genome.fa.s4.2.7.7.80.10.50.1000.129.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  129  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)
43691336--43691376	20	2.1	19	86	13	57	63	4	21	9	1.44
43693414--43693520	53	2.0	53	87	5	155	28	19	12	40	1.87
43693608--43693702	49	1.9	49	89	4	147	26	22	8	43	1.81
43697070--43697113	23	1.9	23	90	0	70	22	25	38	13	1.91
43698463--43698498	11	3.2	11	92	4	54	61	0	0	38	0.96
43708387--43708423	19	1.9	19	100	0	74	56	5	16	21	1.59
43715215--43715247	3	11.0	3	93	0	57	0	63	0	36	0.95
43716111--43716152	22	1.9	22	85	0	57	50	11	16	21	1.77
43718087--43718136	23	2.1	24	85	3	66	46	4	8	42	1.52
43721512--43721547	19	1.9	19	94	5	65	13	13	11	61	1.58
43721511--43721557	19	2.5	19	82	6	51	17	10	10	61	1.55
43721609--43721656	19	2.5	19	83	12	62	56	0	0	43	0.99
43729962--43730025	33	1.9	33	96	0	119	51	18	15	14	1.76
43733659--43733692	17	2.0	17	88	0	50	35	11	11	41	1.78
43734743--43734819	27	2.9	27	76	7	75	35	14	24	25	1.93
43746216--43746248	15	2.1	16	88	5	50	57	0	3	39	1.14
43749433--43749548	26	4.6	25	73	15	78	33	25	15	25	1.95
43749433--43749519	26	3.4	26	77	13	90	35	22	16	25	1.94
43755184--43755304	59	2.1	58	96	1	224	28	28	19	23	1.98
43777664--43777705	22	1.9	22	85	9	59	30	21	11	35	1.90
43781091--43781444	134	2.6	133	82	3	399	35	15	20	29	1.93
43782715--43783038	134	2.4	134	87	1	470	39	14	16	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43790078--43790121	23	1.9	23	90	0	70	43	9	4	43	1.56
43801043--43801102	27	2.2	27	88	5	86	20	26	15	38	1.91
43801054--43801105	27	1.9	27	96	0	95	21	25	17	36	1.94
43803166--43803246	25	3.2	25	85	0	117	38	20	23	17	1.93
43804208--43804285	10	7.9	10	73	12	54	50	1	1	47	1.17
43804214--43804280	5	13.4	5	77	14	59	50	1	1	46	1.19
43804214--43804284	30	2.4	30	77	17	85	49	1	1	47	1.18
43807452--43807511	17	3.4	17	77	8	75	33	5	15	46	1.67
43808030--43808076	17	2.8	17	83	6	51	36	2	2	59	1.21
43811413--43811456	9	4.9	9	80	8	54	72	2	25	0	0.96
43812566--43812601	18	2.1	17	94	5	63	50	11	0	38	1.38
43817730--43818601	444	2.0	444	99	0	1717	29	16	19	34	1.94
43820084--43820199	56	2.0	59	83	5	148	48	5	19	26	1.70
43823778--43823848	28	2.5	28	82	8	83	42	1	0	56	1.08
43824367--43824395	14	2.0	15	93	6	51	17	6	0	75	1.01
43825763--43825820	28	2.1	28	100	0	116	37	17	17	27	1.92
43829513--43829608	40	2.5	39	76	6	99	34	27	13	25	1.93
43829836--43829875	9	4.2	9	81	12	53	42	20	0	37	1.52
43830533--43830571	12	3.0	13	81	11	53	0	25	0	74	0.82
43830531--43830612	25	3.3	26	74	16	75	0	20	7	71	1.09
43832356--43832395	18	2.2	18	90	0	62	37	2	2	57	1.26
43836284--43836324	19	2.2	19	90	0	64	43	14	4	36	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43840765--43840817	23	2.4	22	76	20	56	9	18	1	69	1.25
43843199--43843225	4	6.8	4	100	0	54	77	0	0	22	0.76
43859380--43859410	10	3.1	10	100	0	62	48	0	22	29	1.51
43865683--43865726	5	8.4	5	85	5	52	77	0	2	20	0.88
43865690--43865729	9	4.6	8	85	14	53	75	0	2	22	0.93
43866899--43866930	14	2.3	14	100	0	64	53	9	6	31	1.58
43869431--43869471	21	2.0	21	90	0	64	26	31	21	19	1.97
43874756--43874781	6	4.3	6	100	0	52	61	0	19	19	1.35
43875093--43875596	110	4.6	109	93	1	803	36	20	13	29	1.91
43875717--43875747	4	7.8	4	100	0	62	77	0	0	22	0.77
43876287--43876384	3	32.7	3	73	4	81	60	1	6	32	1.28
43886975--43887013	15	2.6	14	80	11	51	53	0	0	46	1.00
43897126--43897176	17	2.8	18	80	14	52	21	1	3	72	1.11
43897160--43897210	17	3.0	17	77	11	68	27	3	0	68	1.07
43897723--43897811	44	2.0	44	100	0	178	30	22	6	40	1.80
43898107--43898181	19	3.9	19	78	16	68	33	2	1	62	1.17
43898128--43898184	29	2.0	29	86	6	80	33	1	0	64	1.04
43906739--43906763	2	12.5	2	100	0	50	48	0	0	52	1.00
43907922--43907959	10	3.9	10	86	3	51	63	0	2	34	1.09
43908024--43908055	17	1.9	16	93	6	55	65	6	0	28	1.16
43908294--43908327	3	11.3	3	87	12	52	64	0	0	35	0.94
43908753--43908810	22	2.6	22	84	7	73	43	17	3	36	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43908789--43908844	21	2.8	19	79	10	67	37	14	10	37	1.81
43908800--43908843	21	2.1	21	91	0	70	38	11	11	38	1.77
43909199--43909409	44	4.8	44	77	8	191	27	21	21	29	1.98
43909420--43910626	132	9.1	132	93	1	2015	25	23	19	30	1.98
43917328--43917359	17	1.9	16	93	6	55	65	6	0	28	1.16
43917599--43917635	3	12.3	3	88	11	58	64	0	0	35	0.94
43917598--43917634	18	2.1	18	95	5	67	62	0	0	37	0.96
43917599--43917651	24	2.2	24	83	9	65	66	1	0	32	1.03
43918060--43918104	23	2.0	23	91	4	74	46	13	4	35	1.63
43918070--43918114	23	2.0	23	86	4	65	40	15	4	40	1.67
43918093--43918148	21	2.8	19	82	10	76	37	16	8	37	1.80
43918104--43918147	21	2.1	21	100	0	88	38	13	9	38	1.77
43927217--43927313	45	2.2	45	85	5	142	27	28	19	23	1.98
43927217--43927327	45	2.5	45	83	0	123	27	30	18	24	1.97
43928177--43928265	44	2.0	44	95	0	160	41	14	13	30	1.84
43939017--43939105	43	2.1	43	97	0	169	34	5	11	48	1.62
43939020--43939095	24	3.4	24	64	17	63	34	5	11	48	1.62
43942727--43942764	18	2.1	18	100	0	76	26	47	5	21	1.71
43947792--43947846	25	2.2	25	90	6	85	45	5	12	36	1.66
43949601--43949665	28	2.4	28	87	5	89	60	1	6	32	1.31
43949618--43949663	13	3.4	13	77	11	56	58	2	8	30	1.40
43956274--43956361	43	2.0	43	93	0	149	34	17	12	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43959050--43959110	24	2.5	24	77	15	63	49	1	0	49	1.10
43960135--43960199	31	2.1	31	97	0	121	21	26	27	24	1.99
43960428--43960457	15	2.0	15	93	0	51	50	13	3	33	1.58
43961696--43961734	20	2.0	20	85	14	55	61	0	2	35	1.10
43972545--43972603	29	2.0	29	86	0	82	10	32	44	13	1.77
43982124--43982185	31	2.0	30	87	3	88	50	12	11	25	1.74
43995938--43995976	20	2.0	20	85	14	55	61	0	2	35	1.10
44000642--44000700	21	2.8	20	85	14	84	10	15	25	49	1.76
44009093--44009615	230	2.3	230	85	4	691	23	15	13	47	1.81
44012005--44012088	40	2.1	40	100	0	168	11	11	38	38	1.79
44012944--44012984	21	2.0	21	90	9	66	12	17	21	48	1.79
44015030--44015063	14	2.4	14	90	0	50	47	2	0	50	1.16
44019504--44019575	24	3.0	24	71	16	76	41	2	5	50	1.40
44019504--44019576	26	3.1	22	66	22	58	41	2	5	50	1.40
44020329--44020656	164	2.0	164	95	0	584	34	11	17	36	1.86
44022104--44022161	16	3.7	16	72	4	55	22	20	27	29	1.99
44022088--44022178	31	2.8	32	78	5	94	23	24	24	28	1.99
44023475--44023600	64	2.0	64	96	3	236	26	19	13	40	1.88
44024836--44024907	37	1.9	37	97	0	135	37	6	26	29	1.82
44026539--44026609	31	2.3	31	78	9	74	28	22	19	29	1.98
44026732--44026799	32	2.1	32	88	0	100	20	23	14	41	1.89
44026817--44026905	37	2.4	39	77	11	105	17	4	37	40	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44026847--44026888	15	2.9	15	75	3	50	21	7	30	40	1.80
44043616--44043719	38	2.7	38	70	2	93	21	17	24	37	1.94
44047113--44047247	48	2.8	49	83	6	168	25	20	30	24	1.98
44049162--44049296	48	2.8	49	83	6	168	25	20	30	24	1.98
44062705--44062729	6	4.2	6	100	0	50	52	16	0	32	1.44
44064451--44064499	18	2.7	17	84	12	62	69	0	2	28	1.00
44064451--44064516	18	3.6	18	82	13	57	66	0	3	30	1.06
44064838--44064962	64	2.0	64	93	0	214	43	12	22	21	1.86
44065827--44065907	40	2.0	41	87	2	119	39	1	4	54	1.30
44067369--44067430	25	2.5	25	97	0	115	22	20	19	37	1.95

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