genome.fa.s6.2.7.7.80.10.50.1000.54.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  54  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)
17669452--17669491	21	1.9	21	84	0	53	45	20	0	35	1.51
17669758--17669797	20	2.0	20	95	0	71	42	20	0	37	1.52
17673219--17673364	46	3.2	46	88	0	193	21	19	19	39	1.92
17673219--17673393	23	7.7	23	77	5	153	21	18	20	40	1.92
17673219--17673393	69	2.6	68	81	6	185	21	18	20	40	1.92
17675036--17675067	15	2.1	15	94	0	55	68	9	6	15	1.36
17676796--17676952	50	3.0	50	92	5	242	25	21	31	21	1.98
17684089--17684145	29	1.9	29	82	3	69	36	3	28	31	1.74
17688023--17688078	19	2.9	19	74	12	60	26	5	3	64	1.32
17691045--17691077	14	2.4	14	90	5	50	27	0	0	72	0.85
17691223--17691280	21	2.8	21	81	0	71	27	5	32	34	1.79
17704386--17704442	29	1.9	30	82	10	73	45	5	3	45	1.43
17705470--17705514	23	2.0	23	86	4	65	22	15	4	57	1.56
17706681--17706736	29	2.0	28	89	3	85	48	16	7	28	1.72
17708549--17708674	62	2.1	58	87	10	175	44	23	9	22	1.82
17708668--17708708	20	2.0	22	85	9	59	56	14	9	19	1.66
17708932--17708984	6	8.8	6	87	0	70	54	15	9	20	1.68
17708932--17708984	18	2.9	18	91	0	79	54	15	9	20	1.68
17708921--17708985	6	11.0	6	83	1	51	58	15	7	18	1.60
17709001--17709065	12	5.6	12	75	14	55	55	12	9	23	1.65
17709001--17709067	28	2.3	28	82	5	80	56	11	8	22	1.63
17713823--17713858	18	2.0	18	100	0	72	38	16	16	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17720369--17720412	21	2.1	21	100	0	88	38	9	13	38	1.77
17720368--17720423	21	2.8	19	87	10	85	37	8	16	37	1.80
17720412--17720456	23	2.0	23	91	4	74	35	4	13	46	1.63
17720571--17720609	19	2.0	21	85	10	55	15	10	5	69	1.34
17725931--17725978	24	2.0	24	83	4	60	45	4	8	41	1.53
17726033--17726058	11	2.4	11	100	0	52	26	15	0	57	1.38
17726675--17726732	29	2.0	30	86	3	82	41	10	8	39	1.70
17729985--17730299	159	2.0	159	83	5	404	31	14	16	38	1.88
17731559--17731602	23	1.9	23	81	9	54	36	0	18	45	1.49
17731747--17731801	25	2.2	25	83	0	74	27	21	21	29	1.99
17738863--17738932	29	2.4	29	75	0	68	64	15	1	18	1.37
17738970--17739039	29	2.4	30	90	2	106	45	34	2	17	1.63
17739433--17739487	28	1.9	28	85	10	76	49	16	23	10	1.77
17744078--17744198	27	4.5	27	83	1	145	40	13	19	26	1.88
17747637--17747695	20	3.1	19	87	4	75	55	5	0	38	1.22
17747637--17747698	19	3.2	19	86	6	81	54	4	0	40	1.22
17747644--17747709	19	3.5	17	76	15	60	51	6	0	42	1.26
17749148--17749186	19	2.1	18	86	13	53	58	5	0	35	1.20
17755277--17755390	30	3.8	30	98	1	221	48	17	6	28	1.71
17764077--17764110	15	2.3	15	100	0	68	41	11	23	23	1.87
17764702--17764940	126	1.9	126	94	0	424	41	17	17	22	1.90
17765730--17765827	49	2.0	49	97	0	187	50	6	6	37	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17773247--17773290	16	2.7	15	83	13	52	70	2	27	0	0.99
17774210--17774313	37	2.6	39	75	15	106	25	16	22	35	1.94
17774358--17774453	40	2.5	38	78	11	97	25	16	25	33	1.96
17774244--17774465	110	2.0	110	92	0	372	24	16	24	35	1.95
17780618--17780813	27	7.3	27	84	1	259	43	20	17	18	1.88
17780615--17780813	54	3.7	54	89	2	285	43	20	17	19	1.88
17780618--17780845	27	8.5	27	79	6	205	42	20	17	19	1.89
17785373--17785420	24	2.0	24	84	8	62	45	0	14	39	1.45
17789715--17789765	27	2.0	27	84	7	70	35	3	1	58	1.28
17799536--17799586	27	2.0	27	84	7	70	35	3	1	58	1.28
17799921--17799976	23	2.5	23	94	2	96	41	3	0	55	1.17
17808594--17808642	24	2.0	24	88	0	71	42	26	12	18	1.85
17808601--17808649	24	2.0	24	84	4	62	40	32	10	16	1.82
17814725--17814807	39	2.1	39	95	0	148	46	14	10	27	1.78
17815720--17815754	16	2.1	17	89	5	54	42	11	0	45	1.40
17819418--17819449	16	1.9	17	93	6	57	53	0	21	25	1.46
17846651--17847320	134	5.0	134	79	2	691	30	20	12	36	1.90
17846651--17847320	268	2.5	267	84	2	808	30	20	12	36	1.90
17847408--17847480	22	3.2	22	69	14	67	32	17	10	38	1.85
17852801--17852858	29	2.0	28	80	9	64	13	0	17	68	1.20
17853649--17853780	54	2.4	54	81	6	151	28	6	42	22	1.79
17853715--17853757	21	2.0	21	100	0	86	27	9	48	13	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17853736--17853858	33	3.8	32	77	7	122	28	4	44	22	1.71
17858390--17858603	81	2.6	81	84	0	293	29	39	16	14	1.88
17858390--17858635	27	9.1	27	86	0	240	29	38	16	15	1.90
17866913--17866950	12	3.1	13	77	14	53	55	7	0	36	1.29
17867191--17867436	49	5.0	49	100	0	492	26	12	16	44	1.82
17868824--17868866	21	2.2	19	83	8	50	76	2	11	9	1.10
17872698--17872735	12	3.1	13	77	14	53	55	7	0	36	1.29
17872976--17873074	49	2.0	49	100	0	198	27	12	16	44	1.83
17883757--17883786	3	10.0	3	100	0	60	33	0	0	66	0.92
17886861--17886953	38	2.4	38	89	3	134	33	13	16	36	1.88
17888642--17888730	46	1.9	46	90	0	142	28	25	10	35	1.88
17889240--17889270	15	2.1	15	100	0	62	48	12	6	32	1.67
17889972--17890019	17	2.9	17	90	3	71	54	18	0	27	1.44
17890474--17890515	22	1.9	22	85	0	57	21	23	28	26	1.99
17891846--17891905	28	2.1	28	93	0	102	41	13	20	25	1.88
17894117--17894261	72	2.0	73	98	1	283	46	2	11	39	1.54
17894650--17894686	19	1.9	19	88	0	56	62	0	2	35	1.10
17894684--17894742	25	2.4	25	82	5	84	55	0	1	42	1.09
17894924--17894968	6	7.5	6	84	0	63	31	2	64	2	1.18
17895229--17895264	19	1.9	18	88	5	54	16	8	0	75	1.04
17895229--17895264	18	1.9	19	88	5	56	16	8	0	75	1.04
17916582--17916616	16	2.1	16	94	5	61	65	2	0	31	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17919901--17919946	24	1.9	24	86	0	65	47	0	4	47	1.21
17920088--17920138	23	2.2	23	85	0	66	35	19	11	33	1.88
17920255--17920279	12	2.1	12	100	0	50	52	8	24	16	1.70
17922574--17922606	14	2.4	14	94	0	57	33	0	15	51	1.43
17925277--17925305	5	5.8	5	100	0	58	17	0	0	82	0.66
17936864--17936955	45	2.0	46	91	4	150	32	11	19	35	1.88
17938708--17938773	19	3.6	19	75	18	61	31	0	3	65	1.08
17938736--17938782	19	2.5	20	75	10	53	34	0	6	59	1.23
17941721--17941772	24	2.2	24	85	0	68	53	9	3	32	1.51
17943082--17943123	20	2.2	20	83	12	52	26	16	2	54	1.54
17943307--17943421	32	3.6	32	80	14	139	41	11	9	37	1.74
17946037--17946087	15	3.5	15	71	15	52	23	13	13	49	1.78
17947785--17947828	12	3.7	12	82	17	56	36	2	36	25	1.69
17951828--17951873	23	2.0	23	95	0	83	30	19	4	45	1.70
17963647--17963677	7	4.4	7	100	0	62	16	70	0	12	1.16
17964751--17964998	124	2.0	124	99	0	487	24	22	16	36	1.94
17966485--17966861	37	10.4	36	71	6	181	30	22	10	36	1.88
17966695--17966832	71	1.9	71	82	0	168	31	23	10	34	1.88
17972124--17972205	34	2.4	34	82	8	103	41	6	10	41	1.65
17977163--17977196	18	1.9	17	94	5	59	47	2	0	50	1.16
17977181--17977350	68	2.4	71	74	10	168	52	3	2	40	1.33
17990349--17990395	11	4.3	11	83	0	58	23	8	6	61	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18006684--18006815	64	2.1	64	97	0	246	32	15	21	30	1.95
18008032--18008086	25	2.2	26	80	9	69	29	16	25	29	1.97
18016759--18016801	6	6.7	6	80	15	50	58	16	4	20	1.56
18016821--18016887	9	7.4	9	83	6	91	26	11	20	40	1.88
18016821--18016887	27	2.5	27	92	0	107	26	11	20	40	1.88
18017643--18017702	28	2.1	28	81	0	66	61	6	3	28	1.37
18017879--18017923	21	2.1	21	84	8	56	46	4	6	42	1.50
18019320--18019365	24	1.9	24	81	0	56	43	15	6	34	1.72
18039262--18039376	25	4.6	25	79	8	110	31	18	24	26	1.97
18048529--18048573	19	2.3	20	84	3	56	40	0	2	57	1.11

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