genome.fa.s7.2.7.7.80.10.50.1000.168.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   

This is table  168  of  204  ( 24458 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)
50256080--50256128	3	17.3	3	79	12	50	2	28	0	69	1.00
50256081--50256139	17	3.7	16	73	15	59	3	30	0	66	1.08
50280420--50280492	34	2.1	34	92	0	119	45	31	0	23	1.53
50286920--50286980	31	2.0	31	90	0	95	34	21	6	37	1.79
50295140--50295198	27	2.2	27	81	0	73	64	1	0	33	1.04
50297523--50297559	17	2.1	17	90	5	56	83	0	0	16	0.64
50300454--50300487	3	11.3	3	87	0	50	2	29	2	64	1.22
50306664--50306716	27	2.0	27	81	7	63	5	13	9	71	1.29
50313555--50313581	7	3.9	7	100	0	54	74	11	14	0	1.08
50313690--50313726	15	2.5	15	100	0	74	51	21	21	5	1.68
50314218--50314263	17	2.8	18	84	15	64	28	41	30	0	1.56
50327803--50327840	19	2.1	18	90	5	58	26	5	5	63	1.37
50328129--50328157	14	2.1	14	100	0	58	20	0	6	72	1.07
50335433--50335981	94	6.1	92	76	7	396	33	18	19	29	1.95
50335466--50335970	44	11.3	44	76	8	419	33	18	18	29	1.95
50335743--50335970	85	2.6	86	81	4	280	30	18	20	30	1.96
50352771--50352816	16	3.1	15	87	9	60	52	8	8	30	1.62
50352780--50352816	16	2.3	16	95	0	65	48	8	10	32	1.67
50357793--50357865	37	2.0	37	91	0	119	27	20	9	42	1.83
50366374--50366410	19	2.0	18	89	5	56	40	2	0	56	1.13
50367206--50367244	2	19.5	2	94	0	69	46	2	0	51	1.14
50371208--50371249	15	2.7	16	82	14	52	45	0	2	52	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50371199--50371240	15	2.9	15	82	10	52	47	0	0	52	1.00
50371394--50371483	45	2.0	44	89	6	137	33	28	6	31	1.83
50371463--50371527	16	4.1	16	97	0	121	24	36	6	32	1.80
50371618--50371664	20	2.3	21	78	10	53	51	0	6	42	1.27
50373971--50374019	22	2.2	22	88	0	71	32	14	20	32	1.92
50378710--50378873	82	2.0	82	87	0	238	42	10	15	31	1.81
50379026--50379068	5	8.6	5	100	0	86	39	20	18	20	1.93
50379722--50379758	18	2.1	18	94	0	65	29	5	13	51	1.63
50379717--50379762	18	2.8	16	78	15	58	30	6	15	47	1.70
50390858--50391099	81	3.0	81	91	0	376	23	22	24	30	1.99
50402299--50402382	24	3.5	23	66	18	64	15	23	22	38	1.92
50406759--50406805	25	2.0	22	84	12	58	27	34	0	38	1.57
50416369--50416411	19	2.2	20	83	8	52	44	2	2	51	1.27
50416632--50416701	21	3.2	21	70	20	63	18	20	11	50	1.77
50416908--50417006	21	4.6	22	69	16	66	15	14	9	61	1.56
50416897--50417006	43	2.6	43	78	15	120	15	13	8	62	1.53
50416925--50416962	19	2.0	20	85	15	53	21	15	0	63	1.31
50417968--50418055	39	2.2	41	92	8	146	46	4	27	21	1.70
50423528--50423558	2	15.5	2	100	0	62	48	0	0	51	1.00
50428094--50428137	3	14.7	3	100	0	88	68	0	0	31	0.90
50434521--50434545	11	2.3	11	100	0	50	36	48	0	16	1.46
50441139--50441221	39	2.2	39	88	2	123	19	19	21	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50441149--50441306	45	3.7	41	88	5	169	18	20	22	38	1.93
50441166--50441306	45	3.1	45	94	0	246	18	19	21	40	1.92
50443898--50443969	22	3.3	22	94	0	117	30	16	27	25	1.97
50447853--50447995	41	3.5	41	92	0	223	24	27	19	27	1.99
50448216--50448245	2	15.0	2	100	0	60	50	0	0	50	1.00
50449966--50450077	45	2.5	44	86	2	152	19	18	20	41	1.91
50455805--50455882	41	1.9	41	94	0	138	35	21	10	32	1.87
50463590--50463619	16	1.9	16	93	6	53	30	0	20	50	1.49
50463844--50463873	9	3.3	9	100	0	60	70	0	0	30	0.88
50469156--50469251	31	3.1	30	90	3	138	29	13	13	43	1.82
50469729--50469753	6	4.2	6	100	0	50	68	0	0	32	0.90
50476174--50476302	62	2.1	61	78	7	134	52	0	10	36	1.41
50476646--50476803	76	2.1	78	81	4	187	32	22	8	36	1.84
50476846--50476904	19	3.2	17	79	15	64	61	1	0	37	1.07
50477165--50477253	28	3.1	29	75	12	85	32	3	2	61	1.24
50477148--50477271	58	2.2	59	81	10	150	31	4	1	62	1.26
50477165--50477272	57	1.9	57	85	9	150	31	2	1	63	1.19
50477381--50477595	92	2.3	92	84	5	281	36	7	19	36	1.81
50481477--50481543	34	1.9	35	84	3	91	47	11	7	32	1.68
50484849--50484959	40	2.8	39	79	12	120	36	4	0	59	1.18
50484876--50484960	29	2.9	28	86	11	93	37	4	0	57	1.20
50484896--50484968	30	2.4	30	93	6	121	35	2	0	61	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50494370--50494410	20	2.0	20	85	4	55	53	0	21	24	1.46
50494392--50494441	15	2.9	17	80	16	50	42	0	32	26	1.56
50494406--50494442	20	1.9	19	89	10	58	43	0	32	24	1.55
50494743--50494779	9	4.1	9	92	0	65	29	10	13	45	1.77
50494802--50494832	9	3.4	9	90	0	53	38	22	12	25	1.90
50495133--50495172	21	1.9	21	84	0	53	22	27	12	37	1.90
50501859--50501898	20	2.0	20	85	0	53	5	22	15	57	1.57
50504151--50504254	42	2.5	42	84	3	138	24	22	34	19	1.96
50508586--50508715	42	3.1	42	89	0	197	21	31	23	23	1.98
50512713--50512790	3	25.7	3	97	2	147	66	0	0	33	0.92
50515741--50515806	29	2.3	29	94	0	114	24	13	28	33	1.93
50517325--50517351	12	2.2	12	100	0	54	33	18	25	22	1.97
50521629--50521671	22	1.9	23	85	4	61	37	11	0	51	1.39
50522476--50522509	1	34.0	1	100	0	68	0	0	0	100	0.00
50524363--50524419	29	1.9	30	82	3	71	22	33	29	14	1.93
50527517--50527559	22	1.9	23	85	4	61	32	0	6	60	1.23
50528729--50528769	2	20.5	2	100	0	82	51	0	0	48	1.00
50529302--50529340	19	2.2	18	86	9	53	64	0	2	33	1.08
50539169--50539316	75	2.0	75	79	2	163	37	14	16	31	1.89
50544046--50544091	20	2.3	21	82	14	62	65	2	10	21	1.35
50546904--50546990	44	2.0	44	97	0	165	50	4	14	29	1.63
50546908--50547001	44	2.1	44	92	0	152	50	4	14	30	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50549922--50550028	20	5.8	18	70	19	60	52	2	2	42	1.30
50550918--50551823	457	2.0	456	90	1	1447	33	20	15	31	1.94
50554754--50554800	2	24.0	2	95	4	87	51	0	0	48	1.00
50557581--50557606	3	8.7	3	100	0	52	69	0	0	30	0.89
50561561--50561595	18	1.9	18	94	0	61	60	8	2	28	1.41
50561633--50561696	29	2.2	29	91	0	101	29	28	1	40	1.66
50583213--50583251	14	2.6	15	84	12	53	58	7	5	28	1.47
50583520--50583709	94	2.0	95	97	1	364	12	23	6	57	1.58
50586682--50586718	19	1.9	19	89	10	58	51	0	16	32	1.45
50590290--50590365	23	3.3	23	88	0	116	30	25	21	23	1.99
50592209--50592242	8	4.2	8	92	0	50	70	5	0	23	1.09
50593770--50593799	13	2.3	13	100	0	60	40	43	0	16	1.48
50593964--50594024	9	6.8	9	96	0	95	22	9	27	39	1.86
50597462--50597521	20	3.1	19	79	9	68	31	1	0	66	1.01
50602697--50602734	18	2.2	18	86	9	53	23	7	0	68	1.16
50603469--50603494	3	8.7	3	100	0	52	69	0	30	0	0.89
50607987--50608026	21	1.9	21	84	0	53	40	2	0	57	1.12
50608206--50608253	16	3.0	16	87	6	62	45	2	2	50	1.25
50608409--50608435	11	2.5	11	100	0	54	44	0	0	55	0.99
50610531--50610568	17	2.2	18	90	4	60	68	2	0	28	1.03
50610531--50610584	27	2.0	28	85	3	74	64	3	1	29	1.21
50611976--50612030	18	3.0	18	78	2	56	9	5	41	43	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50612461--50612578	44	2.7	44	81	2	130	27	22	21	29	1.99
50616183--50616243	22	2.7	22	87	2	77	49	1	1	47	1.21
50616219--50616258	16	2.5	16	91	0	62	47	2	7	42	1.45
50616268--50616447	68	2.9	61	88	8	256	40	5	10	44	1.61
50616247--50616417	68	2.5	67	96	1	308	39	4	8	46	1.56
50616514--50616559	24	2.0	21	88	12	65	63	4	0	32	1.14
50621265--50621302	19	2.0	19	85	10	51	81	0	7	10	0.87
50622400--50622454	18	3.0	18	75	2	56	7	5	43	43	1.55
50626193--50626508	82	3.9	82	79	8	380	46	8	6	37	1.61
50626308--50626572	75	3.4	75	76	9	298	47	10	7	34	1.66

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   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204