genome.fa.s17.2.7.7.80.10.50.1000.56.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  56  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)
16020120--16020264	74	2.0	74	97	0	272	31	11	17	40	1.84
16026529--16026654	61	2.1	60	82	7	148	38	19	7	35	1.79
16027027--16027147	61	2.0	61	80	6	138	37	4	16	41	1.70
16030078--16030140	3	20.3	3	75	18	58	63	1	4	30	1.24
16030092--16030141	7	7.3	7	84	11	52	66	0	4	30	1.10
16031809--16032059	44	5.8	43	71	9	188	29	22	17	30	1.97
16031743--16032062	129	2.5	129	90	1	489	30	21	19	28	1.97
16046295--16046547	54	4.8	51	73	13	165	33	18	19	29	1.95
16046278--16046562	51	5.4	54	75	11	211	31	16	21	30	1.95
16046384--16046547	54	3.1	52	83	7	172	34	17	20	28	1.95
16048799--16049053	127	2.0	127	92	0	429	29	24	19	26	1.98
16050153--16050248	36	2.8	33	69	15	88	11	16	10	61	1.56
16051632--16051737	37	2.9	36	77	10	92	50	1	11	35	1.49
16053713--16053891	51	3.5	51	73	9	166	31	20	22	26	1.98
16056418--16056500	40	2.0	41	93	2	141	45	9	21	22	1.81
16057786--16057862	38	2.0	38	92	0	127	32	15	14	37	1.88
16060670--16060717	19	2.5	20	89	3	71	54	25	8	12	1.65
16060934--16061005	23	3.1	23	83	0	99	41	13	18	26	1.87
16061787--16061827	17	2.4	17	87	4	55	34	2	17	46	1.61
16062256--16062373	42	2.8	41	83	3	137	23	16	17	41	1.90
16062339--16062444	43	2.5	43	77	13	119	20	16	21	41	1.90
16066644--16066714	31	2.3	31	95	2	126	42	22	1	33	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16069043--16069139	28	3.5	28	70	4	88	48	16	13	21	1.80
16073907--16073980	31	2.4	30	84	6	87	39	12	24	24	1.89
16074880--16074921	22	1.9	22	85	0	57	59	2	2	35	1.23
16079831--16079901	35	2.0	35	100	0	142	26	8	25	39	1.84
16086866--16086897	15	2.1	16	94	5	57	15	6	15	62	1.51
16089284--16089308	3	8.3	3	100	0	50	68	0	0	32	0.90
16098670--16098712	22	2.0	22	85	0	59	16	13	23	46	1.83
16098792--16099020	43	5.3	43	80	2	235	28	26	19	25	1.99
16098796--16099024	87	2.7	87	82	3	257	28	26	19	25	1.99
16099336--16099426	43	2.1	43	83	2	112	43	9	10	35	1.73
16107205--16107337	7	18.7	7	69	11	56	45	33	0	20	1.56
16107206--16107337	14	9.3	14	71	12	81	46	32	0	20	1.56
16107206--16107337	22	6.2	21	75	11	81	46	32	0	20	1.56
16107298--16107466	75	2.3	75	92	0	284	47	27	2	21	1.63
16107433--16107466	14	2.4	14	90	0	50	50	35	0	14	1.44
16107636--16107765	41	3.2	41	89	0	197	30	28	16	23	1.97
16123533--16123586	27	2.0	27	92	0	90	24	24	16	35	1.95
16130607--16130645	20	2.0	20	89	0	60	30	5	15	48	1.66
16130612--16130650	20	2.1	19	86	13	55	30	10	15	43	1.80
16133404--16133473	17	4.1	17	74	17	56	51	0	24	24	1.49
16133447--16133476	6	5.2	6	92	8	53	53	0	30	16	1.44
16133410--16133476	11	5.9	11	79	17	59	52	0	26	20	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16133412--16133476	17	3.8	17	75	16	62	52	0	27	20	1.47
16136299--16136439	41	3.4	41	71	13	128	20	25	27	26	1.99
16140813--16141370	131	4.3	131	83	0	632	33	15	12	38	1.85
16140813--16141370	262	2.1	262	84	0	740	33	15	12	38	1.85
16142507--16142545	20	2.0	20	94	0	69	30	12	10	46	1.75
16142668--16142692	13	1.9	13	100	0	50	44	8	0	48	1.32
16142750--16142824	39	1.9	39	94	0	132	17	28	28	26	1.98
16147088--16147470	47	8.1	47	89	6	580	31	8	30	29	1.87
16147088--16147470	96	4.1	96	92	3	620	31	8	30	29	1.87
16147088--16147470	143	2.7	141	91	4	596	31	8	30	29	1.87
16147589--16147667	37	2.1	37	88	0	113	24	17	31	26	1.97
16149524--16149626	43	2.4	43	100	0	206	22	15	35	26	1.94
16149610--16149681	29	2.5	29	86	4	92	27	16	30	25	1.97
16149992--16150135	40	3.6	40	79	13	145	26	22	27	23	2.00
16150110--16150306	40	4.9	40	90	0	268	24	21	27	25	1.99
16153608--16154133	47	11.1	47	91	5	839	31	8	30	29	1.87
16153608--16154133	96	5.6	95	92	4	852	31	8	30	29	1.87
16154252--16154330	37	2.1	37	88	0	113	24	17	31	26	1.97
16162571--16162623	23	2.4	22	76	20	56	9	18	1	69	1.25
16172667--16172694	2	14.0	2	100	0	56	0	50	0	50	1.00
16183450--16183493	9	4.9	9	78	10	54	54	4	0	40	1.21
16187148--16187236	25	3.6	25	71	13	76	17	26	21	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16187264--16187354	25	3.7	24	76	2	83	26	26	15	31	1.96
16189028--16189266	41	5.8	41	87	6	290	27	20	24	27	1.99
16189038--16189266	123	1.9	123	85	7	322	27	19	24	27	1.99
16196662--16196900	41	5.8	41	87	6	290	27	20	24	27	1.99
16196672--16196900	123	1.9	123	85	7	322	27	19	24	27	1.99
16201636--16201720	42	2.0	42	93	0	143	41	9	17	31	1.82
16202023--16202059	17	2.2	17	90	9	58	24	0	2	72	0.97
16202130--16202215	31	2.7	32	85	5	111	40	6	2	50	1.42
16202161--16202214	15	3.4	17	65	15	51	38	7	3	50	1.48
16208885--16208977	44	2.1	44	84	9	118	34	3	26	35	1.73
16215586--16215793	92	2.3	91	86	3	274	46	4	3	46	1.39
16215722--16215769	24	1.9	25	87	8	71	47	0	2	50	1.12
16215848--16216058	66	3.4	62	69	21	181	42	2	6	48	1.42
16215810--16216102	120	2.4	120	93	3	493	43	2	4	49	1.36
16215935--16215986	15	3.6	15	80	12	56	44	0	1	53	1.11
16216064--16216105	15	2.7	16	82	14	52	45	0	2	52	1.13
16216055--16216096	15	2.9	15	82	10	52	47	0	0	52	1.00
16216039--16216348	157	2.0	157	97	0	584	47	4	3	44	1.39
16216208--16216242	18	2.0	17	88	5	52	45	0	0	54	0.99
16217409--16217453	19	2.3	20	81	11	58	64	2	6	26	1.30
16217717--16217801	10	8.8	10	75	12	70	32	0	2	64	1.06
16217717--16217801	20	4.4	20	79	8	79	32	0	2	64	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16217717--16217787	30	2.4	30	90	4	108	35	0	2	61	1.10
16217717--16217801	9	8.9	9	75	15	73	32	0	2	64	1.06
16219195--16219243	16	3.1	15	82	11	53	61	6	4	28	1.38
16221310--16221347	19	2.0	20	94	5	69	5	0	26	68	1.11
16231544--16231584	21	2.0	21	90	0	64	19	31	24	24	1.98
16232762--16232904	33	4.3	32	75	8	115	28	23	15	32	1.95
16237051--16237094	20	2.2	20	84	4	54	50	6	22	20	1.72
16241374--16241407	17	1.9	18	88	5	52	73	14	0	11	1.10
16242862--16242902	21	2.0	21	95	0	73	36	19	24	19	1.95
16245437--16245492	19	3.0	19	84	2	60	39	1	5	53	1.34
16245467--16245501	18	1.9	18	88	0	52	42	0	5	51	1.25
16247225--16247272	17	2.9	16	76	14	53	18	8	8	64	1.46
16251058--16251241	66	2.8	66	84	5	228	30	17	24	26	1.97
16251012--16251256	66	3.7	66	80	4	226	29	18	24	26	1.98
16267773--16267824	24	2.2	24	89	0	77	57	5	1	34	1.33
16271697--16271746	17	3.2	17	67	21	54	14	10	20	56	1.66
16274937--16275076	32	4.5	31	83	12	148	28	2	16	52	1.58
16274929--16275076	59	2.4	62	81	10	164	28	2	16	52	1.57
16276282--16276353	36	2.0	36	84	10	94	54	8	4	33	1.50
16278013--16278222	68	3.0	69	85	4	264	44	19	9	26	1.81
16279030--16279186	41	3.8	41	87	0	215	33	28	19	18	1.96
16306213--16306243	16	1.9	16	93	0	53	9	0	35	54	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16306491--16306635	48	3.0	47	90	6	236	46	9	1	42	1.45
16314724--16314763	6	6.8	6	94	5	73	67	0	0	32	0.91
16314767--16314804	18	2.1	19	85	5	51	39	7	7	44	1.63
16329737--16329772	15	2.5	15	95	4	65	19	0	0	80	0.71
16330895--16330941	25	1.9	24	82	4	58	38	0	31	29	1.58
16334842--16335090	50	4.8	50	85	4	284	20	29	24	26	1.99
16334841--16335090	100	2.4	104	88	6	357	20	29	24	26	1.99
16335185--16335216	13	2.5	13	94	0	55	56	12	0	31	1.37
16335249--16335380	66	2.0	66	100	0	264	33	22	9	34	1.86
16335494--16335551	30	1.9	30	89	0	89	31	24	3	41	1.71

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