genome.fa.s10.2.7.7.80.10.50.1000.115.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  115  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)
35308782--35309184	124	3.3	123	91	4	607	31	22	15	30	1.95
35309189--35309342	51	3.0	52	93	1	256	38	27	9	24	1.85
35310309--35310354	3	15.3	3	100	0	92	32	32	0	34	1.58
35314032--35314099	26	2.6	27	86	9	97	41	4	1	52	1.30
35314160--35314221	26	2.3	27	88	5	99	29	32	25	12	1.93
35314265--35314406	4	35.0	4	72	17	98	67	0	32	0	0.91
35314254--35314325	18	4.1	18	75	13	78	63	0	36	0	0.94
35314301--35314453	41	3.7	43	77	18	171	67	0	32	0	0.90
35314301--35314434	40	3.1	44	78	17	149	70	0	29	0	0.88
35314255--35314465	62	3.4	62	74	14	161	67	0	32	0	0.91
35314266--35314464	82	2.5	80	85	9	252	68	0	31	0	0.90
35320834--35320864	12	2.6	12	94	0	53	61	19	0	19	1.35
35320870--35320922	26	2.0	26	96	0	97	49	7	0	43	1.31
35321112--35321146	3	11.7	3	100	0	70	68	31	0	0	0.90
35321145--35321200	3	18.3	3	92	3	94	64	1	0	33	1.04
35321311--35321347	11	3.5	11	88	7	58	0	29	0	70	0.88
35321429--35321531	54	1.9	54	86	4	145	17	28	28	26	1.98
35321429--35321531	27	3.8	27	85	2	127	17	28	28	26	1.98
35321584--35321653	27	2.7	26	93	6	115	45	0	8	45	1.34
35327063--35327159	43	2.2	43	83	5	115	23	17	24	34	1.96
35327852--35327892	18	2.3	18	86	0	55	34	26	17	21	1.95
35330210--35330267	6	9.8	6	96	1	100	68	12	0	18	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35341062--35341142	11	7.4	11	90	9	121	24	35	0	39	1.56
35342256--35342288	7	4.7	7	100	0	66	27	0	15	57	1.38
35342757--35342826	30	2.3	30	85	0	86	35	44	12	7	1.70
35343159--35343216	21	2.8	21	78	5	55	31	43	17	8	1.79
35343337--35343433	34	2.8	34	85	7	124	44	2	7	46	1.42
35346876--35347037	43	3.5	43	66	17	119	36	20	3	40	1.68
35346781--35347178	95	4.2	94	85	2	474	38	17	3	40	1.66
35346780--35347178	191	2.1	190	82	3	489	38	17	3	40	1.66
35347221--35347249	13	2.1	14	93	6	51	44	41	0	13	1.44
35348354--35348405	15	3.4	15	75	2	59	15	5	0	78	0.92
35352237--35352321	29	2.9	27	75	13	80	40	22	23	14	1.90
35355081--35355111	14	2.2	14	100	0	62	35	0	51	12	1.40
35355077--35355111	18	1.9	18	94	0	61	37	0	51	11	1.38
35355724--35355777	27	2.0	27	82	13	67	31	3	3	61	1.31
35363670--35363725	27	2.1	27	96	0	103	44	19	10	25	1.83
35380329--35380621	50	5.8	50	93	0	487	20	31	22	25	1.98
35380716--35380746	13	2.4	13	94	0	53	54	12	0	32	1.38
35380959--35381016	30	1.9	30	89	0	89	31	24	3	41	1.71
35387201--35387293	47	2.0	47	84	2	123	33	27	15	23	1.95
35390035--35390066	16	2.0	16	93	0	55	25	15	0	59	1.36
35390294--35390485	51	3.8	50	75	15	198	29	27	17	26	1.97
35399602--35399868	136	2.0	137	82	5	326	31	26	19	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35401364--35401394	16	2.0	16	93	6	55	58	0	0	41	0.98
35401412--35401463	9	5.7	9	76	13	52	34	5	40	19	1.75
35401412--35401463	19	2.9	17	78	13	59	34	5	40	19	1.75
35403363--35403389	14	1.9	14	100	0	54	29	0	37	33	1.58
35404172--35404200	14	2.0	15	93	6	51	37	34	0	27	1.57
35412300--35412373	25	3.0	25	78	7	78	28	27	16	28	1.97
35412309--35412381	25	2.9	25	82	8	94	28	27	17	26	1.98
35417778--35418007	115	2.0	115	93	0	388	39	10	20	30	1.86
35426189--35426256	35	1.9	35	90	0	109	30	19	19	30	1.96
35428656--35428680	11	2.3	11	100	0	50	36	8	0	56	1.29
35436578--35436651	25	3.0	25	88	6	114	35	16	21	27	1.94
35438083--35438121	20	2.0	20	85	10	53	35	10	5	48	1.59
35454095--35454135	20	2.0	20	95	0	73	31	7	9	51	1.62
35454807--35455125	82	3.9	82	89	1	399	27	14	10	47	1.78
35454842--35455157	82	3.9	82	80	7	320	28	13	11	46	1.77
35457372--35457744	82	4.5	83	78	4	285	29	15	9	45	1.78
35457410--35457744	82	4.1	81	80	5	318	29	15	9	45	1.77
35457401--35457760	162	2.2	164	78	7	374	28	15	9	46	1.78
35462282--35462330	20	2.5	20	89	0	71	28	6	10	55	1.57
35465213--35465395	27	6.8	27	80	6	144	36	20	20	22	1.95
35465213--35465426	54	4.0	54	76	8	161	35	20	21	23	1.96
35465445--35465526	24	3.5	23	83	5	92	18	7	26	47	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35465701--35465883	32	5.7	32	73	13	144	21	21	21	35	1.96
35465716--35465889	64	2.7	64	83	1	215	22	22	20	34	1.97
35465895--35465941	22	2.1	22	84	0	58	19	12	17	51	1.77
35465953--35466005	26	2.0	26	85	0	70	18	30	18	32	1.96
35466754--35466882	20	6.4	20	74	0	105	20	20	20	38	1.93
35466754--35466881	40	3.2	40	80	0	130	20	21	19	39	1.93
35466806--35466891	40	2.2	40	89	0	127	15	23	23	38	1.92
35471332--35471528	41	4.8	41	86	1	243	31	25	22	19	1.98
35473702--35474081	192	2.0	192	97	0	724	39	15	13	30	1.87
35475388--35475451	19	3.4	19	82	8	69	37	1	4	56	1.30
35475539--35475569	9	3.4	9	90	0	53	32	9	12	45	1.75
35480466--35480501	11	3.2	11	92	4	54	16	38	11	33	1.84
35493033--35493074	2	21.5	2	95	4	77	50	0	0	50	1.00
35493348--35493401	19	2.8	19	91	0	90	37	14	9	38	1.79
35493325--35493401	38	1.9	41	87	10	115	40	14	7	37	1.75
35494115--35494468	50	7.1	50	61	4	138	24	24	22	29	1.99
35493996--35494498	101	5.0	101	93	0	798	24	22	21	30	1.99
35494340--35494506	50	3.4	50	67	11	144	22	25	22	29	1.99
35494425--35494765	167	2.0	166	81	1	396	26	25	20	26	1.99
35494813--35495022	44	5.0	44	83	12	253	30	25	18	26	1.98
35494869--35494934	33	2.0	34	96	3	125	27	25	22	24	2.00
35494825--35494976	77	2.0	78	90	1	243	30	25	19	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35494983--35495153	88	1.9	88	81	6	204	21	21	28	28	1.99
35496349--35496396	17	2.7	17	87	6	60	2	18	0	79	0.84
35496364--35496404	17	2.5	17	88	4	57	0	17	0	82	0.66
35501061--35501134	10	7.3	10	71	19	55	27	1	0	71	0.94
35501080--35501130	11	4.5	11	76	13	59	31	1	0	66	1.03
35501050--35501148	51	1.9	51	93	4	173	33	2	0	64	1.05
35501070--35501165	41	2.3	40	84	8	122	31	2	0	66	1.03
35501040--35501150	51	2.2	50	86	4	159	36	1	0	62	1.06
35501573--35501668	19	4.7	21	82	10	74	39	17	6	36	1.75
35501609--35501681	19	3.8	19	96	0	137	36	16	9	36	1.81
35504197--35504250	27	2.0	27	88	0	81	14	16	37	31	1.89
35507762--35507795	16	2.1	17	88	5	52	64	0	0	35	0.94
35510388--35510516	50	2.6	50	84	0	168	34	24	13	26	1.93
35510380--35510471	25	3.6	27	70	21	65	35	26	10	27	1.90
35511452--35511507	25	2.2	26	84	9	71	51	5	25	17	1.66
35512754--35512811	28	2.1	28	87	6	82	18	29	18	32	1.96
35512801--35512984	29	6.3	29	82	1	188	38	21	13	26	1.91
35512801--35512984	87	2.1	89	81	6	214	38	21	13	26	1.91
35522291--35522324	15	2.3	15	94	0	59	70	0	14	14	1.17
35528147--35528199	12	4.4	12	80	15	56	37	3	1	56	1.28
35538800--35538869	29	2.4	29	88	4	106	38	12	27	21	1.90
35538858--35538930	29	2.5	30	84	10	105	43	10	27	17	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35538862--35538930	30	2.4	28	88	9	102	43	11	27	17	1.83
35538909--35539048	30	4.7	30	79	0	136	37	13	24	25	1.92
35538917--35539048	60	2.2	60	84	0	165	36	12	25	25	1.92
35539771--35539897	43	3.1	42	63	19	106	32	6	19	41	1.77
35539734--35539897	79	2.1	80	96	1	303	34	6	19	39	1.78
35546165--35546473	30	10.4	29	71	7	90	36	12	27	23	1.91
35546224--35546443	30	7.4	30	75	6	153	37	12	27	22	1.90
35546262--35546440	90	2.0	90	82	6	220	36	13	26	23	1.92
35546269--35546473	30	6.8	30	75	4	92	37	13	24	23	1.92
35549533--35549834	150	2.0	150	93	0	514	32	18	19	29	1.96

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