genome.fa.s12.2.7.7.80.10.50.1000.12.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:  43060996

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   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   

This is table  12  of  128  ( 15303 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)
3476387--3476428	22	2.0	21	85	4	57	35	21	9	33	1.86
3479740--3479882	76	1.9	75	89	1	223	18	15	26	39	1.90
3479740--3479892	38	4.1	38	83	2	202	18	15	27	39	1.90
3485756--3486047	50	5.9	51	80	8	309	21	31	19	27	1.98
3485808--3486037	100	2.3	100	91	0	361	21	31	19	27	1.97
3487212--3487806	299	2.0	299	90	2	937	32	18	16	31	1.94
3491830--3492111	39	7.2	38	75	4	224	34	30	18	17	1.94
3491840--3492111	117	2.3	117	81	5	291	34	29	19	16	1.94
3491880--3492111	78	3.0	77	80	5	252	33	30	19	16	1.95
3492091--3492135	23	2.0	23	91	8	74	40	40	8	11	1.72
3494115--3494993	299	2.9	298	88	1	1249	30	19	17	32	1.95
3497264--3497337	38	1.9	39	94	2	132	32	4	0	63	1.13
3500406--3500822	39	10.7	39	83	1	485	32	33	17	17	1.93
3506779--3506819	20	2.0	20	100	0	82	43	14	14	26	1.84
3513840--3514384	92	5.9	92	85	2	702	31	8	16	43	1.78
3513840--3514384	154	3.5	152	87	3	736	31	8	16	43	1.78
3513840--3514384	31	17.7	31	87	2	643	31	8	16	43	1.78
3516109--3516148	18	2.1	18	90	9	62	55	7	0	37	1.29
3517700--3517765	5	12.8	5	82	9	71	0	21	1	77	0.85
3517702--3517774	19	4.1	18	73	18	71	0	19	1	79	0.81
3517710--3517773	10	6.2	10	81	3	74	0	17	1	81	0.77
3519044--3519143	3	33.3	3	100	0	200	0	33	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3520597--3520638	16	2.6	16	85	7	59	50	0	0	50	1.00
3525721--3525775	21	2.7	21	82	2	67	43	12	29	14	1.82
3527047--3527633	110	5.4	110	88	6	800	33	18	17	30	1.94
3527047--3527634	218	2.7	219	90	3	839	33	18	17	30	1.94
3527987--3528029	19	2.3	18	80	7	50	58	0	2	39	1.11
3528112--3528160	3	16.3	3	91	0	80	63	0	4	32	1.13
3529528--3529708	95	1.9	94	90	1	290	31	23	16	29	1.96
3531522--3531568	7	6.6	7	88	11	69	14	17	0	68	1.22
3531531--3531577	21	2.2	20	85	14	60	10	14	0	74	1.07
3532398--3532453	21	2.6	22	80	8	71	0	19	0	80	0.71
3532405--3532450	14	3.2	14	93	3	74	0	15	0	84	0.62
3533182--3533218	17	2.1	18	90	5	58	45	0	24	29	1.53
3541971--3542086	48	2.4	48	86	2	162	26	31	17	24	1.97
3550977--3551009	11	2.9	12	86	13	52	33	0	0	66	0.92
3551010--3551050	18	2.2	20	86	8	59	65	9	0	24	1.22
3551133--3551195	30	2.1	30	93	0	108	60	14	0	25	1.34
3551277--3551319	21	2.0	22	81	9	52	74	9	2	13	1.16
3551277--3551322	24	1.9	24	82	8	58	71	8	2	17	1.21
3554398--3554465	29	2.4	27	79	15	75	33	2	7	55	1.42
3555569--3555676	46	2.5	43	81	11	125	37	28	3	30	1.75
3555586--3555676	46	2.0	44	87	4	128	39	27	4	28	1.76
3555656--3555692	16	2.3	16	100	0	74	21	35	5	37	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3559315--3559379	32	2.0	32	85	5	87	36	13	15	33	1.87
3561101--3561173	15	4.7	15	75	14	76	45	0	1	53	1.09
3561099--3561173	33	2.4	32	86	6	100	46	0	1	52	1.09
3563348--3563404	22	2.5	23	88	2	80	7	36	10	45	1.66
3565404--3565442	20	2.0	20	85	10	53	58	2	0	38	1.12
3566957--3567010	16	3.4	16	81	0	63	29	29	1	38	1.68
3573835--3573880	18	2.6	18	89	6	67	41	4	0	54	1.20
3574033--3574098	21	3.3	19	89	6	71	27	39	10	22	1.87
3574040--3574098	21	2.8	21	94	0	100	28	37	10	23	1.88
3581249--3581549	147	2.0	147	91	3	491	34	11	19	33	1.89
3587295--3587562	38	6.9	38	84	1	266	14	20	30	34	1.93
3587362--3587425	22	3.2	22	60	32	52	9	21	34	34	1.86
3587340--3587620	41	7.1	41	82	2	204	16	20	28	34	1.94
3588090--3588130	21	2.0	21	85	9	57	31	4	19	43	1.72
3593173--3593273	38	2.6	38	84	4	121	16	20	27	34	1.95
3593186--3593350	41	4.1	41	77	14	164	15	19	27	36	1.92
3593291--3593370	41	2.0	41	82	0	97	17	12	28	41	1.86
3596501--3596531	13	2.4	13	100	0	62	41	0	22	35	1.54
3598745--3598807	13	4.8	13	86	0	81	44	14	7	33	1.74
3600431--3600976	272	2.0	273	99	0	1085	39	11	11	37	1.78
3601343--3601463	34	3.6	34	73	3	118	38	1	15	43	1.57
3601343--3601469	33	3.8	34	74	9	100	39	1	14	44	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3601518--3601916	126	3.2	126	88	2	552	38	16	16	28	1.90
3605420--3605462	18	2.4	18	88	0	59	39	9	27	23	1.85
3607018--3607056	20	1.9	21	89	5	62	64	0	7	28	1.21
3607223--3607273	11	4.6	11	85	4	68	52	0	25	21	1.47
3622396--3622422	12	2.2	12	100	0	54	37	0	14	48	1.45
3631414--3631464	19	2.7	19	84	0	75	58	15	7	17	1.60
3644146--3644203	20	3.0	20	76	2	55	31	13	27	27	1.94
3654125--3654228	40	2.6	40	85	0	136	33	20	25	20	1.97
3654190--3654303	60	1.9	60	81	3	140	42	17	17	22	1.89
3656815--3657004	51	3.7	51	77	8	208	28	16	23	31	1.96
3663166--3663192	3	9.0	3	100	0	54	33	0	0	66	0.92
3685750--3685862	43	2.6	42	78	13	131	23	22	28	26	1.99
3686808--3686848	21	1.9	22	85	14	59	21	0	21	56	1.43
3712867--3713169	151	2.0	151	100	0	606	36	5	15	41	1.72
3726527--3726562	18	1.9	19	88	5	56	41	5	8	44	1.58
3733603--3733784	94	1.9	95	88	3	278	40	24	18	17	1.91
3741496--3741552	19	3.0	19	73	0	60	59	1	5	33	1.30
3742321--3742377	20	2.9	20	74	12	55	28	8	5	57	1.50
3742552--3742624	22	3.3	22	67	14	60	28	5	19	46	1.72
3742574--3742643	20	3.3	20	66	14	59	28	5	15	50	1.67
3742558--3742644	44	2.0	44	95	0	156	31	5	17	45	1.71
3764147--3764229	35	2.4	35	83	0	94	27	16	15	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3775138--3775322	101	1.8	102	89	3	293	25	16	26	31	1.96
3775130--3775322	51	3.8	51	78	2	192	25	15	27	31	1.96
3775329--3775418	46	2.0	44	82	8	110	25	16	26	31	1.97
3775548--3775579	16	2.0	16	93	0	55	59	0	15	25	1.36
3778472--3778582	28	3.9	28	72	13	91	29	26	15	28	1.96
3780771--3780817	2	23.5	2	86	0	67	44	0	6	48	1.28
3780843--3780881	21	1.9	20	89	5	60	38	0	25	35	1.56
3781990--3782015	13	2.0	13	100	0	52	38	7	23	30	1.83
3782358--3782646	50	5.7	50	84	4	337	25	20	29	23	1.99
3782402--3782695	150	2.0	149	83	3	376	27	21	28	22	1.99
3782895--3782933	12	3.2	12	85	0	51	51	5	23	20	1.67
3785297--3785350	28	1.9	28	92	0	90	42	5	22	29	1.76
3787124--3787301	46	3.9	46	87	1	241	33	20	16	29	1.95
3793696--3793748	18	2.8	18	74	5	52	20	1	30	47	1.61
3795286--3795328	22	2.0	22	86	8	63	39	0	2	58	1.11
3798825--3798852	14	2.0	14	100	0	56	64	7	0	28	1.20
3806966--3807024	18	3.3	18	71	4	57	37	16	5	40	1.71
3806962--3807032	35	2.0	35	97	0	133	32	19	5	42	1.75
3822426--3822456	14	2.2	14	94	0	53	25	16	9	48	1.76
3835075--3835116	21	2.0	20	86	13	59	21	50	9	19	1.75
3846660--3846831	43	4.0	43	100	0	344	32	16	9	41	1.80
3849365--3849423	28	2.1	28	81	9	66	37	20	15	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3849382--3849522	29	4.9	29	83	3	140	34	19	14	31	1.93
3849562--3849629	29	2.5	27	81	11	77	35	23	11	29	1.90
3851147--3851245	52	1.9	51	87	6	146	21	20	21	37	1.95
3859411--3859459	14	3.5	14	83	10	73	55	6	6	32	1.49
3859400--3859462	28	2.2	28	91	0	108	50	9	4	34	1.56
3871002--3871401	27	14.9	27	80	6	402	34	19	21	24	1.96
3871002--3871399	54	7.4	54	86	0	490	34	19	20	24	1.96
3871002--3871399	81	4.9	81	84	1	494	34	19	20	24	1.96
3871435--3871493	24	2.5	24	86	5	84	23	8	22	45	1.79
3871619--3871674	26	2.2	26	86	0	76	12	26	30	30	1.93

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   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128