genome.fa.s13.2.7.7.80.10.50.1000.146.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  146  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)
43870896--43870972	27	2.9	26	82	5	91	55	5	0	38	1.22
43871110--43871216	40	2.6	42	78	15	116	64	0	35	0	0.94
43871121--43871244	19	6.3	19	66	17	56	66	0	32	0	0.97
43871124--43871251	11	12.8	10	66	20	54	67	0	31	0	0.96
43871163--43871248	43	2.0	43	84	13	115	69	0	29	1	0.96
43871119--43871251	30	4.5	27	75	16	90	67	0	31	0	0.96
43872027--43872079	21	2.6	20	88	5	79	50	0	37	11	1.38
43880623--43880654	3	10.7	3	100	0	64	68	31	0	0	0.90
43880887--43880989	54	1.9	54	84	4	136	17	28	27	27	1.98
43880887--43880989	27	3.8	27	84	2	118	17	28	27	27	1.98
43881054--43881123	26	2.6	27	90	4	106	50	0	8	41	1.33
43893026--43893075	26	1.9	26	95	0	91	28	14	8	50	1.70
43894401--43894452	26	2.0	26	96	0	95	30	13	7	48	1.71
43912374--43912408	6	5.8	6	96	0	61	85	2	11	0	0.69
43919541--43919779	72	3.3	72	91	1	365	55	15	5	23	1.61
43920208--43920255	18	2.7	18	96	0	87	39	12	12	35	1.81
43922821--43922859	20	2.0	20	89	0	60	46	17	7	28	1.76
43930380--43930433	21	2.5	22	82	8	67	33	7	31	27	1.84
43931528--43931582	20	2.7	20	88	5	74	7	9	16	67	1.40
43932056--43932591	114	4.7	114	85	1	675	27	22	24	25	2.00
43932491--43932664	73	2.4	72	91	3	269	27	22	24	24	2.00
43932396--43932773	187	2.0	185	86	4	521	27	21	24	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43933770--43934191	114	3.7	113	91	2	677	25	22	26	25	2.00
43934282--43934336	25	2.2	26	81	9	71	63	7	7	21	1.44
43934449--43934479	15	2.1	15	93	0	53	19	0	45	35	1.51
43934471--43934500	14	2.1	14	93	0	51	30	0	33	36	1.58
43934783--43934822	20	2.0	20	90	0	62	20	0	42	37	1.52
43934840--43934934	22	4.1	22	78	16	111	21	1	42	35	1.60
43935745--43935885	75	1.9	76	90	1	230	51	11	9	27	1.68
43943799--43943864	29	2.2	29	79	12	71	45	6	15	33	1.70
43952415--43952454	20	2.0	20	100	0	80	40	25	15	20	1.90
43952415--43952463	20	2.5	20	93	0	71	44	20	14	20	1.86
43956846--43956904	26	2.3	25	85	2	73	37	20	25	16	1.93
43957343--43957387	21	2.2	20	84	4	54	44	13	0	42	1.43
43965016--43965193	98	1.8	97	90	2	286	46	17	10	25	1.79
43965128--43965188	28	2.2	28	88	5	88	32	22	9	34	1.87
43969872--43969937	22	2.9	24	71	11	66	57	4	1	36	1.28
43977518--43977561	22	2.0	23	86	13	65	36	20	2	40	1.65
43978242--43978334	46	2.0	45	87	6	134	46	40	2	10	1.51
43978250--43978334	23	3.8	22	86	9	118	47	38	2	11	1.53
43978299--43978368	34	2.0	35	91	2	115	52	31	1	14	1.50
43978321--43978346	12	2.2	12	100	0	52	57	26	0	15	1.38
43978276--43978392	57	2.0	58	88	4	175	49	35	2	12	1.55
43989647--43989831	37	5.1	37	85	2	257	42	28	11	17	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43993358--43993444	37	2.4	37	88	1	131	13	12	31	42	1.82
44002375--44002426	27	1.9	27	84	7	70	30	15	11	42	1.82
44005043--44005084	19	2.3	18	80	11	50	61	2	26	9	1.39
44010965--44010997	16	2.0	17	88	5	50	33	6	27	33	1.81
44015577--44015623	21	2.2	21	92	0	76	40	0	12	46	1.42
44023600--44023638	18	2.1	19	90	4	62	58	7	7	25	1.52
44024925--44024961	17	2.2	17	100	0	74	59	5	10	24	1.52
44026936--44027073	70	2.0	69	94	1	240	40	15	6	36	1.74
44029704--44029763	27	2.2	27	93	0	102	16	33	25	25	1.96
44029787--44029822	16	2.2	17	95	5	65	66	5	0	27	1.13
44029801--44030089	105	2.8	100	86	8	381	55	15	0	29	1.43
44029945--44030125	99	1.8	98	79	10	208	56	14	0	28	1.43
44030579--44030615	8	4.6	8	90	9	58	27	0	0	72	0.84
44030584--44030619	9	4.1	9	92	3	56	25	0	0	75	0.81
44030741--44030782	17	2.5	17	100	0	84	66	11	16	4	1.40
44046766--44046892	43	2.8	45	78	5	141	40	16	19	23	1.91
44046907--44047023	45	2.6	45	86	0	162	40	17	20	21	1.92
44048505--44048548	20	2.2	20	88	8	63	18	6	18	56	1.62
44049024--44049270	29	8.4	29	78	4	192	51	12	11	23	1.73
44049018--44049270	117	2.2	117	82	7	300	51	12	11	24	1.73
44049022--44049270	59	4.2	58	80	5	259	51	12	12	24	1.74
44058398--44058651	138	1.8	137	88	0	391	33	25	20	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44063026--44063050	3	8.3	3	100	0	50	0	68	32	0	0.90
44069763--44069817	11	4.9	11	82	17	69	83	0	16	0	0.64
44069761--44069818	14	3.9	14	81	16	64	84	0	15	0	0.62
44071157--44071267	44	2.5	44	77	8	120	26	22	23	27	1.99
44071828--44071986	44	3.6	44	82	3	160	27	20	22	29	1.98
44074430--44074483	27	2.0	28	88	3	83	18	20	29	31	1.96
44074462--44074747	33	7.8	33	65	20	122	19	17	26	35	1.95
44074458--44074742	76	3.8	75	85	2	392	20	17	27	35	1.94
44078723--44078778	21	2.8	19	82	10	76	39	8	14	37	1.77
44078757--44078801	23	2.0	22	82	4	54	40	6	17	35	1.76
44079004--44079048	23	2.0	23	81	0	54	22	0	15	62	1.33
44079191--44079239	23	2.2	22	82	10	55	36	2	0	61	1.08
44079705--44079743	3	13.0	3	100	0	78	33	0	0	66	0.92
44084027--44084255	102	2.2	102	88	3	345	22	19	26	31	1.97
44084158--44084369	76	2.8	76	84	2	275	21	20	25	32	1.97
44086735--44086851	57	2.0	58	95	1	209	23	11	14	49	1.77
44088201--44088233	14	2.4	14	90	5	50	45	3	3	48	1.33
44092521--44092562	22	2.0	21	86	13	59	11	4	7	76	1.15
44093349--44093411	4	16.0	4	76	15	51	19	0	6	74	1.02
44093357--44093410	28	1.9	28	85	7	74	16	0	7	75	1.01
44093478--44093526	3	16.3	3	100	0	98	34	0	0	65	0.93
44100434--44100483	24	2.1	24	100	0	100	42	26	16	16	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44112477--44112519	20	2.2	20	86	0	59	39	18	6	34	1.78
44112481--44112555	30	2.5	30	82	0	87	34	21	8	36	1.83
44112509--44112548	15	2.7	15	84	0	53	37	20	5	37	1.74
44113825--44113882	22	2.6	22	73	10	57	74	3	12	10	1.19
44117014--44117039	13	2.0	13	100	0	52	69	0	15	15	1.20
44121708--44121777	35	2.0	35	91	0	113	32	24	5	37	1.79
44126831--44126901	35	2.0	35	94	0	124	29	25	8	36	1.85
44136002--44136062	31	1.9	32	83	3	79	21	9	3	65	1.37
44136302--44136326	12	2.1	12	100	0	50	76	8	0	16	1.02
44138835--44138877	17	2.5	17	88	7	61	13	23	34	27	1.93
44138850--44138929	35	2.3	34	80	6	81	15	18	28	37	1.91
44143303--44143368	17	3.9	16	70	18	53	16	18	27	37	1.92
44144726--44144829	52	2.0	52	100	0	208	42	7	17	32	1.77
44148810--44148893	28	3.0	28	72	10	82	35	0	2	61	1.09
44149480--44149686	79	2.6	79	83	4	274	40	16	15	28	1.89
44151887--44152081	97	2.0	97	98	0	381	20	23	13	43	1.87
44152452--44152511	10	5.9	10	84	11	86	48	0	8	43	1.33
44155478--44155522	23	2.0	23	86	8	65	40	0	4	55	1.20
44164906--44164948	15	2.8	15	78	3	50	18	32	0	48	1.48
44165090--44165130	19	2.0	21	86	9	59	14	29	2	53	1.54
44171904--44172013	50	2.2	50	93	0	184	28	10	30	30	1.91
44172194--44172372	39	4.6	39	82	4	209	30	5	21	42	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44177169--44177254	42	2.1	40	93	4	145	22	22	18	37	1.94
44182029--44182080	18	2.9	17	83	13	61	65	3	0	30	1.10
44182020--44182079	19	3.2	19	81	11	79	65	3	0	31	1.09
44182020--44182094	36	2.1	37	87	2	107	68	2	0	29	1.04
44183387--44183707	106	3.0	106	91	1	500	37	13	11	38	1.80
44186534--44186569	2	18.0	2	100	0	72	50	0	0	50	1.00
44187839--44187962	62	2.0	62	93	0	212	37	19	8	34	1.81
44189554--44189601	7	6.9	7	95	0	78	14	4	41	39	1.65
44194563--44194611	21	2.4	19	81	15	62	26	2	2	69	1.10
44194563--44194624	22	2.7	24	71	19	60	27	1	1	69	1.07

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