genome.fa.s10.2.7.7.80.10.50.1000.189.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  189  of  202  ( 24201 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)
57819374--57819526	45	3.4	45	87	2	218	40	20	18	19	1.92
57819381--57819543	45	3.9	41	83	7	161	38	22	20	19	1.93
57819728--57819815	40	2.2	40	84	9	110	37	18	7	36	1.80
57820535--57820560	11	2.4	11	100	0	52	0	42	7	50	1.31
57822946--57822988	2	21.5	2	100	0	86	51	0	0	48	1.00
57824899--57824953	2	29.0	2	87	10	71	49	1	1	47	1.23
57824891--57824945	27	2.0	27	100	0	110	47	3	3	45	1.38
57825104--57825144	16	2.6	16	84	0	55	43	0	2	53	1.13
57838456--57838489	16	2.0	18	88	11	54	26	11	0	61	1.30
57839744--57839831	44	2.0	43	83	12	110	39	5	4	50	1.47
57842469--57842500	2	16.0	2	93	0	55	46	0	3	50	1.17
57844513--57844571	29	2.0	29	100	0	118	30	10	10	49	1.70
57846351--57846395	19	2.4	19	84	0	54	55	8	2	33	1.43
57848533--57848587	23	2.4	22	80	19	60	29	1	1	67	1.11
57853357--57853444	43	2.0	43	97	0	167	42	9	22	26	1.83
57855233--57855303	18	3.9	18	83	7	99	9	43	11	35	1.74
57855236--57855316	36	2.2	36	86	0	108	11	41	7	39	1.69
57856928--57856974	22	2.1	23	84	7	62	38	2	2	57	1.23
57864731--57864786	23	2.5	22	85	8	69	32	1	8	57	1.40
57865427--57865461	17	2.1	17	94	0	61	31	5	14	48	1.67
57871100--57871164	32	2.2	28	78	19	71	55	4	4	35	1.41
57871846--57872035	93	2.0	93	95	2	346	39	16	14	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57878228--57878276	16	2.9	17	72	6	55	38	2	0	59	1.09
57894606--57894713	45	2.2	48	88	9	159	18	13	46	21	1.84
57894685--57894740	27	2.1	27	86	0	76	10	14	55	19	1.68
57894698--57894740	15	3.1	15	77	19	56	6	11	60	20	1.54
57894647--57894792	78	1.9	78	94	0	256	17	13	48	20	1.80
57898974--57899017	19	2.3	19	80	7	54	52	4	0	43	1.22
57902895--57902937	2	21.5	2	100	0	86	51	0	0	48	1.00
57905785--57905814	15	2.1	15	93	6	53	26	0	6	66	1.16
57907368--57907442	32	2.5	30	80	6	80	30	20	10	38	1.86
57912292--57912326	3	11.7	3	93	0	61	68	0	0	31	0.90
57916051--57916182	62	2.2	57	84	6	165	39	3	4	53	1.37
57925213--57925260	17	2.8	17	80	3	60	66	0	0	33	0.92
57926153--57926208	21	2.8	19	89	10	94	37	10	16	35	1.83
57926153--57926231	19	3.7	22	80	14	78	36	8	16	37	1.80
57926905--57926934	4	7.8	4	92	7	53	23	0	0	76	0.78
57927155--57927199	3	15.0	3	100	0	90	33	0	0	66	0.92
57930245--57930289	3	15.0	3	95	0	81	64	0	33	2	1.06
57933988--57934024	19	1.9	19	100	0	74	37	10	16	35	1.83
57934884--57935045	47	3.5	46	74	14	136	33	6	3	56	1.42
57934883--57935050	70	2.4	69	77	9	171	33	6	3	55	1.43
57934883--57935139	24	10.8	24	69	18	144	35	6	3	54	1.44
57935188--57935232	23	2.0	23	90	0	72	31	6	4	57	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57936730--57936765	16	2.2	16	90	0	54	63	0	36	0	0.94
57937175--57937252	40	2.0	40	84	5	104	38	2	25	33	1.70
57938168--57938194	2	13.5	2	100	0	54	48	0	0	51	1.00
57946050--57946080	4	7.8	4	92	0	53	25	3	48	22	1.66
57946488--57946541	24	2.2	24	80	0	63	51	14	3	29	1.60
57947951--57947990	21	1.9	21	89	0	62	35	5	22	37	1.76
57948903--57949104	44	4.6	43	65	13	117	30	24	22	22	1.99
57948903--57949104	88	2.3	88	92	0	332	30	24	22	22	1.99
57950609--57950641	12	2.8	12	82	17	50	39	0	0	60	0.97
57950734--57950777	3	14.7	3	100	0	88	34	0	0	65	0.93
57952804--57952828	13	1.9	13	100	0	50	88	0	0	12	0.53
57953709--57953734	11	2.4	11	100	0	52	76	7	0	15	0.99
57954705--57954750	23	2.0	23	100	0	92	39	8	0	52	1.33
57954828--57954902	27	2.8	27	93	4	125	25	29	29	16	1.96
57955003--57955032	11	2.7	11	89	0	51	70	0	30	0	0.88
57955056--57955094	19	2.0	21	85	10	55	23	0	10	66	1.22
57955140--57955192	3	17.3	3	92	3	88	32	0	3	64	1.12
57955191--57955228	3	12.7	3	100	0	76	0	0	31	68	0.90
57956014--57956056	18	2.4	17	85	11	59	32	6	46	13	1.71
57961528--57961590	22	3.0	22	73	17	62	0	28	0	71	0.86
57961540--57961711	4	42.8	4	72	19	119	1	27	0	70	0.94
57961539--57961720	34	5.6	34	70	18	97	1	29	0	69	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57961560--57961673	49	2.4	48	85	5	149	0	28	0	71	0.92
57961533--57961710	41	4.4	42	80	13	194	1	28	0	70	0.94
57961617--57961703	30	2.8	30	82	14	106	1	28	0	70	0.95
57961753--57961822	27	2.6	27	88	4	106	18	28	27	25	1.98
57961753--57961831	27	2.9	27	81	7	97	17	30	26	25	1.97
57961895--57961942	25	2.0	24	92	8	80	50	0	8	41	1.33
57961895--57961961	25	2.6	25	83	9	73	46	1	10	41	1.47
57962943--57962985	4	10.8	4	94	0	77	25	2	48	23	1.62
57964211--57964235	13	1.9	13	100	0	50	32	0	0	68	0.90
57966259--57966479	43	5.0	42	69	20	134	39	1	1	57	1.18
57966249--57966356	21	4.9	22	81	15	125	37	0	0	60	1.10
57966411--57966455	13	3.8	13	77	22	53	46	0	0	53	1.00
57966405--57966477	22	3.4	22	83	11	87	43	1	0	54	1.08
57966404--57966494	22	4.0	21	78	16	85	41	1	1	56	1.14
57966434--57966523	33	2.7	33	79	8	83	38	4	1	55	1.27
57969945--57969983	20	2.0	20	100	0	78	41	5	0	53	1.23
57972131--57972174	22	2.0	22	86	0	61	56	2	2	38	1.24
57977334--57977385	25	2.1	24	86	10	70	19	7	13	59	1.58
57977387--57977421	19	1.9	17	88	11	52	22	5	11	60	1.52
57977387--57977427	18	2.2	19	83	12	50	24	7	9	58	1.55
57979590--57979638	21	2.2	22	86	13	66	30	0	2	67	1.02
57982814--57982910	20	4.6	20	80	16	99	39	2	0	58	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57982828--57983033	45	4.8	41	67	20	109	39	1	1	56	1.22
57982957--57983031	23	3.4	23	76	10	84	42	0	1	56	1.08
57982957--57983033	22	3.5	22	79	12	86	41	0	1	57	1.07
57984896--57984921	7	3.7	7	100	0	52	0	11	0	88	0.52
57988631--57988673	2	21.5	2	100	0	86	48	0	0	51	1.00
57989325--57989419	43	2.2	43	94	0	163	29	28	20	22	1.98
57995827--57995871	19	2.2	20	92	7	74	24	17	6	51	1.70
57995957--57995998	19	2.3	19	87	4	68	42	11	14	30	1.81
57996257--57996294	9	4.2	9	93	0	67	21	10	23	44	1.83
57996576--57996621	24	1.9	24	82	8	58	58	0	4	36	1.18
57996638--57996683	15	3.1	15	82	17	53	60	2	0	36	1.09
57996666--57996704	19	2.0	20	95	5	71	58	0	0	41	0.98
57996723--57996858	72	1.9	72	79	14	156	57	2	0	38	1.19
57996884--57996929	24	2.0	23	87	8	67	76	4	4	15	1.11
57998340--57998378	20	2.0	20	100	0	78	41	5	0	53	1.23
58001608--58001635	13	2.2	13	100	0	56	14	35	25	25	1.93
58002743--58002783	21	2.0	21	81	18	50	21	26	19	31	1.97
58006108--58006135	13	2.2	13	100	0	56	14	35	25	25	1.93
58006864--58006931	22	3.1	22	79	6	68	55	2	1	39	1.24
58009290--58009368	25	3.2	25	94	1	133	15	22	22	39	1.91
58009302--58009417	22	5.0	22	82	3	88	14	23	21	40	1.90
58015843--58015896	25	2.3	26	75	18	64	51	7	3	37	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58017726--58017812	44	2.0	44	97	0	165	22	12	24	40	1.89
58017987--58018062	9	8.4	9	83	0	89	44	21	7	26	1.79
58018171--58018210	18	2.2	18	86	0	53	12	2	45	40	1.56
58018848--58018997	48	3.2	46	65	10	122	40	1	16	42	1.56
58018809--58019132	96	3.4	96	91	2	497	42	2	16	38	1.61
58018935--58019095	53	3.2	53	66	16	153	39	2	19	39	1.65
58020691--58020980	45	6.4	45	90	1	429	27	14	25	31	1.95
58020961--58021288	132	2.5	132	88	3	491	30	19	25	24	1.98
58021743--58021796	19	2.8	19	97	0	99	38	11	16	33	1.84
58022734--58022788	24	2.5	21	80	16	58	34	7	1	56	1.38

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