genome.fa.s17.2.7.7.80.10.50.1000.158.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  158  of  185  ( 22116 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)
48622065--48622090	9	2.9	9	100	0	52	23	11	11	53	1.69
48626783--48626832	22	2.3	22	78	0	64	28	30	16	26	1.96
48634627--48634674	18	2.8	16	74	20	51	47	2	0	50	1.12
48634687--48634715	12	2.3	13	94	5	51	55	0	6	37	1.27
48634935--48634989	9	6.1	9	77	8	58	45	1	0	52	1.11
48636795--48636857	31	2.0	31	81	6	74	49	14	1	34	1.53
48639111--48639153	14	3.1	14	93	3	70	30	0	2	67	1.03
48643083--48643130	20	2.4	20	96	0	87	29	20	16	33	1.95
48645472--48645532	3	20.3	3	86	0	77	59	1	6	32	1.33
48647273--48647624	44	7.8	44	74	10	221	29	20	19	30	1.97
48647170--48647624	227	2.0	227	90	1	725	29	20	18	31	1.96
48647743--48647856	51	2.2	51	85	0	156	29	23	14	32	1.94
48647641--48648361	123	5.6	123	70	12	489	28	24	16	30	1.96
48647780--48647943	87	1.9	87	83	0	211	31	22	14	31	1.94
48647979--48648017	21	1.9	20	94	5	69	17	28	12	41	1.87
48647983--48648026	21	2.1	21	82	0	52	20	27	9	43	1.82
48647636--48648372	261	2.8	261	86	0	1060	28	24	16	30	1.96
48647997--48648371	138	2.8	139	75	10	331	27	24	17	31	1.97
48649653--48649684	15	2.1	15	94	0	55	0	21	0	78	0.76
48654550--48654574	4	6.2	4	100	0	50	48	0	0	52	1.00
48656739--48656889	49	3.1	48	78	8	144	18	13	33	35	1.90
48658479--48658534	24	2.2	26	84	9	80	62	5	3	28	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48662755--48662788	16	2.1	16	100	0	68	44	23	14	17	1.86
48677588--48677721	68	2.0	68	82	2	162	42	2	3	50	1.35
48678949--48679023	29	2.6	29	81	6	82	45	18	13	22	1.84
48691200--48691273	33	2.2	33	80	4	87	21	20	10	47	1.80
48691250--48691361	33	3.4	33	76	12	104	19	26	12	41	1.87
48691371--48691522	63	2.4	63	91	2	234	19	26	17	36	1.94
48702785--48702912	57	2.3	55	84	4	166	40	5	17	35	1.73
48718241--48718512	50	5.7	46	79	9	269	26	20	31	21	1.98
48718244--48718544	95	3.1	94	85	8	358	27	20	30	22	1.98
48724389--48724453	27	2.4	27	92	0	103	30	32	15	21	1.94
48738983--48739082	31	3.3	30	77	6	76	39	5	9	47	1.57
48743613--48743650	20	1.9	20	88	0	58	86	2	0	10	0.66
48751128--48751559	209	2.1	208	88	4	640	29	25	20	24	1.99
48752156--48752218	7	9.0	7	78	0	54	15	1	36	46	1.56
48752186--48752226	21	2.0	21	90	0	64	21	0	29	48	1.50
48752156--48752218	28	2.2	28	86	5	92	15	1	36	46	1.56
48752354--48752383	15	2.0	15	93	0	51	63	0	3	33	1.11
48753142--48753185	19	2.2	20	88	4	63	27	43	2	27	1.67
48753541--48753567	6	4.5	6	100	0	54	33	0	14	51	1.43
48760208--48760247	21	1.9	21	84	0	53	32	12	50	5	1.62
48760571--48760714	43	3.3	43	83	7	125	28	20	28	22	1.99
48760601--48760866	43	6.2	43	82	1	302	25	19	29	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48760600--48760861	129	2.0	129	85	1	346	26	19	29	24	1.98
48765536--48765590	25	2.1	27	80	12	62	69	3	5	21	1.25
48770426--48770472	20	2.3	20	88	0	67	21	21	19	38	1.94
48772765--48772872	51	2.1	51	91	0	171	31	14	11	42	1.81
48780334--48780621	150	1.9	150	99	0	567	29	9	17	43	1.80
48784110--48784139	3	10.3	3	92	7	53	30	0	0	70	0.88
48786187--48786211	13	1.9	13	100	0	50	28	8	16	48	1.74
48791722--48792310	44	13.1	43	71	15	325	33	16	22	26	1.96
48791721--48792328	89	6.8	89	88	3	779	32	17	22	27	1.96
48791722--48792410	178	3.8	176	80	7	699	32	16	22	28	1.96
48792708--48792787	11	7.4	11	74	17	69	36	2	0	61	1.10
48792660--48792775	42	2.9	41	89	6	168	34	2	0	62	1.09
48792659--48792806	38	3.8	40	82	13	166	35	2	0	61	1.10
48792708--48792809	11	9.1	11	69	23	52	36	1	0	61	1.07
48795088--48795112	12	2.1	12	100	0	50	24	36	24	16	1.94
48795264--48795324	9	6.8	9	96	0	95	39	27	9	22	1.86
48799553--48799595	18	2.4	18	92	7	70	20	4	48	25	1.69
48800239--48800326	24	3.7	23	77	7	79	31	11	15	40	1.83
48815389--48815456	34	2.0	34	82	5	84	22	23	22	32	1.98
48827572--48827617	14	3.3	14	82	11	58	32	4	0	63	1.14
48832133--48832178	22	2.1	22	84	8	58	41	2	6	50	1.40
48834125--48834351	43	5.4	42	79	8	239	35	25	16	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48834117--48834354	85	2.8	85	89	3	356	34	25	17	22	1.96
48834328--48834380	26	2.0	26	92	0	88	22	33	24	18	1.97
48836914--48837069	42	3.7	41	75	17	158	24	18	26	30	1.98
48844249--48844404	42	3.7	41	75	17	158	24	18	26	30	1.98
48850184--48850212	8	3.8	8	90	9	51	65	24	0	10	1.23
48858660--48858704	20	2.3	20	88	3	65	20	6	4	68	1.29
48859571--48859744	20	8.6	20	70	10	88	21	18	9	50	1.76
48861407--48861504	34	2.9	35	75	6	94	44	15	12	27	1.82
48861838--48861956	28	4.2	28	83	2	139	55	10	12	21	1.67
48861804--48861956	28	5.5	28	78	5	123	53	9	14	22	1.70
48861838--48861956	57	2.1	57	83	7	145	55	10	12	21	1.67
48865601--48865661	31	2.0	31	90	0	95	44	8	8	39	1.64
48875645--48875691	19	2.4	20	89	7	78	29	8	10	51	1.66
48877043--48877122	32	2.5	32	81	4	90	52	17	2	27	1.57
48898183--48898263	25	3.3	25	73	13	87	32	19	25	22	1.98
48903852--48903878	12	2.2	12	100	0	54	7	22	44	25	1.79
48905068--48905135	24	2.8	24	82	10	84	29	17	26	26	1.98
48908150--48908176	2	13.5	2	100	0	54	48	0	0	51	1.00
48913212--48913296	18	4.7	18	76	22	72	30	1	2	65	1.12
48913254--48913287	17	2.1	16	88	5	50	35	2	0	61	1.11
48913266--48913308	20	2.1	21	83	12	63	34	0	0	65	0.93
48913210--48913296	38	2.4	39	77	14	96	29	1	2	66	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48913270--48913313	9	4.7	9	83	10	61	36	0	0	63	0.95
48913339--48913400	32	1.9	32	83	0	79	38	12	17	30	1.88
48914717--48914773	17	3.4	16	72	13	53	38	5	1	54	1.33
48914719--48914808	33	2.8	33	88	3	121	43	4	1	51	1.29
48914729--48914817	31	2.8	32	87	3	117	43	5	1	49	1.33
48919753--48919790	15	2.6	15	87	4	60	63	0	10	26	1.27
48932537--48932586	16	3.1	15	81	16	55	68	4	0	28	1.08
48934032--48934059	6	4.7	6	100	0	56	85	14	0	0	0.59
48934142--48934184	17	2.5	18	81	11	54	39	0	2	58	1.11
48934192--48934497	144	2.1	146	87	6	451	32	1	13	52	1.50
48938172--48938232	21	2.6	22	77	15	61	49	11	4	34	1.61
48938485--48938548	29	2.2	29	81	8	76	23	20	3	53	1.60
48939036--48939099	27	2.4	26	82	14	78	26	18	4	50	1.67
48939031--48939099	26	2.6	25	82	13	77	26	20	4	49	1.67
48943808--48943994	87	2.1	87	83	6	236	38	14	21	25	1.91
48943859--48943994	29	4.7	28	70	10	94	38	14	19	26	1.91
48945709--48945770	26	2.4	26	86	2	81	37	19	22	20	1.95
48945734--48945801	25	2.7	25	80	11	77	30	16	29	23	1.96
48945734--48945840	25	4.4	24	73	8	65	32	16	28	22	1.96
48945835--48945902	26	2.7	25	79	4	82	36	23	22	17	1.94
48951706--48951746	20	2.0	20	85	4	55	36	39	4	19	1.73
48952095--48952506	133	3.1	131	78	8	438	30	21	15	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48953322--48953419	28	3.5	29	73	17	82	47	0	4	47	1.21
48953396--48953442	23	2.1	21	84	7	58	46	0	4	48	1.21
48955630--48955665	16	2.2	17	90	9	58	77	0	22	0	0.76
48956003--48956040	20	1.9	20	84	10	51	60	0	10	28	1.30
48960026--48960101	9	8.4	9	78	11	84	38	22	11	27	1.89
48960026--48960101	27	2.8	27	82	7	100	38	22	11	27	1.89
48960141--48960181	6	6.8	6	100	0	82	17	0	17	65	1.27
48960146--48960194	18	2.5	20	90	6	75	20	0	12	67	1.22
48960223--48960278	29	2.0	28	82	10	69	14	1	42	41	1.56
48960954--48960979	12	2.2	12	100	0	52	53	0	0	46	1.00

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