genome.fa.s25.2.7.7.80.10.50.1000.103.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  103  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)
30447037--30447226	54	3.5	54	84	5	231	39	18	15	26	1.90
30447040--30447182	27	5.3	27	88	3	207	41	17	15	25	1.89
30447350--30447401	27	1.9	27	88	7	79	17	25	23	34	1.96
30457569--30457729	40	4.0	40	88	0	214	44	26	14	14	1.84
30464740--30464807	27	2.5	26	95	2	91	32	27	11	27	1.92
30464740--30464835	28	3.4	28	89	2	131	32	28	12	27	1.93
30478942--30478993	23	2.4	21	83	6	59	61	5	3	28	1.37
30482812--30482855	22	2.0	22	95	0	79	34	18	11	36	1.86
30483316--30483357	21	2.0	21	90	0	66	52	23	4	19	1.65
30483210--30483486	138	2.0	138	94	0	482	43	22	12	21	1.86
30490342--30490374	17	2.0	17	88	5	50	51	0	0	48	1.00
30491332--30491709	41	10.2	38	65	26	134	32	0	12	54	1.42
30491332--30491833	49	10.6	46	75	14	375	32	0	13	53	1.44
30491481--30491785	27	12.8	24	76	19	286	31	0	12	54	1.45
30491460--30491764	90	3.3	89	84	10	416	31	0	12	54	1.44
30491617--30491709	22	4.6	19	75	15	78	33	1	11	53	1.44
30491715--30491764	22	2.5	19	76	17	55	32	2	14	52	1.53
30491337--30491709	19	20.2	19	67	21	147	32	0	12	54	1.42
30491981--30492062	38	2.2	38	95	0	146	53	3	2	40	1.32
30493221--30493270	6	8.3	6	88	0	73	30	36	34	0	1.58
30495598--30495624	12	2.2	12	100	0	54	51	7	0	40	1.30
30496107--30496284	27	6.6	27	82	3	196	27	15	27	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30496108--30496263	82	1.9	81	86	3	224	27	15	27	29	1.96
30496104--30496284	82	2.2	81	82	2	220	27	15	27	29	1.96
30496189--30496295	27	3.9	27	85	1	70	26	14	28	30	1.95
30503689--30503715	12	2.2	12	100	0	54	51	7	0	40	1.30
30504132--30504309	27	6.6	27	82	6	198	27	15	28	29	1.96
30504133--30504288	82	1.9	81	87	6	226	27	15	28	28	1.96
30504129--30504309	82	2.2	81	82	4	222	27	15	27	29	1.96
30511393--30511554	43	3.8	43	88	0	245	22	18	31	27	1.97
30515269--30515506	43	5.6	43	89	5	349	16	36	31	15	1.90
30515269--30515506	85	2.8	85	89	3	363	16	36	31	15	1.90
30516270--30516327	20	2.9	20	81	0	71	32	36	13	17	1.89
30519326--30519487	42	3.9	42	83	4	184	31	27	13	27	1.94
30521166--30521287	41	2.9	42	75	10	124	30	15	27	27	1.96
30523953--30524075	45	2.7	45	82	2	158	32	28	16	22	1.96
30532439--30532526	45	2.0	45	86	0	122	34	27	14	23	1.94
30533368--30533422	25	2.2	26	78	15	62	40	7	1	50	1.40
30536519--30536571	18	2.8	20	77	11	65	33	9	16	39	1.81
30536503--30536572	19	3.7	19	75	11	72	32	8	17	41	1.79
30543253--30543351	52	1.9	50	86	8	137	40	16	13	30	1.86
30564905--30564929	13	1.9	13	100	0	50	16	4	16	64	1.44
30566681--30566762	23	3.5	23	81	6	94	39	15	21	23	1.92
30573707--30573764	29	2.0	29	100	0	116	27	27	0	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30580099--30580145	21	2.3	21	82	10	53	14	4	10	70	1.31
30584011--30584037	12	2.2	12	100	0	54	40	7	18	33	1.78
30601563--30601589	12	2.2	12	100	0	54	51	7	0	40	1.30
30602071--30602196	27	4.6	27	86	2	171	26	15	27	30	1.96
30606761--30606815	22	2.5	21	80	11	65	0	32	1	65	1.03
30606763--30606807	22	2.1	21	91	4	72	0	33	2	64	1.06
30606873--30607001	27	4.8	26	84	5	159	26	35	18	19	1.95
30606893--30606998	53	2.0	54	90	1	169	27	37	17	16	1.92
30606887--30607001	27	4.3	27	88	3	160	27	35	19	17	1.94
30610332--30610401	23	3.2	23	66	22	69	47	5	21	25	1.73
30610317--30610401	42	2.0	42	100	0	170	50	4	21	23	1.67
30610323--30610388	19	3.3	19	66	22	53	50	4	21	24	1.67
30618472--30618569	48	2.0	48	92	0	160	23	30	12	33	1.91
30623884--30623996	43	2.6	43	92	1	190	34	25	15	24	1.94
30629484--30629521	17	2.3	17	95	4	69	47	5	18	28	1.70
30633929--30633965	15	2.3	17	86	9	51	51	10	0	37	1.37
30640231--30640367	65	2.1	65	100	0	274	37	8	26	27	1.86
30644195--30644232	19	2.0	20	89	5	60	31	15	7	44	1.75
30648718--30648957	50	4.7	50	81	6	243	22	27	21	28	1.99
30663246--30663300	22	2.3	25	84	12	71	50	0	7	41	1.30
30667622--30667697	29	2.6	29	84	15	104	15	28	1	53	1.50
30674152--30674205	25	2.2	25	86	6	74	66	9	11	12	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30676776--30677098	97	3.3	96	76	12	318	20	32	19	27	1.97
30676765--30677098	50	6.8	50	81	3	383	20	32	19	27	1.97
30676766--30677098	147	2.3	147	89	0	495	20	32	19	27	1.97
30681225--30681480	141	1.8	141	98	0	494	32	22	14	30	1.94
30682856--30683042	50	3.8	48	80	4	205	19	31	21	27	1.98
30682856--30683037	97	1.8	97	84	3	247	19	30	20	28	1.97
30692164--30692192	14	2.1	14	93	6	51	68	0	13	17	1.20
30694068--30694107	21	2.0	21	85	5	55	15	32	7	45	1.74
30697495--30698353	279	3.1	279	97	1	1594	52	5	7	34	1.52
30698332--30698370	14	2.8	14	92	0	60	64	0	2	33	1.08
30699966--30700078	44	2.6	44	77	5	122	23	25	23	26	2.00
30699879--30700335	217	2.1	216	85	4	600	28	24	19	27	1.99
30700321--30700939	128	4.8	128	93	1	954	25	23	18	32	1.97
30703121--30703170	16	2.8	19	73	17	52	6	10	10	74	1.23
30707808--30707855	23	2.1	22	85	11	62	60	6	0	33	1.22
30728822--30728859	15	2.4	16	91	4	60	63	5	2	28	1.30
30730516--30730660	58	2.5	58	87	0	191	20	26	11	41	1.86
30746215--30746326	50	2.2	50	80	0	125	26	24	22	26	2.00
30746228--30746769	267	2.0	267	87	0	769	27	21	25	25	1.99
30748408--30748474	30	2.3	28	82	12	82	28	2	1	67	1.14
30748415--30748470	15	3.9	14	75	9	58	28	3	1	66	1.19
30753126--30753250	62	2.0	62	90	0	196	33	6	13	46	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30756378--30756426	25	1.9	26	83	4	64	22	12	6	59	1.55
30758395--30758430	5	7.2	5	87	0	54	75	0	22	2	0.94
30758395--30758437	10	4.4	10	83	13	54	74	0	23	2	0.93
30758390--30758430	20	2.0	20	90	0	64	73	0	19	7	1.07
30759141--30759166	5	5.2	5	100	0	52	42	19	19	19	1.90
30760190--30760226	9	4.1	9	89	0	56	29	8	13	48	1.71
30760742--30760777	11	3.5	11	78	21	51	58	0	5	36	1.22
30760708--30760776	20	3.5	20	80	11	70	50	7	4	37	1.50
30760743--30760782	19	2.1	19	100	0	80	62	0	5	32	1.17
30762434--30762463	15	2.0	15	100	0	60	66	6	6	20	1.38
30763872--30763922	23	2.3	22	80	6	66	54	7	5	31	1.53
30763959--30764000	3	13.7	3	90	5	66	69	0	0	30	0.89
30764248--30764704	229	2.0	229	99	0	905	40	17	14	27	1.88
30764678--30764746	19	3.8	19	83	7	83	36	14	8	40	1.77
30764846--30764877	14	2.4	14	94	5	57	15	0	6	78	0.95
30770161--30770338	27	6.6	27	84	3	205	29	28	15	26	1.96
30770182--30770337	82	1.9	81	88	3	233	29	28	15	26	1.96
30777320--30777510	51	3.7	50	83	5	213	35	14	25	25	1.93
30777320--30777510	102	1.9	102	85	4	269	35	14	25	25	1.93
30778815--30778882	30	2.3	30	89	0	100	42	14	25	17	1.87
30781290--30781319	13	2.3	13	94	0	51	53	6	10	30	1.60
30783191--30783380	92	2.1	92	85	2	256	31	15	14	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30789804--30789884	18	4.4	18	71	18	60	61	3	4	29	1.34
30789983--30790015	15	2.3	15	94	5	59	63	0	0	36	0.95
30791517--30791588	11	6.1	11	77	19	65	44	2	2	50	1.31
30798181--30798285	48	2.2	48	89	0	165	40	19	20	20	1.91
30802586--30802641	13	4.4	12	82	10	58	64	0	19	16	1.29
30808216--30808271	13	4.4	12	82	10	58	64	0	19	16	1.29
30824293--30824365	26	2.9	26	83	4	87	20	20	20	38	1.94
30836840--30836934	44	2.2	43	84	7	120	32	5	10	51	1.59
30836862--30836951	44	2.0	44	100	0	180	26	6	11	55	1.59
30837339--30837379	20	2.0	20	100	0	82	31	24	4	39	1.76

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