genome.fa.s13.2.7.7.80.10.50.1000.131.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  131  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)
39582894--39583350	216	2.1	211	87	2	646	27	23	20	28	1.99
39583191--39583350	44	3.6	45	78	11	152	25	25	20	28	1.99
39597147--39597200	25	2.2	25	89	0	81	33	0	5	61	1.19
39597153--39597206	25	2.2	25	82	0	63	42	0	5	51	1.25
39597826--39597919	48	2.0	48	91	0	152	39	15	14	29	1.88
39599930--39599986	25	2.4	25	81	18	70	29	5	3	61	1.35
39599930--39599969	22	1.9	21	90	10	64	25	5	2	67	1.23
39600475--39600544	24	2.8	25	67	6	61	38	4	4	52	1.41
39604593--39604632	21	2.0	20	85	9	55	57	10	0	32	1.32
39605990--39606047	30	1.9	30	96	0	107	17	34	31	17	1.93
39612358--39612452	46	2.1	46	93	0	163	42	22	2	33	1.65
39615738--39615773	16	2.2	17	90	5	56	36	2	0	61	1.11
39621524--39621674	76	2.0	76	98	0	293	54	9	3	31	1.52
39622963--39622996	8	4.5	8	85	14	54	11	14	50	23	1.76
39622963--39623014	22	2.4	22	86	0	68	15	9	50	25	1.74
39629550--39629687	68	2.0	71	88	8	212	40	4	4	50	1.42
39631932--39631962	15	2.1	15	93	0	53	19	32	38	9	1.84
39632086--39632290	82	2.5	82	89	1	304	18	25	20	35	1.95
39632062--39632341	41	6.8	41	77	5	244	18	26	21	33	1.96
39632062--39632341	82	3.4	82	81	3	269	18	26	21	33	1.96
39637644--39637696	21	2.5	21	84	9	72	39	1	1	56	1.21
39637769--39637890	12	10.1	12	69	21	51	50	17	0	31	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39637767--39637833	21	3.0	21	69	25	57	47	16	1	34	1.56
39637852--39638422	9	64.7	9	67	20	248	45	19	2	32	1.63
39637713--39637921	97	2.2	97	89	4	316	49	16	0	33	1.50
39638135--39638422	25	11.2	25	73	13	187	46	20	2	31	1.64
39637852--39638422	16	32.3	18	67	20	248	45	19	2	32	1.63
39638161--39638265	43	2.5	41	84	9	138	48	20	0	30	1.50
39637878--39638422	34	16.2	35	67	20	192	45	19	2	33	1.63
39638235--39638390	59	2.6	59	92	3	249	46	19	2	32	1.63
39638164--39638422	59	4.3	59	81	10	244	45	20	1	32	1.62
39644077--39644125	21	2.3	21	85	0	62	36	18	40	4	1.70
39644229--39644267	19	2.1	19	95	0	69	28	10	2	58	1.44
39644443--39644794	43	8.2	43	80	8	328	27	19	28	24	1.99
39644460--39644798	129	2.6	127	82	5	398	27	20	28	24	1.99
39652683--39652732	15	3.4	14	83	8	64	80	0	16	4	0.87
39656948--39656986	4	10.0	4	83	5	53	25	25	2	46	1.66
39665304--39666064	76	10.1	75	81	7	701	26	17	20	34	1.95
39665305--39666056	308	2.5	301	84	6	984	26	17	21	34	1.95
39666546--39666676	29	4.5	29	78	6	122	30	19	1	48	1.59
39666549--39666688	58	2.4	58	84	7	176	28	22	2	46	1.64
39666964--39667004	19	2.2	19	95	0	73	58	0	41	0	0.98
39667096--39667160	5	13.2	5	75	15	64	76	1	20	1	0.94
39667100--39667157	28	2.0	31	90	10	95	75	1	20	1	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39672708--39672802	43	2.2	43	86	3	138	28	29	18	23	1.98
39673164--39673301	66	2.1	65	85	8	181	15	25	17	42	1.88
39678665--39678696	7	4.6	7	96	0	55	40	15	9	34	1.80
39678745--39678884	9	16.0	9	78	12	141	33	0	20	46	1.51
39678745--39678861	36	3.3	36	85	7	159	34	0	19	46	1.51
39678776--39678886	43	2.6	43	88	7	163	32	0	20	46	1.51
39678905--39678971	35	1.9	35	93	0	116	37	5	11	44	1.66
39678972--39678998	13	2.1	13	100	0	54	37	11	0	51	1.37
39680049--39680094	23	2.1	22	88	8	67	45	6	21	26	1.76
39680135--39680165	12	2.6	12	94	0	53	19	45	0	35	1.51
39688633--39688751	41	2.9	41	83	1	150	17	25	17	39	1.91
39691934--39691969	18	2.1	18	89	5	56	58	0	0	41	0.98
39695961--39696016	29	1.9	29	82	7	69	39	3	1	55	1.28
39701615--39701690	22	3.2	23	75	19	68	38	1	7	52	1.39
39701679--39701752	23	3.1	24	71	9	71	39	0	1	59	1.06
39701672--39701739	23	2.8	23	72	17	57	42	0	1	55	1.08
39710523--39710647	40	3.2	40	78	13	134	18	17	24	40	1.91
39711350--39711383	12	2.8	13	86	13	54	14	0	29	55	1.40
39717509--39717546	19	2.0	19	100	0	76	26	5	10	57	1.53
39721989--39722015	3	9.0	3	100	0	54	33	33	0	33	1.58
39727368--39728145	386	2.0	386	100	0	1556	32	15	18	33	1.93
39728892--39728940	24	2.0	24	96	0	89	46	8	24	20	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39731746--39732037	43	6.8	43	90	1	451	29	32	18	19	1.96
39732758--39732809	23	2.3	23	79	0	59	34	7	30	26	1.85
39733269--39733298	12	2.5	12	100	0	60	50	10	6	33	1.62
39735490--39735775	145	2.0	143	96	1	527	33	11	16	39	1.84
39736720--39736774	28	1.9	29	85	3	76	41	41	0	16	1.48
39736750--39736909	82	2.0	82	88	5	243	46	25	1	26	1.60
39736753--39736936	82	2.2	81	82	7	219	47	25	1	26	1.59
39737011--39737042	14	2.2	15	94	5	57	37	31	0	31	1.58
39737409--39737772	41	8.9	41	91	1	550	29	22	21	26	1.99
39737817--39737894	39	2.0	39	87	2	111	24	26	20	28	1.99
39737816--39737938	40	3.1	40	83	3	142	21	23	21	34	1.97
39744753--39744803	21	2.4	21	90	0	84	17	15	27	39	1.90
39747987--39748024	19	2.0	19	89	0	58	73	10	7	7	1.24
39747959--39748016	30	1.9	31	92	3	100	68	10	12	8	1.38
39752934--39753009	37	2.1	36	83	11	93	53	2	2	40	1.28
39753383--39753425	19	2.3	19	91	0	68	32	0	6	60	1.23
39754578--39754613	15	2.5	14	86	8	54	69	11	5	13	1.34
39759133--39759159	5	5.4	5	100	0	54	81	0	0	18	0.69
39760748--39760780	16	2.1	16	100	0	66	36	0	30	33	1.58
39760742--39760778	16	2.4	15	86	8	56	40	0	32	27	1.57
39780644--39780688	20	2.2	20	88	0	63	37	20	17	24	1.93
39785749--39785802	19	2.8	19	77	2	54	9	7	14	68	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39786334--39786446	40	2.8	40	73	7	113	38	19	21	21	1.94
39786429--39786473	20	2.2	20	84	0	54	44	22	13	20	1.85
39788082--39788148	9	7.4	9	93	0	98	25	10	25	38	1.87
39788211--39788270	28	2.2	27	81	3	66	40	6	16	36	1.75
39791461--39791503	21	2.0	21	82	8	52	46	2	4	46	1.36
39794809--39794941	19	6.8	19	86	5	185	39	8	14	37	1.76
39794809--39794964	57	2.6	58	86	7	206	39	7	14	38	1.75
39794809--39794964	19	7.7	22	80	13	128	39	7	14	38	1.75
39795433--39795500	31	2.2	31	79	10	77	16	5	2	75	1.13
39795567--39795625	22	2.5	22	84	13	66	28	1	3	66	1.18
39808155--39808246	19	4.8	19	86	0	130	40	8	13	38	1.75
39808155--39808246	38	2.4	38	98	0	175	40	8	13	38	1.75
39808766--39808819	10	5.3	10	82	12	58	18	3	0	77	0.91
39820390--39820431	2	21.5	2	95	4	77	52	0	0	47	1.00
39828937--39828996	30	2.0	30	96	0	111	26	15	18	40	1.90
39829103--39829140	19	2.0	19	100	0	76	26	36	10	26	1.89
39834207--39834400	50	3.8	50	88	5	237	24	28	22	24	1.99
39837450--39837551	33	3.2	32	66	20	86	38	14	10	36	1.81
39837431--39837581	64	2.4	64	98	0	293	40	13	9	35	1.79
39850281--39850528	50	4.8	50	84	3	280	27	22	28	21	1.99
39853197--39853243	24	2.0	22	84	8	58	21	29	14	34	1.93
39856072--39856110	20	2.0	20	94	0	69	10	30	17	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39861268--39861349	3	27.3	3	100	0	164	0	32	0	67	0.91
39863374--39863407	14	2.3	14	90	10	50	88	0	11	0	0.52
39872790--39872842	27	1.9	27	84	3	70	64	1	0	33	1.05
39878100--39878162	27	2.2	29	78	18	71	39	3	1	55	1.25
39886964--39886997	16	2.2	15	94	5	59	52	0	0	47	1.00
39901684--39901813	68	1.9	68	88	3	199	49	4	3	42	1.41
39905508--39905549	19	2.1	21	91	8	70	40	9	0	50	1.35
39910849--39910912	26	2.4	27	79	10	69	62	23	1	12	1.38
39910930--39910978	20	2.5	20	78	18	57	44	30	6	18	1.74
39911054--39911092	14	2.9	14	92	3	62	48	25	0	25	1.51

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