genome.fa.s4.2.7.7.80.10.50.1000.49.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  49  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)
17907488--17907531	22	2.0	22	86	0	61	27	6	18	47	1.73
17907542--17907598	22	2.6	22	82	0	69	17	12	26	43	1.84
17908508--17908577	33	2.1	33	86	0	95	35	18	11	34	1.87
17909227--17909260	15	2.2	16	89	5	52	73	14	0	11	1.10
17909955--17910127	62	2.7	65	82	6	194	49	4	15	31	1.63
17909978--17910127	65	2.4	62	85	4	185	46	4	16	33	1.66
17917226--17917311	43	2.0	43	93	0	145	34	24	11	29	1.91
17923400--17923468	35	2.0	33	83	5	84	31	13	23	31	1.92
17930849--17930883	17	2.1	17	89	10	54	74	0	25	0	0.82
17932000--17932089	29	3.2	29	69	12	98	15	14	44	25	1.84
17931999--17932109	54	2.1	54	94	0	195	19	14	41	24	1.89
17932609--17932665	19	3.0	19	100	0	114	26	0	31	42	1.56
17936970--17937053	39	2.2	39	93	0	141	21	8	20	50	1.74
17939559--17939756	81	2.4	81	89	0	297	38	10	9	41	1.71
17940029--17940086	18	3.2	18	78	9	64	31	8	31	29	1.87
17940133--17940208	23	3.3	23	92	0	125	35	21	26	17	1.95
17940194--17940316	49	2.5	50	86	4	176	35	17	21	25	1.95
17941897--17941955	2	30.0	2	96	3	111	50	0	0	49	1.00
17957547--17957614	31	2.1	33	89	10	106	38	4	0	57	1.19
17969699--17969899	53	3.8	53	83	3	221	28	23	10	36	1.88
17969699--17969936	25	9.2	25	77	8	154	28	22	10	37	1.88
17969699--17969936	53	4.6	50	81	6	219	28	22	10	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17969699--17969936	103	2.3	103	82	7	259	28	22	10	37	1.88
17970761--17970854	33	2.8	33	90	0	152	36	4	28	30	1.76
17975467--17975571	42	2.5	42	85	4	140	21	35	17	25	1.95
17977261--17977410	72	2.1	69	87	6	228	18	16	9	56	1.66
17985480--17985750	140	1.9	142	89	3	422	26	22	21	28	1.99
17998438--17998585	28	5.5	28	79	11	112	21	20	16	41	1.90
17998348--17998585	25	9.2	25	74	9	131	23	19	17	39	1.92
18000481--18000522	21	2.1	21	86	8	61	30	19	4	45	1.71
18011585--18011635	22	2.3	22	83	6	68	45	13	5	35	1.68
18031351--18031593	31	7.8	31	86	3	337	26	15	18	39	1.90
18035982--18036245	31	8.5	31	89	0	341	36	21	17	24	1.94
18036856--18037162	47	6.6	46	78	6	296	24	31	16	27	1.97
18036858--18037166	94	3.3	94	81	2	336	24	31	16	27	1.97
18036905--18037166	141	1.9	141	83	3	348	24	31	17	27	1.97
18038815--18038901	25	3.4	25	68	16	70	37	13	1	47	1.51
18038812--18038913	51	2.0	51	98	0	195	39	14	0	45	1.52
18038840--18038921	26	3.2	26	67	16	71	39	14	1	45	1.53
18038812--18038927	51	2.3	51	92	1	178	38	13	0	46	1.50
18056327--18056410	40	2.2	38	87	8	116	54	1	1	42	1.15
18056391--18056444	14	3.7	15	78	7	58	59	0	0	40	0.98
18056355--18056427	35	2.1	36	82	7	87	57	0	1	41	1.07
18056949--18056983	16	2.2	16	90	5	54	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18057860--18057893	11	3.1	11	86	0	50	17	0	2	79	0.86
18057935--18057983	25	2.0	25	92	8	82	42	0	0	57	0.99
18062761--18062801	16	2.6	16	92	0	64	24	2	0	73	0.96
18064653--18064779	43	3.0	43	85	0	173	27	29	17	25	1.97
18065935--18065974	20	2.0	20	90	4	64	35	10	37	17	1.83
18069423--18069471	24	2.0	24	92	7	82	24	12	12	51	1.73
18070281--18070310	2	15.0	2	100	0	60	50	0	0	50	1.00
18071143--18071195	20	2.7	20	82	5	63	32	11	28	28	1.91
18076268--18076311	24	1.9	24	86	9	65	34	20	4	40	1.73
18076418--18076445	2	14.0	2	100	0	56	50	0	0	50	1.00
18090141--18090209	25	2.9	24	83	8	79	27	20	14	37	1.91
18090158--18090231	25	3.0	25	84	5	98	21	20	17	40	1.91
18090166--18090242	23	3.3	23	81	3	91	20	22	18	38	1.93
18092124--18092151	7	4.0	7	100	0	56	57	0	28	14	1.38
18096420--18096461	21	2.0	22	85	4	59	28	9	4	57	1.51
18096714--18096784	30	2.4	30	92	0	115	32	8	8	50	1.63
18100842--18101001	78	2.1	78	87	0	230	40	18	23	17	1.91
18104154--18104206	23	2.3	23	74	6	54	32	35	11	20	1.88
18104479--18104769	92	3.2	92	90	0	438	33	24	12	28	1.92
18104998--18105075	26	3.0	26	96	0	138	58	7	11	21	1.57
18106678--18106777	45	2.2	45	92	0	164	20	34	19	27	1.96
18108841--18108901	23	2.7	23	89	0	86	40	27	14	16	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18128242--18128287	2	24.5	2	87	12	71	50	0	0	50	1.00
18143346--18143378	4	8.0	4	96	3	57	72	0	24	3	0.98
18146767--18146861	46	2.1	46	95	0	172	43	10	42	4	1.58
18147846--18147871	13	2.0	13	100	0	52	46	7	7	38	1.61
18179250--18179278	2	14.5	2	100	0	58	51	0	0	48	1.00
18180471--18180507	3	12.7	3	94	5	67	64	0	0	35	0.94
18189018--18189073	16	3.3	17	78	9	53	42	0	0	57	0.99
18194293--18194331	14	2.8	13	85	11	51	51	0	0	48	1.00
18194310--18194387	36	2.3	35	84	10	108	48	1	0	50	1.09
18194350--18194400	12	4.0	13	75	9	52	49	0	0	50	1.00
18194474--18194579	48	2.2	51	80	14	125	49	2	0	47	1.22
18194714--18194738	11	2.3	11	100	0	50	80	0	0	20	0.72
18219208--18219242	17	2.1	16	94	5	61	0	45	0	54	0.99
18219208--18219289	9	9.8	9	68	21	54	2	43	2	51	1.28
18219204--18219287	24	3.5	24	79	9	93	2	44	2	51	1.27
18225600--18225659	19	3.1	19	85	4	66	68	6	0	25	1.14
18235110--18235213	2	53.5	2	85	9	144	48	0	1	48	1.19
18235109--18235233	59	2.1	59	93	0	223	45	4	3	46	1.38
18236653--18236687	2	17.5	2	100	0	70	51	0	0	48	1.00
18237124--18237187	3	21.3	3	100	0	128	67	0	0	32	0.91
18237397--18237448	27	1.9	27	96	0	95	25	36	25	13	1.92
18253680--18253789	53	2.0	54	84	3	141	13	13	30	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18253818--18253895	31	2.5	31	87	4	104	26	17	21	33	1.96
18256349--18256504	63	2.5	63	90	2	242	23	18	33	24	1.96
18260495--18260549	16	3.3	15	76	18	56	45	0	16	38	1.47
18260481--18260625	33	4.2	32	76	13	119	52	2	10	34	1.50
18260561--18260637	33	2.5	30	82	6	91	51	3	7	36	1.49
18260590--18260642	14	3.4	15	76	12	54	60	3	5	30	1.37
18262175--18262503	31	10.6	31	79	3	272	38	22	15	23	1.92
18262175--18262505	62	5.3	62	78	5	303	38	22	15	23	1.92
18262175--18262503	93	3.5	94	75	7	321	38	22	15	23	1.92
18264665--18265045	31	12.3	31	88	2	462	37	19	18	24	1.94
18265513--18265570	29	2.0	29	89	0	89	37	27	12	22	1.89
18265618--18265999	47	8.1	47	81	5	353	22	32	17	28	1.96
18265618--18265997	94	4.0	94	81	2	406	22	32	17	28	1.96
18265624--18266007	141	2.7	141	83	4	495	22	32	16	27	1.96
18268300--18268351	13	4.0	13	87	9	79	50	0	0	50	1.00
18268299--18268353	2	29.0	2	89	10	89	50	0	0	49	1.00
18268299--18268402	15	7.0	15	73	18	85	43	0	4	50	1.30
18274520--18274572	27	2.0	26	88	3	79	37	18	1	41	1.62
18273286--18274662	695	2.0	685	89	2	2116	35	16	8	39	1.79
18286623--18286661	17	2.2	18	86	4	53	12	2	0	84	0.72
18287928--18288079	75	2.0	75	100	0	304	37	18	19	25	1.94
18288683--18288739	3	19.3	3	76	16	57	68	1	28	1	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18308975--18309017	3	14.7	3	80	4	52	67	0	4	27	1.10
18308964--18309030	26	2.6	25	86	6	89	71	1	4	22	1.12
18308956--18309031	29	2.6	27	76	17	73	69	1	3	25	1.13
18324255--18324664	138	3.0	138	90	0	624	24	28	8	38	1.85
18330513--18330567	21	2.7	20	72	5	56	34	1	0	63	1.05
18331290--18331359	30	2.3	30	97	0	131	17	32	21	28	1.96
18332942--18332980	20	2.0	20	89	0	60	2	7	2	87	0.73
18339211--18339249	19	2.1	19	90	9	62	79	0	15	5	0.90
18348331--18348366	2	18.0	2	100	0	72	50	0	0	50	1.00
18351125--18351195	31	2.3	31	100	0	142	25	14	29	30	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