genome.fa.s9.2.7.7.80.10.50.1000.27.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: chr9
Parameters: 2 7 7 80 10 50 1000
Length:  38630433

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   

This is table  27  of  97  ( 11551 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)
11425730--11425763	18	1.9	18	88	5	52	26	5	0	67	1.13
11426472--11426510	21	1.9	21	89	5	62	35	0	2	61	1.10
11426585--11426644	28	2.1	29	84	9	79	50	0	0	50	1.00
11431895--11431960	28	2.3	28	89	2	96	68	0	30	1	0.99
11431917--11431956	20	2.1	20	86	9	57	70	0	30	0	0.88
11433198--11433265	34	2.0	35	82	2	84	30	11	25	32	1.91
11434644--11434704	27	2.3	26	83	11	79	18	9	37	34	1.83
11455708--11457428	876	2.0	871	79	6	1870	30	14	16	38	1.89
11486480--11486515	17	2.1	17	89	0	54	30	22	36	11	1.89
11486865--11487061	73	2.7	71	78	10	193	38	20	20	20	1.94
11488369--11488416	25	2.0	24	84	15	64	54	0	8	37	1.31
11497671--11497788	23	5.2	23	71	4	80	38	28	8	23	1.84
11497829--11497890	22	2.8	22	87	0	88	41	27	8	22	1.82
11497826--11497899	22	3.4	22	80	0	67	40	29	8	21	1.82
11497842--11497961	60	2.0	60	81	3	143	36	30	7	25	1.83
11498826--11498881	18	2.9	19	71	10	51	41	1	0	57	1.09
11500207--11500289	21	3.6	21	70	22	67	45	3	1	49	1.27
11500193--11500288	50	1.9	50	87	4	140	48	3	1	46	1.24
11504201--11504407	108	1.9	108	91	0	342	43	4	15	35	1.69
11504588--11504626	17	2.4	16	87	8	53	38	10	0	51	1.36
11504586--11504630	17	2.6	18	80	20	51	37	8	0	53	1.32
11507398--11507539	42	3.4	42	89	0	230	23	32	23	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11508751--11508804	28	2.0	27	82	10	65	33	20	18	27	1.96
11513037--11513091	21	2.8	20	81	10	69	45	5	1	47	1.36
11532865--11532896	16	2.1	16	88	11	50	68	0	28	3	1.04
11538135--11538172	19	2.0	19	94	0	67	28	0	28	42	1.56
11539603--11539627	13	1.9	13	100	0	50	44	0	8	48	1.32
11549680--11549726	23	2.1	22	88	11	69	80	0	14	4	0.85
11550951--11552152	31	39.2	31	66	14	449	35	18	18	28	1.94
11550951--11552244	61	21.0	60	81	5	1164	35	18	18	27	1.94
11551010--11551756	30	24.4	30	65	15	217	35	18	18	27	1.94
11552098--11552216	64	1.9	63	85	1	166	34	21	20	24	1.96
11552617--11552707	29	3.4	27	73	15	82	76	2	2	18	0.99
11552621--11552700	8	8.6	8	72	23	52	76	2	2	18	1.02
11555576--11555620	4	11.8	4	81	9	58	73	0	2	24	0.95
11555576--11555622	11	4.2	11	80	2	58	74	0	2	23	0.93
11556590--11556623	15	2.2	16	89	5	52	76	0	0	23	0.79
11556590--11556623	16	2.2	16	89	5	52	76	0	0	23	0.79
11564034--11564113	30	2.7	30	82	3	108	37	13	15	33	1.86
11564799--11564892	45	2.1	45	84	7	120	44	4	4	46	1.42
11575041--11575075	17	1.9	18	88	11	54	54	11	17	17	1.71
11575446--11575736	145	2.0	144	99	0	573	37	9	12	39	1.76
11582379--11582436	21	2.8	21	89	0	89	24	13	25	36	1.92
11582403--11582603	47	4.3	47	71	12	178	26	12	22	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11582467--11582627	26	6.6	26	77	11	117	27	13	22	36	1.91
11582449--11582630	94	1.9	95	87	3	269	27	13	21	37	1.91
11582639--11582717	22	3.6	22	79	6	81	44	22	10	22	1.83
11585283--11585340	29	2.0	29	100	0	116	20	20	20	37	1.94
11589256--11589284	2	15.0	2	92	7	51	51	0	0	48	1.00
11594482--11594527	22	2.1	22	84	4	58	43	6	4	45	1.49
11595716--11595762	21	2.2	21	84	3	58	53	0	6	40	1.27
11597038--11597071	13	2.6	13	85	0	50	26	11	32	29	1.92
11600015--11600111	17	5.7	17	73	20	69	71	3	3	22	1.15
11600056--11600119	30	2.2	29	81	15	78	75	1	1	21	0.98
11600040--11600091	26	2.0	26	85	3	70	71	3	0	25	1.03
11600046--11600116	11	6.3	11	75	15	56	74	1	1	22	0.97
11600046--11600119	6	11.8	6	75	13	60	74	1	1	22	0.97
11601186--11601213	14	2.0	14	100	0	56	42	7	14	35	1.73
11601819--11601862	21	2.1	21	91	4	72	36	13	11	38	1.81
11603819--11603919	27	3.8	27	96	1	177	39	13	0	45	1.51
11604425--11604478	25	2.2	25	90	6	83	12	18	11	57	1.64
11623806--11623859	28	2.0	28	85	10	76	31	24	20	24	1.98
11637309--11637345	19	2.0	18	94	5	65	32	0	21	45	1.52
11645666--11645697	16	2.0	16	93	0	55	59	0	21	18	1.38
11658484--11658529	21	2.2	22	85	11	62	39	0	8	52	1.33
11659010--11659036	11	2.5	11	100	0	54	11	25	0	62	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11675712--11675740	2	14.5	2	100	0	58	51	0	0	48	1.00
11683250--11683292	20	2.2	19	84	12	52	13	13	6	65	1.46
11683257--11683294	19	2.0	19	90	10	60	13	15	7	63	1.51
11690546--11690718	58	3.0	58	94	1	296	47	21	15	14	1.81
11695370--11695483	58	2.0	58	92	0	192	49	21	13	15	1.79
11696735--11696763	14	2.1	14	100	0	58	27	20	6	44	1.77
11705710--11705841	65	2.0	65	98	0	255	28	16	14	40	1.88
11705927--11705966	21	2.0	21	85	5	55	12	2	25	60	1.45
11719821--11719851	2	15.5	2	100	0	62	51	0	0	48	1.00
11726944--11727026	31	2.6	32	83	7	98	59	6	6	28	1.45
11736122--11736194	30	2.4	29	82	10	85	32	9	13	43	1.77
11736232--11736288	30	1.9	30	89	7	89	36	15	15	31	1.90
11737938--11737986	21	2.5	22	87	12	63	57	10	0	32	1.32
11744646--11744683	13	2.9	14	88	11	55	57	0	0	42	0.98
11746989--11747043	21	2.5	22	82	2	76	21	10	23	43	1.84
11746989--11747051	21	2.9	22	74	9	67	23	11	20	44	1.83
11747019--11747067	22	2.2	22	82	7	55	26	12	14	46	1.79
11747079--11747183	23	4.5	24	75	10	92	35	25	12	26	1.92
11747078--11747166	45	2.0	46	86	6	128	34	25	11	28	1.90
11747143--11747277	26	5.4	26	78	8	127	37	22	13	26	1.91
11747155--11747299	73	2.0	73	86	0	200	40	22	12	24	1.89
11749505--11749541	2	18.5	2	94	0	65	54	0	0	45	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11752499--11752597	47	2.1	48	92	1	164	18	24	7	50	1.71
11757004--11757033	15	2.1	15	93	6	53	46	6	10	36	1.64
11757037--11757118	15	5.5	15	69	13	53	51	2	0	46	1.14
11757035--11757118	30	2.8	30	79	1	87	52	2	0	45	1.13
11760590--11760623	3	10.7	3	87	12	50	35	0	0	64	0.94
11765949--11766007	27	2.1	28	96	3	111	35	22	6	35	1.80
11772176--11772228	19	2.8	20	86	11	60	26	0	0	73	0.83
11772186--11772228	19	2.3	19	92	4	70	25	0	0	74	0.82
11772189--11772231	17	2.4	18	92	3	70	27	0	0	72	0.85
11803737--11803870	69	1.9	69	89	4	205	47	4	17	30	1.68
11805041--11805081	19	2.2	20	86	8	59	17	2	4	75	1.08
11805269--11805392	61	2.0	61	95	4	232	35	8	6	49	1.58
11805546--11805590	21	2.1	22	84	12	58	28	0	11	60	1.31
11806924--11806949	11	2.4	11	100	0	52	84	0	0	15	0.62
11807317--11807370	12	4.8	12	73	13	51	62	0	37	0	0.95
11807320--11807410	33	2.9	31	76	13	87	63	2	32	1	1.13
11807508--11807544	14	2.8	13	84	8	56	78	0	18	2	0.87
11807479--11807538	23	2.6	23	78	7	68	75	0	23	1	0.90
11811468--11811508	2	21.0	2	90	5	66	46	0	53	0	1.00
11812040--11812082	2	21.5	2	100	0	86	48	0	0	51	1.00
11812128--11812230	38	2.6	39	84	3	118	21	17	38	22	1.93
11822642--11822683	23	2.0	20	86	13	57	83	4	2	9	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11823613--11824326	58	11.9	59	76	9	579	33	12	16	37	1.87
11823634--11824326	118	5.8	118	79	8	650	33	12	16	37	1.86
11823737--11823983	131	1.9	131	84	1	334	34	12	14	38	1.83
11823867--11824326	176	2.6	176	86	3	593	33	12	16	36	1.86
11824284--11824378	50	1.9	50	91	4	156	31	14	18	34	1.92
11824572--11824605	16	2.1	16	88	0	50	73	2	0	23	0.97
11825163--11825206	17	2.5	17	77	3	52	70	0	27	2	0.99
11831613--11831666	23	2.3	23	87	0	72	25	14	37	22	1.93
11831681--11831747	23	2.8	24	69	13	66	22	10	37	29	1.88
11831669--11831892	47	4.8	46	75	4	148	25	15	32	26	1.96

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