genome.fa.s4.2.7.7.80.10.50.1000.47.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  47  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)
15590566--15590595	16	1.9	16	93	6	53	30	0	20	50	1.49
15591001--15591235	116	2.0	116	95	0	425	25	6	26	41	1.79
15593481--15593550	34	2.1	34	100	0	140	27	25	17	30	1.97
15597059--15597268	40	5.3	39	89	4	242	25	21	27	25	1.99
15597006--15597268	120	2.2	120	82	4	309	25	21	27	25	1.99
15597007--15597303	80	3.7	80	81	6	230	26	21	27	24	1.99
15607078--15607217	40	3.5	39	74	13	124	25	21	27	26	1.99
15611553--15611605	28	1.9	28	84	3	72	30	18	26	24	1.98
15613979--15614023	18	2.4	18	85	3	54	46	4	2	46	1.35
15613993--15614032	18	2.2	18	95	0	71	40	7	0	52	1.30
15616762--15616789	6	4.7	6	100	0	56	17	50	0	32	1.47
15617032--15617102	16	4.4	16	83	3	81	42	7	22	28	1.79
15617250--15617299	26	2.0	26	88	4	75	42	0	4	54	1.19
15617275--15617400	57	2.1	58	81	10	139	50	3	0	44	1.26
15617363--15617425	12	5.4	12	73	21	55	49	3	0	47	1.17
15628648--15628892	49	4.9	49	80	2	265	25	18	27	28	1.98
15628651--15628876	101	2.3	99	85	3	285	25	18	27	28	1.98
15635619--15635804	67	2.9	64	74	11	182	30	16	29	23	1.96
15644370--15644419	19	2.8	18	77	19	59	40	48	2	10	1.48
15646506--15646570	24	2.7	25	73	20	66	33	7	4	53	1.50
15668791--15669002	107	2.0	107	97	0	397	33	22	18	25	1.96
15671172--15671646	74	6.2	74	74	13	399	30	15	19	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15671416--15671632	72	2.9	76	84	8	232	34	16	19	29	1.94
15671257--15671632	153	2.4	153	78	5	391	31	15	19	32	1.94
15671488--15671903	86	4.8	87	80	11	430	29	18	18	34	1.95
15671799--15671828	13	2.3	13	94	0	51	16	10	6	66	1.41
15671488--15671903	172	2.4	172	86	3	581	29	18	18	34	1.95
15672535--15672584	19	2.8	18	77	19	59	40	48	2	10	1.48
15674653--15674820	41	4.2	40	72	13	137	28	26	20	23	1.99
15674698--15674800	40	2.5	40	87	4	136	27	28	20	24	1.99
15677362--15677426	29	2.2	30	78	8	71	40	4	1	53	1.31
15677920--15677984	24	2.7	25	73	20	66	33	7	4	53	1.50
15680561--15680762	100	2.0	100	99	0	395	32	7	22	37	1.83
15682287--15682356	32	2.2	32	92	0	113	44	15	20	20	1.87
15684824--15684871	25	1.9	25	86	0	69	35	22	14	27	1.93
15684915--15684952	20	1.9	20	100	0	76	34	13	21	31	1.91
15685004--15685094	23	4.0	22	92	2	128	25	20	20	32	1.97
15685003--15685104	24	4.3	23	90	5	143	27	19	22	30	1.98
15691835--15691882	25	1.9	25	91	0	78	33	20	29	16	1.95
15693921--15693968	16	2.9	16	80	17	62	50	0	0	50	1.00
15693921--15693971	18	3.0	18	86	11	72	50	0	0	49	1.00
15693939--15693977	18	2.2	18	86	4	53	56	0	0	43	0.99
15695092--15695212	57	2.1	59	84	6	158	28	18	4	48	1.68
15703683--15703772	28	3.2	27	85	7	119	20	24	23	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15703683--15703797	55	2.1	56	83	8	146	19	24	21	34	1.96
15707490--15707553	7	9.1	7	80	13	69	37	0	0	62	0.95
15707483--15707553	26	2.8	26	85	12	94	35	0	0	64	0.94
15707483--15707649	3	54.0	3	67	22	64	33	4	0	61	1.19
15707489--15707600	30	3.6	29	73	16	93	35	2	0	61	1.10
15707590--15707641	20	2.5	22	82	14	58	30	5	1	61	1.30
15707904--15707963	17	3.5	17	74	21	63	33	1	0	65	1.03
15707905--15707963	16	3.5	16	76	23	59	33	1	0	64	1.04
15707940--15707989	26	1.9	26	83	0	64	36	4	0	60	1.16
15709906--15710046	42	3.3	43	77	12	148	26	17	24	31	1.97
15709893--15710046	43	3.6	42	76	10	150	25	16	24	33	1.96
15709906--15710064	43	3.7	43	74	10	146	27	17	24	30	1.97
15712222--15712260	20	1.9	21	89	5	62	71	0	7	20	1.10
15712678--15712739	24	2.6	24	84	0	79	22	19	32	25	1.97
15716285--15716347	31	2.0	31	87	0	90	30	19	15	34	1.93
15719154--15719191	19	2.0	20	89	5	60	71	0	7	21	1.11
15719561--15719672	49	2.3	48	83	7	129	29	16	27	25	1.97
15719584--15719672	24	3.7	24	77	7	83	31	16	26	24	1.97
15725968--15725992	13	1.9	13	100	0	50	32	4	24	40	1.73
15734053--15734077	13	1.9	13	100	0	50	32	4	24	40	1.73
15736627--15736820	55	3.6	54	84	4	248	21	24	17	36	1.95
15737219--15737308	45	2.0	45	95	0	162	38	24	0	36	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15742225--15742258	10	3.0	12	83	16	54	32	0	32	35	1.58
15744503--15744621	43	2.8	42	79	9	134	31	28	17	22	1.97
15752618--15752789	48	3.6	48	83	3	195	26	13	30	29	1.94
15757971--15758040	35	2.0	35	97	0	131	15	8	12	62	1.52
15758544--15759009	235	2.0	237	93	0	810	40	10	24	24	1.87
15761400--15761630	37	6.2	37	69	13	127	29	21	24	24	1.99
15761437--15761632	74	2.6	73	83	3	230	28	21	23	26	1.99
15761379--15761589	111	1.9	111	82	3	264	27	22	24	25	2.00
15764144--15764208	22	3.0	21	76	10	60	46	4	1	47	1.32
15764187--15764219	17	1.9	17	88	11	50	36	15	0	48	1.45
15769008--15769041	10	3.8	9	88	11	52	0	8	0	91	0.43
15769005--15769040	18	2.1	16	90	10	54	0	11	0	88	0.50
15769936--15770475	275	1.9	278	83	6	695	45	5	5	42	1.52
15775393--15775419	14	1.9	14	100	0	54	22	22	0	55	1.44
15775390--15775429	11	3.4	11	81	18	53	17	27	0	55	1.43
15779070--15779131	32	1.9	32	96	0	115	51	8	8	32	1.60
15784810--15784974	47	3.5	47	93	0	267	30	13	31	24	1.93
15784810--15784930	23	5.1	25	60	25	64	29	14	33	23	1.93
15784944--15785039	48	2.0	48	93	0	165	33	7	29	30	1.84
15785166--15785280	37	3.1	37	87	2	151	27	17	27	26	1.98
15788329--15788439	45	2.5	45	80	5	118	38	13	24	23	1.91
15791259--15791589	146	2.3	146	97	0	617	34	13	25	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15798283--15798423	40	3.5	40	83	1	140	24	27	23	24	2.00
15803411--15803563	42	3.7	41	75	15	145	33	26	18	22	1.96
15807102--15807218	35	3.3	35	85	1	135	16	9	29	44	1.79
15807122--15807253	35	3.8	35	82	5	153	17	9	30	43	1.80
15808771--15808947	85	2.1	85	89	0	264	20	23	32	23	1.98
15816525--15816561	17	2.1	18	90	5	58	29	32	10	27	1.90
15820538--15820601	21	3.0	21	73	13	60	29	28	17	25	1.97
15820644--15820683	21	1.9	21	85	10	55	20	15	40	25	1.90
15826636--15826744	54	2.0	55	90	3	168	36	15	20	26	1.92
15828503--15828572	26	2.7	26	88	0	104	24	24	28	22	1.99
15836523--15836579	29	2.0	29	89	0	87	26	40	15	17	1.90
15836800--15836871	23	3.1	23	79	0	90	43	19	18	19	1.89
15845529--15845623	50	1.9	49	93	2	163	31	27	14	26	1.95
15846912--15847087	46	3.8	46	80	15	209	21	20	29	28	1.98
15846910--15847079	93	1.8	93	93	0	295	21	21	29	28	1.98
15859481--15859545	32	2.0	32	100	0	130	49	6	0	44	1.27
15863242--15863416	46	3.8	46	77	10	185	20	21	29	28	1.98
15863238--15863409	93	1.8	93	91	0	281	20	21	29	27	1.98
15868912--15869129	40	5.5	40	85	4	264	27	26	22	23	2.00
15883269--15883482	40	5.4	40	88	2	290	26	27	22	24	2.00
15890114--15890228	40	2.9	40	90	2	169	26	25	22	25	2.00
15892287--15892380	28	3.4	28	98	0	179	15	41	21	21	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15893405--15893688	48	5.9	48	78	4	268	26	27	17	28	1.98
15893405--15893688	144	2.0	144	79	6	308	26	27	17	28	1.98
15926924--15927265	40	8.6	40	91	4	466	24	21	27	25	1.99
15931363--15931413	5	10.4	5	75	12	52	58	3	0	37	1.16
15931363--15931414	19	2.7	19	91	8	79	57	3	0	38	1.17
15931828--15931944	62	1.9	59	87	5	171	41	4	4	50	1.41
15932052--15932101	25	2.0	25	84	7	66	40	10	8	42	1.68
15941047--15941143	34	2.9	32	83	6	97	22	22	25	28	1.99
15948075--15948108	17	1.9	17	88	5	50	14	41	29	14	1.86
15948074--15948115	18	2.3	18	76	8	50	14	42	30	11	1.81

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