genome.fa.s5.2.7.7.80.10.50.1000.16.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: Dt_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  56894857

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  16  of  185  ( 22150 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)
4376340--4376379	20	2.0	21	95	5	73	45	12	10	32	1.75
4376371--4376399	9	3.2	9	100	0	58	89	0	0	10	0.48
4376487--4376904	17	24.3	17	70	12	194	31	13	11	44	1.79
4376487--4376891	54	7.8	53	70	14	145	30	13	11	44	1.79
4376487--4376627	72	2.0	72	83	5	178	30	13	12	43	1.80
4376867--4376905	18	2.2	18	90	0	60	38	12	7	41	1.72
4382370--4382395	11	2.4	11	100	0	52	15	15	0	69	1.20
4404227--4404303	37	2.1	37	80	4	84	40	16	23	19	1.91
4404572--4404611	21	1.9	21	84	0	53	55	2	2	40	1.27
4404791--4404849	30	1.9	32	82	6	77	30	5	3	61	1.34
4406933--4407042	18	6.1	18	74	4	96	35	16	14	33	1.89
4407130--4407244	51	2.2	54	84	7	148	43	22	18	15	1.87
4408479--4408541	31	2.0	32	84	9	85	46	4	0	49	1.23
4408521--4408574	18	2.9	19	78	10	67	44	5	0	50	1.25
4412963--4413000	18	2.2	18	86	9	53	68	5	5	21	1.29
4417363--4417441	28	2.8	28	84	0	95	32	12	25	29	1.93
4417851--4417891	21	1.9	22	85	5	57	39	2	24	34	1.69
4420339--4420405	32	2.1	32	97	0	125	64	7	13	14	1.49
4421344--4421382	20	2.0	20	84	0	51	58	12	7	20	1.58
4421450--4421497	23	2.2	24	82	14	59	25	16	2	56	1.51
4421555--4421601	21	2.2	21	84	0	58	44	2	8	44	1.46
4422206--4422287	20	4.0	21	70	7	71	58	8	8	24	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4424336--4424394	29	2.0	29	93	0	100	37	22	18	22	1.94
4431293--4431340	7	6.3	7	82	17	60	27	4	0	68	1.07
4437054--4437151	23	4.3	23	71	5	63	22	25	19	32	1.97
4440060--4440089	15	2.0	15	100	0	60	26	0	13	60	1.34
4440276--4440352	9	8.4	9	72	18	52	33	0	1	64	1.01
4440275--4440350	27	2.7	28	82	15	95	34	0	1	64	1.02
4442423--4442486	32	2.0	32	96	0	119	34	26	12	26	1.92
4446673--4446737	17	3.8	17	80	11	78	32	16	9	41	1.80
4446776--4446801	9	2.9	9	100	0	52	92	0	0	7	0.39
4449945--4450130	60	3.1	60	99	0	363	26	18	2	52	1.57
4455546--4455573	3	9.3	3	100	0	56	35	0	0	64	0.94
4461690--4461814	54	2.3	54	90	2	189	27	15	24	32	1.95
4461690--4461848	54	2.9	54	83	7	155	27	15	24	33	1.95
4464928--4464967	21	1.9	21	84	0	53	42	0	2	55	1.13
4466817--4466899	38	2.1	40	91	4	134	46	3	2	46	1.33
4466857--4466901	23	1.9	23	86	4	63	48	4	2	44	1.35
4470522--4470697	50	3.5	50	89	2	264	36	14	22	26	1.93
4470673--4470790	31	3.8	31	87	0	173	27	17	27	27	1.98
4470809--4470980	47	3.7	46	82	3	173	27	15	27	29	1.96
4475507--4475554	11	4.2	11	79	10	60	37	2	4	56	1.30
4478230--4478358	33	3.9	33	90	6	208	39	7	22	30	1.82
4478209--4478383	33	5.3	32	83	10	110	39	9	21	29	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4478343--4478429	33	2.7	33	78	8	81	40	9	20	29	1.84
4478367--4478483	33	3.5	33	74	6	103	35	12	24	26	1.92
4483109--4483226	39	3.0	38	91	4	182	51	27	3	16	1.61
4483345--4483431	36	2.4	37	86	11	126	33	3	13	49	1.59
4486416--4486742	163	2.0	161	89	3	496	35	14	13	36	1.85
4491924--4492261	89	3.8	89	97	0	631	29	24	14	31	1.94
4493513--4494039	105	5.0	105	99	0	1027	25	8	20	45	1.79
4494879--4494966	45	2.0	45	88	2	133	26	21	12	39	1.89
4498519--4498731	107	2.0	107	90	3	340	30	15	18	34	1.92
4506223--4506423	59	3.4	59	75	4	174	27	29	10	31	1.91
4512356--4512450	46	2.1	45	84	5	129	35	22	4	37	1.73
4522843--4522939	45	2.2	45	86	0	140	11	20	23	44	1.84
4523050--4523113	30	2.1	30	88	0	92	17	29	29	23	1.97
4524928--4524996	6	11.0	6	89	9	75	73	7	1	17	1.12
4524964--4525006	18	2.5	17	85	7	59	72	9	4	13	1.26
4526668--4526713	20	2.3	20	88	7	67	56	4	23	15	1.57
4530448--4530502	27	2.0	27	89	0	83	23	20	18	38	1.93
4535495--4535694	51	3.9	51	82	3	242	33	27	14	25	1.94
4535499--4535690	102	1.9	102	89	2	296	33	27	14	25	1.94
4540939--4540986	25	1.9	25	86	0	69	33	20	25	20	1.97
4541183--4541212	13	2.3	13	100	0	60	30	0	20	50	1.49
4543272--4543373	34	3.0	34	79	0	123	24	10	28	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4548208--4548233	10	2.6	10	100	0	52	19	0	23	57	1.40
4549463--4549501	20	2.0	20	100	0	78	43	15	10	30	1.80
4549485--4549524	14	2.9	14	88	0	53	40	17	7	35	1.78
4550338--4550384	14	3.3	14	85	5	58	42	10	4	42	1.59
4557040--4557115	30	2.6	28	75	20	84	61	11	7	18	1.53
4570259--4570296	7	5.4	7	81	12	51	71	0	15	13	1.16
4571758--4571894	43	3.2	43	66	17	111	31	24	19	24	1.98
4571524--4571935	87	4.7	87	90	0	608	28	21	24	25	1.99
4572147--4572265	44	2.7	44	80	2	141	29	22	25	22	1.99
4572492--4572536	23	2.0	22	83	12	56	71	13	2	13	1.25
4575410--4575443	18	1.9	18	88	5	52	41	0	2	55	1.15
4575623--4575666	22	2.0	22	90	0	70	9	18	27	45	1.79
4575760--4575898	42	3.3	42	95	2	244	33	24	20	20	1.97
4576295--4576353	21	2.8	20	85	7	82	3	42	20	33	1.69
4581920--4581985	27	2.4	27	100	0	132	33	0	15	51	1.43
4581816--4582021	9	21.4	9	71	15	119	33	2	16	46	1.61
4581816--4582065	137	1.8	137	94	1	448	35	2	16	45	1.62
4584196--4584269	24	3.0	24	77	13	71	40	1	36	21	1.62
4584383--4584681	116	2.6	113	81	9	340	42	19	15	22	1.88
4584924--4585140	103	2.1	102	93	0	380	38	29	4	28	1.77
4585122--4585203	14	5.9	14	75	5	58	45	34	1	19	1.58
4585305--4585361	8	7.6	7	80	9	51	43	29	1	24	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4585293--4585361	15	4.6	15	81	3	77	43	33	1	21	1.62
4585381--4585448	22	3.1	21	77	8	73	36	41	5	16	1.72
4585628--4585652	10	2.5	10	100	0	50	36	8	0	56	1.29
4585658--4586051	73	5.4	73	81	1	407	28	24	20	26	1.99
4585658--4586042	145	2.7	146	86	4	494	28	24	20	26	1.99
4586232--4586257	12	2.2	12	100	0	52	46	30	15	7	1.74
4588205--4588250	21	2.1	22	88	4	67	73	13	6	6	1.22
4592568--4592593	4	6.5	4	100	0	52	50	23	0	26	1.50
4594425--4594490	13	5.1	13	73	14	55	31	4	25	37	1.76
4594427--4594490	26	2.5	26	75	14	69	31	4	26	37	1.77
4602272--4602302	9	3.4	9	90	0	53	25	12	22	38	1.90
4602353--4602389	9	4.1	9	85	0	56	48	13	8	29	1.71
4602715--4602751	20	1.9	19	89	10	58	24	32	0	43	1.55
4603203--4603304	43	2.4	43	83	3	134	21	29	16	32	1.95
4603235--4603317	43	1.9	43	85	0	112	25	28	15	30	1.96
4604805--4605082	82	3.4	82	100	0	556	43	10	15	30	1.80
4608759--4608801	19	2.2	20	87	4	61	13	2	4	79	1.00
4610020--4610052	14	2.3	15	94	5	59	36	33	0	30	1.58
4610344--4610639	160	1.8	161	97	0	567	44	11	8	35	1.71
4610799--4610984	41	4.6	41	89	0	257	31	24	20	23	1.98
4611062--4611212	41	3.7	41	90	0	221	29	25	23	21	1.99
4612826--4612881	11	5.2	11	82	2	69	25	28	1	44	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4612826--4612891	33	2.0	33	85	5	89	24	28	1	45	1.62
4612857--4612954	51	1.9	51	85	4	135	25	24	4	45	1.70
4614818--4614848	16	1.9	16	93	0	53	67	0	0	32	0.91
4617580--4618674	23	49.8	22	76	9	943	25	0	25	48	1.57
4617532--4618678	45	26.2	44	79	9	1014	25	0	25	48	1.56
4618287--4618486	51	4.1	49	74	15	143	25	1	24	50	1.56
4618466--4618674	82	2.5	82	98	0	400	25	0	26	47	1.52
4618521--4618563	16	2.8	15	89	6	52	27	0	30	41	1.56
4618532--4618563	16	2.0	16	100	0	64	31	0	31	37	1.58
4618603--4618645	16	2.8	15	89	6	52	27	0	30	41	1.56

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