genome.fa.s20.2.7.7.80.10.50.1000.54.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  54  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)
16647371--16647417	23	2.0	23	95	0	85	38	8	2	51	1.45
16648774--16648858	44	1.9	44	100	0	170	41	14	14	30	1.85
16671360--16671424	27	2.4	26	75	14	60	43	0	3	53	1.16
16671400--16671430	5	6.0	5	92	7	53	38	0	0	61	0.96
16671465--16671525	30	2.0	30	81	9	70	59	6	34	0	1.24
16673077--16673152	39	2.0	38	84	7	100	23	23	26	26	2.00
16678786--16678837	13	4.0	13	84	0	68	57	11	0	30	1.34
16684931--16685079	52	2.9	51	84	2	154	29	24	20	25	1.99
16686648--16686814	24	6.8	24	71	14	99	35	20	23	19	1.95
16686648--16686813	25	6.8	25	75	6	124	35	20	24	19	1.96
16693860--16693895	14	2.6	14	90	0	54	47	0	13	38	1.44
16695365--16695399	14	2.6	14	86	4	54	71	2	25	0	1.00
16697259--16697288	5	5.8	5	92	7	51	83	0	0	16	0.65
16701696--16701725	5	5.8	5	92	7	51	83	0	0	16	0.65
16703947--16704149	46	4.3	48	88	7	265	35	14	21	28	1.92
16703881--16704149	98	2.7	98	93	0	457	34	14	22	28	1.93
16704113--16704258	37	4.0	37	93	1	242	36	16	21	24	1.94
16721875--16721965	14	6.5	14	75	7	51	39	16	12	31	1.85
16721875--16721992	28	4.2	28	79	5	105	40	15	11	32	1.83
16721889--16721997	14	7.9	14	71	8	62	39	15	12	32	1.85
16729503--16729598	48	2.0	48	84	8	124	42	21	5	30	1.75
16733950--16734507	138	4.0	136	89	3	828	40	8	6	44	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16736351--16736481	45	2.9	45	80	0	163	23	23	14	38	1.92
16738610--16738654	21	2.1	21	84	8	56	22	11	11	55	1.66
16738616--16738697	42	2.0	42	83	7	105	24	13	8	53	1.67
16738616--16738696	21	4.0	21	80	12	80	23	13	8	54	1.67
16740174--16740217	23	1.9	23	85	0	61	40	2	4	52	1.34
16746725--16746811	44	2.0	43	90	2	138	21	9	14	54	1.69
16749004--16749041	3	12.7	3	100	0	76	34	31	0	34	1.58
16756552--16756582	2	15.5	2	100	0	62	0	48	0	51	1.00
16757216--16757287	31	2.3	31	95	0	126	52	8	9	29	1.63
16759446--16759487	12	3.5	12	87	12	68	85	0	14	0	0.59
16760372--16760396	3	8.3	3	100	0	50	32	0	0	68	0.90
16760523--16760573	20	2.6	20	84	9	61	76	1	9	11	1.10
16767833--16767891	5	11.4	5	76	16	50	72	3	22	1	1.08
16767837--16767890	26	2.1	25	86	3	72	72	3	22	1	1.10
16767847--16767899	26	2.0	26	85	7	72	73	1	22	1	1.03
16769775--16769812	20	1.9	20	94	0	67	21	34	31	13	1.91
16772891--16772981	43	2.1	43	89	2	148	17	17	34	30	1.93
16773524--16773556	12	2.8	12	100	0	66	51	0	9	39	1.34
16776252--16776308	21	2.6	22	80	2	71	33	12	31	22	1.91
16784883--16784947	33	1.9	34	90	3	105	30	21	21	26	1.98
16785893--16785958	29	2.2	31	86	10	93	53	0	15	31	1.42
16785887--16785960	29	2.5	30	75	18	82	51	0	17	31	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16788496--16788538	17	2.5	17	81	7	52	55	0	23	20	1.43
16788787--16788896	54	2.0	54	96	0	202	43	8	19	29	1.79
16790291--16790327	19	1.9	19	88	0	56	45	10	16	27	1.80
16797835--16797967	65	2.0	65	97	0	248	38	6	17	38	1.74
16802884--16802921	20	2.1	19	85	14	53	23	26	10	39	1.87
16805215--16805283	34	2.0	34	88	0	102	39	21	13	26	1.90
16813888--16814206	46	7.0	46	89	1	471	21	23	15	40	1.91
16813972--16814047	25	3.2	25	63	14	61	21	19	15	43	1.88
16813893--16814204	137	2.3	137	90	2	509	21	23	15	40	1.90
16816347--16816395	3	17.3	3	76	19	52	69	0	2	28	1.00
16816353--16816391	11	3.5	11	92	0	69	69	0	2	28	1.02
16816354--16816395	19	2.2	19	87	8	59	71	0	2	26	0.98
16816365--16816440	20	3.7	21	77	10	68	59	6	1	32	1.32
16822898--16822986	42	2.1	42	89	0	133	25	30	19	24	1.98
16824687--16824716	14	2.1	14	100	0	60	50	6	0	43	1.28
16824944--16824986	8	5.4	8	91	0	50	44	6	6	41	1.58
16824944--16824995	16	3.4	15	76	5	52	44	7	5	42	1.57
16824687--16825226	281	1.9	281	98	0	1053	32	16	13	37	1.87
16832571--16832627	26	2.1	27	90	3	89	35	17	24	22	1.95
16832591--16832667	39	2.0	40	89	2	120	40	11	24	23	1.88
16832632--16832720	27	3.3	27	83	7	110	37	16	23	22	1.94
16832571--16832814	93	2.6	93	92	1	391	36	18	22	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16832743--16832815	27	2.7	27	91	0	110	35	24	19	20	1.95
16840770--16840877	26	4.2	26	93	0	189	32	7	24	36	1.83
16850222--16850381	51	3.2	50	87	1	212	27	23	16	33	1.95
16860092--16860180	36	2.4	37	84	1	117	34	14	6	43	1.72
16861916--16861948	16	1.9	17	88	11	50	3	15	3	78	0.99
16861914--16861974	28	2.2	28	85	5	79	3	14	8	73	1.19
16862003--16862028	7	3.7	7	100	0	52	57	0	0	42	0.98
16862051--16862075	12	2.1	12	100	0	50	60	0	0	40	0.97
16862048--16862079	14	2.3	15	89	10	50	62	0	0	37	0.95
16865949--16866034	18	4.7	18	80	1	91	41	12	9	36	1.75
16865949--16866037	36	2.4	37	81	1	117	40	13	10	35	1.78
16866173--16866278	47	2.3	47	95	3	187	39	24	20	15	1.91
16866156--16866270	47	2.3	52	79	16	159	42	24	18	14	1.88
16866309--16866333	12	2.1	12	100	0	50	40	20	24	16	1.91
16868065--16868127	31	2.0	32	84	9	85	49	4	0	46	1.23
16872865--16872950	18	4.7	18	79	1	91	41	13	9	34	1.77
16872865--16872953	36	2.4	37	79	1	117	40	14	10	34	1.80
16877508--16877553	21	2.3	20	78	14	51	30	6	17	45	1.73
16883527--16883571	22	2.0	22	83	8	56	40	4	0	55	1.20
16891347--16891389	22	2.0	22	95	0	77	18	18	23	39	1.92
16891358--16891475	38	3.1	38	82	4	148	16	17	28	36	1.93
16891350--16891464	22	5.8	21	67	22	70	18	17	26	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16899562--16899782	92	2.4	92	87	0	316	20	25	14	39	1.91
16899562--16899789	46	5.0	46	86	1	269	21	25	14	39	1.91
16901068--16901104	20	1.9	20	88	5	58	51	8	0	40	1.32
16903435--16903511	23	3.2	23	64	25	59	42	6	20	29	1.77
16903451--16903531	27	3.1	27	64	25	75	44	7	16	32	1.75
16903433--16903535	50	2.1	50	100	0	206	40	7	19	32	1.80
16919124--16919200	5	15.6	5	98	1	147	40	0	0	59	0.97
16925056--16925094	20	2.0	20	94	0	69	41	20	2	35	1.66
16934000--16934225	124	1.9	122	83	3	303	21	20	15	42	1.89
16934233--16934324	45	2.0	45	89	4	141	22	16	21	39	1.92
16936293--16936318	3	8.7	3	100	0	52	69	0	0	30	0.89
16936491--16936536	23	2.0	24	82	4	58	63	2	6	28	1.31
16942013--16942049	14	2.6	15	83	12	51	56	0	5	37	1.22
16942103--16942133	4	7.8	4	100	0	62	77	0	22	0	0.77
16945563--16945677	44	2.6	44	85	2	149	35	13	22	27	1.92
16945563--16945696	46	3.0	45	82	4	153	35	14	23	26	1.93
16950710--16950781	5	14.8	5	74	21	64	38	0	4	56	1.18
16950739--16950781	19	2.3	19	92	8	70	41	0	0	58	0.98
16950786--16950825	18	2.2	19	90	4	64	80	2	15	2	0.93
16951695--16951828	44	3.0	44	81	6	144	34	13	24	27	1.93
16958921--16959025	50	2.1	50	96	0	192	30	5	24	39	1.79
16959440--16959502	33	1.9	33	86	0	90	33	9	11	46	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16959698--16959752	28	2.0	28	89	7	85	21	7	10	60	1.55
16971005--16971033	13	2.2	13	100	0	58	17	10	13	58	1.62
16974828--16974969	32	4.5	31	74	8	108	46	4	11	37	1.61
16980297--16980348	24	2.2	24	89	0	77	55	9	1	32	1.43
16982267--16982318	24	2.2	24	89	0	77	55	9	1	32	1.43
16995308--16995371	21	3.2	20	73	13	69	12	26	21	39	1.89
16995290--16995390	39	2.6	39	93	0	166	12	26	24	35	1.92
17002185--17002219	9	3.9	9	88	11	54	42	11	11	34	1.77
17003187--17003212	5	5.2	5	100	0	52	23	19	19	38	1.93
17003612--17003679	33	2.1	33	88	0	100	27	32	13	26	1.93

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