genome.fa.s7.2.7.7.80.10.50.1000.116.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  116  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)
35329726--35329827	46	2.2	46	79	6	109	53	15	0	30	1.42
35329777--35330141	61	5.4	61	79	16	316	57	12	0	30	1.35
35329817--35330143	34	10.3	33	62	23	107	58	11	0	30	1.33
35329838--35330080	80	3.0	78	98	0	414	57	12	0	30	1.35
35329867--35330106	80	3.1	78	91	4	285	59	11	0	29	1.33
35330120--35330213	19	5.3	19	69	17	76	54	13	1	30	1.47
35330134--35330188	29	2.0	28	85	7	76	56	12	0	30	1.37
35330161--35330213	21	2.5	21	75	22	65	54	16	1	26	1.53
35329778--35330207	141	3.1	138	82	11	486	57	12	0	30	1.38
35333608--35333680	23	3.3	21	83	11	74	15	17	27	39	1.90
35333620--35333723	46	2.3	45	81	5	120	15	16	25	43	1.87
35333644--35333721	23	3.5	22	75	15	70	14	16	24	44	1.84
35342815--35342990	57	3.1	57	85	3	228	43	5	21	29	1.75
35357860--35357950	24	3.8	24	65	17	62	58	0	1	40	1.05
35359042--35359171	66	2.0	66	95	0	233	33	11	6	48	1.64
35371175--35371208	18	1.9	17	88	5	50	52	5	8	32	1.56
35371170--35371225	23	2.5	23	85	2	69	50	7	10	32	1.64
35371545--35371630	3	28.3	3	91	2	136	63	0	2	33	1.07
35375646--35375770	40	3.2	40	89	1	180	34	19	21	24	1.96
35375799--35376069	41	6.6	41	85	1	382	21	17	29	30	1.96
35376726--35376763	14	2.7	15	84	12	53	26	2	31	39	1.70
35376353--35376883	284	1.8	286	82	7	682	27	3	27	41	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35379464--35379502	21	1.9	21	89	5	62	43	2	20	33	1.65
35382551--35382590	13	3.1	13	88	0	62	45	20	5	30	1.72
35384181--35384213	16	2.0	17	88	5	50	57	3	15	24	1.52
35386175--35386205	16	1.9	16	93	0	53	35	3	6	54	1.42
35387414--35387539	41	3.0	40	80	7	146	21	15	29	33	1.95
35388718--35388816	23	4.3	23	94	0	180	28	26	22	23	1.99
35390111--35390188	24	3.2	25	75	10	74	41	21	19	17	1.91
35390194--35390286	25	3.8	24	80	11	84	35	21	23	19	1.96
35390370--35390436	25	2.8	24	78	13	82	38	11	28	20	1.88
35393975--35394041	24	2.8	24	83	0	89	19	22	5	52	1.67
35394013--35394146	40	3.4	40	91	3	209	22	23	4	49	1.68
35394099--35394137	15	2.5	16	87	4	53	20	25	2	51	1.60
35394587--35394640	28	2.0	28	92	3	92	12	25	0	61	1.32
35398135--35398194	25	2.3	26	97	2	113	28	23	26	21	1.99
35414167--35414212	9	5.1	9	94	0	83	45	13	10	30	1.77
35414255--35414314	30	2.0	29	84	9	77	20	35	0	45	1.51
35415186--35415228	18	2.4	18	92	7	70	44	13	9	32	1.76
35415199--35415237	18	2.2	18	90	0	60	46	12	12	28	1.79
35417172--35417209	19	2.0	19	90	10	60	36	5	26	31	1.79
35417466--35417666	68	3.2	58	75	17	170	41	3	4	49	1.43
35452342--35452388	22	2.2	21	84	3	58	36	31	12	19	1.89
35453974--35454066	34	2.7	34	88	3	143	40	0	17	41	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35454169--35454686	124	4.2	124	82	3	603	37	15	17	29	1.91
35470624--35470670	26	1.9	23	83	12	58	40	2	14	42	1.58
35470891--35470935	21	2.1	21	87	0	63	15	6	37	40	1.74
35472741--35472798	24	2.4	24	83	11	66	65	0	1	32	1.03
35476186--35476224	10	3.9	10	93	0	51	17	5	0	76	0.96
35476192--35476224	5	6.6	5	92	0	57	18	3	0	78	0.87
35476464--35476509	24	1.9	23	83	16	58	47	8	10	32	1.69
35488436--35488563	41	3.1	40	80	12	136	21	31	17	30	1.96
35489660--35489700	21	2.0	21	85	9	57	24	12	4	58	1.53
35494561--35494626	13	5.1	13	81	0	87	30	9	25	34	1.87
35508334--35508444	40	2.8	40	79	6	102	34	23	21	20	1.97
35509205--35509234	14	2.1	14	93	0	51	23	0	26	50	1.50
35509277--35509374	7	13.9	7	79	1	70	20	4	28	46	1.68
35510937--35510972	14	2.6	14	91	8	56	19	8	16	55	1.66
35512083--35512107	5	5.0	5	100	0	50	20	0	0	80	0.72
35512155--35512289	9	14.7	9	69	19	66	45	16	1	37	1.57
35512250--35512523	46	6.2	46	74	14	231	46	14	3	35	1.62
35512405--35512564	9	18.0	9	70	19	79	48	16	1	33	1.57
35512407--35512503	16	6.1	16	75	16	94	48	16	1	34	1.53
35512447--35512525	21	3.6	21	69	24	63	50	12	2	34	1.54
35512205--35512523	171	1.9	170	93	0	548	46	15	3	35	1.62
35512421--35512550	46	2.8	46	87	8	167	50	15	1	33	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35512533--35512565	16	2.1	16	94	0	57	48	15	3	33	1.60
35512764--35512999	9	27.8	9	77	11	221	45	19	2	33	1.62
35512767--35512996	25	9.1	26	81	5	196	45	19	2	33	1.62
35512765--35513039	34	8.1	34	73	13	169	45	18	1	33	1.60
35512777--35512995	43	5.4	41	76	16	170	45	19	2	32	1.63
35512764--35513012	68	3.7	68	80	7	210	45	18	2	33	1.61
35514937--35514986	21	2.4	21	82	0	64	34	14	46	6	1.69
35515357--35515450	43	2.2	43	80	5	100	34	17	25	23	1.96
35515371--35515538	43	3.9	43	85	3	221	28	17	28	25	1.97
35517113--35517175	11	5.8	10	77	14	54	65	3	3	28	1.24
35517108--35517164	18	3.2	18	74	18	57	63	1	5	29	1.27
35517116--35517166	17	2.9	17	80	11	59	66	1	3	27	1.20
35517480--35517526	21	2.2	21	85	7	60	40	2	2	55	1.24
35525186--35525283	48	2.0	48	94	3	171	42	18	5	33	1.72
35525867--35525981	5	23.2	5	94	1	205	39	20	0	39	1.59
35532550--35532620	37	1.9	37	100	0	142	30	8	19	40	1.81
35536554--35536629	25	3.0	27	81	11	90	39	13	14	32	1.85
35540070--35540126	17	3.5	17	68	20	50	57	1	3	36	1.26
35545030--35545168	20	6.9	20	73	1	107	16	29	20	33	1.95
35545071--35545177	40	2.6	41	89	1	153	16	29	21	31	1.96
35546072--35546186	54	2.2	53	90	1	176	20	18	32	28	1.96
35554801--35554852	12	4.5	11	77	13	50	76	0	21	1	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35556864--35556903	16	2.5	16	87	0	53	20	7	0	72	1.08
35557461--35557522	11	5.9	11	74	11	58	30	6	0	62	1.20
35557571--35557610	21	2.0	20	85	9	55	32	0	5	62	1.17
35557679--35557735	28	2.0	28	82	0	69	35	5	1	57	1.31
35559299--35559332	16	2.1	16	94	0	59	20	14	23	41	1.89
35563887--35564932	44	23.6	44	76	5	714	30	13	23	32	1.93
35563887--35564917	89	11.6	88	77	5	770	30	13	23	32	1.93
35563887--35564805	133	6.9	132	89	1	1284	30	13	23	32	1.93
35566404--35566443	21	2.0	20	85	9	55	32	0	5	62	1.17
35569199--35569255	18	3.1	18	76	18	55	38	8	0	52	1.33
35570207--35570260	18	2.9	18	75	8	54	61	1	0	37	1.07
35581942--35582028	25	3.5	23	80	10	77	33	21	27	17	1.96
35585149--35585180	16	2.0	16	93	0	55	46	6	0	46	1.27
35587660--35587689	15	2.0	15	93	0	51	30	6	13	50	1.67
35595563--35595658	33	2.8	34	79	3	104	34	16	20	28	1.95
35604360--35604415	29	1.9	29	88	0	85	46	12	12	28	1.78
35605459--35605537	35	2.3	35	82	4	88	64	0	3	31	1.11
35607176--35607220	23	2.0	23	87	12	67	31	15	22	31	1.95
35621960--35622002	14	3.1	14	76	6	52	27	16	0	55	1.41
35621957--35622037	27	3.0	27	83	3	110	33	20	1	44	1.60
35621957--35622058	13	7.7	13	69	10	55	33	20	1	44	1.63
35621962--35622037	26	2.9	27	82	4	91	34	19	1	44	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35621961--35622048	27	3.3	26	79	6	88	34	18	2	45	1.62
35626896--35626952	28	2.0	28	90	6	89	38	5	0	56	1.22
35635000--35635056	28	2.0	28	90	6	89	38	5	0	56	1.22
35641955--35641992	19	2.1	18	85	14	51	39	0	7	52	1.31
35642309--35642375	20	3.0	22	77	18	59	38	1	2	56	1.24
35654998--35655102	41	2.6	41	90	3	149	25	18	20	35	1.95
35655039--35655575	219	2.5	219	92	0	896	31	18	20	29	1.97
35655388--35655733	175	2.0	175	93	1	586	32	18	21	28	1.97
35654645--35655634	523	1.9	520	82	5	1165	31	18	21	28	1.97
35655440--35655719	85	3.2	84	69	11	233	32	18	21	28	1.97

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