genome.fa.s12.2.7.7.80.10.50.1000.31.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  31  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)
9454361--9454503	39	3.7	38	78	3	151	15	18	34	32	1.92
9456556--9456944	139	2.8	138	82	5	455	30	22	18	28	1.97
9456556--9456982	70	6.1	70	80	3	385	30	22	18	27	1.97
9457234--9457264	16	1.9	16	100	0	62	38	16	12	32	1.86
9460151--9460193	20	2.2	20	86	0	59	25	11	37	25	1.90
9461435--9461466	16	2.0	16	100	0	64	37	18	12	31	1.88
9470376--9470413	18	2.1	18	95	0	67	23	26	10	39	1.87
9474771--9474824	16	3.4	16	94	0	90	33	0	35	31	1.58
9474803--9474912	45	2.6	43	77	9	120	32	6	29	31	1.82
9477678--9477922	122	2.0	122	96	0	454	40	4	4	51	1.41
9477704--9477951	122	2.1	121	87	6	364	43	4	4	47	1.42
9477998--9478227	43	5.4	43	89	1	311	19	17	32	30	1.95
9477998--9478224	85	2.7	85	88	2	321	19	17	33	29	1.95
9479299--9479325	13	2.1	13	100	0	54	48	22	0	29	1.51
9479786--9480178	126	3.1	125	83	3	495	30	15	15	38	1.89
9480234--9480359	34	3.8	33	77	14	134	42	15	0	42	1.46
9482149--9482188	21	1.9	21	84	0	53	27	27	12	32	1.93
9490613--9490659	20	2.5	19	75	6	51	55	2	2	40	1.24
9491904--9491933	14	2.1	15	93	6	53	56	10	20	13	1.65
9491851--9491994	75	1.9	75	97	0	270	45	12	17	25	1.83
9498831--9498872	21	2.0	21	86	9	59	59	33	7	0	1.25
9504587--9504939	197	1.8	190	84	4	481	43	9	11	35	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9505009--9505052	18	2.3	19	85	14	56	59	2	6	31	1.36
9506859--9506925	35	1.9	35	87	0	98	47	2	8	40	1.50
9507543--9507645	31	3.4	31	77	8	111	52	3	2	40	1.35
9507540--9507655	61	1.9	61	90	0	187	51	3	2	42	1.32
9510855--9510948	25	3.8	25	91	0	125	19	29	21	29	1.97
9518310--9518368	25	2.4	25	82	2	66	18	27	16	37	1.93
9518323--9518391	25	2.8	25	90	0	102	14	28	23	33	1.94
9534048--9534092	5	8.8	5	85	4	63	0	26	0	73	0.84
9541022--9541082	13	5.1	13	70	29	55	59	1	0	39	1.08
9541022--9541083	11	5.0	13	72	20	53	58	1	0	40	1.08
9541105--9541161	24	2.3	24	85	8	80	59	0	1	38	1.08
9541118--9541169	24	2.2	24	86	10	72	59	1	1	36	1.19
9547467--9547495	12	2.4	12	100	0	58	51	6	0	41	1.28
9547409--9547582	74	2.4	71	76	16	171	48	7	4	39	1.52
9549240--9549270	16	1.9	16	93	0	53	70	9	9	9	1.33
9554267--9554315	18	2.8	17	84	6	71	14	26	40	18	1.89
9560954--9560986	15	2.2	15	89	10	50	57	0	0	42	0.98
9560952--9560992	9	4.9	9	80	14	52	58	0	0	41	0.98
9564249--9564296	18	2.7	17	81	9	60	41	4	16	37	1.68
9566376--9566435	29	2.1	29	100	0	120	56	3	16	23	1.55
9566683--9566720	18	2.1	18	95	0	67	36	15	7	39	1.77
9567481--9567740	125	2.1	126	98	1	504	34	11	17	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9567990--9568047	20	2.9	20	70	10	55	24	27	18	29	1.98
9575094--9575127	18	1.9	17	88	5	50	52	8	20	17	1.71
9576538--9576601	28	2.3	28	97	0	119	37	15	9	37	1.80
9577162--9577275	13	8.7	13	67	9	52	43	4	16	35	1.68
9592569--9592610	21	2.0	21	90	0	66	35	7	11	45	1.69
9596505--9596558	21	2.5	22	79	8	58	59	3	0	37	1.15
9596720--9596760	21	2.0	21	81	18	50	65	7	2	24	1.30
9596749--9596797	3	16.3	3	81	8	55	67	2	4	26	1.19
9598535--9598831	44	6.9	43	74	12	234	25	23	20	29	1.99
9598544--9598831	46	6.7	43	74	11	232	25	23	21	29	1.99
9598414--9598877	170	2.7	170	96	0	838	26	23	20	29	1.99
9609905--9610105	101	2.0	102	82	9	248	49	14	11	24	1.76
9611127--9611180	21	2.5	22	79	8	58	59	3	0	37	1.15
9611342--9611382	21	2.0	21	81	18	50	65	7	2	24	1.30
9611371--9611421	18	2.8	18	77	11	59	62	1	7	27	1.33
9640829--9640861	13	2.5	13	90	9	50	33	24	0	42	1.55
9641315--9641361	20	2.4	20	76	16	53	46	0	8	44	1.33
9649669--9649710	20	2.1	20	100	0	84	40	30	9	19	1.83
9650611--9650653	22	2.0	22	82	8	54	67	6	2	23	1.27
9652905--9652942	19	2.0	19	85	10	51	44	0	5	50	1.24
9654797--9654860	30	2.1	30	85	5	85	42	7	6	43	1.58
9667865--9667922	18	3.3	18	69	13	57	58	1	3	36	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9671320--9671352	17	2.0	16	94	5	57	48	0	9	42	1.35
9671593--9671644	20	2.6	20	82	8	61	67	0	5	26	1.13
9679807--9679868	31	2.0	31	100	0	124	29	16	16	38	1.90
9682480--9682538	29	2.0	29	80	6	66	47	8	18	25	1.77
9683521--9683545	8	3.1	8	100	0	50	52	0	0	48	1.00
9685521--9685550	11	2.7	11	100	0	60	56	16	10	16	1.66
9694991--9695068	25	3.2	24	70	5	66	34	19	28	17	1.95
9695982--9696013	16	2.1	16	94	5	57	31	25	6	37	1.81
9699626--9699657	4	7.8	4	93	6	55	78	0	0	21	0.76
9699622--9699657	17	2.1	17	100	0	72	77	0	0	22	0.76
9700588--9700630	12	3.7	12	82	14	54	81	4	13	0	0.84
9703292--9703385	31	3.0	31	79	3	91	28	20	24	26	1.99
9703478--9703537	31	1.9	31	89	0	93	26	23	28	21	1.99
9703478--9703562	31	2.7	31	78	10	84	27	22	28	22	1.99
9717631--9717724	27	3.5	27	89	0	134	22	17	24	36	1.95
9718265--9718321	28	2.0	28	100	0	114	40	10	10	38	1.74
9729953--9729979	5	5.4	5	100	0	54	40	0	0	59	0.98
9736776--9736924	42	3.5	44	73	13	125	34	24	16	24	1.95
9753891--9753922	6	5.3	6	100	0	64	18	50	0	31	1.48
9758770--9758808	20	2.0	20	90	10	62	15	23	5	56	1.59
9759073--9759205	50	2.7	50	83	2	160	21	30	22	26	1.99
9763119--9763146	9	3.1	9	100	0	56	21	25	0	53	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9766436--9766474	20	2.0	20	90	10	62	15	23	5	56	1.59
9770436--9770473	13	3.0	13	92	3	60	65	5	23	5	1.34
9771094--9771418	24	13.5	24	94	2	557	16	21	23	38	1.93
9778602--9778708	51	2.1	51	84	3	135	44	8	17	28	1.78
9784400--9784517	57	2.1	57	87	3	166	48	7	16	27	1.73
9788097--9788140	20	2.2	20	100	0	88	25	6	27	40	1.80
9788986--9789018	2	16.5	2	93	0	57	45	3	0	51	1.16
9792966--9793084	57	2.1	57	96	0	220	32	15	13	38	1.86
9800190--9800295	41	2.6	41	92	3	169	27	18	30	23	1.98
9801202--9801258	11	5.2	11	78	0	60	66	12	3	17	1.37
9803292--9803495	52	3.7	58	84	11	263	27	20	8	43	1.81
9803292--9803495	110	1.9	106	87	6	297	27	20	8	43	1.81
9804391--9804458	33	2.1	33	100	0	136	25	11	20	42	1.86
9807736--9807761	12	2.2	12	100	0	52	42	15	15	26	1.87
9820176--9820202	8	3.4	8	100	0	54	33	0	11	55	1.35
9820183--9820493	170	1.8	170	93	2	536	38	14	11	35	1.82
9822180--9822242	30	2.0	33	81	9	78	14	7	11	66	1.43
9836043--9836115	14	5.0	15	75	20	66	43	12	15	28	1.82
9836054--9836084	16	2.0	16	93	6	55	48	12	12	25	1.77
9847890--9847939	26	2.0	25	84	7	66	44	2	0	54	1.11
9852754--9852779	13	2.0	13	100	0	52	15	15	0	69	1.20
9860980--9861105	41	3.0	43	78	11	143	31	26	17	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9861855--9861883	10	2.9	10	100	0	58	62	20	6	10	1.50
9875785--9875850	25	2.6	25	79	9	71	28	21	22	27	1.99
9881330--9881416	33	2.7	32	76	15	88	45	18	8	27	1.77
9881407--9881446	20	2.0	20	100	0	80	45	15	10	30	1.78
9881396--9881460	34	1.9	33	87	9	96	41	15	7	35	1.76
9881430--9881459	14	2.2	13	94	5	51	40	20	6	33	1.78
9884108--9884259	63	2.4	62	77	8	146	22	19	31	26	1.97
9884832--9884882	23	2.2	23	92	0	84	15	3	47	33	1.64
9887156--9887196	3	13.3	3	85	14	57	65	29	4	0	1.13
9888078--9888139	23	2.8	22	78	14	65	37	8	0	54	1.30

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