genome.fa.s6.2.7.7.80.10.50.1000.40.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  40  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)
12051846--12051885	20	2.0	20	100	0	80	35	10	30	25	1.88
12054908--12055007	32	3.2	30	77	17	73	64	6	0	30	1.18
12054964--12055050	41	2.2	40	81	12	106	62	4	1	32	1.23
12055144--12055189	17	2.8	16	84	12	51	69	2	2	26	1.11
12061647--12061688	7	6.1	7	91	2	59	23	0	0	76	0.79
12061705--12061730	7	3.7	7	100	0	52	11	0	0	88	0.52
12062118--12062183	18	3.6	18	77	10	62	62	3	3	31	1.26
12070210--12070266	29	2.0	29	85	0	78	33	28	12	26	1.92
12071411--12071459	21	2.3	22	75	13	57	38	4	6	51	1.46
12074515--12074544	8	3.8	8	95	0	51	23	0	0	76	0.78
12078824--12078960	60	2.3	60	88	0	202	27	32	15	24	1.95
12083317--12083542	120	1.9	121	93	0	391	49	5	2	42	1.39
12083459--12083493	18	2.0	17	88	5	52	54	0	0	45	0.99
12085946--12086011	33	2.0	33	96	0	123	34	6	16	42	1.73
12086226--12086312	37	2.4	37	94	0	147	35	8	14	41	1.76
12087487--12087549	23	2.7	23	83	16	94	53	20	7	17	1.68
12087463--12087752	107	2.7	107	90	0	472	44	22	7	25	1.78
12088398--12088424	5	5.4	5	100	0	54	40	18	0	40	1.51
12090288--12090317	12	2.4	13	88	11	53	33	0	0	66	0.92
12092233--12092458	59	3.8	59	88	1	337	34	5	7	51	1.55
12095476--12095793	156	2.0	155	84	1	422	31	22	12	34	1.91
12095847--12095919	30	2.4	30	76	0	83	28	20	5	45	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12103847--12103905	17	3.5	17	72	22	54	0	16	6	76	1.00
12115977--12116053	40	1.9	40	94	0	136	25	20	16	36	1.94
12126523--12126578	7	8.0	7	77	15	62	57	1	10	30	1.43
12128408--12128434	13	2.1	13	100	0	54	48	22	7	22	1.75
12129326--12129360	16	2.2	16	90	10	54	17	5	2	74	1.14
12132275--12132350	20	3.8	20	89	0	116	21	27	0	51	1.48
12133134--12133407	138	2.0	139	84	3	356	33	23	20	22	1.97
12142191--12142299	41	2.7	41	91	2	175	22	30	19	27	1.98
12142191--12142336	41	3.6	40	82	10	165	23	29	19	27	1.98
12165060--12165089	15	1.9	16	93	6	53	50	0	40	10	1.36
12175683--12175818	70	1.9	70	96	0	254	18	13	9	58	1.62
12186755--12186837	29	2.9	29	88	0	130	27	10	26	34	1.90
12193611--12193662	28	1.9	26	88	7	77	48	0	5	46	1.26
12194504--12194655	41	3.7	41	84	3	182	21	19	25	34	1.96
12195248--12195470	112	2.0	112	99	0	437	28	8	18	45	1.78
12195678--12195780	23	4.5	24	68	12	63	27	7	19	45	1.77
12195572--12195975	69	5.9	69	89	3	593	24	9	20	45	1.81
12195726--12195976	24	10.8	24	70	9	137	23	9	20	46	1.79
12195932--12196004	23	3.0	23	83	13	85	31	12	19	36	1.88
12200248--12200299	25	2.1	25	96	0	95	30	19	19	30	1.96
12210565--12210599	14	2.6	14	95	4	63	37	0	0	62	0.95
12217830--12217975	37	4.0	37	93	1	242	24	21	16	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12217939--12218207	46	5.6	46	84	10	340	28	22	14	34	1.93
12217982--12218201	52	4.3	52	85	8	299	27	22	14	35	1.93
12217939--12218207	98	2.7	98	93	0	457	28	22	14	34	1.93
12221525--12221574	26	2.0	24	84	7	64	44	0	0	56	0.99
12221532--12221570	16	2.4	16	86	0	51	43	0	0	56	0.99
12223764--12223879	29	4.0	29	76	10	112	13	23	21	41	1.89
12225601--12225686	43	2.0	43	95	0	154	48	2	25	23	1.62
12229595--12229629	18	2.0	17	88	5	52	77	2	5	14	1.07
12233873--12233911	19	2.0	20	85	5	53	43	2	0	53	1.14
12233878--12233929	9	5.6	9	80	8	50	38	1	1	57	1.21
12234548--12234635	26	3.4	26	78	6	106	48	3	1	46	1.26
12234548--12234658	52	2.2	52	80	4	138	52	2	0	44	1.21
12234895--12234919	10	2.5	10	100	0	50	0	36	0	64	0.94
12237427--12237456	13	2.3	13	94	0	51	56	6	6	30	1.51
12251727--12252018	100	3.0	96	83	8	387	28	21	25	24	1.99
12251721--12251985	50	5.4	50	68	9	206	27	21	27	23	1.99
12252709--12252751	22	2.0	22	86	9	61	2	18	6	72	1.19
12254709--12254753	22	2.0	22	82	0	54	57	2	2	37	1.23
12255104--12255134	16	1.9	16	100	0	62	25	6	0	67	1.14
12257839--12257871	12	2.7	13	86	13	52	27	24	42	6	1.78
12270763--12270792	14	2.1	14	100	0	60	20	13	0	66	1.24
12274830--12275102	9	29.8	9	77	5	269	32	2	16	47	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12274822--12275076	100	2.5	99	89	3	377	31	1	16	49	1.57
12275166--12275216	21	2.4	21	93	0	84	39	9	15	35	1.81
12275071--12275311	116	2.1	116	96	1	448	38	5	12	42	1.67
12275435--12275473	16	2.5	15	84	8	51	51	5	0	43	1.24
12275435--12275473	15	2.6	16	88	8	55	51	5	0	43	1.24
12275482--12275514	17	1.9	17	93	0	57	51	6	3	39	1.42
12278019--12278059	17	2.3	18	87	4	57	34	4	7	53	1.50
12279896--12279950	21	2.7	20	77	5	56	38	36	3	21	1.71
12280298--12280710	133	3.1	132	81	7	467	29	21	15	33	1.94
12280298--12280760	133	3.5	134	74	12	407	30	21	16	31	1.95
12286900--12286977	38	2.1	38	95	0	138	35	28	16	19	1.93
12288967--12289089	60	2.0	60	96	0	228	32	14	21	30	1.94
12303848--12303909	6	10.3	6	100	0	124	0	16	0	83	0.64
12304665--12304695	13	2.4	13	100	0	62	45	12	19	22	1.84
12305049--12305074	4	6.5	4	100	0	52	53	0	0	46	1.00
12305645--12305694	19	2.7	20	81	12	61	58	6	0	36	1.23
12310272--12310312	20	2.0	21	86	13	59	51	0	2	46	1.14
12311263--12311302	13	2.9	14	86	13	57	45	2	0	52	1.14
12311263--12311297	14	2.5	14	90	9	54	40	2	0	57	1.14
12311455--12311510	27	2.2	25	80	6	58	50	1	1	46	1.22
12315851--12315910	30	2.0	30	96	0	111	56	15	3	25	1.54
12319371--12319404	16	2.1	17	88	5	52	35	8	0	55	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12321622--12321815	51	3.8	51	78	4	198	23	18	28	29	1.97
12321817--12321903	45	1.9	45	92	0	147	26	16	22	34	1.95
12328015--12328053	20	2.0	19	85	14	53	48	0	0	51	1.00
12334271--12334311	17	2.4	17	87	4	55	17	0	2	80	0.82
12334287--12334320	17	2.0	17	88	0	50	26	0	2	70	1.01
12336391--12336442	21	2.5	21	80	0	59	28	1	32	36	1.69
12341786--12341843	19	2.8	19	76	16	62	36	6	15	41	1.74
12354962--12354999	20	1.9	20	89	10	60	47	15	26	10	1.78
12362638--12363434	411	1.9	411	97	0	1522	39	27	12	20	1.88
12371113--12371168	29	1.9	29	85	7	78	25	16	19	39	1.91
12372422--12372507	29	2.9	30	78	14	106	31	15	5	47	1.68
12372422--12372502	30	2.7	29	81	12	94	32	14	6	46	1.69
12372415--12372526	29	3.8	29	75	6	100	32	17	5	44	1.72
12372766--12372803	14	2.7	14	87	0	58	76	0	23	0	0.79
12372780--12372830	7	7.1	7	80	10	59	80	0	19	0	0.71
12372968--12373014	14	3.8	13	78	18	55	27	0	0	72	0.85
12372976--12373024	16	2.9	16	84	9	53	26	0	0	73	0.83
12373441--12373502	17	3.2	19	75	15	56	43	11	4	40	1.62
12373441--12373483	21	2.0	22	90	4	70	44	11	6	37	1.68
12373437--12373541	40	2.7	38	82	8	140	40	12	5	40	1.66
12373437--12373541	39	2.7	39	84	7	142	40	12	5	40	1.66
12373503--12373594	35	2.7	35	80	8	98	34	13	13	39	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12373503--12373579	18	4.4	18	73	12	72	33	11	11	42	1.78
12373530--12373611	35	2.3	35	85	4	103	31	9	15	42	1.80
12373639--12373750	17	6.4	17	79	5	89	33	8	13	45	1.73
12373630--12373751	18	6.9	17	75	10	68	31	9	14	45	1.76
12381111--12381146	15	2.5	15	95	4	65	88	11	0	0	0.50
12381114--12381155	9	4.7	9	85	8	50	88	9	2	0	0.61
12382007--12382312	75	4.0	76	85	4	400	25	16	22	36	1.94
12382004--12382307	157	2.0	155	86	5	436	25	16	21	36	1.94
12382004--12382312	77	4.0	77	85	4	417	25	15	22	36	1.94
12382283--12382336	24	2.2	24	93	0	90	18	24	37	20	1.94

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