genome.fa.s9.2.7.7.80.10.50.1000.33.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:  38630433

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   

This is table  33  of  97  ( 11551 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)
13842451--13842484	2	17.0	2	100	0	68	50	0	0	50	1.00
13842527--13842560	2	17.0	2	100	0	68	50	0	0	50	1.00
13842446--13842595	76	2.0	76	97	1	275	43	14	10	31	1.79
13846663--13846694	16	2.0	16	93	0	55	34	12	21	31	1.91
13846669--13846702	16	2.1	16	88	0	50	41	14	14	29	1.86
13850760--13850839	42	1.9	42	82	10	101	20	17	10	52	1.72
13851532--13851776	102	2.4	102	74	6	237	26	18	10	44	1.83
13856213--13856245	14	2.4	14	94	0	57	15	18	6	60	1.54
13861092--13861165	14	5.1	14	73	12	60	51	10	21	16	1.74
13861092--13861160	29	2.4	29	85	4	95	52	10	21	15	1.73
13862912--13862985	35	2.1	35	89	0	112	22	17	20	39	1.92
13862920--13863030	35	3.2	34	81	6	100	21	18	24	35	1.96
13865535--13865587	18	3.0	18	75	2	54	24	20	20	33	1.97
13866365--13866565	98	2.0	99	96	0	368	29	19	15	34	1.94
13866523--13866577	26	2.1	27	86	3	76	40	16	14	29	1.88
13866652--13866929	102	2.7	101	76	2	270	43	14	19	22	1.86
13875068--13875093	12	2.2	12	100	0	52	42	0	0	57	0.98
13875399--13875424	12	2.2	12	100	0	52	42	0	0	57	0.98
13874848--13875824	331	3.0	330	95	2	1737	40	8	10	40	1.71
13878932--13878970	20	2.0	19	85	5	51	33	5	2	58	1.33
13881117--13881182	29	2.3	29	92	2	107	30	24	4	40	1.75
13881168--13881239	28	2.5	28	81	6	81	37	26	2	33	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13881566--13881658	46	2.0	47	89	2	143	35	10	16	37	1.83
13883913--13883977	28	2.2	28	83	5	85	44	12	1	41	1.51
13883928--13883984	28	2.0	28	93	0	96	42	14	3	40	1.62
13891804--13891855	16	3.4	14	80	19	59	0	34	3	61	1.14
13891804--13891844	8	5.4	8	80	8	50	0	34	2	63	1.08
13893125--13893209	40	2.1	40	88	0	125	22	0	18	58	1.39
13893138--13893213	40	1.9	40	94	0	134	19	0	18	61	1.34
13893132--13893204	22	3.5	21	68	22	64	21	0	17	60	1.36
13893176--13893243	34	2.0	34	83	11	86	25	0	16	58	1.38
13907523--13907554	2	16.0	2	93	0	55	50	0	3	46	1.17
13914403--13914428	2	13.0	2	100	0	52	50	0	0	50	1.00
13914912--13914999	25	3.5	25	89	3	133	19	20	11	48	1.79
13914998--13915063	17	3.7	17	69	23	55	1	22	1	74	0.99
13914991--13915063	11	6.2	12	79	17	57	2	21	1	73	1.03
13915069--13915146	22	3.7	22	91	5	126	8	46	14	30	1.75
13915282--13915332	23	2.2	23	82	0	57	37	21	5	35	1.78
13915258--13915395	57	2.4	56	81	3	168	31	19	10	37	1.86
13917299--13917379	2	40.0	2	92	2	135	50	0	1	46	1.09
13917483--13917644	63	2.6	63	94	0	279	24	33	17	24	1.97
13924281--13924323	22	2.0	22	90	0	68	39	30	16	13	1.87
13925221--13925321	32	3.0	35	70	11	93	37	23	11	26	1.90
13925719--13925920	73	2.8	73	88	0	287	24	22	15	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13927028--13927092	25	2.6	25	66	9	60	49	4	15	30	1.65
13927838--13927886	20	2.3	22	75	17	57	34	22	8	34	1.84
13927846--13927885	20	2.0	20	90	0	62	37	20	5	37	1.74
13932643--13932749	35	3.1	35	76	8	121	34	24	13	28	1.92
13932643--13932740	32	2.9	33	77	4	108	33	26	13	26	1.93
13932644--13932779	67	2.0	67	89	0	209	38	24	11	26	1.88
13932661--13932774	35	3.4	34	73	11	108	38	25	9	26	1.86
13933164--13933364	73	2.8	73	83	0	258	24	20	15	39	1.92
13934480--13934539	25	2.4	25	77	5	68	53	6	15	25	1.65
13935450--13935501	27	1.9	27	84	0	68	32	21	9	36	1.86
13938549--13938578	2	15.0	2	100	0	60	50	0	0	50	1.00
13949763--13949936	83	2.1	83	79	2	188	38	25	9	25	1.87
13950062--13950135	22	3.4	22	92	0	121	35	8	25	31	1.85
13951858--13951959	45	2.3	45	82	3	116	22	27	15	34	1.95
13955338--13955401	24	2.6	25	80	2	76	35	26	15	21	1.94
13956666--13956749	27	3.1	27	91	0	123	42	16	17	22	1.88
13959434--13959506	35	2.1	35	86	0	101	27	10	31	30	1.91
13959526--13959559	2	17.0	2	100	0	68	0	0	50	50	1.00
13966373--13966424	21	2.5	21	87	0	68	30	21	28	19	1.97
13966587--13966765	72	2.5	71	76	4	164	36	18	18	26	1.94
13966755--13966809	22	2.5	22	84	0	74	41	16	23	18	1.89
13972648--13972781	68	2.0	68	88	2	198	37	16	13	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13974885--13974940	20	2.8	19	76	12	60	19	3	1	75	1.05
13974886--13974938	27	2.0	27	88	0	79	18	3	1	75	1.05
13975013--13975046	18	1.9	17	94	5	59	26	8	0	64	1.22
13975047--13975083	8	4.6	8	86	0	56	21	0	0	78	0.75
13975034--13975084	17	3.1	17	88	2	77	23	0	0	76	0.79
13975018--13975084	18	3.8	17	82	9	73	23	2	0	73	0.97
13975338--13975371	15	2.3	15	89	0	50	8	11	0	79	0.94
13975730--13976003	147	1.9	135	91	6	358	28	11	2	54	1.47
13977317--13977455	1	139.0	1	67	0	71	7	2	7	83	0.88
13977318--13977455	42	3.3	41	81	13	142	7	2	7	83	0.89
13977316--13977455	41	3.6	38	80	17	144	7	2	7	82	0.90
13977488--13977997	37	13.8	37	87	4	681	43	19	15	21	1.87
13977485--13977997	75	6.9	75	87	3	720	43	19	15	21	1.87
13978323--13978370	16	2.9	17	77	17	57	2	16	2	79	0.93
13989990--13990105	10	12.2	10	68	20	54	21	5	1	71	1.14
13990050--13990105	20	2.8	19	76	12	60	19	3	1	75	1.05
13990035--13990103	27	2.5	27	80	4	84	20	4	1	73	1.07
13990035--13990111	27	2.8	27	80	4	82	22	5	1	71	1.13
13990461--13990504	11	3.7	11	80	16	52	75	0	2	22	0.92
13996353--13996377	2	12.5	2	100	0	50	0	48	0	52	1.00
13999894--13999994	52	1.9	52	93	0	175	25	26	4	42	1.75
14006064--14006093	2	15.0	2	92	0	51	46	0	3	50	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14006134--14006250	42	2.8	42	89	2	164	23	31	19	24	1.98
14015596--14015654	26	2.3	26	79	5	66	66	3	28	1	1.18
14035318--14035384	30	2.3	30	75	12	68	35	8	2	52	1.48
14042361--14042407	10	5.0	9	84	2	58	74	2	4	19	1.09
14042642--14042675	3	11.3	3	87	12	52	2	32	0	64	1.08
14051714--14051767	23	2.4	23	81	3	56	25	0	1	72	0.95
14052199--14052225	12	2.2	12	100	0	54	40	0	0	59	0.98
14052654--14052687	12	2.7	13	86	4	52	0	23	0	76	0.79
14052689--14052726	6	6.3	6	93	0	58	5	44	0	50	1.24
14052757--14052806	17	3.0	17	75	18	52	0	32	0	68	0.90
14052758--14052807	7	7.3	7	78	13	50	0	34	0	66	0.92
14053307--14053364	6	10.0	6	77	5	57	18	1	0	79	0.82
14056581--14056631	21	2.5	21	84	9	61	31	0	7	60	1.25
14058275--14058341	29	2.4	28	77	5	71	31	10	19	38	1.85
14082530--14082566	16	2.3	16	95	0	65	32	18	24	24	1.97
14084236--14084283	20	2.4	19	82	10	51	54	0	0	45	0.99
14084409--14084696	72	4.0	72	90	0	468	35	10	14	40	1.80
14085822--14085882	22	2.8	22	84	0	59	34	6	14	44	1.72
14087054--14087101	18	2.5	19	86	6	62	54	0	0	45	0.99
14087054--14087101	23	2.0	25	84	15	66	54	0	0	45	0.99
14087053--14087103	13	4.0	13	77	12	52	52	0	0	47	1.00
14114820--14114894	37	2.0	37	94	0	132	29	26	10	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14116162--14116223	2	32.5	2	80	15	69	50	0	0	48	1.01
14116168--14116230	19	3.2	19	82	10	74	49	0	0	49	1.01
14116770--14116827	30	1.9	30	86	6	82	34	12	6	46	1.68
14116824--14116880	29	1.9	30	89	3	89	31	19	15	33	1.93
14116880--14116960	33	2.5	33	79	0	99	34	12	18	34	1.88
14116918--14117014	46	2.1	46	100	0	194	34	11	16	38	1.84
14125136--14125208	35	2.1	35	87	5	103	27	10	31	30	1.91
14125967--14126006	19	2.0	20	95	4	73	30	0	27	42	1.56
14136230--14136329	50	2.0	50	98	2	184	37	18	12	32	1.87
14138955--14139080	26	4.9	26	75	10	116	30	16	14	38	1.88

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