genome.fa.s4.2.7.7.80.10.50.1000.112.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: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62178258

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   

This is table  112  of  198  ( 23681 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)
35805173--35805503	94	3.5	93	73	8	312	46	9	5	38	1.60
35805130--35805440	131	2.4	131	93	0	514	46	9	5	37	1.60
35805269--35805390	37	3.3	37	87	0	181	47	10	6	35	1.64
35805372--35805410	20	2.0	20	94	0	69	43	5	5	46	1.48
35805364--35805462	19	5.2	19	72	11	69	45	11	3	40	1.55
35805327--35805968	113	5.5	112	86	7	682	46	10	4	37	1.60
35805505--35805587	28	2.9	30	72	17	86	45	10	4	38	1.60
35805392--35805979	169	3.4	168	82	6	660	46	11	4	37	1.59
35805590--35805800	20	11.2	19	67	18	86	46	10	4	37	1.60
35805759--35805964	66	3.1	66	98	0	403	47	12	2	37	1.56
35805948--35806028	9	9.0	9	86	0	108	49	16	1	33	1.53
35805946--35806027	27	3.0	27	89	0	119	51	14	1	32	1.51
35808439--35808505	21	3.2	21	91	0	107	29	19	47	2	1.64
35808814--35808923	44	2.5	43	88	2	166	38	25	19	17	1.93
35810780--35810809	6	5.0	6	100	0	60	33	0	0	66	0.92
35810929--35810977	23	2.2	22	85	7	64	32	14	10	42	1.79
35810955--35811033	35	2.2	36	86	4	106	22	22	16	37	1.93
35813030--35813286	131	2.0	131	96	0	478	24	22	14	38	1.91
35817309--35817430	64	1.9	65	86	1	174	34	13	22	28	1.93
35817526--35817631	38	2.8	38	82	2	124	36	16	15	32	1.89
35818305--35818352	22	2.2	21	88	3	69	50	18	16	14	1.79
35822646--35822707	31	2.1	29	84	6	79	35	9	11	43	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35824044--35824113	31	2.3	31	92	0	113	31	11	12	44	1.78
35834383--35834414	12	2.6	13	85	14	50	37	0	6	56	1.25
35840209--35840641	132	3.4	131	82	6	560	28	20	26	25	1.99
35846014--35846048	18	1.9	18	88	0	52	62	8	20	8	1.49
35850704--35851131	217	2.0	217	94	0	748	27	18	18	35	1.95
35852868--35852909	17	2.4	17	80	11	50	50	0	0	50	1.00
35854227--35854329	42	2.4	43	80	6	111	27	17	23	32	1.97
35854189--35854347	43	3.7	42	73	13	137	23	18	27	30	1.97
35860758--35860802	23	2.0	23	82	8	56	33	4	11	51	1.58
35861380--35861551	42	4.1	41	82	1	200	29	19	20	31	1.97
35861408--35861562	84	1.9	84	87	4	233	28	19	21	30	1.98
35865177--35865326	42	3.5	43	73	11	130	24	19	26	29	1.98
35865177--35865335	43	3.7	43	73	12	139	23	18	27	30	1.98
35867319--35867354	18	1.9	19	94	5	65	22	5	5	66	1.34
35868694--35868920	41	5.5	41	86	1	303	18	24	28	28	1.98
35869030--35869080	26	2.0	26	84	0	66	58	5	11	23	1.55
35869340--35869372	14	2.3	15	94	5	59	30	0	33	36	1.58
35869392--35869444	14	3.8	14	84	0	61	24	0	41	33	1.55
35869404--35869456	14	3.8	14	82	0	61	24	0	43	32	1.55
35869471--35869623	82	1.9	82	86	1	218	28	1	26	44	1.62
35870465--35870851	147	2.7	144	87	4	539	42	13	12	31	1.82
35870867--35870905	21	1.9	21	84	5	53	30	41	0	28	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35876454--35876575	43	2.9	43	83	1	138	24	21	28	25	1.99
35876471--35876586	43	2.7	43	82	0	142	24	22	28	25	1.99
35877050--35877081	17	1.9	16	93	6	55	50	0	0	50	1.00
35878137--35878182	23	2.0	24	86	4	67	47	0	21	30	1.51
35884419--35884467	17	2.7	18	81	12	55	46	0	0	53	1.00
35884612--35884649	17	2.2	17	85	0	58	76	5	13	5	1.13
35885520--35885565	23	2.0	24	86	4	67	47	0	21	30	1.51
35885687--35885827	38	3.6	39	80	5	142	23	19	26	31	1.98
35890743--35890883	68	2.1	69	91	1	230	41	12	10	35	1.78
35893766--35893804	2	19.5	2	100	0	78	51	0	0	48	1.00
35900917--35901109	102	1.9	101	92	1	323	27	12	25	33	1.92
35903116--35903172	3	19.0	3	96	0	105	64	0	0	35	0.93
35908280--35908308	14	2.1	14	100	0	58	20	41	0	37	1.53
35909740--35910177	214	2.0	215	94	0	779	40	16	7	35	1.78
35912422--35912455	17	2.1	16	88	5	50	32	0	8	58	1.29
35918621--35918754	70	1.9	70	83	3	171	47	14	12	24	1.79
35941868--35941994	4	31.8	4	83	0	119	27	9	24	38	1.86
35942010--35942044	17	2.1	17	100	0	70	54	11	17	17	1.71
35951390--35951435	17	2.7	17	83	6	58	50	0	30	19	1.48
35958337--35958660	165	2.0	164	96	0	603	44	4	21	28	1.73
35959367--35959413	17	2.7	18	77	6	53	51	0	25	23	1.49
35960417--35960504	9	9.4	9	69	20	56	62	5	2	29	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35963532--35963577	22	2.1	22	84	4	58	26	4	6	63	1.38
35965444--35965553	2	57.5	2	78	8	113	45	0	2	50	1.22
35971611--35971706	45	2.2	43	84	3	120	31	16	22	29	1.96
35971826--35972183	44	8.0	45	74	2	319	29	18	24	27	1.98
35971826--35972183	89	4.0	89	88	2	511	29	18	24	27	1.98
35971819--35972181	179	2.0	178	89	1	548	30	18	24	26	1.98
35973973--35974002	13	2.4	12	94	5	51	36	0	0	63	0.95
35977019--35977060	18	2.3	18	87	0	66	16	19	7	57	1.62
35977802--35977845	3	14.7	3	95	0	79	34	2	0	63	1.07
35977844--35977869	3	8.7	3	100	0	52	34	0	30	34	1.58
35978002--35978062	27	2.3	27	86	5	90	39	4	0	55	1.21
35978050--35978088	6	6.7	6	94	2	53	51	0	7	41	1.31
35980835--35981121	101	2.8	101	92	1	468	23	17	27	32	1.96
35980835--35981118	51	5.6	50	79	10	283	23	17	27	31	1.97
35981042--35981122	26	3.2	25	66	22	60	22	13	28	35	1.92
35984191--35984477	50	5.6	50	80	3	254	26	20	29	23	1.99
35984828--35984870	22	2.0	22	90	0	68	13	27	16	41	1.86
35990107--35990150	23	1.9	23	85	0	61	52	0	2	45	1.13
35994576--35995142	51	11.5	51	81	8	658	27	23	18	29	1.98
35994576--35995142	97	5.8	97	82	8	568	27	23	18	29	1.98
35994576--35995142	148	3.8	148	86	3	729	27	23	18	29	1.98
36005685--36005718	16	2.1	16	88	0	50	44	20	14	20	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36007300--36007342	20	2.2	20	83	8	52	67	2	6	23	1.27
36008466--36008529	13	4.8	13	77	11	67	35	18	3	42	1.66
36014342--36014385	17	2.6	16	83	16	54	45	0	34	20	1.51
36020930--36020989	8	7.6	8	73	16	54	35	0	3	61	1.12
36020931--36020989	15	3.8	15	82	6	64	35	0	3	61	1.13
36022373--36022413	12	3.2	12	83	12	55	19	26	0	53	1.45
36022380--36022416	14	2.6	14	95	4	65	16	24	0	59	1.37
36025762--36025864	46	2.2	46	92	0	170	30	7	17	44	1.77
36043006--36043050	22	2.0	23	82	4	56	42	0	0	57	0.98
36043479--36043504	5	5.2	5	100	0	52	42	19	19	19	1.90
36043941--36043980	18	2.3	18	86	4	55	50	0	22	27	1.50
36044352--36044388	9	4.1	9	92	0	65	29	10	13	45	1.77
36044442--36044472	9	3.4	9	90	0	53	38	22	12	25	1.90
36051352--36051381	15	2.1	15	93	6	53	50	6	0	43	1.28
36052607--36052631	13	1.9	13	100	0	50	88	0	12	0	0.53
36052892--36052952	18	3.4	18	73	13	63	54	0	1	44	1.10
36053488--36053555	19	3.5	19	74	9	57	30	2	0	66	1.07
36055889--36055920	7	4.6	7	92	0	55	31	0	12	56	1.37
36056569--36056603	18	1.9	18	94	0	61	25	31	8	34	1.86
36056969--36057010	17	2.4	18	80	4	50	42	9	2	45	1.49
36059331--36059416	35	2.5	35	81	9	106	45	0	4	50	1.22
36059358--36059418	24	2.5	23	80	15	61	45	0	4	49	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36060059--36060083	12	2.1	12	100	0	50	24	36	24	16	1.94
36061634--36061697	27	2.5	27	80	12	73	39	0	26	34	1.57
36063880--36064231	126	2.8	125	90	3	566	32	21	16	29	1.95
36065457--36065494	11	3.2	12	85	11	51	7	21	2	68	1.28
36065467--36065493	11	2.5	11	100	0	54	7	22	0	70	1.12
36066204--36066323	41	2.9	42	77	6	127	24	25	34	16	1.96
36069767--36069829	19	3.3	19	93	0	108	12	23	30	33	1.92
36073111--36073331	104	2.1	104	80	2	246	23	22	31	22	1.99
36075106--36075146	19	2.1	20	86	13	59	39	4	0	56	1.21
36078398--36078450	3	17.3	3	96	3	97	32	1	0	66	1.03

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