genome.fa.s25.2.7.7.80.10.50.1000.45.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  45  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)
12323313--12323395	19	4.8	18	70	21	61	53	1	1	44	1.16
12323342--12323383	21	2.1	20	86	8	59	66	2	2	28	1.16
12326223--12326325	50	2.1	50	92	0	170	26	14	33	26	1.95
12339950--12340000	11	4.8	11	75	18	54	39	31	0	29	1.57
12339939--12340000	20	2.9	22	79	13	67	38	30	0	30	1.58
12339938--12340007	11	6.7	10	76	14	52	34	31	0	34	1.58
12344754--12344787	13	2.6	14	90	9	54	41	32	0	26	1.56
12345179--12345251	31	2.4	31	100	0	146	24	28	5	41	1.77
12345861--12345928	35	1.9	35	90	0	109	30	11	13	44	1.79
12355907--12355981	23	3.3	23	96	0	132	33	25	21	20	1.97
12357614--12357677	25	2.5	25	78	12	69	20	15	3	60	1.48
12362439--12362922	50	9.7	50	70	1	333	28	22	26	22	1.99
12362460--12363049	100	5.9	100	89	0	770	27	21	25	24	1.99
12362511--12362984	50	9.5	49	68	3	246	29	22	25	22	1.99
12365572--12365650	13	6.1	13	82	5	88	40	24	3	31	1.73
12366992--12367040	24	2.0	24	96	0	89	40	10	12	36	1.77
12367668--12367739	36	2.0	36	100	0	144	44	5	8	41	1.58
12371621--12372144	261	2.0	261	98	0	1012	38	15	15	30	1.88
12377919--12377959	20	2.0	21	85	4	57	36	12	7	43	1.70
12391248--12391272	5	5.0	5	100	0	50	20	40	0	40	1.52
12391967--12391995	2	14.5	2	100	0	58	48	0	51	0	1.00
12396828--12396909	39	2.1	38	84	4	101	36	14	20	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12396944--12397184	41	5.9	41	81	6	283	19	24	26	29	1.98
12396943--12397184	82	3.0	82	86	4	312	19	23	27	29	1.98
12397926--12397964	7	5.6	7	90	0	51	20	2	48	28	1.62
12398034--12398102	33	2.1	33	86	0	93	17	4	39	39	1.69
12398252--12398286	15	2.4	14	86	9	52	22	2	37	37	1.69
12398303--12398356	14	3.8	14	79	18	58	24	1	37	37	1.66
12398908--12398937	15	2.0	15	100	0	60	60	0	0	40	0.97
12398976--12399050	38	2.0	38	100	0	150	36	8	16	40	1.77
12399076--12399375	105	2.8	106	83	6	401	48	11	12	28	1.75
12399078--12399422	104	3.3	105	82	9	402	45	11	13	29	1.79
12399447--12399498	15	3.7	15	69	27	51	69	5	0	25	1.10
12399446--12399493	26	2.0	24	95	4	71	70	4	0	25	1.04
12400129--12400183	27	2.0	27	96	0	101	10	34	3	50	1.55
12403078--12403538	23	20.3	23	73	14	296	29	6	24	40	1.79
12403080--12403538	46	10.1	46	75	8	386	29	6	24	40	1.79
12403212--12403533	113	2.8	112	77	10	359	30	5	23	40	1.77
12403080--12403486	136	3.0	137	95	1	746	29	5	24	40	1.78
12410118--12410151	5	6.8	5	89	0	50	85	0	11	2	0.71
12410117--12410153	10	3.6	10	88	3	56	86	0	10	2	0.67
12412891--12413630	376	2.0	377	98	0	1446	38	13	14	33	1.85
12416062--12416158	44	2.2	44	81	7	117	29	23	12	34	1.92
12423132--12423177	16	3.0	15	84	15	51	84	2	8	4	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12423763--12423866	42	2.5	42	91	0	163	28	13	31	25	1.94
12425176--12425640	50	9.3	50	70	5	339	29	24	25	19	1.99
12425165--12425760	100	5.9	100	89	0	843	30	23	24	21	1.99
12428226--12429240	506	2.0	506	99	0	1994	29	15	17	36	1.91
12430594--12430678	27	3.1	27	86	0	116	30	21	11	36	1.89
12433023--12433090	29	2.4	28	83	11	86	69	0	1	29	0.98
12433025--12433090	28	2.4	28	82	10	82	69	0	1	28	0.97
12433025--12433129	53	1.9	55	81	11	128	65	1	0	31	1.10
12433102--12433139	20	1.9	20	89	10	60	65	7	2	23	1.32
12433136--12433186	26	2.0	26	96	0	93	45	21	0	33	1.52
12433333--12433411	37	2.1	37	81	9	90	27	7	2	62	1.36
12433427--12433547	10	12.3	10	68	13	63	32	3	0	63	1.16
12433333--12433537	19	10.8	19	67	20	83	31	5	1	61	1.27
12433391--12433489	38	2.6	37	77	12	103	34	5	0	60	1.18
12433444--12433489	18	2.5	18	82	3	56	34	4	0	60	1.16
12434582--12434666	27	3.4	25	78	12	93	55	0	1	43	1.07
12434633--12434699	33	2.0	33	82	5	82	65	1	1	31	1.10
12437356--12437386	9	3.4	9	90	0	53	38	22	12	25	1.90
12437790--12437872	16	5.2	16	69	22	68	54	10	0	34	1.36
12437793--12437872	31	2.5	31	95	2	142	53	11	0	35	1.37
12437814--12437868	15	3.6	15	68	22	51	54	12	0	32	1.38
12441942--12442148	43	4.8	43	82	4	222	28	20	19	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12441942--12442148	86	2.4	85	86	4	274	28	20	19	30	1.97
12442518--12442557	21	1.9	21	94	0	71	2	47	17	32	1.61
12444470--12444562	9	10.0	9	77	6	96	33	3	17	46	1.64
12444472--12444538	18	3.7	18	87	0	107	31	0	16	52	1.44
12444470--12444548	36	2.2	36	93	2	131	31	2	17	48	1.61
12444626--12444676	21	2.4	21	93	0	84	39	9	15	35	1.81
12444886--12444923	16	2.4	16	91	4	60	52	5	0	42	1.24
12444920--12444969	13	3.5	13	78	19	55	50	8	8	34	1.61
12444918--12444963	17	3.0	16	81	18	62	52	8	6	32	1.58
12449409--12449449	20	2.0	20	85	4	55	36	39	4	19	1.73
12453762--12453810	25	2.0	24	84	8	62	42	0	2	55	1.11
12454666--12454698	15	2.1	16	88	5	50	54	3	0	42	1.15
12460194--12460248	19	2.9	19	81	7	60	67	0	10	21	1.21
12466953--12466988	2	18.0	2	94	0	63	0	2	47	50	1.15
12469238--12469273	18	1.9	19	88	5	56	41	0	0	58	0.98
12470822--12470860	17	2.3	17	86	8	53	20	2	2	74	1.06
12472842--12472909	3	22.7	3	100	0	136	66	0	0	33	0.92
12473489--12473521	10	3.0	11	91	8	50	81	0	6	12	0.85
12473752--12473799	22	2.2	22	88	0	69	22	22	47	6	1.73
12474422--12475004	44	13.2	44	85	1	722	30	24	14	30	1.94
12474432--12475004	133	4.3	132	88	1	754	30	24	13	30	1.94
12474422--12475004	221	2.6	220	89	1	873	30	24	14	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12476278--12476319	15	2.9	15	82	13	52	16	16	2	64	1.40
12476278--12476320	7	6.1	7	84	10	52	16	16	2	65	1.38
12481638--12481697	3	20.0	3	82	0	75	68	0	3	28	1.05
12482529--12482576	22	2.2	22	84	0	60	20	18	50	10	1.76
12483671--12483759	25	3.1	30	84	12	116	42	6	24	25	1.79
12486197--12486263	33	2.0	33	97	0	125	20	16	25	37	1.93
12488373--12488458	30	3.0	29	85	12	117	43	6	24	25	1.79
12488371--12488459	25	3.1	30	85	12	125	41	6	25	25	1.80
12490258--12490477	55	3.9	55	84	3	271	27	6	15	50	1.69
12491622--12491745	62	2.0	62	96	0	230	43	7	13	35	1.72
12497767--12497872	30	3.3	30	70	19	88	27	17	26	28	1.98
12499202--12499255	26	2.1	26	83	10	67	42	7	18	31	1.78
12504486--12504674	51	3.7	52	79	7	228	25	16	26	30	1.97
12504904--12504935	16	2.0	16	93	0	55	59	0	15	25	1.36
12507973--12508909	132	7.1	132	81	3	899	36	15	15	32	1.89
12507973--12508908	264	3.6	263	82	3	1037	36	15	15	33	1.89
12508411--12508612	65	3.1	65	64	23	159	37	17	14	29	1.90
12508435--12508642	67	3.1	66	65	22	164	37	18	14	29	1.91
12507979--12508914	396	2.4	394	82	3	1134	36	15	15	32	1.88
12511278--12511940	334	2.0	334	99	0	1308	29	23	16	30	1.96
12515326--12515370	11	4.2	11	82	5	56	62	8	6	22	1.48
12516869--12516904	13	2.7	13	91	4	54	30	2	50	16	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12518169--12518195	13	2.1	13	100	0	54	33	29	7	29	1.85
12519084--12519228	67	2.2	67	100	0	290	25	12	22	40	1.89
12524508--12524537	12	2.5	12	94	0	51	6	30	40	23	1.80
12534701--12534814	33	3.5	32	84	4	113	34	5	14	46	1.66
12535792--12535849	17	3.4	17	73	0	53	32	6	10	50	1.63
12535765--12535864	34	2.9	33	75	12	85	36	10	9	45	1.69
12541851--12541883	17	1.9	17	93	0	57	57	15	12	15	1.65
12551487--12551554	31	2.2	32	89	2	102	39	25	4	30	1.75
12551643--12551672	16	1.9	15	93	6	51	56	10	0	33	1.32
12553056--12553160	49	2.1	49	82	8	124	27	21	30	20	1.98

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