genome.fa.s8.2.7.7.80.10.50.1000.104.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  104  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)
38612368--38612417	26	1.9	26	91	0	82	26	16	12	46	1.81
38612563--38612643	31	2.6	31	84	1	101	23	23	17	35	1.95
38620104--38620158	26	2.1	26	96	0	101	29	20	16	34	1.94
38623169--38623295	62	2.1	59	84	5	157	43	4	2	49	1.36
38623403--38623450	26	2.0	22	84	15	60	41	8	10	39	1.69
38625851--38625912	25	2.6	24	79	5	72	30	27	14	27	1.95
38628305--38628580	27	10.3	27	81	4	290	23	16	18	41	1.90
38628315--38628591	54	5.1	54	82	2	326	23	16	18	41	1.89
38633489--38633536	20	2.4	20	75	0	51	27	14	12	45	1.81
38634167--38634259	46	2.1	46	84	11	122	36	21	4	37	1.73
38634241--38634292	16	3.2	16	86	0	77	30	25	1	42	1.66
38638174--38638251	39	2.0	38	85	2	102	42	6	14	37	1.71
38639335--38639382	3	16.0	3	100	0	96	66	0	0	33	0.92
38639617--38640006	194	2.0	194	90	2	622	33	16	16	32	1.92
38640966--38641010	15	2.6	17	80	20	58	42	2	0	55	1.12
38641926--38641966	22	1.9	22	90	5	66	41	9	9	39	1.71
38650570--38651235	92	7.2	92	92	0	1071	34	7	14	43	1.73
38651389--38651505	41	2.8	42	81	3	128	31	16	24	27	1.96
38658878--38658954	39	2.0	39	100	0	154	49	23	0	27	1.50
38667477--38667505	15	1.9	15	100	0	58	17	27	0	55	1.42
38681080--38681133	9	6.0	9	79	16	67	46	0	31	22	1.52
38681082--38681132	18	2.8	18	93	0	93	45	0	31	23	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38681082--38681156	36	2.1	35	82	9	89	42	1	32	24	1.63
38681844--38681931	43	2.0	43	86	0	122	37	15	9	37	1.80
38683127--38683383	51	5.1	49	77	7	219	27	15	27	29	1.96
38683151--38683397	101	2.5	100	82	6	295	26	17	26	29	1.97
38683151--38683426	101	2.7	101	79	7	294	27	15	26	30	1.96
38689835--38690050	46	4.7	46	93	2	362	29	25	11	33	1.91
38690810--38690857	17	2.9	17	90	3	71	54	18	0	27	1.44
38692537--38692569	17	1.9	17	88	11	50	33	0	9	57	1.30
38694147--38694204	20	3.0	20	75	25	61	39	0	0	60	0.97
38694693--38694750	20	3.0	20	75	25	61	39	0	0	60	0.97
38694023--38695115	546	2.0	546	100	0	2186	37	9	8	44	1.67
38720274--38720335	3	20.7	3	100	0	124	66	0	0	33	0.92
38728472--38728589	29	4.2	29	67	18	88	51	5	0	42	1.29
38728456--38728622	82	2.0	83	98	1	327	50	5	1	41	1.34
38728491--38728619	41	3.1	41	67	20	124	51	6	1	41	1.36
38730810--38730835	4	6.5	4	100	0	52	23	0	0	76	0.78
38730886--38730921	14	2.6	14	83	16	56	19	0	8	72	1.10
38730893--38730918	7	3.7	7	100	0	52	15	0	11	73	1.11
38730931--38731005	18	4.3	18	70	29	72	25	5	6	62	1.41
38730925--38731029	52	2.0	52	98	0	201	25	5	5	62	1.40
38730939--38731013	18	4.3	18	68	29	63	24	6	5	64	1.39
38731059--38731227	3	53.7	3	71	9	79	28	8	4	58	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38731810--38732126	107	3.0	106	83	4	404	31	17	18	32	1.94
38732429--38732498	18	3.9	18	75	5	61	61	1	5	31	1.28
38734301--38734980	44	15.6	44	79	6	652	29	26	16	27	1.97
38734302--38734952	176	3.7	176	88	5	889	29	26	16	27	1.97
38734372--38734981	214	2.8	212	79	5	552	29	26	16	27	1.97
38735931--38735969	11	3.5	11	92	3	60	7	10	0	82	0.86
38735930--38735970	12	3.5	12	90	6	66	7	9	0	82	0.83
38735929--38735981	23	2.4	22	84	6	70	7	11	0	81	0.88
38739856--38739890	11	3.3	11	92	4	54	11	31	17	40	1.85
38747013--38747330	106	3.0	106	85	0	420	30	19	19	30	1.96
38747019--38747335	107	3.0	107	85	0	429	30	18	19	30	1.96
38747638--38747707	18	3.9	18	75	15	65	62	0	5	31	1.18
38747638--38747688	19	2.7	18	84	6	57	60	0	3	35	1.15
38750444--38750483	17	2.4	17	95	0	71	37	10	7	45	1.66
38753247--38753280	5	6.8	5	100	0	68	61	0	0	38	0.96
38753445--38753498	23	2.4	22	84	9	72	66	0	7	25	1.17
38754481--38754526	22	2.0	23	84	12	60	13	21	10	54	1.69
38758274--38758315	3	14.3	3	82	5	50	33	2	2	61	1.21
38759901--38759926	5	5.2	5	100	0	52	42	19	19	19	1.90
38772325--38772507	65	2.8	65	96	0	330	60	3	8	27	1.42
38772373--38772477	32	3.1	35	62	13	94	56	5	8	29	1.53
38772394--38772495	32	3.2	32	63	18	84	57	2	9	29	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38776539--38776751	114	1.9	113	86	4	304	23	24	26	25	2.00
38776652--38776820	73	2.3	72	84	3	205	26	23	23	27	2.00
38776539--38776938	186	2.1	186	86	4	556	24	23	25	26	2.00
38776724--38777215	115	4.3	114	84	2	646	25	20	26	28	1.99
38776724--38777215	229	2.2	228	86	2	675	25	20	26	28	1.99
38777306--38777332	14	1.9	14	100	0	54	25	0	37	37	1.57
38777594--38777628	15	2.4	15	90	4	54	20	0	40	40	1.52
38777615--38777655	21	2.0	20	90	4	64	21	0	39	39	1.54
38777789--38777900	38	2.8	39	85	5	145	38	21	19	20	1.94
38777892--38777932	22	1.9	21	90	5	64	70	0	2	26	0.99
38777863--38778181	106	3.0	105	85	5	423	46	12	13	27	1.79
38782249--38782319	21	3.4	21	88	0	106	32	15	46	5	1.69
38783220--38783254	16	2.2	16	89	0	52	34	2	8	54	1.46
38786737--38786787	13	3.9	13	76	7	59	37	21	5	35	1.78
38789805--38789845	20	2.0	20	100	0	82	53	9	17	19	1.70
38790103--38790203	43	2.4	42	80	5	114	35	9	30	23	1.88
38790912--38790948	2	18.5	2	94	0	65	48	0	2	48	1.15
38792738--38792836	31	3.3	29	78	8	92	45	16	15	23	1.84
38793814--38793879	28	2.4	28	79	5	71	42	6	10	40	1.64
38794120--38794144	10	2.5	10	100	0	50	40	0	8	52	1.31
38794244--38794311	27	2.5	26	79	9	73	55	2	8	32	1.45
38795141--38795165	7	3.6	7	100	0	50	88	0	0	12	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38796153--38796270	45	2.6	45	84	4	141	29	26	16	27	1.97
38796538--38796683	43	3.4	42	67	10	105	23	21	25	29	1.99
38796541--38796859	87	3.7	85	76	6	291	26	21	22	29	1.99
38796932--38797190	89	2.9	89	80	1	277	24	22	21	31	1.98
38797544--38797599	24	2.3	24	93	0	94	32	21	14	32	1.93
38798066--38798387	105	3.0	107	88	3	481	47	9	18	24	1.78
38798654--38798704	11	4.6	11	83	11	61	0	19	0	80	0.71
38798652--38798709	5	11.8	5	77	22	61	0	18	0	81	0.70
38798652--38798699	16	3.1	16	83	16	66	0	18	0	81	0.70
38798652--38798709	24	2.4	24	91	2	89	0	18	0	81	0.70
38798650--38798710	19	3.3	18	84	15	81	0	19	0	80	0.72
38803432--38803469	20	1.9	20	84	10	51	52	0	18	28	1.45
38804307--38804331	10	2.5	10	100	0	50	40	0	8	52	1.31
38806216--38806276	24	2.5	24	97	0	113	39	11	6	42	1.67
38806387--38806433	18	2.5	19	79	6	51	31	6	2	59	1.34
38806491--38806617	64	2.0	64	98	0	245	35	11	4	48	1.61
38808140--38808246	43	2.5	42	83	5	126	40	11	28	20	1.87
38815347--38815762	194	2.1	194	87	0	616	29	16	23	30	1.96
38815379--38815824	97	4.6	97	82	6	543	29	16	23	30	1.96
38815382--38815808	46	9.0	46	82	7	467	28	17	23	30	1.97
38815380--38815824	194	2.3	192	85	6	605	29	16	23	30	1.96
38819779--38819839	24	2.5	24	97	0	113	39	11	6	42	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38819830--38819979	23	6.3	24	71	17	91	30	4	4	60	1.35
38819941--38819986	24	1.9	24	86	8	67	30	6	0	63	1.20
38820347--38820380	17	1.9	18	88	5	52	17	2	20	58	1.51
38844012--38844069	24	2.4	24	80	5	64	50	8	3	37	1.50
38844024--38844075	24	2.2	24	85	0	68	50	5	3	40	1.45
38853664--38854147	241	2.0	241	100	0	968	29	20	16	33	1.95
38857221--38857269	22	2.3	21	76	10	55	32	14	4	48	1.62
38859806--38859850	21	2.1	22	84	12	58	77	6	2	13	1.05
38865621--38865653	11	3.0	11	100	0	66	18	27	36	18	1.94
38866198--38867028	3	277.0	3	100	0	1662	66	0	0	33	0.92

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