genome.fa.s4.2.7.7.80.10.50.1000.144.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: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62178258

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   

This is table  144  of  198  ( 23681 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)
45866478--45866531	7	7.6	7	77	4	54	18	0	31	50	1.48
45866479--45866531	14	3.7	14	85	5	61	18	0	32	49	1.48
45866539--45866611	28	2.6	28	77	14	78	23	0	32	43	1.54
45866569--45866610	20	2.0	21	86	4	59	21	0	30	47	1.51
45867066--45867095	15	2.0	15	93	0	51	20	0	36	43	1.52
45867103--45867164	21	2.9	21	85	7	72	24	0	35	40	1.55
45867154--45867192	7	5.6	7	96	0	69	28	0	15	56	1.40
45867150--45867199	21	2.4	21	82	0	73	26	0	24	50	1.50
45869541--45869565	13	1.9	13	100	0	50	24	8	28	40	1.83
45870154--45870197	22	2.0	21	91	4	70	40	4	13	40	1.65
45870181--45870251	22	3.2	22	63	21	58	38	7	12	42	1.70
45870176--45870269	44	2.1	44	100	0	188	42	6	13	37	1.70
45872793--45873048	42	6.1	41	88	3	350	30	20	19	29	1.97
45872793--45873048	84	3.1	84	91	1	390	30	20	19	29	1.97
45873570--45873594	2	12.5	2	100	0	50	52	48	0	0	1.00
45881019--45881109	43	2.1	43	87	2	130	34	10	9	45	1.73
45881459--45881653	42	4.6	43	82	5	173	26	13	26	33	1.94
45881581--45881666	43	2.0	43	88	0	127	27	18	23	30	1.98
45887455--45887657	85	2.4	85	83	8	243	35	13	9	41	1.77
45887799--45887885	9	9.6	9	69	16	54	64	1	2	32	1.13
45887830--45887880	26	2.0	26	84	7	68	66	1	3	27	1.20
45888142--45888207	10	6.8	10	80	1	64	33	3	1	62	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45888142--45888192	19	2.7	19	79	8	59	31	1	1	64	1.15
45888148--45888222	20	3.8	19	70	19	55	36	2	1	60	1.20
45888142--45888232	39	2.4	38	82	15	109	32	2	1	63	1.13
45888187--45888253	28	2.3	29	85	10	93	35	1	1	61	1.15
45888181--45888262	28	2.9	29	77	14	82	34	2	1	62	1.16
45889393--45889418	10	2.6	10	100	0	52	15	0	15	69	1.20
45893823--45893927	51	2.0	52	83	7	133	25	19	10	44	1.82
45893915--45894013	52	1.9	52	85	2	137	26	26	10	37	1.88
45903298--45903325	2	14.0	2	100	0	56	0	50	0	50	1.00
45905251--45905334	3	28.3	3	86	11	120	33	0	2	64	1.07
45913957--45913981	13	1.9	13	100	0	50	40	24	4	32	1.73
45926725--45926750	12	2.2	12	100	0	52	34	0	0	65	0.93
45926958--45926982	12	2.1	12	100	0	50	24	0	0	76	0.80
45928023--45928130	48	2.3	48	88	7	168	26	14	23	35	1.94
45931235--45931419	101	1.8	101	88	5	284	24	18	27	29	1.98
45931235--45931417	51	3.6	50	78	3	156	24	18	27	29	1.98
45931547--45931619	37	1.9	37	84	13	96	43	2	21	31	1.67
45944618--45944655	14	2.8	14	92	4	51	28	2	10	57	1.45
45944626--45944655	14	2.1	14	100	0	60	30	0	13	56	1.37
45945232--45945271	19	2.3	18	87	12	57	42	0	2	55	1.13
45945844--45945877	18	1.9	18	94	5	61	91	8	0	0	0.43
45945848--45945877	16	1.9	15	93	6	51	93	6	0	0	0.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45949886--45949915	14	2.1	14	100	0	60	53	20	0	26	1.46
45950209--45950242	14	2.3	15	90	5	52	41	11	2	44	1.56
45952401--45952445	21	2.1	22	84	12	58	66	8	11	13	1.44
45956854--45956902	21	2.4	21	96	3	91	40	0	12	46	1.41
45969694--45969745	28	1.9	26	88	7	77	48	0	7	44	1.31
45970667--45970728	25	2.5	25	94	0	106	25	17	22	33	1.96
45971088--45971120	2	16.5	2	100	0	66	48	0	0	51	1.00
45971149--45971180	15	2.1	16	94	5	57	12	3	12	71	1.25
45974533--45974569	18	2.1	18	94	0	65	29	5	2	62	1.31
45974533--45974564	9	3.6	9	91	0	55	28	6	0	65	1.16
45974621--45974669	19	2.7	19	79	14	59	26	2	6	65	1.27
45980219--45980305	40	2.2	40	85	8	115	31	8	20	40	1.82
45980488--45980659	45	3.9	45	82	7	208	20	19	20	40	1.92
45980478--45980659	89	2.0	88	84	6	233	20	18	19	40	1.91
45980639--45980682	6	7.2	6	79	5	52	18	20	13	47	1.82
45989951--45989985	18	1.9	18	88	0	52	77	5	2	14	1.07
45991338--45991390	18	2.9	18	80	2	61	41	45	1	11	1.51
45991482--45991539	9	6.4	9	85	0	80	25	10	20	43	1.84
45993316--45993417	20	5.1	20	74	8	82	40	15	29	14	1.87
45998692--45999150	46	10.6	45	81	12	518	28	22	14	34	1.93
45998827--45999068	36	6.0	36	74	19	187	28	20	14	36	1.92
45998781--45999114	82	4.0	82	94	1	551	29	21	14	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45998781--45999150	128	2.9	128	76	11	422	29	21	13	35	1.92
46001542--46001578	5	7.4	5	100	0	74	81	0	0	18	0.70
46003203--46003279	19	3.7	21	80	13	68	40	16	6	36	1.75
46003203--46003260	22	2.6	22	81	7	64	41	17	5	36	1.72
46003239--46003292	19	2.8	19	100	0	108	35	16	11	37	1.84
46005310--46005377	24	2.8	24	84	6	75	48	11	10	29	1.73
46005487--46005516	15	2.0	15	93	0	51	70	0	0	30	0.88
46005820--46005882	31	2.0	32	96	3	119	42	15	9	31	1.79
46011579--46011665	21	4.3	21	68	25	71	2	13	10	73	1.18
46011584--46011622	17	2.3	17	86	0	51	0	12	10	76	1.01
46012247--46012309	31	2.0	32	96	3	119	42	15	9	31	1.79
46012669--46012706	20	2.0	20	85	10	53	23	44	2	28	1.67
46021209--46021284	32	2.4	32	84	0	98	44	6	25	23	1.77
46025684--46025759	32	2.4	32	84	0	107	44	7	23	23	1.79
46026736--46026783	19	2.6	19	78	18	57	60	0	2	37	1.09
46026870--46026922	16	2.8	19	76	18	58	45	0	30	24	1.54
46027928--46027969	22	1.9	22	85	0	57	57	9	4	28	1.51
46033610--46033708	37	2.5	39	82	8	121	53	4	4	38	1.39
46034369--46034413	22	2.0	22	100	0	90	13	31	22	33	1.92
46035370--46035433	26	2.5	25	84	5	74	18	29	15	35	1.92
46038042--46038088	20	2.4	19	76	13	51	29	8	0	61	1.25
46050120--46050145	8	3.2	8	100	0	52	50	15	0	34	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46050989--46051066	34	2.4	33	79	14	90	67	3	2	25	1.20
46054385--46054450	30	2.2	30	88	0	114	25	28	28	16	1.97
46058310--46058343	18	1.9	17	88	5	50	50	0	2	47	1.16
46058565--46058616	26	2.0	26	85	3	70	26	3	1	67	1.18
46058577--46058670	27	3.5	26	70	22	68	31	4	3	60	1.32
46059501--46059553	21	2.5	21	81	0	61	32	33	7	26	1.84
46061860--46061897	20	1.9	19	89	5	58	76	2	18	2	1.02
46068606--46068641	15	2.5	14	86	8	54	44	8	0	47	1.33
46070333--46070390	29	2.0	29	100	0	116	31	10	24	34	1.89
46078896--46078950	16	3.5	15	76	11	56	43	5	0	50	1.25
46080745--46080795	25	2.0	26	88	3	77	15	3	5	74	1.16
46080746--46080815	13	5.3	13	76	8	61	11	2	8	77	1.10
46080774--46080813	14	2.9	14	88	3	55	7	2	10	80	1.00
46080849--46080935	19	4.8	18	79	14	92	40	0	0	59	0.97
46080841--46080914	34	2.2	32	80	17	87	36	0	0	63	0.95
46080855--46080932	18	4.4	16	77	16	75	38	0	0	61	0.96
46080990--46081063	8	8.0	8	83	16	58	35	0	1	63	1.03
46081007--46081059	10	5.3	10	79	20	58	30	0	1	67	1.01
46080956--46081183	115	1.9	118	87	9	342	35	2	3	57	1.31
46081397--46081581	86	2.2	85	95	1	334	29	2	25	42	1.69
46087410--46087452	19	2.3	19	88	4	70	37	9	0	53	1.33
46087475--46087519	12	3.6	12	77	11	54	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46087672--46087725	21	2.6	21	91	2	83	51	0	0	48	1.00
46087688--46087754	35	2.0	33	85	5	89	56	0	1	41	1.08
46087723--46087769	24	2.0	25	87	8	71	59	0	4	36	1.17
46089414--46089468	27	2.0	27	92	0	92	20	12	12	54	1.70
46095009--46095047	18	2.2	18	90	0	60	51	23	7	17	1.71
46096590--46096620	15	2.0	16	93	6	55	3	51	38	6	1.44
46097315--46097519	42	4.9	41	88	4	243	28	21	23	25	1.99
46097315--46097520	85	2.4	83	85	7	258	29	21	23	25	1.99
46097941--46098012	21	3.4	21	90	3	101	4	45	16	33	1.67
46100624--46100880	113	2.3	113	78	7	279	25	21	18	34	1.96

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