genome.fa.s7.2.7.7.80.10.50.1000.11.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: Chr3
Parameters: 2 7 7 80 10 50 1000
Length:  26558743

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   

This is table  11  of  79  ( 9388 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)
3750162--3750226	32	2.0	32	82	5	78	58	3	1	36	1.23
3755100--3755392	109	2.7	109	91	1	466	32	17	18	32	1.94
3758884--3758979	45	2.1	45	88	0	138	21	16	18	42	1.89
3760736--3760800	21	3.0	22	71	19	64	26	1	7	64	1.29
3762948--3762994	25	1.9	25	83	12	62	55	10	6	27	1.58
3771731--3771771	7	5.9	7	100	0	82	12	0	0	87	0.53
3771720--3771769	21	2.4	21	90	6	75	14	0	2	84	0.72
3772184--3772260	29	2.7	27	84	9	91	54	0	1	44	1.08
3772193--3772292	49	2.0	53	82	11	129	53	0	4	43	1.19
3773438--3773480	21	2.0	21	90	0	68	23	27	23	25	2.00
3776212--3776257	24	1.9	24	86	0	65	13	15	0	71	1.14
3782274--3782315	16	2.4	17	84	11	50	30	2	7	59	1.37
3784174--3784245	35	2.1	35	97	0	135	41	13	19	25	1.88
3784763--3784798	18	2.0	18	88	0	54	47	5	5	41	1.50
3784833--3784891	20	3.2	18	80	20	68	54	0	5	40	1.23
3784843--3784889	16	2.7	18	83	9	62	55	0	4	40	1.19
3785049--3785101	3	17.3	3	77	11	54	62	0	1	35	1.06
3792728--3792761	8	4.0	8	88	11	50	73	0	0	26	0.83
3796970--3797020	20	2.7	18	80	19	59	66	1	5	25	1.24
3797600--3797657	28	2.1	28	100	0	116	44	3	10	41	1.55
3797900--3797965	13	5.5	13	71	20	63	48	15	1	34	1.54
3797900--3797974	23	3.3	23	88	0	114	49	14	1	34	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3797979--3798013	18	1.9	18	100	0	70	57	5	2	34	1.37
3814459--3814485	12	2.2	12	100	0	54	11	7	0	81	0.87
3814459--3814509	12	4.4	12	82	9	52	15	5	0	78	0.93
3825059--3825096	3	12.7	3	94	0	67	65	2	0	31	1.06
3825682--3825727	16	2.9	16	83	6	58	32	23	2	41	1.67
3827211--3827259	22	2.2	22	81	0	62	24	14	6	55	1.62
3827775--3827830	23	2.4	24	93	3	96	55	0	3	41	1.17
3827756--3827836	22	3.5	22	76	12	74	53	0	2	44	1.14
3834476--3834543	10	7.3	9	74	12	57	33	4	0	61	1.16
3834479--3834542	18	3.5	17	75	12	56	35	4	0	59	1.18
3834535--3834587	23	2.3	23	81	15	65	28	1	7	62	1.33
3841643--3841676	17	1.9	17	88	5	50	17	11	0	70	1.16
3847224--3847253	2	15.0	2	92	0	51	46	3	0	50	1.18
3851901--3851955	26	2.1	26	100	0	110	29	27	14	29	1.95
3855893--3855934	16	2.6	16	82	17	52	47	9	2	40	1.49
3856463--3856780	156	2.0	157	98	0	620	37	11	11	40	1.77
3864236--3864266	9	3.4	9	90	0	53	38	22	12	25	1.90
3870557--3870586	15	2.0	15	93	0	51	6	16	0	76	0.99
3872670--3872703	16	2.2	16	89	5	52	67	26	2	2	1.19
3873368--3873428	27	2.3	27	94	0	104	14	18	42	24	1.88
3873472--3873512	21	1.9	22	90	5	66	56	4	0	39	1.21
3873971--3874049	27	2.9	27	92	0	131	22	39	21	16	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3877569--3877619	22	2.4	20	83	9	57	64	0	5	29	1.17
3877572--3877631	4	14.0	4	74	19	50	66	0	5	28	1.12
3877581--3877632	14	3.8	13	82	10	52	67	0	7	25	1.17
3877568--3877631	21	3.0	22	82	14	73	65	0	6	28	1.16
3878558--3878691	40	3.4	39	74	9	130	23	16	27	32	1.96
3879228--3879468	120	2.0	121	99	0	475	34	5	17	41	1.74
3893102--3893140	17	2.4	16	84	16	53	66	2	0	30	1.05
3898946--3898987	7	6.1	7	88	5	68	40	0	47	11	1.40
3898945--3898984	13	3.0	13	88	3	62	40	0	50	10	1.36
3902515--3902560	5	9.0	5	97	2	83	41	0	0	58	0.98
3903088--3903125	20	1.9	20	88	0	58	50	13	7	28	1.69
3903075--3903140	34	1.9	34	87	0	96	46	12	7	33	1.69
3905117--3905166	17	2.7	18	78	9	57	64	14	4	18	1.44
3907943--3907997	20	2.8	20	86	5	76	34	3	16	45	1.65
3915579--3915613	11	3.1	12	88	12	56	34	0	0	65	0.93
3915651--3915765	35	3.3	35	68	7	115	56	9	3	30	1.48
3915650--3915762	36	3.2	36	65	12	106	57	9	3	29	1.48
3915632--3915769	71	1.9	71	98	0	267	56	10	4	28	1.51
3915809--3915867	30	2.0	30	96	0	109	57	15	1	25	1.47
3917093--3917132	20	2.1	19	86	13	55	52	5	0	42	1.23
3924512--3924646	42	3.2	42	77	4	137	42	17	21	18	1.89
3926844--3926889	24	1.9	25	82	8	60	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3930480--3930919	246	1.8	238	81	6	544	36	12	9	40	1.76
3934914--3934961	24	2.0	25	83	4	62	47	2	4	45	1.33
3944084--3944114	3	10.3	3	100	0	62	0	67	0	32	0.91
3968811--3968858	11	4.4	11	82	17	64	41	2	0	56	1.11
3968808--3968858	21	2.4	22	86	3	77	43	1	0	54	1.11
3969297--3969321	9	2.8	9	100	0	50	36	0	8	56	1.29
3976006--3976034	15	1.9	15	100	0	58	24	0	20	55	1.44
3976345--3976461	44	2.7	44	78	11	132	25	17	27	29	1.98
3976472--3977102	311	2.0	311	97	0	1208	34	8	17	40	1.79
3977120--3977161	2	21.0	2	85	0	57	45	2	0	52	1.13
3977196--3977426	46	5.0	47	89	1	313	29	13	16	41	1.86
3977196--3977426	23	9.9	23	77	2	201	29	13	16	41	1.86
3977627--3977808	91	2.0	91	96	0	337	28	3	19	48	1.66
3979495--3979597	28	3.7	28	88	2	145	26	25	22	26	2.00
3979969--3980371	27	14.9	27	82	0	421	16	18	19	44	1.86
3980674--3980716	18	2.4	18	84	7	52	41	41	2	13	1.57
3980758--3980786	6	4.8	6	100	0	58	65	17	0	17	1.27
3980826--3980876	9	5.7	9	92	0	84	23	11	25	39	1.89
3988586--3988617	7	4.6	7	100	0	64	28	0	15	56	1.40
3991628--3991677	9	5.3	9	79	9	55	38	4	2	56	1.30
3994100--3994320	110	2.0	111	99	0	435	28	30	18	22	1.97
3994305--3994341	19	1.9	19	100	0	74	62	0	0	37	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3995417--3995466	3	16.7	3	83	8	66	64	0	4	32	1.12
3995417--3995470	21	2.5	22	88	5	76	64	0	3	31	1.11
3997252--3997324	29	2.4	29	81	4	74	31	12	6	49	1.67
4000465--4000631	45	3.7	45	86	0	208	29	14	23	32	1.95
4000520--4000652	45	3.0	45	85	2	124	34	15	20	30	1.93
4001618--4001694	38	2.0	39	94	2	138	50	28	2	18	1.60
4001917--4001941	12	2.1	12	100	0	50	16	24	36	24	1.94
4003169--4003244	30	2.5	30	80	0	80	35	19	15	28	1.93
4004595--4004653	29	2.0	29	93	0	100	33	6	6	52	1.54
4009354--4009417	20	3.2	20	86	2	83	31	17	37	14	1.89
4009386--4009433	20	2.4	20	85	0	60	27	16	33	22	1.96
4011492--4011542	19	2.7	19	84	9	68	70	5	0	23	1.09
4011484--4011542	23	2.6	24	80	19	65	69	6	0	23	1.12
4011488--4011541	14	3.9	13	80	17	56	72	5	0	22	1.05
4012911--4012987	38	2.0	39	84	2	102	41	18	9	31	1.81
4017859--4017914	28	2.0	28	92	0	94	23	12	1	62	1.39
4026782--4026867	28	3.1	28	81	1	111	29	13	22	34	1.93
4028617--4028724	52	2.1	52	91	5	175	37	22	8	31	1.84
4029166--4029219	23	2.2	24	84	12	67	50	22	9	18	1.75
4029735--4029809	37	2.1	36	87	2	105	26	20	1	52	1.55
4030256--4030296	17	2.4	17	91	0	64	39	9	4	46	1.58
4032777--4032811	17	2.1	17	89	5	54	22	20	11	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4033770--4033815	13	3.5	13	77	11	58	63	0	2	34	1.07
4034885--4034937	22	2.3	23	83	6	63	49	1	3	45	1.31
4035206--4035276	34	2.1	33	81	5	79	56	0	5	38	1.23
4035807--4035832	5	5.2	5	100	0	52	0	19	0	80	0.71
4039212--4039236	7	3.6	7	100	0	50	76	12	12	0	1.04
4039881--4040093	111	1.9	111	83	1	275	42	11	12	34	1.78
4046493--4046544	21	2.4	21	78	9	61	34	25	19	21	1.96
4046937--4047000	28	2.4	25	82	12	67	57	6	17	18	1.60
4055371--4055504	6	22.5	6	67	8	51	27	1	8	61	1.34
4055403--4055484	13	6.7	13	73	9	57	26	2	12	58	1.46

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