genome.fa.s13.2.7.7.80.10.50.1000.166.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  166  of  199  ( 23770 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)
48646968--48647129	34	4.6	33	70	14	85	32	14	11	42	1.80
48647160--48647231	37	1.9	38	85	2	101	38	6	9	44	1.64
48647107--48647226	18	6.7	18	63	14	50	30	8	11	49	1.69
48650151--48650177	12	2.2	12	100	0	54	59	25	7	7	1.51
48650609--48650658	4	11.8	4	83	12	64	50	0	2	48	1.12
48650609--48650659	13	3.9	13	85	7	68	49	0	1	49	1.12
48650649--48650681	17	1.9	18	88	11	52	42	12	0	45	1.41
48650777--48650829	14	3.8	13	78	9	52	39	3	0	56	1.17
48657125--48657185	19	3.2	19	100	0	122	9	21	54	14	1.69
48671553--48671624	14	5.3	14	77	9	51	38	0	8	52	1.32
48671573--48671629	21	2.8	20	80	17	71	40	0	8	50	1.33
48671650--48671690	21	2.0	21	85	4	57	43	0	14	41	1.45
48671684--48671723	14	2.9	14	84	0	53	42	2	10	45	1.51
48671684--48671723	21	1.9	21	84	0	53	42	2	10	45	1.51
48673014--48673052	20	1.9	21	85	15	55	48	5	7	38	1.54
48677545--48678293	155	4.9	154	79	12	806	52	6	10	30	1.61
48677527--48678293	307	2.5	304	90	5	1170	52	6	10	30	1.61
48680352--48680519	83	2.1	79	87	6	250	39	10	9	40	1.73
48683427--48683591	37	4.3	38	73	15	119	49	12	6	32	1.64
48683441--48683622	41	4.6	40	67	16	110	47	12	6	34	1.65
48685272--48685343	30	2.4	30	80	0	90	38	12	12	36	1.81
48685272--48685384	30	3.8	27	73	14	73	40	11	10	37	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48687241--48687278	2	19.0	2	100	0	76	50	0	0	50	1.00
48688015--48688048	15	2.3	15	89	0	50	79	5	14	0	0.91
48689868--48689895	2	14.0	2	100	0	56	50	0	0	50	1.00
48690419--48690464	14	3.4	14	84	3	58	30	2	10	56	1.46
48691507--48691559	24	2.3	24	90	6	83	75	9	15	0	1.04
48693107--48693235	44	3.0	43	84	8	147	27	24	17	30	1.97
48693169--48693421	94	2.7	94	87	1	355	29	22	19	28	1.98
48693269--48693522	138	1.8	138	81	5	316	29	20	19	31	1.97
48695423--48695455	15	2.2	15	89	10	50	69	0	21	9	1.15
48697985--48698036	26	2.0	26	100	0	104	42	15	19	23	1.89
48698695--48698757	19	3.3	19	66	25	51	50	1	7	39	1.41
48700610--48700664	21	2.6	21	80	8	67	25	40	20	14	1.90
48716727--48716762	2	18.0	2	100	0	72	50	0	0	50	1.00
48718410--48719242	40	20.4	39	78	8	768	22	21	24	31	1.98
48718410--48719242	82	10.2	80	89	3	984	22	21	24	31	1.98
48719360--48719552	46	4.3	46	67	15	141	31	23	18	26	1.97
48719346--48719651	134	2.3	136	87	2	449	29	22	19	27	1.98
48719630--48719748	44	2.7	46	80	11	147	26	21	23	29	1.99
48719610--48719749	45	3.1	45	76	11	153	25	22	22	30	1.99
48719700--48720356	86	7.6	86	93	0	1089	25	23	24	26	2.00
48719745--48720306	44	13.0	43	62	20	136	25	23	24	26	2.00
48720938--48721037	45	2.2	43	77	10	101	52	10	13	25	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48721308--48721352	19	2.3	20	88	3	65	0	11	4	84	0.76
48721308--48721340	10	3.4	10	87	4	50	0	9	3	87	0.63
48721308--48721350	9	4.6	9	82	8	50	0	9	4	86	0.71
48721308--48721351	13	3.4	13	83	0	52	0	9	4	86	0.70
48721770--48721821	16	3.4	16	89	5	72	9	5	0	84	0.77
48721784--48721821	8	4.8	8	93	0	67	10	2	0	86	0.66
48721770--48721827	15	3.9	15	80	10	57	8	6	1	82	0.90
48721784--48721827	16	2.8	16	86	6	54	9	4	2	84	0.85
48721815--48721895	23	3.8	20	73	20	67	1	12	8	77	1.04
48721784--48721896	10	11.9	9	69	16	59	4	9	6	79	1.04
48721839--48721904	31	2.2	30	83	8	80	1	10	7	80	0.97
48725563--48725589	2	13.5	2	100	0	54	48	0	0	51	1.00
48738945--48739003	30	1.9	31	93	3	102	38	0	42	18	1.51
48739054--48739090	9	4.1	9	85	0	56	32	10	10	45	1.74
48741079--48741250	87	1.9	88	96	3	319	28	10	9	51	1.68
48743339--48743363	13	1.9	13	100	0	50	16	8	16	60	1.58
48746534--48746600	3	22.3	3	87	0	53	19	0	68	11	1.20
48746542--48746608	33	2.0	33	91	0	107	14	0	70	14	1.18
48746534--48746608	6	13.0	6	83	8	57	17	0	69	13	1.19
48750664--48750694	16	1.9	16	93	0	53	41	3	0	54	1.16
48753538--48753580	2	21.5	2	100	0	86	48	0	0	51	1.00
48766327--48766391	25	2.8	24	76	15	66	49	0	4	46	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48768247--48768280	15	2.2	16	89	5	52	70	0	2	26	1.01
48768942--48769030	25	3.1	30	82	15	125	25	25	6	41	1.80
48768952--48768998	15	3.1	15	70	11	51	27	23	8	40	1.83
48769205--48769292	28	3.3	27	69	15	83	44	7	2	45	1.45
48770499--48770537	19	2.1	19	100	0	78	15	46	0	38	1.46
48770901--48770930	15	2.0	15	93	0	51	56	0	0	43	0.99
48785839--48785883	22	2.0	22	83	8	56	62	0	0	37	0.96
48794255--48794373	57	2.1	57	85	6	161	27	21	7	42	1.80
48800207--48800244	18	2.2	17	90	4	58	44	10	0	44	1.38
48800599--48800642	15	3.0	15	76	3	54	27	18	6	47	1.73
48804146--48804187	2	21.0	2	100	0	84	50	0	0	50	1.00
48805293--48805323	6	5.2	6	100	0	62	32	19	16	32	1.94
48807844--48807870	11	2.5	11	100	0	54	40	7	0	51	1.30
48807873--48807941	18	3.7	17	70	19	57	39	1	0	59	1.06
48807828--48807977	39	3.7	39	86	8	203	35	2	0	62	1.10
48834091--48834124	16	2.2	15	89	5	50	35	0	0	64	0.94
48834584--48834644	28	2.1	29	81	3	70	26	4	3	65	1.28
48849079--48849152	33	2.3	33	85	2	96	33	6	16	43	1.74
48853999--48854052	10	5.7	9	80	6	54	64	0	5	29	1.16
48854029--48854062	11	3.1	11	86	0	50	64	0	0	35	0.94
48854019--48854101	10	8.4	10	69	11	55	61	0	3	34	1.13
48854020--48854118	30	3.3	29	78	9	110	59	0	6	34	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48854186--48854218	11	3.1	11	91	4	50	30	3	0	66	1.06
48854346--48854403	9	6.3	10	75	16	63	29	0	0	70	0.87
48854346--48854405	18	3.3	18	79	9	77	30	0	0	70	0.88
48854362--48854415	27	2.0	28	88	3	83	37	0	0	62	0.95
48854345--48854418	37	2.0	37	86	5	105	36	0	0	63	0.95
48854393--48854441	18	2.7	17	75	12	53	36	2	0	61	1.08
48854474--48854648	90	2.0	88	81	4	208	34	10	18	37	1.85
48854717--48854765	21	2.3	22	79	13	57	57	0	4	38	1.18
48861921--48861961	20	2.0	21	85	4	57	43	17	7	31	1.76
48862789--48862840	24	2.1	25	82	3	61	28	3	9	57	1.48
48868514--48868563	26	2.0	26	84	4	66	50	0	4	46	1.20
48868616--48868640	6	4.2	6	100	0	50	84	0	16	0	0.63
48872692--48872721	14	2.1	14	93	0	51	40	10	6	43	1.64
48873338--48873369	16	2.1	16	94	5	57	50	0	6	43	1.27
48873875--48873924	26	2.0	26	84	4	66	50	0	4	46	1.20
48875259--48875398	62	2.2	62	77	8	151	24	23	27	25	2.00
48881239--48881308	33	2.1	33	82	10	81	30	10	7	52	1.61
48893979--48894003	6	4.2	6	100	0	50	52	0	0	48	1.00
48896970--48897025	3	18.7	3	100	0	112	67	0	0	32	0.91
48897325--48897387	31	2.0	32	96	3	119	42	15	9	31	1.79
48899183--48899245	31	2.0	32	96	3	119	42	15	9	31	1.79
48902107--48902168	31	2.0	32	96	3	117	43	14	9	32	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48907450--48907492	11	3.8	11	80	17	52	65	2	2	30	1.18
48922333--48922435	27	3.8	27	88	2	145	21	21	34	22	1.96
48922333--48922435	54	1.9	54	90	4	163	21	21	34	22	1.96
48922497--48922543	18	2.5	20	79	10	62	63	2	34	0	1.06
48922493--48922546	22	2.4	23	84	12	76	64	1	33	0	1.04
48925388--48925461	38	1.9	38	97	0	139	39	2	4	54	1.34
48925734--48926073	27	14.1	26	73	22	282	53	12	0	32	1.45
48925681--48925859	96	1.9	95	86	6	254	52	13	0	32	1.45
48925686--48925927	47	5.3	46	78	14	225	52	14	0	33	1.47
48925734--48926088	115	3.0	115	81	14	408	53	12	0	32	1.45

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