genome.fa.s17.2.7.7.80.10.50.1000.41.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  41  of  185  ( 22116 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)
11482265--11482616	43	8.2	43	77	8	263	25	18	27	28	1.98
11482265--11482515	85	2.9	83	75	16	253	25	16	29	28	1.97
11487691--11487737	19	2.3	21	82	10	71	57	4	0	38	1.18
11488404--11488443	20	2.0	20	85	9	55	35	10	2	52	1.48
11488989--11489025	16	2.3	16	100	0	74	37	5	35	21	1.77
11489005--11489095	46	2.0	44	91	8	148	26	3	30	39	1.72
11489254--11489292	17	2.5	15	84	15	60	61	0	0	38	0.96
11489259--11489292	17	2.0	17	100	0	68	58	0	0	41	0.98
11489247--11489422	43	4.4	43	66	25	141	53	2	2	42	1.26
11489325--11489364	20	2.0	21	85	5	55	60	5	0	35	1.19
11489239--11489611	117	3.3	117	92	5	588	52	3	1	42	1.30
11489376--11489409	17	2.0	17	100	0	68	58	0	0	41	0.98
11489442--11489481	20	2.0	21	85	5	55	60	5	0	35	1.19
11489449--11489511	26	2.3	27	84	13	85	58	1	0	39	1.07
11489463--11489508	13	3.6	12	80	13	56	58	0	0	41	0.98
11489571--11489635	32	2.0	32	81	0	76	47	3	0	49	1.17
11494138--11494187	26	1.9	26	95	0	91	50	20	12	18	1.78
11495125--11495169	22	2.0	22	83	12	56	51	2	8	37	1.46
11498879--11498922	20	2.2	20	84	8	54	45	11	2	40	1.53
11498915--11499016	23	4.5	23	74	8	102	32	13	21	32	1.92
11499193--11499228	15	2.4	15	85	0	54	38	5	5	50	1.49
11502587--11502617	15	2.1	15	100	0	62	54	6	12	25	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11507867--11507899	11	3.1	11	82	8	50	60	0	30	9	1.27
11509695--11509984	138	2.1	141	94	3	523	44	20	9	25	1.81
11510783--11510840	23	2.5	23	88	0	80	29	12	20	37	1.89
11512002--11512049	22	2.2	22	85	7	62	64	2	0	33	1.05
11514307--11514387	36	2.2	36	91	0	126	29	3	9	56	1.49
11514456--11514518	27	2.4	27	81	7	76	36	0	1	61	1.05
11520575--11520599	3	8.3	3	100	0	50	68	0	32	0	0.90
11525178--11525213	15	2.5	14	86	8	54	44	8	0	47	1.33
11526056--11526118	30	2.1	30	90	0	99	23	4	14	57	1.56
11526197--11526236	18	2.2	18	86	8	55	20	0	12	67	1.22
11526480--11526560	31	2.6	31	100	0	162	38	12	6	43	1.67
11528112--11528181	25	2.7	26	86	8	99	24	22	21	31	1.98
11529243--11529272	10	3.0	10	95	0	51	50	3	0	46	1.18
11540284--11540334	17	2.9	18	74	8	52	64	3	1	29	1.22
11541528--11541566	17	2.2	17	86	4	51	33	33	0	33	1.58
11544282--11544321	9	4.3	9	83	3	53	22	0	5	72	1.04
11544282--11544327	18	2.6	18	83	13	67	26	0	6	67	1.15
11551128--11551164	11	3.2	12	88	7	51	81	0	0	18	0.70
11551129--11551161	17	1.9	17	88	11	50	78	0	0	21	0.75
11551534--11551561	14	2.0	14	100	0	56	71	7	14	7	1.29
11552435--11552534	39	2.5	41	83	6	123	37	2	0	61	1.08
11552488--11552521	17	2.0	17	88	0	50	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11552435--11552557	41	3.0	41	84	7	142	35	1	0	61	1.11
11552435--11552557	40	3.0	40	83	7	131	35	1	0	61	1.11
11552861--11552900	18	2.2	19	86	4	55	25	7	2	65	1.32
11553026--11553058	17	1.9	17	88	11	50	36	6	0	57	1.23
11569396--11569450	21	2.7	20	80	8	65	29	32	9	29	1.88
11572698--11572854	83	1.9	82	86	1	224	30	16	15	37	1.90
11574527--11574567	21	2.0	21	85	0	55	68	2	0	29	1.03
11575114--11575151	3	12.7	3	100	0	76	31	0	0	68	0.90
11577272--11577353	21	4.1	21	73	12	91	7	36	18	37	1.79
11578481--11578507	13	2.1	13	100	0	54	40	0	14	44	1.46
11578494--11578590	24	3.8	24	70	21	90	26	4	11	57	1.51
11578539--11578569	16	1.9	16	100	0	62	16	6	12	64	1.47
11579774--11579937	72	2.3	72	86	2	213	25	5	13	55	1.59
11583933--11583990	28	2.1	27	87	9	82	46	10	8	34	1.69
11585030--11585082	28	2.0	26	85	10	72	54	9	0	35	1.33
11584957--11585167	99	2.1	99	88	3	309	48	9	3	38	1.53
11589197--11589272	37	2.1	36	83	11	93	40	1	2	55	1.22
11589197--11589272	11	6.8	11	72	21	52	40	1	2	55	1.22
11591729--11591774	24	1.9	24	82	8	58	32	10	17	39	1.84
11595321--11595396	37	2.1	37	100	0	152	28	14	18	38	1.90
11599268--11599306	18	2.2	18	85	0	51	61	2	23	12	1.43
11605355--11605452	23	4.3	23	88	2	153	31	25	21	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11605362--11605450	45	2.0	45	93	0	151	31	25	22	20	1.98
11612727--11612824	23	4.3	23	88	2	153	31	25	21	21	1.98
11612734--11612822	45	2.0	45	93	0	151	31	25	22	20	1.98
11615060--11615165	42	2.5	42	87	0	149	31	46	3	18	1.67
11617962--11618200	41	5.8	41	88	6	299	28	24	20	27	1.99
11625582--11625779	41	4.8	41	84	7	226	27	24	20	27	1.99
11629860--11630028	91	1.9	91	98	0	329	24	21	19	34	1.97
11651042--11651186	41	3.6	41	90	7	217	29	25	18	26	1.98
11651042--11651207	41	4.1	40	87	9	173	29	24	18	27	1.98
11655206--11655373	90	1.9	91	97	1	320	23	22	19	34	1.96
11667017--11667054	14	2.7	15	84	12	53	42	7	15	34	1.76
11673546--11673610	16	3.5	18	73	24	55	66	1	0	32	1.01
11675135--11675195	29	2.2	29	83	16	76	3	9	11	75	1.16
11677602--11677626	12	2.1	12	100	0	50	16	32	24	28	1.96
11678740--11678764	13	1.9	13	100	0	50	40	48	0	12	1.40
11689549--11689623	37	2.0	37	94	0	132	45	14	5	34	1.68
11689549--11689640	37	2.5	37	87	7	116	46	14	5	33	1.67
11693715--11693831	39	3.0	38	92	3	198	18	3	27	50	1.63
11697226--11697296	36	2.0	36	91	0	115	46	15	12	25	1.81
11702829--11702871	21	2.0	21	82	8	52	60	0	11	27	1.31
11718061--11718090	15	2.0	15	100	0	60	33	20	26	20	1.97
11718926--11719010	31	2.8	30	73	21	77	60	2	0	37	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11722254--11722297	14	2.9	16	83	10	56	45	0	9	45	1.35
11722540--11722577	17	2.2	17	100	0	76	36	10	13	39	1.79
11728284--11728310	13	2.1	13	100	0	54	48	0	22	29	1.51
11731053--11731096	22	2.0	22	95	0	79	27	15	0	56	1.40
11731053--11731123	27	2.9	25	81	10	76	25	15	0	59	1.37
11731311--11731344	17	1.9	17	94	5	59	47	0	0	52	1.00
11731311--11731418	18	5.9	18	66	17	62	41	2	2	52	1.30
11731384--11731422	18	2.1	19	95	4	71	46	0	0	53	1.00
11731196--11731517	74	4.4	74	92	3	514	38	7	3	51	1.45
11731196--11731517	147	2.2	143	90	4	504	38	7	3	51	1.45
11731458--11731496	18	2.1	18	90	4	60	43	2	0	53	1.14
11742642--11742726	27	3.1	27	81	3	100	35	11	24	28	1.91
11742792--11742854	26	2.4	27	84	10	85	22	12	28	36	1.91
11745013--11745045	17	1.9	18	88	11	52	42	9	0	48	1.35
11748819--11748847	14	2.0	15	93	6	51	55	0	3	41	1.17
11749526--11749573	25	2.0	24	84	12	62	45	2	4	47	1.33
11750951--11751029	22	3.7	21	89	5	122	34	27	0	37	1.57
11751001--11751059	30	2.0	30	93	0	100	30	35	0	33	1.58
11750979--11751081	52	2.0	51	86	5	145	33	33	0	33	1.58
11751031--11751072	22	1.9	22	90	0	66	33	33	0	33	1.58
11751114--11751169	29	2.0	28	85	3	76	41	1	1	55	1.21
11751268--11751301	15	2.3	15	90	5	52	26	0	5	67	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11753932--11754198	23	10.6	23	68	22	98	45	26	1	26	1.61
11754096--11754158	18	3.2	18	74	20	54	44	28	0	26	1.55
11753435--11754135	28	25.0	28	83	12	800	46	23	1	28	1.60
11754101--11754198	46	2.2	44	87	10	137	42	31	2	23	1.65
11754351--11754410	27	2.2	27	100	0	120	38	6	13	41	1.70
11757430--11757696	125	2.1	125	86	2	367	32	23	15	28	1.95
11757993--11758047	28	1.9	29	85	3	76	40	20	12	27	1.88
11758124--11758151	8	3.5	8	100	0	56	64	0	0	35	0.94
11758659--11760178	506	3.0	506	99	0	2988	38	15	9	35	1.81
11761605--11761660	25	2.3	25	76	11	64	17	37	3	41	1.67

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