genome.fa.s4.2.7.7.80.10.50.1000.17.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  17  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)
5716849--5716941	38	2.5	38	84	3	118	19	9	44	26	1.82
5719899--5720205	154	2.0	153	98	0	587	36	14	14	33	1.88
5722886--5722923	19	2.0	19	85	10	51	55	5	7	31	1.51
5726937--5726969	15	2.2	15	100	0	66	24	27	12	36	1.91
5727668--5727705	2	19.5	2	84	15	53	47	0	2	50	1.15
5727816--5727962	41	3.6	40	86	8	201	23	15	36	24	1.94
5727938--5728141	54	3.8	53	84	4	275	21	11	42	24	1.86
5751809--5752030	61	3.6	62	84	4	249	36	11	16	35	1.85
5753372--5753526	45	3.5	44	75	7	120	29	15	22	32	1.95
5766545--5766591	23	2.0	23	91	0	76	29	14	14	40	1.87
5773339--5773401	2	34.0	2	73	20	57	49	1	0	49	1.10
5774946--5775081	25	5.4	25	72	6	96	21	13	25	38	1.91
5774953--5775081	50	2.6	51	76	7	131	20	14	25	38	1.91
5777836--5777876	20	2.1	19	90	4	64	58	9	0	31	1.31
5779750--5779797	2	24.0	2	100	0	96	50	0	0	50	1.00
5785173--5785234	26	2.4	26	94	0	106	32	40	3	24	1.71
5788032--5788074	20	2.2	20	86	0	59	44	9	27	18	1.80
5791395--5791771	188	2.0	188	92	1	630	32	15	15	36	1.89
5792985--5793029	21	2.2	21	80	15	58	64	8	0	26	1.23
5792988--5793029	20	2.1	20	86	8	59	66	9	0	23	1.21
5797347--5797376	15	1.9	16	93	6	53	50	33	0	16	1.46
5804458--5804546	41	2.2	41	95	0	169	40	13	16	29	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5805833--5805893	32	1.9	32	82	0	77	22	18	31	27	1.97
5807501--5807538	19	2.0	19	94	0	67	28	0	28	42	1.56
5814140--5814467	169	1.9	169	96	0	611	33	20	8	36	1.84
5815959--5815997	19	2.1	19	90	0	60	53	0	7	38	1.30
5816292--5816353	28	2.1	29	82	11	74	41	3	27	27	1.71
5817797--5817845	25	2.0	25	84	8	64	36	8	14	40	1.75
5819976--5820154	57	3.1	58	89	6	265	39	17	7	34	1.78
5825303--5825351	20	2.5	20	80	6	55	59	6	4	30	1.41
5829697--5829724	2	14.0	2	100	0	56	50	0	50	0	1.00
5830398--5830490	36	2.6	36	89	0	132	20	16	37	25	1.93
5832815--5833040	77	2.9	77	83	7	298	40	7	15	36	1.76
5842007--5842079	10	6.6	11	71	21	55	0	24	1	73	0.90
5842014--5842067	24	2.3	24	90	6	85	0	24	0	75	0.80
5842007--5842108	41	2.5	41	81	10	120	0	24	0	73	0.95
5842006--5842111	42	2.6	40	80	15	119	0	24	0	73	0.95
5842061--5842204	73	2.0	73	82	9	177	16	19	2	61	1.44
5842135--5842177	10	4.4	10	85	2	52	6	9	0	83	0.80
5842210--5842248	9	4.3	9	90	9	62	10	10	0	79	0.94
5842217--5842248	10	3.3	10	95	4	57	9	9	0	81	0.88
5842101--5842239	73	2.0	69	82	12	167	20	15	1	62	1.40
5842380--5842421	18	2.3	19	83	4	50	42	0	0	57	0.99
5842407--5842450	23	2.0	23	86	13	65	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5842416--5842460	22	2.0	23	86	4	65	42	0	0	57	0.98
5846926--5846993	31	2.2	31	89	7	104	19	30	20	29	1.97
5847126--5847297	68	2.6	65	81	2	209	35	16	10	37	1.83
5854050--5854196	43	3.4	43	83	3	188	25	19	33	21	1.97
5857858--5857918	27	2.2	29	88	5	90	27	22	13	36	1.92
5862183--5862231	21	2.3	21	80	16	57	28	14	0	57	1.38
5878534--5878652	43	2.8	43	82	5	143	26	19	33	21	1.97
5878662--5878721	23	2.6	23	86	0	84	28	1	38	31	1.67
5879064--5879271	60	3.5	60	81	5	233	25	20	21	33	1.97
5879056--5879271	120	1.8	120	87	4	328	25	20	20	33	1.97
5880985--5881047	20	3.2	20	86	2	92	30	39	3	26	1.72
5881046--5881155	43	2.6	43	89	2	159	19	37	20	23	1.94
5884267--5884300	2	17.0	2	93	0	59	50	2	0	47	1.16
5893693--5893727	15	2.2	16	90	5	54	34	5	20	40	1.76
5904135--5904246	43	2.6	43	81	6	138	25	19	35	19	1.95
5905546--5905577	2	16.0	2	100	0	64	50	0	0	50	1.00
5915834--5915953	58	2.1	57	92	4	197	38	15	10	35	1.81
5917196--5917318	42	3.0	42	82	1	140	25	21	30	22	1.99
5922610--5922776	42	4.0	42	82	0	208	22	32	20	23	1.98
5930318--5930436	42	2.8	42	87	0	166	24	22	30	22	1.99
5930478--5930512	2	17.5	2	100	0	70	48	0	0	51	1.00
5938135--5938297	60	2.7	60	80	3	159	26	19	25	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5949873--5949914	14	3.0	14	82	6	50	59	0	0	40	0.97
5950827--5950909	5	13.7	6	76	20	52	63	1	33	1	1.10
5950836--5950910	28	2.7	29	82	12	86	62	1	34	1	1.12
5954292--5954403	43	2.6	43	81	2	136	25	17	34	21	1.95
5954754--5954842	39	2.2	40	84	5	119	21	19	24	34	1.96
5955997--5956148	63	2.4	63	84	0	196	25	29	17	26	1.98
5968735--5968801	35	1.9	35	90	0	107	34	23	16	25	1.95
5970764--5970823	26	2.3	26	79	20	72	31	43	3	21	1.69
5970766--5970834	29	2.4	29	92	2	113	31	39	2	26	1.71
5970855--5970991	42	3.3	42	86	4	195	22	31	22	23	1.98
5976744--5976801	24	2.4	24	100	0	116	46	6	6	39	1.57
5979788--5979843	28	2.0	28	100	0	112	25	10	35	28	1.89
5981426--5981491	29	2.3	29	82	12	82	30	7	27	34	1.85
5981543--5981712	50	3.4	50	81	3	198	34	13	17	35	1.89
5986947--5987115	29	5.8	29	81	8	200	37	15	8	38	1.79
5986947--5987113	59	2.9	57	84	4	217	37	14	8	38	1.78
5991947--5992079	42	3.1	42	90	5	214	23	33	18	25	1.97
5999698--5999736	2	19.5	2	100	0	78	48	0	0	51	1.00
5999788--5999910	42	2.9	42	79	0	129	23	34	17	25	1.96
6003826--6003863	19	2.0	19	100	0	76	31	10	15	42	1.81
6013086--6013112	13	2.1	13	100	0	54	37	22	0	40	1.54
6014327--6014438	58	1.9	57	96	1	206	25	8	16	50	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6015310--6015802	261	1.9	262	90	1	792	35	9	16	38	1.81
6016147--6016184	20	1.9	21	89	10	62	2	15	5	76	1.08
6018392--6018435	17	2.6	17	85	0	61	72	0	2	25	0.96
6019508--6019544	19	1.9	19	100	0	74	13	32	10	43	1.79
6021418--6021453	2	18.0	2	88	0	54	47	5	0	47	1.25
6032288--6032511	122	1.8	122	97	0	421	40	14	8	37	1.75
6034061--6034328	86	3.1	86	99	0	527	20	14	12	52	1.73
6035018--6035050	11	2.8	12	86	13	50	54	0	0	45	0.99
6074468--6074716	68	3.7	68	82	1	212	36	17	9	36	1.82
6075689--6075725	12	3.3	12	78	21	53	35	13	16	35	1.88
6075962--6075992	16	1.9	16	93	0	53	67	16	3	12	1.35
6076441--6076471	16	1.9	16	93	0	53	67	16	3	12	1.35
6075840--6076800	477	2.0	478	95	1	1748	41	14	8	35	1.76
6091241--6091337	35	2.8	34	72	14	92	31	10	21	36	1.87
6094570--6094819	43	6.0	43	83	6	325	27	19	32	21	1.97
6094570--6094819	83	3.0	83	90	2	385	27	19	32	21	1.97
6107507--6107611	35	3.0	36	75	12	101	31	13	19	36	1.90
6107745--6107844	52	1.9	52	89	0	155	25	11	13	51	1.73
6115498--6115536	17	2.3	18	82	13	55	64	5	0	30	1.15
6118568--6118651	35	2.6	33	83	12	111	16	23	2	57	1.51
6118978--6119101	43	2.9	43	93	0	212	32	20	8	39	1.81
6119012--6119082	22	3.3	22	66	25	60	30	23	7	38	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6122021--6122214	95	2.0	95	100	0	388	38	6	11	43	1.67
6123906--6123954	23	2.0	23	85	14	64	26	4	0	69	1.06
6124536--6124615	41	2.0	41	85	5	108	37	25	2	35	1.69
6126129--6126226	31	3.2	31	79	5	101	52	11	7	29	1.64
6129019--6129068	2	25.0	2	95	0	91	50	0	0	48	1.01
6138123--6138165	16	2.7	16	82	10	52	62	11	0	25	1.29
6151309--6151446	4	34.5	4	91	0	141	39	0	10	50	1.38
6151313--6151446	20	6.5	20	90	6	214	38	0	11	50	1.38
6151311--6151446	42	3.1	42	92	6	227	38	0	11	50	1.38
6151937--6152061	57	2.2	58	82	2	144	26	26	16	30	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