genome.fa.s25.2.7.7.80.10.50.1000.109.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  109  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)
32752280--32752360	26	3.2	26	65	28	73	22	14	29	33	1.94
32755472--32755695	75	3.0	74	90	3	342	32	11	8	48	1.69
32756330--32756367	20	1.9	20	89	10	60	36	0	5	57	1.21
32761992--32762046	25	2.3	25	76	17	64	52	5	3	38	1.42
32785828--32786014	67	2.8	67	90	1	286	34	18	25	22	1.96
32822273--32822325	24	2.2	24	79	0	61	20	13	18	47	1.82
32829872--32829919	26	1.9	24	91	8	78	41	8	20	29	1.81
32840612--32840975	25	15.4	24	77	15	273	19	24	17	39	1.92
32840612--32840886	47	5.7	47	88	4	329	19	24	17	39	1.92
32845470--32845832	143	2.6	141	92	1	600	31	8	30	29	1.87
32845470--32845832	47	7.7	47	94	1	593	31	8	30	29	1.87
32845955--32846032	37	2.1	37	90	0	120	23	19	32	25	1.98
32847237--32847468	40	5.8	40	89	1	358	26	22	27	23	2.00
32851320--32851682	143	2.6	141	91	1	591	32	8	29	29	1.87
32851320--32851682	47	7.7	47	94	1	584	32	8	29	29	1.87
32851804--32851882	37	2.1	37	90	0	122	24	18	31	25	1.98
32870292--32870334	15	2.9	15	86	6	52	72	4	6	16	1.24
32871143--32871181	18	2.2	18	85	0	51	7	41	0	51	1.31
32895259--32895303	23	2.0	23	90	0	72	42	17	8	31	1.80
32907893--32908033	50	2.8	50	84	3	176	23	17	27	31	1.96
32907893--32908045	51	3.0	50	80	4	164	25	16	26	32	1.96
32926701--32926977	51	5.3	51	90	6	437	33	15	22	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32926701--32926977	109	2.6	102	92	4	437	33	15	22	28	1.95
32943500--32943722	40	5.6	40	82	6	204	24	20	27	27	1.99
32943500--32943724	80	2.8	79	81	4	229	24	20	27	27	1.99
32943576--32943722	79	1.9	80	88	1	224	24	20	27	27	1.99
32943575--32943757	79	2.3	80	80	1	208	25	20	27	26	1.99
32950659--32950696	19	1.9	19	89	5	58	52	2	5	39	1.38
32951002--32951059	28	2.1	28	81	12	66	53	5	0	41	1.23
32951001--32951062	29	2.2	27	78	16	63	54	4	0	40	1.22
32952072--32952111	20	2.0	20	85	9	55	7	15	2	75	1.14
32957781--32957814	16	2.1	17	88	5	52	61	0	0	38	0.96
32960803--32960868	28	2.4	28	86	0	96	33	10	31	24	1.89
32966360--32966393	14	2.3	15	90	5	52	50	14	0	35	1.44
32966586--32966622	18	2.1	18	89	0	56	51	8	8	32	1.61
32975629--32975669	14	2.6	16	85	14	59	73	12	0	14	1.11
32975661--32975752	21	4.0	23	68	12	64	73	2	15	8	1.16
32976607--32976650	14	3.2	13	87	9	61	79	0	11	9	0.93
32977864--32978563	196	3.6	197	84	4	833	31	23	20	24	1.98
32977864--32978562	99	7.1	99	83	3	795	31	23	20	24	1.98
32977914--32978564	49	13.2	49	68	8	264	31	23	20	24	1.98
32985321--32985361	14	2.6	16	85	14	59	73	12	0	14	1.11
32985353--32985443	23	4.0	23	68	15	64	73	2	15	8	1.17
32986298--32986341	14	3.2	13	87	9	61	79	0	11	9	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32987580--32988246	50	13.5	50	68	5	280	32	22	20	24	1.98
32987546--32988250	100	7.1	100	84	3	793	32	23	20	24	1.98
33006099--33006217	37	3.2	37	75	0	130	40	31	9	18	1.82
33011521--33011573	24	2.2	23	78	15	54	60	1	0	37	1.08
33015816--33015858	21	2.0	21	90	0	68	53	11	11	23	1.69
33016200--33016286	22	3.9	22	70	15	72	39	11	12	36	1.80
33016747--33016781	18	1.9	18	94	0	61	62	5	0	31	1.18
33017850--33018256	114	3.6	116	80	5	427	32	19	21	26	1.97
33018077--33018451	189	2.0	189	84	3	486	32	17	23	27	1.97
33018867--33018934	25	2.7	25	86	0	64	26	1	19	52	1.54
33018982--33019027	21	2.1	22	84	4	58	19	2	43	34	1.63
33019110--33019161	7	7.4	7	79	14	54	13	1	53	30	1.50
33019223--33019287	14	4.6	14	77	7	69	29	1	33	35	1.67
33019226--33019272	7	6.7	7	82	0	58	27	0	40	31	1.57
33019226--33019287	21	3.0	21	75	0	61	30	1	35	32	1.68
33026706--33026809	42	2.5	42	84	3	129	36	21	15	26	1.93
33030624--33030661	10	3.9	10	86	6	51	36	0	13	50	1.42
33030936--33031005	25	2.7	26	78	10	81	28	18	24	28	1.98
33030874--33031178	158	1.9	158	80	6	359	29	15	23	31	1.95
33046309--33046417	43	2.5	43	89	0	155	29	30	18	22	1.97
33046453--33046538	42	2.0	43	88	2	129	31	31	18	18	1.95
33047442--33047858	23	18.3	23	70	14	224	40	23	6	29	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33047442--33047645	91	2.2	90	81	6	241	40	23	6	29	1.79
33047494--33047750	114	2.3	114	93	0	451	41	24	5	29	1.77
33047570--33047858	137	2.1	137	96	1	526	40	24	6	29	1.79
33048194--33048277	39	2.1	39	86	4	114	51	5	11	30	1.63
33052675--33052982	41	7.5	41	77	5	259	28	23	25	22	1.99
33052663--33052976	123	2.5	123	86	2	407	27	22	26	22	1.99
33053078--33053170	40	2.3	40	81	5	107	26	24	20	27	1.99
33054002--33054332	169	2.0	169	94	1	583	22	11	15	50	1.76
33058170--33058214	14	2.9	16	87	12	76	20	0	44	35	1.51
33058451--33058485	18	2.0	17	88	5	52	54	0	0	45	0.99
33058338--33058654	157	2.0	157	96	0	589	44	3	5	47	1.41
33058588--33058629	15	2.7	16	82	14	52	52	2	0	45	1.13
33058647--33058844	66	3.2	63	67	20	175	48	6	3	41	1.45
33058707--33058758	15	3.6	15	80	12	56	53	1	0	44	1.11
33058597--33058640	15	3.1	15	83	9	56	52	0	0	47	1.00
33058586--33058879	119	2.5	120	93	3	495	49	4	2	42	1.38
33058924--33058966	13	3.2	13	78	15	52	58	2	0	39	1.11
33058938--33058979	18	2.3	18	87	0	57	52	4	0	42	1.22
33058825--33059105	91	3.0	93	80	12	279	48	3	3	44	1.36
33064489--33064522	7	4.9	7	96	0	59	58	29	11	0	1.33
33065847--33065901	28	2.0	28	88	0	83	63	5	27	3	1.33
33075287--33075386	42	2.4	42	91	5	166	39	10	25	26	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33080091--33080123	12	2.6	13	90	4	50	27	36	27	9	1.87
33086007--33086052	16	2.9	16	78	12	58	28	2	2	67	1.14
33087395--33087452	30	1.9	30	89	0	89	25	34	22	17	1.96
33089691--33089763	26	2.8	26	83	6	87	38	8	17	35	1.80
33093494--33093586	42	2.2	42	90	0	150	19	22	33	24	1.97
33093494--33093603	42	2.6	42	85	0	112	19	24	31	24	1.98
33104215--33104338	40	3.1	40	82	6	153	24	19	29	26	1.98
33106265--33106291	8	3.4	8	100	0	54	33	14	25	25	1.95
33107956--33108224	40	6.7	40	94	0	457	21	26	20	31	1.98
33115200--33115468	40	6.7	40	94	0	457	21	26	20	31	1.98
33116755--33116935	56	3.1	56	69	20	170	43	1	4	50	1.34
33116712--33117341	120	5.3	120	92	2	1011	44	2	5	48	1.36
33116712--33117341	235	2.6	236	90	3	1003	44	2	5	48	1.36
33117282--33117316	18	2.0	17	88	5	52	45	0	0	54	0.99
33117548--33117580	16	2.1	16	100	0	66	21	36	6	36	1.78
33117699--33117756	25	2.3	23	81	16	71	32	0	15	51	1.44
33117712--33117762	25	2.0	25	92	0	84	35	1	15	47	1.57
33119604--33119646	20	2.2	20	82	0	50	9	34	18	37	1.83
33125373--33125427	26	2.1	26	82	0	65	43	0	25	30	1.55
33128526--33128657	50	2.6	50	87	0	183	26	23	30	19	1.98
33128921--33128969	20	2.5	20	81	15	66	57	6	22	14	1.59
33136220--33136344	50	2.5	50	79	5	128	28	24	26	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33136614--33136661	4	12.0	4	78	8	53	54	2	22	20	1.55
33136619--33136657	20	2.0	20	90	10	62	56	2	23	17	1.53
33141090--33141230	27	5.3	26	79	5	93	25	19	15	39	1.91
33141130--33141254	54	2.3	54	81	2	153	24	18	17	40	1.91
33141130--33141254	27	4.6	27	82	5	137	24	18	17	40	1.91
33145139--33145572	40	10.9	40	95	0	760	25	20	29	24	1.99
33147229--33147412	40	4.6	40	83	6	205	23	21	27	27	1.99
33147229--33147409	80	2.3	81	84	9	230	23	21	27	27	1.99
33155197--33155380	40	4.6	40	83	6	205	23	21	27	27	1.99
33155197--33155377	80	2.3	81	84	9	230	23	21	27	27	1.99

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