genome.fa.s25.2.7.7.80.10.50.1000.115.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_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  101062743

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   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   

This is table  115  of  297  ( 35593 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)
41248739--41248779	22	1.9	22	90	5	66	34	4	0	60	1.18
41248640--41248775	25	5.4	26	68	16	81	30	7	2	59	1.39
41250515--41250561	23	2.0	23	83	8	58	55	0	0	44	0.99
41253079--41253131	14	3.8	13	79	16	52	67	1	0	30	1.01
41253078--41253131	15	3.8	14	79	11	56	68	1	0	29	1.00
41253076--41253142	20	3.0	23	75	16	61	68	2	0	28	1.04
41253189--41253222	17	2.1	17	88	5	52	64	0	0	35	0.94
41253206--41253265	21	2.7	23	80	14	65	58	5	1	35	1.30
41253206--41253274	31	2.3	30	82	5	86	57	4	1	36	1.27
41254048--41254083	18	2.0	18	89	10	56	38	5	2	52	1.39
41263533--41263873	170	2.0	170	98	0	655	31	21	13	34	1.92
41289315--41289576	132	2.0	131	81	4	303	28	16	25	29	1.97
41289513--41290641	132	8.6	132	97	0	2028	27	15	26	29	1.96
41290770--41290877	40	2.6	42	81	5	123	32	23	22	22	1.98
41304657--41310405	495	11.6	495	99	0	11426	42	17	9	30	1.80
41310829--41310869	14	2.8	15	75	17	50	31	0	7	60	1.24
41314265--41314358	47	2.0	47	93	0	161	25	20	20	34	1.96
41317499--41317523	2	12.5	2	100	0	50	0	48	0	52	1.00
41321470--41321500	2	15.5	2	100	0	62	48	51	0	0	1.00
41325028--41325090	31	2.0	31	84	6	83	39	6	20	33	1.78
41325961--41325991	11	2.8	11	95	0	53	9	0	9	80	0.90
41335073--41335134	30	2.1	30	90	0	97	22	3	12	61	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41335259--41335292	11	3.0	11	86	4	50	67	0	2	29	1.05
41340435--41340521	31	2.8	30	79	5	75	33	13	12	40	1.83
41341300--41341352	26	2.1	25	86	10	72	20	11	7	60	1.55
41348783--41348832	19	2.6	20	78	9	59	58	0	0	42	0.98
41348807--41348845	20	2.0	19	85	5	51	56	0	2	41	1.13
41348817--41348870	25	2.1	26	83	10	67	53	1	3	40	1.29
41356610--41356666	18	3.2	18	92	0	96	31	17	24	26	1.97
41363574--41363600	5	5.4	5	100	0	54	0	18	0	81	0.69
41364366--41364400	13	2.8	12	91	8	61	31	8	0	60	1.27
41364503--41364548	22	2.1	22	88	11	69	32	0	2	65	1.05
41364572--41364611	21	2.0	20	90	5	62	42	0	2	55	1.13
41364523--41364676	58	2.5	60	74	17	140	42	1	4	51	1.30
41364851--41364920	16	4.4	16	88	0	95	30	25	2	41	1.70
41364851--41364920	32	2.2	32	92	0	113	30	25	2	41	1.70
41366810--41367092	18	15.3	18	71	11	151	36	16	12	34	1.86
41366810--41367092	36	7.6	36	69	12	178	36	16	12	34	1.86
41366891--41367092	72	2.8	72	79	6	196	36	16	12	34	1.86
41367250--41367274	6	4.2	6	100	0	50	52	16	16	16	1.76
41367254--41367493	45	5.3	45	88	0	318	40	20	19	20	1.91
41368050--41368113	33	1.9	34	81	9	78	29	7	1	60	1.34
41368250--41368295	6	7.8	6	83	13	60	34	15	0	50	1.44
41371291--41371315	3	8.3	3	100	0	50	32	68	0	0	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41375379--41375426	15	3.1	15	77	16	53	68	2	2	27	1.11
41375370--41375440	11	6.5	11	75	6	56	64	2	2	29	1.22
41377300--41377620	46	7.0	46	90	0	426	21	24	15	39	1.91
41384170--41384217	15	3.1	16	83	16	57	70	2	0	27	0.98
41384161--41384231	11	6.5	11	76	12	58	66	2	1	29	1.15
41390069--41390120	25	2.1	25	96	0	95	34	15	9	40	1.80
41390338--41390389	22	2.4	22	75	15	54	55	0	3	40	1.18
41396623--41396684	30	2.1	30	90	6	99	41	29	9	19	1.83
41396781--41396815	14	2.6	14	90	4	54	51	5	14	28	1.65
41396794--41397174	72	5.0	75	81	7	373	33	19	16	30	1.94
41396834--41397538	77	9.2	73	77	10	563	33	19	16	30	1.94
41397036--41397341	167	1.9	163	88	2	468	31	20	17	30	1.96
41396951--41397437	242	2.0	238	86	1	677	34	19	16	29	1.94
41396711--41397538	391	2.1	386	84	4	1027	34	19	16	29	1.94
41397189--41397541	149	2.4	148	85	3	440	33	19	16	30	1.94
41397495--41397590	49	2.0	49	95	0	174	31	21	16	30	1.96
41397423--41397662	121	2.0	121	93	0	408	34	19	16	30	1.93
41397544--41397841	72	4.0	72	88	8	429	33	18	16	30	1.94
41397346--41397734	193	2.0	195	90	2	620	33	18	15	31	1.93
41397805--41397910	54	1.9	55	84	5	144	38	19	14	27	1.90
41397890--41397923	13	2.5	13	90	4	50	58	8	11	20	1.59
41397761--41398248	140	3.5	140	95	1	888	37	20	17	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41397945--41398050	54	1.9	54	83	9	135	37	18	15	28	1.91
41398085--41398190	54	1.9	54	83	9	135	36	19	16	27	1.93
41398181--41398346	72	2.3	71	89	4	253	40	21	15	22	1.90
41398221--41398467	122	2.0	124	91	3	401	38	23	13	24	1.91
41398346--41398497	71	2.2	69	85	2	196	36	24	13	25	1.92
41400297--41400558	41	6.5	40	86	5	289	22	22	27	27	1.99
41412248--41412307	24	2.4	25	88	5	86	3	5	20	71	1.19
41412266--41412327	32	1.9	32	96	0	115	3	4	14	77	1.06
41412996--41413129	41	3.4	40	79	5	139	32	23	17	26	1.97
41412996--41413093	41	2.4	40	89	1	142	33	22	17	26	1.96
41413969--41414044	6	12.2	6	70	13	55	1	22	3	72	1.09
41413969--41414044	25	3.0	24	75	19	75	1	22	3	72	1.09
41419973--41420014	21	2.2	19	87	12	59	35	11	0	52	1.38
41421001--41421038	19	2.0	19	100	0	76	36	10	0	52	1.36
41421057--41421221	90	1.8	90	82	0	213	26	29	9	35	1.87
41423777--41423815	18	2.2	18	85	0	51	35	0	0	64	0.94
41425117--41425368	131	1.9	132	83	0	326	36	19	16	27	1.93
41428328--41428369	19	2.2	19	87	8	59	54	0	0	45	0.99
41451949--41453034	216	5.0	216	87	0	1368	32	14	25	27	1.95
41456447--41456507	30	2.0	30	100	0	122	32	19	9	37	1.85
41460596--41460641	24	1.9	24	86	0	65	47	0	8	43	1.34
41461452--41461545	42	2.3	42	83	10	115	41	28	6	23	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41461788--41461830	20	2.2	20	82	0	50	67	2	9	20	1.30
41470180--41470522	40	8.6	40	91	2	485	24	20	27	27	1.99
41472308--41472401	42	2.2	43	84	1	118	25	22	20	31	1.98
41474576--41474603	14	2.0	14	100	0	56	21	7	21	50	1.72
41474719--41474860	42	3.4	42	88	0	221	35	26	16	21	1.94
41484045--41484126	38	2.1	38	81	2	92	36	31	15	15	1.90
41484060--41484139	38	2.1	38	95	0	142	37	27	17	17	1.92
41484072--41484150	38	2.1	38	97	0	149	34	27	18	18	1.95
41500057--41500121	34	1.9	34	87	3	96	23	23	24	29	1.99
41500680--41500722	17	2.5	17	96	0	77	20	41	32	4	1.73
41507980--41508047	11	5.4	12	73	25	52	63	1	2	32	1.18
41508008--41508123	35	3.1	35	74	16	92	60	1	7	30	1.35
41508042--41508085	22	2.0	21	83	12	54	59	0	11	29	1.32
41509862--41510545	206	3.3	206	88	1	987	27	22	17	31	1.97
41518534--41518576	15	2.9	15	80	16	54	39	9	25	25	1.85
41522097--41522212	35	3.1	35	74	16	92	60	1	7	30	1.35
41522131--41522174	22	2.0	21	83	12	54	59	0	11	29	1.32
41525263--41525726	232	2.0	232	97	0	883	35	10	21	32	1.87
41530221--41530405	40	4.7	40	81	5	178	27	28	20	24	1.99
41530188--41530405	40	5.5	39	77	7	165	25	27	20	25	1.99
41535904--41535998	7	13.4	7	73	6	66	40	40	0	20	1.52
41536361--41536512	40	3.8	39	77	9	146	25	21	25	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41536365--41536514	80	1.9	79	86	4	212	26	20	26	27	1.99
41540576--41540670	7	13.4	7	73	6	66	40	40	0	20	1.52
41541356--41541383	12	2.3	12	100	0	56	46	32	14	7	1.71
41553542--41553568	13	2.1	13	100	0	54	22	33	29	14	1.94
41557499--41557767	47	5.8	45	74	15	199	28	20	28	22	1.99
41563717--41563860	2	72.0	2	100	0	288	0	0	50	50	1.00
41569889--41569927	15	2.7	15	88	4	53	53	5	2	38	1.37
41570623--41570648	9	2.9	9	100	0	52	53	0	0	46	1.00
41570787--41570836	19	2.7	18	76	14	57	36	4	4	56	1.37
41570787--41570837	17	2.8	17	80	11	57	37	3	3	54	1.37

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   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297