	0	32	0.90
4333795--4333824	7	4.4	7	91	8	53	73	0	0	26	0.84
4334135--4334160	12	2.2	12	100	0	52	42	15	7	34	1.75
4334705--4334777	37	2.0	37	91	0	119	31	24	20	23	1.98
4335252--4335321	35	2.0	35	86	5	97	28	25	21	24	1.99
4335287--4335452	44	3.8	43	83	4	208	27	26	19	27	1.99
4335287--4335451	88	1.9	88	88	2	251	27	26	18	27	1.98
4335463--4336117	88	7.4	88	91	0	1049	20	24	27	27	1.99
4338258--4338311	26	2.1	26	82	3	65	59	5	12	22	1.54
4342187--4342237	23	2.2	23	85	0	66	54	5	3	35	1.43
4342201--4342286	29	2.8	30	84	11	97	59	4	2	33	1.31
4342590--4342631	3	14.0	3	89	0	66	64	2	2	30	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4349124--4349161	19	2.0	19	94	0	67	28	0	0	71	0.87
4349122--4349159	7	5.7	7	90	6	53	26	0	0	73	0.83
4349124--4349161	13	3.0	13	88	7	60	28	0	0	71	0.87
4349125--4349161	6	6.0	6	90	6	56	29	0	0	70	0.88
4349167--4349229	26	2.3	27	83	5	74	34	1	1	61	1.15
4350243--4350271	9	3.2	9	100	0	58	68	0	0	31	0.89
4350798--4350835	9	4.2	9	93	0	67	28	10	13	47	1.76
4355997--4356076	35	2.3	34	81	8	99	46	0	5	48	1.24
4356018--4356078	24	2.5	23	80	15	61	45	0	4	49	1.23
4356403--4356471	35	2.0	35	85	5	95	46	0	5	47	1.26

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