genome.fa.s16.2.7.7.80.10.50.1000.67.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  67  of  175  ( 20966 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)
20030145--20030204	21	2.9	20	80	7	66	35	43	0	21	1.53
20030254--20030342	35	2.5	35	88	3	133	35	40	1	22	1.62
20030291--20030345	28	2.0	28	85	0	74	36	43	0	20	1.52
20030706--20030939	40	5.8	39	81	6	193	34	26	18	20	1.96
20030706--20030939	41	5.8	41	81	4	251	34	26	18	20	1.96
20030742--20030939	81	2.4	80	82	5	227	36	24	18	20	1.95
20030955--20031028	38	2.0	37	89	2	112	24	32	20	22	1.98
20031112--20031206	39	2.4	41	81	10	99	26	21	17	34	1.95
20039723--20039809	45	1.9	45	90	0	138	34	21	16	27	1.95
20039818--20040002	51	3.6	51	86	3	250	30	28	18	22	1.97
20039817--20040002	101	1.9	100	83	7	234	31	27	18	22	1.97
20041427--20041468	15	2.9	15	82	3	50	61	2	11	23	1.42
20044171--20044303	42	3.2	41	86	6	169	52	18	17	12	1.74
20046066--20046093	12	2.3	12	100	0	56	42	7	7	42	1.59
20052198--20052460	40	6.6	40	87	3	316	26	27	20	25	1.99
20072449--20072578	46	2.9	45	81	3	154	34	20	20	24	1.96
20072449--20072599	45	3.3	44	79	6	142	35	18	21	25	1.96
20084784--20084827	22	2.0	21	83	12	54	40	0	0	59	0.98
20086359--20086406	22	2.3	21	85	7	62	27	4	8	60	1.44
20088547--20088607	10	6.2	10	75	11	63	62	9	16	11	1.54
20088542--20088599	29	2.0	30	86	3	82	63	12	13	10	1.51
20092420--20092525	21	5.2	21	71	8	76	22	35	17	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20092437--20092472	17	2.1	17	89	0	54	19	33	25	22	1.97
20093951--20093995	22	2.0	21	83	12	54	40	0	20	40	1.52
20096238--20096271	16	2.2	16	89	5	52	29	8	14	47	1.75
20098793--20098833	22	1.9	21	85	5	55	48	4	0	46	1.23
20100936--20101010	37	2.0	37	100	0	150	21	18	20	40	1.92
20101725--20101774	18	2.5	20	87	9	68	72	4	20	4	1.18
20110670--20110698	14	2.1	14	100	0	58	41	6	24	27	1.80
20122307--20122339	16	2.1	16	100	0	66	24	45	0	30	1.53
20136628--20136698	1	71.0	1	100	0	142	100	0	0	0	0.00
20151079--20151137	26	2.3	26	93	0	100	37	15	11	35	1.84
20151850--20151915	33	2.0	34	82	8	82	22	28	21	27	1.99
20155710--20155757	20	2.6	18	75	18	53	20	2	2	75	1.02
20156861--20156890	16	1.9	15	93	6	51	46	10	10	33	1.71
20160481--20160518	14	2.7	14	91	0	58	23	0	5	71	1.07
20162286--20162429	43	3.4	41	76	7	119	33	26	16	23	1.96
20162331--20162454	44	2.9	42	80	9	126	33	28	13	24	1.93
20171050--20171085	12	2.7	14	83	16	58	16	11	0	72	1.12
20176590--20176711	25	4.9	25	70	14	65	63	3	0	33	1.11
20176576--20176701	15	8.2	16	63	21	56	64	3	0	31	1.15
20176797--20176829	16	2.1	16	88	5	50	30	3	0	66	1.06
20177995--20178092	50	1.9	51	95	2	180	22	17	23	36	1.94
20178702--20178892	51	3.8	50	74	12	183	26	16	27	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20178710--20178894	101	1.8	101	87	3	273	26	17	26	29	1.97
20178898--20178996	46	2.2	43	82	12	119	24	19	24	32	1.97
20179097--20179169	37	1.9	38	88	2	112	46	4	19	30	1.68
20187572--20187763	41	4.8	41	76	10	173	21	21	26	30	1.98
20187983--20188042	7	8.7	7	74	3	50	18	1	38	41	1.60
20203010--20203160	27	5.6	27	83	4	187	27	15	27	29	1.96
20203011--20203160	82	1.8	81	88	4	230	27	15	28	29	1.96
20204873--20204900	12	2.3	12	100	0	56	32	7	10	50	1.64
20206196--20206330	43	3.1	43	88	2	200	22	15	29	32	1.95
20218727--20218891	58	2.9	58	88	2	217	41	15	19	23	1.90
20218843--20218896	23	2.3	23	77	0	54	40	16	18	24	1.90
20219186--20219350	58	2.9	59	89	4	239	23	20	15	40	1.90
20234582--20234606	13	1.9	13	100	0	50	40	0	0	60	0.97
20234567--20234627	30	1.9	33	83	9	83	45	0	3	50	1.17
20235171--20235264	40	2.3	40	88	0	134	29	20	26	23	1.99
20235411--20235515	41	2.6	41	84	3	131	21	16	27	34	1.95
20235795--20235848	22	2.5	21	78	3	54	18	0	31	50	1.48
20235741--20235925	75	2.5	75	91	0	298	20	2	29	47	1.64
20235815--20235849	14	2.5	14	90	0	52	14	0	37	48	1.44
20235870--20236009	7	19.6	7	73	10	70	20	0	32	46	1.56
20235870--20236009	14	9.8	14	74	13	97	20	0	32	46	1.56
20236674--20236721	24	2.0	25	83	4	62	35	4	2	58	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20240488--20240578	43	2.1	43	86	6	123	34	9	9	46	1.70
20240965--20241249	43	6.7	43	86	1	369	25	18	29	27	1.98
20240965--20241249	85	3.4	85	85	1	376	25	18	29	27	1.98
20240983--20241249	127	2.1	128	86	1	374	25	18	29	26	1.98
20256584--20256761	27	6.6	27	81	6	189	25	15	28	30	1.96
20260385--20260423	21	1.9	20	84	5	51	30	5	10	53	1.56
20262657--20263009	121	2.9	121	83	7	471	30	15	21	31	1.95
20266217--20266509	22	13.7	22	77	10	263	17	1	31	50	1.53
20266200--20266255	29	1.9	29	81	0	67	21	0	26	51	1.48
20266196--20266335	66	2.1	66	82	5	167	19	0	28	52	1.46
20266359--20266395	15	2.4	16	82	17	51	16	0	29	54	1.43
20266252--20266488	125	1.9	124	88	2	359	16	0	32	49	1.52
20268999--20269054	11	5.0	11	79	12	69	44	0	30	25	1.54
20268998--20269054	22	2.5	22	88	8	80	43	0	31	24	1.54
20268998--20269061	11	5.6	12	71	23	57	40	0	32	26	1.56
20272099--20272135	13	2.8	13	87	0	56	45	16	2	35	1.61
20272688--20272718	13	2.4	13	100	0	62	6	35	6	51	1.53
20274820--20274858	20	2.0	20	85	10	53	58	2	0	38	1.12
20278522--20278573	26	2.1	24	85	7	68	44	1	1	51	1.23
20278652--20278686	18	2.0	17	88	5	52	45	0	0	54	0.99
20278652--20278706	16	3.4	16	80	16	53	49	0	1	49	1.11
20278640--20278954	155	2.0	157	95	1	571	48	5	3	42	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20278807--20278841	18	2.0	17	88	5	52	45	0	0	54	0.99
20279006--20279096	45	2.0	45	85	2	121	37	28	6	27	1.82
20280142--20280178	13	2.8	13	100	0	74	21	40	8	29	1.82
20281651--20281682	12	2.6	13	85	14	50	0	18	18	62	1.33
20284829--20284932	49	2.1	49	85	0	136	30	9	8	50	1.65
20286330--20286393	26	2.4	28	86	5	87	40	0	0	59	0.97
20286449--20286486	16	2.5	15	91	8	67	39	0	0	60	0.97
20286628--20286733	44	2.5	41	79	18	135	35	31	3	29	1.75
20286645--20286735	46	2.0	46	93	4	159	38	30	4	26	1.76
20286715--20286751	16	2.3	16	95	0	65	21	32	5	40	1.76
20287914--20287952	18	2.2	17	86	4	51	28	2	5	64	1.28
20288767--20288795	3	9.7	3	100	0	58	31	0	0	68	0.89
20289193--20289242	22	2.3	22	96	0	91	28	34	0	38	1.57
20289214--20289272	30	2.0	30	96	0	109	28	35	0	35	1.58
20289193--20289295	52	2.0	52	92	3	172	30	33	0	36	1.58
20289244--20289294	22	2.3	22	86	6	77	29	33	0	37	1.58
20289328--20289391	10	6.5	10	71	10	51	34	0	0	65	0.93
20289329--20289391	29	2.2	29	97	0	117	33	0	0	66	0.92
20290473--20290511	7	5.6	7	96	0	60	23	0	12	64	1.28
20290473--20290517	7	6.4	7	94	0	54	24	0	13	62	1.31
20291605--20292022	29	13.9	29	86	7	557	44	26	0	27	1.58
20291605--20292022	58	6.9	58	90	7	620	44	26	0	27	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20291605--20292022	87	4.6	87	88	8	620	44	26	0	27	1.58
20291767--20291794	6	4.7	6	100	0	56	35	50	0	14	1.43
20291738--20291823	41	2.1	41	100	0	172	41	34	0	23	1.55
20295912--20295980	27	2.6	26	86	4	84	33	28	14	23	1.94
20296236--20296310	27	2.8	27	87	0	114	29	26	14	29	1.95
20304191--20304368	27	6.6	27	82	6	171	30	28	15	25	1.96
20306748--20307026	123	2.3	123	92	1	470	33	20	15	31	1.93
20307938--20308016	27	2.9	27	76	12	81	62	26	6	5	1.41
20308058--20308097	16	2.5	16	87	0	62	42	7	22	27	1.80
20308275--20308398	58	2.1	58	88	2	178	52	3	0	44	1.17

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