genome.fa.s6.2.7.7.80.10.50.1000.55.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  55  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)
18048517--18048582	30	2.4	26	75	22	64	43	0	3	53	1.16
18051955--18051996	20	2.0	20	86	4	57	26	11	14	47	1.78
18058058--18058117	16	3.8	16	82	10	70	36	10	16	36	1.82
18058202--18058234	15	2.2	15	94	0	57	42	15	15	27	1.86
18059852--18060191	169	2.0	170	99	0	673	35	8	8	46	1.66
18061171--18061196	6	4.3	6	100	0	52	84	0	0	15	0.62
18062535--18062560	6	4.3	6	100	0	52	84	0	0	15	0.62
18069428--18069464	4	9.2	4	93	0	65	45	27	2	24	1.66
18070043--18070088	10	4.5	11	81	13	62	56	0	2	41	1.11
18070559--18070671	10	11.3	10	72	13	81	30	2	3	62	1.25
18070559--18070671	9	11.4	9	70	20	75	30	2	3	62	1.25
18070559--18070668	21	5.5	21	77	11	74	31	2	3	61	1.27
18070595--18070671	30	2.6	29	82	11	93	29	1	3	64	1.19
18071181--18071218	14	2.7	14	91	0	58	63	7	0	28	1.23
18071180--18071237	20	2.8	21	80	10	57	58	8	0	32	1.28
18083246--18083280	18	2.0	18	88	5	54	48	5	11	34	1.63
18086776--18086805	2	15.0	2	100	0	60	50	0	0	50	1.00
18087559--18087694	43	3.2	43	86	8	206	15	30	35	18	1.92
18087896--18087920	11	2.3	11	100	0	50	24	20	8	48	1.76
18091732--18091769	19	2.0	19	100	0	76	21	10	10	57	1.61
18096207--18096299	5	18.8	5	72	18	70	41	1	0	56	1.06
18096227--18096301	29	2.4	29	76	14	71	44	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18096748--18096791	23	1.9	24	90	9	74	54	0	20	25	1.45
18101406--18101460	14	3.9	14	78	7	58	61	0	9	29	1.26
18101402--18101460	21	2.8	21	81	2	73	61	0	8	30	1.26
18101591--18101625	15	2.3	15	95	0	61	31	11	28	28	1.92
18107826--18107868	18	2.6	16	80	16	52	58	6	0	34	1.25
18110130--18110161	16	2.0	16	93	0	55	18	15	12	53	1.73
18113835--18113875	21	2.0	21	90	0	64	21	31	26	19	1.97
18129625--18129775	53	3.0	51	83	7	186	37	13	23	25	1.92
18130070--18130139	28	2.5	29	74	6	72	31	20	18	30	1.96
18133909--18134366	229	2.0	229	97	0	873	23	12	13	50	1.76
18140282--18140307	2	13.0	2	100	0	52	0	0	50	50	1.00
18144575--18144630	24	2.3	24	84	0	67	37	23	17	21	1.94
18160605--18160644	20	2.0	20	100	0	80	40	5	30	25	1.77
18174615--18174663	21	2.4	21	80	6	57	18	14	0	67	1.23
18178230--18178272	23	2.0	22	86	9	61	34	2	16	46	1.60
18187413--18187465	26	2.0	26	100	0	106	18	15	18	47	1.83
18191717--18191801	40	2.1	39	82	8	100	51	8	0	40	1.32
18192477--18192512	16	2.2	17	95	5	65	69	0	25	5	1.10
18192609--18192864	107	2.4	105	82	8	320	28	1	12	56	1.46
18194775--18194837	33	1.9	33	87	6	92	26	17	41	14	1.88
18196910--18196951	21	2.0	21	90	9	68	59	9	4	26	1.48
18196947--18197262	112	3.0	109	84	12	367	59	14	0	25	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18197956--18198247	108	2.6	109	87	4	417	60	15	1	22	1.40
18205003--18205052	27	1.9	27	84	8	68	42	4	2	52	1.31
18217279--18217379	50	2.0	50	84	0	130	24	24	27	22	2.00
18219236--18219378	71	2.0	72	98	1	279	19	27	27	25	1.99
18220825--18220860	13	2.8	13	87	12	56	19	5	5	69	1.29
18244964--18245216	48	5.2	48	68	9	190	29	23	22	24	1.99
18244937--18245363	97	4.4	97	94	0	719	31	23	21	23	1.98
18265662--18265981	153	2.1	147	82	4	379	30	0	14	54	1.47
18268694--18268799	42	2.5	41	86	3	149	17	3	46	32	1.66
18273440--18273483	22	2.0	22	100	0	88	27	40	13	18	1.88
18275074--18275122	24	2.2	24	85	10	68	18	18	4	59	1.53
18294098--18294129	15	2.1	15	100	0	64	18	34	12	34	1.89
18295413--18295454	9	5.0	8	83	16	50	61	0	2	35	1.09
18295413--18295454	17	2.5	17	85	11	59	61	0	2	35	1.09
18298266--18298314	20	2.4	20	77	12	55	36	2	6	55	1.37
18298773--18298805	5	6.6	5	100	0	66	18	60	0	21	1.36
18303613--18303640	14	2.0	14	100	0	56	35	14	14	35	1.86
18303859--18303891	12	2.8	12	95	0	57	0	39	6	54	1.25
18305806--18305832	13	2.1	13	100	0	54	22	7	14	55	1.64
18306445--18306496	24	2.3	22	90	6	77	38	9	0	51	1.35
18306457--18306505	24	2.0	24	84	0	62	46	10	0	42	1.37
18306484--18306518	14	2.6	13	86	8	52	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18306838--18306891	26	2.1	26	92	0	90	35	12	11	40	1.79
18306959--18307269	155	2.0	156	99	0	615	34	9	9	47	1.68
18309766--18309816	24	2.2	24	77	22	56	33	0	5	60	1.21
18309971--18310047	14	5.0	15	71	20	52	42	15	9	32	1.78
18309987--18310026	20	2.0	20	90	0	62	50	12	10	27	1.72
18309975--18310041	34	1.9	35	90	3	109	46	13	8	31	1.74
18310010--18310049	14	2.9	14	84	0	53	42	17	7	32	1.77
18310077--18310200	64	1.9	64	100	0	248	50	4	4	40	1.45
18313027--18313055	15	1.9	15	100	0	58	20	34	0	44	1.52
18315122--18315202	31	2.6	31	80	3	92	37	17	18	27	1.93
18315525--18315612	44	2.0	44	93	0	149	46	7	9	36	1.65
18318557--18318756	46	4.6	45	87	11	301	28	23	15	32	1.95
18318593--18318756	84	2.0	84	100	0	328	29	23	15	32	1.95
18320220--18320354	44	3.1	44	70	7	121	30	25	24	19	1.98
18320341--18320837	132	3.8	131	79	8	551	28	18	24	27	1.98
18320803--18321288	100	4.8	100	91	1	785	28	19	25	26	1.99
18320829--18321288	50	9.2	50	70	2	339	29	19	25	25	1.98
18321218--18321385	85	2.0	85	98	0	327	27	18	26	27	1.98
18321431--18321983	133	4.2	133	87	3	711	29	19	23	27	1.98
18323762--18323795	16	2.1	16	88	0	50	38	2	14	44	1.61
18328128--18328210	24	3.6	24	78	10	84	49	2	9	38	1.49
18328196--18328272	22	3.7	21	75	16	70	51	2	7	37	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18329699--18329737	14	2.7	14	81	18	53	12	0	2	84	0.72
18333510--18333560	26	2.0	24	85	7	66	35	3	3	56	1.36
18338950--18338996	24	1.9	25	86	4	69	25	23	2	48	1.62
18339019--18339047	14	2.1	14	100	0	58	37	27	0	34	1.57
18340060--18340095	3	12.0	3	100	0	72	66	0	0	33	0.92
18340771--18340832	32	1.9	32	83	0	79	40	4	11	43	1.62
18348364--18348396	7	5.0	7	96	3	52	0	9	0	90	0.44
18354845--18354885	18	2.3	18	91	0	64	68	14	9	7	1.39
18365368--18365546	68	2.6	68	84	1	225	25	22	16	35	1.94
18366663--18366694	16	2.0	16	93	0	55	59	9	0	31	1.29
18373499--18373541	19	2.2	20	84	12	63	32	18	0	48	1.48
18373670--18373760	38	2.4	36	80	8	85	27	26	18	27	1.98
18374495--18374568	37	2.0	37	97	0	139	31	33	2	32	1.72
18374707--18374772	26	2.8	25	78	15	61	1	21	6	71	1.16
18381567--18381659	37	2.5	37	85	1	125	40	30	13	15	1.86
18385553--18385592	14	2.8	14	84	3	53	42	0	0	57	0.98
18393311--18393342	15	2.1	15	100	0	64	28	12	34	25	1.92
18397697--18397791	47	2.0	46	89	2	145	21	23	23	32	1.98
18399823--18399873	23	2.3	22	79	3	57	27	3	3	64	1.28
18405208--18405298	47	1.9	47	88	0	137	38	13	19	28	1.89
18405796--18405828	17	1.9	17	93	0	57	60	6	3	30	1.36
18411294--18411339	15	3.0	15	87	3	65	80	0	19	0	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18411294--18411338	22	2.1	22	87	4	65	80	0	20	0	0.72
18412271--18412331	24	2.5	24	94	0	104	36	11	24	27	1.90
18412638--18413101	88	5.3	88	88	1	669	28	18	22	29	1.98
18413040--18413276	132	1.8	131	84	2	323	29	22	22	25	1.99
18413911--18414029	45	2.7	45	84	7	154	32	21	19	26	1.97
18413910--18414258	44	7.8	44	74	10	240	31	20	20	28	1.97
18414138--18414251	45	2.6	44	91	1	183	27	21	23	27	1.99
18413956--18414287	183	1.8	182	86	3	479	31	19	19	28	1.96
18413863--18414288	44	9.5	44	72	11	227	32	19	19	28	1.96
18414374--18414430	27	2.1	27	90	0	87	40	14	31	14	1.85

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