genome.fa.s25.2.7.7.80.10.50.1000.44.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  44  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)
12119658--12119749	13	7.2	13	71	11	82	56	7	5	30	1.50
12120982--12121031	23	2.1	24	88	3	75	8	0	14	78	0.97
12120997--12121035	19	2.1	18	86	13	53	10	0	10	79	0.94
12122585--12122627	18	2.4	17	81	14	50	20	0	30	48	1.50
12124922--12124969	18	2.8	17	73	17	53	35	8	29	27	1.86
12125056--12125141	41	2.1	41	100	0	172	55	2	11	30	1.48
12128153--12128208	15	4.1	15	71	21	50	55	0	0	44	0.99
12128155--12128227	25	2.9	25	83	2	92	58	1	0	39	1.06
12131170--12131507	44	7.8	44	69	6	134	28	24	18	28	1.98
12132809--12132860	14	3.6	14	80	14	61	15	13	0	71	1.15
12150484--12150525	3	14.0	3	89	0	66	66	0	2	30	1.04
12156023--12156068	24	2.0	24	86	4	67	6	17	30	45	1.73
12159107--12159210	42	2.5	42	81	6	113	15	24	17	43	1.87
12159931--12159955	13	1.9	13	100	0	50	32	4	24	40	1.73
12161610--12161796	41	4.6	41	87	2	234	24	16	27	32	1.96
12169075--12169220	41	3.6	41	84	5	154	24	16	27	31	1.96
12171731--12171759	15	1.9	15	100	0	58	51	0	6	41	1.28
12173900--12173950	23	2.2	23	89	0	75	54	23	5	15	1.63
12175114--12175308	10	20.7	9	67	20	71	61	4	2	32	1.28
12175108--12175202	18	5.1	19	73	12	72	61	5	1	32	1.25
12175120--12175203	29	3.0	29	83	10	77	59	4	1	34	1.26
12175261--12175311	17	2.8	18	77	19	61	66	1	1	29	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12175619--12175691	19	3.8	19	96	0	137	36	9	16	36	1.81
12175981--12176011	7	4.4	7	91	0	53	12	0	3	83	0.75
12176009--12176057	21	2.3	22	85	3	64	28	0	4	67	1.09
12176717--12176753	13	2.7	14	84	16	51	21	5	5	67	1.31
12178307--12178356	25	2.0	25	92	0	82	34	18	6	42	1.74
12179356--12179394	20	2.0	20	94	0	69	48	2	0	48	1.15
12181430--12181493	19	3.3	19	87	8	92	40	9	12	37	1.75
12181431--12181506	21	3.7	21	91	3	111	42	10	10	36	1.74
12181955--12181988	12	2.8	12	95	0	59	20	0	0	79	0.73
12182271--12182382	51	2.2	52	80	6	131	32	6	6	55	1.50
12187265--12187298	15	2.3	15	90	10	52	76	2	20	0	0.92
12187270--12187315	22	2.0	21	84	12	56	73	4	21	0	1.00
12188575--12188979	44	9.2	44	65	12	152	32	18	22	26	1.97
12188533--12188945	132	3.1	132	91	2	668	30	18	24	26	1.98
12188710--12189176	220	2.1	220	87	1	677	32	18	22	26	1.97
12188867--12189002	44	3.1	44	70	14	127	36	13	21	28	1.92
12188856--12189033	88	2.0	88	91	2	286	33	16	22	27	1.95
12189255--12189415	44	3.8	44	73	11	129	26	21	24	27	1.99
12189712--12189775	19	3.3	19	89	8	101	39	9	14	37	1.78
12189713--12189788	21	3.7	21	92	3	120	40	10	11	36	1.76
12190232--12190269	15	2.6	15	83	4	51	26	0	2	71	1.00
12190226--12190285	12	4.6	13	80	16	54	30	1	1	66	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12192259--12192308	6	8.2	6	86	2	64	36	0	62	2	1.07
12192265--12192316	12	4.3	12	87	0	50	36	0	61	1	1.07
12193934--12194029	10	10.2	10	73	13	62	33	0	4	62	1.14
12193909--12194027	38	3.2	37	73	12	109	33	0	4	61	1.21
12193930--12193988	27	2.2	27	81	0	73	28	0	3	67	1.06
12193945--12193993	18	2.8	17	76	11	55	26	0	4	69	1.06
12193963--12194042	29	2.9	27	75	15	72	31	1	5	62	1.24
12193962--12194019	30	2.0	30	89	3	91	31	0	3	65	1.09
12193974--12194042	29	2.5	27	82	13	86	33	1	5	59	1.30
12198588--12198712	10	12.3	10	78	17	100	56	0	0	42	1.04
12198586--12198690	28	3.9	28	74	18	82	57	0	0	42	0.99
12198585--12198690	9	11.0	9	77	11	70	56	0	0	43	0.99
12198585--12198713	11	12.8	10	77	17	92	55	0	0	44	1.05
12198597--12198722	40	3.2	39	88	4	182	57	0	0	41	1.04
12203621--12203689	27	2.5	26	86	4	84	18	34	28	17	1.94
12203752--12203825	5	15.4	5	73	6	55	66	0	33	0	0.92
12203748--12203857	43	2.6	41	86	11	161	68	0	31	0	0.90
12203796--12203958	10	15.6	10	71	13	64	69	0	30	0	0.88
12203825--12203891	25	2.9	22	70	14	53	67	0	32	0	0.91
12203745--12203962	46	4.7	43	73	22	140	68	0	31	0	0.90
12203792--12203940	54	2.8	54	97	2	282	68	0	31	0	0.90
12204351--12204924	284	2.0	283	94	1	1017	51	6	10	31	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12208617--12208682	27	2.4	27	92	0	105	15	30	33	21	1.94
12213820--12213865	4	11.0	4	90	9	74	23	4	0	71	1.03
12213822--12213878	26	2.2	26	81	6	62	29	7	1	61	1.32
12224303--12224329	14	1.9	14	100	0	54	33	7	22	37	1.82
12224319--12224356	20	1.9	20	88	0	58	28	13	13	44	1.81
12224443--12224519	20	3.8	20	73	13	86	36	3	1	58	1.25
12224535--12224570	18	2.0	18	88	0	54	61	8	0	30	1.26
12226809--12226854	21	2.1	22	96	4	85	47	4	28	19	1.68
12240198--12240274	38	2.0	38	100	0	154	27	28	18	25	1.98
12245902--12246038	63	2.2	63	97	0	256	36	16	12	34	1.87
12249041--12249088	3	16.0	3	100	0	96	33	33	0	33	1.58
12252532--12252610	26	3.0	24	70	15	68	58	5	1	35	1.28
12256048--12256084	18	2.0	19	89	5	58	35	0	43	21	1.53
12259184--12259242	20	3.0	20	73	9	57	37	22	25	15	1.93
12259634--12260580	324	2.9	323	94	0	1617	35	19	5	39	1.75
12265169--12265202	16	2.1	16	88	0	50	26	2	0	70	1.01
12266168--12266205	20	2.0	20	89	5	60	47	7	0	44	1.32
12266223--12266266	20	2.4	18	82	14	54	50	2	4	43	1.35
12266182--12266312	68	1.9	68	85	3	183	51	4	2	41	1.35
12267431--12267473	16	2.7	16	88	0	68	51	9	20	18	1.74
12269083--12269118	18	2.0	18	88	0	54	16	33	38	11	1.84
12275411--12275590	51	3.6	50	78	9	170	23	16	27	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12275512--12275592	26	3.2	26	65	28	73	22	13	29	34	1.92
12275597--12275686	46	2.0	44	82	8	110	24	16	25	33	1.96
12275816--12275847	16	2.0	16	93	0	55	59	0	15	25	1.36
12280693--12280777	25	3.5	24	73	19	77	24	15	27	32	1.95
12280665--12280795	50	2.6	50	84	1	174	26	13	25	34	1.93
12288789--12289186	147	2.7	149	85	5	520	41	4	10	42	1.59
12288787--12289270	147	3.3	147	80	8	504	42	4	10	42	1.59
12291654--12291703	25	2.0	25	100	0	100	20	28	4	48	1.67
12301050--12301094	4	11.2	4	80	0	54	20	31	2	46	1.62
12306265--12306393	42	3.1	41	81	6	143	20	18	23	37	1.94
12306400--12306430	16	1.9	16	93	0	53	22	19	6	51	1.69
12307170--12307777	147	4.1	148	87	7	795	42	5	9	42	1.60
12307647--12307691	20	2.2	20	88	0	63	46	2	8	42	1.47
12308195--12308235	6	6.3	6	89	10	55	19	0	14	65	1.26
12308197--12308235	13	2.9	13	88	7	60	20	0	15	64	1.30
12310135--12310185	16	2.8	19	67	27	56	50	11	0	37	1.39
12310127--12310691	112	5.1	112	95	0	1008	44	7	7	40	1.62
12310127--12310691	223	2.5	223	95	0	1006	44	7	7	40	1.62
12310701--12310762	22	2.7	23	87	5	81	46	3	0	50	1.17
12310686--12310718	16	2.1	16	100	0	66	48	6	0	45	1.27
12311109--12311155	24	1.9	24	83	12	60	31	6	6	55	1.51
12311179--12311235	10	5.4	10	80	12	69	19	7	1	71	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12311179--12311235	21	2.6	22	89	8	82	19	7	1	71	1.17
12316019--12316242	79	2.8	78	84	6	281	25	27	22	24	2.00
12316019--12316242	40	5.7	40	87	6	280	25	27	22	24	2.00
12318109--12318141	17	2.0	17	88	5	50	48	0	0	51	1.00
12318429--12318471	20	2.2	20	84	12	54	16	23	18	41	1.89
12319292--12319369	28	2.8	26	77	22	70	46	1	1	51	1.17
12320346--12320413	22	3.1	21	73	12	66	16	26	17	39	1.90
12320503--12320561	31	1.9	31	89	0	91	52	3	20	23	1.61
12323282--12323347	20	3.2	20	75	14	62	51	4	0	43	1.22
12323282--12323324	19	2.2	20	87	4	61	53	6	0	39	1.28

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