genome.fa.s5.2.7.7.80.10.50.1000.19.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  19  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)
6250203--6250259	30	1.9	30	96	0	105	47	5	7	40	1.53
6252562--6252600	3	13.0	3	100	0	78	66	0	0	33	0.92
6252705--6252730	12	2.2	12	100	0	52	76	0	0	23	0.78
6253004--6253449	219	2.0	219	99	0	883	43	11	15	30	1.81
6253440--6253495	3	18.3	3	75	10	51	58	7	0	33	1.25
6253440--6253478	14	2.7	15	88	4	53	61	2	0	35	1.10
6253569--6253626	28	2.1	28	96	0	107	56	6	15	20	1.62
6253813--6253837	12	2.1	12	100	0	50	76	0	0	24	0.80
6254415--6254468	3	18.0	3	100	0	108	66	0	0	33	0.92
6254548--6254754	113	1.8	111	96	2	387	66	5	9	18	1.39
6254708--6254798	27	3.1	29	73	17	107	70	3	8	17	1.27
6254687--6254814	58	2.2	59	95	4	231	71	3	7	18	1.23
6254725--6254815	29	3.1	29	69	18	82	71	3	6	18	1.22
6257136--6257268	72	1.9	71	85	4	187	15	26	28	29	1.96
6257209--6257387	88	2.0	88	89	0	268	21	24	25	29	1.99
6258667--6258705	20	1.9	21	84	5	53	23	5	10	61	1.48
6267639--6267736	21	4.7	21	88	8	130	39	15	9	35	1.79
6267665--6267748	21	4.3	18	85	11	62	38	15	11	34	1.84
6267889--6267930	21	2.0	22	85	4	59	21	2	14	61	1.43
6274879--6275073	98	2.0	98	89	2	302	36	24	10	28	1.89
6286269--6286306	19	2.0	20	84	5	51	42	10	2	44	1.52
6289376--6289572	98	2.0	98	90	0	313	38	25	9	26	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6292176--6292379	109	1.9	108	85	5	286	21	25	24	27	1.99
6293553--6293627	34	2.2	35	78	7	82	34	24	18	22	1.96
6300616--6300651	18	2.1	16	90	10	54	30	5	2	61	1.33
6307565--6307593	6	4.8	6	100	0	58	0	51	13	34	1.42
6321869--6321942	39	2.0	37	89	10	116	25	21	13	39	1.90
6324300--6324359	29	2.1	29	100	0	120	61	11	3	23	1.45
6325112--6325146	16	2.1	17	94	5	63	11	0	2	85	0.69
6328616--6328670	25	2.3	24	81	12	60	23	3	7	65	1.34
6333738--6333768	12	2.6	12	89	0	53	12	38	19	29	1.89
6333857--6333937	42	1.9	42	82	9	103	18	39	27	14	1.90
6337775--6337836	25	2.5	25	83	0	79	20	16	24	38	1.92
6346556--6346649	25	3.6	25	76	19	95	32	23	22	21	1.98
6357478--6357584	50	2.1	50	78	10	112	35	17	25	21	1.95
6364450--6364530	35	2.3	35	91	0	126	35	6	13	44	1.69
6380340--6380382	7	6.1	7	100	0	86	16	41	13	27	1.86
6389877--6389912	18	2.0	18	94	0	63	58	5	22	13	1.56
6394732--6395102	69	5.4	68	76	7	284	24	20	25	29	1.99
6399000--6399177	21	8.5	21	73	4	144	19	17	15	47	1.82
6398999--6399177	42	4.3	41	81	8	175	18	17	15	48	1.82
6399008--6399171	84	2.0	84	82	4	206	20	18	14	46	1.84
6406662--6406739	21	3.7	21	83	6	95	17	21	16	43	1.88
6406657--6406744	21	4.2	21	79	5	88	18	22	17	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6427946--6428069	46	2.8	46	91	3	200	27	22	16	33	1.96
6436316--6436349	17	2.0	17	88	0	50	32	20	2	44	1.67
6437084--6437131	20	2.3	21	78	7	62	52	2	2	43	1.24
6437251--6437292	18	2.2	20	84	12	54	35	7	0	57	1.26
6437319--6437352	2	17.0	2	100	0	68	50	0	0	50	1.00
6440342--6440409	33	2.1	33	100	0	136	35	17	20	26	1.95
6443522--6443555	9	3.7	9	88	7	50	32	0	0	67	0.91
6448744--6448798	3	18.3	3	81	7	67	36	1	1	60	1.18
6461397--6461954	50	11.2	50	71	6	371	32	23	20	22	1.98
6461388--6461954	100	5.7	99	86	3	721	32	23	20	23	1.98
6463608--6463662	3	18.3	3	81	7	67	36	1	1	60	1.18
6466416--6466625	91	2.3	91	81	8	257	32	13	24	29	1.94
6468175--6468253	37	2.1	37	81	4	88	53	2	5	39	1.37
6471627--6471681	18	3.0	18	84	7	67	32	0	5	61	1.19
6471627--6471681	19	2.9	19	84	7	60	32	0	5	61	1.19
6471873--6472264	50	7.9	50	71	4	245	32	24	20	22	1.98
6471861--6472253	100	3.9	99	86	4	513	32	23	21	22	1.98
6476876--6477085	91	2.3	91	81	8	257	32	13	24	29	1.94
6478635--6478713	37	2.1	37	81	4	88	53	2	5	39	1.37
6482087--6482141	18	3.0	18	84	7	67	32	0	5	61	1.19
6482087--6482141	19	2.9	19	84	7	60	32	0	5	61	1.19
6482582--6482638	29	1.9	30	82	10	73	43	0	14	42	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6483957--6483989	2	16.5	2	93	0	57	48	0	3	48	1.17
6484619--6484645	4	6.8	4	100	0	54	25	0	22	51	1.48
6487840--6487869	14	2.1	14	93	0	51	3	13	0	83	0.77
6490967--6491009	20	2.0	20	86	8	59	65	4	0	30	1.13
6506175--6506348	43	4.0	43	100	0	348	21	20	6	51	1.71
6513041--6513072	5	6.4	5	100	0	64	40	18	18	21	1.91
6513996--6514032	9	4.1	9	92	0	65	29	10	13	45	1.77
6514085--6514115	9	3.4	9	90	0	53	38	22	12	25	1.90
6515287--6515347	9	6.6	9	83	7	77	24	8	26	40	1.83
6515287--6515338	20	2.7	20	82	5	63	25	7	25	42	1.81
6516585--6516759	3	57.3	3	71	13	83	62	2	7	27	1.34
6518358--6518612	129	2.0	127	82	3	314	29	21	17	31	1.96
6518403--6518786	44	9.0	41	72	13	242	27	20	20	32	1.97
6518407--6518743	173	2.0	172	86	1	469	28	20	20	30	1.98
6518422--6518737	85	3.7	84	72	9	282	29	20	19	30	1.98
6518542--6518784	128	1.9	128	82	9	307	28	19	20	30	1.97
6518403--6518786	172	2.2	173	83	2	504	27	20	20	32	1.97
6518803--6519324	210	2.5	210	91	2	818	26	22	18	32	1.97
6518810--6519158	102	3.4	102	66	19	268	26	23	17	32	1.97
6525566--6525599	3	11.3	3	100	0	68	67	0	0	32	0.91
6525673--6525721	3	16.3	3	95	0	89	67	2	0	30	1.02
6528156--6528205	20	2.6	19	81	9	57	22	4	2	72	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6534979--6535003	10	2.5	10	100	0	50	72	0	0	28	0.86
6536535--6536583	25	2.0	25	83	0	62	38	0	16	44	1.48
6536556--6536598	16	2.6	17	78	17	54	44	0	13	41	1.44
6536980--6537065	43	2.0	43	86	8	122	53	1	18	26	1.52
6537630--6537656	13	2.1	13	100	0	54	37	14	14	33	1.88
6541020--6541060	21	2.0	20	85	4	55	53	0	0	46	1.00
6541029--6541063	18	1.9	18	88	0	52	51	0	0	48	1.00
6543852--6543878	7	3.9	7	100	0	54	29	11	29	29	1.91
6549613--6549637	7	3.6	7	100	0	50	32	56	0	12	1.36
6554006--6554293	143	2.0	144	99	0	569	30	11	8	49	1.68
6562538--6563165	43	14.5	43	81	6	686	24	0	30	43	1.61
6562538--6563136	65	9.3	63	82	9	481	24	1	30	43	1.61
6562538--6563165	22	29.0	22	81	6	707	24	0	30	43	1.61
6565551--6565650	51	2.0	51	88	4	148	45	3	26	26	1.68
6565628--6565674	11	4.2	11	88	2	67	42	2	34	21	1.65
6565615--6565674	22	2.7	23	82	12	72	43	1	33	21	1.63
6580172--6580202	7	4.3	7	92	8	53	87	0	12	0	0.55
6580172--6580202	15	2.1	15	94	5	55	87	0	12	0	0.55
6580998--6581032	18	1.9	19	88	11	56	68	5	8	17	1.35
6581347--6581422	38	2.0	38	94	0	134	3	28	10	56	1.51
6583753--6583951	54	3.5	53	68	20	139	43	2	4	49	1.34
6583885--6583919	18	2.0	17	88	5	52	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6584153--6584185	16	2.1	16	100	0	66	21	36	6	36	1.78
6585054--6585109	22	2.5	22	85	0	67	21	50	12	16	1.78
6585198--6585239	22	1.9	22	95	0	75	16	52	16	14	1.75
6585347--6585393	22	2.1	22	96	0	85	14	51	19	14	1.77
6585347--6585407	22	2.8	22	87	0	68	14	52	18	14	1.75
6585009--6585414	149	2.7	149	95	0	713	16	46	9	27	1.78
6588006--6588059	22	2.3	24	87	9	76	18	22	16	42	1.89
6592562--6592598	18	2.1	18	89	0	56	24	32	24	18	1.97
6594889--6594950	22	2.8	22	85	0	79	19	25	16	38	1.92
6595907--6595950	15	2.9	14	81	15	52	31	0	0	68	0.90

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