genome.fa.s9.2.7.7.80.10.50.1000.90.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  90  of  226  ( 27023 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)
31669652--31669928	123	2.3	123	92	1	459	33	21	14	29	1.93
31671257--31671400	43	3.3	43	85	0	180	34	24	16	24	1.95
31671343--31671457	57	2.0	57	87	0	167	36	26	13	22	1.92
31671422--31671586	43	3.8	43	79	3	188	27	23	17	31	1.97
31674612--31674722	42	2.6	43	82	4	136	25	17	26	31	1.97
31674612--31674729	43	2.8	42	83	3	130	24	16	26	32	1.96
31675191--31675219	2	14.5	2	100	0	58	48	0	0	51	1.00
31677955--31678117	7	23.6	7	71	16	90	45	30	1	23	1.61
31677939--31678031	43	2.2	43	81	12	111	39	33	3	23	1.71
31678280--31678326	7	6.7	7	90	0	67	48	34	0	17	1.47
31678280--31678338	14	4.2	14	80	8	66	49	32	0	18	1.48
31678363--31678423	14	4.3	14	78	2	50	52	26	1	19	1.55
31678363--31678417	28	1.9	29	85	3	76	52	25	1	20	1.56
31678716--31678874	72	2.2	71	93	1	273	28	28	13	29	1.95
31678850--31678999	81	1.9	80	88	1	228	27	22	18	32	1.97
31678849--31679008	40	4.0	40	78	4	169	26	23	18	31	1.97
31681680--31681845	46	3.6	45	70	16	133	25	18	21	34	1.95
31681681--31681882	46	4.3	48	68	13	125	26	17	19	36	1.94
31681677--31681905	94	2.4	94	84	4	284	27	17	19	35	1.94
31684488--31684537	24	2.1	24	96	0	91	28	28	10	34	1.89
31696670--31696742	27	2.8	25	72	22	69	17	24	23	34	1.96
31696731--31696785	24	2.3	24	87	6	85	16	23	23	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31696817--31696872	24	2.3	24	82	11	62	19	26	17	35	1.94
31697174--31697390	107	2.0	107	97	0	407	29	11	17	41	1.84
31700294--31700335	20	2.0	22	86	9	61	23	2	2	71	1.10
31701063--31701118	21	2.7	20	77	17	60	12	32	32	23	1.92
31705442--31705475	3	11.0	3	87	6	50	35	0	61	2	1.11
31708053--31708093	16	2.6	16	80	0	55	39	7	21	31	1.81
31711306--31711398	44	2.1	44	84	6	116	33	4	27	34	1.77
31711511--31711748	56	4.1	55	74	15	194	52	3	0	43	1.23
31711624--31711668	22	2.0	23	91	4	74	60	2	0	37	1.09
31711624--31711687	12	5.2	12	75	16	60	57	1	0	40	1.08
31711518--31711768	120	2.1	120	93	3	436	51	3	0	43	1.24
31713746--31713814	34	2.0	34	97	0	129	49	13	8	28	1.71
31717248--31717378	67	2.0	67	81	3	156	32	19	25	22	1.97
31719889--31719923	16	2.2	16	100	0	70	11	11	11	65	1.47
31727547--31727823	27	10.3	27	82	4	267	32	24	15	27	1.95
31727516--31727823	81	3.8	81	79	2	291	34	24	15	25	1.95
31731521--31731597	36	2.1	36	97	0	145	37	16	2	42	1.62
31731683--31731730	18	2.6	18	78	18	53	56	0	6	37	1.25
31738411--31738636	27	8.4	27	86	1	310	18	18	21	42	1.89
31739427--31739486	23	2.6	23	87	10	79	41	16	15	26	1.88
31739410--31739815	70	5.7	70	90	2	616	43	18	12	25	1.85
31739663--31739925	118	2.2	117	94	1	456	42	18	13	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31739458--31739862	48	8.6	46	73	15	287	43	18	12	25	1.85
31739593--31739958	188	2.0	187	92	1	608	43	18	13	24	1.86
31739702--31739958	70	3.7	70	86	6	292	42	19	13	24	1.87
31739410--31739958	140	3.9	140	83	7	566	42	18	13	25	1.86
31740691--31740816	28	4.5	28	89	4	173	29	28	11	30	1.92
31740691--31740816	56	2.2	56	91	2	200	29	28	11	30	1.92
31748681--31748736	25	2.3	24	78	3	58	46	0	3	50	1.19
31748740--31748778	16	2.4	16	86	0	51	46	2	5	46	1.38
31749499--31749585	44	2.0	44	84	8	115	45	17	9	27	1.78
31754200--31754288	41	2.2	41	81	2	99	25	15	22	35	1.94
31754220--31754357	41	3.4	41	84	6	156	23	15	26	34	1.95
31754611--31754710	42	2.4	42	93	0	164	36	10	27	27	1.88
31757271--31757357	44	2.0	44	88	0	129	27	11	13	47	1.78
31758906--31759014	56	1.9	57	81	9	134	36	10	16	36	1.82
31766666--31767036	105	3.6	104	91	3	579	20	19	29	30	1.97
31768462--31768491	16	1.9	16	93	6	53	46	10	0	43	1.37
31781716--31781758	21	2.0	21	86	8	61	34	0	6	58	1.25
31781737--31781903	58	2.9	57	83	8	178	43	1	3	52	1.26
31781996--31782088	44	2.1	44	84	9	118	35	25	4	34	1.76
31782070--31782125	16	3.5	16	85	4	78	28	23	7	41	1.80
31791474--31791531	23	2.6	22	91	5	98	37	1	0	60	1.07
31791762--31791797	17	2.1	17	94	0	63	52	2	5	38	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31794791--31794858	36	1.9	35	82	8	84	50	7	13	29	1.68
31794859--31794920	2	31.0	2	100	0	124	50	0	0	50	1.00
31795473--31795529	22	2.5	24	80	11	75	70	1	12	15	1.25
31798319--31798435	56	2.2	53	80	14	136	25	19	30	23	1.98
31801963--31802025	23	2.9	22	81	13	85	39	25	19	15	1.91
31803449--31803516	25	2.8	24	70	12	59	54	1	7	36	1.37
31803664--31803699	12	3.0	12	91	0	63	55	0	11	33	1.35
31803664--31803720	24	2.4	24	82	5	62	57	1	8	31	1.39
31804878--31804926	22	2.2	22	82	10	64	22	6	32	38	1.79
31805256--31805523	44	6.2	44	70	5	141	28	25	18	27	1.98
31805491--31806149	128	5.2	128	92	0	1061	25	24	20	29	1.99
31807312--31807352	7	6.0	7	88	5	66	17	12	0	70	1.16
31807312--31807348	13	2.8	13	91	4	56	16	10	0	72	1.10
31807312--31807352	20	2.0	20	95	0	73	17	12	0	70	1.16
31808217--31808295	30	2.7	28	81	9	86	11	10	5	73	1.24
31808226--31808306	29	2.8	28	83	7	90	9	8	6	75	1.19
31813167--31813234	25	2.8	24	70	12	59	54	1	7	36	1.37
31813671--31813706	16	2.2	16	100	0	72	50	27	13	8	1.71
31818788--31818837	17	2.9	18	83	16	70	10	8	4	78	1.09
31818798--31818835	18	2.2	16	90	9	58	7	7	5	78	1.07
31818788--31818838	25	2.0	26	85	11	70	9	7	5	76	1.15
31819704--31819729	8	3.2	8	100	0	52	76	0	0	23	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31821899--31821931	15	2.3	15	94	5	59	69	0	3	27	1.03
31827307--31827353	24	2.0	24	83	8	60	29	0	17	53	1.44
31828301--31828330	2	15.0	2	100	0	60	50	0	0	50	1.00
31836582--31836653	27	2.5	27	82	13	74	34	1	4	59	1.25
31839342--31839381	19	2.1	19	100	0	80	25	15	20	40	1.90
31845837--31845871	10	3.5	10	100	0	70	20	0	28	51	1.47
31845839--31845873	16	2.2	16	89	0	52	17	0	31	51	1.45
31848165--31848464	24	12.8	24	70	14	171	55	4	6	34	1.44
31848162--31848450	69	4.1	68	75	10	228	55	4	5	34	1.45
31848255--31848459	47	4.4	45	73	12	139	56	4	5	33	1.43
31848242--31848447	70	3.0	69	76	7	209	55	4	5	33	1.45
31849219--31849288	19	3.7	20	81	9	92	14	32	2	50	1.58
31856868--31856927	20	3.3	18	69	17	52	35	1	0	63	1.05
31857506--31857567	30	2.1	30	100	0	124	25	6	22	45	1.76
31860925--31860959	2	17.5	2	100	0	70	51	0	0	48	1.00
31864180--31864217	9	4.2	9	83	9	51	31	0	2	65	1.06
31866308--31866339	9	3.6	9	95	0	55	65	6	0	28	1.16
31867767--31868109	44	7.8	44	72	11	190	26	23	20	29	1.99
31867993--31868193	41	4.8	41	70	11	127	27	22	21	28	1.99
31867778--31868206	129	3.3	129	85	2	547	26	22	21	30	1.99
31867819--31868194	44	8.7	43	72	10	223	26	22	21	29	1.99
31868217--31869001	50	15.7	50	73	4	600	24	19	23	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31868216--31869032	100	8.2	100	89	0	1121	24	19	23	32	1.98
31869174--31869373	44	4.6	43	71	18	144	28	24	19	28	1.98
31869018--31869652	132	4.8	132	89	1	967	27	23	18	30	1.98
31869309--31869505	44	4.5	43	69	20	147	28	26	17	27	1.97
31870884--31870946	6	10.3	6	75	10	56	1	15	3	79	0.94
31870911--31870947	9	3.9	9	92	7	56	0	16	0	83	0.64
31873215--31873248	12	2.8	12	81	0	50	8	23	23	44	1.81
31875686--31875725	14	2.9	14	84	0	53	40	5	5	50	1.46
31875824--31875894	3	23.7	3	100	0	142	67	32	0	0	0.91
31875893--31875928	3	12.0	3	100	0	72	66	0	0	33	0.92

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   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226