genome.fa.s5.2.7.7.80.10.50.1000.38.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: Chr4
Parameters: 2 7 7 80 10 50 1000
Length:  30015117

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   

This is table  38  of  85  ( 10117 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)
12733985--12734028	23	1.9	22	82	17	54	36	25	0	38	1.56
12734073--12734159	45	1.9	45	90	0	138	34	24	18	22	1.96
12737446--12737483	19	2.0	19	85	10	51	21	42	0	36	1.53
12746912--12746949	13	3.0	13	85	14	53	5	15	0	78	0.91
12752419--12752609	43	4.4	43	85	0	247	34	26	14	25	1.94
12752727--12752811	31	2.7	30	78	7	89	41	18	10	29	1.84
12752727--12752822	30	3.1	31	71	13	79	43	18	9	28	1.81
12754270--12754333	31	2.1	31	96	0	119	39	25	6	29	1.80
12758313--12758516	107	1.9	107	92	0	345	50	8	7	34	1.61
12760896--12760920	12	2.1	12	100	0	50	36	0	32	32	1.58
12769009--12769050	20	2.2	19	87	12	59	16	21	4	57	1.58
12774620--12774652	15	2.2	15	94	0	57	36	6	21	36	1.78
12774734--12774795	18	3.2	18	73	15	52	62	6	3	27	1.35
12780327--12780351	7	3.6	7	100	0	50	12	0	0	88	0.53
12785857--12785963	53	2.0	53	94	0	187	24	15	9	50	1.74
12787883--12787933	20	2.6	19	84	9	66	45	15	11	27	1.81
12790142--12790180	20	2.0	20	100	0	78	56	2	0	41	1.13
12796134--12796209	20	3.9	19	81	5	82	44	13	9	32	1.75
12796131--12796208	40	2.0	40	87	7	115	46	12	8	32	1.73
12797064--12797098	17	2.0	18	88	5	54	8	14	11	65	1.46
12804080--12804129	23	2.2	23	92	0	82	44	26	2	28	1.65
12815756--12815794	12	3.2	13	89	10	64	23	0	12	64	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12816982--12817082	43	2.3	44	81	5	125	33	15	26	23	1.95
12820422--12820525	52	2.0	52	90	3	165	27	20	16	35	1.94
12822027--12822166	22	6.3	22	75	5	84	43	22	10	23	1.84
12821999--12822145	69	2.1	69	87	0	204	46	19	10	23	1.81
12822205--12822242	11	3.5	11	85	0	58	50	26	5	18	1.68
12822192--12822242	22	2.3	22	93	0	84	47	25	7	19	1.76
12829782--12830084	22	13.4	22	73	10	216	44	21	11	23	1.84
12829759--12829926	91	1.8	91	87	0	246	45	20	10	23	1.81
12829803--12830053	69	3.6	69	90	0	367	45	21	10	22	1.83
12830713--12830798	42	2.0	43	82	6	104	32	23	17	26	1.96
12836352--12836426	30	2.5	30	82	0	96	21	24	10	44	1.84
12836437--12836517	30	2.7	29	79	9	92	24	30	13	30	1.94
12838807--12838863	28	2.0	28	96	0	105	15	14	22	47	1.82
12844726--12845053	162	2.0	162	87	1	469	36	17	22	23	1.94
12852069--12852113	16	2.7	17	86	6	65	17	0	11	71	1.14
12853076--12853299	112	2.0	112	97	0	421	33	20	16	29	1.95
12853451--12853555	28	3.8	28	77	7	99	27	27	18	26	1.98
12853848--12853883	18	1.9	19	88	5	56	41	47	0	11	1.39
12853962--12854028	9	7.4	9	81	0	71	29	7	19	43	1.78
12864289--12864387	40	2.4	43	77	9	109	34	5	3	57	1.36
12867408--12867497	30	2.9	30	81	8	83	60	2	2	35	1.22
12867429--12867488	11	5.6	11	74	25	58	58	0	1	40	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12867421--12867501	30	2.6	31	82	9	103	58	1	1	39	1.14
12867927--12868057	71	1.9	69	88	4	201	30	8	11	49	1.68
12871676--12872590	299	3.1	293	78	9	895	34	13	10	40	1.79
12875013--12875041	3	9.7	3	100	0	58	31	0	0	68	0.89
12886284--12886339	14	4.0	14	79	6	60	32	1	1	64	1.14
12899663--12900152	44	11.1	44	77	7	406	27	21	19	32	1.97
12899541--12900152	88	6.9	88	77	6	493	27	21	19	31	1.97
12899541--12900154	222	2.7	220	83	8	726	27	21	19	31	1.97
12900790--12900840	26	2.0	26	92	0	84	13	27	9	49	1.74
12908673--12908713	20	2.1	20	86	13	59	48	9	17	24	1.76
12913778--12913815	18	2.1	18	85	9	51	44	26	2	26	1.67
12915043--12915093	25	2.0	25	92	0	84	33	23	7	35	1.84
12932042--12932093	25	2.0	26	88	3	79	53	7	0	38	1.30
12932102--12932345	122	2.0	122	86	1	337	34	20	8	36	1.82
12932360--12932414	16	3.4	16	75	5	58	34	21	5	38	1.77
12937085--12937114	2	15.0	2	100	0	60	50	0	0	50	1.00
12937200--12937240	2	21.0	2	95	5	75	51	0	0	48	1.00
12938313--12938351	20	2.0	20	90	10	62	35	2	5	56	1.35
12938394--12938439	10	4.3	11	76	15	51	34	0	2	63	1.07
12938638--12938681	21	2.1	21	87	8	63	25	0	0	75	0.81
12939050--12939124	32	2.3	32	93	2	123	26	0	12	61	1.31
12939187--12939450	100	2.6	101	85	1	341	28	1	13	56	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12939125--12939474	100	3.4	110	77	13	318	26	2	14	57	1.48
12954922--12954946	13	1.9	13	100	0	50	36	16	0	48	1.46
12956032--12956132	23	4.4	23	78	9	89	36	18	24	19	1.95
12956338--12956431	49	1.9	49	91	0	152	42	18	1	38	1.57
12961296--12961336	17	2.4	17	95	0	73	46	14	9	29	1.77
12965455--12965636	89	2.0	90	98	1	357	65	6	14	13	1.44
12977270--12977311	21	2.0	21	86	9	59	52	0	4	42	1.22
12982002--12982068	34	1.9	35	87	3	100	31	8	14	44	1.76
12999701--12999766	31	2.1	31	83	10	82	42	12	12	33	1.79
13002926--13003021	42	2.3	42	89	3	140	20	25	14	39	1.91
13005360--13005496	50	2.7	50	81	2	159	25	18	26	29	1.98
13005551--13005639	45	2.0	45	93	0	151	25	17	23	32	1.97
13008397--13008738	172	2.0	173	92	1	571	26	11	20	41	1.86
13010049--13010132	27	3.1	27	77	0	87	22	26	11	39	1.89
13010216--13010341	45	2.7	46	87	2	173	20	23	15	40	1.91
13011036--13011068	17	1.9	17	93	0	57	66	0	27	6	1.15
13018163--13018306	42	3.4	41	73	11	130	23	16	26	33	1.96
13025589--13025730	43	3.4	41	76	12	153	22	17	26	33	1.96
13025531--13025737	85	2.4	85	85	0	263	23	16	24	35	1.95
13033057--13033118	22	2.7	22	90	5	88	48	1	1	48	1.21
13033092--13033148	16	3.6	16	90	0	87	47	3	3	45	1.37
13033340--13033372	16	2.1	16	100	0	66	69	12	0	18	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13035488--13035682	104	1.9	105	97	1	374	24	24	15	35	1.94
13035593--13035823	121	1.9	120	90	4	367	28	21	14	35	1.93
13035833--13035888	28	2.0	28	82	6	69	39	0	0	60	0.97
13035870--13035899	15	2.0	15	93	0	51	43	0	0	56	0.99
13037056--13037131	23	3.3	23	86	0	116	21	19	27	31	1.97
13041511--13043010	750	2.0	750	100	0	3000	33	16	14	35	1.89
13045738--13045803	27	2.4	27	87	5	98	13	37	25	22	1.91
13045858--13045896	11	3.2	12	82	10	53	20	0	7	71	1.10
13046728--13046752	7	3.6	7	100	0	50	60	0	0	40	0.97
13051011--13051041	15	2.1	15	100	0	62	54	6	12	25	1.62
13052099--13052155	29	2.0	29	92	0	96	31	10	26	31	1.90
13053757--13053824	31	2.2	31	91	0	109	32	17	11	38	1.86
13058387--13058533	76	1.9	76	98	0	285	44	16	17	22	1.87
13072698--13073192	244	2.0	243	95	1	893	40	19	16	24	1.91
13082875--13082992	25	4.7	24	80	10	96	25	22	22	29	1.99
13082875--13082992	50	2.4	50	88	0	164	25	22	22	29	1.99
13094381--13095045	222	3.0	223	95	0	1188	32	15	15	36	1.89
13109385--13109483	49	2.0	49	100	0	198	22	16	20	41	1.90
13115215--13115239	10	2.5	10	100	0	50	64	12	8	16	1.49
13119321--13119345	10	2.5	10	100	0	50	16	0	0	84	0.63
13121071--13121103	17	2.0	17	88	5	50	24	6	21	48	1.72
13140925--13141076	64	2.4	64	87	3	218	22	30	19	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13141746--13141792	24	2.0	24	91	8	78	72	0	23	4	1.02
13141746--13141792	18	2.6	19	87	12	64	72	0	23	4	1.02
13146930--13146991	10	6.6	9	80	10	54	54	0	1	43	1.09
13147265--13147477	91	2.4	90	78	4	207	35	8	22	32	1.85
13148594--13148636	5	8.4	5	82	5	50	23	2	4	69	1.18
13148594--13148636	16	2.8	15	86	6	59	23	2	4	69	1.18
13153086--13153243	79	2.0	79	98	0	307	25	28	21	24	1.99
13153254--13153335	43	1.9	43	90	5	130	26	26	24	21	2.00
13153254--13153378	43	2.9	43	80	3	117	25	26	22	25	2.00
13153637--13153695	18	3.3	18	63	13	50	40	10	6	42	1.65

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