genome.fa.s6.2.7.7.80.10.50.1000.14.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  42799318

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   

This is table  14  of  141  ( 16820 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)
4173916--4174006	6	14.8	6	68	17	53	45	15	20	18	1.86
4173927--4174021	31	3.1	31	85	0	127	47	14	20	17	1.83
4174166--4174239	27	2.8	27	89	2	105	36	21	24	17	1.95
4174397--4174461	22	3.0	22	80	8	78	33	23	23	20	1.97
4174888--4176053	27	43.3	27	95	0	1917	25	19	18	36	1.94
4175225--4176378	27	42.7	27	93	1	317	27	15	19	37	1.92
4176571--4176624	20	2.8	20	80	2	56	9	44	24	22	1.81
4177648--4177723	39	1.9	39	83	0	98	31	5	21	42	1.75
4179792--4179900	37	2.9	37	90	0	164	27	29	18	24	1.98
4180047--4180641	48	12.1	48	89	4	877	31	25	6	36	1.81
4180047--4180641	100	6.1	96	88	6	877	31	25	6	36	1.81
4195274--4195322	23	2.1	23	96	0	89	38	10	14	36	1.80
4200301--4200366	28	2.3	28	89	7	98	33	24	21	21	1.97
4200469--4200533	28	2.3	28	91	0	103	32	7	27	32	1.85
4256545--4256660	37	3.2	37	88	2	173	43	25	12	18	1.86
4262567--4262600	18	1.9	18	88	5	52	32	20	11	35	1.89
4265665--4265762	39	2.5	38	90	4	151	43	13	7	35	1.71
4266866--4267046	40	4.5	40	81	2	211	19	30	16	33	1.94
4266866--4267046	80	2.3	80	86	3	240	19	30	16	33	1.94
4270326--4270369	17	2.6	17	86	10	56	52	2	13	31	1.53
4272755--4273014	40	6.5	40	83	1	290	20	30	15	34	1.93
4277672--4277834	54	3.0	54	79	12	181	33	14	26	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4280258--4280291	7	4.9	7	100	0	68	44	0	0	55	0.99
4282517--4282541	5	5.0	5	100	0	50	80	0	0	20	0.72
4285105--4285141	20	1.9	18	89	10	56	37	8	0	54	1.30
4285743--4285784	16	2.6	16	92	0	66	42	7	2	47	1.43
4285758--4285813	23	2.5	23	82	2	69	44	1	1	51	1.22
4285798--4285826	6	4.8	6	100	0	58	34	0	0	65	0.93
4293028--4293293	47	5.6	47	68	12	164	27	31	10	30	1.90
4292988--4293273	144	2.0	144	100	0	572	27	31	12	29	1.93
4294708--4294732	13	1.9	13	100	0	50	32	16	20	32	1.94
4301237--4301307	25	2.8	24	79	8	61	33	26	16	22	1.96
4301254--4301606	25	14.0	24	68	9	123	37	23	11	27	1.90
4301228--4301606	76	5.0	76	82	0	384	37	23	12	26	1.90
4301234--4301612	75	5.0	75	80	2	348	36	24	12	26	1.91
4308167--4308200	8	4.2	8	100	0	68	58	14	11	14	1.63
4312094--4312169	36	2.1	36	85	4	100	36	7	26	28	1.84
4323695--4323728	17	2.0	18	88	11	54	41	0	11	47	1.40
4332869--4333224	125	2.8	125	94	0	613	31	31	14	23	1.94
4333570--4333622	28	2.0	27	85	7	72	43	18	0	37	1.51
4333731--4333841	51	2.2	52	83	4	154	31	15	7	45	1.73
4341572--4341606	12	2.9	12	82	0	52	54	11	0	34	1.37
4341887--4341924	19	2.1	19	90	9	62	57	0	0	42	0.98
4342373--4342410	18	2.1	18	85	9	51	68	2	0	28	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4344947--4345027	40	2.0	41	85	4	110	23	28	25	22	1.99
4367580--4367630	20	2.5	20	93	0	84	35	21	33	9	1.86
4373545--4373592	14	3.4	14	88	5	69	22	0	29	47	1.51
4375684--4375759	39	1.9	40	84	7	102	42	3	11	42	1.60
4377864--4377897	5	6.8	5	100	0	68	41	17	20	20	1.91
4378537--4378596	30	2.0	31	86	3	86	41	1	36	20	1.62
4378810--4378846	9	4.1	9	92	0	65	29	10	13	45	1.77
4378900--4378930	9	3.4	9	90	0	53	38	22	12	25	1.90
4384800--4385020	51	4.4	50	80	6	232	30	13	24	31	1.93
4384800--4384984	101	1.8	102	87	3	275	29	14	23	31	1.94
4384800--4385020	101	2.2	102	82	4	259	30	13	24	31	1.93
4388241--4388302	19	3.4	19	67	24	60	43	9	11	35	1.73
4388230--4388305	36	2.1	36	100	0	152	44	7	10	36	1.68
4388593--4388738	41	3.6	41	92	0	238	28	23	22	25	1.99
4388606--4388791	82	2.3	82	81	3	196	29	20	25	24	1.99
4396836--4397104	135	2.0	134	87	4	389	34	16	13	35	1.87
4406019--4406069	20	2.5	21	84	9	61	29	0	13	56	1.38
4409726--4409882	55	2.8	56	80	3	190	47	12	5	35	1.64
4419994--4420350	41	8.7	40	79	7	342	21	20	28	29	1.98
4420730--4420793	14	4.5	15	79	13	55	28	0	34	37	1.57
4420739--4420776	14	2.7	15	88	12	62	26	0	31	42	1.56
4420795--4420825	7	4.4	7	91	0	53	19	0	48	32	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4420795--4420834	14	2.9	14	88	7	55	22	0	47	30	1.52
4420771--4420833	21	3.0	22	79	4	67	23	0	42	33	1.55
4421158--4421207	14	3.7	14	76	7	50	14	0	46	40	1.44
4423603--4423627	13	1.9	13	100	0	50	16	8	24	52	1.70
4424402--4424451	18	2.8	18	82	11	66	52	20	0	28	1.47
4424402--4424453	27	1.9	27	84	0	68	51	19	0	28	1.47
4424440--4424996	60	8.7	60	72	19	323	46	19	1	32	1.58
4424378--4424930	134	4.2	134	96	2	980	47	19	1	32	1.58
4424695--4425375	56	12.1	55	73	16	485	44	19	1	34	1.61
4424561--4425040	190	2.5	188	75	14	502	46	19	1	32	1.59
4424561--4425421	9	94.7	9	66	20	230	44	19	1	34	1.61
4425169--4425376	100	2.1	98	87	5	305	42	19	1	35	1.63
4425253--4425389	58	2.4	58	84	7	174	43	20	2	33	1.64
4428659--4428807	27	5.4	27	91	2	226	30	28	14	26	1.95
4428659--4428807	55	2.7	54	90	2	226	30	28	14	26	1.95
4434355--4434397	21	2.0	21	86	0	59	32	18	44	4	1.71
4434281--4434461	87	2.1	87	86	0	245	42	18	27	12	1.85
4434757--4435088	43	7.8	41	89	1	189	28	17	29	24	1.97
4434806--4435134	43	7.7	43	92	0	532	26	17	31	24	1.97
4435708--4435750	18	2.4	18	84	0	59	23	0	6	69	1.12
4436790--4436827	18	2.1	18	95	0	67	47	10	5	36	1.61
4441984--4442036	13	4.2	13	81	13	58	16	1	1	79	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4443390--4443432	20	2.2	20	91	0	68	27	11	30	30	1.92
4443736--4443785	18	3.0	17	77	16	52	14	2	8	76	1.10
4449359--4449429	25	2.9	24	81	8	72	56	0	2	40	1.14
4450585--4450642	25	2.3	24	80	13	64	53	0	12	34	1.38
4452521--4452551	11	2.8	11	95	0	53	19	48	3	29	1.64
4454093--4454123	13	2.4	13	94	0	53	67	0	6	25	1.14
4454114--4454151	18	2.1	19	90	9	62	42	0	5	52	1.24
4454244--4454278	17	2.1	17	88	0	52	45	0	2	51	1.16
4456716--4456788	25	2.8	26	80	12	87	32	16	21	28	1.95
4458872--4458913	21	2.0	21	100	0	84	47	28	4	19	1.69
4460952--4460992	18	2.3	18	87	8	57	70	2	4	21	1.18
4464380--4464430	21	2.4	21	81	12	61	68	3	15	11	1.34
4477029--4477102	25	3.0	26	71	25	70	64	2	6	25	1.31
4477706--4477761	20	2.8	20	86	5	69	53	12	26	7	1.64
4477725--4477770	20	2.3	20	85	7	58	50	17	26	6	1.70
4483847--4483968	23	5.3	23	80	0	145	22	18	24	34	1.96
4483847--4483961	46	2.5	46	89	0	167	22	18	24	34	1.96
4485274--4485442	85	2.0	85	98	0	329	34	8	17	40	1.79
4490300--4490353	20	2.7	20	80	5	65	35	14	27	22	1.93
4491603--4491650	25	1.9	25	100	0	96	29	4	16	50	1.64
4492552--4492673	63	2.0	62	82	11	151	52	17	6	23	1.68
4500743--4500770	14	2.0	14	100	0	56	42	0	0	57	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4501211--4501249	7	5.4	7	93	6	69	12	0	0	87	0.55
4501206--4501249	14	2.9	15	90	10	72	15	0	0	84	0.63
4501208--4501250	13	3.2	12	87	12	50	16	0	0	83	0.64
4501568--4501608	4	9.8	4	89	10	64	29	0	0	70	0.87
4501567--4501608	21	2.0	22	95	4	77	30	0	0	69	0.89
4501568--4501608	13	3.2	13	96	3	75	29	0	0	70	0.87
4505770--4505816	3	15.3	3	84	4	58	34	4	2	59	1.29
4510109--4510154	18	2.8	17	78	15	53	30	41	28	0	1.56
4510655--4510684	15	2.1	14	93	6	51	43	6	10	40	1.64
4511343--4511395	24	2.2	24	86	0	70	26	0	15	58	1.37

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