genome.fa.s6.2.7.7.80.10.50.1000.134.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  134  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)
40272044--40272207	87	1.9	87	86	2	233	32	23	17	27	1.96
40277158--40277247	44	2.1	43	87	6	128	28	11	7	52	1.65
40281739--40281788	24	2.1	24	100	0	100	46	4	22	28	1.70
40287064--40287171	42	2.5	42	80	4	119	31	22	13	32	1.93
40293499--40293534	17	2.1	17	100	0	72	11	11	11	66	1.45
40293936--40293999	33	1.9	34	87	6	96	43	17	4	34	1.69
40294864--40294955	23	4.1	21	86	8	80	18	6	21	53	1.67
40294895--40294970	23	3.3	23	96	0	143	21	7	26	44	1.79
40301168--40301376	92	2.3	91	87	5	287	45	3	3	46	1.37
40301304--40301351	26	1.9	25	84	16	64	45	0	2	52	1.12
40301403--40301591	59	3.2	57	68	20	145	41	3	4	51	1.37
40301430--40301637	66	3.3	63	67	20	184	41	2	6	49	1.43
40301392--40301684	120	2.4	120	95	2	518	42	2	4	50	1.36
40301517--40301568	15	3.6	15	80	12	56	44	0	1	53	1.11
40301465--40301652	61	3.1	61	69	17	201	43	1	6	48	1.38
40301646--40301687	15	2.7	16	82	14	52	45	0	2	52	1.13
40301637--40301678	15	2.9	15	82	10	52	47	0	0	52	1.00
40301637--40301873	75	3.1	75	64	15	180	45	3	3	47	1.36
40301621--40301931	151	2.0	154	92	3	520	46	5	3	44	1.41
40301784--40301818	18	2.0	17	88	5	52	45	0	0	54	0.99
40301983--40302074	45	2.1	44	83	2	112	35	28	5	30	1.80
40302054--40302089	16	2.2	16	95	0	63	38	33	0	27	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40304138--40304199	18	3.4	18	82	12	83	27	19	3	50	1.63
40310952--40311066	60	1.9	60	96	0	212	35	17	8	38	1.81
40314410--40314611	101	2.0	101	85	0	269	27	13	21	36	1.92
40315303--40315520	42	5.2	43	75	11	186	29	24	18	27	1.98
40315303--40315476	85	2.0	85	83	4	217	29	24	18	26	1.98
40319634--40319677	21	2.1	21	91	0	70	20	29	20	29	1.98
40322891--40323260	185	2.0	185	98	0	713	37	16	15	31	1.90
40326905--40326974	26	2.8	25	86	6	88	34	40	4	21	1.73
40326859--40327051	108	1.8	103	88	5	296	43	28	1	26	1.64
40327012--40327051	22	1.9	20	85	10	53	40	37	0	22	1.54
40327142--40327174	14	2.3	15	94	5	59	36	33	0	30	1.58
40327787--40327974	41	4.5	41	82	7	227	30	25	23	20	1.98
40327787--40327974	84	2.3	83	82	9	240	30	25	23	20	1.98
40328042--40328175	40	3.4	39	79	10	130	25	23	18	32	1.97
40333237--40333337	30	3.4	29	83	2	105	28	24	23	22	1.99
40333262--40333346	28	3.0	28	85	3	98	31	21	22	24	1.98
40333462--40333528	26	2.6	26	92	0	116	37	22	22	17	1.94
40333742--40333801	27	2.2	27	82	5	68	21	16	21	40	1.92
40333750--40333996	27	9.4	27	78	10	208	23	13	17	44	1.84
40333755--40333996	81	3.1	81	83	5	248	24	13	16	45	1.84
40333934--40333974	21	2.0	21	95	0	73	24	17	12	46	1.82
40337578--40337874	50	5.8	50	82	7	307	22	28	21	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40346331--40346360	13	2.3	13	100	0	60	20	6	13	60	1.55
40347237--40347486	82	3.1	81	63	24	186	45	3	4	46	1.39
40347240--40347549	157	2.0	157	94	0	539	47	5	3	43	1.43
40347679--40347746	16	4.2	16	92	0	109	38	32	0	29	1.58
40350814--40350870	26	2.2	25	79	14	62	56	7	3	33	1.43
40357297--40357330	12	2.9	12	95	4	61	35	0	0	64	0.94
40357435--40357493	30	2.0	30	87	12	86	57	6	5	30	1.46
40363347--40363559	114	1.9	113	86	6	306	23	23	25	26	2.00
40363459--40363630	73	2.3	73	85	3	220	25	23	24	26	2.00
40363347--40363747	188	2.1	186	87	3	565	24	22	26	26	2.00
40363532--40364022	115	4.3	115	87	2	684	26	20	26	26	1.99
40363532--40364016	229	2.1	229	86	2	670	25	21	26	27	1.99
40364111--40364137	14	1.9	14	100	0	54	25	0	37	37	1.57
40364804--40365142	125	2.7	125	97	1	628	40	17	17	24	1.90
40365162--40365198	19	2.0	19	89	5	58	72	0	0	27	0.84
40365132--40365343	104	2.0	104	83	6	270	50	12	11	25	1.73
40365054--40365565	255	2.0	252	89	4	771	46	12	13	27	1.79
40366059--40366106	22	2.2	22	100	0	96	20	16	16	45	1.85
40367417--40367499	42	2.0	42	83	9	107	43	3	0	53	1.18
40367471--40367516	20	2.4	19	85	3	56	47	2	0	50	1.13
40367488--40367550	20	3.2	20	81	4	65	44	11	0	44	1.39
40367514--40367816	9	34.9	9	68	16	149	45	18	2	33	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40367501--40367561	20	3.1	20	83	6	72	49	14	0	36	1.44
40367522--40367803	25	11.6	25	71	12	124	46	18	2	32	1.63
40367543--40367813	50	5.4	50	74	15	211	45	19	2	32	1.65
40367576--40367640	34	1.9	34	90	0	103	50	18	0	30	1.47
40367690--40367763	16	4.5	16	70	18	62	44	22	2	29	1.67
40371147--40371244	50	2.0	49	86	6	135	22	20	30	26	1.98
40374813--40374930	57	2.1	57	91	3	193	26	28	12	32	1.93
40379069--40379095	13	2.1	13	100	0	54	29	14	7	48	1.71
40381336--40381377	21	2.0	20	86	4	57	14	7	26	52	1.67
40381674--40381717	22	2.0	22	81	4	52	4	27	2	65	1.23
40392171--40392256	29	3.0	29	76	14	81	41	0	3	54	1.17
40392215--40392262	14	3.1	17	72	22	52	37	0	4	58	1.18
40392207--40392262	29	1.9	29	89	7	87	39	0	3	57	1.16
40398688--40398742	23	2.4	23	77	14	60	58	5	1	34	1.32
40404200--40404315	45	2.6	45	81	0	133	25	16	25	32	1.96
40406620--40406672	23	2.3	23	93	0	88	45	3	9	41	1.54
40406628--40406674	23	2.0	23	100	0	94	44	4	8	42	1.54
40407493--40407523	14	2.2	14	100	0	62	32	12	0	54	1.38
40407846--40407880	18	1.9	18	94	0	61	37	17	37	8	1.80
40407999--40408076	40	2.0	40	86	0	111	14	32	19	34	1.91
40408432--40408491	14	4.4	14	78	4	59	46	35	0	18	1.49
40408440--40408491	7	7.6	7	76	4	52	46	36	0	17	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40408441--40408491	20	2.5	20	80	3	57	47	37	0	15	1.46
40408654--40408700	21	2.2	21	88	0	67	48	36	0	14	1.44
40408662--40408705	14	3.1	14	80	0	52	50	31	0	18	1.47
40408730--40408786	21	2.7	21	78	8	62	47	26	1	24	1.62
40408818--40409040	116	1.9	115	83	1	286	29	22	15	32	1.95
40409124--40409233	40	2.8	40	77	10	116	26	24	20	28	1.99
40408879--40409387	151	3.3	154	82	5	584	28	23	16	31	1.96
40409291--40409389	40	2.5	40	83	0	144	30	23	18	28	1.97
40409693--40409739	24	2.0	24	86	0	67	46	23	0	29	1.52
40413750--40413797	22	2.3	21	85	7	62	27	4	8	60	1.44
40422956--40422998	18	2.3	18	88	4	59	55	0	2	41	1.12
40427325--40427381	26	2.2	26	90	0	87	21	12	29	36	1.90
40430352--40430381	14	2.2	14	94	5	53	33	0	16	50	1.46
40436409--40436437	12	2.4	12	100	0	58	6	24	41	27	1.80
40446229--40446307	27	2.9	27	76	10	81	27	25	17	29	1.98
40447093--40447141	12	4.0	12	78	5	53	75	0	24	0	0.80
40449122--40449152	9	3.3	9	95	4	53	41	0	0	58	0.98
40454557--40454755	27	7.3	27	81	3	193	22	16	20	41	1.90
40454555--40454755	54	3.7	54	79	1	222	22	15	19	41	1.90
40454566--40454768	82	2.5	81	81	5	221	21	16	18	42	1.89
40459606--40459805	43	4.7	42	84	5	226	26	29	20	23	1.99
40459606--40459805	85	2.3	86	84	6	248	26	29	20	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40461667--40461698	8	4.2	8	84	15	50	37	34	0	28	1.57
40461647--40461713	22	3.2	22	77	6	59	32	37	2	26	1.72
40461702--40461751	21	2.4	21	86	0	64	34	38	0	28	1.57
40461669--40461783	14	8.1	15	74	17	57	35	34	0	28	1.64
40461958--40462036	7	11.1	7	71	12	54	45	34	0	20	1.51
40461959--40462036	36	2.2	36	82	11	90	46	33	0	20	1.51
40461958--40462084	15	8.9	14	71	14	71	44	33	0	21	1.52
40462322--40462689	41	9.0	41	91	1	569	30	27	20	21	1.98
40463694--40463729	18	1.9	18	88	5	54	58	2	0	38	1.13
40463715--40463763	14	3.4	15	75	18	59	59	0	0	40	0.98

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