genome.fa.s3.2.7.7.80.10.50.1000.12.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: chr3
Parameters: 2 7 7 80 10 50 1000
Length:  36364294

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   

This is table  12  of  91  ( 10898 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)
3485052--3485211	80	2.0	79	97	1	302	51	5	8	35	1.53
3486028--3486146	43	2.8	43	80	12	145	53	5	4	36	1.42
3486077--3486145	15	4.7	15	68	13	54	55	4	4	36	1.40
3486207--3486236	15	2.0	15	93	0	51	50	0	3	46	1.18
3488135--3488183	21	2.3	21	96	0	89	22	18	24	34	1.96
3488186--3488231	24	1.9	24	95	0	83	41	23	17	17	1.90
3488318--3488394	29	2.7	29	78	4	86	45	12	7	33	1.72
3502927--3503025	28	3.5	28	76	4	92	35	17	14	33	1.89
3502927--3502988	29	2.2	29	82	5	74	37	17	12	32	1.88
3502983--3503200	97	2.2	97	85	1	283	39	14	15	30	1.87
3503260--3503324	33	2.0	33	93	0	112	38	20	13	27	1.90
3524203--3524272	11	6.1	11	69	14	52	75	0	24	0	0.80
3524211--3524263	17	3.2	16	75	17	54	77	0	22	0	0.77
3524216--3524271	18	3.2	18	74	20	55	75	0	25	0	0.81
3524203--3524262	9	6.6	9	74	14	52	76	0	23	0	0.78
3525523--3525709	93	2.0	93	89	1	286	40	9	11	38	1.74
3528179--3528242	14	4.6	14	76	9	69	79	3	12	4	1.00
3528192--3528248	13	4.3	13	75	20	55	77	3	14	5	1.08
3528186--3528250	20	3.2	20	74	8	78	75	3	15	6	1.12
3528179--3528261	40	2.1	40	100	0	166	78	2	14	4	1.02
3528204--3528261	13	4.4	13	74	20	57	77	1	17	3	0.99
3540012--3540062	11	4.5	11	74	11	50	29	0	0	70	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3540006--3540069	23	2.8	22	74	6	56	29	0	1	68	0.99
3547772--3547801	3	10.0	3	92	0	51	66	3	0	30	1.07
3551338--3551374	15	2.5	15	95	0	65	51	13	0	35	1.41
3553816--3553857	17	2.4	18	80	4	50	14	0	9	76	1.02
3566133--3566627	247	2.0	247	96	0	920	39	7	10	42	1.67
3570447--3570489	22	1.9	22	85	4	59	6	4	6	81	0.98
3570622--3570653	13	2.5	13	94	0	55	53	6	6	34	1.51
3577686--3577768	34	2.4	35	76	6	89	32	30	15	21	1.95
3578471--3578925	50	9.1	50	87	3	583	38	23	7	30	1.83
3579772--3579817	9	5.1	9	84	10	67	0	13	0	86	0.56
3592748--3592813	29	2.3	29	84	2	80	43	19	7	28	1.78
3595608--3595690	35	2.4	35	74	8	87	12	36	16	34	1.86
3595824--3595912	34	2.6	34	89	1	135	33	32	15	17	1.92
3596341--3596402	11	5.7	10	78	16	61	3	9	4	82	0.93
3596341--3596401	23	2.8	21	75	22	54	3	9	4	81	0.94
3600048--3600086	20	2.0	20	85	10	53	66	2	0	30	1.05
3601335--3601399	31	2.2	28	83	8	76	38	10	13	36	1.80
3613455--3613645	51	3.7	52	77	7	203	29	10	39	20	1.86
3614555--3614602	3	15.0	3	82	8	51	68	0	2	29	1.01
3614547--3614601	27	2.1	27	86	6	78	72	0	1	25	0.94
3614559--3614621	19	3.0	21	74	23	60	65	1	1	31	1.12
3616579--3616612	17	2.0	17	88	0	50	82	0	11	5	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3623003--3623621	143	4.3	142	92	1	1033	25	23	16	33	1.96
3623003--3623621	285	2.2	285	94	0	1078	25	23	16	33	1.96
3623550--3623718	85	2.0	84	97	0	311	26	20	20	33	1.96
3623726--3623835	5	21.6	5	76	20	86	82	14	1	0	0.80
3623746--3623848	5	17.8	6	77	17	87	82	15	1	0	0.76
3623730--3623848	37	3.2	39	76	8	97	83	14	1	0	0.78
3623732--3623846	48	2.4	47	82	16	146	82	14	1	0	0.80
3623730--3623848	1	119.0	1	66	0	58	83	14	1	0	0.78
3624289--3624326	14	2.7	14	84	11	51	39	39	13	7	1.73
3624544--3624685	50	2.8	53	81	8	193	30	10	39	19	1.86
3625597--3625636	20	2.0	20	85	9	55	75	0	5	20	0.99
3625600--3625644	16	2.7	15	83	16	54	75	0	4	20	0.97
3625614--3625644	16	2.0	16	93	6	55	77	0	3	19	0.90
3626101--3626144	22	2.0	23	86	4	63	70	4	9	15	1.30
3638033--3638074	20	2.1	20	100	0	84	47	4	0	47	1.23
3640404--3640433	13	2.2	13	94	5	51	83	0	16	0	0.65
3640403--3640433	14	2.2	14	94	0	53	83	0	16	0	0.64
3641274--3641310	19	1.9	19	94	0	65	40	29	29	0	1.57
3641608--3641644	2	19.0	2	88	5	58	45	0	2	51	1.15
3644026--3644075	22	2.3	22	92	0	91	34	22	10	34	1.87
3652489--3652592	50	2.1	50	94	0	181	50	3	15	30	1.62
3653205--3653251	20	2.6	17	81	15	58	65	6	0	27	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3653241--3653279	21	1.9	21	89	5	62	66	0	0	33	0.92
3661417--3661455	11	3.5	11	86	6	53	30	5	15	48	1.66
3661487--3661519	5	6.6	5	96	0	57	36	0	21	42	1.53
3662515--3662731	108	2.0	107	93	0	371	35	9	23	31	1.86
3666019--3666071	16	3.1	17	81	10	56	69	9	20	0	1.15
3666152--3666219	34	2.0	34	85	0	91	25	11	30	32	1.91
3666166--3666247	33	2.4	34	89	2	121	17	12	31	39	1.86
3666166--3666257	33	2.7	34	81	3	105	20	11	30	36	1.89
3666196--3666267	33	2.2	33	82	5	83	20	11	27	40	1.87
3666615--3666676	25	2.5	25	82	7	65	50	8	27	14	1.71
3671081--3671130	7	7.3	7	75	20	52	68	18	0	14	1.22
3672252--3672289	2	19.0	2	100	0	76	50	0	0	50	1.00
3675319--3675393	27	2.8	27	95	0	132	38	13	0	48	1.43
3689318--3689526	111	1.9	108	88	2	310	50	15	7	26	1.70
3689667--3689750	43	2.0	42	92	0	132	38	23	7	29	1.82
3692859--3692895	4	9.8	4	82	11	51	78	0	21	0	0.75
3700890--3701060	39	4.5	39	85	2	195	24	12	35	27	1.91
3707894--3707932	2	19.5	2	100	0	78	51	0	0	48	1.00
3708000--3708041	2	21.0	2	100	0	84	50	0	0	50	1.00
3718778--3718826	25	1.9	26	87	4	73	59	4	2	34	1.28
3720991--3721035	24	2.0	22	91	8	72	71	0	22	6	1.09
3721707--3721735	14	2.1	14	93	6	51	37	6	0	55	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3724411--3724466	27	2.1	27	93	0	94	42	7	1	48	1.41
3725852--3725889	20	1.9	20	84	10	51	21	15	2	60	1.47
3726363--3726421	28	2.1	28	87	6	84	32	20	8	38	1.83
3747231--3747286	15	3.8	15	85	4	60	35	7	23	33	1.82
3747252--3747286	14	2.4	15	85	9	54	31	8	25	34	1.86
3747518--3747670	20	7.1	20	69	19	60	33	0	0	65	1.02
3747511--3747610	25	4.0	24	81	13	103	32	0	1	67	0.98
3747512--3747667	33	4.7	34	74	16	125	32	0	0	66	1.01
3748537--3748566	2	15.0	2	100	0	60	50	0	0	50	1.00
3748886--3748935	24	2.1	24	100	0	100	42	32	12	14	1.82
3755968--3756050	22	3.5	23	81	9	87	48	2	1	48	1.22
3757056--3757114	19	3.0	20	80	7	75	25	16	22	35	1.95
3771856--3771940	27	3.1	27	77	9	93	25	20	21	32	1.97
3774915--3774974	28	2.1	28	81	0	66	40	21	10	28	1.85
3790276--3790371	23	3.8	23	70	20	66	37	22	12	27	1.90
3790323--3790377	25	2.3	23	90	6	83	36	20	14	29	1.92
3790613--3790777	63	2.6	63	79	6	174	40	15	20	23	1.91
3791779--3791816	18	2.1	18	85	9	51	31	5	5	57	1.43
3794093--3794132	19	2.1	19	100	0	80	42	5	15	37	1.68
3800590--3800635	19	2.3	20	81	7	58	0	78	6	15	0.95
3810496--3810543	23	2.0	25	88	8	73	33	20	2	43	1.64
3814250--3814274	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3817671--3817711	20	2.0	20	95	0	73	43	14	0	41	1.45
3819735--3819800	27	2.4	26	90	5	96	28	22	15	33	1.94
3820464--3821337	352	2.5	351	84	4	1163	37	16	14	30	1.89
3822517--3823126	204	3.0	204	91	0	988	27	13	10	48	1.75
3822517--3823126	203	3.0	204	91	1	974	27	13	10	48	1.75
3859827--3860876	250	4.2	249	79	5	1060	44	6	13	35	1.70
3870739--3870763	13	1.9	13	100	0	50	52	0	0	48	1.00
3871664--3871688	2	12.5	2	100	0	50	48	0	0	52	1.00
3880226--3880266	18	2.3	18	86	0	55	41	4	7	46	1.53
3888881--3888922	20	2.1	20	90	0	66	21	45	0	33	1.52

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