genome.fa.s6.2.7.7.80.10.50.1000.56.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  56  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)
18415727--18415762	3	12.0	3	100	0	72	33	0	0	66	0.92
18426732--18426779	23	2.1	23	92	0	78	31	25	12	31	1.92
18427326--18427359	17	2.0	17	88	0	50	44	8	0	47	1.34
18427463--18427500	15	2.6	15	83	4	51	50	2	0	47	1.15
18427575--18427608	17	2.0	17	88	0	50	44	8	0	47	1.34
18427338--18427715	122	3.1	119	66	18	340	44	9	3	41	1.55
18427290--18427787	249	2.0	249	100	0	996	45	9	3	41	1.52
18427712--18427749	15	2.6	15	83	4	51	50	2	0	47	1.15
18435146--18435197	26	2.0	26	92	0	86	38	26	23	11	1.89
18435375--18435785	27	15.3	27	78	7	334	20	16	19	43	1.88
18435388--18435785	81	4.9	79	79	8	380	20	15	19	43	1.88
18439842--18439867	3	8.7	3	100	0	52	69	0	0	30	0.89
18439961--18440001	12	3.4	13	80	16	52	60	0	12	26	1.31
18439944--18440004	24	2.5	24	82	15	63	60	0	11	27	1.31
18440138--18440205	20	3.4	19	72	20	57	63	2	14	19	1.43
18440315--18440343	4	7.2	4	100	0	58	48	0	0	51	1.00
18446885--18446912	14	2.0	14	100	0	56	78	0	7	14	0.95
18448012--18448054	15	2.6	16	82	14	52	23	6	6	62	1.45
18448025--18448054	15	1.9	16	93	6	53	26	6	6	60	1.47
18452967--18453021	6	9.0	6	79	16	60	78	0	20	1	0.85
18452973--18452997	13	1.9	13	100	0	50	72	0	24	4	1.02
18453893--18454994	44	24.5	43	68	15	196	31	19	21	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18453948--18454068	45	2.7	45	77	7	113	33	14	23	28	1.95
18453933--18454315	182	2.1	181	83	4	477	31	18	20	29	1.96
18454037--18454413	182	2.1	183	78	5	397	32	19	20	27	1.97
18454651--18454828	89	2.0	89	88	0	266	29	17	25	27	1.98
18454530--18454766	130	1.8	128	85	2	287	29	18	22	29	1.97
18454482--18455000	44	11.7	45	72	11	266	30	18	22	28	1.97
18455576--18455600	9	2.8	9	100	0	50	12	0	0	88	0.53
18455621--18455653	16	2.1	16	88	11	50	81	0	9	9	0.87
18455621--18455653	15	2.1	16	88	5	50	81	0	9	9	0.87
18456783--18456817	15	2.3	15	85	0	52	25	2	5	65	1.28
18460184--18460571	45	8.5	45	76	10	322	33	16	19	30	1.94
18460173--18460633	45	9.9	48	72	14	274	34	16	18	30	1.93
18460183--18460582	137	2.9	137	84	6	490	33	16	19	30	1.94
18460409--18460637	95	2.4	96	86	0	307	34	15	18	31	1.92
18460479--18460673	95	2.1	95	84	1	248	35	15	18	30	1.92
18460838--18460878	21	2.0	21	90	9	66	75	9	0	14	1.04
18462507--18462858	73	4.9	72	90	4	484	28	7	2	61	1.35
18462642--18462690	23	2.1	23	82	14	57	24	4	2	69	1.17
18462520--18462858	142	2.3	145	89	5	508	29	7	2	60	1.36
18462961--18462994	17	1.9	18	88	5	52	32	2	5	58	1.37
18463062--18463095	4	8.5	4	100	0	68	23	0	0	76	0.79
18468990--18469014	13	1.9	13	100	0	50	56	16	4	24	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18470317--18470341	5	5.0	5	100	0	50	80	0	20	0	0.72
18471009--18471128	44	2.7	44	79	7	136	23	26	22	27	1.99
18471295--18471628	44	7.1	44	68	17	190	28	20	18	32	1.97
18471132--18471650	142	3.7	141	87	5	716	28	21	18	32	1.96
18471467--18471646	98	1.8	98	84	2	245	28	20	19	31	1.97
18471766--18472040	43	6.4	43	88	2	338	21	22	21	34	1.97
18471777--18472040	85	3.1	85	88	3	325	21	23	21	34	1.97
18471766--18472040	128	2.1	129	85	2	374	21	22	21	34	1.97
18474123--18474148	6	4.3	6	100	0	52	0	19	0	80	0.71
18474221--18474289	21	3.1	21	81	10	59	8	8	2	79	1.02
18474252--18474276	13	1.9	13	100	0	50	12	0	0	88	0.53
18479580--18479604	5	5.0	5	100	0	50	80	0	20	0	0.72
18481251--18481319	31	2.2	31	84	0	93	46	7	5	40	1.55
18488358--18488384	4	6.8	4	100	0	54	25	0	22	51	1.48
18488962--18488991	14	2.1	15	93	6	53	33	0	16	50	1.46
18489263--18489296	10	3.4	10	83	0	50	76	8	0	14	1.01
18490924--18490955	16	2.0	16	100	0	64	18	56	25	0	1.42
18491339--18491384	25	1.9	24	86	8	67	60	10	0	28	1.30
18498234--18498266	16	2.0	17	88	5	50	63	0	18	18	1.31
18499460--18500203	128	5.8	128	92	0	1184	31	20	23	24	1.98
18500270--18500551	44	6.5	44	71	11	199	25	20	26	27	1.99
18500173--18500605	214	2.0	213	94	0	758	27	20	25	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18501441--18501477	16	2.2	18	85	9	51	78	5	13	2	1.03
18501439--18501503	29	2.1	31	83	13	82	72	6	16	4	1.22
18501441--18501495	18	2.9	19	76	10	60	76	5	14	3	1.10
18504774--18504815	19	2.4	18	81	14	52	30	11	14	42	1.81
18506482--18506518	3	12.3	3	100	0	74	67	0	0	32	0.91
18507419--18507452	6	5.7	6	100	0	68	52	14	0	32	1.42
18510107--18510137	2	15.5	2	100	0	62	48	0	0	51	1.00
18512283--18512308	8	3.2	8	100	0	52	34	11	0	53	1.37
18512324--18512360	18	2.0	20	89	10	60	29	0	2	67	1.04
18515103--18515229	44	2.9	43	77	12	143	25	19	25	29	1.99
18524386--18524430	20	2.4	19	85	7	56	53	2	0	44	1.13
18531712--18531772	31	2.0	31	93	0	104	54	0	8	37	1.31
18532525--18532577	21	2.5	21	90	0	79	30	35	9	24	1.87
18533003--18533068	34	1.9	35	96	3	125	48	10	18	22	1.78
18542798--18542860	30	2.1	30	93	0	108	25	3	15	55	1.55
18543138--18543167	16	1.9	15	93	6	51	13	53	26	6	1.64
18552275--18552302	9	3.1	9	100	0	56	32	10	10	46	1.73
18553729--18553781	16	3.3	16	89	0	79	41	3	32	22	1.72
18553767--18553855	44	2.0	46	88	4	137	29	5	28	37	1.80
18553767--18553868	39	2.4	43	79	11	113	30	4	29	35	1.79
18553926--18553983	21	2.7	22	76	7	57	56	1	0	41	1.09
18555431--18555545	31	3.7	31	95	1	203	32	14	16	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18557514--18557564	24	2.0	26	81	7	61	56	0	3	39	1.18
18557668--18557718	20	2.6	19	85	14	61	45	11	7	35	1.70
18559002--18559051	25	2.0	25	96	0	91	38	6	16	40	1.73
18568046--18568083	20	1.9	20	88	0	58	52	10	5	31	1.58
18569509--18569552	22	2.0	22	86	8	63	43	2	2	52	1.26
18570818--18570859	13	3.2	13	86	3	57	45	2	16	35	1.61
18570877--18571210	166	2.0	167	99	0	661	45	5	13	35	1.66
18574992--18575199	50	4.3	49	73	11	185	25	17	25	30	1.98
18579856--18579979	57	2.2	59	83	5	164	54	9	21	14	1.69
18580788--18580828	18	2.2	19	83	12	50	31	12	7	48	1.68
18580773--18580829	19	2.9	21	75	19	52	36	10	5	47	1.61
18580941--18580970	11	2.9	10	90	9	51	33	0	0	66	0.92
18584561--18584609	22	2.3	22	86	6	66	38	14	22	24	1.91
18584828--18584902	23	3.3	22	71	19	57	48	25	4	22	1.68
18589229--18589281	23	2.3	23	96	0	97	39	11	9	39	1.74
18594864--18594920	26	2.2	26	87	0	87	29	15	10	43	1.80
18596695--18596723	2	14.5	2	100	0	58	48	0	0	51	1.00
18596919--18596957	13	2.9	14	88	7	55	23	17	5	53	1.63
18601792--18601838	24	2.0	23	84	12	60	29	14	4	51	1.62
18602448--18602497	3	16.3	3	87	4	73	68	2	0	30	1.01
18605352--18605413	25	2.5	25	86	0	79	40	17	22	19	1.91
18608745--18608838	47	2.0	47	100	0	188	23	17	36	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18609897--18609998	42	2.4	42	88	0	150	18	26	28	26	1.98
18610204--18610583	126	3.0	126	88	3	554	29	16	23	31	1.96
18615110--18615144	18	1.9	18	94	0	61	34	8	31	25	1.86
18616990--18617065	22	3.4	21	81	13	82	44	0	30	25	1.54
18617030--18617063	11	3.0	11	95	4	59	47	0	35	17	1.48
18619113--18619138	6	4.3	6	100	0	52	30	0	0	69	0.89
18620190--18620246	15	3.5	15	71	17	51	49	1	1	47	1.22
18621134--18621184	16	3.2	16	85	0	75	43	5	23	27	1.77
18622688--18622736	25	1.9	26	91	4	82	16	16	8	59	1.60
18624643--18624679	15	2.3	17	86	9	51	16	2	8	72	1.19

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