genome.fa.s4.2.7.7.80.10.50.1000.42.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  42  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)
15697332--15697366	16	2.4	14	90	9	52	40	0	0	60	0.97
15703363--15703389	14	1.9	14	100	0	54	51	33	14	0	1.43
15717474--15717514	21	2.0	21	85	0	55	7	24	2	65	1.30
15724809--15724847	19	2.1	18	85	4	51	84	5	2	7	0.84
15724809--15724875	31	2.2	30	84	7	82	79	7	5	7	1.07
15728342--15728395	21	2.5	21	72	3	54	40	18	12	27	1.87
15730225--15730272	24	2.0	23	84	4	60	31	0	8	60	1.26
15734339--15734597	22	11.6	22	75	2	176	40	23	12	22	1.88
15734341--15734597	44	5.8	44	75	2	208	41	23	12	22	1.87
15734341--15734575	89	2.6	89	79	4	233	40	23	11	23	1.88
15734608--15734700	37	2.6	37	86	6	129	46	25	5	22	1.73
15734663--15734767	23	4.7	23	73	3	79	39	31	10	19	1.85
15734697--15734811	45	2.6	45	83	6	137	35	33	10	20	1.87
15738017--15738141	62	2.0	62	84	0	160	28	13	9	48	1.74
15739049--15739142	42	2.2	42	84	3	127	47	14	20	17	1.82
15739257--15739388	42	3.2	42	78	11	150	41	14	22	21	1.89
15739261--15739394	39	3.4	39	82	8	162	41	15	20	22	1.90
15740072--15740269	73	2.7	72	81	8	222	36	20	20	22	1.95
15741609--15741697	44	2.0	43	95	2	160	37	21	17	22	1.94
15743421--15743466	21	2.2	20	84	7	56	15	21	6	56	1.61
15743426--15743466	21	1.9	22	90	5	66	17	24	7	51	1.70
15751922--15751958	17	2.2	17	90	0	56	29	24	35	10	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15752302--15752495	73	2.7	73	80	7	198	40	21	17	21	1.92
15755329--15755366	20	2.0	20	90	10	62	36	5	15	42	1.70
15756471--15756555	27	3.1	27	74	0	89	35	22	17	24	1.95
15756540--15756608	27	2.6	27	85	0	84	36	20	15	27	1.93
15756479--15756581	54	1.9	54	81	0	125	35	22	18	23	1.95
15756591--15756691	27	3.7	27	65	21	68	26	26	25	20	1.99
15756838--15756884	19	2.5	18	80	16	51	42	14	6	36	1.72
15757121--15757161	19	2.1	19	90	9	64	41	4	4	48	1.46
15757462--15757526	16	3.9	16	72	7	58	52	4	4	38	1.43
15758207--15758269	27	2.3	27	81	5	74	30	23	26	19	1.98
15758257--15758375	27	4.4	28	80	8	131	28	26	23	21	1.99
15758275--15758375	27	3.8	26	89	2	139	26	24	25	22	2.00
15758275--15758375	53	1.9	53	87	4	150	26	24	25	22	2.00
15760078--15760117	10	3.9	10	83	6	53	60	7	0	32	1.25
15761254--15761291	19	2.0	19	94	0	67	28	0	31	39	1.57
15762531--15762556	13	2.0	13	100	0	52	46	0	7	46	1.31
15781342--15781377	18	2.0	19	89	10	58	77	5	11	5	1.10
15782579--15782608	15	2.0	15	93	0	51	66	3	6	23	1.30
15783076--15783223	66	2.2	66	79	2	154	31	22	10	35	1.88
15793346--15793373	4	7.0	4	100	0	56	75	0	0	25	0.81
15796781--15796819	6	6.5	6	87	0	51	2	35	12	48	1.55
15802553--15802632	2	39.5	2	94	2	142	48	1	0	48	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15810208--15810417	82	2.6	82	90	1	325	39	9	8	42	1.68
15810687--15810763	35	2.2	35	88	4	111	32	12	31	23	1.92
15810689--15810763	18	4.3	17	88	5	105	32	13	30	24	1.93
15810799--15810878	29	2.8	29	84	0	106	41	20	22	16	1.90
15810840--15810920	42	1.9	42	92	0	135	38	19	22	19	1.94
15810889--15811005	51	2.3	51	84	8	141	36	16	21	25	1.94
15821843--15822051	36	5.6	40	71	18	137	39	19	15	25	1.91
15821837--15821984	75	2.0	76	83	4	192	39	18	15	25	1.90
15823231--15823455	79	2.8	80	89	3	339	40	11	9	39	1.74
15823203--15823455	79	3.2	79	86	6	336	40	10	9	39	1.72
15823728--15823779	18	2.9	18	97	0	95	38	5	28	26	1.79
15823710--15823779	36	1.9	36	82	5	88	38	8	27	25	1.85
15823835--15823927	29	3.2	29	87	0	141	36	18	25	19	1.94
15823932--15824157	103	2.2	103	87	0	326	35	15	22	26	1.94
15823936--15824163	51	4.4	51	77	9	212	35	15	21	26	1.94
15824133--15824166	18	1.9	18	88	5	52	35	17	23	23	1.95
15839401--15839593	76	2.5	76	81	5	255	29	14	17	38	1.90
15841135--15841293	28	5.5	28	75	9	124	39	10	8	41	1.70
15841445--15841478	17	2.0	18	88	11	54	41	0	11	47	1.40
15845378--15845452	26	2.9	26	95	0	132	37	24	21	17	1.94
15845732--15845801	29	2.4	28	81	9	86	20	27	8	44	1.80
15846013--15846042	15	2.0	15	100	0	60	20	33	0	46	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15846990--15847149	87	1.8	86	88	6	243	25	3	22	48	1.65
15850113--15850151	18	2.2	18	90	0	60	35	5	7	51	1.53
15850614--15850764	72	2.1	72	86	3	207	44	4	20	30	1.72
15852113--15852180	26	2.7	26	76	2	66	64	7	0	27	1.20
15853256--15853301	19	2.4	20	82	10	60	56	0	0	43	0.99
15854863--15854906	17	2.5	19	85	14	67	61	0	6	31	1.22
15856423--15856452	2	15.0	2	100	0	60	50	0	0	50	1.00
15867851--15867964	38	3.0	38	98	0	219	21	24	18	35	1.95
15872448--15872494	15	3.1	15	93	0	76	10	21	21	46	1.81
15877571--15877610	2	20.0	2	100	0	80	50	0	0	50	1.00
15880608--15880641	11	3.1	11	88	12	52	52	0	0	47	1.00
15880640--15880698	28	2.0	28	83	6	73	61	1	1	35	1.16
15889189--15889225	18	2.0	19	89	5	58	35	2	0	62	1.10
15892783--15892820	15	2.5	15	84	16	51	42	0	2	55	1.14
15892839--15892879	17	2.5	17	88	4	57	48	0	4	46	1.23
15893390--15893431	15	2.6	16	85	14	52	40	2	4	52	1.35
15899457--15899554	31	3.3	30	83	9	114	37	11	14	36	1.82
15899508--15899768	81	3.2	80	85	3	319	29	14	14	40	1.86
15899696--15899773	24	3.2	24	68	12	59	28	19	12	39	1.88
15899694--15899777	26	3.3	25	69	14	82	28	17	11	41	1.85
15899702--15899808	50	2.1	50	86	6	146	28	17	15	38	1.91
15906470--15906633	60	2.8	60	85	0	222	34	19	20	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15906961--15907025	19	3.3	19	70	8	67	23	44	15	16	1.86
15906958--15907063	38	2.7	39	82	8	128	24	41	14	19	1.89
15909545--15909617	29	2.5	30	82	8	87	34	17	21	26	1.96
15909594--15909658	34	1.9	34	96	0	121	21	15	27	35	1.94
15912370--15912436	29	2.3	29	89	2	100	32	17	28	20	1.96
15912431--15912496	34	1.9	34	87	0	96	21	13	28	36	1.91
15919234--15919288	22	2.5	22	84	0	83	23	14	29	32	1.94
15918924--15919465	273	2.0	274	88	3	815	28	10	24	36	1.88
15919471--15919521	22	2.3	22	83	6	59	19	13	23	43	1.87
15921302--15921386	42	2.0	42	88	0	125	25	20	27	27	1.99
15923468--15923531	32	2.0	32	96	0	119	17	12	29	40	1.86
15926375--15926453	22	3.9	22	69	19	71	35	39	7	17	1.78
15933218--15933405	74	2.6	73	81	6	218	21	20	17	40	1.91
15940310--15940408	32	3.0	31	72	15	92	39	26	12	22	1.89
15940277--15940408	67	2.0	66	89	7	205	36	27	12	24	1.91
15940271--15940406	35	4.0	34	73	12	111	35	27	11	25	1.91
15952172--15952239	23	3.0	23	88	0	100	35	29	16	19	1.93
15957119--15957246	56	2.3	57	81	6	145	35	17	14	32	1.90
15963324--15963639	71	4.4	70	76	8	269	25	27	25	20	1.99
15963324--15963656	144	2.3	143	81	7	402	25	27	24	21	1.99
15965789--15965828	19	2.0	20	90	4	64	32	0	25	42	1.55
15966918--15966942	13	1.9	13	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15968428--15968480	27	1.9	28	88	11	83	45	1	3	49	1.31
15968666--15968718	22	2.4	21	79	14	54	43	1	9	45	1.47
15970524--15970593	22	3.2	22	70	8	52	48	21	10	20	1.78
15971028--15971197	84	2.0	83	96	1	313	17	16	13	52	1.74
15980796--15980843	22	2.2	22	96	0	87	18	6	20	54	1.65
15989845--15989881	19	1.9	19	100	0	74	43	27	0	29	1.55
15990660--15990694	18	1.9	18	94	0	61	37	5	2	54	1.39
15990831--15990865	17	2.1	17	100	0	70	54	5	5	34	1.48
15992179--15992216	20	1.9	20	94	0	67	15	36	7	39	1.77
16003169--16003301	43	3.1	43	87	3	187	24	14	34	26	1.94

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