genome.fa.s6.2.7.7.80.10.50.1000.90.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  90  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)
25469024--25469101	38	2.0	39	85	7	106	53	0	0	46	1.00
25469041--25469101	20	3.1	20	79	13	56	55	0	0	44	0.99
25469029--25469114	9	9.4	9	74	20	63	60	0	0	39	0.97
25469027--25469115	18	4.8	19	76	14	71	59	0	0	40	0.97
25469029--25469119	47	2.0	46	80	10	105	61	0	0	38	0.96
25472323--25472353	2	15.5	2	100	0	62	51	0	0	48	1.00
25472448--25472512	25	2.5	26	74	18	73	61	1	0	36	1.05
25473313--25473337	4	6.2	4	100	0	50	24	0	0	76	0.80
25488008--25488066	26	2.3	25	85	8	82	40	0	1	57	1.09
25488021--25488076	15	4.0	15	73	17	57	44	0	0	55	0.99
25488047--25488115	22	3.3	22	69	22	67	43	2	0	53	1.15
25487929--25488116	41	4.7	40	68	22	126	42	2	3	52	1.29
25487993--25488133	17	8.6	17	67	22	61	45	1	0	52	1.14
25488361--25488396	16	2.2	16	100	0	72	38	36	0	25	1.56
25497026--25497061	19	1.9	19	88	5	56	52	2	0	44	1.15
25497180--25497243	25	2.7	25	81	11	64	51	1	0	46	1.10
25497343--25497397	20	2.7	20	78	10	58	54	1	0	43	1.10
25504568--25504839	87	3.0	87	77	12	268	38	19	10	31	1.85
25505190--25505237	19	2.7	17	78	18	53	25	6	2	66	1.26
25505225--25505328	29	3.6	28	79	14	113	31	4	1	61	1.28
25505246--25505335	28	3.1	29	80	9	112	33	3	1	62	1.19
25505255--25505392	67	2.0	67	82	12	167	32	3	2	61	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25505246--25505363	58	2.1	58	80	7	134	33	3	1	61	1.23
25505324--25505392	27	2.4	29	83	7	88	33	2	2	60	1.26
25505414--25505441	12	2.3	12	100	0	56	25	32	17	25	1.97
25505492--25505542	20	2.5	20	90	0	75	37	13	17	31	1.89
25508251--25508715	153	3.0	153	81	5	494	23	18	24	34	1.96
25508584--25508779	107	1.8	106	85	5	279	28	16	23	31	1.96
25508238--25508897	50	12.9	50	76	6	507	23	18	23	34	1.96
25508853--25508967	50	2.2	52	83	7	137	26	14	26	32	1.95
25509918--25509985	31	2.2	31	82	12	86	63	2	7	26	1.35
25514228--25514466	48	5.0	48	78	5	241	21	23	20	34	1.97
25514228--25514466	96	2.5	96	84	4	295	21	23	20	34	1.97
25514452--25514487	18	2.0	18	88	0	54	2	13	2	80	0.93
25514493--25514615	50	2.5	50	84	5	149	29	26	19	24	1.98
25514492--25514738	49	4.9	50	74	12	150	25	22	20	32	1.98
25515500--25515589	21	4.4	21	91	2	139	40	11	12	36	1.78
25515720--25515752	14	2.4	14	85	14	50	87	0	9	3	0.63
25515720--25515824	52	2.0	52	92	3	174	64	3	20	11	1.41
25515772--25515804	13	2.5	13	81	18	50	84	0	9	6	0.76
25516096--25516132	3	12.3	3	88	11	58	35	0	0	64	0.94
25517567--25517996	108	3.9	108	86	4	578	34	19	17	28	1.94
25518257--25518295	2	19.5	2	84	10	53	51	0	5	43	1.24
25518326--25518368	12	3.7	11	84	9	50	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25518589--25518641	5	10.6	5	80	8	54	73	3	3	18	1.14
25518815--25518908	3	31.3	3	72	16	61	62	0	7	29	1.22
25524271--25524651	190	2.0	190	88	1	566	30	13	21	35	1.91
25527117--25527152	18	1.9	19	88	5	56	25	0	19	55	1.43
25528793--25528857	30	2.1	30	88	2	94	41	15	12	30	1.84
25532349--25532383	16	2.1	17	89	5	54	42	0	2	54	1.15
25533417--25533496	29	2.6	31	74	16	87	20	13	15	51	1.76
25534115--25534157	18	2.4	18	88	0	59	39	25	9	25	1.85
25534486--25534564	40	2.0	40	85	5	106	17	25	34	22	1.96
25534694--25534759	11	5.9	11	81	1	69	24	25	3	46	1.66
25535939--25536396	229	2.0	229	100	0	916	30	17	21	30	1.96
25536833--25536875	18	2.4	19	84	7	54	20	30	9	39	1.84
25537366--25537393	12	2.3	12	100	0	56	42	0	0	57	0.99
25537357--25537567	114	1.8	116	89	4	338	46	19	1	32	1.59
25537536--25537608	22	3.4	22	85	9	105	45	30	0	24	1.54
25537548--25537609	21	2.9	21	90	4	97	46	27	0	25	1.53
25538582--25539006	125	3.5	125	92	5	704	29	22	18	29	1.97
25540661--25540695	11	3.2	11	100	0	70	65	8	0	25	1.21
25541297--25541323	6	4.5	6	100	0	54	70	0	14	14	1.17
25544595--25544671	12	6.2	12	77	18	70	72	0	3	23	1.01
25544603--25544670	4	16.5	4	80	19	70	73	0	2	23	0.97
25545535--25545777	121	2.0	121	93	0	414	22	27	13	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25550120--25550144	12	2.1	12	100	0	50	36	8	0	56	1.29
25550119--25550165	15	3.1	15	76	11	51	27	6	2	63	1.30
25554384--25554484	6	17.0	6	90	6	152	80	1	1	15	0.90
25555974--25556025	26	2.1	23	86	10	68	63	5	9	21	1.45
25555990--25556039	26	1.9	26	83	0	64	62	2	14	22	1.42
25556110--25556154	18	2.4	18	85	7	54	80	2	11	6	0.99
25565092--25565201	51	2.1	51	98	1	211	25	8	30	35	1.85
25565563--25565624	30	2.1	30	82	11	74	33	14	6	45	1.71
25577989--25578031	11	4.0	11	84	6	61	20	46	4	27	1.71
25577989--25578030	21	2.0	22	90	4	68	21	47	2	28	1.63
25579184--25579217	15	2.3	15	89	0	50	70	11	11	5	1.32
25584574--25584616	11	4.0	11	84	3	61	30	2	46	20	1.63
25584574--25584616	21	2.0	21	90	4	68	30	2	46	20	1.63
25587341--25587451	18	6.2	18	92	0	186	30	15	25	28	1.96
25587341--25587451	36	3.1	36	98	0	213	30	15	25	28	1.96
25587984--25588026	11	4.0	11	84	3	61	30	2	46	20	1.63
25587984--25588026	21	2.0	21	90	4	68	30	2	46	20	1.63
25590464--25590521	24	2.4	24	91	2	89	18	27	3	50	1.63
25590676--25590886	36	5.5	39	68	10	141	34	23	19	22	1.96
25590656--25590923	76	3.6	76	84	3	344	33	23	19	23	1.97
25597888--25597986	41	2.4	41	88	1	137	40	11	23	25	1.87
25605619--25605809	41	4.6	41	95	0	337	28	19	27	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25614126--25614166	18	2.4	17	87	4	55	19	9	17	53	1.70
25615904--25615936	16	2.1	16	100	0	66	24	18	30	27	1.98
25631031--25631066	4	8.8	4	87	6	54	75	2	22	0	0.94
25631031--25631067	13	2.9	13	92	4	58	75	2	21	0	0.92
25634092--25634144	3	17.7	3	100	0	106	33	0	0	66	0.92
25636706--25637804	100	11.1	100	82	4	1069	32	21	20	25	1.98
25636706--25637804	99	11.1	100	82	4	1003	32	21	20	25	1.98
25636769--25637804	50	20.9	50	68	5	470	31	21	20	26	1.98
25637881--25638486	84	7.2	84	99	0	1203	34	24	19	21	1.97
25638301--25640107	128	14.1	128	89	2	2483	32	21	20	25	1.98
25637824--25640065	44	52.7	43	65	16	573	32	22	19	24	1.97
25641540--25641598	3	20.0	3	83	10	77	32	3	0	64	1.10
25641554--25641605	12	4.3	12	87	0	59	30	5	1	61	1.30
25641757--25641795	18	2.2	18	86	9	53	41	10	0	48	1.37
25643045--25643407	179	2.0	180	95	0	647	46	15	8	28	1.76
25646209--25646296	44	2.0	44	97	0	167	25	21	11	42	1.86
25653859--25653896	20	1.9	20	94	0	67	7	13	2	76	1.11
25664193--25664225	16	2.0	17	88	5	50	69	9	3	18	1.28
25664328--25664404	33	2.3	32	78	12	84	41	5	6	46	1.52
25667475--25667697	52	4.2	52	95	1	383	35	14	23	26	1.94
25667660--25667769	37	3.0	37	87	7	163	35	15	22	26	1.94
25669657--25670220	114	5.0	114	80	6	623	25	20	25	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25670465--25670497	14	2.3	15	94	5	59	33	0	30	36	1.58
25670520--25670576	14	4.3	13	76	12	62	22	0	42	35	1.54
25670524--25670565	21	2.0	21	86	9	59	19	0	47	33	1.49
25670670--25670708	14	2.9	14	84	3	53	20	0	51	28	1.48
25670676--25670708	7	4.9	7	88	3	50	18	0	54	27	1.44
25670627--25671174	196	2.8	196	92	4	970	29	0	28	41	1.56
25670627--25671174	94	5.7	95	92	5	870	29	0	28	41	1.56
25670627--25671174	290	1.9	285	92	6	922	29	0	28	41	1.56
25671061--25671093	7	4.9	7	88	3	50	18	0	54	27	1.44
25671300--25671380	7	11.6	7	77	0	63	28	2	20	48	1.63

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