genome.fa.s3.2.7.7.80.10.50.1000.100.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   

This is table  100  of  150  ( 17918 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)
31382663--31382716	21	2.8	20	78	13	60	38	0	1	59	1.08
31382631--31382735	29	3.7	29	74	15	78	35	0	2	61	1.11
31382663--31382720	19	3.0	20	78	14	59	37	0	1	60	1.07
31384876--31385176	109	2.8	109	92	0	476	34	19	14	30	1.92
31385692--31385724	12	2.5	14	90	9	52	45	0	12	42	1.41
31385693--31385775	14	6.1	14	72	19	61	51	0	6	42	1.26
31391438--31392412	69	14.2	69	79	2	742	19	20	19	41	1.91
31391452--31392412	138	7.0	138	80	2	847	19	20	19	41	1.91
31391438--31392396	207	4.6	206	79	3	877	19	20	19	41	1.91
31400407--31400436	11	2.7	11	94	0	51	16	3	6	73	1.18
31401733--31401781	22	2.3	22	96	3	91	24	8	28	38	1.84
31405382--31405437	24	2.4	24	93	3	96	39	7	17	35	1.78
31405428--31405559	19	6.8	19	89	3	210	38	9	15	36	1.80
31405428--31405566	59	2.4	57	88	6	210	38	9	15	36	1.79
31406208--31406238	16	1.9	16	93	0	53	38	3	9	48	1.52
31407045--31407241	98	2.0	98	95	0	358	28	10	24	37	1.88
31411416--31411464	12	3.8	12	82	12	53	79	0	20	0	0.73
31411421--31411471	7	7.6	7	80	14	54	76	0	21	1	0.88
31411416--31411471	20	2.8	20	84	7	71	78	0	19	1	0.84
31412686--31412862	44	4.0	44	63	13	103	30	18	24	26	1.98
31412894--31413459	44	13.1	44	70	14	279	29	20	22	27	1.98
31412894--31413459	217	2.6	217	92	1	956	29	20	22	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31413560--31413773	98	2.2	98	100	0	428	28	10	24	36	1.89
31414653--31414879	33	6.5	33	66	23	117	34	27	18	19	1.95
31414606--31414807	102	2.0	102	92	0	332	33	27	19	20	1.96
31414708--31414884	75	2.4	75	90	0	282	34	27	18	20	1.95
31422134--31422413	75	3.8	75	70	14	249	32	26	19	21	1.97
31422273--31422378	42	2.5	42	92	0	167	34	24	16	23	1.95
31443411--31443468	30	1.9	31	85	3	82	25	20	5	48	1.70
31444875--31444937	34	1.9	33	90	6	101	25	1	11	61	1.38
31445042--31445254	107	2.0	108	93	0	365	35	10	9	44	1.72
31447202--31447258	28	2.0	29	86	3	80	66	1	3	28	1.18
31450830--31450861	8	4.0	8	91	0	55	40	0	0	59	0.97
31450828--31450864	16	2.4	15	91	8	65	40	0	0	59	0.97
31450828--31450868	8	5.0	9	80	19	54	41	0	0	58	0.98
31450874--31450941	20	3.5	19	70	22	61	64	1	27	5	1.25
31450876--31450959	38	2.2	38	93	0	141	63	3	28	4	1.32
31450876--31450979	38	2.9	37	84	10	112	66	2	26	3	1.23
31450923--31450984	29	2.1	29	85	5	81	69	3	25	1	1.13
31456176--31456214	14	2.7	15	84	8	53	53	0	17	28	1.44
31456270--31456341	28	2.6	28	100	0	144	31	12	26	29	1.93
31457073--31457335	23	11.2	23	70	15	119	26	12	17	43	1.85
31457086--31457389	70	4.3	70	89	2	430	26	12	18	42	1.85
31457879--31458191	54	5.8	54	88	1	428	43	20	16	18	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31457879--31458192	27	11.6	27	84	4	389	43	20	16	18	1.88
31488490--31488536	24	1.9	25	91	4	78	34	0	40	25	1.56
31489652--31489933	27	10.4	27	85	0	393	42	21	17	18	1.89
31492055--31492140	42	2.0	42	100	0	172	37	4	12	45	1.63
31496198--31496673	44	11.0	44	85	4	619	25	26	17	30	1.97
31515837--31515891	22	2.5	22	76	5	58	41	16	23	18	1.89
31515913--31516161	32	7.8	32	78	5	229	36	23	22	18	1.95
31515913--31516126	96	2.2	95	87	0	302	35	23	22	18	1.95
31516161--31516214	26	2.1	26	92	0	90	35	25	22	16	1.95
31516202--31516265	27	2.4	27	85	12	80	31	23	25	20	1.98
31516330--31516411	24	3.5	23	81	5	83	48	23	7	20	1.74
31516452--31516576	27	4.6	27	92	0	205	25	21	19	33	1.97
31516450--31516576	54	2.4	54	94	0	227	25	22	19	33	1.97
31516584--31516634	26	2.0	26	84	0	66	23	21	21	33	1.97
31520142--31520198	24	2.4	23	79	5	69	28	15	10	45	1.79
31524755--31524785	15	2.1	15	93	0	53	22	12	9	54	1.67
31524942--31524980	19	2.1	19	85	0	51	2	10	2	84	0.81
31524947--31524980	14	2.4	14	85	14	52	0	11	2	85	0.71
31528810--31528951	43	3.4	41	75	9	126	31	18	21	28	1.97
31532545--31532734	21	9.0	21	70	9	109	45	16	19	18	1.86
31532541--31532744	84	2.4	84	84	2	257	46	16	20	17	1.85
31532601--31532738	21	6.6	20	74	14	118	48	17	15	18	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31532589--31532743	42	3.7	42	86	3	204	48	17	17	16	1.82
31535699--31535733	16	2.1	17	89	5	54	37	25	0	37	1.57
31547386--31547452	24	2.7	25	77	13	75	17	25	19	37	1.94
31547401--31547448	25	2.0	24	91	4	78	14	25	22	37	1.92
31551150--31551212	31	2.0	31	100	0	126	33	12	28	25	1.92
31552849--31552924	34	2.3	34	90	4	120	44	6	13	35	1.69
31555429--31555486	29	2.0	29	100	0	116	10	44	3	41	1.55
31563464--31563493	14	2.1	15	93	6	53	33	0	0	66	0.92
31565902--31565934	16	2.1	16	100	0	66	51	18	6	24	1.68
31570641--31570698	29	2.0	29	89	0	89	31	15	24	29	1.95
31571096--31571169	32	2.3	32	90	4	114	21	16	36	25	1.94
31577931--31577965	2	17.5	2	93	0	61	54	0	0	45	0.99
31578129--31578175	23	2.0	23	84	8	60	63	0	0	36	0.94
31578586--31578677	19	4.8	19	91	0	157	38	15	9	36	1.80
31578563--31578677	38	2.9	38	92	5	176	39	15	8	36	1.79
31579105--31579484	45	8.6	45	73	10	205	25	22	20	30	1.98
31579504--31579612	44	2.5	44	83	3	130	30	19	20	30	1.97
31579598--31579695	44	2.2	44	87	3	135	31	24	19	24	1.98
31579697--31580195	88	5.7	88	89	0	696	20	23	27	29	1.99
31579955--31580093	44	3.2	44	64	4	118	20	23	30	25	1.99
31579818--31580136	44	7.2	44	59	8	110	22	24	26	26	2.00
31581527--31581559	14	2.3	15	89	5	50	27	33	12	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31582390--31582444	26	2.2	26	83	3	67	60	5	12	21	1.53
31583687--31583720	11	2.8	13	91	8	54	44	11	8	35	1.72
31584623--31584661	20	1.9	21	89	5	62	28	2	12	56	1.50
31584814--31584967	33	4.6	33	70	23	115	19	16	28	35	1.94
31585017--31585147	33	3.7	33	74	18	118	21	18	27	32	1.96
31584782--31585114	101	3.3	102	93	2	564	20	17	28	32	1.96
31589245--31589284	2	20.5	2	84	5	55	52	2	0	45	1.14
31590075--31590128	19	2.8	19	94	0	99	37	16	9	37	1.81
31590052--31590128	38	1.9	40	87	10	113	38	16	7	36	1.78
31592533--31592570	15	2.6	15	91	4	60	44	0	0	55	0.99
31592765--31592967	88	2.3	88	84	5	243	37	22	8	31	1.85
31593040--31593086	18	2.5	19	83	13	62	51	0	6	42	1.27
31593063--31593124	29	2.1	29	91	5	99	59	1	3	35	1.23
31593330--31593419	9	9.8	9	68	12	58	30	5	2	62	1.30
31593357--31593419	18	3.4	18	82	4	90	30	4	3	61	1.32
31593320--31593405	27	3.1	27	77	9	93	31	5	1	61	1.27
31594207--31594250	18	2.4	18	88	3	61	68	0	2	29	1.02
31594292--31594340	26	1.9	25	84	12	64	30	2	2	65	1.15
31594903--31594944	20	2.1	20	86	8	59	7	14	2	76	1.10
31596546--31596583	19	2.0	19	85	10	51	47	2	5	44	1.39
31602289--31602356	18	3.4	20	74	13	59	50	0	1	48	1.10
31602308--31602356	23	2.1	23	88	7	73	51	0	2	46	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31602481--31602516	17	2.1	18	89	5	56	41	2	0	55	1.14
31602483--31602525	17	2.5	17	84	3	50	46	2	2	48	1.27
31605703--31605755	27	2.0	27	100	0	106	26	15	11	47	1.79
31608256--31608300	19	2.3	20	81	14	58	40	13	0	46	1.43
31617829--31617878	25	2.0	26	84	4	66	48	2	2	48	1.24
31620087--31620128	21	2.0	21	100	0	84	23	23	19	33	1.97
31623773--31623874	21	4.8	20	77	12	89	14	4	5	74	1.18
31623784--31623819	10	3.2	12	77	22	51	13	5	8	72	1.27
31623791--31623856	33	2.0	33	85	5	89	15	3	4	77	1.06
31623801--31623860	9	6.9	9	76	14	63	18	3	3	75	1.09

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   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150