genome.fa.s5.2.7.7.80.10.50.1000.17.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  17  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)
6147335--6147463	27	4.8	27	72	13	104	31	12	15	40	1.84
6150129--6150250	39	3.1	39	71	2	100	40	18	7	32	1.79
6152181--6152220	21	1.9	21	90	10	64	25	0	7	67	1.16
6156383--6156424	20	2.1	20	86	0	57	28	16	9	45	1.79
6160027--6160137	49	2.3	49	91	0	186	23	35	17	24	1.95
6161528--6161564	17	2.2	17	90	4	58	32	10	24	32	1.90
6161528--6161568	16	2.5	17	88	7	59	29	9	31	29	1.89
6171224--6171253	14	2.1	14	100	0	60	16	6	30	46	1.73
6173328--6173368	21	1.9	22	90	5	66	68	4	0	26	1.10
6173466--6173505	20	2.0	20	95	0	71	52	10	10	27	1.66
6173931--6173992	27	2.3	27	80	5	63	50	1	37	11	1.48
6181674--6181791	57	2.1	57	85	3	157	38	10	1	49	1.47
6182019--6182066	16	3.0	16	78	6	53	64	4	4	27	1.30
6186534--6186665	71	1.9	71	82	3	167	46	5	15	32	1.68
6186904--6186943	21	1.9	21	84	0	53	40	0	0	60	0.97
6190849--6190893	15	3.0	15	83	0	63	31	2	28	37	1.69
6191084--6191241	33	5.2	30	70	24	109	28	4	0	66	1.15
6191167--6191248	15	5.6	15	73	12	64	26	2	0	70	0.99
6191167--6191245	5	15.2	5	72	15	54	26	2	0	70	0.99
6199190--6199233	22	2.0	22	86	0	61	43	18	6	31	1.76
6201830--6201867	19	2.0	19	89	0	58	42	26	0	31	1.56
6205441--6205484	17	2.6	17	88	0	61	56	2	4	36	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6205950--6205974	13	1.9	13	100	0	50	16	0	4	80	0.87
6225408--6225570	81	2.0	81	90	4	258	26	15	11	46	1.81
6231404--6231430	2	13.5	2	100	0	54	48	0	0	51	1.00
6234886--6235233	53	6.6	53	87	0	426	23	15	39	21	1.91
6236019--6236056	20	1.9	20	84	10	51	71	2	7	18	1.23
6236065--6236106	17	2.2	20	84	12	54	66	2	0	30	1.04
6236338--6236422	18	5.0	17	73	17	70	71	3	1	23	1.08
6236363--6236422	10	6.4	9	81	9	59	71	3	1	23	1.10
6236355--6236422	28	2.5	29	77	15	74	72	2	1	23	1.07
6238933--6239068	67	2.0	67	95	0	245	46	10	15	27	1.78
6241859--6241900	21	2.0	22	85	4	59	52	0	2	45	1.13
6241868--6241931	21	3.0	21	82	6	60	57	3	1	37	1.24
6241885--6241931	20	2.2	21	85	7	60	61	4	2	31	1.27
6243122--6243164	14	3.3	12	81	15	50	39	2	2	55	1.25
6243561--6243607	19	2.4	19	86	10	60	53	2	2	42	1.25
6243674--6243706	17	1.9	17	100	0	66	54	0	0	45	0.99
6243698--6243732	13	2.6	13	90	4	52	74	5	2	17	1.14
6245099--6245270	27	6.4	27	78	11	133	34	12	9	44	1.74
6245153--6245209	24	2.3	25	81	3	71	33	12	8	45	1.72
6245144--6245270	27	4.8	28	80	13	135	33	12	10	43	1.76
6245195--6245294	27	3.7	26	83	14	114	32	13	10	45	1.76
6251510--6251773	133	2.0	132	88	5	383	32	18	14	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6253898--6253935	16	2.3	17	90	4	60	34	5	0	60	1.19
6253966--6254005	7	5.6	7	82	5	53	35	0	0	65	0.93
6253943--6254005	14	4.4	14	77	15	58	34	1	1	61	1.15
6254770--6254802	9	3.7	9	95	0	57	75	0	3	21	0.93
6261747--6261799	2	26.5	2	92	0	79	45	1	3	49	1.31
6264594--6264639	15	3.1	15	81	12	58	56	17	2	23	1.52
6265992--6266017	13	2.0	13	100	0	52	46	7	0	46	1.31
6267248--6267285	19	2.0	19	94	0	67	39	26	2	31	1.70
6269609--6269648	5	8.0	5	91	0	53	40	17	0	42	1.49
6269685--6269735	15	3.4	15	78	10	59	50	17	1	29	1.57
6271959--6272002	21	2.1	21	100	0	88	38	4	9	47	1.56
6272249--6272286	19	2.0	19	94	0	67	42	28	2	26	1.69
6278640--6278681	2	21.5	2	85	4	59	52	0	0	47	1.00
6281921--6281978	30	1.9	30	89	0	89	34	10	17	37	1.84
6282886--6282934	22	2.2	22	100	0	98	22	18	10	48	1.77
6283715--6283850	43	3.2	43	86	5	177	27	16	32	24	1.96
6284055--6284110	21	2.7	21	88	0	85	37	23	17	21	1.94
6285137--6285183	23	2.0	23	84	8	60	51	0	0	48	1.00
6286978--6287015	16	2.4	16	82	8	51	42	0	2	55	1.14
6287725--6287771	14	3.4	14	77	19	53	59	14	0	25	1.36
6294830--6296759	990	1.9	991	90	3	3096	31	13	14	41	1.84
6302465--6302498	15	2.3	15	90	10	52	55	0	2	41	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6304923--6304948	2	13.0	2	100	0	52	50	50	0	0	1.00
6305923--6306004	42	2.0	42	90	0	128	35	13	7	43	1.72
6308254--6308427	86	2.0	86	97	0	330	43	13	7	35	1.72
6312083--6312132	25	2.0	25	92	0	82	40	12	16	32	1.84
6313107--6313151	22	2.1	23	84	12	60	60	8	2	28	1.39
6314576--6314689	38	3.0	38	84	0	129	28	28	9	34	1.88
6316649--6316690	15	2.7	15	85	10	50	66	9	0	23	1.21
6317342--6317384	17	2.6	17	77	3	52	69	2	0	27	1.00
6317560--6317598	18	2.2	18	90	0	60	51	23	7	17	1.71
6317601--6317632	10	3.1	10	91	8	55	28	9	18	43	1.81
6317601--6317632	11	3.0	11	95	4	57	28	9	18	43	1.81
6322413--6322447	17	2.0	18	94	5	63	54	5	0	40	1.24
6322852--6322899	17	2.7	18	81	12	55	22	4	0	72	1.01
6325339--6325378	20	2.1	19	85	4	53	7	22	7	62	1.47
6329253--6329397	56	2.6	55	89	4	220	27	33	14	24	1.94
6332344--6332468	48	2.6	48	78	7	128	39	26	10	24	1.87
6353436--6353476	2	21.0	2	85	5	57	46	2	0	51	1.14
6353716--6353752	19	1.9	19	89	10	58	16	8	13	62	1.54
6353945--6354020	30	2.5	30	86	0	107	28	19	17	34	1.94
6354231--6354297	32	2.1	32	88	0	98	49	22	8	19	1.76
6373031--6373098	17	4.2	17	75	19	65	23	1	0	75	0.89
6373036--6373098	30	2.1	30	88	8	94	23	0	0	76	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6373040--6373095	23	2.4	23	85	14	71	23	0	0	76	0.78
6373045--6373108	30	2.1	30	82	5	76	25	1	0	73	0.92
6374005--6374172	88	1.9	87	88	1	255	16	33	14	35	1.89
6374139--6374213	37	2.1	36	90	9	127	2	32	20	44	1.65
6374199--6374226	2	14.0	2	100	0	56	0	50	0	50	1.00
6375034--6375067	16	2.2	16	89	5	52	35	0	2	61	1.11
6375296--6375342	22	2.1	22	84	7	60	63	0	0	36	0.94
6395718--6396036	47	6.8	47	81	4	349	26	17	33	22	1.96
6395738--6396033	141	2.1	141	85	2	389	26	16	33	22	1.96
6395718--6396042	94	3.5	93	85	3	411	27	17	33	22	1.96
6396035--6396139	47	2.3	47	89	1	158	26	18	26	28	1.98
6396629--6396761	31	4.3	31	83	4	144	27	18	17	36	1.93
6396645--6396761	62	1.9	62	85	3	164	24	18	17	38	1.93
6398955--6399222	31	8.6	31	84	0	320	23	17	19	39	1.92
6400769--6400828	16	3.8	16	73	6	59	35	10	1	53	1.44
6400754--6400932	52	3.5	52	79	9	185	35	8	2	52	1.47
6401931--6402159	31	7.5	31	89	3	329	23	16	19	40	1.91
6401931--6402159	61	3.7	61	90	2	334	23	16	19	40	1.91
6407171--6407276	54	2.0	54	94	0	185	16	12	42	28	1.85
6407192--6407362	86	2.0	86	92	0	288	16	12	40	29	1.86
6407278--6407435	54	2.9	54	93	0	262	18	13	41	26	1.88
6409583--6409782	31	6.5	31	93	0	310	39	19	16	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6413259--6413313	28	1.9	29	92	3	94	69	0	0	30	0.89
6414309--6414457	80	1.9	80	90	2	237	32	8	18	41	1.79
6421420--6421454	8	4.1	8	86	13	52	88	0	0	11	0.51
6421422--6421455	10	3.6	10	92	7	54	91	0	0	8	0.43
6425161--6425270	40	2.8	40	92	0	184	21	18	39	20	1.93
6429394--6429438	20	2.2	20	96	0	81	17	17	31	33	1.94
6429549--6429598	2	25.0	2	79	0	55	46	6	4	44	1.47
6429553--6429598	16	2.9	16	86	0	65	45	6	4	43	1.49
6429834--6429969	60	2.3	60	84	0	182	24	17	22	35	1.95
6434408--6434441	17	1.9	18	94	5	61	32	26	0	41	1.56

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