genome.fa.s7.2.7.7.80.10.50.1000.104.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   200   201   202   203   204   

This is table  104  of  204  ( 24458 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)
31744007--31744083	14	5.0	15	71	20	52	32	9	15	42	1.78
31744060--31744144	33	2.6	32	76	12	91	28	8	16	47	1.75
31745438--31745505	27	2.5	28	80	7	77	52	20	4	22	1.63
31747107--31747131	13	1.9	13	100	0	50	40	0	28	32	1.57
31747100--31747224	62	2.0	62	95	3	225	44	4	15	36	1.68
31753299--31753350	16	3.2	16	91	0	86	40	5	25	28	1.78
31764303--31764359	29	2.0	29	92	0	96	24	15	21	38	1.92
31767759--31767861	40	2.6	38	76	11	100	39	19	26	14	1.90
31767788--31767855	20	3.4	20	73	4	66	39	20	27	11	1.88
31767788--31767864	40	1.9	40	84	5	102	38	18	28	14	1.89
31769782--31769876	40	2.4	40	91	3	147	22	16	28	32	1.96
31777830--31777893	32	2.0	32	100	0	128	34	21	3	40	1.69
31780829--31780871	22	2.0	22	100	0	86	37	13	25	23	1.92
31787795--31788099	152	2.0	152	98	0	592	42	19	9	28	1.82
31789400--31789464	24	2.7	24	82	0	94	20	15	24	40	1.91
31795194--31795233	19	2.0	20	95	4	73	42	15	27	15	1.86
31795672--31795790	60	2.0	60	94	0	211	33	0	12	53	1.39
31796060--31796169	55	2.0	55	89	3	168	35	13	10	40	1.80
31796414--31796452	16	2.4	16	100	0	78	35	0	5	58	1.20
31798072--31798107	18	2.0	18	94	0	63	27	30	41	0	1.56
31807488--31807858	105	3.6	104	92	1	593	19	19	29	30	1.97
31812184--31812250	35	1.9	35	96	0	125	37	10	26	25	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31812496--31812532	9	4.1	9	92	0	65	45	13	10	29	1.77
31814429--31814454	5	5.2	5	100	0	52	19	19	19	42	1.90
31823608--31823647	21	2.0	20	85	5	53	40	2	2	55	1.27
31823919--31823988	30	2.3	30	80	0	86	25	25	14	34	1.94
31828822--31828882	30	2.0	30	83	0	77	29	11	26	32	1.91
31833965--31834068	42	2.5	42	87	0	145	19	40	21	19	1.92
31833988--31834081	42	2.2	42	88	0	134	15	39	25	19	1.91
31837076--31837118	11	4.1	11	76	11	54	20	37	0	41	1.53
31840749--31840825	38	2.0	38	97	0	145	48	18	14	19	1.82
31848107--31848291	92	2.0	92	96	0	343	30	12	11	44	1.79
31867386--31867567	27	6.7	27	74	6	120	30	18	25	24	1.98
31869482--31869671	28	6.8	28	77	3	170	33	18	17	30	1.94
31869482--31869640	56	2.8	56	82	7	189	33	18	17	30	1.94
31869484--31869649	84	2.0	84	85	2	226	32	18	17	31	1.94
31873935--31874292	112	3.2	112	90	0	554	34	13	24	27	1.93
31875849--31875874	9	2.9	9	100	0	52	53	23	23	0	1.46
31879093--31879175	37	2.2	38	87	6	116	27	26	15	30	1.96
31879278--31879355	28	2.8	28	84	3	95	34	16	17	30	1.93
31882051--31882085	9	3.9	9	100	0	70	31	11	11	45	1.76
31886924--31886954	15	2.1	15	100	0	62	22	32	6	38	1.80
31891329--31891359	15	2.1	15	100	0	62	22	32	6	38	1.80
31892638--31892926	132	2.2	132	91	0	470	30	21	22	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31892889--31892959	33	2.2	33	97	0	133	26	32	18	22	1.97
31892985--31893169	44	4.2	44	62	10	108	31	21	22	24	1.98
31892757--31893091	165	2.0	165	94	0	589	29	22	22	25	1.99
31892922--31893260	132	2.6	132	92	0	561	30	21	23	24	1.99
31892638--31893223	297	2.0	297	93	0	1001	30	21	22	24	1.99
31893376--31893491	44	2.6	44	81	9	137	31	20	21	25	1.98
31895023--31895085	26	2.3	26	79	15	65	19	6	1	73	1.13
31895155--31895224	26	2.8	27	75	18	71	31	1	4	62	1.23
31895832--31895858	13	2.1	13	100	0	54	18	22	22	37	1.95
31902336--31902461	28	4.5	28	89	4	175	29	13	26	30	1.94
31903197--31903445	23	10.6	23	72	7	205	25	17	16	40	1.90
31903197--31903446	47	5.3	47	76	8	206	25	17	16	40	1.90
31903195--31903445	119	2.1	117	84	2	324	26	17	16	40	1.90
31903269--31903461	72	2.7	72	89	5	293	26	16	18	39	1.91
31909900--31910025	28	4.5	28	90	0	189	30	12	26	30	1.93
31910414--31910462	2	24.5	2	95	0	89	51	0	0	48	1.00
31921326--31921501	88	2.0	88	100	0	352	27	4	17	51	1.64
31923560--31923731	85	2.0	85	98	0	335	37	16	18	27	1.92
31926296--31926329	5	6.6	5	93	6	59	64	0	17	17	1.29
31926295--31926332	11	3.5	11	92	7	69	63	0	18	18	1.32
31926322--31926432	57	1.9	58	88	1	170	45	8	18	27	1.78
31926326--31926454	57	2.3	57	83	2	134	48	7	18	24	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31928238--31928274	9	4.1	9	92	0	65	45	13	10	29	1.77
31928488--31928547	30	2.0	31	83	9	79	20	38	0	41	1.52
31928803--31928831	9	3.2	9	100	0	58	31	0	0	68	0.89
31930585--31930885	163	1.8	163	89	0	476	40	23	5	30	1.77
31931457--31931504	20	2.5	19	80	9	53	29	0	12	58	1.35
31932459--31932507	25	2.0	25	95	0	89	38	16	14	30	1.88
31949744--31949781	10	3.7	10	86	13	51	39	2	21	36	1.67
31963104--31963147	20	2.2	20	87	0	61	56	4	2	36	1.32
31969265--31969309	24	2.0	24	87	12	69	13	0	15	71	1.15
31969768--31969988	100	2.2	100	79	1	228	24	20	18	36	1.95
31971109--31971146	2	19.0	2	100	0	76	50	0	0	50	1.00
31972463--31972536	25	2.8	25	80	13	71	44	6	1	47	1.38
31983657--31983686	6	5.0	6	95	0	51	20	46	16	16	1.84
31988944--31989078	30	4.6	30	88	5	188	34	22	0	41	1.60
31988944--31989078	57	2.3	60	88	6	197	34	22	0	41	1.60
31988944--31989102	30	5.4	28	83	10	158	35	22	1	41	1.62
31988944--31989102	57	2.7	57	83	10	180	35	22	1	41	1.62
31989541--31989632	21	4.1	21	75	16	78	77	0	20	2	0.88
31989528--31989632	25	4.0	26	76	7	97	75	0	22	1	0.90
31989528--31989632	11	9.7	11	75	18	55	75	0	22	1	0.90
31989541--31989632	7	13.3	7	71	15	66	77	0	20	2	0.88
32001603--32002149	75	7.3	74	82	4	625	27	18	19	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32001602--32002144	147	3.6	149	84	6	684	26	18	19	35	1.95
32002385--32002415	16	2.0	15	93	6	53	58	0	0	41	0.98
32002422--32002557	28	4.8	29	83	12	149	38	22	2	36	1.69
32002422--32002562	30	4.9	28	84	12	155	37	21	2	38	1.68
32002422--32002557	29	4.8	28	83	10	136	38	22	2	36	1.69
32002422--32002557	58	2.4	57	85	8	172	38	22	2	36	1.69
32003064--32003126	11	6.0	10	90	7	81	82	0	14	3	0.79
32003067--32003123	7	7.9	7	81	13	62	82	0	14	3	0.80
32003082--32003120	4	10.5	4	84	15	57	82	0	17	0	0.68
32018410--32018446	17	2.2	17	95	0	65	24	29	13	32	1.93
32032964--32033001	20	2.0	20	94	5	69	26	10	0	63	1.27
32033865--32033924	23	2.5	24	79	15	79	25	11	11	51	1.72
32035298--32035556	40	6.5	39	83	4	293	33	18	28	19	1.95
32035298--32035529	80	2.9	80	88	0	329	32	19	28	19	1.96
32035298--32035556	120	2.2	120	85	4	335	33	18	28	19	1.95
32035383--32035525	20	7.2	20	62	6	56	30	18	30	20	1.96
32036966--32037003	20	2.0	20	94	5	69	26	10	0	63	1.27
32042672--32042737	31	2.1	33	83	11	84	57	16	6	19	1.60
32043226--32043276	23	2.2	23	85	3	66	47	15	15	21	1.83
32043530--32043614	41	2.1	41	100	0	170	29	17	11	41	1.85
32051846--32051877	16	2.0	16	100	0	64	18	12	31	37	1.88
32055554--32055968	206	2.0	207	90	0	661	36	19	10	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32056993--32057047	20	2.8	20	100	0	110	25	10	0	63	1.27
32070199--32070666	132	3.5	132	86	1	634	25	24	21	28	1.99
32070212--32070662	44	10.2	44	85	1	564	25	24	21	28	1.99
32072869--32072898	7	4.4	7	91	8	53	0	10	0	90	0.47
32072868--32072903	13	2.8	13	87	4	56	0	13	0	86	0.58
32072926--32072986	13	4.8	13	82	15	65	14	0	4	80	0.87
32072926--32072996	6	11.8	6	77	14	67	14	0	4	81	0.83
32072926--32073000	30	2.5	30	85	12	93	14	0	4	81	0.83
32072949--32073000	7	7.3	7	80	20	63	13	0	1	84	0.70
32072926--32072996	36	1.9	37	88	8	110	14	0	4	81	0.83

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   200   201   202   203   204