genome.fa.s5.2.7.7.80.10.50.1000.10.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  10  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)
3897518--3897684	78	2.2	77	81	3	183	19	23	15	41	1.90
3900970--3901331	117	3.1	117	86	4	470	44	26	10	18	1.83
3902674--3902785	40	2.8	40	86	0	152	30	27	14	27	1.95
3902732--3902969	117	2.0	117	86	2	334	37	21	12	28	1.90
3906158--3906234	33	2.4	33	83	12	90	66	5	3	24	1.30
3906284--3906353	33	2.4	29	76	21	74	65	1	5	27	1.23
3906257--3906370	40	3.0	39	75	18	116	64	2	4	28	1.26
3906576--3906606	15	2.1	15	93	0	53	41	16	0	41	1.48
3907396--3907450	23	2.3	24	75	3	58	47	1	3	47	1.30
3918589--3918643	28	2.0	28	96	0	101	32	23	12	30	1.92
3919486--3919564	40	2.0	40	92	0	131	17	21	25	35	1.95
3920602--3920717	52	2.2	52	89	0	169	31	15	18	35	1.92
3920672--3920750	31	2.5	31	89	2	113	37	12	13	35	1.83
3920672--3920757	32	2.7	31	84	8	102	41	11	12	33	1.80
3920806--3920881	29	2.7	28	79	4	73	40	9	11	38	1.74
3930528--3930552	2	12.5	2	100	0	50	48	0	0	52	1.00
3932458--3932492	18	1.9	18	88	0	52	51	2	0	45	1.16
3933961--3934005	22	2.2	22	84	11	60	28	2	0	68	1.01
3933976--3934004	13	2.1	14	93	6	51	27	0	0	72	0.85
3934906--3934934	15	1.9	15	100	0	58	34	17	20	27	1.95
3935552--3935597	23	2.0	23	91	0	74	52	17	21	8	1.71
3935826--3935871	23	2.0	23	87	4	67	39	26	19	15	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3936070--3936139	13	5.6	13	69	16	58	72	1	0	25	0.92
3936045--3936102	22	2.7	22	79	17	68	70	3	0	25	1.03
3938155--3938358	84	2.4	84	83	4	266	26	18	16	38	1.91
3944405--3944464	2	31.5	2	86	9	90	50	1	0	48	1.11
3944408--3944464	13	4.5	13	86	10	82	50	1	0	47	1.11
3954880--3954931	4	12.8	4	80	15	54	75	1	1	21	1.00
3955276--3955336	11	5.6	11	80	7	63	22	3	1	72	1.09
3955276--3955339	10	6.2	10	80	7	65	26	3	1	68	1.13
3967216--3967311	29	3.2	29	80	11	104	54	9	5	31	1.55
3969226--3969271	21	2.2	21	92	0	74	15	0	52	32	1.43
3969226--3969262	18	2.1	18	89	0	56	16	0	51	32	1.45
3979708--3979775	33	2.1	33	86	5	93	11	4	16	67	1.37
3982980--3983082	52	2.0	52	96	0	188	45	20	6	27	1.76
3983021--3983045	12	2.1	12	100	0	50	60	16	0	24	1.36
3984477--3984554	31	2.5	31	87	0	111	21	17	7	52	1.70
3984745--3984854	44	2.5	44	85	2	141	31	20	10	37	1.86
4005278--4007223	662	3.0	655	86	5	2574	54	13	10	21	1.69
4009273--4009301	13	2.1	14	93	6	51	79	0	0	20	0.74
4011776--4011805	14	2.1	15	93	6	53	0	10	13	76	1.01
4013315--4013371	26	2.0	28	83	12	73	45	5	28	21	1.73
4017843--4017878	2	18.0	2	94	0	63	50	0	0	47	1.01
4022883--4022953	2	38.5	2	84	16	100	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4032094--4032159	32	2.1	32	88	0	96	40	13	9	36	1.76
4032282--4032393	45	2.5	45	85	0	170	31	21	14	33	1.93
4032322--4032452	66	2.0	66	92	0	217	32	20	15	32	1.94
4043681--4043930	35	7.2	34	76	7	209	37	7	11	43	1.70
4043701--4043929	107	2.2	105	83	3	271	37	8	11	43	1.71
4043674--4043943	142	1.9	138	85	4	371	37	7	11	43	1.69
4060481--4060551	30	2.3	32	78	9	85	38	1	1	59	1.15
4060827--4060879	25	2.2	24	82	3	61	56	0	3	39	1.17
4061804--4061846	3	14.3	3	95	0	77	32	2	0	65	1.06
4068702--4068776	2	38.0	2	91	2	71	45	6	2	44	1.44
4068691--4068780	47	1.9	46	100	0	171	43	11	4	40	1.60
4091248--4091370	63	2.0	63	86	3	176	20	30	17	32	1.95
4091728--4091796	23	3.1	21	87	6	68	28	21	27	21	1.99
4091736--4091796	23	2.7	23	92	0	95	27	22	27	21	1.99
4091785--4091859	31	2.4	31	84	0	87	26	18	21	33	1.96
4095975--4096110	16	8.2	16	69	20	66	49	3	9	37	1.53
4095975--4096040	34	1.9	34	84	6	89	54	3	7	34	1.44
4096034--4096113	30	2.7	30	82	3	99	47	5	10	37	1.59
4096057--4096103	14	3.2	14	77	16	51	51	0	8	40	1.33
4097645--4097840	31	6.3	31	82	3	232	40	23	14	20	1.90
4097644--4097845	93	2.2	94	86	2	282	40	23	14	21	1.90
4099895--4100213	31	10.5	31	81	6	296	36	19	16	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4100035--4100146	55	2.0	55	89	0	170	35	19	17	26	1.94
4100004--4100177	86	2.0	86	82	0	213	36	19	17	27	1.94
4099983--4100204	117	1.9	117	86	1	320	36	18	17	27	1.93
4100680--4100739	29	2.1	29	90	0	93	40	30	10	20	1.85
4100807--4101170	47	7.7	47	77	0	278	22	31	16	29	1.96
4100806--4101238	94	4.6	94	81	1	481	22	30	16	29	1.96
4100805--4101237	141	3.1	139	79	3	463	22	30	17	29	1.96
4101247--4101363	56	2.1	56	93	0	198	26	38	11	23	1.89
4104073--4104314	27	8.8	27	79	5	243	39	15	9	35	1.81
4104073--4104529	55	8.1	55	76	10	320	38	15	11	35	1.83
4104071--4104529	82	5.5	82	76	12	344	38	15	11	35	1.82
4104296--4104324	15	1.9	15	100	0	58	48	17	0	34	1.47
4104295--4104330	15	2.3	15	85	4	54	47	16	0	36	1.47
4104268--4104357	43	2.1	43	87	4	128	43	17	6	32	1.75
4104311--4104529	27	8.2	27	76	7	180	38	14	12	34	1.84
4104214--4104412	98	2.0	97	91	2	319	41	17	8	32	1.80
4104335--4104511	53	3.3	53	84	3	196	37	14	12	35	1.85
4110722--4110812	35	2.5	35	82	3	92	29	10	7	51	1.65
4132412--4132450	18	2.2	18	90	0	60	43	17	10	28	1.82
4132610--4132642	12	2.5	13	85	14	50	66	0	0	33	0.92
4132614--4132642	12	2.3	13	94	5	51	68	0	0	31	0.89
4139136--4139173	17	2.2	17	90	9	60	15	28	26	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4145739--4145766	2	14.0	2	100	0	56	50	0	0	50	1.00
4158745--4158838	36	2.6	36	94	3	163	45	17	7	29	1.75
4170904--4170941	12	3.2	12	89	10	53	84	0	0	15	0.63
4170905--4170945	21	2.0	21	90	0	64	82	0	0	17	0.66
4190257--4190436	33	5.6	33	72	12	142	38	23	28	8	1.85
4193282--4193570	144	2.0	144	92	0	479	30	22	11	35	1.90
4195550--4195836	144	2.0	144	93	1	495	36	17	9	36	1.83
4195838--4196075	121	1.9	124	83	10	310	58	10	0	29	1.38
4196000--4196031	9	3.8	9	84	16	50	78	0	0	21	0.76
4196001--4196031	16	1.9	16	100	0	62	77	0	0	22	0.77
4196007--4196063	18	3.3	18	79	13	50	68	1	1	28	1.09
4203584--4203629	23	2.0	23	91	0	74	39	13	8	39	1.75
4210409--4210454	23	2.0	23	95	0	83	41	13	8	36	1.75
4210659--4210703	2	24.0	2	86	13	69	46	0	0	53	1.00
4215442--4215507	33	2.0	33	81	0	78	37	24	30	7	1.83
4215533--4215627	33	2.9	33	85	0	127	37	23	29	9	1.86
4216562--4216607	18	2.6	18	83	10	58	76	2	2	19	1.00
4217764--4217793	13	2.4	12	94	5	51	80	0	0	20	0.72
4230091--4230501	62	6.6	62	86	5	546	28	14	20	36	1.92
4230539--4230611	11	6.9	11	75	25	52	75	1	1	21	0.96
4230535--4230616	29	2.9	29	79	12	98	76	1	1	20	0.92
4233325--4233385	29	2.1	29	81	6	70	34	3	1	60	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4237193--4237221	9	3.0	10	90	10	51	41	0	6	51	1.28
4240482--4240520	21	1.9	21	94	5	71	46	5	2	46	1.38
4240786--4240845	25	2.4	25	97	0	111	30	0	25	45	1.54
4241006--4241258	110	2.2	111	82	15	305	56	13	1	28	1.47
4241154--4241340	94	2.0	94	88	4	279	57	11	1	28	1.43
4245534--4245603	34	2.1	35	89	5	108	34	1	1	62	1.13
4245548--4245617	34	2.1	34	81	5	79	45	1	0	52	1.09
4247191--4247220	6	5.0	6	100	0	60	33	50	16	0	1.46
4262346--4262377	6	5.3	6	100	0	64	0	31	0	68	0.90
4276119--4276216	42	2.3	42	94	3	169	43	17	14	24	1.86

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