genome.fa.s8.2.7.7.80.10.50.1000.123.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  123  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)
36896241--36896289	19	2.6	18	81	9	62	73	0	0	26	0.83
36896248--36896300	19	2.7	19	85	5	70	73	1	1	22	1.03
36898216--36898246	7	4.4	7	100	0	62	41	0	58	0	0.98
36900616--36900688	24	3.1	23	77	11	76	39	21	21	16	1.92
36900878--36900931	24	2.2	25	86	3	74	37	22	25	14	1.93
36904494--36904537	21	2.1	21	100	0	88	25	43	9	22	1.82
36919130--36919180	24	2.1	24	100	0	102	21	27	3	47	1.68
36919173--36919475	101	3.0	101	89	0	444	28	23	16	31	1.96
36919215--36919452	33	7.1	33	63	12	81	29	24	15	30	1.96
36925516--36925570	21	2.7	21	69	8	51	27	5	3	63	1.33
36933731--36933755	4	6.2	4	100	0	50	24	0	24	52	1.48
36939939--36939985	21	2.3	21	85	10	62	36	0	8	55	1.31
36939968--36940132	58	2.9	57	83	7	192	43	0	3	52	1.23
36940305--36940335	16	1.9	16	100	0	62	29	25	6	38	1.81
36940420--36940647	43	5.3	43	87	1	314	30	34	17	17	1.94
36945620--36945661	16	2.5	17	92	7	68	45	0	0	54	0.99
36945855--36945984	21	6.1	21	70	8	84	45	31	1	21	1.61
36945855--36945984	14	9.2	14	69	11	68	45	31	1	21	1.61
36946333--36946521	41	4.6	41	93	1	333	28	33	20	16	1.95
36946333--36946521	83	2.3	82	94	1	333	28	33	20	16	1.95
36946559--36946648	40	2.2	40	86	3	119	18	24	21	35	1.96
36946792--36946837	3	15.3	3	100	0	92	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36951392--36951441	20	2.5	20	84	9	66	22	2	6	70	1.20
36951522--36951553	2	16.0	2	100	0	64	50	0	0	50	1.00
36958201--36958266	33	2.1	31	83	11	80	33	3	1	62	1.20
36958436--36958502	14	4.4	16	71	22	54	31	4	0	64	1.14
36958436--36958508	30	2.4	31	81	6	78	31	4	0	64	1.12
36962694--36962764	33	2.3	30	86	13	92	59	11	5	23	1.53
36964608--36964641	12	2.8	12	86	0	50	23	11	0	64	1.26
36978854--36978898	22	2.0	23	84	16	60	46	8	6	37	1.61
36979380--36979763	189	2.0	189	97	0	732	34	16	15	34	1.90
36980461--36980494	15	2.3	15	90	5	52	55	2	5	35	1.39
36981074--36981117	21	2.1	21	87	8	63	77	6	11	4	1.11
36982180--36982438	50	5.2	50	69	4	155	23	23	21	30	1.99
36982279--36982647	50	7.4	50	67	4	181	24	23	20	30	1.99
36982130--36982638	100	5.1	100	84	5	591	25	23	20	30	1.99
36982840--36983009	88	1.9	88	86	0	241	27	27	17	28	1.97
36983968--36984013	17	2.5	19	76	13	51	73	2	0	23	0.94
36984077--36984131	28	2.0	28	82	7	67	61	0	7	30	1.23
36984985--36985029	23	2.0	23	86	8	65	77	6	11	4	1.09
36986137--36986223	23	3.6	25	75	16	76	57	5	3	33	1.39
37006493--37006518	12	2.2	12	100	0	52	34	7	15	42	1.75
37006510--37006557	24	2.0	25	87	4	71	39	6	16	37	1.74
37006857--37006943	27	3.2	29	88	4	103	26	1	5	66	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37006876--37006960	3	28.3	3	97	0	143	29	0	3	67	1.08
37007086--37007129	17	2.6	17	85	3	63	40	11	0	47	1.39
37014553--37014583	15	2.0	16	93	6	55	74	0	0	25	0.82
37014548--37014586	14	2.8	14	85	11	53	69	0	0	30	0.89
37015060--37015114	24	2.3	25	81	6	60	34	1	0	63	1.05
37015212--37015269	29	2.0	30	83	6	75	51	3	0	44	1.18
37015525--37015555	3	10.3	3	100	0	62	32	0	0	67	0.91
37016144--37016271	63	2.0	63	90	4	202	50	3	5	41	1.41
37017818--37017900	31	2.6	30	74	12	78	25	13	12	49	1.76
37018337--37018393	22	2.6	22	88	0	78	45	42	3	8	1.52
37018488--37018524	19	1.9	19	88	0	56	67	5	2	24	1.25
37020908--37021037	19	6.8	19	90	0	197	38	13	9	39	1.76
37026290--37026327	19	2.0	19	100	0	76	36	10	21	31	1.87
37030527--37030574	20	2.4	20	79	6	53	22	4	0	72	1.01
37032828--37032902	40	1.9	37	89	7	114	34	21	22	21	1.97
37032827--37032922	39	2.4	39	83	8	115	39	21	20	17	1.92
37032957--37033155	41	4.8	42	82	7	248	22	18	26	33	1.97
37032957--37033155	82	2.4	82	88	0	290	22	18	26	33	1.97
37035274--37035312	21	1.9	21	89	5	62	58	5	0	35	1.20
37036304--37036334	16	1.9	16	100	0	62	35	12	12	38	1.82
37037310--37037349	18	2.2	19	90	4	64	62	0	0	37	0.95
37037410--37037636	43	5.3	43	86	2	267	23	20	27	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37037410--37037658	86	2.9	88	82	5	310	24	20	26	28	1.99
37038699--37038771	37	2.0	35	84	5	92	50	6	2	39	1.43
37040351--37040399	18	2.7	17	81	12	53	32	0	0	67	0.91
37042319--37042345	2	13.5	2	100	0	54	51	48	0	0	1.00
37043812--37043840	8	3.6	8	100	0	58	75	0	0	24	0.80
37045352--37045536	92	2.0	92	94	2	327	28	3	25	42	1.72
37047478--37047559	42	2.0	42	85	4	112	21	26	25	25	2.00
37051839--37051879	21	2.0	21	95	0	73	43	26	0	29	1.55
37054363--37054416	7	7.7	7	100	0	108	72	0	0	27	0.85
37059366--37059497	45	3.0	43	78	10	128	25	17	25	31	1.97
37065018--37065075	21	2.7	22	78	5	73	13	41	25	18	1.88
37075987--37076029	22	2.0	22	90	4	70	83	2	0	13	0.74
37078438--37078554	48	2.5	48	88	2	175	35	21	13	29	1.92
37082815--37082880	29	2.4	28	76	18	75	40	6	6	46	1.53
37086384--37086422	17	2.4	17	91	4	62	38	2	2	56	1.27
37087214--37087264	20	2.5	20	93	3	84	23	0	54	21	1.44
37089475--37089519	18	2.4	18	82	10	56	40	2	20	37	1.65
37091364--37091420	25	2.3	25	81	0	69	19	26	22	31	1.98
37099159--37099216	24	2.4	24	82	5	73	12	31	20	36	1.89
37100796--37100862	34	2.0	33	85	11	91	44	10	0	44	1.38
37100796--37100872	36	2.2	34	83	4	91	41	10	1	46	1.46
37100934--37101054	58	2.2	56	84	10	153	35	11	1	51	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37107835--37107895	24	2.5	24	83	0	68	39	9	21	29	1.85
37108254--37108709	132	3.4	132	88	1	680	29	19	24	27	1.98
37108608--37108792	88	2.1	88	79	2	201	28	18	22	30	1.98
37108254--37108748	265	1.9	263	86	4	719	29	19	23	27	1.98
37108656--37108815	88	1.8	88	83	1	205	29	16	23	30	1.97
37108514--37108929	220	1.9	221	88	1	629	29	19	22	27	1.98
37109336--37109423	45	2.0	45	88	0	131	35	18	20	26	1.95
37111313--37111395	26	3.0	26	67	16	67	36	8	1	54	1.39
37111295--37111409	58	2.0	58	88	3	171	39	8	1	50	1.44
37111408--37111485	42	2.0	40	82	12	99	30	11	3	53	1.54
37124315--37124359	18	2.6	18	82	3	56	22	0	31	46	1.52
37124504--37124545	21	2.0	21	95	0	75	35	0	40	23	1.55
37126618--37126669	25	2.1	25	100	0	104	15	26	15	42	1.87
37128213--37128422	61	3.5	60	66	17	155	43	1	5	49	1.35
37128261--37128295	18	2.0	17	88	5	52	45	0	0	54	0.99
37128193--37128437	120	2.0	121	92	2	413	42	2	5	49	1.38
37128385--37128426	15	2.9	15	82	10	52	47	0	0	52	1.00
37128369--37128685	157	2.0	157	95	1	564	47	5	3	43	1.44
37128538--37128572	18	2.0	17	88	5	52	45	0	0	54	0.99
37128719--37128823	44	2.5	40	76	15	113	31	29	4	34	1.78
37128717--37128826	45	2.6	44	81	8	131	31	29	5	33	1.80
37128807--37128858	16	3.2	16	91	0	77	36	34	0	28	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37129497--37129536	19	2.0	20	90	4	64	30	2	0	67	1.04
37129506--37129558	27	2.0	27	85	7	72	28	1	0	69	0.99
37129506--37129558	28	1.9	27	88	3	79	28	1	0	69	0.99
37130845--37130869	6	4.2	6	100	0	50	68	0	16	16	1.22
37133593--37133632	3	13.3	3	100	0	80	32	0	0	67	0.91
37133774--37133820	21	2.2	21	81	7	60	29	6	8	55	1.55
37134529--37134592	31	2.1	31	82	11	78	42	18	0	39	1.51
37135700--37135741	17	2.5	17	88	3	59	30	9	0	59	1.29
37136062--37136098	18	2.1	18	94	0	65	27	13	0	59	1.35
37139069--37139224	57	2.7	57	89	5	235	28	12	10	48	1.75

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