genome.fa.s20.2.7.7.80.10.50.1000.140.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  140  of  199  ( 23844 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)
40904185--40904238	25	2.1	27	83	10	69	59	7	9	24	1.54
40905364--40905537	34	5.1	34	85	0	231	34	31	6	28	1.82
40905778--40905810	13	2.5	13	86	13	50	60	6	0	33	1.21
40905778--40905810	14	2.5	14	90	9	52	60	6	0	33	1.21
40908270--40908347	41	1.9	41	84	5	104	23	16	33	26	1.96
40916553--40916577	9	2.8	9	100	0	50	36	12	12	40	1.79
40916693--40916760	25	2.7	25	88	0	100	27	23	25	23	2.00
40920984--40921059	34	2.2	34	95	0	134	35	7	13	43	1.73
40922582--40922617	18	1.9	18	88	5	54	69	0	16	13	1.19
40923561--40923609	10	4.9	10	80	7	55	20	18	16	44	1.86
40923549--40923609	20	3.0	20	82	0	77	24	18	16	40	1.90
40923672--40923719	20	2.4	20	89	6	71	29	22	14	33	1.94
40925082--40925135	6	9.0	6	80	8	65	77	1	16	3	1.00
40925102--40925153	24	2.2	24	86	6	70	75	5	13	5	1.18
40925214--40925252	18	2.3	18	86	8	55	69	0	17	12	1.19
40927066--40927141	34	2.2	34	92	0	125	36	7	11	43	1.71
40932115--40932162	15	3.3	15	88	5	64	22	4	2	70	1.15
40932212--40932246	11	3.3	10	92	8	52	28	8	0	62	1.24
40941870--40942158	47	6.1	47	93	1	470	28	31	8	30	1.88
40945466--40945509	22	2.0	21	83	12	54	40	0	0	59	0.98
40956409--40956457	24	2.0	24	92	0	80	32	16	10	40	1.82
40959839--40959990	27	5.6	27	92	3	232	30	28	13	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40959839--40960015	55	3.2	55	89	0	246	31	29	12	26	1.93
40962056--40962119	30	2.0	30	85	11	83	10	28	6	54	1.59
40962988--40963125	53	2.6	52	83	4	159	44	18	15	20	1.86
40962988--40963138	27	5.7	26	79	5	149	45	20	15	19	1.86
40963291--40963353	26	2.4	26	89	0	99	19	19	22	39	1.92
40963508--40963565	28	2.1	27	83	3	71	22	22	25	29	1.99
40969788--40969858	35	2.0	36	83	8	92	8	32	7	52	1.59
40970788--40970902	27	4.3	27	88	2	151	46	20	13	20	1.82
40970788--40970915	54	2.4	54	85	2	159	45	21	11	21	1.83
40973354--40973456	26	4.0	26	83	5	84	21	18	22	37	1.94
40979160--40979196	9	4.1	9	92	0	65	45	13	10	29	1.77
40981191--40981323	28	4.8	28	82	3	169	28	21	13	36	1.92
40987800--40988004	35	5.6	35	67	14	119	25	20	21	31	1.98
40987797--40988044	74	3.4	73	84	2	300	24	20	22	32	1.98
41001666--41001709	22	2.0	22	90	0	70	47	6	9	36	1.62
41011389--41011433	19	2.3	19	80	3	54	75	2	17	4	1.07
41013249--41013482	44	5.1	44	71	16	143	32	19	20	26	1.97
41013169--41013541	142	2.6	142	95	0	656	33	18	20	27	1.96
41013400--41013516	44	2.7	44	78	4	112	35	19	17	27	1.95
41031476--41031518	20	2.1	21	83	12	54	60	0	0	39	0.97
41031578--41031638	20	3.0	20	76	9	52	45	3	4	45	1.41
41031895--41031947	20	2.7	20	80	8	63	22	16	9	50	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41032321--41032540	78	2.9	73	71	15	201	21	18	6	53	1.67
41032474--41032566	41	2.3	41	87	5	134	22	16	5	55	1.61
41032347--41032569	98	2.3	96	75	14	206	22	18	5	53	1.66
41032501--41032563	21	3.0	21	76	23	78	23	15	3	57	1.53
41032661--41032739	39	2.1	39	83	6	101	25	18	6	49	1.71
41032315--41032798	20	25.0	20	67	18	163	21	17	8	52	1.71
41032785--41032847	31	2.0	31	87	6	92	15	12	9	61	1.55
41033027--41033068	18	2.5	16	79	20	50	66	2	11	19	1.34
41034576--41035308	247	3.0	246	91	0	1126	31	11	21	35	1.90
41035069--41042403	712	10.5	710	80	7	7689	29	10	20	39	1.86
41040540--41042389	692	2.7	680	82	6	2124	28	10	20	40	1.84
41042722--41042771	19	2.7	19	81	3	57	20	14	6	60	1.55
41042740--41042792	20	2.8	17	76	20	52	15	16	9	58	1.62
41042802--41042868	19	3.5	18	76	11	62	17	16	1	64	1.37
41042790--41042838	21	2.4	21	89	3	73	22	18	2	57	1.51
41042801--41042875	39	1.9	39	84	10	100	16	20	1	62	1.39
41043547--41043586	19	2.0	19	85	9	53	45	5	5	45	1.47
41043552--41043607	20	2.8	19	79	12	60	41	8	3	46	1.52
41043637--41043684	10	4.8	10	82	10	53	60	2	4	33	1.27
41050123--41050170	24	2.0	24	95	0	87	33	4	22	39	1.74
41050520--41050587	31	2.2	30	85	10	93	67	0	1	30	0.99
41053049--41053198	21	7.1	21	67	3	77	41	17	24	16	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41053049--41053203	42	3.7	42	82	3	177	41	16	25	16	1.88
41053049--41053203	84	1.8	84	81	2	195	41	16	25	16	1.88
41055181--41055210	15	2.0	15	100	0	60	60	13	6	20	1.55
41056928--41056994	34	1.9	35	87	3	100	34	7	11	46	1.69
41059393--41059446	25	2.2	24	83	3	63	25	29	12	31	1.93
41059438--41059496	25	2.3	26	77	13	70	32	18	16	32	1.94
41064778--41064815	17	2.2	18	85	4	51	44	2	18	34	1.64
41070466--41070543	40	2.0	39	85	12	106	26	10	11	51	1.70
41073074--41073112	18	2.2	17	86	13	53	46	20	0	33	1.51
41074842--41074901	31	1.9	31	100	0	120	26	21	13	38	1.90
41077419--41077454	16	2.3	15	90	4	54	41	0	0	58	0.98
41079813--41079849	19	2.0	19	89	5	58	78	0	2	18	0.87
41080982--41081024	20	2.2	20	86	0	59	81	2	0	16	0.79
41080981--41081030	26	1.9	26	87	0	73	80	2	0	18	0.82
41081002--41081030	6	4.8	6	100	0	58	86	0	0	13	0.58
41087211--41087362	76	2.0	77	89	1	234	37	4	12	45	1.63
41090076--41090134	30	2.0	30	83	6	77	66	3	3	27	1.24
41090920--41090967	24	2.0	25	87	4	71	20	10	0	68	1.18
41091823--41092053	44	5.2	45	63	8	123	24	26	22	25	2.00
41091842--41092154	88	3.6	88	93	0	536	24	25	23	25	2.00
41092173--41092598	44	9.7	44	83	1	476	23	26	21	29	1.99
41094430--41094656	96	2.4	96	92	2	370	29	30	7	33	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41094430--41094656	47	4.8	49	88	7	342	29	30	7	33	1.85
41098424--41098473	20	2.4	21	90	9	77	14	20	0	66	1.26
41098426--41098473	7	7.0	7	79	11	55	14	18	0	66	1.25
41099317--41099356	20	2.0	20	85	0	53	5	22	0	72	1.04
41099347--41099420	6	12.7	6	81	5	53	12	9	8	70	1.34
41104761--41104809	24	2.0	26	84	8	66	16	10	2	71	1.22
41106063--41106161	46	2.2	46	92	0	162	34	9	8	48	1.64
41108105--41108235	45	2.9	45	89	0	199	35	23	15	25	1.94
41108232--41108427	51	3.9	51	79	3	225	31	27	17	23	1.97
41108239--41108423	101	1.8	101	89	3	291	31	27	17	23	1.97
41113740--41113797	17	3.2	16	79	16	53	48	1	25	24	1.61
41113876--41113935	30	2.0	31	86	3	86	40	0	40	20	1.52
41114228--41114258	9	3.4	9	90	0	53	38	22	12	25	1.90
41141029--41141074	3	15.3	3	86	0	65	4	0	28	67	1.10
41141028--41141074	18	2.6	18	93	0	76	4	0	27	68	1.08
41141268--41141352	45	1.9	44	85	2	116	42	3	2	51	1.31
41141277--41141391	45	2.6	45	80	2	124	40	6	1	51	1.37
41150415--41150446	7	4.6	7	100	0	64	15	0	84	0	0.63
41152388--41152548	40	4.1	40	84	5	202	28	27	18	24	1.98
41152487--41152615	67	1.9	67	93	0	222	27	27	18	26	1.98
41160488--41160648	40	4.1	40	85	5	211	27	27	19	24	1.98
41160587--41160715	67	1.9	67	95	0	231	27	27	19	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41165510--41165770	78	3.3	78	85	5	303	24	21	27	26	1.99
41165510--41165770	40	6.6	40	86	4	298	24	21	27	26	1.99
41165511--41165805	118	2.5	117	80	5	297	25	21	28	25	1.99
41165563--41165805	78	3.1	78	84	4	231	25	20	28	25	1.99
41173304--41173554	40	6.6	37	84	9	251	25	20	29	24	1.99
41173357--41173589	79	3.1	76	81	8	212	26	20	29	23	1.99
41199146--41199186	20	2.0	20	85	0	55	31	12	26	29	1.92
41199896--41199934	20	2.0	20	90	10	62	23	28	10	38	1.87
41215177--41215245	20	3.5	20	77	15	70	26	30	11	31	1.91
41231252--41231329	40	2.0	40	89	0	120	42	15	11	30	1.82

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