genome.fa.s6.2.7.7.80.10.50.1000.41.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  41  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)
13409484--13409696	108	2.0	109	83	3	277	36	14	11	37	1.82
13410346--13410406	22	2.8	22	90	5	88	36	21	0	42	1.53
13410587--13410928	37	9.2	37	80	3	330	37	18	22	21	1.94
13410574--13410955	74	5.2	74	78	5	369	38	18	21	21	1.94
13410587--13410926	111	3.1	110	88	4	445	37	18	22	21	1.94
13413692--13413740	25	2.0	25	95	0	89	44	8	18	28	1.78
13427230--13427375	20	7.4	20	71	15	99	37	3	18	40	1.68
13429023--13429071	19	2.5	20	80	3	55	40	8	14	36	1.75
13438784--13438823	17	2.3	18	91	4	64	17	47	22	12	1.81
13439953--13440010	28	2.1	28	93	0	98	20	17	25	36	1.94
13440310--13440338	6	4.8	6	100	0	58	51	0	31	17	1.45
13440483--13440548	28	2.5	26	80	9	78	40	10	15	33	1.81
13440485--13440542	28	2.1	28	90	0	89	44	10	15	29	1.79
13448886--13448942	24	2.4	23	82	2	69	43	1	0	54	1.10
13449992--13450115	64	1.9	64	86	0	176	28	19	11	41	1.86
13450167--13450319	61	2.5	59	84	9	193	43	10	18	27	1.83
13450351--13450401	23	2.3	23	79	3	59	37	0	3	58	1.16
13459551--13459591	20	2.0	20	100	0	82	34	24	7	34	1.83
13460161--13460196	18	2.1	17	94	5	63	36	22	0	41	1.54
13464398--13464813	200	2.1	202	94	3	723	31	6	28	33	1.81
13465250--13465292	12	3.5	12	81	6	50	32	6	18	41	1.77
13466411--13466535	64	2.0	64	88	0	187	26	7	15	51	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13468752--13468776	3	8.3	3	100	0	50	0	32	0	68	0.90
13472292--13472417	63	2.0	64	83	6	159	38	11	4	46	1.61
13473335--13473384	21	2.4	21	83	6	66	36	0	2	62	1.07
13473773--13473913	41	3.4	41	88	3	212	34	18	16	30	1.93
13477952--13477996	15	3.1	14	83	6	54	80	11	8	0	0.92
13480508--13480786	41	6.8	41	75	6	233	15	22	23	38	1.92
13480508--13480786	82	3.4	81	82	3	283	15	22	23	38	1.92
13480508--13480744	123	1.9	123	80	0	276	15	23	24	37	1.93
13480508--13480785	123	2.3	123	78	2	272	15	22	23	38	1.93
13481441--13481476	15	2.5	15	90	4	56	16	0	44	38	1.48
13482827--13482878	27	1.9	27	88	0	77	40	0	9	50	1.35
13483757--13483783	11	2.5	11	100	0	54	25	18	0	55	1.43
13492528--13492726	87	2.3	87	83	3	231	39	18	30	12	1.87
13493041--13493551	43	11.8	43	85	2	605	24	21	23	30	1.99
13493041--13493551	174	3.0	171	83	4	632	24	21	23	30	1.99
13497178--13497226	6	8.3	6	88	4	73	83	0	14	2	0.73
13497178--13497223	17	2.6	17	86	3	65	84	0	13	2	0.71
13497175--13497223	23	2.2	22	88	3	71	85	0	12	2	0.68
13498112--13498412	44	6.7	44	76	8	277	29	18	22	29	1.97
13509010--13509051	10	4.3	10	87	6	68	9	0	7	83	0.81
13509016--13509051	9	3.9	9	85	7	54	8	0	5	86	0.72
13509010--13509051	19	2.2	19	91	4	66	9	0	7	83	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13512515--13512903	110	3.6	109	90	2	602	34	20	15	29	1.93
13512500--13512903	219	1.9	217	90	4	643	34	20	15	30	1.93
13513217--13513290	16	4.4	16	74	19	62	55	0	5	39	1.23
13513366--13513424	21	2.8	22	84	7	86	59	0	5	35	1.20
13513363--13513424	3	20.7	3	80	6	72	59	0	4	35	1.19
13513910--13513966	30	1.9	30	86	10	82	38	26	0	35	1.57
13515980--13516055	26	2.9	26	86	3	82	67	2	1	28	1.12
13515980--13516055	27	2.9	25	86	3	80	67	2	1	28	1.12
13515991--13516055	27	2.4	27	87	2	87	66	0	1	32	1.01
13516715--13516803	29	3.0	29	68	18	74	47	12	8	31	1.72
13530090--13530164	20	3.8	20	74	13	73	25	17	37	20	1.94
13530098--13530173	40	1.9	40	88	0	116	26	15	36	21	1.93
13530158--13530241	40	2.1	40	86	0	114	32	16	30	20	1.95
13532575--13532710	68	2.0	68	88	2	202	30	14	20	34	1.93
13536712--13536767	27	2.1	27	96	0	103	32	12	17	37	1.88
13540484--13540527	12	3.8	12	84	3	54	77	9	2	11	1.08
13541953--13541992	16	2.5	17	84	15	50	62	5	5	27	1.37
13541984--13542036	6	8.0	6	78	17	52	73	5	0	20	1.03
13541987--13542036	21	2.5	20	79	17	59	72	6	0	22	1.07
13541984--13542036	13	4.0	13	81	15	56	73	5	0	20	1.03
13541985--13542036	22	2.4	22	83	9	70	73	5	0	21	1.04
13542247--13542340	4	22.8	4	68	25	54	73	2	3	21	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13542271--13542327	15	3.6	15	79	9	60	75	0	3	21	0.95
13542278--13542327	7	6.6	8	80	11	52	76	0	2	22	0.89
13542264--13542332	24	2.9	24	78	6	70	76	0	2	20	0.91
13542265--13542334	9	7.3	9	71	16	52	77	0	2	20	0.90
13552435--13552464	14	2.1	14	100	0	60	43	6	0	50	1.28
13554448--13554674	47	4.8	47	80	2	258	25	24	15	33	1.95
13558574--13558628	28	2.0	28	96	3	103	27	7	18	47	1.74
13559551--13559618	21	3.1	21	77	8	55	13	0	32	54	1.39
13559606--13559779	96	1.8	94	83	4	233	42	2	14	39	1.61
13559806--13560101	126	2.3	126	90	0	475	32	20	20	26	1.97
13562252--13562299	21	2.3	21	82	7	62	8	16	39	35	1.79
13563176--13563200	7	3.6	7	100	0	50	56	16	0	28	1.41
13563244--13563285	21	2.0	21	100	0	84	19	23	14	42	1.87
13564368--13564437	11	6.4	11	80	11	81	42	0	34	22	1.54
13564368--13564437	33	2.1	33	84	10	90	42	0	34	22	1.54
13570433--13570458	2	13.0	2	100	0	52	50	0	0	50	1.00
13571344--13571401	28	2.1	29	90	6	93	34	0	34	31	1.58
13572930--13572962	9	3.8	9	88	8	50	51	0	36	12	1.39
13572930--13572959	8	3.6	8	95	4	51	53	0	36	10	1.35
13572930--13572962	17	1.9	17	93	0	57	51	0	36	12	1.39
13591707--13591742	15	2.5	15	91	8	58	77	0	0	22	0.76
13592120--13592168	19	2.4	21	83	10	57	73	8	2	16	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13592222--13592287	27	2.4	27	92	0	105	12	28	36	22	1.90
13592815--13592861	19	2.5	19	73	13	51	44	0	2	53	1.12
13593788--13593850	27	2.3	27	94	0	108	23	34	31	9	1.87
13593904--13593952	19	2.4	21	83	10	57	18	2	6	73	1.14
13594162--13594224	23	2.6	23	82	7	63	71	1	7	19	1.19
13609948--13610073	43	3.0	42	82	2	137	30	15	24	29	1.95
13614144--13614389	122	2.0	123	99	0	485	47	4	17	30	1.68
13615547--13615589	17	2.5	17	88	0	68	34	23	16	25	1.95
13615537--13615597	17	3.5	17	79	2	59	34	19	13	32	1.90
13615620--13615699	34	2.4	34	82	0	106	25	12	18	43	1.85
13615679--13615786	15	7.1	15	71	14	71	34	14	20	30	1.93
13623248--13623286	3	13.0	3	100	0	78	0	33	0	66	0.92
13634613--13634658	8	5.4	9	84	5	53	73	0	2	23	0.94
13637295--13637330	15	2.5	15	90	4	56	2	0	44	52	1.15
13637300--13637330	7	4.3	7	92	8	53	0	0	48	51	1.00
13651678--13651715	15	2.4	16	91	4	60	55	0	7	36	1.29
13654955--13655026	21	3.4	21	92	1	117	0	27	18	54	1.44
13654955--13655037	21	3.9	21	90	3	112	0	26	16	56	1.41
13656806--13657100	62	4.7	62	91	0	464	27	6	46	19	1.73
13664018--13664206	78	2.4	78	89	0	297	31	8	10	49	1.67
13665319--13665360	19	2.2	19	95	0	75	30	0	21	47	1.51
13667347--13667470	61	2.0	61	85	0	167	41	5	12	40	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13667644--13667688	20	2.2	20	84	8	54	53	4	13	28	1.59
13674852--13675275	44	9.7	43	70	12	226	29	21	23	26	1.99
13674823--13675318	217	2.3	217	92	0	814	28	21	23	26	1.99
13675856--13675890	18	2.0	17	88	5	52	20	2	0	77	0.90
13676647--13676710	9	6.8	9	80	7	65	14	3	1	81	0.89
13677978--13678018	19	2.2	19	86	8	57	70	2	4	21	1.18
13678308--13678337	7	4.3	7	95	0	51	73	0	3	23	0.98
13679256--13679323	34	2.0	34	100	0	136	35	11	17	35	1.87
13681308--13681512	105	2.0	105	89	0	311	41	17	12	27	1.86
13681777--13681840	28	2.2	29	83	2	85	64	3	0	32	1.10

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