genome.fa.s25.2.7.7.80.10.50.1000.139.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   205   206   207   208   
          209   210   211   212   213   214   

This is table  139  of  214  ( 25680 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)
41989423--41989457	11	3.2	11	88	11	54	0	54	0	45	0.99
41989920--41989987	3	22.3	3	73	8	57	30	0	7	61	1.23
41989927--41989998	23	3.1	23	82	11	67	31	1	11	55	1.43
41990088--41990129	3	14.0	3	89	0	66	30	2	0	66	1.04
41990376--41990453	17	4.3	18	76	13	72	33	3	2	60	1.28
41990806--41990901	18	5.1	19	67	20	58	36	11	1	51	1.45
41990807--41990901	38	2.6	36	78	8	93	36	11	1	50	1.46
42015919--42016371	44	10.7	44	73	13	308	30	20	22	26	1.98
42015879--42016371	170	2.9	163	76	11	476	31	20	21	26	1.98
42017272--42017339	32	2.1	32	81	5	75	73	4	0	22	1.01
42017442--42017476	11	3.2	11	88	11	54	0	54	0	45	0.99
42017936--42018003	3	22.3	3	73	8	57	30	0	7	61	1.23
42017943--42018014	23	3.1	23	82	11	67	31	1	11	55	1.43
42018104--42018142	3	13.0	3	88	0	60	30	2	0	66	1.05
42018389--42018466	17	4.3	18	76	13	72	33	3	2	60	1.28
42018820--42018915	18	5.1	19	67	20	58	36	11	1	51	1.45
42018821--42018915	38	2.6	36	78	8	93	36	11	1	50	1.46
42022780--42022816	3	12.3	3	94	0	65	64	2	0	32	1.07
42023306--42023337	16	1.9	16	93	6	55	84	3	12	0	0.74
42023628--42023659	5	6.4	5	100	0	64	81	0	0	18	0.70
42026195--42026242	23	2.1	23	88	0	69	45	12	4	37	1.61
42030372--42030424	24	2.2	25	77	16	58	43	3	5	47	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42031775--42031815	21	1.9	22	85	5	57	48	0	9	41	1.36
42032751--42032795	20	2.2	20	84	7	56	62	2	8	26	1.37
42052113--42052158	20	2.3	20	88	0	65	52	13	4	30	1.59
42052121--42052164	20	2.2	20	83	0	52	52	9	4	34	1.54
42056004--42056049	20	2.3	20	92	0	74	52	15	4	28	1.61
42056012--42056055	20	2.2	20	83	0	52	52	9	4	34	1.54
42061818--42061859	6	7.0	6	100	0	84	16	16	33	33	1.92
42064555--42064619	20	3.3	19	75	14	60	58	1	0	40	1.07
42064595--42064675	37	2.1	39	82	8	96	65	0	2	32	1.06
42064539--42064675	9	14.4	9	74	13	80	64	0	1	33	1.08
42064539--42064675	19	7.2	19	71	13	95	64	0	1	33	1.08
42064642--42064675	11	3.1	11	91	0	50	67	0	0	32	0.91
42064860--42064912	11	5.2	11	71	17	51	28	1	0	69	0.99
42064929--42065003	10	7.8	9	77	15	62	28	5	0	66	1.13
42064942--42065003	29	2.2	27	85	5	79	27	4	0	67	1.10
42064941--42065056	18	6.3	18	71	16	69	26	4	0	68	1.14
42064935--42065030	39	2.5	38	77	11	99	30	5	0	64	1.15
42077765--42077804	21	2.0	20	85	9	55	40	5	2	52	1.37
42080444--42080497	14	3.9	14	77	15	58	57	9	0	33	1.31
42080762--42080808	25	1.9	23	83	12	58	63	10	2	23	1.37
42081105--42081152	8	5.8	8	76	9	51	35	2	14	47	1.56
42081959--42081996	20	1.9	20	88	0	58	42	7	21	28	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42093480--42093510	14	2.2	14	94	0	53	48	12	0	38	1.42
42097401--42097537	23	6.0	21	77	13	121	18	4	34	43	1.70
42097409--42097518	48	2.4	45	86	10	150	16	5	35	42	1.71
42100642--42100690	4	12.2	4	100	0	98	48	24	0	26	1.51
42104935--42104968	17	1.9	18	88	5	52	67	2	0	29	1.05
42105384--42105446	31	2.1	30	81	3	72	33	9	12	44	1.75
42107057--42107126	28	2.6	27	79	4	77	38	18	24	18	1.93
42110494--42110531	18	2.1	18	95	0	67	52	13	5	28	1.61
42110602--42110654	21	2.5	22	80	17	60	62	5	0	32	1.19
42111534--42111581	17	2.9	17	81	12	55	68	4	0	27	1.07
42111535--42111581	23	2.0	23	84	8	60	70	4	0	25	1.05
42113117--42113189	23	3.4	21	75	19	71	73	1	4	20	1.06
42113714--42113788	19	3.8	19	84	6	96	37	16	8	38	1.78
42113725--42113787	21	3.1	21	86	9	103	38	14	7	39	1.75
42118552--42118631	26	3.2	24	75	12	72	33	2	2	61	1.23
42118550--42118632	42	2.0	42	85	4	114	33	2	2	61	1.22
42124957--42125002	12	3.6	12	78	16	56	65	0	0	34	0.93
42124950--42125019	27	2.6	26	71	10	70	55	0	7	37	1.27
42126679--42127311	44	14.4	44	78	5	577	28	25	16	28	1.97
42126716--42127312	132	4.5	132	95	0	1000	29	25	16	27	1.97
42127445--42127602	45	3.4	45	66	17	115	28	23	17	30	1.97
42127443--42127636	95	2.0	95	95	0	352	28	22	18	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42127296--42128461	229	5.1	229	97	0	2127	28	22	19	28	1.98
42127903--42128098	97	2.0	95	95	1	347	29	22	18	29	1.97
42128134--42128327	95	2.0	95	95	0	352	28	22	19	29	1.98
42128334--42128527	46	4.3	46	66	15	143	30	24	19	25	1.98
42128229--42128638	134	3.1	134	98	0	784	29	22	20	27	1.98
42132802--42132845	19	2.3	20	84	7	56	40	11	20	27	1.86
42135175--42135220	12	3.6	12	78	16	56	65	0	0	34	0.93
42135168--42135237	27	2.6	26	71	10	70	55	0	7	37	1.27
42141376--42141403	3	9.3	3	100	0	56	0	35	0	64	0.94
42142013--42142047	3	11.7	3	100	0	70	34	31	0	34	1.58
42142305--42142329	7	3.6	7	100	0	50	12	12	16	60	1.60
42142372--42142396	2	12.5	2	100	0	50	48	0	0	52	1.00
42147944--42147970	5	5.4	5	100	0	54	59	18	0	22	1.38
42151140--42151366	121	1.9	120	85	2	314	26	20	15	37	1.92
42161822--42161865	14	3.1	14	90	0	70	47	0	15	36	1.46
42166445--42166501	24	2.4	24	96	0	105	33	17	29	19	1.95
42173046--42173137	25	3.7	25	73	11	89	35	19	26	18	1.95
42173039--42173158	50	2.4	50	79	8	145	37	18	23	20	1.94
42178029--42178095	28	2.3	29	79	5	73	38	20	0	40	1.53
42179218--42179271	18	2.9	18	86	2	72	40	46	1	11	1.50
42187711--42187750	13	2.9	15	79	20	52	0	27	0	72	0.85
42187764--42187807	20	2.2	20	88	8	63	11	11	4	72	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42187823--42187896	5	14.8	5	100	0	148	59	0	0	40	0.97
42188180--42188228	23	2.1	23	88	7	73	28	32	14	24	1.94
42190549--42190789	42	5.7	42	87	3	315	32	30	17	20	1.95
42193227--42193270	23	1.9	23	86	9	63	68	2	20	9	1.28
42193989--42194241	134	1.9	134	96	3	472	35	7	6	49	1.57
42195477--42195630	41	3.8	41	88	6	233	30	24	22	22	1.99
42195653--42195787	40	3.4	39	75	5	101	17	19	22	40	1.92
42195678--42195788	40	2.8	41	78	6	113	17	20	23	38	1.93
42198438--42198505	31	2.2	31	82	10	77	33	8	16	41	1.79
42199844--42199879	18	2.0	18	88	0	54	30	25	13	30	1.94
42199986--42200035	26	1.9	26	95	0	91	32	22	14	32	1.93
42200551--42200615	32	2.0	33	84	3	87	43	0	0	56	0.99
42220955--42221027	24	3.1	23	75	14	69	38	21	23	16	1.93
42226257--42226439	50	3.7	50	86	2	242	26	16	21	35	1.95
42226573--42226842	44	5.9	44	71	16	181	26	18	20	34	1.96
42226516--42226786	142	1.9	142	88	1	409	28	19	18	33	1.95
42226571--42226984	186	2.2	186	90	1	659	26	19	19	34	1.96
42226752--42227129	142	2.7	141	92	0	612	27	19	18	34	1.95
42226894--42227131	44	5.2	43	70	17	158	27	21	18	33	1.96
42235663--42235708	19	2.4	19	82	10	58	39	10	23	26	1.88
42243142--42243192	24	2.1	24	92	0	84	23	23	3	49	1.67
42243185--42243487	101	3.0	101	84	1	385	29	24	15	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42253712--42253823	9	12.4	9	88	0	161	23	12	25	38	1.90
42253712--42253823	27	4.1	27	94	0	179	23	12	25	38	1.90
42264647--42264811	58	2.9	57	84	7	201	44	0	3	52	1.21
42264982--42265036	16	3.4	16	94	0	101	29	27	7	36	1.84
42265123--42265147	3	8.3	3	100	0	50	32	0	0	68	0.90
42267376--42267486	19	5.8	19	89	0	177	37	13	9	39	1.76
42267376--42267479	38	2.7	38	98	0	199	38	12	8	40	1.74
42267799--42268840	132	7.9	132	92	0	1685	29	23	18	28	1.97
42268444--42268757	44	7.1	44	64	16	121	29	22	17	29	1.97
42270519--42270555	10	3.8	10	89	7	58	0	0	10	89	0.49

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   205   206   207   208   
          209   210   211   212   213   214