genome.fa.s4.2.7.7.80.10.50.1000.46.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  46  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)
16992190--16992226	19	1.9	19	89	10	58	70	0	24	5	1.08
16995929--16995996	35	1.9	35	90	0	109	26	23	22	27	1.99
17004869--17004934	15	4.1	15	70	12	51	39	1	3	56	1.24
17017333--17017370	20	1.9	20	100	0	76	44	21	5	28	1.73
17018104--17018160	30	1.9	30	92	7	98	35	10	7	47	1.65
17018104--17018167	30	2.1	30	88	5	94	35	9	6	48	1.61
17022957--17022995	20	2.0	20	100	0	78	46	20	5	28	1.72
17023905--17023964	30	2.0	29	87	3	84	53	8	6	31	1.57
17025346--17025397	27	1.9	27	92	0	86	25	28	9	36	1.87
17035128--17035213	40	2.1	41	89	6	129	15	38	2	44	1.59
17036327--17036381	17	3.2	17	77	12	58	47	1	3	47	1.30
17037200--17037259	28	2.1	28	84	6	75	31	10	20	38	1.85
17039565--17039599	2	17.5	2	93	0	61	54	0	0	45	0.99
17041783--17041807	13	1.9	13	100	0	50	48	8	0	44	1.32
17043056--17043092	19	1.9	19	100	0	74	43	29	0	27	1.55
17052441--17052507	33	2.1	33	85	2	91	29	29	7	32	1.85
17056935--17056973	10	3.8	10	80	6	51	51	20	2	25	1.60
17064367--17064405	18	2.1	18	85	4	51	46	7	0	46	1.31
17071870--17071902	11	2.8	12	81	9	50	45	15	6	33	1.70
17080442--17080512	27	2.6	28	82	4	83	40	2	1	54	1.23
17080609--17080657	19	2.4	19	90	10	71	46	0	2	51	1.12
17085507--17085724	81	2.7	79	79	4	222	27	12	34	24	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17085689--17085803	47	2.4	47	79	0	131	30	12	31	26	1.92
17086455--17086658	31	6.6	31	90	0	309	29	15	20	33	1.94
17091965--17092289	163	2.0	162	100	0	641	40	14	20	25	1.90
17092276--17092312	15	2.5	15	100	0	74	29	13	16	40	1.86
17100904--17101287	31	12.4	31	81	2	394	28	29	16	26	1.97
17102134--17102212	24	3.3	23	76	3	68	24	22	24	29	1.99
17104665--17104756	21	4.4	21	72	9	80	32	27	18	21	1.97
17104615--17104762	63	2.3	63	93	2	244	31	25	20	22	1.98
17104939--17104982	21	2.1	21	95	0	79	25	25	2	47	1.63
17109500--17109552	21	2.5	21	100	0	106	22	35	7	33	1.83
17110422--17110701	22	12.2	22	71	13	102	35	19	12	32	1.90
17110529--17110655	43	2.9	44	80	3	150	34	20	11	33	1.89
17110624--17110664	12	3.5	12	83	6	57	31	26	12	29	1.92
17110620--17110687	23	2.9	23	80	4	82	39	22	11	26	1.88
17124978--17125018	21	1.9	22	90	5	66	51	7	24	17	1.70
17124978--17125022	20	2.2	21	84	11	58	55	6	22	15	1.63
17124976--17125023	21	2.3	20	79	10	60	56	6	22	14	1.61
17137867--17137921	21	2.6	21	91	0	83	21	14	21	41	1.89
17140143--17140198	25	2.2	25	96	0	103	21	30	19	28	1.98
17141729--17142490	359	2.1	354	84	4	1005	41	11	4	42	1.61
17145014--17145066	28	1.9	27	88	3	79	28	22	18	30	1.98
17145111--17145156	20	2.3	20	88	7	67	45	17	4	32	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17153051--17153103	28	1.9	27	88	3	79	28	22	18	30	1.98
17153148--17153193	20	2.3	20	96	0	83	45	21	4	28	1.71
17154744--17154789	21	2.3	20	85	14	60	32	15	6	45	1.71
17156688--17156712	3	8.3	3	100	0	50	68	0	0	32	0.90
17159218--17159281	30	2.2	30	83	5	78	43	20	6	29	1.76
17159447--17159484	19	2.0	19	94	0	67	42	28	0	28	1.56
17163550--17163592	20	2.2	20	83	8	52	62	9	2	25	1.37
17167140--17167189	20	2.5	20	93	0	82	50	4	10	36	1.55
17168836--17168870	2	17.5	2	87	0	52	54	2	0	42	1.15
17170121--17170145	11	2.3	11	100	0	50	56	0	8	36	1.29
17178893--17178977	36	2.4	36	93	0	152	35	22	25	16	1.95
17190234--17190304	23	3.0	24	68	4	63	36	21	12	29	1.90
17190216--17190321	47	2.3	47	84	0	131	32	23	11	33	1.90
17190309--17190430	43	2.8	44	81	9	126	28	31	7	31	1.85
17190408--17190609	23	8.9	23	70	13	116	35	24	7	32	1.84
17190488--17190609	46	2.6	46	88	3	174	36	23	7	31	1.83
17190759--17190839	43	1.9	43	89	2	128	33	14	11	40	1.82
17194567--17194610	21	2.2	20	88	12	63	22	4	4	68	1.27
17197006--17197108	39	2.6	40	89	3	147	24	14	36	24	1.93
17196970--17197182	114	1.9	113	84	4	286	22	13	39	25	1.90
17206168--17206208	2	20.5	2	100	0	82	51	0	0	48	1.00
17206282--17206321	2	20.0	2	90	10	64	47	2	0	50	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17208046--17208074	11	2.5	12	88	11	51	58	17	0	24	1.38
17208050--17208075	11	2.4	11	100	0	52	57	15	0	26	1.38
17214037--17214088	27	2.0	26	88	3	77	44	3	1	50	1.31
17215198--17215358	34	4.9	34	69	10	91	36	21	18	22	1.95
17216136--17216172	16	2.3	16	85	0	56	32	21	8	37	1.83
17226217--17226280	28	2.2	29	86	2	85	45	20	6	28	1.75
17241482--17241529	2	26.0	2	80	16	59	47	0	0	52	1.00
17241482--17241529	11	4.2	11	82	10	60	47	0	0	52	1.00
17241478--17241524	24	2.0	24	95	4	87	44	0	0	55	0.99
17252176--17252235	5	11.4	5	80	16	68	78	3	1	16	0.97
17252179--17252234	19	2.9	19	85	15	80	78	3	1	16	0.97
17252179--17252233	18	2.9	18	87	12	76	78	3	1	16	0.98
17260191--17260497	86	3.6	84	83	4	368	22	24	28	25	1.99
17260169--17260498	172	1.9	169	85	4	448	23	23	28	24	2.00
17262877--17262915	20	2.0	19	85	5	51	61	5	20	12	1.50
17263935--17264137	63	3.2	63	91	0	316	28	14	32	24	1.94
17270110--17270378	55	4.9	54	84	3	304	45	30	12	11	1.78
17270809--17270866	23	2.5	22	83	8	80	25	32	17	24	1.96
17270860--17271211	104	3.4	104	81	3	406	23	34	13	28	1.93
17271172--17271235	24	2.7	24	97	0	119	28	31	14	26	1.95
17270972--17271443	232	2.0	232	90	0	739	23	33	13	28	1.93
17271236--17271292	23	2.5	23	82	5	71	24	31	14	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17271239--17271316	23	3.4	23	75	7	68	25	30	14	29	1.94
17271131--17271661	208	2.6	206	84	3	510	24	34	13	28	1.93
17271195--17271661	104	4.5	104	80	0	493	23	34	13	28	1.93
17271472--17271524	23	2.3	23	80	0	61	24	33	16	24	1.96
17271572--17271795	81	2.8	80	78	7	227	26	36	9	27	1.87
17271202--17271661	208	2.2	207	90	0	704	23	34	13	28	1.93
17270843--17271651	440	1.8	438	87	1	1129	23	34	13	28	1.93
17271738--17271788	23	2.2	23	82	0	57	27	37	3	31	1.75
17275949--17275992	22	2.0	22	91	8	72	31	25	6	36	1.82
17278615--17278652	19	2.0	19	94	0	67	42	28	0	28	1.56
17280847--17280907	23	2.5	25	82	10	74	75	0	21	3	0.94
17284748--17284783	11	3.2	11	92	4	54	69	0	0	30	0.89
17285614--17285681	31	2.2	31	83	0	82	51	4	10	33	1.56
17299334--17299452	55	2.1	55	98	1	229	46	10	15	26	1.80
17304302--17304338	19	1.9	19	88	0	56	2	0	16	81	0.81
17306624--17306676	25	2.1	25	82	3	61	58	0	1	39	1.09
17308756--17308780	2	12.5	2	100	0	50	0	48	0	52	1.00
17315747--17315800	27	2.1	24	83	10	63	48	1	1	48	1.23
17316304--17316340	2	18.5	2	100	0	74	51	0	0	48	1.00
17316395--17316429	2	17.5	2	100	0	70	48	0	0	51	1.00
17318895--17319074	34	5.4	34	70	10	129	20	18	25	35	1.95
17336314--17336365	13	4.2	12	75	7	50	71	9	7	11	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17353963--17353987	2	12.5	2	100	0	50	48	0	0	52	1.00
17362142--17362246	36	3.0	36	88	2	142	25	18	15	40	1.89
17362241--17362269	14	2.1	14	100	0	58	6	13	20	58	1.58
17367457--17367486	14	2.1	14	93	0	51	20	0	10	70	1.16
17367647--17367697	16	3.1	16	78	15	59	41	5	0	52	1.25
17367859--17367902	18	2.4	18	88	7	63	52	2	2	43	1.26
17368249--17368371	24	5.2	24	77	7	92	38	19	17	24	1.93
17368200--17368409	69	3.0	69	84	1	260	37	19	17	25	1.93
17368334--17368506	45	3.8	45	84	1	222	34	19	20	26	1.96
17368251--17368416	24	7.2	24	68	19	86	37	19	18	24	1.93

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