genome.fa.s5.2.7.7.80.10.50.1000.63.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: chr5
Parameters: 2 7 7 80 10 50 1000
Length:  39371879

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   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   

This is table  63  of  103  ( 12320 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)
23798433--23798475	21	2.0	21	82	8	52	51	9	13	25	1.71
23803029--23803053	13	1.9	13	100	0	50	48	8	0	44	1.32
23807739--23807784	15	3.1	15	81	12	58	56	17	2	23	1.52
23808973--23808997	13	1.9	13	100	0	50	48	8	0	44	1.32
23814600--23814640	16	2.5	17	73	11	50	17	4	2	75	1.08
23827996--23828033	12	3.2	12	88	0	58	50	13	36	0	1.42
23829431--23829503	38	1.9	38	94	0	128	35	36	15	12	1.84
23840171--23840211	15	2.7	16	88	11	68	75	4	4	14	1.14
23843381--23843454	2	37.5	2	78	10	73	2	50	2	43	1.30
23847611--23847697	29	2.9	31	78	13	103	39	2	1	57	1.19
23856729--23856844	59	2.0	59	84	3	153	36	13	11	38	1.81
23856898--23856996	25	4.0	25	72	2	83	38	12	17	32	1.86
23857848--23857891	20	2.2	20	84	8	54	40	2	9	47	1.48
23861448--23861502	23	2.3	24	84	6	67	50	5	10	32	1.60
23861537--23861651	54	2.2	52	79	6	140	45	10	6	38	1.63
23861546--23861637	27	3.5	26	81	11	98	47	10	5	35	1.62
23861546--23861648	54	1.9	54	88	2	154	47	10	4	36	1.60
23864339--23864370	13	2.4	14	90	10	50	65	0	0	34	0.93
23864924--23864977	18	3.0	18	80	20	60	27	0	0	72	0.85
23864927--23864977	19	2.7	18	85	11	66	25	0	0	74	0.82
23864922--23864983	28	2.2	29	80	11	76	33	0	0	66	0.92
23865380--23865415	16	2.2	16	95	0	63	77	0	0	22	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23865570--23865628	23	2.6	22	84	10	75	52	1	3	42	1.28
23866336--23866375	2	20.0	2	94	0	71	47	0	0	52	1.00
23867148--23867202	23	2.4	23	93	0	92	40	1	23	34	1.66
23868042--23868257	89	2.4	89	88	0	333	27	15	33	23	1.95
23868042--23868263	46	5.0	45	78	6	227	27	15	32	23	1.95
23873076--23873108	2	16.5	2	100	0	66	48	0	0	51	1.00
23873172--23873327	83	1.9	84	91	4	262	24	30	23	21	1.99
23876272--23876328	20	2.9	19	82	14	64	73	0	15	10	1.09
23876264--23876321	20	2.8	22	73	21	61	74	0	18	6	1.04
23876613--23876955	167	2.1	167	92	1	562	23	14	16	45	1.84
23882424--23882580	80	2.0	80	89	0	242	33	17	12	35	1.88
23882959--23883003	15	3.1	14	81	12	54	44	6	2	46	1.42
23882910--23882978	23	3.0	23	84	2	84	44	7	1	46	1.40
23883070--23883178	40	2.7	40	100	0	218	52	4	1	41	1.33
23883502--23883558	29	2.0	29	92	0	96	17	45	24	12	1.83
23888415--23888443	12	2.4	12	100	0	58	41	0	0	58	0.98
23893866--23893903	20	1.9	20	94	0	67	31	5	18	44	1.72
23893958--23894014	28	2.0	28	86	6	80	29	15	22	31	1.95
23895457--23895494	20	1.9	20	94	0	67	31	5	18	44	1.72
23895553--23895606	28	1.9	28	85	7	74	37	24	14	24	1.93
23902662--23902688	13	2.1	13	100	0	54	70	7	0	22	1.12
23903109--23903165	22	2.6	21	83	5	60	33	0	1	64	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23904919--23904973	27	2.0	27	96	0	101	32	16	25	25	1.96
23906187--23906290	38	2.7	38	86	4	127	21	38	18	22	1.93
23906194--23906286	19	4.8	19	64	10	62	20	39	18	21	1.92
23907862--23907898	3	12.3	3	100	0	74	64	0	0	35	0.94
23914630--23914686	20	2.9	19	82	14	64	73	0	15	10	1.09
23914622--23914679	20	2.8	22	73	21	61	74	0	18	6	1.04
23931591--23931642	21	2.4	21	81	15	70	51	5	26	15	1.65
23936307--23936331	13	1.9	13	100	0	50	12	16	8	64	1.49
23936640--23936684	13	3.4	13	87	3	54	26	0	8	64	1.23
23936650--23936687	14	2.8	14	92	4	60	23	0	15	60	1.35
23956835--23956937	45	2.3	45	81	5	109	19	26	24	30	1.98
23959650--23959686	19	1.9	19	94	0	65	29	0	27	43	1.55
23960883--23960908	13	2.0	13	100	0	52	46	0	7	46	1.31
23962112--23962238	58	2.2	59	85	1	175	32	26	15	25	1.96
23962610--23962712	39	2.7	39	84	1	118	40	13	14	31	1.85
23964341--23964365	9	2.8	9	100	0	50	88	0	0	12	0.53
23970559--23970592	2	17.5	2	93	6	61	0	50	0	50	1.00
23970592--23970616	2	12.5	2	100	0	50	48	0	0	52	1.00
23978035--23978059	13	1.9	13	100	0	50	12	16	8	64	1.49
23978881--23978910	15	2.0	15	93	0	51	63	20	16	0	1.31
23983552--23983592	15	2.8	15	82	14	50	29	9	0	60	1.28
24000676--24000736	26	2.3	26	97	0	113	21	19	18	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24000693--24000749	26	2.2	26	83	3	69	28	21	15	35	1.94
24001086--24001543	251	1.8	247	90	2	738	49	7	10	31	1.67
24002733--24002917	58	3.2	58	85	3	230	29	25	17	27	1.97
24003292--24003394	39	2.7	38	83	7	118	41	12	13	32	1.82
24004431--24004534	35	2.9	36	81	1	120	27	12	34	25	1.92
24005960--24006086	38	3.3	38	65	8	105	45	18	5	29	1.72
24005922--24006096	76	2.3	76	96	0	323	47	21	4	26	1.70
24012150--24012176	13	2.1	13	100	0	54	66	0	0	33	0.92
24013350--24013411	26	2.4	26	94	0	106	32	40	3	24	1.71
24013646--24013768	42	2.9	42	97	0	228	21	34	22	21	1.97
24016192--24016244	2	26.5	2	92	0	88	49	1	1	47	1.23
24018645--24018678	18	1.9	17	88	5	50	64	2	29	2	1.22
24024956--24024998	21	2.0	21	82	13	52	44	0	2	53	1.13
24024995--24025036	21	2.0	22	86	9	61	50	0	2	47	1.14
24039461--24039520	27	2.2	27	96	0	111	46	3	0	50	1.18
24046517--24046569	18	2.9	19	83	10	67	3	9	1	84	0.81
24046519--24046582	28	2.3	27	86	5	83	7	7	1	82	0.89
24046530--24046581	19	2.8	19	85	8	54	7	7	1	82	0.91
24046606--24046676	10	7.1	9	75	23	54	4	9	1	84	0.81
24046606--24046676	11	7.0	10	79	10	74	4	9	1	84	0.81
24046606--24046675	28	2.3	31	85	11	92	4	10	1	84	0.82
24046611--24046679	23	3.0	22	80	16	77	5	8	1	84	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24046604--24046675	33	2.2	32	82	7	90	4	11	1	83	0.85
24046606--24046676	21	3.5	20	77	14	74	4	9	1	84	0.81
24046616--24046692	17	4.5	17	76	12	77	7	7	2	81	0.95
24046622--24046687	33	2.1	31	86	11	89	9	6	1	83	0.87
24047023--24047116	24	4.0	24	75	8	104	43	13	13	28	1.83
24047085--24047222	45	3.1	45	87	2	179	34	15	19	29	1.93
24047023--24047162	69	2.0	69	88	0	208	39	14	17	29	1.89
24047206--24047250	21	2.1	21	91	0	72	20	13	28	37	1.90
24047160--24047285	66	1.9	66	90	0	198	28	15	23	32	1.95
24047029--24047450	111	3.8	111	80	2	425	33	17	19	29	1.95
24047226--24047323	45	2.2	45	90	0	151	30	15	23	30	1.95
24047353--24047452	45	2.2	45	85	0	146	35	21	17	27	1.95
24047436--24047520	29	2.8	32	76	10	95	37	11	12	37	1.81
24047459--24047533	29	2.7	27	84	10	96	36	13	10	40	1.79
24051567--24051604	11	3.7	10	86	13	51	84	5	2	7	0.86
24052777--24052837	25	2.5	23	77	15	61	75	1	4	18	1.06
24052770--24052827	31	1.9	30	82	10	73	75	1	5	17	1.06
24052800--24052850	24	2.1	24	85	7	68	78	3	1	15	0.99
24054399--24054440	22	2.0	21	95	4	75	80	0	14	4	0.86
24054399--24054440	21	2.0	22	90	4	68	80	0	14	4	0.86
24054603--24054640	20	2.0	20	94	5	69	81	0	13	5	0.85
24054266--24054674	202	2.0	202	94	3	736	53	7	11	28	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24056250--24056325	6	12.0	6	77	12	55	78	6	2	11	1.03
24056247--24056317	22	3.3	21	83	15	83	80	8	1	9	0.97
24056276--24056316	17	2.4	16	92	8	64	82	7	0	9	0.83
24056250--24056325	20	3.9	20	75	18	79	78	6	2	11	1.03
24060089--24060243	84	1.8	84	85	0	220	46	8	29	15	1.75
24061403--24061895	141	3.5	139	88	2	680	26	22	15	36	1.93
24061788--24062060	92	2.9	93	88	5	410	25	21	16	36	1.94
24062029--24062498	37	12.3	37	77	8	417	24	15	18	42	1.88
24062028--24062237	75	2.8	73	81	9	228	23	17	18	40	1.90
24062902--24062952	10	5.2	9	86	13	66	80	5	1	11	0.97

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   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103