genome.fa.s13.2.7.7.80.10.50.1000.197.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  197  of  199  ( 23770 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)
57523366--57523422	29	2.1	28	87	12	84	15	7	10	66	1.42
57525212--57525285	29	2.5	29	82	4	85	25	14	13	45	1.82
57525445--57525478	16	2.1	17	89	10	54	73	5	8	11	1.24
57527168--57527200	17	1.9	17	88	11	50	72	0	0	27	0.85
57528034--57528073	14	2.9	14	84	0	53	42	7	7	42	1.61
57528057--57528096	20	2.0	20	90	0	62	35	10	5	50	1.58
57528042--57528108	34	1.9	35	88	8	102	38	8	5	46	1.60
57535424--57535463	20	2.0	20	90	0	62	27	10	12	50	1.72
57535409--57535475	34	1.9	35	90	3	109	31	8	13	46	1.74
57535535--57535581	18	2.5	19	75	10	51	42	2	0	55	1.12
57544002--57544244	42	5.8	42	74	7	206	30	21	23	24	1.99
57544013--57544244	84	2.8	84	81	6	256	31	21	24	23	1.99
57548173--57548233	19	3.3	19	86	6	81	62	6	0	31	1.21
57548201--57548264	29	2.2	30	85	2	85	67	1	1	29	1.09
57548585--57548616	3	10.7	3	93	0	55	34	3	0	62	1.11
57551857--57551901	20	2.3	19	78	17	56	28	13	11	46	1.77
57561212--57561269	16	3.6	16	74	4	55	48	1	31	18	1.59
57570139--57570170	15	2.1	15	94	5	55	18	0	3	78	0.89
57575762--57575824	30	2.1	31	93	3	110	44	19	7	28	1.78
57583697--57583742	22	2.1	22	87	0	65	19	8	15	56	1.65
57584319--57584544	113	2.0	113	99	0	443	26	15	15	42	1.87
57585217--57585263	23	2.0	23	83	8	58	57	10	8	23	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57586184--57586216	7	4.6	7	96	3	57	33	0	0	66	0.92
57586184--57586218	14	2.4	15	90	9	63	34	0	0	65	0.93
57587394--57587425	2	16.0	2	93	0	55	46	0	0	53	1.00
57587861--57587928	30	2.2	31	81	2	84	41	14	11	32	1.82
57587868--57587927	31	2.0	30	86	3	84	43	11	10	35	1.75
57591037--57591101	30	2.2	30	97	0	121	27	30	3	38	1.72
57591259--57591285	10	2.7	10	100	0	54	25	0	0	74	0.83
57593245--57593367	58	2.1	59	80	7	135	39	3	8	49	1.49
57597971--57598085	44	2.7	43	77	11	126	30	27	16	25	1.97
57598503--57598556	26	2.0	25	86	10	72	38	5	0	55	1.23
57598507--57598556	25	2.0	25	88	7	75	40	6	0	54	1.25
57599196--57599467	124	2.2	125	88	4	397	30	16	16	36	1.91
57599542--57599730	34	5.5	34	69	9	132	47	16	2	33	1.59
57599499--57599722	105	2.1	106	89	5	339	48	19	2	29	1.63
57599657--57599780	28	4.1	29	71	14	99	45	17	0	35	1.54
57601879--57602266	141	2.9	132	81	9	430	27	12	20	38	1.90
57609670--57609727	31	1.9	29	83	13	73	27	8	8	55	1.60
57609665--57609734	30	2.4	28	79	13	79	31	7	7	54	1.55
57610965--57611037	31	2.4	31	90	0	119	42	13	12	31	1.81
57612506--57612564	31	1.9	31	89	6	93	37	16	8	37	1.80
57615160--57615206	21	2.2	21	81	7	60	27	8	4	59	1.45
57620844--57620904	31	2.0	31	83	6	79	40	6	14	37	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57623328--57623352	2	12.5	2	100	0	50	52	0	0	48	1.00
57625021--57625054	17	1.9	17	88	5	50	38	2	0	58	1.13
57625830--57625867	20	1.9	20	94	0	67	42	5	21	31	1.75
57627519--57627562	23	2.0	23	81	4	54	63	13	11	11	1.52
57627692--57627733	19	2.2	20	87	12	61	33	0	7	59	1.25
57627636--57627721	20	4.2	19	70	15	64	36	0	5	58	1.22
57629088--57629121	6	5.7	6	100	0	68	52	29	0	17	1.45
57629119--57629143	6	4.2	6	100	0	50	52	0	32	16	1.44
57629228--57629261	6	5.7	6	100	0	68	17	0	29	52	1.45
57631150--57631245	19	5.2	20	72	17	73	58	3	0	38	1.14
57631140--57631253	34	3.2	35	79	10	106	56	3	0	40	1.17
57631186--57631252	10	6.9	10	85	8	77	58	2	0	38	1.14
57631156--57631252	20	5.2	19	75	18	89	58	3	0	38	1.14
57631326--57631356	16	1.9	16	93	0	53	35	6	9	48	1.62
57634151--57634206	27	2.0	29	86	6	80	60	0	1	37	1.07
57634170--57634271	39	2.7	39	95	3	181	61	0	2	35	1.11
57634231--57634256	11	2.4	11	100	0	52	53	0	7	38	1.30
57635036--57635060	6	4.2	6	100	0	50	52	0	32	16	1.44
57635159--57635186	6	4.7	6	100	0	56	17	0	28	53	1.44
57636562--57636619	24	2.4	24	82	2	71	51	1	0	46	1.11
57637100--57637195	34	2.7	35	76	6	97	62	2	0	35	1.07
57637141--57637198	10	6.3	10	75	15	54	60	1	0	37	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57637955--57637979	2	12.5	2	100	0	50	48	0	0	52	1.00
57639978--57640007	7	4.3	7	95	0	51	10	26	33	30	1.89
57644297--57644361	29	2.2	30	77	5	69	29	16	4	49	1.66
57645130--57645180	22	2.3	22	80	12	59	19	0	5	74	1.02
57645616--57645653	19	2.0	19	89	0	58	31	13	10	44	1.77
57645664--57645712	18	2.6	18	80	6	53	26	16	8	48	1.73
57645767--57646053	17	16.2	16	72	18	171	33	11	12	42	1.79
57645774--57646070	35	8.4	35	73	14	195	31	12	12	43	1.80
57645871--57645913	21	2.1	21	86	4	61	46	9	6	37	1.63
57649433--57649472	14	2.7	16	81	14	50	57	0	2	40	1.12
57651748--57651828	24	3.3	24	72	13	67	43	0	0	56	0.99
57653150--57653182	2	16.5	2	100	0	66	51	0	0	48	1.00
57656110--57656149	14	2.7	16	81	14	50	57	2	0	40	1.12
57658184--57658230	16	2.9	16	75	12	51	48	14	4	31	1.63
57659645--57659672	14	2.0	14	100	0	56	28	28	14	28	1.95
57659669--57659732	27	2.4	27	100	0	128	23	35	7	32	1.84
57663904--57664007	48	2.2	48	96	0	190	28	22	35	13	1.92
57667690--57667806	39	3.0	39	86	3	155	37	3	0	58	1.15
57667695--57667858	40	4.3	40	75	20	158	38	3	0	58	1.14
57667718--57667858	68	2.0	69	91	5	232	39	2	0	58	1.13
57667700--57667858	39	4.2	41	72	23	136	38	3	0	58	1.14
57667750--57667826	29	2.8	28	88	5	120	40	2	0	57	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57673018--57673953	209	4.6	207	78	9	930	28	13	22	34	1.93
57673163--57674060	209	4.4	205	80	8	823	30	13	22	33	1.93
57673365--57674060	197	3.5	197	78	10	617	31	13	21	32	1.93
57677190--57677214	12	2.1	12	100	0	50	40	8	8	44	1.63
57677202--57677333	71	1.9	71	93	0	228	34	3	18	43	1.68
57685526--57685589	30	2.1	30	86	11	87	56	7	9	26	1.58
57687516--57687541	2	13.0	2	100	0	52	50	50	0	0	1.00
57689934--57689981	20	2.3	20	85	3	60	41	2	0	56	1.11
57694395--57694436	19	2.2	20	87	8	61	33	2	2	61	1.21
57698757--57698781	2	12.5	2	100	0	50	52	0	0	48	1.00
57699901--57699955	18	2.9	19	81	10	60	41	0	3	54	1.18
57699901--57699955	19	3.0	18	84	7	58	41	0	3	54	1.18
57700358--57700386	2	14.5	2	100	0	58	48	0	0	51	1.00
57706824--57706942	31	3.9	31	75	15	77	44	6	11	36	1.68
57706883--57706942	30	2.0	31	86	3	86	43	8	13	35	1.74
57708170--57708240	31	2.3	31	78	11	83	21	16	14	47	1.81
57708640--57708775	31	4.4	32	75	17	126	47	13	16	23	1.81
57710898--57710966	29	2.4	29	80	9	86	46	11	1	40	1.49
57720124--57720196	30	2.4	32	77	13	82	30	12	6	50	1.66
57724881--57725062	90	2.0	91	96	1	339	40	13	11	34	1.80
57728076--57728893	205	4.0	204	86	3	1086	31	23	16	28	1.96
57730254--57730290	3	12.3	3	94	0	65	64	2	0	32	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57731376--57731459	11	8.8	10	74	19	65	53	0	3	42	1.18
57731353--57731428	28	2.6	28	83	4	89	59	1	1	38	1.14
57731372--57731411	18	2.3	17	91	4	62	57	0	2	40	1.12
57731371--57731446	28	2.9	26	83	12	93	57	0	2	39	1.12
57731374--57731467	37	2.5	37	84	8	111	55	0	3	41	1.16
57733973--57734020	25	1.9	25	91	0	78	35	2	0	62	1.07
57737428--57737463	18	2.0	18	88	0	54	22	44	25	8	1.80
57751040--57751722	176	3.9	174	81	5	772	40	18	11	29	1.85
57751056--57751797	176	4.3	172	81	8	757	41	18	11	29	1.85
57750870--57751722	350	2.5	334	80	8	892	40	18	11	29	1.85

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