genome.fa.s8.2.7.7.80.10.50.1000.47.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: Chr9
Parameters: 2 7 7 80 10 50 1000
Length:  48574783

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   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   

This is table  47  of  135  ( 16172 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)
18885771--18885841	37	1.9	37	100	0	142	39	11	0	49	1.39
18886475--18886577	27	3.7	28	87	7	138	49	0	9	40	1.36
18887744--18887805	31	2.0	31	83	0	79	43	9	12	33	1.76
18901499--18901566	28	2.4	27	83	11	84	23	1	7	67	1.24
18901934--18901958	6	4.2	6	100	0	50	16	0	32	52	1.44
18902336--18902362	6	4.5	6	100	0	54	0	48	0	51	1.00
18903935--18903992	3	19.3	3	89	0	80	58	0	6	34	1.25
18908208--18908266	29	2.0	29	96	0	109	25	23	6	44	1.78
18911935--18912105	95	1.8	94	86	6	249	38	24	13	23	1.91
18913747--18914477	364	2.0	365	99	0	1455	39	10	7	42	1.68
18916847--18916893	24	2.0	24	95	0	85	36	12	31	19	1.89
18926681--18926721	21	2.0	21	85	0	55	29	21	4	43	1.73
18934943--18934982	4	10.0	4	94	0	71	25	2	25	47	1.64
18935727--18935766	18	2.2	18	86	8	55	52	5	2	40	1.37
18939270--18939329	26	2.3	26	80	11	61	36	23	21	18	1.95
18939749--18939787	5	7.6	5	82	5	51	43	17	2	35	1.63
18949724--18949780	26	2.1	27	83	3	71	17	19	35	28	1.94
18950923--18950956	17	1.9	18	88	5	52	35	2	0	61	1.11
18952078--18952123	2	23.0	2	100	0	92	0	50	0	50	1.00
18976526--18976569	22	2.0	22	83	12	56	40	0	4	54	1.21
18977660--18977698	21	1.9	21	89	5	62	33	2	10	53	1.48
18979959--18980016	22	2.6	22	97	0	107	17	22	17	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18990486--18990510	13	1.9	13	100	0	50	12	8	0	80	0.92
18995013--18995107	48	2.0	48	89	0	145	44	22	14	18	1.86
18995405--18995476	36	2.0	36	91	2	119	31	27	8	31	1.86
19018607--19018638	14	2.3	14	100	0	64	46	25	15	12	1.81
19023718--19023889	1	172.0	1	100	0	344	0	100	0	0	0.00
19025241--19025273	15	2.2	15	89	10	50	15	9	0	75	1.03
19036758--19036793	18	2.1	17	89	5	54	33	0	8	58	1.28
19040053--19040130	33	2.4	33	83	12	106	26	26	16	29	1.97
19040071--19040261	105	1.9	101	86	4	274	27	26	16	30	1.97
19050049--19050107	22	2.7	21	79	10	55	64	11	16	6	1.47
19054176--19054239	31	2.1	31	100	0	128	25	15	18	40	1.90
19057572--19057602	9	3.4	9	90	0	53	25	12	22	38	1.90
19058472--19058497	5	5.2	5	100	0	52	23	19	19	38	1.93
19059114--19059139	7	3.7	7	100	0	52	42	26	15	15	1.87
19061244--19061292	21	2.3	23	80	16	61	30	28	22	18	1.97
19062158--19062203	1	46.0	1	95	0	83	2	0	97	0	0.15
19062153--19062200	23	2.1	23	96	0	87	6	0	93	0	0.34
19062158--19062207	26	1.9	26	100	0	100	4	0	96	0	0.24
19070538--19070600	31	2.0	31	100	0	126	38	17	3	41	1.65
19072144--19072255	57	2.0	54	87	5	161	38	12	8	40	1.74
19075021--19075068	24	2.0	24	100	0	96	45	8	29	16	1.76
19077420--19077494	23	3.3	23	92	0	123	34	26	21	17	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19077582--19077610	8	3.6	8	100	0	58	34	27	13	24	1.93
19078707--19078844	45	3.0	46	89	5	210	28	28	7	34	1.86
19080070--19080117	17	2.9	17	90	3	71	54	18	0	27	1.44
19080275--19080406	42	3.2	42	76	1	122	17	22	17	42	1.89
19085242--19085506	132	2.0	133	99	0	523	33	8	9	49	1.65
19103926--19103952	2	13.5	2	100	0	54	48	0	0	51	1.00
19118069--19118119	23	2.2	23	86	6	68	39	19	9	31	1.84
19121011--19121037	14	1.9	14	100	0	54	44	11	0	44	1.39
19137453--19137505	27	1.9	27	84	3	70	69	1	3	24	1.15
19142063--19142489	51	8.4	51	98	0	793	31	13	23	30	1.93
19143089--19143167	39	2.0	40	97	2	151	20	15	31	32	1.93
19151521--19151629	42	2.6	43	84	7	125	31	26	16	25	1.97
19152743--19152770	14	2.0	14	100	0	56	50	21	0	28	1.49
19153796--19153853	30	1.9	31	92	3	100	41	10	17	31	1.83
19154170--19154264	45	2.1	45	86	0	136	26	16	23	33	1.96
19159799--19159843	2	25.0	2	79	20	55	53	0	0	46	1.00
19159799--19159843	13	3.1	16	79	20	55	53	0	0	46	1.00
19163408--19163462	24	2.3	24	90	0	83	20	27	18	34	1.95
19164262--19164328	29	2.3	29	81	2	71	47	22	4	25	1.70
19165058--19165142	40	2.1	41	91	2	136	52	4	7	35	1.49
19165078--19165140	20	3.2	20	70	17	67	55	3	6	34	1.41
19166339--19166397	21	2.7	24	75	19	67	61	3	0	35	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19166588--19166620	9	3.7	9	84	15	50	78	3	0	18	0.87
19166574--19166616	13	3.2	13	90	3	59	74	4	0	20	1.00
19166618--19166682	17	3.5	18	80	14	69	72	4	9	13	1.26
19166622--19166690	20	3.6	21	75	12	60	75	4	7	13	1.16
19166585--19166689	18	5.9	17	73	19	56	75	3	5	15	1.14
19178510--19178543	16	2.1	17	88	5	52	76	2	2	17	1.04
19181017--19181041	5	5.0	5	100	0	50	80	0	0	20	0.72
19183106--19183189	42	2.0	42	97	0	159	60	14	1	23	1.41
19192671--19192706	18	2.0	18	100	0	72	38	16	27	16	1.90
19208214--19208300	21	4.1	21	79	7	104	36	25	21	16	1.94
19208214--19208296	23	3.8	23	75	12	86	37	26	21	14	1.92
19208214--19208300	44	2.0	41	84	6	111	36	25	21	16	1.94
19208625--19208664	16	2.5	16	84	11	55	25	22	0	52	1.47
19208931--19208956	13	2.0	13	100	0	52	61	0	0	38	0.96
19209063--19209090	5	5.6	5	100	0	56	78	0	0	21	0.75
19209573--19209637	9	6.9	9	73	22	53	63	9	0	27	1.25
19210235--19210311	31	2.5	30	85	6	100	44	7	15	32	1.75
19210758--19210799	17	2.5	17	84	11	59	64	2	0	33	1.07
19210762--19210798	16	2.2	17	90	4	58	67	2	0	29	1.04
19210782--19210823	22	1.9	22	90	0	66	61	0	2	35	1.09
19212439--19212472	17	1.9	18	88	5	52	17	35	23	23	1.95
19212650--19212675	11	2.4	11	100	0	52	7	34	11	46	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19213775--19213810	18	1.9	19	88	5	56	33	19	0	47	1.50
19240707--19240746	2	20.0	2	100	0	80	50	0	0	50	1.00
19253902--19253948	2	23.5	2	95	0	85	0	46	2	51	1.13
19255228--19255293	2	34.5	2	88	8	102	46	1	51	0	1.10
19256208--19256248	20	2.0	22	90	9	68	56	4	36	2	1.34
19261921--19261950	2	15.0	2	100	0	60	0	50	0	50	1.00
19272950--19272974	11	2.3	11	100	0	50	40	8	0	52	1.31
19272934--19273053	40	3.0	41	90	4	192	33	4	0	62	1.14
19272972--19273033	9	6.4	9	72	20	54	27	1	0	70	0.96
19279714--19279762	20	2.6	20	81	12	68	22	2	0	75	0.90
19285772--19285811	21	2.0	20	85	5	53	55	12	12	20	1.69
19290840--19290907	21	3.2	21	78	0	82	39	19	26	14	1.90
19290813--19290926	42	2.7	42	80	0	129	42	15	22	19	1.89
19291091--19291183	45	2.1	45	93	0	159	46	12	1	39	1.50
19292094--19292358	132	2.0	133	99	0	523	49	10	0	39	1.44
19293148--19293188	18	2.2	20	86	8	59	31	0	4	63	1.15
19302210--19302306	47	2.1	44	84	5	122	55	7	3	34	1.43
19324536--19324586	26	1.9	27	84	11	70	50	1	0	47	1.12
19324563--19324622	24	2.7	23	73	19	63	46	0	1	51	1.10
19325631--19325690	31	1.9	32	83	6	79	30	8	8	53	1.60
19337841--19337949	43	2.6	42	85	8	150	56	0	4	37	1.26
19338090--19338134	3	15.0	3	100	0	90	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19340200--19340364	51	3.3	51	90	0	260	32	14	25	27	1.95
19343045--19343208	75	2.2	75	87	2	231	33	18	27	20	1.96
19343045--19343200	25	6.2	25	81	3	152	33	18	26	21	1.96
19345149--19345192	18	2.5	17	82	7	52	38	6	0	54	1.27
19352228--19352257	5	6.0	5	100	0	60	20	60	0	20	1.37
19352229--19352265	15	2.5	15	90	0	56	21	59	0	18	1.38
19353310--19353350	22	1.9	22	90	5	66	46	4	9	39	1.58
19370594--19370653	22	2.7	23	80	10	61	11	18	10	60	1.58
19376849--19376882	18	2.0	17	88	11	52	44	0	20	35	1.52
19379780--19380066	40	7.2	40	85	3	273	43	16	4	35	1.69

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   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135