genome.fa.s10.2.7.7.80.10.50.1000.47.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  47  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)
14000700--14000894	97	2.0	96	86	6	270	47	2	5	45	1.36
14000820--14000878	28	2.1	27	81	3	64	52	1	6	38	1.38
14001571--14001690	41	2.9	41	87	0	177	19	20	30	30	1.97
14002046--14002086	14	2.9	14	85	3	55	29	2	31	36	1.71
14002030--14002075	22	2.1	22	83	0	56	28	0	32	39	1.57
14002132--14002163	14	2.3	14	94	0	55	25	0	25	50	1.50
14002181--14002223	15	2.9	15	86	3	52	23	0	30	46	1.52
14002188--14002238	7	7.1	7	86	2	66	23	0	31	45	1.53
14007929--14008019	43	2.1	43	87	2	130	34	10	9	45	1.73
14008425--14008687	43	6.1	43	83	0	303	24	19	26	29	1.98
14008381--14008687	86	3.6	86	80	0	328	23	18	27	29	1.98
14008376--14008687	129	2.4	129	85	3	396	23	18	27	30	1.98
14009861--14009895	16	2.1	17	89	5	54	42	2	11	42	1.55
14014139--14014250	12	8.8	12	66	20	50	53	2	2	41	1.29
14014141--14014249	20	5.9	18	71	21	68	53	2	2	41	1.30
14015292--14015527	43	5.6	42	81	8	232	31	25	16	26	1.96
14015292--14015529	85	2.8	85	81	6	254	31	25	15	26	1.96
14019712--14019773	12	5.5	11	76	17	56	43	4	0	51	1.23
14019724--14019814	23	3.7	25	77	13	109	41	5	0	52	1.24
14019710--14019881	35	4.9	34	71	23	133	41	5	0	52	1.23
14019724--14019979	50	5.0	50	89	8	397	41	5	0	53	1.26
14019809--14019939	23	5.3	23	67	25	90	41	4	0	54	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14019832--14019962	23	5.3	23	79	13	154	39	6	0	54	1.25
14020264--14020376	43	2.7	43	82	9	133	37	38	0	23	1.61
14020264--14020336	21	3.4	21	70	9	67	36	38	1	23	1.64
14020307--14020377	14	4.9	15	73	16	69	38	39	0	22	1.54
14020336--14020396	27	2.2	27	82	8	70	36	37	1	24	1.66
14020591--14020638	22	2.2	22	96	0	87	41	39	0	18	1.51
14020955--14020998	20	2.3	19	80	7	52	63	4	6	25	1.38
14021008--14021149	40	3.5	41	86	4	200	31	27	19	21	1.97
14021212--14021288	40	1.9	40	83	2	100	22	23	15	38	1.92
14026179--14026212	18	1.9	18	88	5	52	11	44	32	11	1.77
14027150--14027608	255	1.8	254	91	1	758	47	12	24	15	1.80
14033699--14033750	20	2.8	18	78	21	63	51	3	1	42	1.31
14036187--14036237	25	2.0	25	100	0	102	35	11	0	52	1.38
14036260--14036301	13	3.1	13	86	13	50	47	0	2	50	1.14
14037137--14037168	12	2.7	12	100	0	64	43	12	0	43	1.42
14040036--14040090	21	2.6	21	77	5	58	25	25	25	23	2.00
14044840--14044869	6	5.0	6	100	0	60	33	16	0	50	1.46
14044832--14044869	18	2.1	18	90	0	58	36	18	0	44	1.50
14046040--14046133	26	3.6	26	72	16	77	62	4	6	26	1.38
14046040--14046145	24	4.1	26	72	11	67	61	5	6	26	1.43
14059553--14059595	3	14.3	3	81	18	54	4	27	0	67	1.10
14059977--14060043	32	2.1	33	88	2	100	40	8	1	49	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14072411--14072497	41	2.1	41	87	4	122	21	29	17	31	1.96
14079906--14079958	24	2.1	24	86	6	70	52	5	16	24	1.65
14087002--14087083	30	2.8	30	85	8	107	42	1	0	56	1.07
14088220--14088286	33	2.1	31	83	8	82	49	2	1	46	1.26
14091843--14092185	50	6.8	50	89	0	497	20	30	21	27	1.98
14099518--14099760	50	4.8	50	88	3	328	20	31	21	26	1.98
14100649--14100688	20	2.0	20	85	0	53	22	20	10	47	1.79
14102620--14102650	2	15.5	2	100	0	62	0	48	0	51	1.00
14106389--14106477	29	3.0	29	83	3	106	21	23	14	40	1.90
14106462--14106646	29	6.4	29	74	6	160	27	27	10	35	1.89
14106462--14106646	58	3.2	58	82	1	192	27	27	10	35	1.89
14109044--14109091	13	3.8	13	80	5	53	75	0	0	25	0.81
14109032--14109092	25	2.6	22	75	25	63	75	0	0	24	0.80
14124346--14124386	15	2.5	17	88	7	59	51	7	12	29	1.66
14130903--14130975	36	2.0	36	100	0	146	27	32	9	30	1.89
14131602--14131682	41	2.0	41	97	0	153	33	7	30	28	1.85
14140808--14140850	11	4.1	10	85	14	52	20	2	0	76	0.89
14140808--14140854	15	3.2	14	85	14	60	21	2	0	76	0.89
14140819--14140853	11	3.2	11	92	8	54	22	2	0	74	0.95
14141023--14141065	6	7.5	6	87	12	56	13	13	0	72	1.13
14145571--14145789	27	8.2	27	78	4	228	16	16	23	42	1.88
14145572--14145789	53	4.1	54	79	4	244	16	16	22	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14156510--14156629	40	3.0	39	87	7	170	16	28	17	37	1.92
14156544--14156609	20	3.3	20	68	8	62	15	31	16	36	1.90
14156566--14156629	20	3.2	20	70	12	60	14	31	17	37	1.89
14157462--14157511	16	3.1	15	80	11	55	16	10	0	74	1.08
14157596--14157627	13	2.4	14	90	10	50	25	12	0	62	1.30
14157653--14157713	3	20.7	3	83	9	63	26	4	3	65	1.28
14159094--14159160	6	11.8	6	72	12	52	14	1	7	76	1.08
14159095--14159155	29	2.1	29	81	6	70	14	1	8	75	1.11
14161667--14161721	22	2.5	22	76	5	58	43	16	20	20	1.88
14161667--14161731	22	3.0	21	72	17	53	46	16	18	18	1.85
14161743--14161958	32	6.7	33	74	8	135	35	19	21	22	1.96
14161743--14161960	64	3.4	64	77	9	214	35	20	21	22	1.96
14161967--14162020	26	2.1	26	92	0	90	35	25	22	16	1.95
14161999--14162064	27	2.4	27	82	5	80	33	24	24	18	1.97
14162117--14162618	27	18.7	27	85	1	596	24	19	20	34	1.96
14162632--14162732	27	3.7	27	81	0	130	23	13	20	41	1.89
14165488--14165560	36	2.0	36	97	0	137	36	26	2	34	1.71
14168944--14169074	45	3.1	45	63	26	113	31	6	11	51	1.62
14168911--14169074	81	2.0	81	97	0	310	30	6	12	51	1.63
14179034--14179105	30	2.4	30	83	4	83	20	23	13	41	1.88
14179064--14179258	60	3.3	60	81	5	182	22	25	11	41	1.87
14179094--14179286	30	6.5	30	71	7	133	22	25	10	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14179180--14179286	29	3.7	29	83	5	144	21	29	9	39	1.85
14179154--14179284	59	2.2	59	89	2	201	22	29	9	39	1.84
14179272--14179334	29	2.2	29	91	0	99	23	28	15	31	1.96
14184293--14184349	30	1.9	30	88	0	87	12	24	38	24	1.90
14185188--14185222	10	3.6	10	84	7	54	20	5	0	74	1.02
14185177--14185231	19	2.8	19	86	13	76	21	3	0	74	0.97
14186537--14186563	12	2.2	12	100	0	54	85	0	0	14	0.61
14187132--14187196	30	2.2	30	88	0	94	13	32	27	26	1.94
14195759--14195803	22	2.0	22	87	8	65	42	2	0	55	1.12
14199460--14199600	30	4.7	30	76	6	110	24	21	12	41	1.87
14199548--14199648	29	3.4	29	86	1	121	27	24	11	35	1.91
14204248--14204343	33	3.2	33	67	27	102	58	4	25	12	1.52
14204257--14204356	26	3.6	28	73	26	104	61	6	23	10	1.50
14204241--14204356	58	2.0	58	100	0	232	60	5	22	12	1.51
14208760--14209021	27	9.7	27	83	0	299	45	20	17	16	1.86
14209210--14209264	26	2.1	26	93	0	92	18	20	23	38	1.93
14209359--14209422	28	2.3	28	91	0	101	21	25	23	29	1.99
14218588--14218657	29	2.4	29	83	9	88	38	11	24	25	1.89
14218675--14218720	22	2.1	22	91	0	74	32	13	30	23	1.93
14218696--14218857	30	5.4	30	77	10	120	38	13	24	22	1.91
14218696--14218857	60	2.7	60	75	11	170	38	13	24	22	1.91
14224781--14224832	25	2.1	24	85	3	68	17	23	21	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14229392--14229461	29	2.4	29	78	4	79	40	12	21	25	1.89
14229444--14229522	29	2.7	29	86	2	113	41	12	26	18	1.87
14238941--14238997	27	2.1	27	80	6	62	75	1	8	14	1.11
14239155--14239202	15	3.2	16	82	11	57	70	2	2	25	1.09
14239618--14239642	13	1.9	13	100	0	50	36	16	0	48	1.46
14240683--14240773	23	4.0	23	80	8	89	34	16	26	23	1.95
14240929--14240956	2	14.0	2	100	0	56	50	0	0	50	1.00
14264571--14264663	27	3.4	27	92	1	150	25	17	18	38	1.92
14267684--14267726	21	2.0	21	100	0	86	37	25	23	13	1.92
14267687--14267733	21	2.2	21	92	0	76	46	21	19	12	1.82

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