genome.fa.s4.2.7.7.80.10.50.1000.11.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: chr4
Parameters: 2 7 7 80 10 50 1000
Length:  31929104

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   

This is table  11  of  82  ( 9773 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)
3485007--3485117	45	2.5	46	76	4	127	29	9	23	36	1.87
3484877--3485146	67	4.0	66	78	1	225	23	8	25	42	1.82
3485089--3485146	23	2.6	22	77	2	62	18	10	29	41	1.84
3485132--3485162	16	1.9	16	93	0	53	22	22	29	25	1.99
3485001--3485296	151	2.0	152	79	3	328	25	9	27	38	1.86
3485197--3485302	23	4.7	23	76	5	99	20	6	33	38	1.79
3485152--3485279	45	2.8	45	79	2	132	24	7	27	41	1.80
3485263--3485337	23	3.3	23	79	1	62	18	10	29	41	1.84
3490027--3490152	28	4.3	29	79	11	141	41	10	7	41	1.66
3490027--3490184	28	5.4	27	77	11	127	40	10	8	40	1.70
3490027--3490152	59	2.2	58	85	4	173	41	10	7	41	1.66
3493114--3493151	20	1.9	20	100	0	76	28	5	21	44	1.73
3513885--3513936	18	2.7	18	82	8	50	53	0	1	44	1.11
3522505--3522560	22	2.5	22	77	11	60	21	10	0	67	1.20
3523172--3523215	23	1.9	23	85	0	61	25	2	2	70	1.10
3524095--3524277	85	2.2	85	89	3	271	7	40	11	39	1.70
3524391--3524419	12	2.3	13	94	5	51	17	0	17	65	1.27
3525610--3525788	54	3.3	54	93	0	313	18	13	41	26	1.87
3531971--3532011	20	2.0	20	100	0	82	19	0	29	51	1.47
3532566--3532702	72	1.9	73	84	4	188	38	18	18	24	1.93
3535050--3535145	33	2.9	33	87	6	149	33	28	11	27	1.91
3539545--3539609	27	2.4	27	89	0	94	40	32	12	15	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3546996--3547056	29	2.1	29	96	0	113	29	16	24	29	1.96
3554062--3554106	15	3.0	14	87	12	63	37	20	6	35	1.79
3563802--3564002	73	2.8	73	82	0	258	25	21	13	39	1.90
3565673--3565773	32	3.1	32	95	1	175	37	15	8	37	1.79
3565682--3565796	32	3.9	26	85	13	88	33	16	10	40	1.83
3565747--3565796	26	1.9	26	84	8	66	30	18	12	40	1.86
3565937--3565977	21	2.0	21	95	0	73	41	31	12	14	1.83
3565896--3566032	66	2.1	66	90	0	211	30	23	15	30	1.95
3565960--3566058	45	2.2	45	83	0	135	27	18	19	35	1.95
3579603--3579657	26	2.1	26	86	6	76	61	16	5	16	1.51
3579790--3580254	212	2.1	215	82	6	557	46	4	6	42	1.51
3580212--3580254	2	22.0	2	81	13	54	46	0	2	51	1.13
3584565--3584610	22	2.1	22	88	8	67	21	0	0	78	0.76
3585397--3585468	36	2.0	36	97	0	135	36	12	13	37	1.83
3587676--3587808	40	3.3	40	90	2	196	23	13	29	33	1.93
3591953--3592008	22	2.5	22	91	0	85	14	37	21	26	1.92
3603189--3603217	2	14.5	2	100	0	58	51	0	0	48	1.00
3611684--3611724	20	2.0	20	85	0	55	68	0	29	2	1.03
3627632--3627689	28	2.1	28	87	6	82	29	17	15	37	1.90
3627747--3627856	26	4.2	25	75	5	94	26	18	17	38	1.92
3628715--3628764	25	2.0	26	96	4	93	58	0	0	42	0.98
3631068--3631336	133	2.0	134	91	2	434	49	5	7	37	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3644398--3644434	2	18.5	2	100	0	74	51	0	0	48	1.00
3645723--3645751	11	2.7	11	94	5	51	55	0	0	44	0.99
3649741--3649920	88	2.0	89	95	1	326	42	10	9	37	1.72
3657062--3657095	17	2.0	17	88	11	52	58	0	0	41	0.98
3657057--3657101	22	2.1	22	83	4	56	62	0	0	37	0.96
3657862--3658080	27	8.2	28	72	9	120	41	13	7	37	1.74
3657852--3658025	55	3.2	55	81	3	190	43	13	6	37	1.69
3657884--3657957	28	2.7	27	77	8	78	43	12	8	36	1.72
3658004--3658050	24	2.0	24	86	0	67	46	12	6	34	1.67
3657951--3658102	76	2.0	78	87	6	220	43	14	7	34	1.74
3660674--3660757	31	2.7	31	90	0	132	22	23	29	23	1.99
3661145--3661174	6	5.0	6	91	0	51	46	0	3	50	1.18
3662049--3662102	24	2.4	21	77	16	63	22	33	18	25	1.97
3662056--3662126	24	3.0	24	91	0	106	22	29	22	25	1.99
3663710--3663840	43	3.0	43	84	2	174	25	17	32	23	1.97
3663879--3663905	2	13.5	2	100	0	54	0	0	48	51	1.00
3668828--3669068	63	3.9	63	86	3	326	36	11	29	21	1.89
3668828--3669049	123	1.8	123	88	0	345	36	12	28	21	1.90
3669204--3669303	27	3.4	27	68	21	83	40	11	26	23	1.87
3669219--3669319	36	3.1	36	66	24	103	40	13	24	20	1.89
3669195--3669364	63	2.7	63	91	1	270	38	11	26	23	1.89
3668901--3669483	292	2.0	289	88	2	873	35	10	24	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3670081--3670158	38	2.0	39	92	5	131	33	14	17	34	1.90
3674282--3674312	7	4.3	7	95	4	53	67	0	32	0	0.91
3678977--3679447	207	2.3	205	81	3	545	36	11	11	41	1.76
3683777--3683845	31	2.3	30	78	9	88	36	2	1	59	1.21
3689394--3689425	12	2.7	12	95	0	55	34	31	15	18	1.93
3691069--3691114	23	2.0	23	82	4	56	26	10	4	58	1.50
3691179--3691260	41	2.0	41	95	0	146	46	0	39	14	1.45
3695796--3695848	2	27.0	2	96	3	99	50	0	0	49	1.00
3695889--3695940	2	26.0	2	100	0	104	50	0	0	50	1.00
3698538--3698573	6	5.8	6	93	6	63	86	0	0	13	0.58
3699132--3699175	12	3.8	12	87	6	63	79	0	20	0	0.73
3699456--3699591	20	6.7	20	73	16	77	69	1	4	24	1.15
3699549--3699604	12	4.8	12	84	2	60	75	0	3	21	0.96
3699560--3699638	42	2.0	41	82	12	101	70	0	6	22	1.09
3702930--3702967	14	2.7	14	80	15	51	13	18	0	68	1.21
3702988--3703047	28	2.1	28	84	0	75	35	20	10	35	1.86
3704211--3704253	22	1.9	23	90	4	70	16	34	9	39	1.80
3705017--3705065	2	24.5	2	100	0	98	48	0	0	51	1.00
3705640--3705676	19	1.9	19	88	0	56	29	32	18	18	1.96
3706558--3706598	17	2.4	17	80	19	50	41	21	0	36	1.54
3706388--3706615	118	1.9	118	88	0	339	42	8	11	37	1.72
3708574--3708655	23	3.0	28	70	23	68	32	1	1	64	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3708623--3708712	20	4.7	20	69	20	66	41	0	0	58	0.98
3713481--3713520	14	2.9	14	80	0	53	50	25	17	7	1.72
3717036--3717103	27	2.6	27	88	6	97	47	10	19	23	1.80
3720970--3721013	15	2.9	15	93	0	70	29	4	29	36	1.77
3720987--3721025	15	2.6	15	87	0	51	33	7	25	33	1.84
3725098--3725350	26	10.6	26	71	17	108	37	23	13	26	1.91
3725102--3725350	95	2.6	94	83	2	320	36	23	13	26	1.91
3725241--3725381	69	2.0	70	88	1	212	38	26	12	23	1.90
3725526--3725554	15	1.9	15	100	0	58	55	20	6	17	1.65
3725524--3725559	15	2.6	14	87	12	56	58	22	5	13	1.56
3733939--3734078	70	2.0	72	87	7	205	32	20	14	33	1.92
3744899--3744935	2	18.5	2	100	0	74	48	0	0	51	1.00
3744868--3745005	69	2.0	68	95	4	251	34	8	11	44	1.72
3744970--3745004	2	17.5	2	100	0	70	48	0	0	51	1.00
3745798--3745838	2	20.5	2	100	0	82	0	48	0	51	1.00
3760330--3760375	19	2.4	20	82	10	60	54	0	2	43	1.12
3760777--3760814	20	1.9	20	100	0	76	28	5	21	44	1.73
3760868--3760924	28	2.1	27	81	12	71	31	22	21	24	1.98
3766851--3766888	15	2.6	14	84	8	58	7	23	5	63	1.42
3773104--3773164	27	2.3	27	88	0	86	52	4	0	42	1.23
3773104--3773154	13	3.8	13	76	5	57	50	3	0	45	1.20
3773114--3773172	27	2.2	27	87	0	82	55	5	0	38	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3779389--3779434	23	2.0	23	95	0	83	41	8	8	41	1.67
3783197--3783253	23	2.4	24	88	2	80	42	8	7	42	1.63
3786599--3786664	27	2.3	29	87	10	93	62	0	1	36	1.05
3786497--3786826	131	2.7	129	83	10	379	56	2	2	37	1.28
3786776--3786807	16	2.1	16	94	5	57	65	0	0	34	0.93
3786824--3786901	22	3.6	22	69	19	65	53	0	5	41	1.23
3787331--3787395	25	2.6	25	82	4	78	32	6	12	49	1.65
3790596--3790644	22	2.3	22	85	3	64	34	8	10	46	1.67
3791414--3791668	113	2.3	111	87	4	356	30	17	9	42	1.81
3802027--3802058	11	2.8	11	95	4	55	90	0	6	3	0.53

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