genome.fa.s6.2.7.7.80.10.50.1000.53.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  53  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)
17269778--17269822	23	1.9	24	81	4	56	35	0	4	60	1.17
17275302--17275339	18	2.1	19	85	5	51	34	0	5	60	1.19
17276332--17276369	18	2.1	18	85	9	51	36	5	2	55	1.37
17279647--17279673	14	1.9	14	100	0	54	59	0	7	33	1.25
17280318--17280359	16	2.6	16	96	0	75	7	35	42	14	1.73
17281202--17281244	16	2.7	16	92	0	68	9	37	39	13	1.78
17280031--17281774	880	2.0	881	97	0	3305	37	21	16	23	1.93
17281989--17282039	26	1.9	27	92	4	86	13	3	41	41	1.63
17282122--17282167	23	2.0	24	87	12	69	17	0	4	78	0.91
17282745--17282861	44	2.7	44	80	7	139	30	20	17	30	1.96
17282571--17283302	233	3.1	233	95	0	1302	27	20	18	33	1.96
17282972--17283094	44	2.8	44	88	2	185	27	23	20	28	1.99
17283205--17283302	44	2.2	44	85	3	126	25	23	19	31	1.98
17295753--17295793	18	2.3	18	84	12	57	63	14	4	17	1.47
17295954--17295980	14	1.9	14	100	0	54	59	0	7	33	1.25
17296655--17296696	16	2.6	16	96	0	75	7	35	42	14	1.73
17297582--17297633	11	4.6	11	78	19	54	15	0	3	80	0.85
17297583--17297636	26	2.1	26	89	6	83	16	0	3	79	0.87
17299157--17299200	7	6.3	7	100	0	88	13	56	0	29	1.38
17302687--17302737	19	2.7	19	78	0	57	35	25	21	17	1.95
17309865--17309958	26	3.6	26	80	0	107	39	28	11	20	1.87
17316285--17316374	45	2.0	45	93	0	153	18	11	25	44	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17318045--17318095	4	12.8	4	100	0	102	74	0	0	25	0.82
17323721--17323762	21	2.0	21	81	9	50	21	2	7	69	1.25
17323647--17323836	90	2.1	91	98	2	364	24	4	10	61	1.46
17338208--17338250	18	2.4	18	80	7	52	51	0	2	46	1.13
17339155--17339276	62	2.0	62	93	0	208	51	13	10	24	1.72
17339942--17339992	16	3.1	16	78	18	52	74	3	0	21	0.98
17341570--17341618	25	2.0	25	84	8	64	22	22	4	51	1.65
17349883--17349954	31	2.3	31	77	13	76	38	13	8	38	1.75
17354238--17354280	11	3.8	11	82	17	61	34	0	2	62	1.08
17374003--17374062	17	3.4	17	66	20	50	41	10	18	30	1.83
17374001--17374077	37	2.1	37	100	0	154	36	12	20	29	1.90
17390749--17390778	16	1.9	15	93	6	51	26	10	16	46	1.78
17405161--17405199	17	2.3	17	86	8	53	56	0	0	43	0.99
17406829--17406871	20	2.2	20	79	4	52	58	4	0	37	1.19
17407834--17407868	18	2.0	18	88	5	54	34	2	2	60	1.26
17408883--17408972	44	2.0	44	86	0	126	34	10	3	52	1.51
17410840--17410877	19	2.1	18	85	9	51	65	2	2	28	1.19
17411620--17411649	5	5.8	5	92	7	51	16	0	0	83	0.65
17411595--17411649	11	4.9	11	78	12	58	14	3	1	80	0.94
17424966--17425557	44	13.8	43	69	11	329	29	18	24	28	1.98
17425054--17425427	85	4.4	84	69	12	242	28	18	24	28	1.98
17424962--17425621	129	5.1	129	95	0	1153	29	18	23	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17429693--17429727	17	2.1	17	94	0	61	34	28	2	34	1.72
17430314--17430353	17	2.3	18	83	12	57	67	0	0	32	0.91
17433961--17433994	18	1.9	17	94	5	59	29	8	29	32	1.87
17436119--17436160	20	2.0	21	86	4	59	52	0	7	40	1.29
17463684--17463726	23	2.0	22	81	9	52	74	2	20	2	1.04
17480668--17480729	31	2.0	31	90	0	97	29	6	27	37	1.82
17494695--17494731	17	2.2	17	90	9	58	29	0	2	67	1.04
17494688--17494730	22	2.0	22	86	9	61	30	0	2	67	1.03
17494694--17494732	16	2.4	16	84	16	53	33	0	2	64	1.08
17500379--17500433	27	2.1	26	86	6	76	23	12	21	41	1.88
17505714--17505755	21	2.0	21	95	0	75	26	11	9	52	1.68
17506000--17506052	24	2.3	24	83	6	65	33	0	1	64	1.05
17506020--17506065	24	2.0	23	87	12	67	34	2	4	58	1.30
17506000--17506065	23	2.9	23	82	10	73	33	1	3	62	1.20
17509315--17509355	19	2.2	19	83	12	50	51	17	0	31	1.46
17509522--17509547	12	2.2	12	100	0	52	38	0	7	53	1.30
17512830--17513007	86	2.1	87	86	5	245	44	10	21	24	1.83
17512830--17513007	29	6.2	29	79	6	173	44	10	21	24	1.83
17512830--17512970	57	2.4	58	83	1	185	45	9	21	23	1.81
17516176--17516287	44	2.5	45	81	9	124	24	26	20	28	1.99
17516478--17516762	129	2.2	129	94	0	489	30	26	18	24	1.98
17516523--17516764	44	5.6	43	74	6	202	30	25	17	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17529195--17529258	25	2.4	27	80	19	82	57	1	1	39	1.17
17534041--17534106	29	2.3	30	82	12	77	57	0	1	40	1.08
17534064--17534124	21	2.8	21	82	9	61	60	4	0	34	1.18
17555086--17555122	9	4.1	9	92	0	65	45	13	10	29	1.77
17555839--17555864	5	5.2	5	100	0	52	19	19	19	42	1.90
17556475--17556528	28	1.9	28	88	7	83	38	3	20	37	1.70
17556987--17557054	22	3.2	22	75	19	72	36	25	0	38	1.56
17557249--17557304	19	3.3	18	72	27	59	19	5	3	71	1.21
17557249--17557318	32	2.2	32	84	0	95	21	5	4	68	1.28
17558618--17558651	17	2.0	17	100	0	68	23	29	11	35	1.90
17560610--17560677	29	2.3	29	94	0	118	32	19	2	45	1.65
17560824--17560878	22	2.5	22	81	0	74	43	25	0	30	1.55
17561687--17561811	9	13.6	9	69	16	78	30	5	2	61	1.31
17561695--17561811	28	4.3	25	73	14	90	30	5	2	60	1.34
17563211--17563246	7	5.1	7	100	0	72	27	0	0	72	0.85
17563210--17563251	10	4.1	10	82	17	59	30	0	0	69	0.89
17565631--17565655	12	2.1	12	100	0	50	24	8	8	60	1.52
17570099--17570142	18	2.5	17	82	17	54	31	4	0	63	1.14
17575553--17575678	43	2.8	44	75	9	119	47	13	5	33	1.66
17577486--17577547	30	2.1	30	87	0	88	35	1	0	62	1.05
17577505--17577554	19	2.4	20	87	12	66	40	0	0	60	0.97
17578601--17578645	21	2.0	23	83	8	58	37	4	13	44	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17578766--17578806	20	2.0	22	85	9	59	14	9	4	70	1.30
17579074--17579136	31	2.1	31	82	5	76	42	6	1	49	1.37
17579314--17579413	52	1.9	51	82	9	123	30	7	8	55	1.56
17584235--17584693	181	2.6	180	96	1	843	38	16	15	29	1.89
17588351--17588393	21	1.9	24	86	13	65	39	6	2	51	1.42
17598096--17598146	26	2.0	25	81	11	59	33	7	11	47	1.69
17599130--17599183	26	2.1	26	96	0	99	44	7	20	27	1.78
17606300--17606407	36	3.0	36	97	0	207	30	21	11	37	1.88
17607902--17607985	20	4.0	21	74	18	84	46	5	1	46	1.35
17607936--17607985	21	2.4	22	90	10	86	50	4	0	46	1.20
17608267--17608302	14	2.6	14	90	0	54	52	0	11	36	1.37
17608877--17608916	18	2.2	18	86	8	55	60	2	0	37	1.11
17608887--17608937	17	2.8	19	82	11	54	60	0	0	39	0.97
17613420--17613476	2	28.5	2	100	0	114	50	0	49	0	1.00
17623495--17623528	17	2.1	17	89	10	54	26	20	0	52	1.46
17633231--17633283	27	2.0	27	96	0	97	41	15	24	18	1.89
17634944--17634984	13	3.1	13	82	6	55	17	7	19	56	1.64
17636382--17636433	21	2.4	22	87	3	70	25	25	7	42	1.81
17642106--17642200	49	1.9	49	97	0	181	25	27	22	25	2.00
17642216--17642321	39	2.6	41	85	4	126	19	27	28	24	1.99
17644227--17644267	13	3.2	13	83	16	50	29	2	0	68	1.03
17647871--17647917	19	2.3	21	79	17	55	27	19	6	46	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17655753--17656005	44	5.8	44	80	0	272	31	17	21	28	1.96
17655700--17655994	88	3.3	88	86	2	387	31	18	21	29	1.97
17655762--17656011	132	1.9	132	83	0	320	32	16	22	28	1.96
17655700--17656037	44	7.7	44	79	2	268	31	18	21	29	1.96
17655759--17656037	132	2.1	131	80	3	308	31	17	22	28	1.96
17655757--17656033	88	3.2	85	82	7	306	31	18	21	28	1.97
17659061--17659106	23	2.0	23	82	0	56	36	0	4	58	1.18
17660535--17660561	5	5.4	5	100	0	54	40	0	0	59	0.98
17660986--17661019	16	2.1	17	88	5	52	52	0	2	44	1.16
17668924--17669052	25	5.2	25	83	3	127	30	20	28	20	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