genome.fa.s25.2.7.7.80.10.50.1000.18.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: Gbar_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   

This is table  18  of  196  ( 23409 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)
5089726--5089770	20	2.2	20	92	0	72	26	22	37	13	1.91
5093803--5093847	20	2.2	20	96	0	81	26	22	35	15	1.94
5100614--5100709	33	2.9	33	95	0	174	14	3	16	65	1.39
5105486--5105519	12	2.8	12	95	0	59	23	5	17	52	1.66
5116727--5116767	20	2.0	21	82	17	52	19	14	9	56	1.66
5122198--5122346	71	2.1	71	83	5	185	28	15	26	29	1.96
5124360--5124406	4	11.8	4	100	0	94	25	0	23	51	1.49
5127355--5127430	23	3.3	23	92	0	134	22	21	26	30	1.99
5154773--5155079	122	2.5	122	89	1	463	33	20	14	31	1.93
5155360--5155407	16	3.1	15	79	8	51	52	12	12	22	1.73
5156026--5156161	49	2.8	49	82	5	152	33	16	21	27	1.95
5160074--5160112	20	1.9	21	84	5	53	25	28	20	25	1.99
5163297--5163337	21	2.0	21	81	18	50	21	26	19	31	1.97
5166960--5166994	4	8.8	4	100	0	70	25	0	22	51	1.48
5172637--5172662	13	2.0	13	100	0	52	23	23	23	30	1.99
5186207--5186572	121	3.0	120	91	1	561	35	18	13	31	1.90
5189076--5189216	71	2.0	71	88	5	214	26	16	24	32	1.96
5205273--5205640	122	3.0	121	93	1	601	35	20	13	30	1.91
5205905--5205969	34	1.9	34	93	0	112	52	7	9	30	1.61
5208718--5209084	122	3.0	122	93	0	581	35	19	14	30	1.92
5211598--5211734	71	1.9	71	89	5	215	27	16	22	33	1.95
5213767--5213964	108	1.9	107	86	3	283	34	18	17	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5215897--5216520	174	3.6	174	70	8	415	27	22	20	29	1.98
5216101--5216293	44	4.5	44	69	18	127	26	23	22	27	1.99
5216056--5216388	129	2.6	129	82	3	364	26	24	21	27	1.99
5216221--5217527	44	29.8	44	73	8	568	27	23	19	29	1.98
5216489--5217394	265	3.4	265	93	2	1470	27	23	19	29	1.98
5217021--5217530	219	2.3	218	91	2	790	27	22	19	29	1.98
5218759--5218825	13	5.0	14	87	8	104	13	16	0	70	1.18
5218759--5218826	27	2.5	28	88	7	104	13	16	0	70	1.17
5218759--5218825	7	10.0	7	88	7	104	13	16	0	70	1.18
5218759--5218825	20	3.3	20	93	4	109	13	16	0	70	1.18
5223227--5223424	108	1.9	106	84	3	272	35	17	17	29	1.93
5223919--5223948	7	4.3	7	100	0	60	56	0	0	43	0.99
5224219--5224243	3	8.3	3	100	0	50	68	0	0	32	0.90
5224955--5224979	13	1.9	13	100	0	50	72	8	4	16	1.24
5226793--5226840	25	1.9	25	82	0	60	39	10	6	43	1.64
5226926--5226996	29	2.3	29	83	9	88	35	9	2	52	1.49
5227237--5227279	22	2.0	22	90	0	68	11	20	25	41	1.86
5227390--5227644	43	5.9	43	82	1	314	27	31	17	23	1.97
5227395--5227644	129	1.9	130	86	2	351	27	31	17	24	1.97
5232181--5232238	19	3.1	17	79	18	62	56	0	6	36	1.26
5232521--5232553	12	2.9	12	86	13	52	42	6	0	51	1.26
5233312--5233375	14	4.5	14	81	13	69	39	35	0	25	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5233321--5233375	21	2.6	21	78	16	60	38	36	0	25	1.56
5234180--5234276	42	2.3	42	94	0	167	29	25	24	19	1.98
5253661--5253856	25	7.9	25	78	7	139	20	27	17	34	1.95
5253661--5253801	49	2.8	51	78	10	141	19	27	17	34	1.95
5253678--5253851	74	2.3	75	80	5	192	20	28	18	33	1.96
5253792--5253879	25	3.5	25	92	0	140	23	30	15	29	1.96
5253821--5253913	25	3.7	25	86	11	86	25	31	15	27	1.95
5253790--5253901	50	2.2	50	82	6	138	25	30	16	26	1.97
5258714--5258788	35	2.1	35	90	0	114	25	29	18	26	1.98
5262322--5262630	87	3.6	83	80	8	298	35	12	9	42	1.76
5262322--5262630	86	3.6	85	81	8	299	35	12	9	42	1.76
5262484--5262645	85	1.9	85	84	5	220	35	12	9	42	1.76
5267613--5267642	14	2.1	14	100	0	60	30	26	20	23	1.98
5269434--5269545	41	2.7	43	83	2	138	28	27	17	25	1.98
5269434--5269592	84	1.9	84	82	7	198	28	26	19	25	1.99
5288098--5288247	27	5.6	27	81	4	151	47	19	14	18	1.83
5288102--5288260	54	2.9	54	78	5	178	44	20	14	20	1.86
5291308--5291747	39	11.2	39	91	0	637	32	15	20	31	1.94
5299216--5299358	63	2.3	63	85	2	180	23	18	27	30	1.97
5300177--5300230	22	2.5	22	81	0	63	20	7	16	55	1.65
5302488--5302537	22	2.3	21	79	3	55	36	4	2	58	1.29
5302528--5302560	17	1.9	17	100	0	66	36	6	0	57	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5302529--5302567	17	2.3	17	86	0	51	35	12	0	51	1.40
5305671--5305702	14	2.3	14	94	0	55	31	3	0	65	1.08
5306864--5307400	266	2.0	266	100	0	1074	25	26	19	28	1.99
5312218--5312287	35	2.1	34	87	10	101	41	11	11	35	1.77
5312763--5312816	26	2.1	26	89	0	81	33	9	11	46	1.71
5324704--5324747	23	1.9	23	100	0	88	20	4	9	65	1.38
5328400--5328439	18	2.1	20	86	9	57	45	2	5	47	1.38
5330019--5330054	18	2.0	18	94	0	63	41	16	0	41	1.48
5330141--5330239	28	3.6	28	87	1	128	29	21	16	33	1.95
5331798--5331837	4	10.0	4	83	0	53	70	2	27	0	1.01
5331798--5331837	16	2.5	16	95	0	71	70	2	27	0	1.01
5332954--5333037	23	3.9	21	80	10	89	15	19	26	39	1.91
5334021--5334061	19	2.2	19	86	0	55	46	17	0	36	1.48
5346987--5347180	39	5.0	39	87	0	253	46	18	2	32	1.60
5346987--5347180	78	2.5	78	88	0	289	46	18	2	32	1.60
5348991--5349631	242	2.6	241	89	3	953	41	20	8	29	1.82
5348991--5349631	244	2.6	243	88	2	966	41	20	8	29	1.82
5350551--5350590	21	1.9	21	89	0	62	30	12	12	45	1.79
5351108--5351133	13	2.0	13	100	0	52	15	0	7	76	0.99
5362365--5362404	20	2.0	20	85	14	55	35	10	7	47	1.65
5362617--5362683	32	2.1	32	88	2	98	59	2	4	32	1.32
5377558--5377588	16	1.9	16	93	0	53	29	6	0	64	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5377764--5377793	15	2.0	15	93	0	51	30	10	13	46	1.75
5381885--5381975	6	14.8	6	73	19	64	2	20	2	74	1.03
5381898--5381974	18	4.4	18	73	15	72	1	22	2	74	1.02
5383901--5383970	25	2.8	25	86	4	97	35	17	31	15	1.91
5390422--5390460	12	3.2	12	82	10	53	46	0	2	51	1.14
5390463--5390586	58	2.1	59	85	4	162	41	3	3	51	1.34
5403722--5403791	31	2.4	28	81	11	86	38	11	7	42	1.68
5407299--5407364	25	2.7	25	83	2	71	21	25	16	36	1.94
5408231--5408280	25	2.0	25	88	0	73	8	36	2	54	1.42
5409683--5409707	13	1.9	13	100	0	50	8	0	24	68	1.16
5411718--5411892	41	4.3	41	85	8	216	26	20	28	24	1.99
5419590--5419734	41	3.5	40	90	1	218	26	22	28	22	1.99
5421919--5421956	19	2.0	19	100	0	76	47	15	10	26	1.78
5425671--5425803	49	2.7	48	71	15	128	41	4	2	51	1.34
5430684--5430757	36	2.1	36	86	0	103	28	20	13	37	1.90
5431034--5431066	16	2.1	16	94	0	57	36	3	36	24	1.71
5431501--5431547	16	3.0	16	78	12	53	51	2	0	46	1.13
5431267--5431837	120	4.8	120	96	1	1013	49	5	1	43	1.38
5431622--5431667	16	2.9	16	78	12	51	52	2	0	45	1.13
5431622--5431676	15	3.7	15	79	13	53	52	1	0	45	1.11
5431742--5431787	16	2.9	16	78	12	51	52	2	0	45	1.13
5433796--5433898	33	3.0	34	80	10	120	56	10	27	5	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5433817--5433890	38	1.9	38	86	5	105	59	9	25	5	1.50
5433876--5433906	15	2.1	15	100	0	62	45	12	35	6	1.68
5440933--5440965	16	2.1	16	88	11	50	66	6	0	27	1.15
5442826--5442974	41	3.6	41	67	13	106	32	21	18	26	1.97
5442868--5443355	44	11.6	42	69	13	247	29	21	18	30	1.97
5442823--5443019	85	2.3	85	93	0	331	30	22	18	28	1.97
5442901--5443194	129	2.3	128	96	0	543	29	22	19	29	1.98
5443052--5443356	166	1.9	162	93	4	531	29	21	19	29	1.97
5443242--5443354	40	2.7	41	77	10	106	30	22	17	29	1.97
5457419--5457588	40	4.2	40	91	1	252	28	26	20	24	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