genome.fa.s5.2.7.7.80.10.50.1000.47.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  47  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)
17617839--17617871	15	2.2	15	89	10	50	3	18	12	66	1.36
17618333--17618533	78	2.6	78	94	0	348	31	18	14	34	1.91
17621247--17621310	30	2.1	30	91	0	101	57	0	4	37	1.19
17621256--17621354	30	3.3	30	76	4	85	52	1	8	38	1.38
17621954--17621996	1	43.0	1	85	0	50	2	0	4	90	0.46
17623509--17623555	21	2.2	21	77	7	51	25	17	29	27	1.97
17640381--17640405	13	1.9	13	100	0	50	52	8	0	40	1.31
17654574--17654667	43	2.2	43	86	3	127	24	15	35	24	1.95
17654706--17654782	2	39.0	2	90	2	84	44	0	6	48	1.28
17655087--17655132	21	2.2	21	88	0	65	21	26	19	32	1.97
17657928--17658037	28	3.9	28	87	7	150	30	13	24	31	1.94
17657928--17658037	58	1.9	56	85	7	150	30	13	24	31	1.94
17658796--17658958	81	2.0	81	97	0	308	42	11	19	26	1.85
17660113--17660150	2	19.0	2	100	0	76	50	0	0	50	1.00
17660148--17660179	4	8.0	4	92	0	55	25	3	21	50	1.64
17660148--17660178	16	1.9	16	100	0	62	25	3	19	51	1.62
17666747--17666911	71	2.3	71	96	0	303	21	13	42	23	1.87
17667264--17667362	40	2.5	39	80	8	112	24	19	17	39	1.92
17668321--17668426	42	2.5	42	95	0	185	46	11	18	23	1.82
17668571--17668616	23	1.9	23	83	16	58	50	4	21	23	1.67
17674312--17674430	43	2.8	43	84	2	150	23	20	36	20	1.95
17674322--17674443	43	2.8	43	82	2	147	24	17	37	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17674440--17674499	23	2.6	23	89	0	84	26	1	38	33	1.67
17680604--17680971	185	2.0	185	95	0	664	27	22	16	33	1.95
17707860--17707978	43	2.8	43	83	2	141	23	18	36	21	1.95
17707986--17708041	23	2.4	23	90	0	94	25	5	41	28	1.77
17712362--17712438	37	2.1	37	87	4	111	23	36	10	29	1.88
17714106--17714267	73	2.2	72	80	10	179	41	18	19	19	1.90
17714245--17714287	20	2.2	20	87	8	61	41	18	23	16	1.89
17723210--17723377	73	2.3	73	83	4	196	40	16	20	22	1.91
17726433--17726647	108	2.0	107	98	0	403	23	14	35	26	1.93
17726471--17726704	54	4.3	54	73	14	221	22	14	37	25	1.92
17727864--17727919	28	2.0	29	82	3	69	71	1	14	12	1.23
17730265--17730295	11	2.8	11	95	0	53	54	25	6	12	1.62
17745056--17745093	20	1.9	20	94	0	67	31	5	18	44	1.72
17748756--17748893	39	3.6	39	85	4	158	27	37	11	23	1.89
17749780--17749822	20	2.1	21	86	4	61	74	0	25	0	0.82
17757668--17757755	28	2.9	29	81	8	97	38	11	12	37	1.79
17761457--17761498	21	2.0	21	86	9	59	28	0	33	38	1.58
17761822--17761867	7	6.3	7	80	9	56	19	0	2	78	0.86
17773752--17773792	21	2.0	21	90	0	64	36	31	12	19	1.89
17777547--17777862	68	4.7	68	82	5	338	36	11	18	32	1.88
17778000--17778070	31	2.3	31	85	0	88	26	25	29	18	1.98
17780229--17780400	42	4.1	42	87	3	229	24	16	33	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17786991--17787029	19	2.0	20	90	5	62	48	5	0	46	1.24
17787125--17787149	11	2.3	11	100	0	50	28	0	0	72	0.86
17797976--17798035	30	2.1	29	81	6	68	31	8	21	38	1.83
17802547--17802605	3	20.7	3	77	10	52	32	40	1	25	1.66
17802547--17802614	23	3.1	23	85	12	99	30	41	2	25	1.70
17802549--17802602	20	2.8	20	88	2	83	31	40	1	25	1.66
17802600--17802731	43	3.1	43	86	2	167	21	38	18	21	1.93
17806375--17806420	19	2.4	20	82	10	60	54	0	2	43	1.12
17808236--17808260	13	1.9	13	100	0	50	44	0	8	48	1.32
17818849--17818918	35	2.0	35	83	5	88	20	4	0	75	0.96
17832699--17832858	43	3.7	43	87	0	239	23	33	18	25	1.97
17832700--17832862	86	1.9	86	90	0	263	23	33	18	25	1.97
17832842--17832881	19	2.1	19	100	0	80	22	37	15	25	1.93
17832800--17832924	62	2.0	62	90	0	196	23	32	18	25	1.97
17832862--17832991	43	3.0	42	89	2	188	23	28	19	28	1.98
17832756--17832967	105	2.0	105	91	0	343	22	32	18	26	1.97
17832713--17832983	148	1.8	148	88	0	416	22	32	18	26	1.97
17835270--17835310	20	2.0	20	100	0	82	41	14	0	43	1.45
17842505--17842681	43	4.1	43	89	1	275	24	33	18	23	1.97
17842502--17842681	86	2.1	86	94	0	315	25	32	18	23	1.97
17844146--17844184	15	2.6	15	87	0	51	20	23	2	53	1.57
17844443--17844606	77	2.1	76	89	3	258	40	13	7	39	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17850817--17850884	3	22.3	3	80	14	77	63	4	1	30	1.23
17852773--17852797	13	1.9	13	100	0	50	48	8	0	44	1.32
17853938--17853990	28	1.9	27	88	3	79	28	22	18	30	1.98
17854035--17854080	20	2.3	20	88	7	67	45	17	4	32	1.68
17864667--17864691	13	1.9	13	100	0	50	48	8	0	44	1.32
17865933--17865970	19	2.0	19	89	0	58	42	31	0	26	1.56
17870958--17870995	19	2.0	19	89	0	58	42	31	0	26	1.56
17878153--17878190	19	2.0	19	100	0	76	42	31	0	26	1.56
17889646--17890047	203	2.0	203	85	1	536	34	18	18	29	1.94
17892907--17892966	6	10.0	6	87	0	66	18	61	15	5	1.51
17895177--17895222	19	2.6	17	83	12	65	71	0	0	28	0.86
17895180--17895221	18	2.3	18	92	8	68	73	0	0	26	0.83
17895180--17895220	19	2.2	19	91	4	66	75	0	0	24	0.80
17906019--17906061	16	2.7	16	75	10	52	44	0	0	55	0.99
17906044--17906095	23	2.4	21	75	9	52	48	0	3	48	1.20
17906087--17906192	26	4.1	25	71	16	74	37	1	1	58	1.20
17906204--17906251	21	2.2	22	92	3	80	50	0	0	50	1.00
17906139--17906290	77	2.0	77	85	7	211	40	1	0	56	1.10
17906258--17906362	47	2.2	47	76	3	113	40	0	0	59	0.98
17906267--17906381	43	2.5	47	84	8	141	46	0	0	53	1.00
17919346--17919577	103	2.3	103	86	3	317	31	18	34	15	1.93
17919448--17919728	151	1.9	152	87	3	424	30	18	34	16	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17919600--17919831	103	2.3	103	88	3	335	31	18	33	15	1.93
17919332--17919841	254	2.0	254	98	0	975	30	18	33	16	1.93
17920443--17920482	2	20.0	2	100	0	80	50	0	0	50	1.00
17921594--17921852	68	3.8	68	78	4	234	35	18	10	35	1.86
17923221--17923258	16	2.3	17	81	4	51	68	7	5	18	1.34
17926354--17926393	17	2.4	16	84	12	53	27	0	10	62	1.27
17937344--17937386	21	2.0	21	81	0	50	30	9	34	25	1.87
17941366--17941482	57	2.1	57	90	3	182	41	17	5	35	1.75
17951229--17951253	13	1.9	13	100	0	50	44	0	8	48	1.32
17955011--17955059	22	2.2	22	85	0	62	16	28	8	46	1.75
17957541--17957643	38	2.7	38	83	6	118	22	38	15	23	1.92
17957761--17957790	2	15.0	2	100	0	60	50	0	0	50	1.00
17960752--17960857	38	2.7	39	85	5	135	23	40	15	20	1.90
17960755--17960853	19	5.1	19	63	9	56	22	40	16	21	1.91
17963225--17963366	35	4.2	32	76	12	133	35	25	13	25	1.92
17963225--17963366	67	2.1	67	93	2	241	35	25	13	25	1.92
17965256--17965330	2	37.5	2	97	0	141	50	1	0	48	1.09
17966360--17966399	20	2.0	20	95	0	71	30	7	35	27	1.84
17968429--17968476	2	24.0	2	100	0	96	50	0	0	50	1.00
17968501--17968548	2	24.0	2	100	0	96	50	0	0	50	1.00
17972864--17972891	5	5.6	5	100	0	56	21	0	21	57	1.41
17979362--17979411	25	2.0	25	88	3	75	32	4	14	50	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17982929--17982963	18	1.9	18	94	0	61	48	14	11	22	1.75
17985725--17985770	19	2.4	19	89	7	67	45	2	0	52	1.13
17990830--17990855	11	2.4	11	100	0	52	73	0	0	26	0.84
17991356--17991393	20	1.9	20	100	0	76	28	5	21	44	1.73
17992789--17992813	13	1.9	13	100	0	50	44	0	8	48	1.32
18000243--18000302	30	2.1	29	81	6	68	31	8	21	38	1.83
18005762--18005799	19	2.0	19	89	0	58	31	0	26	42	1.56
18007179--18007203	13	1.9	13	100	0	50	44	0	8	48	1.32
18009765--18009964	36	5.6	35	83	8	224	20	13	39	27	1.89
18009823--18009964	69	2.1	69	89	2	214	23	12	35	28	1.91

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