genome.fa.s8.2.7.7.80.10.50.1000.103.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  103  of  190  ( 22705 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)
31314048--31314179	34	3.9	33	84	4	129	34	14	12	38	1.84
31314257--31314418	45	3.6	45	77	1	182	25	16	23	35	1.95
31314446--31314488	22	2.0	22	85	0	59	32	18	16	32	1.93
31319080--31319163	32	2.6	32	81	5	107	27	2	19	51	1.59
31320569--31320606	19	2.0	19	94	0	67	52	18	5	23	1.65
31321266--31321319	27	2.0	28	92	3	92	62	5	3	27	1.34
31321790--31321832	19	2.3	18	88	4	59	44	0	0	55	0.99
31321822--31321859	18	2.1	18	90	0	58	34	0	0	65	0.93
31321822--31321858	19	2.0	18	89	5	56	32	0	0	67	0.91
31321824--31321884	10	6.1	10	72	14	54	29	0	1	68	0.99
31322136--31322162	14	1.9	14	100	0	54	0	14	55	29	1.40
31326099--31326208	34	3.2	34	86	0	157	32	12	11	42	1.79
31326122--31326178	19	3.2	19	73	19	68	29	8	14	47	1.74
31329662--31329744	36	2.3	36	83	4	87	30	10	25	33	1.90
31335529--31335610	35	2.3	36	85	4	112	30	8	25	35	1.86
31336007--31336032	12	2.2	12	100	0	52	7	15	30	46	1.74
31336021--31336112	40	2.3	38	80	9	94	30	19	25	25	1.98
31336039--31336121	39	2.1	40	81	2	105	33	19	22	24	1.97
31336039--31336134	40	2.4	40	80	3	95	36	19	21	21	1.95
31336171--31336405	41	5.7	41	89	0	317	23	21	24	30	1.99
31336502--31336552	26	2.0	26	84	0	66	58	5	11	23	1.55
31336941--31337111	90	1.9	90	91	1	281	26	1	28	43	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31342336--31342558	43	5.2	43	86	0	286	21	17	30	30	1.96
31344684--31344955	68	4.0	68	82	4	307	37	17	22	23	1.94
31344686--31344946	136	1.9	136	87	1	380	36	18	22	22	1.95
31359174--31359240	33	2.0	33	100	0	134	55	11	14	17	1.69
31361426--31361475	26	1.9	26	88	8	75	28	22	22	28	1.99
31361436--31361493	25	2.3	26	81	3	73	31	24	18	25	1.98
31361487--31361561	24	3.1	24	86	9	107	33	20	22	24	1.97
31366020--31366119	50	2.0	50	100	0	200	34	22	12	32	1.90
31377742--31377854	56	2.0	56	92	0	190	26	19	15	38	1.92
31379851--31379884	18	1.9	18	88	5	52	55	5	5	32	1.48
31379983--31380020	2	19.0	2	100	0	76	50	0	0	50	1.00
31393350--31393394	20	2.6	16	83	16	54	44	0	24	31	1.54
31393765--31393801	9	4.1	9	92	0	65	29	10	13	45	1.77
31393854--31393884	9	3.4	9	90	0	53	38	22	12	25	1.90
31397633--31397684	8	6.0	8	84	10	59	46	1	0	51	1.12
31398577--31398648	29	2.4	29	82	11	76	68	1	1	29	1.07
31398586--31398648	28	2.1	30	83	13	78	69	1	0	28	0.97
31398905--31398945	6	6.8	6	94	0	73	53	0	0	46	1.00
31398899--31398945	18	2.6	18	93	0	76	57	0	0	42	0.98
31400215--31400247	7	4.7	7	100	0	66	72	0	0	27	0.85
31401253--31401314	11	5.8	10	75	11	52	67	14	8	9	1.40
31401264--31401316	21	2.5	22	84	6	72	67	15	9	7	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31401247--31401313	32	2.1	33	94	2	118	68	16	7	7	1.36
31401264--31401316	11	4.9	11	79	4	63	67	15	9	7	1.39
31402008--31402050	21	2.0	21	82	8	52	51	2	0	46	1.13
31402017--31402061	22	2.0	22	83	8	56	48	2	4	44	1.35
31405655--31405776	58	2.1	58	93	0	208	36	15	19	27	1.92
31409256--31409303	14	3.7	12	78	15	51	50	14	4	31	1.62
31409437--31409471	16	2.2	16	100	0	70	40	25	11	22	1.88
31411615--31411753	72	1.9	73	97	1	262	38	23	5	33	1.78
31412869--31412893	12	2.1	12	100	0	50	60	0	0	40	0.97
31414766--31414941	23	7.8	22	76	9	167	40	35	5	18	1.74
31414766--31414938	45	3.8	45	81	6	199	40	35	5	17	1.74
31414766--31414945	90	2.0	90	84	2	236	40	35	5	18	1.75
31419269--31419494	22	10.4	22	72	11	119	52	10	18	19	1.74
31421412--31421440	2	14.5	2	100	0	58	48	0	0	51	1.00
31424493--31424535	6	7.2	6	78	0	50	25	0	2	72	0.97
31424493--31424535	18	2.4	18	92	7	70	25	0	2	72	0.97
31433168--31433210	6	7.2	6	78	0	50	25	0	2	72	0.97
31433168--31433210	18	2.4	18	92	7	70	25	0	2	72	0.97
31437377--31437429	27	1.9	27	85	11	72	60	0	5	33	1.20
31444405--31444693	50	5.7	50	80	4	269	26	20	28	24	1.99
31444903--31444938	16	2.3	15	90	4	54	52	2	25	19	1.59
31446788--31446826	16	2.4	16	82	0	51	12	17	2	66	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31447129--31447235	50	2.1	50	87	0	160	18	28	23	28	1.98
31447140--31447282	50	2.7	50	83	6	160	23	27	22	27	1.99
31453454--31453566	42	2.7	42	84	1	145	23	27	30	18	1.98
31464977--31465028	28	1.9	26	88	7	77	48	0	7	44	1.31
31465928--31466042	41	2.8	41	91	0	194	20	20	26	33	1.97
31468357--31468388	15	2.1	15	94	0	55	15	6	9	68	1.36
31473895--31473966	27	2.7	27	82	4	85	23	19	30	26	1.98
31474431--31474461	14	2.2	14	94	0	53	22	3	12	61	1.46
31475531--31475592	30	2.1	30	100	0	124	27	19	22	30	1.98
31476551--31476786	68	3.5	68	83	1	296	23	22	19	34	1.96
31479358--31479529	23	7.4	23	83	7	165	19	17	23	40	1.91
31479352--31479529	46	3.8	46	82	10	202	19	17	23	39	1.92
31479358--31479506	70	2.1	68	83	8	176	18	18	23	39	1.92
31483908--31484095	91	2.1	90	84	1	241	36	26	12	25	1.92
31487365--31487417	21	2.6	21	90	3	81	37	7	15	39	1.75
31497656--31497737	28	2.9	28	78	7	103	28	19	23	29	1.98
31499770--31500030	27	9.7	27	73	8	174	34	20	27	18	1.95
31499785--31499989	81	2.6	79	79	2	212	34	20	26	18	1.95
31499914--31500016	53	1.9	54	88	2	154	33	22	28	16	1.95
31499867--31500016	80	1.9	80	83	5	196	32	22	28	17	1.96
31509484--31509508	2	12.5	2	100	0	50	52	0	48	0	1.00
31523490--31523533	22	2.0	22	95	0	79	20	27	15	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31533894--31534151	116	2.2	116	87	0	363	28	24	22	24	1.99
31536078--31536116	20	2.0	20	85	10	53	25	10	2	61	1.41
31546090--31546264	94	1.9	94	85	2	244	47	5	10	36	1.61
31547963--31548070	50	2.2	50	89	0	162	50	5	20	24	1.69
31551882--31551977	46	2.1	44	84	7	122	25	17	23	33	1.96
31552078--31552150	37	1.9	38	83	2	94	42	2	24	30	1.69
31555518--31555584	32	2.1	32	97	0	125	41	7	31	19	1.79
31560382--31560454	26	2.8	26	80	0	74	28	16	12	42	1.84
31561516--31561578	33	1.9	33	90	0	99	34	6	12	46	1.68
31564275--31564332	25	2.3	25	87	0	80	25	25	20	27	1.99
31564389--31564446	27	2.1	27	87	0	80	48	0	22	29	1.51
31564403--31564446	13	3.3	13	78	6	52	47	0	20	31	1.50
31581779--31581869	45	2.0	45	93	0	155	31	24	17	26	1.97
31581875--31582061	51	3.7	49	76	8	171	32	26	16	24	1.96
31583174--31583300	45	2.8	45	79	2	130	24	25	11	38	1.89
31586894--31586965	22	3.3	22	94	0	117	30	16	27	25	1.97
31589806--31589830	10	2.5	10	100	0	50	16	0	8	76	1.02
31593368--31593534	45	3.7	45	83	2	192	38	16	20	23	1.92
31593319--31593534	90	2.4	92	77	7	237	39	17	18	23	1.92
31593499--31593617	45	2.6	45	81	6	134	43	15	22	17	1.87
31595186--31595214	12	2.4	12	100	0	58	27	20	37	13	1.91
31598588--31598909	109	3.0	109	87	1	461	31	15	16	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31602125--31602187	28	2.3	27	81	10	74	82	9	0	7	0.84
31602561--31602596	6	6.2	6	87	6	56	77	0	22	0	0.76
31602561--31602594	17	2.0	17	94	0	59	79	0	20	0	0.73
31603531--31603584	24	2.2	24	83	6	65	37	11	20	31	1.88
31603818--31605373	46	34.2	46	77	8	1220	26	17	26	30	1.97
31604429--31604822	132	3.0	132	89	0	590	29	18	24	27	1.98
31605368--31606067	132	5.3	132	88	1	974	31	17	23	27	1.97
31605470--31605801	44	7.5	44	68	18	172	29	17	25	27	1.98
31607480--31607515	12	3.2	12	92	7	58	22	0	5	72	1.05
31607525--31607550	2	13.0	2	100	0	52	50	0	0	50	1.00

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