genome.fa.s10.2.7.7.80.10.50.1000.140.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  140  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)
43526207--43526283	27	2.9	27	86	0	100	29	27	14	28	1.95
43529374--43529430	29	1.9	29	86	10	80	22	36	22	17	1.94
43536206--43536247	18	2.3	19	83	4	50	69	2	0	28	1.01
43537698--43537749	25	2.1	25	100	0	104	32	15	15	36	1.89
43539691--43539720	15	2.0	15	93	0	51	13	10	40	36	1.78
43540691--43540741	4	12.8	4	77	22	54	72	0	1	25	0.95
43546997--43547024	13	2.2	13	100	0	56	32	28	7	32	1.84
43555394--43555445	20	2.6	21	77	20	58	44	5	11	38	1.65
43556732--43556834	48	2.1	48	85	3	145	33	12	19	33	1.89
43561638--43561847	106	2.0	106	95	0	375	27	23	17	31	1.97
43562306--43562342	20	1.9	18	89	10	56	48	8	5	37	1.56
43565789--43567643	618	3.0	618	99	0	3629	30	22	11	35	1.90
43569634--43569689	24	2.4	23	79	8	60	16	17	25	41	1.89
43574346--43574377	16	1.9	16	93	6	55	6	9	0	84	0.78
43576110--43576152	22	2.0	22	85	0	59	46	2	6	44	1.43
43587784--43587821	18	2.2	17	90	4	58	73	5	18	2	1.14
43588481--43588578	51	1.9	51	93	0	169	37	26	13	22	1.91
43595928--43595984	22	2.6	21	78	15	62	56	10	7	26	1.59
43599499--43599564	33	2.0	33	93	0	114	19	25	16	37	1.93
43605673--43605697	10	2.5	10	100	0	50	72	8	0	20	1.10
43606142--43606189	21	2.3	20	80	16	53	70	8	10	10	1.33
43606780--43606920	55	2.6	55	81	7	144	24	34	0	39	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43608450--43608656	103	2.0	103	100	0	414	28	9	12	48	1.72
43618307--43618343	3	12.3	3	100	0	74	64	0	0	35	0.94
43623158--43623399	124	1.9	124	85	8	331	54	11	9	25	1.65
43626238--43626367	54	2.3	57	80	6	142	40	10	5	43	1.62
43626275--43626384	54	2.0	56	82	7	134	42	8	4	44	1.54
43633860--43633913	10	5.4	9	83	16	63	62	1	1	33	1.16
43633860--43633913	19	2.7	19	86	13	65	62	1	1	33	1.16
43633860--43633913	9	5.4	10	82	12	58	62	1	1	33	1.16
43634825--43634849	12	2.1	12	100	0	50	48	0	0	52	1.00
43654967--43655003	17	2.2	17	90	0	56	10	21	0	67	1.21
43658173--43658223	26	2.0	26	88	0	75	47	7	1	43	1.43
43661128--43661199	20	3.7	20	85	7	85	38	0	6	54	1.28
43663913--43663959	18	2.7	18	81	15	62	36	4	0	59	1.17
43663926--43663971	18	2.5	19	83	13	53	39	4	0	56	1.19
43676586--43676676	23	4.0	23	90	5	148	32	27	20	18	1.96
43676579--43676674	46	2.1	46	96	0	174	33	28	18	19	1.96
43684764--43685213	44	10.2	44	63	9	119	29	19	23	27	1.98
43684718--43685644	397	2.3	396	91	1	1491	29	19	24	25	1.98
43685626--43685726	44	2.3	44	83	6	125	30	18	23	26	1.98
43684718--43685644	132	7.0	132	92	0	1471	29	19	24	25	1.98
43685930--43686022	21	4.5	21	81	5	118	39	11	11	36	1.79
43686464--43686515	25	2.1	25	85	7	70	32	3	5	57	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43687075--43687116	19	2.2	20	86	4	59	33	7	9	50	1.62
43689245--43689294	20	2.5	20	87	3	75	12	2	24	62	1.40
43689931--43689993	20	3.1	19	78	14	63	4	22	0	73	1.02
43691248--43691286	19	2.0	20	85	5	53	43	5	7	43	1.55
43692283--43692418	41	3.5	40	84	5	161	25	16	23	34	1.95
43694652--43694734	20	4.1	20	80	12	80	42	21	24	12	1.87
43697606--43697644	17	2.3	17	100	0	78	46	5	5	43	1.48
43710459--43710730	138	2.0	137	88	4	404	41	23	11	23	1.86
43715700--43715743	20	2.1	21	84	12	56	27	6	0	65	1.17
43722002--43722047	20	2.2	21	77	11	51	30	6	0	63	1.20
43730656--43730680	13	1.9	13	100	0	50	44	16	0	40	1.47
43732929--43733482	110	5.0	110	90	0	813	33	21	13	31	1.92
43734868--43734892	3	8.3	3	100	0	50	0	32	0	68	0.90
43737145--43737186	2	21.0	2	100	0	84	50	0	0	50	1.00
43739368--43739407	22	1.9	20	85	10	53	52	0	7	40	1.30
43740627--43740656	16	1.9	16	93	6	53	50	0	0	50	1.00
43743169--43743260	42	2.2	42	86	0	130	23	27	30	18	1.98
43747259--43747339	40	2.0	40	100	0	162	38	17	17	27	1.92
43762629--43762655	7	3.9	7	100	0	54	14	0	0	85	0.61
43766428--43766462	1	35.0	1	88	0	52	2	2	0	94	0.37
43767644--43767682	20	1.9	21	84	5	53	20	30	0	48	1.50
43767842--43767904	29	2.2	29	94	0	108	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43767997--43768027	15	2.0	16	93	6	55	25	0	6	67	1.14
43768838--43768862	7	3.6	7	100	0	50	28	0	12	60	1.32
43769514--43769548	18	1.9	18	88	0	52	25	34	8	31	1.86
43791308--43791354	6	7.8	6	83	9	51	21	2	0	76	0.89
43792050--43792354	112	2.7	113	92	0	477	26	20	26	25	1.99
43792145--43792524	186	2.0	185	89	1	582	26	20	27	26	1.99
43792257--43792429	73	2.4	72	92	0	274	27	19	27	25	1.99
43792699--43792725	14	1.9	14	100	0	54	25	0	37	37	1.57
43792720--43792774	15	3.7	15	72	11	51	20	0	45	34	1.51
43793846--43793911	31	2.1	31	97	0	123	43	12	15	28	1.82
43793888--43794127	100	2.3	102	83	10	303	48	13	13	24	1.78
43793884--43794145	102	2.6	99	76	12	253	48	13	12	25	1.77
43794080--43794431	149	2.4	149	91	1	553	38	15	16	29	1.89
43799114--43799153	19	2.0	20	85	4	55	27	2	45	25	1.66
43800596--43800791	50	3.9	50	91	0	302	20	31	22	25	1.98
43801165--43801221	30	1.9	30	88	0	87	31	21	3	43	1.69
43802637--43802680	7	6.3	7	100	0	88	43	43	0	13	1.44
43802637--43802770	21	6.0	21	73	11	88	47	32	2	18	1.61
43802834--43802872	20	2.0	20	89	0	60	48	30	2	17	1.61
43802929--43802956	13	2.2	13	100	0	56	42	50	0	7	1.30
43803735--43804091	41	8.7	41	81	2	335	28	26	22	22	1.99
43805378--43805406	3	9.7	3	100	0	58	34	0	34	31	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43806840--43807097	86	3.0	86	95	0	471	32	21	13	32	1.92
43809013--43809062	18	2.8	18	78	0	64	10	38	4	48	1.56
43810580--43810616	9	4.1	9	92	0	65	45	13	10	29	1.77
43810669--43810724	29	1.9	28	85	7	76	19	44	0	35	1.51
43817885--43817911	13	2.1	13	100	0	54	25	0	7	66	1.17
43819744--43819790	19	2.3	21	85	7	71	42	4	0	53	1.20
43819790--43819857	27	2.4	28	90	7	102	48	5	8	36	1.59
43820367--43820400	17	1.9	18	88	5	52	47	2	11	38	1.55
43821320--43821344	10	2.5	10	100	0	50	72	0	0	28	0.86
43824721--43824797	3	25.3	3	82	12	95	31	5	1	62	1.25
43824835--43824870	16	2.2	17	95	5	65	50	0	0	50	1.00
43826720--43826748	13	2.2	13	100	0	58	31	24	20	24	1.98
43830493--43830587	8	11.4	8	91	6	136	78	9	0	11	0.95
43832672--43833330	88	7.5	88	96	0	1183	26	22	25	24	2.00
43833319--43834541	44	28.2	42	68	13	452	30	18	22	28	1.97
43833326--43833595	129	2.1	129	89	0	405	30	16	22	30	1.96
43833425--43833970	175	3.2	172	90	3	728	29	17	22	29	1.97
43833607--43833847	129	1.9	127	93	3	412	28	17	24	29	1.97
43833433--43834014	171	3.4	172	88	5	746	29	17	23	29	1.97
43833652--43833976	85	3.8	85	76	8	320	28	16	24	30	1.97
43833817--43834369	131	4.2	131	92	2	837	30	19	22	28	1.98
43834028--43834411	46	8.7	45	68	18	202	29	21	21	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43834337--43834654	129	2.5	129	89	0	474	29	19	21	29	1.98
43836103--43836167	3	21.3	3	76	14	62	29	6	3	61	1.35
43836204--43836239	16	2.2	17	95	5	65	50	0	0	50	1.00
43836267--43836311	22	2.1	21	84	8	56	33	2	2	62	1.20
43836269--43836321	25	2.1	26	82	6	65	30	3	1	64	1.22
43837736--43837774	20	2.0	20	94	0	69	28	12	15	43	1.83
43846994--43847033	2	20.0	2	100	0	80	50	0	0	50	1.00
43852584--43852763	51	3.6	50	79	6	168	25	15	28	30	1.96
43858027--43858166	50	2.8	51	82	4	176	27	15	28	29	1.96
43876033--43876092	29	2.1	29	93	0	102	25	35	5	35	1.78

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