genome.fa.s6.2.7.7.80.10.50.1000.36.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  36  of  168  ( 20060 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)
9767716--9767944	107	2.1	107	95	0	404	45	16	8	29	1.77
9773716--9773747	15	2.2	14	94	5	55	0	15	0	84	0.63
9777265--9777464	44	4.5	44	77	16	207	31	16	22	31	1.95
9777274--9777378	51	2.1	51	96	0	192	30	15	23	30	1.95
9777337--9777416	37	2.2	37	95	0	142	30	17	18	33	1.94
9780100--9780152	24	2.2	25	86	3	72	45	5	22	26	1.74
9782184--9782287	3	33.7	3	70	12	68	57	2	6	32	1.39
9782323--9782366	17	2.5	19	79	20	51	56	2	13	27	1.49
9782530--9782673	3	47.0	3	76	4	54	54	8	6	30	1.55
9790374--9790407	12	2.8	12	87	12	52	23	5	0	70	1.09
9790357--9790400	17	2.7	15	82	10	52	20	6	0	72	1.07
9793294--9793323	12	2.4	12	94	5	51	60	0	0	40	0.97
9793374--9793591	107	2.0	107	97	0	409	44	15	8	31	1.76
9794997--9795136	29	4.8	29	80	6	149	33	23	5	37	1.79
9795008--9795136	59	2.2	58	85	8	172	31	25	6	36	1.81
9795280--9795326	24	1.9	24	83	12	60	65	2	23	8	1.31
9795651--9795744	6	15.3	6	79	8	100	77	0	22	0	0.77
9795651--9795746	24	4.0	24	88	7	126	78	0	21	0	0.76
9795651--9795744	37	2.5	37	81	11	113	77	0	22	0	0.77
9795650--9795732	43	1.9	43	85	9	116	74	0	25	0	0.82
9795651--9795744	43	2.2	43	83	7	111	77	0	22	0	0.77
9795978--9796021	23	2.0	23	86	4	63	27	43	27	2	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9796126--9796166	20	2.0	20	90	9	64	82	0	17	0	0.66
9796608--9796656	17	2.8	17	76	14	55	26	18	10	44	1.81
9796713--9796764	17	3.0	16	75	13	50	32	11	11	44	1.77
9796889--9796961	18	4.3	17	71	22	55	38	15	8	38	1.77
9796939--9796984	24	1.9	24	90	0	74	43	8	8	39	1.66
9797016--9797127	17	6.2	17	71	15	82	34	14	10	40	1.80
9797002--9797144	36	3.9	37	81	10	168	30	16	11	41	1.83
9796993--9797133	72	1.9	72	87	5	203	33	14	11	41	1.81
9797153--9797322	18	9.5	17	65	17	60	37	8	11	43	1.70
9797155--9797226	20	3.8	18	79	7	63	41	4	11	43	1.59
9807674--9807744	9	7.8	9	73	10	56	83	8	7	1	0.88
9807664--9807744	10	8.7	10	75	15	59	82	9	6	1	0.88
9807660--9807744	26	3.3	25	79	8	91	83	9	5	1	0.85
9808614--9809846	76	15.9	78	88	6	1585	28	16	19	36	1.93
9810310--9810445	30	4.6	29	80	7	150	31	25	5	36	1.80
9810310--9810445	59	2.3	59	83	8	179	31	25	5	36	1.80
9810960--9811036	13	6.0	12	83	11	82	74	0	24	1	0.90
9810964--9811036	6	11.3	6	81	10	74	75	0	23	1	0.88
9811269--9811312	23	2.0	23	86	4	63	27	43	27	2	1.67
9811417--9811457	20	2.0	20	90	9	64	82	0	17	0	0.66
9811900--9811948	17	2.8	17	76	14	55	26	18	10	44	1.81
9811971--9812020	26	1.9	26	83	0	64	34	8	10	48	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9812005--9812057	18	3.0	18	69	5	54	28	13	13	45	1.80
9812056--9812103	23	2.0	24	88	8	71	39	14	8	37	1.76
9812182--9812254	18	4.3	17	71	22	55	36	15	9	38	1.80
9812194--9812382	17	10.5	17	65	19	73	33	15	10	41	1.80
9812307--9812418	17	6.2	17	73	15	91	33	14	10	41	1.80
9812293--9812418	36	3.5	36	85	3	173	30	15	10	43	1.80
9812293--9812435	36	3.9	37	78	9	150	30	16	11	42	1.82
9812446--9812486	20	2.1	19	86	4	55	53	2	7	36	1.42
9812459--9812541	39	2.2	36	85	6	103	40	9	10	38	1.73
9812580--9812616	20	2.0	20	84	10	51	51	2	8	37	1.46
9817603--9817635	7	4.7	7	92	7	50	0	15	0	84	0.61
9817598--9817635	15	2.6	14	84	16	51	2	18	0	78	0.86
9821092--9821299	51	4.2	51	83	8	286	32	15	23	28	1.95
9821141--9821291	44	3.3	43	77	18	151	33	15	23	28	1.95
9821092--9821300	95	2.2	95	91	0	328	32	15	23	28	1.95
9826014--9826117	3	33.7	3	69	12	59	58	2	6	31	1.39
9826389--9826553	3	54.7	3	80	5	100	55	5	7	32	1.50
9833736--9833788	27	1.9	27	85	11	72	18	32	32	16	1.94
9839451--9839493	12	3.6	12	87	0	59	55	0	2	41	1.12
9844596--9844633	20	2.0	21	85	15	55	21	5	10	63	1.46
9845136--9845626	44	11.5	43	73	9	260	27	20	19	31	1.97
9845171--9845328	39	3.9	39	81	5	165	27	20	19	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9845289--9845626	175	1.9	175	93	1	579	28	20	18	32	1.96
9863272--9863319	24	2.0	24	84	8	62	47	0	2	50	1.12
9864680--9864731	18	2.7	19	75	16	54	7	17	1	73	1.16
9864680--9864737	21	2.9	20	74	20	59	8	17	1	72	1.18
9871064--9871093	7	4.4	7	95	4	53	13	10	0	76	1.01
9884104--9884243	70	2.1	66	81	10	158	40	15	10	33	1.82
9890098--9890154	29	2.0	29	96	0	105	36	26	12	24	1.91
9894512--9894551	14	2.9	14	84	0	53	32	7	17	42	1.77
9894535--9894574	20	2.0	20	90	0	62	27	10	12	50	1.72
9894520--9894586	34	1.9	35	90	3	109	31	8	13	46	1.74
9894514--9894590	14	5.0	15	71	20	52	32	9	15	42	1.78
9894567--9894651	32	2.6	31	76	9	89	25	10	18	44	1.82
9899562--9899610	25	2.0	25	84	8	64	44	10	22	22	1.82
9904285--9904338	23	2.5	22	87	6	74	16	22	22	38	1.93
9904988--9905029	12	3.6	12	77	6	50	45	2	14	38	1.58
9905579--9905738	85	1.9	85	86	2	232	34	21	17	26	1.95
9913014--9913236	53	4.2	53	95	0	401	38	7	18	35	1.78
9917316--9917353	14	2.4	17	87	12	55	47	0	0	52	1.00
9917555--9917604	19	2.6	20	90	6	77	50	4	6	40	1.46
9917714--9917738	6	4.2	6	100	0	50	84	0	16	0	0.63
9918105--9918141	18	2.1	18	90	5	58	48	0	18	32	1.49
9918600--9918664	23	3.0	23	80	11	82	18	18	23	40	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9919035--9919068	3	11.3	3	100	0	68	32	0	0	67	0.91
9919911--9920070	85	1.9	85	88	2	241	33	20	16	29	1.95
9920437--9920499	23	2.6	24	80	14	67	69	1	22	6	1.19
9921867--9921942	27	2.8	26	90	5	116	19	19	18	42	1.90
9931687--9931742	29	2.0	29	89	3	87	41	12	19	26	1.87
9931787--9931985	41	4.9	41	88	1	265	19	19	33	27	1.96
9931787--9931968	81	2.2	82	89	0	267	18	19	33	29	1.95
9932333--9932379	14	3.3	15	82	8	62	27	0	31	40	1.57
9932326--9932429	22	4.8	22	74	9	81	23	0	38	38	1.55
9932390--9932425	14	2.5	15	86	9	56	16	0	44	38	1.48
9932395--9932428	8	4.5	8	85	14	54	11	0	50	38	1.39
9932390--9932453	22	2.9	23	81	6	71	23	0	39	37	1.55
9932487--9932543	25	2.3	24	87	3	87	36	0	1	61	1.07
9932698--9932735	14	2.7	15	84	12	53	26	2	28	42	1.69
9932754--9932815	7	8.9	7	85	0	79	22	0	48	29	1.51
9932754--9932815	21	3.0	21	95	0	106	22	0	48	29	1.51
9933164--9933206	19	2.2	20	87	4	61	79	4	2	13	1.00
9937734--9937828	43	2.2	43	94	0	163	30	17	30	21	1.96
9937844--9937948	43	2.5	43	85	1	122	28	19	28	23	1.98
9937915--9938012	43	2.3	42	81	10	119	19	18	29	32	1.96
9938067--9938110	21	2.1	21	86	0	61	40	27	18	13	1.88
9942595--9942654	28	2.1	28	84	6	77	65	5	1	28	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9942595--9942656	13	4.7	13	77	15	65	64	4	1	29	1.23
9946465--9946500	18	2.0	18	88	0	54	30	0	8	61	1.26
9946700--9946726	14	1.9	14	100	0	54	29	22	11	37	1.89
9946701--9946734	14	2.4	14	90	0	50	32	20	8	38	1.84
9950071--9950100	1	30.0	1	93	0	51	96	3	0	0	0.21
9957780--9957823	14	3.1	14	80	6	52	40	13	9	36	1.76
9963747--9963793	15	3.5	13	75	16	51	74	8	14	2	1.15
9975197--9975233	16	2.3	16	86	13	58	59	0	0	40	0.97
9978980--9979063	7	11.7	7	71	22	52	41	1	2	54	1.21
9978975--9979032	22	2.7	22	73	7	57	46	1	3	48	1.29

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