genome.fa.s3.2.7.7.80.10.50.1000.38.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  38  of  150  ( 17918 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)
10333146--10333182	19	1.9	20	94	5	67	13	5	37	43	1.67
10333488--10333584	29	3.4	29	68	13	83	31	15	25	26	1.96
10333506--10333667	28	5.7	29	69	7	100	32	17	24	25	1.97
10333488--10333650	57	2.9	57	83	0	173	33	17	22	26	1.96
10341882--10341922	18	2.3	19	80	20	52	56	29	0	14	1.39
10343411--10343477	33	2.0	33	91	0	107	31	14	32	20	1.93
10351978--10352070	19	4.9	20	72	22	85	74	0	5	20	1.01
10351979--10352067	29	3.1	27	84	13	101	74	0	5	20	1.02
10365489--10365553	27	2.4	27	84	0	85	32	24	24	18	1.97
10374889--10374974	24	3.6	24	85	0	109	22	18	25	33	1.96
10376856--10376887	14	2.3	15	89	10	50	46	3	0	50	1.17
10377092--10377133	21	2.0	21	90	0	66	54	0	4	40	1.21
10382611--10382655	19	2.4	19	92	0	81	26	26	22	24	2.00
10383966--10384018	20	2.6	21	77	14	58	30	22	37	9	1.86
10385915--10385952	20	1.9	19	94	5	67	31	15	28	23	1.96
10388866--10388890	6	4.2	6	100	0	50	52	0	32	16	1.44
10393566--10393616	23	2.2	23	89	0	75	29	21	27	21	1.99
10393608--10393738	23	5.7	23	81	2	129	45	24	16	14	1.84
10395134--10395185	25	2.1	25	88	0	77	34	13	3	48	1.61
10400210--10400270	29	2.1	29	90	0	95	31	8	18	42	1.79
10401690--10401728	6	6.3	6	82	5	51	61	0	23	15	1.33
10404487--10404591	28	3.8	29	78	6	119	34	12	24	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10405523--10405644	27	4.6	27	90	1	176	25	24	11	38	1.89
10427436--10427479	18	2.4	18	85	11	54	75	0	25	0	0.81
10427404--10427475	22	3.3	22	78	16	62	72	4	22	1	1.10
10430224--10430262	20	2.0	20	84	0	51	38	25	7	28	1.83
10431268--10431297	15	2.0	15	93	0	51	50	0	0	50	1.00
10440631--10440866	50	4.7	50	78	4	228	22	27	22	27	1.99
10440631--10440871	100	2.4	99	80	3	268	22	27	22	27	1.99
10444909--10444949	14	2.9	15	82	10	59	26	24	24	24	2.00
10459265--10459645	40	9.6	40	86	1	478	13	29	18	38	1.89
10459265--10459645	20	19.1	20	66	8	159	13	29	18	38	1.89
10476334--10476380	19	2.4	19	86	10	60	65	0	8	25	1.20
10478219--10478260	19	2.2	19	100	0	84	38	21	14	26	1.91
10482833--10482874	19	2.2	19	100	0	84	38	21	14	26	1.91
10489011--10489278	140	1.9	141	94	0	475	26	18	18	36	1.94
10496192--10496246	23	2.4	23	81	3	58	50	5	3	40	1.43
10500742--10500802	32	1.9	32	83	12	81	45	3	1	49	1.28
10505163--10505204	20	2.1	20	90	0	66	45	9	0	45	1.36
10505952--10506252	5	60.2	5	93	1	289	40	26	3	29	1.72
10506576--10506606	14	2.2	14	94	0	53	45	9	0	45	1.36
10506759--10506966	97	2.1	98	81	2	249	32	31	20	16	1.94
10506749--10506966	49	4.5	49	83	2	242	33	30	19	16	1.94
10510024--10510089	30	2.2	30	83	2	80	25	9	18	46	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10512527--10512587	18	3.4	18	69	0	59	45	19	6	27	1.75
10512525--10512611	36	2.4	36	88	0	120	44	19	6	28	1.76
10514722--10514755	13	2.6	13	85	0	50	14	14	14	55	1.69
10518077--10518132	23	2.5	24	81	18	68	48	3	1	46	1.30
10520648--10520935	125	2.3	125	93	1	479	30	18	22	28	1.97
10524231--10524328	11	9.3	11	67	16	55	42	3	29	24	1.69
10524220--10524328	22	5.1	21	67	16	73	44	2	28	24	1.68
10524207--10524328	62	2.0	62	86	3	174	44	2	27	25	1.67
10524875--10524912	19	2.0	20	89	5	60	55	0	5	39	1.23
10529588--10529625	2	19.0	2	94	0	67	47	0	2	50	1.15
10531196--10531392	66	3.0	66	93	0	322	27	16	30	24	1.96
10533316--10533567	87	2.9	87	88	3	375	37	25	13	23	1.92
10537992--10538085	41	2.3	41	85	3	127	35	17	18	29	1.93
10543629--10543675	21	2.2	22	88	11	71	61	0	0	38	0.96
10544493--10544536	20	2.2	20	91	0	70	38	9	25	27	1.86
10548536--10548767	115	2.0	115	94	0	410	51	9	7	31	1.62
10557554--10557603	13	4.0	13	74	7	50	32	2	2	64	1.16
10559656--10559732	33	2.4	33	81	16	99	36	9	9	45	1.68
10560659--10560692	17	1.9	17	88	5	50	61	11	8	17	1.54
10568473--10568522	8	6.4	8	75	11	50	56	28	0	16	1.41
10568475--10568506	15	2.2	14	94	5	55	53	31	0	15	1.43
10570042--10570098	3	21.0	3	73	20	54	70	3	0	26	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10577143--10577395	89	2.8	89	82	1	310	24	24	22	28	1.99
10577135--10577390	134	1.9	133	85	0	350	24	24	21	29	1.99
10577143--10577435	45	6.7	44	77	4	254	25	23	21	29	1.99
10577520--10578117	50	11.9	50	77	3	439	25	20	21	32	1.97
10577505--10578111	100	6.0	100	82	3	619	25	20	21	32	1.97
10577570--10578117	150	3.6	149	86	1	673	25	19	21	33	1.97
10577594--10578117	50	10.4	50	76	5	464	25	20	21	33	1.97
10578998--10579035	13	3.0	13	88	11	53	0	18	2	78	0.86
10578996--10579046	17	2.9	17	88	8	68	0	15	3	80	0.86
10579480--10579514	14	2.5	14	90	9	54	2	0	11	85	0.69
10582223--10582275	24	2.2	25	86	3	72	47	5	18	28	1.72
10592857--10592939	44	1.9	42	85	9	114	39	8	12	39	1.73
10592857--10592913	21	2.7	21	94	0	105	42	10	10	36	1.74
10593417--10593492	37	2.1	37	83	14	95	19	5	2	72	1.16
10593433--10593491	12	4.8	12	71	21	50	18	3	1	76	1.02
10593548--10593616	20	3.0	23	83	12	72	34	1	4	59	1.26
10593581--10593625	20	2.2	20	88	0	63	33	4	4	57	1.38
10594161--10594595	217	2.0	218	98	0	836	31	13	18	37	1.89
10594351--10595561	608	2.0	600	88	5	1787	29	15	17	37	1.91
10598343--10598393	15	3.3	15	84	13	68	70	1	15	11	1.25
10598343--10598393	8	6.6	8	81	4	61	70	1	15	11	1.25
10598354--10598399	22	2.1	22	92	8	76	71	0	15	13	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10598344--10598393	7	6.7	7	82	13	64	70	2	16	12	1.26
10599632--10600341	44	16.1	44	63	13	165	31	19	24	24	1.98
10599589--10600781	132	9.0	132	92	0	1976	30	20	24	24	1.98
10601032--10601109	21	3.7	21	93	3	122	39	10	11	38	1.76
10601746--10601799	22	2.5	21	84	6	72	27	1	3	66	1.19
10602399--10602835	218	2.0	219	95	2	799	31	13	18	37	1.89
10603238--10603315	21	3.7	21	92	0	129	41	11	11	35	1.78
10603848--10603888	18	2.2	19	86	4	57	24	2	4	68	1.22
10604052--10604111	24	2.5	25	74	15	65	41	3	3	51	1.35
10605770--10605815	21	2.2	20	80	3	56	36	0	6	56	1.25
10607552--10607606	28	2.0	28	96	0	101	56	5	20	18	1.61
10613340--10614015	234	2.9	234	95	0	1167	25	15	16	42	1.88
10619904--10619951	22	2.1	22	84	3	60	47	8	2	41	1.45
10636234--10636388	33	4.6	33	69	9	107	29	25	14	30	1.95
10636222--10636461	101	2.4	101	87	0	354	28	23	15	31	1.96
10640988--10641025	14	2.8	13	84	7	58	44	5	13	36	1.66
10641064--10641106	22	2.0	22	86	9	61	37	6	20	34	1.80
10641304--10641380	34	2.3	34	93	0	127	18	24	15	41	1.89
10644192--10644231	20	1.9	22	90	10	66	12	10	7	70	1.35
10644263--10644303	21	1.9	22	85	5	57	31	12	9	46	1.74
10652589--10652629	21	1.9	22	85	5	57	46	9	12	31	1.74
10652588--10652635	21	2.2	22	77	3	53	54	8	10	27	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10652661--10652700	21	1.9	22	90	10	66	70	7	10	12	1.35
10660018--10660301	44	6.5	44	72	8	184	29	24	18	27	1.98
10659897--10660299	218	1.9	217	92	0	680	28	24	19	26	1.99
10660287--10660695	128	3.2	127	90	1	629	26	22	19	31	1.98
10662817--10662848	15	2.1	15	94	0	55	12	3	3	81	0.93
10662833--10662880	12	3.8	12	76	10	51	14	2	8	75	1.13
10662811--10662880	27	2.7	26	77	4	77	12	4	5	77	1.10
10662819--10662917	41	2.4	39	82	11	110	11	7	7	74	1.21
10662817--10662882	16	4.3	15	78	16	64	13	3	6	77	1.08
10667501--10667545	12	3.7	11	83	13	54	75	2	0	22	0.91

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