genome.fa.s6.2.7.7.80.10.50.1000.63.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: Chr1
Parameters: 2 7 7 80 10 50 1000
Length:  35726063

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   

This is table  63  of  109  ( 13028 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)
20472200--20472374	87	2.0	88	98	1	343	44	9	4	41	1.56
20479144--20479174	13	2.3	14	94	5	55	25	6	0	67	1.14
20483368--20483398	16	1.9	16	93	0	53	48	0	9	41	1.36
20483386--20483423	18	2.1	19	90	5	60	47	0	0	52	1.00
20484587--20484620	5	6.8	5	100	0	68	58	0	0	41	0.98
20487048--20487128	24	3.2	24	73	21	76	2	27	2	67	1.15
20487039--20487137	51	1.9	51	93	0	171	4	27	3	65	1.25
20492920--20492988	1	69.0	1	83	0	75	89	2	2	4	0.63
20495306--20495361	29	1.9	29	85	0	76	32	14	19	33	1.92
20495610--20495864	124	2.1	124	90	1	395	29	16	22	31	1.96
20498020--20498053	15	2.3	15	90	5	52	67	5	0	26	1.13
20498250--20498291	22	1.9	22	90	0	66	33	0	33	33	1.58
20498241--20498384	52	2.9	51	79	12	135	38	0	29	31	1.57
20498293--20498384	22	4.2	22	86	8	125	43	0	27	29	1.55
20498315--20498382	12	6.0	12	68	13	54	44	0	25	30	1.54
20498961--20499113	83	1.8	83	84	2	209	37	7	14	39	1.75
20509468--20509525	30	1.9	31	89	3	91	37	0	1	60	1.07
20510775--20510816	22	1.9	22	90	0	66	28	0	7	64	1.20
20510924--20511576	87	7.5	86	90	1	907	32	12	9	45	1.74
20511758--20511803	23	2.0	24	86	4	67	69	0	0	30	0.89
20511769--20511806	19	2.0	20	89	5	60	65	0	0	34	0.93
20513513--20513568	11	5.2	10	85	14	76	26	28	0	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20513565--20513621	29	2.0	29	92	0	96	40	1	3	54	1.28
20513565--20513629	29	2.3	29	87	7	91	36	1	3	58	1.23
20514743--20514774	7	4.6	7	100	0	64	28	0	15	56	1.40
20515852--20515938	34	2.5	35	78	9	97	43	5	2	48	1.39
20515978--20516098	61	2.0	61	86	0	170	30	9	7	52	1.60
20518837--20519050	110	1.9	110	96	0	392	24	21	19	35	1.96
20518946--20519220	125	2.2	126	92	0	462	25	22	20	32	1.98
20521003--20521070	28	2.4	28	73	4	75	60	0	1	38	1.06
20526892--20526933	21	2.0	21	90	0	66	40	33	7	19	1.78
20527227--20527274	17	2.9	17	85	11	64	64	4	0	31	1.12
20530631--20530727	50	1.9	50	85	0	131	34	7	17	41	1.77
20531363--20531397	15	2.2	16	90	5	54	17	22	14	45	1.84
20534250--20534361	25	4.5	25	80	3	111	30	23	23	23	1.99
20539026--20539053	2	14.0	2	100	0	56	50	0	0	50	1.00
20540437--20540485	15	3.4	14	77	8	53	79	4	8	8	1.04
20541020--20541050	16	1.9	16	93	0	53	32	3	0	64	1.09
20541030--20541073	23	2.0	21	86	8	61	34	2	0	63	1.07
20546515--20546597	23	3.5	24	86	4	125	34	18	14	32	1.91
20547348--20547482	40	3.3	40	81	5	146	31	26	16	25	1.96
20578602--20578633	2	16.0	2	100	0	64	0	50	0	50	1.00
20588971--20590722	438	4.0	438	90	0	2619	32	17	23	26	1.97
20595248--20595309	31	2.0	31	93	0	106	32	19	0	48	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20595403--20595456	25	2.2	25	90	6	83	38	18	24	18	1.93
20603011--20603048	18	2.1	18	95	0	67	42	0	34	23	1.55
20608301--20608372	7	11.1	7	70	24	52	70	0	29	0	0.87
20608301--20608380	13	6.2	12	76	16	72	71	0	27	1	0.94
20608301--20608377	26	3.0	25	83	11	93	71	0	27	1	0.94
20608641--20608685	18	2.5	18	86	10	65	40	15	2	42	1.59
20608760--20608847	44	2.0	44	84	0	113	27	17	12	43	1.84
20608812--20608885	35	2.1	35	92	0	121	33	18	9	37	1.84
20608897--20609085	17	10.3	18	68	14	102	31	15	9	43	1.78
20608798--20609321	18	28.7	18	66	16	152	31	13	10	44	1.77
20608912--20609085	38	4.8	35	75	7	118	29	15	10	44	1.80
20609133--20609168	16	2.2	16	90	9	56	33	8	11	47	1.69
20614700--20614747	8	5.9	8	92	2	78	85	12	2	0	0.69
20614686--20614793	23	4.7	23	75	19	77	81	6	8	3	0.97
20614687--20614761	1	75.0	1	72	0	51	85	8	5	1	0.80
20614760--20614799	13	3.3	13	73	20	50	72	5	15	7	1.24
20614755--20614805	23	2.2	23	100	0	102	76	3	11	7	1.13
20616851--20618196	154	8.8	150	83	8	1385	27	17	20	34	1.95
20616851--20618196	76	17.5	77	83	8	1301	27	17	20	34	1.95
20619003--20619079	17	4.6	17	68	20	54	74	12	12	0	1.09
20619038--20619077	11	3.5	11	90	10	55	85	7	7	0	0.76
20619038--20619078	12	3.5	12	90	3	66	85	7	7	0	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20619190--20619269	13	6.5	13	77	18	66	73	0	26	0	0.83
20619194--20619273	26	3.1	26	82	10	85	76	0	23	0	0.79
20619194--20619272	6	12.3	6	80	9	77	75	0	24	0	0.80
20620068--20620112	18	2.5	18	86	10	65	40	15	2	42	1.59
20620229--20620296	18	3.8	18	73	13	68	35	19	8	36	1.83
20620188--20620275	44	2.0	44	86	0	122	27	15	12	44	1.83
20620240--20620313	35	2.1	35	94	0	130	35	17	9	37	1.82
20620241--20620347	35	3.1	34	86	4	108	35	15	9	39	1.80
20620381--20620521	39	3.7	38	77	7	135	35	14	9	40	1.79
20620226--20620515	17	16.0	18	70	11	137	32	15	9	42	1.80
20620563--20620598	16	2.2	16	90	9	56	33	8	11	47	1.69
20620546--20620619	37	2.0	37	82	10	89	33	6	13	45	1.70
20622318--20622375	29	2.0	29	90	10	91	10	37	12	39	1.77
20625128--20625159	7	4.6	7	100	0	64	28	0	15	56	1.40
20625119--20625159	21	2.0	21	85	9	57	29	0	14	56	1.39
20627449--20627543	45	2.1	46	88	5	140	32	11	11	44	1.77
20640008--20640042	15	2.3	15	90	0	52	11	8	42	37	1.72
20640707--20640740	18	1.9	18	88	5	52	41	0	5	52	1.25
20641328--20641366	20	2.0	20	90	5	62	35	0	5	58	1.20
20650615--20650656	22	1.9	22	90	0	66	33	33	0	33	1.58
20650700--20650762	29	2.1	30	88	2	92	36	0	1	61	1.05
20650852--20650907	24	2.3	23	77	19	60	28	0	5	66	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20653758--20653788	9	3.4	9	90	0	53	38	22	12	25	1.90
20655961--20655986	3	8.7	3	100	0	52	30	0	0	69	0.89
20669616--20669672	16	3.6	16	90	0	78	31	0	36	31	1.58
20681469--20681514	5	9.2	5	100	0	92	41	19	19	19	1.91
20681604--20681629	5	5.2	5	100	0	52	38	19	19	23	1.93
20682383--20682419	9	4.1	9	92	0	65	29	10	13	45	1.77
20682462--20682504	18	2.3	18	88	4	59	37	18	11	32	1.87
20684986--20685027	12	3.5	12	81	18	52	26	0	2	71	0.98
20684987--20685029	11	3.7	11	81	6	50	30	0	2	67	1.03
20685080--20685146	27	2.5	27	95	0	116	31	22	32	13	1.92
20685145--20685310	19	8.6	19	64	26	64	33	0	12	54	1.37
20685216--20685259	21	2.1	21	95	0	79	29	0	11	59	1.32
20685154--20685268	61	1.9	61	84	10	155	31	0	11	57	1.34
20685215--20685310	27	3.8	25	84	11	119	33	0	12	54	1.38
20693056--20693098	17	2.6	16	82	17	52	60	0	6	32	1.23
20693065--20693099	17	2.0	18	94	5	63	57	0	11	31	1.34
20693327--20693557	115	2.0	115	97	1	437	61	8	12	17	1.54
20694466--20695040	287	2.0	287	99	0	1134	35	6	8	49	1.59
20695143--20695177	17	2.2	17	90	10	56	40	0	0	60	0.97
20697066--20697105	19	2.0	20	80	9	55	2	37	12	47	1.55
20697120--20697149	14	2.1	14	100	0	60	6	46	6	40	1.56
20700748--20700844	45	2.2	45	88	5	144	31	29	5	32	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20700824--20700861	16	2.4	16	95	0	67	23	34	7	34	1.84
20701855--20701908	27	2.0	27	82	13	67	25	9	3	61	1.43
20702003--20702276	26	10.6	26	73	11	204	28	5	5	61	1.40
20702009--20702143	27	4.9	28	75	13	120	30	5	3	60	1.38
20702070--20702250	98	1.8	101	83	8	246	27	4	5	61	1.39
20702065--20702276	100	2.1	98	79	12	232	28	6	5	60	1.42
20702415--20702470	16	3.5	16	90	0	85	35	7	26	30	1.83
20702452--20702544	45	2.1	44	88	9	136	33	4	25	36	1.76
20702752--20702791	20	2.0	21	85	5	55	60	5	0	35	1.19
20702698--20702886	59	3.2	59	70	20	162	51	4	1	41	1.32

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