genome.fa.s15.2.7.7.80.10.50.1000.128.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: D02
Parameters: 2 7 7 80 10 50 1000
Length:  70731513

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   215   216   217   218   219   220   221   222   

This is table  128  of  222  ( 26535 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)
41406672--41406718	24	1.9	25	83	12	62	38	19	10	31	1.86
41411275--41411462	51	3.7	49	83	6	200	26	15	27	30	1.96
41419127--41419173	5	9.4	5	100	0	94	80	0	0	19	0.70
41420772--41420807	18	2.0	18	100	0	72	50	0	0	50	1.00
41422174--41422209	18	2.1	17	89	5	54	38	8	16	36	1.79
41429966--41430736	47	16.3	47	94	1	1317	29	29	8	32	1.87
41430016--41430094	25	3.3	25	66	16	76	31	29	5	34	1.79
41437337--41437656	157	2.0	157	95	0	577	28	26	13	31	1.94
41453384--41453418	18	1.9	18	88	0	52	8	25	34	31	1.86
41457049--41457108	17	3.4	18	90	6	97	70	1	20	8	1.22
41466872--41467175	47	6.4	47	89	3	398	33	9	29	27	1.88
41470422--41470526	39	2.6	39	86	5	122	24	22	27	24	2.00
41470385--41470526	40	3.6	40	80	12	150	24	22	28	24	2.00
41470385--41470532	79	1.9	80	81	7	185	25	22	28	23	1.99
41470751--41470918	47	3.6	47	100	0	336	33	7	29	30	1.84
41477499--41477536	2	19.0	2	100	0	76	0	0	50	50	1.00
41478897--41478971	35	2.1	35	81	13	84	22	4	6	66	1.32
41480577--41480619	6	7.5	6	86	2	54	16	0	4	79	0.90
41480577--41480619	18	2.5	17	88	7	61	16	0	4	79	0.90
41488912--41489010	39	2.4	41	80	14	116	36	4	6	53	1.45
41489901--41489983	20	4.2	20	72	20	66	54	1	6	38	1.33
41489900--41489994	10	9.4	10	69	17	54	56	1	6	35	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41489902--41490015	30	3.7	31	73	10	83	60	0	5	33	1.25
41489966--41490016	10	5.0	10	83	4	66	72	0	3	23	1.01
41489981--41490028	10	4.4	11	89	10	64	75	0	8	16	1.04
41490755--41490800	23	2.0	23	87	8	67	43	6	0	50	1.28
41490757--41490806	23	2.2	23	82	7	57	40	8	2	50	1.43
41490921--41490979	28	2.1	29	87	3	84	54	11	6	27	1.62
41492094--41492119	4	6.5	4	100	0	52	26	0	0	73	0.84
41496162--41496714	89	6.3	88	68	16	312	29	24	18	27	1.98
41496162--41496716	44	12.7	45	70	15	253	29	24	18	27	1.98
41496035--41496740	217	3.3	217	95	0	1268	29	24	18	27	1.98
41496739--41496859	44	2.7	45	78	15	135	27	24	19	28	1.98
41496596--41496883	143	2.0	143	95	0	513	26	26	19	27	1.99
41508709--41508747	15	2.6	15	84	15	62	58	5	7	28	1.47
41511905--41511964	30	2.0	30	100	0	120	13	3	36	46	1.60
41513231--41513279	20	2.5	20	89	0	71	30	6	8	55	1.54
41523767--41523888	23	5.3	23	90	2	192	23	21	25	29	1.99
41524091--41524138	23	2.0	25	84	8	64	39	0	22	37	1.55
41525725--41525767	17	2.4	18	80	11	52	13	20	44	20	1.86
41526047--41526160	27	4.3	27	86	4	153	35	17	21	26	1.95
41526234--41526328	24	4.0	24	87	0	127	26	5	24	44	1.75
41526292--41526362	24	3.0	23	82	12	72	26	8	18	46	1.77
41526429--41526493	27	2.4	27	83	14	82	21	24	21	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41526447--41526499	27	2.0	27	85	7	72	24	26	18	30	1.98
41526523--41526730	32	6.5	32	78	5	215	19	21	22	36	1.95
41526508--41526730	64	3.5	64	93	0	365	19	21	22	36	1.95
41526985--41527072	28	3.0	29	86	5	108	22	22	25	29	1.99
41526976--41527058	28	3.0	28	90	0	121	19	22	26	31	1.98
41528490--41528518	15	1.9	15	100	0	58	82	3	13	0	0.79
41528490--41528528	20	1.9	21	89	5	62	79	2	17	0	0.84
41539262--41539296	7	5.1	7	93	6	63	71	0	0	28	0.86
41542140--41542168	5	5.8	5	100	0	58	82	0	0	17	0.66
41544260--41544407	28	5.3	28	76	3	154	31	24	17	26	1.97
41544236--41544406	56	3.1	56	83	1	193	31	23	18	26	1.97
41547603--41547694	49	2.0	47	82	8	116	29	13	9	47	1.74
41547722--41547751	13	2.3	13	94	0	51	73	16	0	10	1.09
41548008--41548053	18	2.5	18	82	3	56	17	54	23	4	1.61
41548008--41548048	19	2.2	19	86	4	57	17	53	24	4	1.63
41549002--41549040	3	13.0	3	84	10	53	30	5	0	64	1.15
41549086--41549128	23	1.9	22	86	13	61	25	2	4	67	1.22
41559910--41559962	16	3.3	15	78	17	52	52	1	1	43	1.23
41559910--41559959	18	2.8	17	82	8	55	52	2	2	44	1.24
41560394--41560425	8	4.0	8	100	0	64	50	0	0	50	1.00
41562943--41562983	21	2.0	21	85	0	55	34	9	12	43	1.75
41562865--41563051	100	1.9	101	82	5	236	35	18	9	36	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41562964--41563139	80	2.2	81	83	6	221	39	16	8	35	1.79
41563802--41563833	6	5.3	6	100	0	64	50	0	0	50	1.00
41564215--41564260	19	2.3	19	85	7	56	50	2	0	47	1.13
41564510--41564576	11	5.9	11	75	17	66	56	1	2	38	1.24
41564504--41564576	24	3.1	24	77	16	73	56	1	4	38	1.27
41564903--41564945	19	2.3	19	81	14	54	39	0	0	60	0.97
41564908--41564967	21	2.7	23	77	17	63	35	1	3	60	1.23
41564921--41564993	31	2.2	32	77	13	78	36	1	4	57	1.26
41569573--41569640	33	2.1	33	97	0	127	33	14	17	33	1.91
41572974--41573020	24	2.0	24	100	0	94	40	4	12	42	1.63
41578677--41578967	47	6.2	46	86	2	339	41	19	13	25	1.88
41578668--41578967	70	4.3	71	88	1	349	41	19	13	26	1.88
41578677--41578967	117	2.5	117	91	1	458	41	19	13	25	1.88
41579743--41579857	44	2.7	43	74	14	119	27	29	19	23	1.98
41583499--41583562	18	3.5	18	67	12	58	32	17	25	25	1.96
41583498--41583572	37	2.0	37	94	0	132	33	17	22	26	1.96
41589565--41589619	27	2.0	27	82	0	65	20	12	14	52	1.73
41589861--41589894	3	11.3	3	87	0	50	73	0	26	0	0.83
41590242--41590380	36	3.9	36	82	1	136	20	8	21	49	1.75
41591061--41591114	21	2.4	22	81	12	65	14	11	40	33	1.82
41591080--41591176	21	4.6	21	72	10	72	18	11	35	35	1.87
41591841--41591895	28	2.0	28	88	0	83	49	14	5	30	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41591833--41592212	205	1.9	203	86	5	550	45	25	6	22	1.77
41595568--41595630	25	2.6	25	76	2	74	33	22	25	19	1.97
41595703--41595762	26	2.3	26	88	8	88	40	20	25	15	1.90
41596208--41596250	21	2.0	21	90	0	68	37	16	2	44	1.60
41597463--41597577	18	6.5	18	81	7	85	62	16	6	14	1.51
41597469--41597500	16	2.0	16	93	0	55	59	25	3	12	1.48
41597489--41597602	6	19.0	6	87	3	131	61	13	7	18	1.54
41597607--41597644	16	2.3	16	95	4	67	57	23	0	18	1.40
41598169--41598304	50	2.7	50	90	1	218	28	13	22	35	1.92
41598439--41598570	66	2.0	66	83	4	167	43	0	3	53	1.21
41598462--41598570	34	3.3	32	77	10	112	41	0	3	54	1.24
41598462--41598546	32	2.6	34	81	7	104	41	0	4	54	1.21
41602385--41602554	84	2.0	85	90	4	272	28	21	19	30	1.97
41605616--41605646	16	1.9	16	100	0	62	51	9	0	38	1.35
41609004--41609034	15	2.1	15	100	0	62	19	41	25	12	1.87
41622775--41622835	27	2.3	27	82	0	68	37	16	19	26	1.93
41629030--41629328	32	9.4	32	77	3	271	36	23	21	19	1.95
41629031--41629331	64	4.7	64	83	4	340	35	23	21	19	1.95
41629333--41629384	26	2.0	26	84	0	68	38	26	19	15	1.91
41629500--41629557	24	2.4	25	85	5	84	46	24	8	20	1.78
41629622--41629963	27	12.7	27	84	2	366	26	20	19	34	1.96
41629618--41629974	54	6.6	54	84	2	405	25	20	20	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41630427--41630556	63	2.1	63	100	0	260	43	26	9	20	1.82
41642101--41642161	30	2.0	31	93	3	106	24	22	26	26	2.00
41642263--41642343	26	3.1	26	85	7	110	39	23	19	17	1.92
41642490--41642792	27	11.2	26	75	7	214	20	16	20	42	1.89
41643493--41643534	12	3.5	12	78	12	50	21	40	0	38	1.53
41643488--41643534	24	1.9	24	91	4	76	25	36	0	38	1.56
41644973--41645079	26	4.1	26	86	4	144	40	24	18	16	1.91
41645197--41645325	27	4.8	25	77	12	75	23	20	18	37	1.94
41645213--41645577	27	13.6	28	78	10	184	20	16	21	41	1.91
41645230--41645577	54	6.5	54	79	3	328	19	17	21	41	1.90

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   215   216   217   218   219   220   221   222