genome.fa.s5.2.7.7.80.10.50.1000.68.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:  39371879

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   

This is table  68  of  103  ( 12320 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)
25616630--25616719	45	2.0	45	97	0	171	42	14	14	28	1.85
25621346--25621407	26	2.4	26	94	0	106	32	40	3	24	1.71
25621466--25621630	83	2.0	84	92	3	280	23	38	16	21	1.92
25621730--25621894	42	3.9	42	86	0	222	24	30	20	24	1.99
25629527--25629569	2	21.5	2	95	0	77	48	0	2	48	1.14
25629582--25629644	20	3.2	20	90	2	101	30	41	3	25	1.71
25629643--25629761	43	2.8	43	89	2	168	19	37	21	21	1.94
25631443--25631523	42	1.9	42	94	0	144	22	34	22	20	1.97
25633182--25633304	42	2.9	42	93	0	210	21	34	22	21	1.97
25637730--25637805	38	2.0	38	85	10	102	38	14	19	27	1.91
25641028--25641072	18	2.6	18	83	16	60	33	0	0	66	0.92
25642219--25642256	2	19.0	2	100	0	76	50	0	0	50	1.00
25650148--25650209	13	4.8	12	73	19	54	22	6	0	70	1.09
25650135--25650202	14	4.8	14	71	21	52	25	5	0	69	1.11
25650298--25650369	14	5.5	13	71	17	51	25	1	1	72	1.01
25650323--25650369	8	5.9	8	80	9	60	23	0	2	74	0.93
25650323--25650369	23	2.0	25	87	8	71	23	0	2	74	0.93
25650298--25650368	16	4.3	17	76	16	69	25	1	1	71	1.02
25650331--25650369	17	2.2	18	90	4	62	23	0	2	74	0.94
25651009--25651043	17	2.1	17	89	5	54	22	2	0	74	0.95
25651175--25651218	21	2.0	22	86	4	63	52	9	4	34	1.54
25652186--25652258	35	2.0	36	89	5	112	12	28	31	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25652547--25652990	37	11.8	37	81	7	466	40	19	15	24	1.91
25664987--25665048	13	4.8	12	73	19	54	22	6	0	70	1.09
25664961--25665041	14	5.9	14	72	21	55	25	4	0	69	1.09
25665136--25665205	8	8.5	8	71	22	56	24	1	1	72	1.00
25665167--25665205	17	2.2	17	90	4	60	23	0	2	74	0.94
25665350--25665396	4	12.8	4	82	17	50	21	0	0	78	0.75
25665358--25665396	19	2.0	20	95	5	71	23	0	0	76	0.78
25665350--25665395	20	2.3	21	85	11	69	19	0	0	80	0.71
25665448--25665492	15	3.1	14	87	12	65	24	0	0	75	0.80
25665447--25665495	16	3.0	16	82	11	64	24	0	0	75	0.80
25665729--25665763	17	2.1	17	89	5	54	22	2	0	74	0.95
25665904--25665947	21	2.0	22	86	4	63	52	9	4	34	1.54
25672229--25672373	67	2.2	67	87	2	202	35	15	42	6	1.72
25672888--25672913	2	13.0	2	100	0	52	50	0	0	50	1.00
25677775--25677931	27	5.7	27	77	3	143	41	16	8	33	1.78
25677749--25677919	55	3.1	55	81	3	200	40	14	8	36	1.76
25677790--25677919	28	4.7	27	80	4	136	40	16	9	33	1.80
25677955--25678024	27	2.6	27	86	2	95	38	20	8	32	1.83
25677937--25678060	28	4.5	28	77	9	103	38	18	8	33	1.82
25680131--25680210	27	3.0	27	77	0	79	30	7	18	43	1.78
25680240--25680501	27	9.7	27	76	6	147	34	11	15	38	1.84
25680240--25680509	81	3.4	77	75	10	220	34	11	15	37	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25695201--25695285	26	3.2	26	75	6	64	32	16	14	36	1.89
25695223--25695400	26	6.6	26	74	8	131	33	14	13	38	1.85
25699912--25699971	30	2.1	29	81	6	68	30	5	23	41	1.75
25724839--25724863	13	1.9	13	100	0	50	44	0	8	48	1.32
25736628--25736667	5	8.2	5	88	5	55	35	22	2	40	1.68
25736702--25736752	15	3.4	15	83	0	66	49	15	3	31	1.63
25740743--25740767	13	1.9	13	100	0	50	40	8	12	40	1.72
25745756--25745809	15	3.6	15	89	0	72	33	9	25	31	1.88
25746010--25746075	13	5.1	13	73	12	55	27	3	1	68	1.13
25746025--25746072	25	1.9	25	83	8	62	29	2	0	68	1.01
25746008--25746081	38	1.9	39	88	2	114	29	2	1	66	1.14
25746052--25746172	28	4.4	26	69	23	79	28	3	0	67	1.11
25746070--25746147	24	3.2	22	73	20	66	29	5	0	65	1.14
25760242--25760279	19	2.0	19	100	0	76	26	0	31	42	1.56
25760329--25760382	28	1.9	28	81	7	65	35	20	16	27	1.94
25766636--25766762	60	2.1	60	86	4	177	59	8	24	7	1.52
25766793--25766835	17	2.6	16	82	13	52	79	0	16	4	0.90
25772704--25772770	26	2.7	24	82	13	82	40	1	1	56	1.17
25772788--25772848	27	2.3	27	83	5	72	37	0	6	55	1.26
25772599--25772870	136	2.0	139	84	6	367	38	1	3	56	1.24
25772727--25772983	112	2.3	108	79	9	279	37	1	3	57	1.23
25773414--25773539	35	3.7	33	74	12	103	26	11	26	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25773447--25773559	32	3.4	32	76	11	129	23	11	28	36	1.90
25773414--25773586	67	2.6	67	90	3	269	25	12	26	35	1.92
25774454--25774510	21	2.8	21	89	5	91	24	8	19	47	1.77
25776954--25776983	7	4.1	7	95	4	51	73	0	13	13	1.10
25779178--25779215	20	2.0	20	94	5	69	21	26	15	36	1.93
25780101--25780134	2	17.0	2	93	0	50	44	0	5	50	1.26
25783343--25783402	30	2.1	29	81	6	68	31	8	21	38	1.83
25791523--25791582	30	2.1	29	81	6	68	31	8	21	38	1.83
25793730--25793768	11	3.6	11	83	16	55	15	12	0	71	1.14
25794753--25794909	66	2.4	67	79	6	158	27	12	26	33	1.93
25802463--25802642	66	2.7	67	77	8	188	28	12	25	33	1.93
25804132--25804170	20	2.0	20	89	0	60	38	2	20	38	1.66
25805508--25805560	26	2.0	26	96	0	97	35	15	20	28	1.93
25806646--25806764	61	2.0	61	91	3	195	28	16	24	30	1.97
25812759--25812809	17	3.0	17	82	5	59	35	21	31	11	1.90
25813127--25813240	56	2.0	56	98	0	219	41	8	26	23	1.83
25814362--25814659	100	3.0	101	87	3	415	38	3	23	33	1.73
25828530--25828564	2	17.5	2	100	0	70	51	0	0	48	1.00
25828592--25828625	2	17.0	2	100	0	68	50	0	0	50	1.00
25843789--25843834	20	2.3	20	92	0	74	30	4	19	45	1.70
25843879--25843931	28	1.9	27	88	3	79	30	18	22	28	1.98
25843879--25843937	28	2.1	28	84	6	75	30	20	23	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25851824--25851869	20	2.3	20	88	7	67	32	4	17	45	1.68
25851914--25851966	28	1.9	27	88	3	79	30	18	22	28	1.98
25851914--25851972	28	2.1	28	84	6	75	30	20	23	25	1.98
25854831--25854871	20	2.0	20	95	0	73	39	2	14	43	1.59
25854833--25854878	20	2.2	20	88	3	65	39	2	17	41	1.62
25866153--25866220	21	3.2	21	87	2	91	38	16	19	26	1.92
25867793--25867829	20	1.9	18	89	10	56	75	8	0	16	1.02
25867793--25867830	19	2.0	20	89	5	60	76	7	0	15	1.01
25869974--25870019	19	2.4	20	82	10	60	54	0	2	43	1.12
25876955--25876997	18	2.4	18	100	0	86	30	23	13	32	1.93
25878434--25878474	22	2.0	20	85	9	55	29	2	0	68	1.03
25878431--25878482	22	2.5	20	77	19	54	32	1	0	65	1.04
25883462--25883521	29	2.1	29	96	0	111	25	6	21	46	1.75
25889343--25889511	69	2.4	69	82	0	185	33	27	15	23	1.95
25891003--25891055	27	2.0	27	96	0	97	30	18	18	32	1.96
25894556--25894584	2	14.5	2	100	0	58	48	0	0	51	1.00
25894671--25894702	2	16.0	2	100	0	64	50	0	0	50	1.00
25898021--25898081	29	2.1	29	84	0	77	40	11	14	32	1.82
25898030--25898092	29	2.2	29	88	0	90	33	11	14	41	1.81
25898114--25898161	24	1.9	26	83	8	64	29	14	12	43	1.82
25900120--25900160	21	1.9	22	95	5	75	41	21	17	19	1.90
25904631--25904679	4	11.5	4	87	8	53	75	2	0	22	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25904631--25904679	18	2.9	16	80	14	53	75	2	0	22	0.90
25904631--25904679	22	2.3	21	80	13	55	75	2	0	22	0.90
25906381--25906415	3	11.7	3	87	0	52	68	0	2	28	1.04
25906379--25906454	9	8.4	9	72	20	52	72	2	3	21	1.13
25906895--25907014	28	4.1	27	73	17	82	69	0	7	23	1.14
25906932--25907008	23	3.2	24	82	14	79	72	0	5	22	1.04
25906965--25907008	14	3.3	14	79	20	58	72	0	4	22	1.02
25906951--25907013	19	3.4	18	79	18	67	73	0	4	22	1.02
25906915--25906998	39	2.1	38	82	14	98	72	0	4	22	1.03
25908411--25908452	18	2.3	18	87	0	57	35	2	26	35	1.70

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