genome.fa.s7.2.7.7.80.10.50.1000.144.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  144  of  204  ( 24458 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)
43419042--43419241	102	2.0	102	94	2	357	32	4	49	14	1.62
43419342--43419778	29	14.5	29	82	7	498	53	0	9	36	1.38
43419342--43419781	60	7.3	59	83	7	528	53	0	9	36	1.38
43419342--43419779	185	2.4	183	88	5	633	53	0	9	36	1.38
43423413--43423467	21	2.6	21	97	0	101	27	40	10	21	1.87
43427185--43427220	17	2.1	18	89	5	56	63	0	2	33	1.08
43428732--43428774	21	2.0	21	86	0	59	20	11	23	44	1.84
43430935--43430975	13	2.9	15	89	10	61	43	0	0	56	0.99
43432333--43432476	31	4.5	34	79	12	155	40	3	0	54	1.22
43432358--43432403	24	2.0	23	86	4	65	43	2	2	52	1.25
43447241--43447714	231	2.1	231	86	2	648	26	32	5	35	1.80
43447245--43447774	231	2.3	231	83	3	613	27	31	6	34	1.81
43448282--43448317	7	5.1	7	93	0	63	69	0	2	27	1.02
43451485--43451536	24	2.2	24	86	6	70	42	13	9	34	1.77
43458670--43458745	40	1.9	40	88	0	116	36	21	21	21	1.95
43463838--43463870	2	16.5	2	100	0	66	51	0	0	48	1.00
43464413--43464608	45	4.5	44	78	14	185	28	27	18	26	1.98
43466955--43467062	49	2.3	47	81	7	123	47	8	16	27	1.75
43476638--43476688	25	2.0	26	96	3	95	35	23	3	37	1.74
43479182--43479233	24	2.2	24	92	0	86	32	7	13	46	1.72
43481593--43481632	20	2.0	20	90	0	62	42	2	0	55	1.13
43481613--43481644	8	4.1	8	96	4	57	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43481618--43481674	27	2.1	27	83	6	71	29	0	3	66	1.08
43481874--43481901	5	5.6	5	100	0	56	21	0	0	78	0.75
43484807--43485134	27	12.2	27	82	6	335	42	20	16	21	1.90
43485368--43485444	26	3.0	26	90	3	111	16	22	25	35	1.95
43485550--43485667	28	4.2	28	79	4	130	23	20	22	33	1.97
43492176--43492228	3	17.7	3	96	0	97	33	0	0	66	0.92
43492355--43492388	16	2.1	16	94	0	59	44	11	2	41	1.56
43496731--43496769	14	2.8	13	81	11	51	79	0	20	0	0.73
43497319--43497379	27	2.3	26	75	13	61	49	1	3	45	1.28
43500479--43500521	22	2.0	22	90	0	68	27	25	34	11	1.91
43501214--43501239	13	2.0	13	100	0	52	46	7	7	38	1.61
43503462--43503644	68	2.7	69	82	4	199	35	22	19	21	1.96
43503462--43503644	69	2.7	68	82	2	206	35	22	19	21	1.96
43503665--43503876	58	3.7	57	77	9	191	27	21	14	37	1.92
43506844--43506915	22	3.5	22	71	21	82	59	9	1	29	1.38
43506860--43506923	20	3.2	20	68	24	62	60	9	1	28	1.36
43506846--43506926	40	2.0	40	100	0	162	58	9	2	29	1.44
43509889--43509975	43	2.0	43	100	0	174	43	6	34	14	1.73
43510110--43510161	27	2.0	26	84	3	68	51	5	28	13	1.64
43512023--43512056	17	2.0	17	100	0	68	23	11	11	52	1.70
43515814--43515868	27	2.0	28	83	13	71	50	3	7	38	1.48
43517094--43517140	21	2.2	21	77	7	51	68	4	0	27	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43523350--43523404	28	2.0	28	82	7	67	38	5	1	54	1.34
43523447--43523500	23	2.3	23	75	12	56	46	0	1	51	1.11
43523681--43523706	7	3.7	7	100	0	52	15	11	0	73	1.11
43524174--43524207	13	2.6	13	85	0	50	38	5	5	50	1.51
43524416--43524468	20	2.8	19	78	18	58	52	1	3	41	1.30
43527537--43527614	25	3.2	25	81	15	99	32	24	24	19	1.98
43527516--43527624	50	2.2	50	88	8	161	34	22	22	20	1.96
43530184--43530214	16	1.9	16	100	0	62	38	6	22	32	1.80
43530577--43530615	21	1.9	21	89	5	62	48	15	5	30	1.66
43538412--43538484	27	2.8	26	74	15	69	31	17	9	41	1.82
43542385--43542416	13	2.4	14	89	10	57	59	25	0	15	1.36
43544477--43544514	20	1.9	20	94	0	67	13	36	21	28	1.91
43545613--43545724	41	2.8	41	79	1	118	34	15	27	22	1.94
43545649--43545739	41	2.2	41	88	0	128	34	16	26	23	1.95
43547988--43548029	9	4.6	9	86	13	59	54	21	2	21	1.56
43547997--43548030	14	2.4	15	90	9	54	55	20	2	20	1.56
43551684--43551760	25	3.2	24	74	15	70	53	5	1	40	1.32
43551703--43551760	17	3.6	17	75	15	52	55	3	0	41	1.17
43553344--43553375	15	2.1	15	94	0	55	65	6	15	12	1.44
43553762--43553952	28	6.7	27	70	14	118	18	14	29	37	1.90
43553762--43553952	58	3.3	57	78	6	181	18	14	29	37	1.90
43553763--43553923	29	5.6	29	69	14	109	18	14	31	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43557139--43557180	21	2.0	21	81	9	50	45	7	4	42	1.52
43563870--43563899	16	1.9	15	93	6	51	40	0	20	40	1.52
43567402--43567430	10	2.7	11	94	5	51	44	0	3	51	1.18
43578743--43578784	21	2.0	21	95	0	75	21	14	16	47	1.82
43600156--43600225	26	2.7	26	76	17	65	45	2	4	47	1.37
43601860--43601895	16	2.2	17	90	5	56	61	0	2	36	1.11
43613024--43613056	16	2.1	16	88	5	50	45	3	0	51	1.16
43618659--43618755	25	3.9	24	72	18	83	19	22	24	32	1.97
43618647--43618761	50	2.3	48	79	11	126	21	22	23	32	1.98
43619861--43619891	12	2.6	12	94	0	53	22	41	29	6	1.78
43622800--43622859	20	3.0	20	85	4	77	70	1	1	26	1.07
43622804--43622848	6	7.2	6	80	9	54	73	0	0	26	0.84
43632530--43632587	27	2.1	27	96	0	107	22	29	31	17	1.96
43632730--43632768	19	2.0	21	85	10	55	23	0	10	66	1.22
43632814--43632880	3	22.3	3	90	0	107	32	4	0	62	1.15
43632879--43632925	3	15.7	3	93	0	76	2	2	31	63	1.18
43636004--43636073	34	2.1	34	94	0	122	40	10	11	38	1.75
43638888--43638955	27	2.5	27	95	0	118	14	26	30	27	1.95
43639015--43639070	27	2.0	28	89	3	87	53	0	5	41	1.24
43639019--43639082	27	2.4	27	84	5	85	50	1	7	40	1.41
43642513--43642570	22	2.6	22	81	7	64	41	17	5	36	1.72
43644189--43644243	17	3.2	17	79	5	56	67	0	30	1	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43644849--43644894	23	2.0	24	91	4	76	26	23	4	45	1.71
43646087--43646140	28	1.9	28	84	0	72	42	14	11	31	1.81
43646112--43646160	25	1.9	25	83	4	62	44	14	12	28	1.81
43646131--43646380	80	3.2	77	84	5	315	48	25	7	19	1.74
43648383--43648521	41	3.4	41	92	0	233	29	17	20	31	1.96
43648459--43648584	63	2.0	63	93	0	216	26	17	20	34	1.95
43648418--43648619	104	1.9	104	81	4	237	27	18	20	33	1.96
43648784--43648812	2	14.5	2	100	0	58	48	0	0	51	1.00
43652590--43652647	28	2.1	27	87	6	82	63	17	3	15	1.44
43652645--43652681	16	2.2	17	95	4	67	59	24	0	16	1.37
43653052--43653092	21	2.0	21	90	0	64	29	29	19	21	1.98
43664145--43664187	22	2.0	20	82	8	50	48	13	0	37	1.43
43675239--43675297	26	2.3	26	96	0	109	44	5	0	50	1.24
43675355--43675454	27	3.7	27	82	0	119	29	24	30	17	1.97
43675591--43675629	19	2.0	21	85	10	55	17	0	12	69	1.19
43675675--43675731	3	19.0	3	100	0	114	33	0	0	66	0.92
43681633--43681779	37	3.9	37	79	11	163	0	32	0	67	0.91
43681613--43681807	37	5.2	37	78	12	161	0	31	0	68	0.90
43681679--43681812	4	34.0	4	73	20	72	0	31	0	68	0.90
43681615--43681781	78	2.2	78	92	5	277	0	29	0	70	0.88
43681672--43681808	10	14.5	10	68	24	61	0	32	0	67	0.91
43681613--43681811	78	2.6	77	84	11	270	0	31	0	68	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43681843--43681921	27	2.9	27	94	0	131	13	31	25	29	1.94
43681978--43682038	27	2.3	27	91	0	104	49	0	8	42	1.32
43685434--43685757	161	2.0	158	88	4	490	40	8	21	29	1.83
43696538--43696567	2	15.0	2	92	0	51	46	0	3	50	1.18
43700263--43700296	14	2.5	14	90	4	52	17	0	32	50	1.47
43700848--43700876	13	2.1	14	93	6	51	41	0	0	58	0.98
43702308--43702346	13	2.9	13	81	7	51	30	0	0	69	0.89
43701779--43702471	365	1.9	364	85	5	954	38	17	8	36	1.79
43702579--43702754	57	3.1	57	96	2	322	35	21	7	35	1.82
43709181--43709322	57	2.5	53	78	17	144	29	22	24	23	1.99

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