genome.fa.s5.2.7.7.80.10.50.1000.55.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:  30015117

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   

This is table  55  of  85  ( 10117 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)
19322924--19323072	53	2.8	53	81	4	183	27	25	12	34	1.92
19337777--19337816	21	2.0	20	85	5	53	27	10	17	45	1.80
19343944--19344008	25	2.6	25	80	2	78	16	30	20	32	1.95
19354853--19354950	23	4.3	23	85	2	126	46	28	13	11	1.77
19354864--19354955	45	2.0	46	89	2	141	46	29	14	9	1.76
19367335--19367470	29	4.7	29	66	7	96	23	25	11	39	1.88
19367335--19367470	58	2.3	58	77	2	139	23	25	11	39	1.88
19369799--19369871	30	2.4	30	95	0	128	26	32	24	16	1.96
19371695--19371916	87	2.5	88	84	6	283	22	24	14	38	1.92
19371695--19371886	29	6.6	29	76	7	174	22	24	14	39	1.91
19373799--19374151	35	9.8	35	76	10	214	39	16	19	24	1.91
19373881--19374142	109	2.4	109	83	1	328	40	17	18	23	1.91
19373827--19374141	73	4.4	71	78	9	250	39	17	19	24	1.92
19376327--19376381	28	2.0	28	100	0	110	36	20	0	43	1.52
19379082--19379276	51	3.8	51	79	6	225	24	15	27	32	1.95
19379283--19379370	46	2.0	44	84	8	115	25	17	23	34	1.96
19379870--19379901	16	2.0	16	93	0	55	59	0	15	25	1.36
19381901--19382326	139	3.1	140	86	1	527	30	20	22	26	1.99
19385581--19385670	35	2.6	35	78	0	90	43	16	12	27	1.84
19394650--19394723	34	2.1	35	85	5	96	40	17	10	31	1.84
19404238--19404330	32	3.0	31	89	4	127	36	16	23	23	1.94
19404249--19404372	29	4.2	29	84	4	151	37	16	24	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19408855--19408901	23	2.0	24	91	4	78	8	4	6	80	1.00
19413930--19413978	23	2.1	23	100	0	98	71	0	20	8	1.11
19418234--19418288	16	3.5	15	85	9	65	40	7	21	30	1.81
19418270--19418362	44	2.1	44	90	6	143	33	4	24	37	1.75
19428488--19428517	14	2.1	14	100	0	60	86	0	13	0	0.57
19428614--19428643	14	2.1	14	100	0	60	86	0	13	0	0.57
19428443--19428704	126	2.1	127	95	2	476	46	7	9	35	1.65
19430239--19430377	68	2.0	69	98	1	271	54	8	13	23	1.66
19435713--19435745	13	2.4	14	90	5	50	39	0	6	54	1.25
19438905--19439056	30	5.1	30	76	3	153	26	24	11	38	1.89
19438905--19439086	90	2.0	90	88	4	269	25	24	11	39	1.89
19438889--19439056	60	2.8	60	73	5	169	25	25	10	38	1.88
19438947--19439145	30	6.7	30	80	6	172	22	24	11	42	1.86
19441831--19441870	10	4.1	10	83	6	55	2	17	2	77	0.99
19441825--19441869	19	2.4	19	80	0	54	4	17	2	75	1.07
19443956--19444043	45	2.0	45	95	0	158	30	21	13	34	1.92
19455815--19455854	22	1.9	22	90	10	66	50	15	10	25	1.74
19457122--19457170	22	2.3	21	82	10	55	55	8	2	34	1.41
19460868--19461566	349	2.0	350	99	0	1391	28	13	13	43	1.83
19469118--19469351	74	3.2	74	72	6	244	33	23	19	23	1.97
19469048--19469351	143	2.1	143	87	0	446	32	23	20	23	1.98
19469161--19469351	35	5.4	34	70	12	116	33	24	19	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19469494--19469562	36	1.9	35	91	2	111	37	23	1	37	1.64
19474391--19474415	13	1.9	13	100	0	50	48	12	8	32	1.69
19477151--19477191	20	2.0	20	95	0	73	12	29	19	39	1.88
19480739--19480803	31	2.1	31	94	0	112	35	9	13	41	1.77
19483204--19483278	23	3.2	24	61	21	59	32	6	32	29	1.83
19483202--19483433	46	5.0	46	94	0	392	34	7	28	30	1.85
19487664--19487786	60	2.0	60	98	0	237	47	7	11	34	1.67
19493047--19493079	6	5.5	6	100	0	66	69	0	0	30	0.88
19493376--19493429	21	2.6	21	94	5	92	38	18	12	29	1.88
19493536--19493592	15	3.5	15	71	17	51	49	1	1	47	1.22
19496842--19496905	27	2.3	28	91	2	103	3	9	0	87	0.64
19496849--19496905	26	2.1	28	90	6	91	3	8	0	87	0.64
19496847--19496895	23	2.1	23	96	0	89	2	6	0	91	0.47
19496853--19496905	23	2.3	23	86	0	70	3	9	0	86	0.68
19496843--19496890	1	48.0	1	95	0	78	0	4	0	95	0.25
19498138--19498178	21	2.0	21	90	9	66	31	29	14	24	1.95
19498832--19498873	22	1.9	22	90	0	66	71	0	0	28	0.86
19498971--19499013	10	4.4	9	83	16	59	62	2	0	34	1.08
19499654--19499855	62	3.2	59	73	20	167	50	5	2	40	1.42
19499790--19500057	136	1.9	139	87	2	389	43	7	7	41	1.61
19500934--19500965	15	2.1	15	94	0	55	15	6	9	68	1.36
19507266--19507290	8	3.1	8	100	0	50	12	12	24	52	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19510197--19510261	22	3.0	22	74	17	55	69	3	3	24	1.17
19511149--19511211	26	2.2	29	72	21	69	22	19	7	50	1.72
19511479--19511518	9	4.4	9	87	12	64	90	0	10	0	0.47
19511479--19511518	12	3.3	12	89	6	55	90	0	10	0	0.47
19515170--19515194	13	1.9	13	100	0	50	56	0	12	32	1.36
19515356--19515425	3	22.7	3	71	5	50	54	7	5	32	1.51
19515371--19515425	12	4.4	12	80	8	56	54	7	3	34	1.46
19515361--19515425	18	3.5	18	80	4	58	55	7	4	32	1.49
19531855--19532053	94	2.1	96	88	5	294	42	15	10	32	1.80
19532914--19532946	17	1.9	17	88	11	50	66	9	6	18	1.40
19537254--19537354	49	2.1	49	84	3	132	49	9	7	32	1.65
19540933--19540961	15	2.0	15	93	6	51	34	20	0	44	1.52
19542916--19543268	27	13.2	26	79	6	314	19	20	20	39	1.93
19542916--19543362	54	8.2	54	76	7	373	19	20	19	39	1.92
19542969--19543362	134	2.9	132	82	7	391	19	21	19	39	1.92
19543267--19543340	27	2.7	28	87	6	107	20	21	14	43	1.88
19543271--19543366	27	3.6	27	83	8	90	18	20	16	43	1.88
19543182--19543357	89	2.0	88	81	10	207	18	21	19	40	1.92
19543491--19544244	152	5.0	152	85	0	981	22	31	21	24	1.98
19543491--19544244	304	2.5	304	89	0	1152	22	31	21	24	1.98
19544835--19544868	15	2.3	15	94	0	59	50	17	8	23	1.74
19545013--19545293	27	10.4	27	85	0	346	19	20	22	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19551232--19551424	50	3.7	50	83	4	179	27	21	29	21	1.99
19563547--19563653	20	5.3	20	79	5	117	9	29	21	39	1.85
19563546--19563653	40	2.7	40	85	4	137	10	29	21	38	1.86
19573806--19573971	20	8.3	20	67	0	71	23	19	19	36	1.95
19573733--19573831	40	2.5	40	89	0	144	23	25	19	32	1.97
19573766--19573985	60	3.7	60	91	0	332	23	21	20	35	1.96
19574333--19574526	27	7.2	27	77	11	141	44	19	16	19	1.86
19574354--19574526	80	2.2	81	86	2	233	42	19	16	21	1.89
19575534--19575671	27	5.1	27	91	3	224	37	18	10	34	1.84
19575537--19575721	81	2.3	81	82	9	225	39	18	9	32	1.82
19575677--19575803	27	4.7	27	76	11	109	41	20	7	29	1.80
19575536--19575802	54	5.0	53	79	5	216	39	19	9	31	1.83
19575647--19575802	53	2.9	53	81	8	183	41	20	8	30	1.82
19576260--19576313	27	2.0	27	82	7	65	18	22	24	35	1.96
19577926--19577966	20	2.0	20	86	9	57	48	12	4	34	1.62
19578550--19578605	27	2.1	27	93	0	94	33	25	23	17	1.96
19579026--19579197	27	6.4	28	73	10	99	29	12	19	38	1.89
19579046--19579197	54	2.8	54	80	2	153	28	11	20	39	1.88
19579048--19579204	81	1.9	81	82	5	192	29	12	19	38	1.89
19579182--19579266	27	3.2	27	83	5	102	40	9	14	36	1.78
19579047--19579251	81	2.5	80	76	6	182	31	11	18	38	1.87
19579407--19579441	17	2.1	17	94	0	61	14	37	28	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19582094--19582149	27	2.1	27	89	0	85	33	23	23	19	1.97
19582705--19582771	27	2.5	27	77	0	71	32	4	19	43	1.71
19582650--19582798	81	1.8	81	81	2	183	30	7	21	40	1.80
19582748--19582802	27	2.0	27	100	0	110	34	7	18	40	1.78
19582612--19582793	54	3.4	54	75	0	148	29	8	21	40	1.82
19584859--19585040	27	6.7	27	76	9	120	38	21	12	28	1.89
19584881--19585039	54	3.0	53	84	3	185	37	22	11	27	1.89
19584934--19585042	27	4.0	27	81	0	128	38	21	11	29	1.87
19585257--19585324	26	2.6	26	79	6	66	16	22	22	39	1.92
19585485--19585540	27	2.1	27	89	0	85	19	23	23	33	1.97

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