genome.fa.s4.2.7.7.80.10.50.1000.120.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_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   

This is table  120  of  235  ( 28198 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)
40841642--40841907	77	3.6	74	85	7	351	31	22	15	31	1.95
40841608--40841907	77	4.0	77	83	7	350	32	21	16	30	1.95
40841229--40841986	417	1.8	418	83	7	1007	35	19	15	29	1.93
40841774--40842066	161	1.8	161	88	3	455	33	22	15	28	1.95
40841917--40842058	72	2.0	73	91	1	232	38	23	15	21	1.92
40842212--40842553	72	4.5	76	86	5	442	32	19	15	32	1.93
40842252--40842558	149	2.1	148	86	3	420	33	18	15	31	1.93
40842570--40842745	71	2.5	70	85	3	212	34	22	14	28	1.93
40850273--40850305	15	2.3	15	89	5	50	72	9	0	18	1.10
40853634--40853719	24	3.6	23	73	17	77	17	56	11	13	1.66
40853646--40853698	21	2.8	18	81	15	70	15	60	15	9	1.58
40856245--40856278	17	1.9	18	88	5	52	73	5	2	17	1.16
40856362--40856388	9	3.0	9	100	0	54	88	0	0	11	0.50
40856475--40856549	9	7.9	9	72	16	53	32	2	2	62	1.23
40856501--40856547	20	2.4	19	85	3	58	34	0	2	63	1.06
40856724--40856759	17	2.0	17	89	10	54	30	0	0	69	0.89
40856704--40856770	10	6.7	10	71	6	55	31	1	1	65	1.10
40856699--40856770	30	2.4	31	79	9	78	30	1	1	66	1.08
40858397--40858464	27	2.6	25	80	19	77	69	2	2	25	1.17
40858366--40858632	26	10.4	25	74	9	209	61	4	4	30	1.35
40858366--40858632	50	5.2	51	77	8	231	61	4	4	30	1.35
40858690--40858735	24	1.9	24	86	0	65	54	10	4	30	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40860778--40860827	22	2.3	22	86	3	75	12	10	2	76	1.11
40860942--40860979	19	2.0	20	84	5	51	55	13	10	21	1.67
40863221--40863259	20	2.0	20	89	0	60	17	5	2	74	1.12
40863223--40863266	20	2.2	20	83	0	52	20	4	2	72	1.13
40863902--40863966	30	2.2	30	100	0	130	30	16	21	30	1.96
40875155--40875269	44	2.6	44	79	5	126	33	17	19	30	1.95
40875349--40875451	44	2.3	44	86	3	136	33	23	18	25	1.97
40875523--40875666	44	3.0	50	77	14	147	36	15	17	29	1.91
40875570--40876062	44	11.0	44	73	6	247	32	17	20	30	1.95
40875478--40875877	133	2.9	139	77	8	458	34	16	19	30	1.94
40875572--40875738	89	1.9	89	84	0	226	33	16	19	30	1.94
40875393--40875842	133	3.3	132	76	8	424	34	16	20	29	1.94
40875566--40876007	184	2.4	183	79	4	477	33	16	19	30	1.94
40875839--40875959	45	2.8	44	79	8	138	33	18	17	30	1.94
40877686--40877745	21	2.8	22	79	18	65	25	8	0	66	1.19
40880484--40880522	13	2.9	13	85	7	51	64	0	2	33	1.08
40880770--40880831	31	2.0	31	93	0	106	11	14	4	69	1.34
40884527--40885000	26	18.2	26	92	0	786	33	5	24	36	1.79
40884535--40885000	52	9.0	52	99	0	914	32	5	25	36	1.79
40890495--40890542	25	1.9	25	100	0	96	31	18	29	20	1.97
40891916--40892025	26	4.2	26	95	0	184	34	4	24	36	1.76
40893510--40893562	26	2.0	26	82	7	63	37	20	15	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40898979--40899008	15	2.0	15	93	0	51	66	3	3	26	1.23
40906672--40906740	21	3.3	21	86	8	95	40	17	26	15	1.89
40909612--40909661	24	2.0	25	84	3	66	44	8	2	46	1.44
40927255--40927296	21	1.9	23	85	9	61	64	4	4	26	1.33
40933705--40933755	26	2.0	25	88	7	77	45	9	17	27	1.80
40933705--40933755	25	2.1	23	85	10	66	45	9	17	27	1.80
40933901--40933937	18	2.0	19	85	15	51	29	2	5	62	1.31
40935184--40935246	21	3.0	21	73	17	60	11	12	4	71	1.29
40938676--40938710	18	2.0	18	88	5	54	17	20	31	31	1.95
40950245--40950313	16	4.2	16	96	3	129	26	0	36	37	1.57
40950245--40950313	33	2.1	32	97	2	129	26	0	36	37	1.57
40954942--40954986	21	2.1	21	83	4	54	60	11	13	15	1.60
40960767--40960915	39	3.9	38	88	2	190	46	5	19	28	1.71
40960767--40960915	77	1.9	77	84	1	199	46	5	19	28	1.71
40961407--40961473	24	2.8	24	75	11	64	40	8	4	46	1.56
40963961--40964010	13	3.8	13	81	0	64	48	0	10	42	1.37
40970488--40970658	93	1.8	93	89	0	270	29	25	21	23	1.99
40970489--40970704	46	4.7	46	78	5	238	29	25	21	23	1.99
40972685--40972753	35	2.0	35	100	0	138	17	50	11	20	1.76
40973783--40973808	3	8.7	3	100	0	52	34	0	0	65	0.93
40973846--40973872	14	1.9	14	100	0	54	25	14	0	59	1.36
40974838--40974928	46	2.0	46	97	0	173	32	24	21	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40993366--40993536	93	1.8	93	89	0	270	29	28	20	21	1.98
40993359--40993582	46	4.8	46	76	9	222	29	27	20	21	1.98
40996458--40996577	40	3.0	40	95	0	204	39	9	12	39	1.75
40997029--40997124	44	2.2	44	86	3	131	34	10	9	45	1.71
41007824--41008223	69	5.8	68	80	2	363	33	22	23	21	1.97
41007824--41008219	207	1.9	207	82	3	492	33	22	22	21	1.97
41014656--41014696	21	2.0	21	95	0	73	2	14	4	78	1.03
41014800--41014826	7	3.9	7	100	0	54	11	0	0	88	0.50
41020707--41021128	69	6.1	69	80	3	345	21	22	22	33	1.97
41020729--41021059	138	2.4	138	82	3	380	20	23	22	33	1.97
41020733--41021128	207	1.9	207	82	3	492	21	22	22	33	1.97
41031355--41031411	28	2.0	28	93	0	96	59	14	1	24	1.44
41034650--41034689	15	2.6	16	88	4	55	40	12	20	27	1.88
41034786--41034872	44	2.0	44	100	0	174	39	9	31	20	1.84
41047655--41047744	44	2.0	44	97	0	171	30	20	1	48	1.56
41048387--41048444	30	1.9	29	86	6	80	34	10	13	41	1.79
41049618--41049665	20	2.5	18	78	21	53	68	2	4	25	1.18
41052092--41052121	2	15.0	2	100	0	60	0	0	50	50	1.00
41064328--41064380	11	4.6	11	80	15	63	75	0	5	18	0.99
41064332--41064377	24	1.9	24	86	8	67	73	0	6	19	1.04
41064322--41064380	11	5.3	11	78	9	57	76	0	5	18	0.97
41071983--41072031	24	2.1	23	81	11	55	24	14	14	46	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41083353--41083382	13	2.2	14	94	5	53	26	0	0	73	0.84
41089119--41089143	12	2.1	12	100	0	50	24	8	24	44	1.80
41092488--41092924	122	3.5	126	85	4	562	28	15	15	40	1.87
41093013--41093216	34	6.7	28	71	23	114	43	16	0	39	1.52
41093064--41093167	54	2.0	54	87	11	153	42	13	0	44	1.44
41093149--41093231	34	2.4	35	84	9	100	46	12	0	40	1.41
41104224--41104260	20	1.9	20	88	5	58	40	0	8	51	1.32
41106414--41106734	46	7.0	46	90	0	426	39	15	24	21	1.91
41109271--41109318	24	2.0	25	91	4	80	64	4	12	18	1.43
41111650--41111864	53	4.2	53	81	6	216	27	15	25	31	1.96
41112705--41112778	37	2.0	37	89	0	112	16	27	31	25	1.96
41113352--41113406	22	2.5	22	88	2	85	16	27	0	56	1.40
41123964--41124003	16	2.6	14	82	17	53	2	25	0	72	0.97
41124972--41125014	21	2.0	21	86	8	61	20	9	11	58	1.61
41126257--41126298	9	4.0	10	82	17	50	23	0	0	76	0.79
41127776--41127902	42	3.0	42	86	6	170	29	26	14	29	1.95
41127861--41127982	47	2.6	46	86	1	163	29	27	15	27	1.96
41128016--41128156	31	4.5	31	91	0	219	25	26	19	28	1.98
41128138--41128358	50	4.4	50	96	1	390	26	23	14	35	1.93
41128476--41128504	14	2.0	15	93	6	51	55	17	6	20	1.65
41138754--41139060	41	7.5	41	86	2	386	33	21	22	22	1.97
41138754--41139061	123	2.5	122	87	3	431	34	21	22	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41139223--41139300	21	3.6	21	69	19	61	30	1	23	44	1.61
41139585--41139630	21	2.2	21	84	0	56	21	2	32	43	1.65
41145152--41145207	9	5.9	9	76	12	58	46	21	1	30	1.62
41150754--41150801	21	2.3	21	92	0	78	25	14	58	2	1.48
41151094--41151276	43	4.3	43	79	5	158	27	19	21	31	1.97
41161545--41161580	18	1.9	19	88	5	56	22	0	2	75	0.94
41166625--41166693	21	3.4	21	71	15	72	36	1	7	55	1.37
41166680--41166710	15	2.1	14	94	5	53	35	3	6	54	1.42
41176859--41176923	18	3.6	19	71	23	59	72	1	0	26	0.94
41176859--41176926	15	4.4	16	75	17	72	72	1	0	26	0.94

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