genome.fa.s20.2.7.7.80.10.50.1000.157.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: At_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   

This is table  157  of  186  ( 22216 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)
52257361--52257390	8	3.8	8	90	0	51	43	26	26	3	1.70
52257777--52257938	54	3.0	54	89	2	229	19	24	21	35	1.96
52257780--52257938	27	5.9	27	82	11	166	19	23	21	35	1.96
52257780--52257938	81	2.0	80	81	8	189	19	23	21	35	1.96
52258996--52259110	23	4.9	24	74	6	101	20	22	20	36	1.95
52258964--52259111	47	3.1	47	84	6	176	22	22	19	35	1.96
52259130--52259903	396	2.0	396	94	0	1361	29	9	19	40	1.84
52260887--52260916	14	2.1	14	100	0	60	60	0	33	6	1.23
52261943--52262272	48	6.8	48	79	2	293	26	26	20	27	1.99
52261962--52262273	96	3.2	96	87	2	419	26	26	19	28	1.99
52272812--52272842	15	2.1	15	100	0	62	41	0	6	51	1.27
52273432--52273461	14	2.1	15	93	6	53	63	13	10	13	1.52
52278605--52278862	40	6.5	40	90	2	378	25	27	22	24	2.00
52280119--52281108	47	21.1	47	90	0	1532	35	11	26	25	1.90
52280119--52281068	94	10.1	94	99	0	1828	36	11	26	25	1.90
52281082--52281172	46	2.0	46	91	0	146	34	7	30	27	1.85
52289513--52289569	30	2.0	27	96	0	78	8	28	21	36	1.83
52289849--52290126	150	1.9	149	81	5	346	20	28	3	47	1.65
52294231--52294352	45	2.8	45	87	6	162	24	20	28	26	1.99
52294887--52294919	16	1.9	18	88	11	52	24	15	12	48	1.78
52296776--52296815	17	2.3	18	82	4	55	12	17	10	60	1.59
52298538--52298590	3	17.7	3	100	0	106	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52303695--52303741	21	2.2	21	92	0	76	21	25	23	29	1.99
52303874--52303942	34	2.0	34	85	0	93	24	18	24	31	1.98
52317059--52317523	233	2.0	233	95	0	840	33	10	23	32	1.89
52317487--52317826	64	5.2	64	75	11	296	30	16	28	24	1.96
52317442--52317826	68	5.8	65	74	13	256	29	16	28	25	1.97
52317442--52317724	132	2.1	132	97	0	530	30	15	27	26	1.96
52321497--52321577	32	2.5	32	85	0	99	27	18	23	30	1.98
52326534--52326563	15	2.0	15	93	0	51	26	0	16	56	1.40
52327158--52327312	43	3.6	43	85	6	233	23	18	30	27	1.97
52350453--52350640	40	4.7	40	81	9	231	26	26	21	25	2.00
52350420--52350636	40	5.5	40	82	8	230	24	26	23	25	2.00
52350420--52350636	79	2.7	80	83	6	248	24	26	23	25	2.00
52364508--52364664	43	3.7	43	82	0	188	25	18	27	28	1.98
52373210--52373315	26	4.2	26	92	4	189	34	27	6	31	1.82
52373210--52373315	50	2.1	51	94	3	187	34	27	6	31	1.82
52376650--52376701	20	2.6	21	79	11	65	67	7	0	25	1.17
52376665--52376714	15	3.4	14	78	8	55	70	6	0	24	1.10
52380660--52380718	27	2.2	27	78	6	66	22	20	25	32	1.98
52384617--52384756	27	5.1	27	76	7	113	39	24	7	28	1.83
52384617--52384756	54	2.6	53	80	5	147	39	24	7	28	1.83
52385279--52385380	32	3.2	30	75	8	78	29	21	18	30	1.97
52386208--52386240	18	1.9	17	88	11	50	42	12	15	30	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52386767--52386799	9	3.8	9	84	8	50	21	0	21	57	1.41
52387182--52387328	43	3.4	42	80	2	150	29	12	25	31	1.93
52388866--52388989	50	2.5	50	86	0	167	24	18	33	23	1.97
52394129--52394170	15	2.9	15	85	3	59	21	4	0	73	1.01
52406910--52407193	142	2.0	142	99	0	559	29	15	26	29	1.96
52407243--52407539	149	2.0	148	95	0	540	43	13	20	21	1.87
52415278--52415500	39	5.7	40	85	7	255	25	22	28	24	1.99
52415278--52415500	79	2.8	80	83	9	262	25	22	28	24	1.99
52415330--52415533	79	2.6	79	81	5	200	25	22	27	24	1.99
52417600--52417751	43	3.5	42	76	8	121	33	25	17	24	1.96
52423774--52424254	241	2.0	241	97	0	910	25	25	17	31	1.97
52426115--52426460	6	56.8	6	73	15	284	47	13	19	19	1.81
52426144--52426460	55	5.8	55	96	0	562	47	13	19	19	1.82
52426578--52426643	27	2.5	26	85	7	87	37	22	22	16	1.93
52426816--52426874	22	2.7	22	81	0	64	32	22	25	20	1.98
52426962--52427044	27	3.1	26	82	5	94	39	21	19	19	1.92
52427242--52427332	27	3.4	28	81	7	116	24	19	18	37	1.94
52427340--52427716	27	14.0	27	83	4	431	40	9	22	27	1.84
52427340--52427739	81	5.0	81	85	4	488	40	9	22	28	1.84
52442654--52442698	21	2.1	21	100	0	90	33	20	0	46	1.51
52445194--52445285	46	2.0	46	100	0	184	30	15	19	34	1.93
52452498--52452558	30	2.0	30	87	0	86	39	6	22	31	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52453090--52453331	63	3.8	63	82	5	290	30	17	28	22	1.97
52463888--52463972	26	3.4	25	82	9	93	29	21	23	25	1.99
52464175--52464276	31	3.3	31	90	1	152	36	12	24	26	1.91
52470293--52470554	131	2.0	131	93	1	445	29	20	17	32	1.96
52470489--52470614	40	3.2	39	82	8	139	24	26	19	29	1.99
52470522--52470667	40	3.7	40	86	5	172	25	26	21	26	2.00
52478448--52478630	79	2.3	81	82	7	214	25	27	22	24	2.00
52478428--52478630	40	5.1	40	80	8	218	25	27	22	25	2.00
52484031--52484064	17	1.9	18	88	5	52	50	5	5	38	1.51
52499617--52499887	40	6.8	40	88	1	366	24	23	27	24	2.00
52510934--52511441	40	12.7	40	95	0	899	30	20	27	22	1.98
52519923--52520070	40	3.7	40	93	0	251	31	20	27	21	1.98
52525113--52525262	27	5.6	27	83	3	158	29	28	15	27	1.96
52525113--52525261	81	1.8	81	86	2	219	29	28	15	26	1.96
52533984--52534208	40	5.7	40	85	8	266	25	27	22	24	2.00
52533984--52534208	119	1.9	120	83	8	298	25	27	22	24	2.00
52536116--52536274	43	3.7	43	81	10	191	23	18	26	30	1.98
52546416--52546473	30	1.9	30	82	6	73	13	29	36	20	1.91
52548227--52548289	31	2.1	31	82	8	76	52	4	6	36	1.48
52548284--52548337	27	2.0	28	88	3	83	48	0	7	44	1.31
52568953--52569184	40	5.8	40	94	0	401	25	31	23	19	1.98
52571288--52571363	22	3.3	22	66	16	64	26	30	10	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52571260--52571411	47	3.2	47	98	0	286	27	30	7	34	1.85
52571260--52571449	94	2.0	95	85	7	262	28	29	7	34	1.85
52575110--52575185	25	3.3	22	76	18	73	42	2	0	55	1.14
52578633--52578668	13	2.9	12	84	8	54	16	0	38	44	1.48
52581039--52581071	17	1.9	17	88	11	50	39	6	6	48	1.53
52590308--52590359	22	2.4	22	80	0	59	13	1	42	42	1.55
52590687--52590998	114	2.7	114	92	3	495	33	17	19	29	1.95
52591003--52591057	28	1.9	29	82	10	69	34	0	7	58	1.26
52594981--52595843	241	3.6	241	97	0	1647	34	17	14	33	1.90
52595868--52595984	9	12.3	9	73	10	99	45	22	0	31	1.58
52595874--52595949	39	1.9	39	94	0	134	47	21	0	31	1.51
52595870--52595982	57	2.0	57	85	0	154	46	23	0	30	1.58
52595868--52595980	39	3.0	38	76	20	119	46	22	0	30	1.58
52601990--52602166	43	4.1	43	85	2	142	25	32	18	23	1.97
52602012--52602174	43	3.8	42	87	3	245	23	33	18	24	1.97
52606819--52606855	16	2.3	17	86	9	51	5	37	0	56	1.22
52610479--52610521	21	2.0	21	100	0	86	72	9	0	18	1.11
52610575--52610719	69	2.1	69	94	1	254	38	19	10	31	1.85
52610849--52610893	23	2.0	23	82	8	56	77	4	2	15	1.02
52612065--52612377	27	11.6	27	87	2	362	39	21	9	30	1.84
52612114--52612433	81	3.9	82	84	4	244	38	20	9	31	1.84
52612065--52612433	27	13.7	27	80	6	133	39	20	9	31	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52612424--52612800	27	14.0	27	85	1	479	34	18	22	24	1.96
52612417--52612784	81	4.6	81	91	0	576	34	18	21	25	1.96
52613044--52613125	27	2.8	30	71	28	86	20	24	20	34	1.97
52613069--52613187	27	4.5	26	86	5	157	15	25	21	37	1.92
52613319--52613362	19	2.3	19	84	0	52	22	22	11	43	1.85
52614822--52615133	27	11.6	27	87	3	319	39	20	9	30	1.84
52614822--52615122	107	2.8	107	82	7	256	39	19	9	31	1.84
52615032--52615188	81	1.9	81	81	2	190	37	19	9	33	1.84
52615064--52615188	27	4.6	27	75	4	99	37	20	9	32	1.85
52615180--52615576	27	15.0	27	84	4	477	34	18	22	24	1.96

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