genome.fa.s12.2.7.7.80.10.50.1000.120.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: Chr5
Parameters: 2 7 7 80 10 50 1000
Length:  43060996

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   

This is table  120  of  128  ( 15303 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)
39772435--39772471	19	1.9	19	94	0	65	24	40	16	18	1.90
39780202--39780237	18	1.9	19	88	5	56	69	0	22	8	1.15
39783982--39784400	106	4.0	106	88	2	596	31	18	17	32	1.94
39783982--39784392	211	2.0	209	88	2	610	30	18	18	32	1.95
39785706--39786682	488	2.0	488	100	0	1954	28	19	25	27	1.99
39789373--39789459	41	2.1	41	86	0	120	32	21	18	27	1.97
39812461--39812876	106	3.9	106	94	0	692	29	19	18	32	1.96
39824732--39824784	24	2.2	24	89	0	79	49	9	3	37	1.53
39828210--39828268	9	6.4	9	78	3	64	32	0	6	61	1.22
39828627--39828692	20	3.4	19	73	12	53	24	10	10	54	1.66
39828735--39828800	20	3.2	20	73	16	55	43	3	3	50	1.33
39833560--39833632	38	1.9	38	91	5	121	35	13	12	38	1.83
39836389--39836422	14	2.4	14	95	0	59	26	32	5	35	1.81
39844658--39844689	5	6.4	5	100	0	64	81	0	0	18	0.70
39849901--39850017	40	2.9	40	82	5	137	23	16	29	30	1.96
39849883--39850017	40	3.4	39	82	5	135	23	16	28	31	1.96
39850759--39851051	23	12.8	23	86	2	412	31	11	16	40	1.84
39850759--39851051	46	6.4	46	92	3	484	31	11	16	40	1.84
39854038--39854071	15	2.2	16	90	10	54	67	0	20	11	1.21
39855858--39855882	8	3.1	8	100	0	50	52	0	24	24	1.48
39858864--39858904	20	2.0	20	85	0	55	53	2	0	43	1.13
39860091--39860145	29	1.9	28	85	3	74	52	3	3	40	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39861213--39861263	22	2.3	22	89	3	84	43	9	1	45	1.48
39861220--39861262	22	2.0	22	100	0	86	37	9	2	51	1.47
39863526--39863604	5	15.6	5	77	18	67	39	0	3	56	1.17
39863554--39863606	19	2.8	19	88	11	74	43	0	0	56	0.99
39863554--39863606	2	30.5	2	72	27	50	43	0	0	56	0.99
39867728--39868197	44	10.8	44	73	8	300	28	22	19	30	1.98
39867650--39868072	218	1.9	220	92	1	717	27	22	19	29	1.98
39867782--39868023	131	1.9	130	81	7	294	29	21	19	29	1.97
39867913--39868197	89	3.2	89	73	10	325	29	21	17	30	1.96
39867776--39868197	174	2.4	174	93	2	697	28	22	18	29	1.98
39867867--39868153	85	3.3	86	73	9	314	29	21	18	29	1.97
39870963--39871006	7	6.6	7	84	10	65	15	15	0	68	1.22
39870965--39871006	13	3.2	13	86	6	59	14	16	0	69	1.20
39870963--39871006	20	2.2	20	95	0	79	15	15	0	68	1.22
39874145--39874176	16	1.9	16	93	6	55	81	0	6	12	0.87
39874197--39874235	21	1.9	21	89	5	62	74	0	17	7	1.05
39874558--39874594	16	2.3	16	90	0	56	2	5	13	78	1.03
39875551--39875602	20	2.6	20	96	0	95	59	17	17	5	1.56
39879190--39879232	7	6.0	7	81	5	50	16	9	2	72	1.21
39879190--39879232	15	3.0	15	80	6	54	16	9	2	72	1.21
39879190--39879233	22	2.0	22	90	0	70	18	9	2	70	1.24
39901397--39901525	61	2.1	61	92	0	213	19	28	27	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39907344--39907389	19	2.3	20	85	3	58	65	2	6	26	1.28
39907349--39907408	20	2.9	19	80	11	57	66	1	11	20	1.31
39911160--39911191	12	2.6	13	85	14	50	56	6	0	37	1.25
39912881--39912918	20	1.9	20	94	0	67	34	26	0	39	1.57
39917934--39918188	126	2.0	127	99	0	503	48	14	6	30	1.69
39920705--39920803	17	5.8	17	71	0	72	43	18	11	27	1.83
39920696--39920803	51	2.1	51	86	3	146	41	17	12	28	1.85
39921447--39921494	18	2.7	18	80	0	51	43	16	10	29	1.81
39921447--39921527	36	2.2	36	82	4	92	43	18	8	29	1.80
39925462--39925491	16	1.9	15	93	6	51	53	0	3	43	1.17
39925721--39925780	3	20.0	3	74	6	50	58	3	3	35	1.31
39927734--39927889	41	3.8	40	78	6	152	26	14	26	32	1.95
39928564--39928673	24	4.7	24	78	8	109	23	16	20	40	1.91
39928588--39928690	46	2.2	47	84	5	138	25	16	19	38	1.92
39928556--39928691	24	5.9	22	73	15	64	25	15	19	38	1.91
39933164--39933230	9	7.4	9	85	6	91	40	20	11	26	1.88
39933164--39933230	27	2.5	27	90	0	107	40	20	11	26	1.88
39933319--39933492	84	2.1	84	96	3	332	22	4	22	50	1.68
39939789--39939831	23	1.9	23	86	13	63	23	11	11	53	1.69
39945319--39945378	26	2.3	26	88	0	84	33	21	18	26	1.96
39945794--39945844	23	2.2	23	82	6	59	43	19	19	17	1.89
39953237--39953344	51	2.1	51	82	3	128	42	17	11	28	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39953273--39953346	17	4.4	17	72	6	60	41	16	12	29	1.84
39953989--39954037	18	2.7	18	80	0	53	42	18	10	28	1.83
39954376--39954414	5	7.8	5	100	0	78	41	0	0	58	0.98
39954431--39954502	28	2.5	28	84	2	81	48	6	11	33	1.65
39954550--39954579	2	15.5	2	93	6	53	53	0	0	46	1.00
39962428--39962474	21	2.2	22	88	3	69	74	0	2	23	0.93
39969580--39969634	26	2.1	26	86	0	74	36	20	16	27	1.93
39970034--39970081	23	2.1	23	84	3	62	43	16	18	20	1.88
39977407--39977449	23	1.9	23	86	13	63	23	11	11	53	1.69
39994634--39994693	26	2.3	25	91	5	93	31	20	18	30	1.96
39995110--39995157	23	2.1	23	85	11	64	45	18	14	20	1.85
39998198--39998291	47	2.0	47	100	0	188	31	12	19	36	1.89
40001923--40001952	6	5.0	6	100	0	60	66	0	0	33	0.92
40021530--40021576	22	2.1	22	96	0	85	48	10	25	14	1.76
40021530--40021583	22	2.5	22	90	0	72	48	11	27	12	1.76
40028356--40028395	21	2.0	20	85	14	55	25	15	20	40	1.90
40030396--40030428	16	1.9	17	88	11	50	57	0	0	42	0.98
40048287--40048351	11	5.6	11	74	13	51	15	3	3	78	1.00
40048291--40048333	22	2.0	22	86	9	61	13	0	4	81	0.84
40054665--40054696	4	8.0	4	92	0	55	0	21	0	78	0.76
40054694--40054738	22	2.0	23	86	4	65	15	2	6	75	1.11
40056972--40057043	26	2.8	26	86	0	99	38	19	23	18	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40057222--40057335	27	4.2	27	88	0	156	21	22	15	39	1.92
40063116--40063144	6	4.8	6	100	0	58	68	13	0	17	1.20
40069460--40069525	26	2.6	25	83	4	78	33	16	12	37	1.86
40069476--40069525	25	2.0	26	88	4	75	36	18	10	36	1.84
40074221--40074282	6	10.3	6	89	6	99	82	0	16	1	0.75
40074221--40074282	19	3.4	18	93	4	99	82	0	16	1	0.75
40076255--40076562	38	8.1	38	81	1	305	35	28	19	15	1.93
40076258--40076562	114	2.7	112	82	6	353	36	28	19	16	1.93
40076480--40076544	22	3.2	22	67	24	70	36	29	16	16	1.92
40078188--40078236	25	2.0	25	95	0	89	42	22	10	24	1.84
40081403--40081469	35	1.9	35	84	3	91	34	8	11	44	1.73
40082892--40082982	44	2.1	44	89	0	137	43	7	2	46	1.44
40082938--40082977	17	2.4	17	84	12	55	45	5	2	47	1.38
40084527--40084565	14	2.7	14	84	4	51	20	2	17	58	1.50
40085325--40085379	25	2.2	25	90	0	83	43	23	9	23	1.82
40089147--40089289	43	3.4	42	77	2	151	36	25	13	23	1.93
40099452--40099486	9	3.8	9	88	7	52	51	0	0	48	1.00
40099598--40099647	21	2.4	21	93	0	82	32	32	8	28	1.86
40100402--40100486	40	2.1	40	89	4	127	50	11	5	31	1.63
40100416--40100527	40	2.8	40	81	5	109	49	12	8	30	1.69
40101176--40101303	40	3.3	40	66	16	124	38	3	41	16	1.67
40101151--40101304	76	2.0	77	94	1	274	35	5	41	17	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40102094--40102167	15	5.1	15	71	21	50	43	36	0	20	1.52
40102128--40102162	15	2.4	14	90	9	61	42	37	0	20	1.52
40102115--40102167	22	2.4	21	75	6	52	45	32	0	22	1.53
40102295--40102382	7	11.9	7	73	13	52	38	39	1	20	1.60
40102295--40102382	15	5.9	15	72	10	63	38	39	1	20	1.60
40102335--40102380	24	1.9	24	95	0	83	32	41	2	23	1.67
40102386--40102434	15	3.3	15	82	5	64	44	28	0	26	1.54
40101980--40102825	271	3.2	268	90	4	1293	43	23	1	30	1.65
40102566--40102699	7	18.7	7	77	4	88	41	38	0	20	1.52
40102563--40102645	36	2.3	35	85	2	103	39	40	0	19	1.51

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