genome.fa.s12.2.7.7.80.10.50.1000.40.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: Chr12 ID=Chr12-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  35429946

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   

This is table  40  of  120  ( 14336 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)
10821320--10821378	24	2.3	26	85	8	77	42	8	10	38	1.69
10822475--10822507	14	2.4	14	90	5	50	39	12	3	45	1.57
10822649--10822680	15	2.1	15	100	0	64	28	6	21	43	1.77
10823790--10823828	18	2.2	18	90	0	60	23	10	10	56	1.63
10825417--10825460	23	1.9	23	90	0	70	54	4	9	31	1.52
10825607--10825656	26	1.9	26	84	8	66	50	6	16	28	1.68
10827445--10827884	44	9.6	44	68	12	167	27	23	19	29	1.98
10836133--10836168	14	2.6	14	90	0	63	58	8	13	19	1.61
10841270--10841331	31	2.0	32	84	6	83	45	0	14	40	1.45
10841882--10841999	25	4.7	26	80	8	93	16	27	22	33	1.95
10844454--10844511	11	5.3	11	71	8	55	60	1	0	37	1.07
10844439--10844484	14	3.4	14	76	11	51	60	0	0	39	0.97
10844432--10844523	33	2.7	35	88	6	113	61	1	0	36	1.03
10844459--10844523	33	2.0	33	100	0	130	61	1	0	36	1.05
10844467--10844580	52	2.2	51	84	9	140	59	0	0	38	1.09
10844464--10844519	18	3.3	18	67	23	57	64	1	0	33	1.04
10844842--10844882	20	2.0	21	85	9	57	31	2	9	56	1.45
10846697--10846756	21	2.8	21	80	16	61	55	5	1	38	1.32
10846738--10846804	11	6.4	11	72	20	54	58	0	2	38	1.14
10846748--10846781	17	2.0	17	88	0	50	64	0	0	35	0.94
10846729--10846859	40	3.1	40	84	10	165	62	0	2	34	1.13
10846937--10847008	32	2.1	35	80	12	80	20	30	15	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10854131--10854382	138	1.8	138	88	0	387	36	11	19	31	1.88
10854774--10854821	22	2.2	21	78	10	51	54	0	12	33	1.38
10856891--10856930	17	2.3	18	91	4	64	67	5	5	22	1.30
10859491--10859573	41	2.0	41	90	0	130	38	27	1	32	1.65
10864981--10865070	42	2.1	42	85	4	126	32	26	17	23	1.97
10867864--10867895	14	2.3	14	94	0	55	43	9	21	25	1.82
10869035--10869075	10	4.1	10	87	9	57	58	2	2	36	1.24
10870748--10870784	18	2.1	18	100	0	74	35	10	32	21	1.88
10871200--10871245	18	2.5	17	83	13	56	69	6	4	19	1.28
10888660--10888707	24	2.0	24	95	0	87	31	33	22	12	1.91
10890055--10890108	27	2.0	27	92	0	90	22	25	14	37	1.93
10890123--10890298	53	3.3	53	91	0	282	27	22	10	39	1.86
10890123--10890298	26	6.7	27	71	4	144	27	22	10	39	1.86
10895560--10895674	60	1.9	61	90	1	187	21	22	18	37	1.94
10898692--10898884	101	1.9	99	85	2	260	31	17	25	25	1.97
10898760--10898884	33	3.8	33	73	9	103	30	17	27	24	1.97
10904960--10904991	5	6.2	5	92	7	55	3	56	40	0	1.15
10905006--10905086	36	2.2	36	93	2	135	34	1	0	64	1.02
10905018--10905082	11	5.5	11	73	12	58	38	1	0	60	1.07
10907314--10907360	18	2.7	17	80	6	58	44	0	0	55	0.99
10907314--10907368	17	3.2	18	80	10	53	43	0	0	56	0.99
10910264--10910350	43	2.0	43	84	4	113	35	6	21	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10911240--10911295	13	4.2	13	86	8	85	42	10	21	25	1.85
10911232--10911294	28	2.2	28	97	0	117	39	14	19	26	1.90
10911884--10912067	43	4.3	43	79	4	219	32	25	17	24	1.97
10918867--10918962	31	3.1	31	95	3	174	45	13	9	31	1.75
10924077--10924293	100	2.2	101	85	2	285	40	11	18	29	1.86
10924117--10924328	101	2.1	98	81	6	239	41	11	18	28	1.85
10924177--10924456	136	2.1	136	87	1	402	42	12	15	29	1.83
10924405--10924619	98	2.2	98	82	0	250	37	12	17	32	1.87
10924177--10924518	134	2.5	135	80	4	411	41	12	16	30	1.84
10924559--10924866	133	2.3	134	80	8	349	40	12	15	31	1.85
10924739--10924963	107	2.1	107	87	0	315	38	13	16	31	1.87
10930617--10930695	29	2.7	29	73	7	79	22	30	27	18	1.98
10935760--10935797	13	2.9	13	84	7	51	39	0	21	39	1.53
10935736--10935795	26	2.3	26	82	0	66	38	1	23	36	1.65
10936568--10936597	13	2.3	13	100	0	60	36	6	16	40	1.75
10942224--10942542	81	4.0	79	85	4	422	19	14	20	45	1.85
10942223--10942555	27	12.4	27	87	0	382	19	14	20	45	1.85
10945224--10945258	17	2.0	18	88	5	54	8	8	2	80	1.01
10951749--10951789	7	5.7	7	94	2	55	19	0	39	41	1.52
10954577--10954643	22	3.0	22	93	0	107	34	14	25	25	1.94
10958298--10958393	18	5.2	18	73	10	61	67	2	4	26	1.19
10958297--10958440	56	2.5	55	80	11	166	63	2	6	27	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10958286--10958393	10	11.2	10	70	15	57	68	1	4	25	1.19
10958610--10958700	19	4.9	19	67	12	64	34	4	1	60	1.24
10958666--10958718	27	1.9	28	84	3	72	37	1	0	60	1.08
10958681--10958718	20	2.0	20	84	5	51	36	0	0	63	0.95
10958775--10958975	90	2.2	88	81	8	210	32	6	20	39	1.80
10960490--10960515	2	13.0	2	100	0	52	50	0	0	50	1.00
10966074--10967174	361	3.0	362	88	3	1582	29	9	22	38	1.86
10969203--10969250	25	1.9	25	82	0	60	37	20	22	18	1.94
10969411--10969550	27	5.2	27	83	3	183	17	15	22	45	1.85
10969408--10969550	54	2.6	54	86	0	205	18	15	22	44	1.87
10971342--10971438	37	2.6	37	95	0	167	31	19	19	28	1.96
10981472--10981498	3	9.0	3	100	0	54	33	0	0	66	0.92
10981431--10981562	65	2.0	65	100	0	264	30	15	9	45	1.77
10981537--10981562	3	8.7	3	100	0	52	30	0	0	69	0.89
10987330--10987390	31	2.0	31	93	0	104	31	11	14	42	1.81
10998869--10998943	31	2.4	31	77	0	87	41	8	12	38	1.72
11004928--11004960	17	1.9	17	93	0	57	24	24	6	45	1.75
11006002--11006064	32	2.0	32	93	3	110	44	14	9	31	1.77
11010592--11010621	13	2.3	13	94	0	51	0	10	16	73	1.09
11011215--11011277	32	2.0	32	93	3	110	44	14	9	31	1.77
11013075--11013118	23	1.9	23	95	0	79	6	31	0	61	1.22
11015509--11015591	24	3.2	27	85	11	129	37	2	10	49	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11015509--11015607	26	3.8	24	80	18	85	37	2	11	49	1.50
11015509--11015613	50	2.1	51	94	1	185	36	1	11	50	1.50
11022597--11022711	11	11.1	11	70	22	70	54	0	3	40	1.23
11022589--11022700	40	2.8	41	85	9	158	56	0	3	39	1.23
11022622--11022736	52	2.2	53	86	6	164	59	0	3	36	1.21
11024095--11024120	3	8.7	3	100	0	52	34	65	0	0	0.93
11024182--11024212	3	10.3	3	92	0	53	32	38	0	29	1.57
11024057--11024253	66	3.0	66	95	1	342	28	43	5	22	1.75
11026397--11026506	21	5.2	21	79	4	96	34	9	18	38	1.82
11027863--11027902	21	1.9	21	89	0	62	37	15	27	20	1.92
11042347--11042406	5	11.4	5	75	19	52	20	1	3	75	1.04
11042348--11042406	23	2.7	22	76	19	70	20	1	3	74	1.05
11051422--11051526	31	3.4	31	74	7	115	35	2	7	54	1.44
11051415--11051532	61	2.0	60	91	1	191	36	2	8	52	1.45
11053505--11054054	274	2.0	274	96	0	1010	32	24	12	30	1.92
11055996--11056042	18	2.6	18	82	0	58	34	0	0	65	0.93
11057042--11057080	19	2.0	20	85	5	53	56	0	10	33	1.33
11057618--11057680	31	2.1	30	82	14	76	15	26	1	55	1.50
11064386--11064425	14	2.9	14	84	0	53	32	7	17	42	1.77
11064408--11064447	20	2.0	20	90	0	62	32	10	12	45	1.75
11064395--11064460	34	1.9	35	90	3	107	33	9	13	43	1.76
11065215--11065307	47	2.0	47	100	0	186	25	26	23	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11072725--11072768	20	2.2	20	95	0	79	40	27	2	29	1.68
11072828--11072860	17	1.9	17	100	0	66	48	12	0	39	1.40
11074947--11074987	21	1.9	22	95	5	75	26	2	4	65	1.25
11080559--11080604	21	2.2	21	84	7	58	71	2	15	10	1.23
11081833--11082423	87	6.9	87	90	2	879	30	23	22	24	1.99
11081833--11081971	44	3.2	44	64	10	113	27	22	23	26	2.00
11082474--11082682	44	4.8	44	72	8	142	30	19	22	27	1.98
11088349--11088430	41	2.0	41	100	0	164	41	26	12	19	1.87
11094259--11094317	27	2.2	26	82	14	75	35	8	6	49	1.60
11095566--11095657	35	2.6	35	76	6	105	23	20	19	35	1.95

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