genome.fa.s6.2.7.7.80.10.50.1000.35.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: Chr1
Parameters: 2 7 7 80 10 50 1000
Length:  35726063

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   

This is table  35  of  109  ( 13028 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)
11291188--11291225	19	2.1	18	85	14	51	63	0	23	13	1.30
11291372--11291446	26	2.9	26	79	0	96	38	6	20	34	1.78
11293883--11293972	44	2.0	44	95	0	162	47	12	12	27	1.76
11309747--11310502	45	16.7	44	67	14	274	29	19	17	32	1.95
11309691--11309997	96	3.3	95	72	10	312	30	20	16	32	1.95
11309672--11309997	181	1.8	181	92	0	553	30	19	17	32	1.95
11310060--11310173	44	2.6	44	88	0	156	31	22	16	28	1.96
11310048--11310497	182	2.5	182	84	1	564	30	19	16	33	1.94
11310148--11310500	92	3.8	92	73	11	317	30	19	16	33	1.94
11309781--11310498	319	2.3	314	81	8	819	29	19	17	33	1.95
11314798--11314838	20	2.0	21	86	13	59	58	0	4	36	1.20
11314795--11314861	24	2.8	23	69	17	57	55	2	5	35	1.40
11316325--11316960	45	14.5	45	75	10	453	26	24	19	29	1.98
11316769--11316878	44	2.5	44	88	2	159	30	21	20	28	1.98
11316319--11316960	307	2.1	308	82	5	782	26	24	19	29	1.98
11328948--11329016	28	2.6	26	75	16	70	71	1	10	17	1.21
11329209--11329249	20	2.0	21	86	13	59	58	0	4	36	1.20
11329206--11329272	24	2.8	23	69	17	57	55	2	5	35	1.40
11333595--11333637	19	2.3	19	84	8	52	74	0	6	18	1.04
11338070--11338118	20	2.5	20	100	0	98	34	16	22	26	1.95
11340275--11340307	17	1.9	17	88	11	50	45	21	3	30	1.67
11351960--11351984	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11354419--11354443	4	6.2	4	100	0	50	24	0	24	52	1.48
11357470--11357784	43	7.3	43	83	4	325	30	20	23	26	1.98
11357491--11357784	85	3.4	86	84	3	317	31	20	22	25	1.98
11357470--11357784	128	2.4	127	81	4	346	30	20	23	26	1.98
11361437--11361485	22	2.2	22	82	7	55	48	2	4	44	1.33
11363910--11363966	18	3.1	18	76	14	71	43	3	0	52	1.18
11365800--11365856	24	2.4	24	85	5	71	22	21	22	33	1.97
11365976--11366066	36	2.7	34	81	9	114	30	17	18	32	1.94
11366004--11366140	36	3.8	36	88	2	161	30	12	19	37	1.89
11366122--11366164	22	2.0	22	90	0	68	39	6	16	37	1.75
11366120--11366212	23	4.1	22	80	2	87	35	16	15	33	1.89
11366205--11366261	23	2.5	22	75	8	60	22	19	24	33	1.97
11369492--11369534	21	2.0	22	90	9	70	48	4	0	46	1.22
11379648--11379717	22	3.0	24	68	19	67	25	18	14	41	1.88
11379613--11379729	45	2.6	45	86	0	153	23	20	12	42	1.87
11381896--11382049	74	2.1	74	96	0	281	36	25	7	30	1.83
11383708--11383739	15	2.1	15	100	0	64	12	12	31	43	1.80
11388418--11388452	1	35.0	1	100	0	70	100	0	0	0	0.00
11393044--11393077	15	2.3	15	90	5	52	67	5	0	26	1.13
11393274--11393315	22	1.9	22	90	0	66	33	0	33	33	1.58
11393287--11393345	30	2.0	30	93	0	100	32	1	35	30	1.68
11393265--11393366	52	2.0	51	84	5	134	33	1	31	33	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11393317--11393386	22	3.2	21	88	8	95	37	2	27	32	1.72
11393563--11393656	42	2.3	41	80	7	102	18	31	26	23	1.97
11394256--11394452	95	2.1	94	81	7	229	39	19	7	33	1.80
11398400--11398558	86	1.8	86	86	6	207	46	2	6	44	1.42
11402718--11402810	30	3.1	30	87	0	123	33	18	18	30	1.95
11404500--11404550	13	3.7	14	73	21	54	58	1	0	39	1.09
11429098--11429154	28	2.0	28	89	0	87	29	22	22	24	1.99
11429387--11429538	32	4.8	32	76	0	142	36	19	22	21	1.95
11429384--11429538	64	2.4	64	89	2	222	36	19	22	21	1.95
11429713--11429798	24	3.6	24	80	0	91	45	22	6	25	1.77
11429815--11429882	27	2.6	27	88	9	104	19	26	20	33	1.96
11443746--11443847	20	5.2	20	72	4	82	18	29	18	33	1.95
11443742--11443833	39	2.4	39	92	0	148	17	29	19	33	1.95
11443742--11443854	39	2.9	38	86	5	145	16	29	19	34	1.94
11448602--11448693	37	2.5	36	80	15	107	30	21	1	46	1.58
11448744--11448775	16	2.0	16	100	0	64	25	25	0	50	1.50
11448721--11448817	50	2.0	50	81	4	117	35	16	3	45	1.63
11452960--11453018	20	3.0	20	73	14	68	10	35	22	32	1.87
11452945--11453009	20	3.3	20	72	12	62	16	40	16	26	1.90
11452932--11453069	39	3.5	39	84	0	168	14	30	21	34	1.93
11453454--11453509	27	2.1	27	100	0	112	32	0	26	41	1.56
11453463--11453511	13	3.6	14	71	17	50	32	0	24	42	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11456041--11456081	20	2.0	20	95	0	73	48	0	21	29	1.50
11458742--11458785	20	2.1	21	84	12	56	68	9	2	20	1.28
11460802--11461018	50	4.6	42	84	8	123	24	23	31	19	1.98
11460772--11460987	50	4.3	50	93	0	369	25	23	31	18	1.97
11465579--11465637	25	2.4	25	91	0	91	25	23	18	32	1.97
11480792--11480833	22	2.1	19	86	13	57	45	2	0	52	1.13
11481494--11481546	25	2.0	26	82	7	63	33	3	1	60	1.26
11484419--11484458	10	3.8	10	84	12	53	35	0	2	62	1.09
11495484--11495521	19	2.0	19	94	0	67	26	23	18	31	1.97
11498131--11498182	21	2.5	21	96	0	95	34	30	25	9	1.88
11498586--11498614	11	2.6	11	100	0	58	10	17	6	65	1.44
11500142--11500289	25	5.9	25	72	15	117	35	25	15	23	1.94
11500214--11500339	50	2.5	50	84	2	146	36	23	18	22	1.95
11500129--11500294	75	2.2	75	82	5	201	36	25	13	24	1.93
11519308--11519351	9	5.0	9	94	5	81	65	0	0	34	0.93
11519310--11519399	8	10.8	8	77	12	67	63	1	3	32	1.18
11519299--11519352	26	2.0	26	89	3	81	68	1	0	29	1.00
11519398--11519429	16	2.0	16	100	0	64	56	6	6	31	1.49
11519400--11519441	16	2.6	16	88	7	59	61	4	4	28	1.36
11519441--11519496	27	2.2	26	84	12	71	51	1	5	41	1.35
11519609--11519647	18	2.2	18	86	4	53	2	28	0	69	1.02
11531166--11531209	20	2.2	20	84	8	54	47	0	2	50	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11542713--11542765	16	3.3	16	94	0	88	39	5	32	22	1.78
11544365--11544505	68	2.1	68	97	0	264	36	17	12	32	1.88
11544524--11544579	28	2.0	28	96	0	103	17	25	16	41	1.89
11557975--11558014	19	2.1	19	85	0	53	30	17	0	52	1.45
11558209--11558339	44	3.0	43	87	6	183	38	19	19	22	1.93
11558195--11558351	45	3.5	45	85	1	217	39	19	19	21	1.93
11558551--11558637	40	2.2	40	83	8	106	40	19	8	32	1.81
11570233--11570474	50	4.9	50	82	1	254	20	28	21	28	1.98
11576439--11576616	50	3.6	50	90	1	268	24	30	19	25	1.98
11584063--11584157	30	2.8	37	75	21	132	43	18	13	24	1.87
11588851--11588888	16	2.3	17	86	4	51	47	13	0	39	1.42
11591798--11591826	4	7.2	4	100	0	58	48	0	0	51	1.00
11592114--11592232	61	2.0	61	96	0	220	33	5	16	44	1.70
11592721--11592814	37	2.5	38	79	5	102	42	3	13	40	1.61
11609383--11609728	173	2.0	173	95	0	620	36	15	20	26	1.93
11617174--11617200	7	3.9	7	100	0	54	59	0	11	29	1.32
11617296--11617337	19	2.2	19	87	12	59	52	2	0	45	1.13
11630312--11630372	24	2.5	24	91	0	104	21	22	16	39	1.92
11630370--11630542	42	4.1	42	89	0	238	15	13	21	49	1.78
11630370--11630518	22	7.0	22	69	9	112	15	12	22	49	1.78
11630400--11630544	22	6.9	20	69	11	85	13	14	22	49	1.78
11630370--11630574	84	2.4	84	85	3	252	15	15	22	47	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11630410--11630566	42	3.7	40	86	6	188	13	14	24	47	1.80
11630509--11630584	20	3.7	20	74	6	71	11	19	26	42	1.86
11630976--11631005	16	1.9	15	93	6	51	46	16	10	26	1.78
11632797--11632854	28	2.0	28	86	3	80	36	13	24	25	1.92
11637575--11637790	27	8.1	27	88	1	301	40	23	18	17	1.91
11637575--11637780	80	2.6	80	89	2	315	40	23	18	16	1.91
11637575--11637817	54	4.5	51	84	7	227	41	22	17	18	1.90
11637575--11637817	80	3.0	79	82	8	278	41	22	17	18	1.90
11638024--11638104	26	3.1	26	82	3	101	18	19	25	35	1.95
11638183--11638245	28	2.2	28	97	0	117	26	25	19	28	1.98

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