genome.fa.s23.2.7.7.80.10.50.1000.40.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: D10
Parameters: 2 7 7 80 10 50 1000
Length:  67973905

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   223   224   
          225   226   227   228   

This is table  40  of  228  ( 27298 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)
12203747--12203792	5	9.4	5	90	4	76	56	0	2	41	1.11
12203750--12203788	19	2.1	19	95	0	69	56	0	2	41	1.13
12203747--12203792	24	1.9	24	95	0	83	56	0	2	41	1.11
12206462--12206506	23	2.0	24	86	8	67	51	8	4	35	1.54
12207042--12207112	31	2.3	29	81	9	79	47	8	5	38	1.57
12207042--12207114	30	2.4	32	84	6	89	47	8	5	38	1.56
12213324--12213404	29	2.8	29	79	7	85	27	14	12	45	1.81
12215601--12215758	78	2.0	78	100	0	316	27	30	1	40	1.64
12215742--12215836	11	8.9	11	71	18	67	23	29	3	44	1.69
12215742--12215836	22	4.5	22	70	20	85	23	29	3	44	1.69
12215804--12215844	11	3.7	12	90	6	52	24	24	4	46	1.72
12217682--12217724	18	2.4	18	88	0	59	18	27	9	44	1.80
12217981--12218026	21	2.2	21	88	0	65	28	41	26	4	1.74
12218287--12219052	229	3.3	230	93	1	1291	43	19	2	34	1.63
12218886--12218911	6	4.3	6	100	0	52	38	46	0	15	1.46
12219541--12219573	15	2.2	15	94	0	57	57	33	0	9	1.30
12219541--12219575	8	4.5	8	89	7	54	57	34	0	8	1.29
12222979--12223022	4	11.0	4	95	0	79	47	27	0	25	1.52
12224864--12225164	151	2.0	151	96	0	548	31	7	17	43	1.77
12226623--12226660	17	2.2	18	86	13	53	44	0	5	50	1.24
12228501--12228545	20	2.1	22	84	12	58	13	11	8	66	1.44
12228888--12228942	21	2.5	22	88	2	85	40	5	16	38	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12229177--12229343	35	4.8	35	86	4	239	18	23	17	40	1.91
12229178--12229343	69	2.4	69	89	3	253	18	23	18	39	1.92
12232132--12232176	20	2.1	22	84	12	58	13	11	8	66	1.44
12235911--12236002	35	2.7	35	86	1	123	18	22	16	42	1.89
12237204--12237282	37	2.1	38	88	2	115	24	16	24	35	1.95
12238020--12238062	21	2.1	20	82	4	50	37	0	20	41	1.53
12240829--12240897	31	2.3	31	97	2	131	40	5	21	31	1.77
12240839--12240906	31	2.2	31	92	2	111	42	2	22	32	1.68
12266523--12266559	18	2.1	18	90	5	58	54	0	24	21	1.45
12272559--12272588	15	2.0	15	100	0	60	20	20	13	46	1.83
12276743--12276802	26	2.3	26	85	0	75	60	6	1	31	1.33
12276809--12276835	4	6.8	4	100	0	54	25	0	0	74	0.83
12277453--12277567	57	2.0	59	80	13	132	48	4	1	45	1.32
12277596--12277667	33	2.3	31	82	4	81	48	2	6	41	1.44
12281939--12282014	39	1.9	39	100	0	152	23	10	26	39	1.87
12282224--12282399	39	4.5	39	82	3	185	17	21	28	32	1.96
12282224--12282399	78	2.2	79	85	5	223	17	21	28	32	1.96
12293602--12293659	31	1.9	31	86	6	84	51	0	17	31	1.45
12305065--12305096	6	5.3	6	96	0	55	18	0	0	81	0.70
12305425--12305679	26	9.8	25	68	13	108	29	7	3	60	1.40
12305522--12305581	28	2.3	27	81	13	72	33	8	0	58	1.28
12305507--12305681	52	3.5	50	75	12	126	29	7	3	60	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12305600--12305679	27	3.0	25	78	12	72	27	6	2	63	1.31
12305600--12305706	50	2.1	51	82	6	128	27	8	3	60	1.42
12306843--12306904	21	3.0	22	79	15	69	16	17	17	48	1.82
12308080--12308117	11	3.5	11	85	7	51	31	0	15	52	1.43
12309122--12309163	20	2.1	20	100	0	84	23	0	35	40	1.55
12312273--12312382	25	4.5	25	79	3	116	30	22	28	18	1.97
12312289--12312457	25	6.8	25	69	11	80	30	21	28	19	1.98
12312532--12312600	24	2.8	24	80	2	66	40	20	24	14	1.90
12318719--12318793	25	3.0	26	84	7	84	33	22	24	20	1.97
12318746--12318897	25	6.1	25	73	10	87	30	20	28	20	1.97
12318977--12319032	23	2.3	23	81	6	58	39	19	21	19	1.93
12319270--12319309	21	1.9	21	84	0	53	45	22	0	32	1.53
12332656--12332683	3	9.3	3	100	0	56	67	0	0	32	0.91
12338454--12338494	19	2.2	19	100	0	82	36	4	14	43	1.67
12338532--12338613	41	2.0	41	100	0	164	29	7	14	48	1.71
12339050--12339119	32	2.2	32	97	2	131	31	18	5	44	1.73
12339506--12339844	170	2.0	169	95	0	615	28	17	13	40	1.88
12342506--12342546	19	2.2	19	95	0	73	36	4	12	46	1.63
12342584--12342662	41	1.9	41	97	0	149	31	5	13	49	1.64
12347220--12347252	13	2.4	14	85	10	50	33	0	0	66	0.92
12349346--12349511	85	2.0	85	100	0	332	49	14	8	27	1.72
12357016--12357078	28	2.2	30	83	13	80	41	1	1	55	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12357668--12358104	125	3.5	124	89	2	644	27	18	23	30	1.98
12361262--12361321	21	2.8	20	80	9	66	28	0	30	41	1.56
12361287--12361357	28	2.5	28	81	6	99	21	0	35	43	1.53
12361311--12361483	22	8.5	20	72	19	103	19	0	30	49	1.49
12361312--12361448	22	6.4	22	78	8	115	18	0	31	49	1.48
12361290--12361449	7	22.4	7	65	22	57	20	0	31	48	1.50
12361364--12361427	15	4.4	15	73	15	53	18	0	29	51	1.47
12361374--12361428	28	1.9	29	88	3	85	20	0	29	50	1.48
12361418--12361463	15	3.0	15	83	3	56	21	0	28	50	1.49
12361404--12361525	34	3.5	35	81	10	126	27	0	27	45	1.54
12361502--12361582	22	3.7	22	71	11	69	27	1	23	48	1.59
12361544--12361799	22	12.1	21	69	14	93	22	0	30	47	1.52
12361631--12361705	19	4.2	19	73	16	61	21	0	34	44	1.53
12361543--12361689	22	7.0	21	72	9	102	23	0	29	46	1.52
12361644--12361712	34	2.0	34	83	5	86	21	0	33	44	1.53
12361723--12361799	22	3.5	22	79	8	95	20	0	29	49	1.49
12362971--12363003	7	4.7	7	100	0	66	57	15	0	27	1.38
12364249--12364284	11	3.2	11	88	4	54	41	0	36	22	1.54
12364880--12364916	9	4.1	9	92	0	65	45	13	10	29	1.77
12365126--12365184	30	1.9	31	83	10	77	20	38	0	40	1.53
12369016--12369067	26	2.0	26	100	0	104	50	19	0	30	1.48
12383460--12383497	15	2.5	16	83	12	53	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12383650--12383698	14	3.4	14	83	5	62	55	2	10	32	1.45
12383645--12383683	14	2.7	15	88	8	62	51	0	15	33	1.44
12397641--12397692	21	2.6	19	70	21	52	26	25	28	19	1.98
12399110--12399149	20	2.0	21	90	5	64	77	2	5	15	1.04
12402727--12402784	30	1.9	30	86	6	82	27	1	1	68	1.08
12417996--12418070	31	2.5	29	77	12	89	28	1	1	69	1.05
12418527--12418591	34	1.9	34	100	0	130	50	16	3	29	1.60
12423067--12423233	59	2.8	59	82	4	187	35	5	8	49	1.57
12426594--12426666	29	2.5	29	77	2	83	30	20	5	43	1.74
12426701--12426755	29	1.9	29	88	3	85	40	18	0	41	1.50
12428807--12429465	332	2.0	332	100	0	1318	28	15	17	38	1.91
12430545--12430612	33	2.1	33	97	0	127	35	10	17	36	1.84
12432687--12432718	6	5.3	6	96	0	55	62	0	37	0	0.95
12443431--12443673	129	1.9	129	88	1	371	42	18	14	23	1.87
12445426--12445466	12	3.6	12	74	12	50	58	0	0	41	0.98
12445422--12445477	22	2.5	22	100	0	112	62	0	0	37	0.95
12452262--12452462	62	3.2	62	96	0	375	25	16	17	39	1.91
12453040--12453072	17	1.9	17	93	0	57	33	24	6	36	1.80
12453085--12453148	32	2.0	31	81	3	74	50	9	10	29	1.69
12461608--12461645	19	2.0	19	89	0	58	31	10	31	26	1.90
12466063--12466214	41	3.7	41	84	5	182	28	20	28	22	1.98
12466411--12466472	31	2.1	28	85	11	81	29	8	25	37	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12466411--12466530	37	3.5	36	86	12	150	28	9	27	35	1.87
12467877--12467909	17	1.9	18	88	11	52	48	0	9	42	1.35
12468612--12468967	184	1.9	184	83	9	460	36	1	37	24	1.63
12471983--12472068	45	1.9	45	87	0	127	44	13	19	22	1.86
12472109--12472340	74	3.1	74	86	2	331	33	14	21	30	1.93
12472354--12472443	27	3.3	27	84	0	117	40	17	22	20	1.92
12472354--12472464	27	4.1	26	78	6	105	38	17	25	18	1.92
12487106--12487138	12	2.8	12	90	4	50	12	0	6	81	0.85
12487105--12487154	18	2.8	18	79	8	59	16	2	4	78	1.00
12489668--12489792	64	2.0	64	84	6	164	31	23	33	12	1.91

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   223   224   
          225   226   227   228