genome.fa.s20.2.7.7.80.10.50.1000.37.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  37  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)
11037047--11037078	9	3.7	9	95	4	57	12	21	21	43	1.86
11038421--11038478	30	1.9	30	100	0	116	58	13	3	24	1.51
11038512--11038554	22	2.0	22	90	0	68	60	11	9	18	1.57
11044631--11044667	19	1.9	19	89	10	58	27	37	2	32	1.71
11044679--11044704	1	26.0	1	100	0	52	0	0	0	100	0.00
11045766--11045833	16	4.2	16	90	7	102	27	0	33	38	1.57
11045766--11045833	32	2.1	32	94	0	118	27	0	33	38	1.57
11045963--11046272	157	2.0	157	94	0	539	44	3	4	47	1.41
11046026--11046275	76	3.1	81	63	24	186	46	4	3	45	1.39
11046009--11046330	157	2.0	155	81	5	349	46	4	4	44	1.44
11047152--11047181	13	2.3	13	100	0	60	60	13	6	20	1.55
11047452--11047550	49	2.0	49	96	0	180	14	31	16	38	1.88
11063858--11063959	51	2.0	51	92	3	170	27	7	25	39	1.83
11064878--11064915	10	3.4	12	79	20	55	39	0	0	60	0.97
11067043--11067092	26	1.9	26	100	0	100	42	12	6	40	1.67
11068324--11068354	12	2.6	12	94	0	53	35	12	9	41	1.76
11077860--11077894	18	2.0	17	100	0	61	22	34	11	28	1.89
11085334--11085431	40	2.5	40	84	0	133	35	22	11	30	1.89
11088587--11088629	22	1.9	22	85	4	59	23	4	4	67	1.28
11088606--11088644	18	2.1	19	86	13	55	23	7	2	66	1.30
11089249--11089296	25	1.9	25	100	0	96	25	14	18	41	1.88
11092140--11092210	35	2.0	35	94	0	124	33	5	16	43	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11099666--11099691	13	2.0	13	100	0	52	23	7	23	46	1.78
11101421--11101477	22	2.6	22	78	10	55	7	12	7	73	1.23
11103378--11103421	21	2.1	21	91	4	72	15	4	0	79	0.89
11103378--11103416	11	3.6	12	77	22	50	15	5	0	79	0.90
11105808--11105838	13	2.4	13	94	0	53	29	32	25	12	1.93
11114015--11114039	11	2.3	11	100	0	50	40	20	0	40	1.52
11114779--11115098	46	7.0	46	92	0	489	23	23	15	38	1.92
11116746--11117699	46	20.7	46	98	0	1784	23	25	14	35	1.93
11122086--11122111	3	8.7	3	100	0	52	69	0	0	30	0.89
11128546--11128632	41	2.2	40	82	2	102	24	1	9	65	1.29
11131170--11131293	46	2.8	44	86	6	178	33	16	22	28	1.95
11135296--11135321	9	2.9	9	100	0	52	23	0	19	57	1.40
11136623--11136656	16	2.1	16	88	0	50	29	14	14	41	1.86
11140819--11140859	18	2.3	19	79	12	50	48	0	2	48	1.14
11143740--11143798	23	2.6	21	76	10	55	42	1	3	52	1.28
11146975--11147011	18	2.1	18	90	10	58	64	5	0	29	1.15
11147185--11147254	29	2.4	29	81	9	90	62	0	4	32	1.14
11167565--11167597	13	2.6	13	90	4	50	39	0	12	48	1.40
11172902--11172932	15	2.1	15	100	0	62	48	19	19	12	1.81
11174172--11174251	6	13.3	6	75	10	56	16	7	1	75	1.10
11174173--11174245	10	7.3	10	71	22	55	16	6	1	75	1.09
11174170--11174251	42	2.0	43	81	11	102	17	7	1	74	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11176001--11176041	22	1.9	22	85	5	57	19	7	24	48	1.74
11177151--11177183	13	2.6	13	90	4	50	39	0	12	48	1.40
11183668--11183751	42	2.0	42	100	0	168	19	9	14	57	1.64
11183905--11183955	14	3.4	14	78	10	57	45	5	0	49	1.26
11183904--11183954	17	3.2	17	73	21	56	43	5	0	50	1.26
11185870--11185977	26	4.2	26	95	0	198	32	7	25	35	1.84
11200403--11200960	281	2.0	277	94	3	985	28	11	16	43	1.82
11203919--11204062	60	2.4	62	86	10	199	27	18	25	28	1.98
11203927--11204032	28	3.7	27	72	21	90	28	18	26	26	1.98
11206969--11207028	26	2.3	26	79	0	75	36	20	23	20	1.95
11207620--11207725	53	2.0	53	100	0	212	37	18	7	35	1.80
11208914--11208968	21	2.7	21	80	8	60	47	3	25	23	1.68
11208935--11208980	21	2.2	21	88	7	67	56	4	19	19	1.58
11211726--11211782	29	2.0	29	100	0	114	26	31	14	28	1.94
11214022--11214086	32	2.0	32	81	3	76	29	10	23	36	1.88
11214046--11214134	33	2.7	33	74	8	92	29	11	23	35	1.90
11218382--11218428	3	15.3	3	78	12	51	63	0	6	29	1.19
11218377--11218427	18	2.8	17	85	11	57	64	0	5	29	1.17
11220203--11220308	53	2.0	53	94	0	185	35	12	15	36	1.84
11221743--11221796	27	2.0	27	100	0	108	18	33	7	40	1.78
11223432--11223460	7	4.1	7	100	0	58	58	13	27	0	1.36
11226061--11226236	46	3.8	46	80	12	225	21	21	28	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11226058--11226228	93	1.8	93	96	0	315	21	21	29	28	1.98
11228421--11228455	18	2.0	18	88	5	54	68	0	0	31	0.90
11228709--11228784	22	3.7	21	76	15	68	40	17	6	35	1.75
11228738--11228835	35	2.7	37	87	12	150	35	16	10	37	1.82
11228745--11228835	19	4.9	19	92	8	161	36	15	10	37	1.83
11228954--11228992	21	1.9	20	84	5	51	10	2	15	71	1.23
11229185--11229502	45	7.1	45	78	9	344	26	27	14	31	1.95
11229185--11229428	89	2.7	89	96	0	434	24	27	14	33	1.94
11229185--11229502	89	3.5	89	89	4	419	26	27	14	31	1.95
11229442--11229736	78	3.8	78	88	1	430	25	23	18	32	1.97
11238908--11238943	18	2.0	18	100	0	72	16	33	5	44	1.71
11238909--11238950	18	2.3	18	91	0	66	16	28	4	50	1.66
11241406--11241660	128	2.0	128	94	0	449	52	3	9	34	1.50
11241660--11241694	17	2.0	18	88	5	54	71	0	0	28	0.86
11241867--11241924	22	2.6	22	78	7	55	39	17	5	37	1.72
11241903--11241975	19	3.9	19	89	7	114	34	13	10	41	1.80
11241908--11241983	36	2.1	36	85	9	102	35	11	13	39	1.81
11241908--11241983	19	4.2	19	86	9	88	35	11	13	39	1.81
11242094--11242133	20	2.0	20	85	5	53	10	2	17	70	1.27
11242295--11242329	18	2.0	18	88	5	54	48	8	11	31	1.69
11245594--11245623	11	2.6	11	94	5	51	10	6	3	80	1.01
11246436--11246570	62	2.2	61	97	1	252	19	6	14	60	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11248634--11248706	24	3.3	21	78	21	78	21	23	16	38	1.93
11248648--11248706	5	12.0	5	78	21	63	22	20	18	38	1.93
11248654--11248716	19	3.3	19	95	0	117	22	20	19	38	1.94
11252638--11254092	138	10.6	138	94	0	2356	31	16	21	29	1.96
11254023--11254355	138	2.4	138	93	0	567	30	15	21	33	1.94
11254367--11254514	47	3.3	46	66	24	116	28	18	25	27	1.98
11254366--11254554	88	2.2	87	88	7	285	26	17	28	26	1.98
11254501--11254836	172	2.0	172	90	1	530	28	16	31	23	1.96
11254516--11254881	44	8.4	44	86	2	479	28	15	31	24	1.96
11258761--11258863	30	3.3	30	67	15	91	50	5	12	31	1.64
11258746--11258875	64	2.0	63	98	1	251	48	6	12	33	1.65
11260949--11261020	32	2.2	33	85	9	96	37	9	18	34	1.83
11261148--11261560	163	2.5	164	96	1	749	31	5	13	49	1.65
11262336--11262370	18	2.0	18	88	5	54	48	8	11	31	1.69
11272615--11273463	253	3.4	253	97	1	1586	39	22	9	29	1.85
11273542--11273613	32	2.3	31	83	11	92	37	9	18	34	1.83
11286466--11286494	3	9.7	3	100	0	58	68	0	0	31	0.89
11287214--11287572	44	8.0	44	79	7	328	31	21	16	30	1.95
11287257--11287514	140	1.8	139	89	0	399	31	20	17	29	1.96
11287383--11287578	89	2.2	89	85	0	275	31	21	15	31	1.94
11292183--11292225	21	2.0	21	86	0	59	30	4	20	44	1.72
11292919--11293020	52	2.0	52	94	3	179	29	23	34	12	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11301291--11301334	23	1.9	23	90	0	70	40	4	31	22	1.74
11307366--11307423	22	2.6	22	81	7	64	41	17	5	36	1.72
11307402--11307473	19	3.9	19	85	10	114	34	13	11	40	1.81
11307592--11307631	21	2.0	20	85	5	53	10	2	15	72	1.21
11309751--11309794	22	2.0	22	100	0	88	40	31	13	13	1.84
11312014--11312253	3	81.0	3	73	14	169	63	1	7	27	1.30
11312141--11312221	32	2.5	30	79	15	81	65	1	6	27	1.24
11313722--11314040	45	7.1	46	71	11	151	29	17	19	32	1.95
11313786--11314041	46	5.7	46	71	7	157	28	18	19	33	1.96
11313686--11314129	179	2.5	178	85	3	613	29	17	20	32	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