genome.fa.s8.2.7.7.80.10.50.1000.30.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  30  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)
11927933--11928272	100	3.4	99	75	17	338	25	0	30	43	1.61
11928511--11928555	21	2.1	21	84	8	56	4	31	35	28	1.77
11929647--11929684	20	1.9	20	84	10	51	55	7	2	34	1.43
11930582--11930608	14	1.9	14	100	0	54	44	0	0	55	0.99
11930618--11930717	51	2.0	51	88	4	148	47	2	25	26	1.63
11931368--11931495	65	2.0	66	87	1	186	53	6	7	33	1.53
11931496--11931528	16	2.0	17	88	5	50	54	3	6	36	1.41
11931622--11931696	8	10.4	8	71	26	53	28	0	6	65	1.18
11931622--11931701	26	3.5	22	79	15	90	27	0	6	66	1.16
11932066--11932128	30	2.0	32	87	6	94	60	3	1	34	1.22
11932072--11932136	30	2.1	31	85	2	87	66	1	1	30	1.10
11932153--11932208	27	2.1	27	87	12	80	66	3	1	28	1.19
11932221--11932256	19	1.9	19	88	5	56	69	5	0	25	1.10
11934549--11934993	246	1.8	242	82	6	565	25	18	13	42	1.86
11938157--11938380	112	2.0	111	91	0	358	28	16	11	44	1.81
11955275--11955305	15	2.1	15	93	0	53	3	32	54	9	1.49
11960074--11960161	46	1.9	46	83	4	115	32	11	20	35	1.88
11977982--11978006	12	2.1	12	100	0	50	32	36	24	8	1.84
11985885--11985914	1	30.0	1	100	0	60	0	0	0	100	0.00
12012447--12012482	2	18.0	2	100	0	72	50	50	0	0	1.00
12024474--12024514	20	2.0	20	90	0	64	56	4	7	31	1.48
12025342--12025378	17	2.2	17	90	0	56	35	0	16	48	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12025522--12025565	19	2.2	21	92	8	74	11	25	20	43	1.85
12025784--12025827	18	2.5	17	88	3	61	40	0	18	40	1.50
12033587--12033780	105	1.8	105	84	4	266	34	19	22	24	1.97
12034418--12034457	19	2.1	19	100	0	80	50	5	25	20	1.68
12035368--12035409	22	1.9	22	90	0	66	50	0	0	50	1.00
12036793--12036964	4	43.0	4	100	0	344	50	25	0	25	1.50
12037519--12037589	21	3.4	21	92	0	115	46	15	23	14	1.82
12044037--12044189	21	7.3	21	66	16	102	48	8	25	17	1.75
12044034--12044204	42	4.1	42	100	0	342	47	9	26	16	1.76
12050273--12050325	24	2.4	21	84	12	63	60	3	1	33	1.26
12050419--12050471	25	2.2	24	83	6	63	49	15	3	32	1.62
12051081--12051281	57	3.3	57	66	20	152	35	6	6	51	1.55
12051043--12051300	128	2.0	129	99	0	509	34	6	6	51	1.56
12055831--12055859	2	15.0	2	92	7	51	51	0	48	0	1.00
12058114--12058149	3	12.0	3	87	0	54	61	0	5	33	1.19
12058251--12058305	3	18.0	3	92	3	92	63	0	1	34	1.05
12063130--12063302	86	2.0	86	94	0	301	26	15	23	34	1.95
12072863--12072926	31	2.1	31	100	0	128	34	15	18	31	1.93
12078789--12078817	7	4.3	7	95	4	51	86	0	0	13	0.58
12080732--12080772	12	3.7	12	78	18	52	34	7	4	53	1.50
12082717--12083235	259	2.0	259	98	0	1004	33	17	16	32	1.93
12090847--12090896	20	2.6	19	80	3	64	34	0	4	62	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12091460--12091500	20	2.0	20	90	0	64	58	4	0	36	1.20
12104487--12104529	17	2.7	16	82	7	52	53	0	2	44	1.13
12106356--12106398	22	1.9	22	85	4	59	58	9	16	16	1.63
12119410--12119659	106	2.4	106	87	2	371	55	14	0	29	1.40
12119670--12119694	12	2.1	12	100	0	50	64	8	0	28	1.22
12119622--12119746	65	2.0	63	86	10	179	60	15	0	24	1.34
12120684--12120751	27	2.5	26	83	9	91	17	17	35	29	1.93
12125240--12125487	121	2.0	122	92	2	410	37	16	12	32	1.87
12132539--12132563	5	5.0	5	100	0	50	20	0	20	60	1.37
12143831--12143855	13	1.9	13	100	0	50	48	0	8	44	1.32
12153965--12154033	34	2.0	34	91	0	111	21	26	24	27	1.99
12157343--12157394	27	2.0	26	81	11	61	50	0	3	46	1.20
12157370--12157417	17	2.9	17	90	3	71	58	0	0	41	0.98
12157381--12157422	19	2.4	17	88	8	57	59	0	0	40	0.97
12175265--12175302	20	1.9	20	88	0	58	34	7	2	55	1.43
12175586--12175625	16	2.4	18	76	20	50	65	0	5	30	1.14
12175827--12175873	24	1.9	25	86	4	69	46	4	2	46	1.34
12185809--12185862	21	2.6	21	76	2	65	50	1	3	44	1.30
12191385--12191422	2	19.0	2	100	0	76	50	0	50	0	1.00
12192566--12192604	20	2.0	21	85	10	55	38	7	5	48	1.54
12192920--12192969	19	2.6	19	87	6	66	60	0	2	38	1.09
12193930--12194231	151	2.0	151	98	0	586	39	9	7	43	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12195946--12196006	28	2.1	29	84	3	79	27	8	6	57	1.53
12217804--12217828	3	8.3	3	100	0	50	64	0	0	36	0.94
12218555--12218593	3	13.0	3	100	0	78	66	0	0	33	0.92
12219119--12219173	21	2.6	22	91	8	96	23	9	40	27	1.85
12223673--12223712	15	2.7	15	96	0	71	25	47	12	15	1.80
12226492--12226642	46	3.5	46	77	17	196	27	21	12	37	1.90
12226538--12226610	36	2.0	36	94	0	128	26	20	15	38	1.92
12226478--12226642	82	2.0	82	97	0	312	29	20	13	36	1.91
12229681--12230929	673	1.8	675	83	6	1648	38	15	9	36	1.80
12232143--12233203	530	2.0	531	99	0	2115	35	15	13	36	1.86
12246418--12246482	33	2.0	33	84	6	87	30	23	9	36	1.86
12249662--12249727	26	2.5	26	72	0	60	37	21	6	34	1.78
12253335--12253359	3	8.3	3	100	0	50	0	32	0	68	0.90
12254661--12254715	21	2.5	23	85	11	71	76	5	5	12	1.13
12254986--12255036	22	2.5	20	81	15	59	41	1	3	52	1.31
12266487--12266516	2	15.0	2	100	0	60	50	0	0	50	1.00
12273287--12273368	43	1.9	43	87	0	119	24	19	18	37	1.94
12278212--12278379	85	2.0	86	97	1	320	52	8	5	33	1.55
12279622--12279647	2	13.0	2	100	0	52	50	0	0	50	1.00
12281031--12281139	28	4.0	27	77	5	112	46	6	6	40	1.55
12281063--12281150	28	3.1	27	83	4	77	46	6	3	43	1.47
12295667--12295821	50	3.1	50	85	0	193	17	25	26	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12296925--12297115	42	4.5	41	82	3	195	34	18	21	25	1.96
12296925--12297115	84	2.3	84	84	1	240	34	18	21	25	1.96
12298712--12298737	5	5.2	5	100	0	52	42	19	19	19	1.90
12306143--12306190	21	2.3	21	92	3	80	39	22	6	31	1.79
12306562--12306617	21	2.8	20	83	5	67	33	10	14	41	1.80
12307269--12307312	20	2.2	20	84	12	54	43	9	9	38	1.68
12308253--12308279	14	1.9	14	100	0	54	33	0	0	66	0.92
12309013--12309056	23	1.9	24	90	9	74	54	2	20	22	1.56
12309309--12309350	21	2.0	21	95	0	75	50	4	21	23	1.68
12309304--12309371	21	3.0	24	75	18	74	50	4	17	27	1.65
12309619--12309677	27	2.2	26	79	8	64	25	0	27	47	1.52
12327483--12327559	40	1.9	39	86	2	109	25	20	18	35	1.95
12336160--12336200	19	2.2	18	91	8	64	36	9	17	36	1.82
12343522--12343602	41	2.0	41	100	0	162	33	12	4	49	1.62
12353317--12353346	3	10.0	3	92	0	51	0	36	33	30	1.58
12356443--12356521	41	2.0	40	87	2	113	27	16	17	37	1.91
12361210--12361242	13	2.5	13	90	9	50	72	6	3	18	1.18
12362683--12362762	40	2.0	40	83	9	101	31	22	3	42	1.71
12363507--12363537	12	2.6	12	94	0	53	0	25	3	70	1.02
12366819--12366900	43	1.9	43	85	2	112	29	19	20	30	1.97
12380734--12380773	20	2.0	20	100	0	80	40	10	10	40	1.72
12383849--12383889	21	2.0	21	90	9	66	39	2	7	51	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12383905--12383929	3	8.3	3	100	0	50	68	0	32	0	0.90
12390073--12390124	27	2.0	25	81	7	59	38	5	5	50	1.51
12390309--12390340	3	10.7	3	100	0	64	65	0	0	34	0.93
12393787--12393815	2	14.5	2	100	0	58	51	0	0	48	1.00
12394767--12394823	18	3.3	18	71	14	66	59	3	5	31	1.36
12395278--12395324	16	2.9	17	81	9	55	46	0	0	53	1.00
12396080--12396145	21	3.3	19	73	16	53	25	4	1	68	1.18
12398065--12398673	92	6.6	92	99	0	1200	39	3	4	52	1.38
12403740--12404015	127	2.2	128	83	5	337	31	18	14	35	1.91
12404067--12404182	34	3.5	32	78	9	115	47	12	0	40	1.41

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