genome.fa.s6.2.7.7.80.10.50.1000.167.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  167  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)
50598090--50598132	15	2.8	16	78	7	52	53	0	0	46	1.00
50600514--50600606	48	1.9	48	93	0	159	24	22	9	43	1.83
50603118--50603151	12	2.8	12	100	0	68	14	32	8	44	1.76
50616702--50616745	22	2.0	22	82	8	54	65	6	2	25	1.28
50617247--50617289	18	2.4	18	84	0	50	41	4	0	53	1.21
50621647--50621728	30	2.7	30	77	11	85	40	9	4	45	1.59
50636840--50636877	17	2.2	18	85	4	51	65	2	7	23	1.32
50639725--50639777	15	3.5	15	80	10	54	67	3	1	26	1.17
50639952--50640031	25	3.2	24	70	10	61	41	0	2	56	1.13
50640202--50640264	20	3.1	20	81	6	74	39	0	0	60	0.97
50640488--50640568	39	2.1	39	95	0	144	61	6	9	22	1.49
50640500--50640568	21	3.5	20	69	18	63	59	7	10	23	1.54
50643021--50643143	58	2.1	58	86	3	167	43	0	4	51	1.26
50643247--50643341	44	2.1	46	84	7	124	35	25	5	33	1.78
50643326--50643377	16	3.2	16	80	0	68	32	21	5	40	1.77
50649709--50649770	23	2.6	25	78	14	78	27	17	6	48	1.72
50655965--50656131	54	2.8	61	80	14	222	37	19	23	19	1.94
50661837--50661967	69	1.9	69	85	3	183	34	15	25	25	1.95
50670248--50670304	21	2.6	23	77	5	64	50	1	1	45	1.22
50674799--50674847	7	7.1	7	86	4	55	69	0	10	20	1.17
50674859--50674913	28	2.0	28	89	7	85	40	1	21	36	1.64
50675342--50675398	23	2.5	23	88	0	87	29	1	15	52	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50675992--50676040	21	2.3	21	96	0	89	22	8	30	38	1.83
50676129--50676153	12	2.1	12	100	0	50	16	32	20	32	1.94
50678483--50678531	25	1.9	26	84	12	66	36	0	2	61	1.08
50682475--50682529	28	2.0	28	89	7	85	40	0	21	38	1.54
50682950--50683005	23	2.4	23	90	0	94	32	1	14	51	1.52
50687602--50687740	46	3.0	46	88	0	206	36	7	25	30	1.84
50694898--50695006	54	2.0	54	94	3	193	35	10	9	44	1.70
50695836--50695867	6	5.3	6	96	0	55	50	0	0	50	1.00
50699514--50699562	19	2.6	19	78	15	66	65	0	2	32	1.04
50706706--50706771	29	2.4	27	82	7	78	66	0	3	30	1.06
50706727--50706773	7	6.6	7	80	11	51	72	0	0	27	0.85
50708911--50708963	27	2.0	26	82	10	63	30	1	11	56	1.45
50710569--50710610	19	2.2	20	82	4	50	28	4	2	64	1.26
50719856--50720539	250	2.7	249	81	7	766	43	17	9	29	1.81
50724079--50724142	30	2.1	32	85	5	87	48	9	0	42	1.35
50725397--50725439	7	6.1	7	97	0	77	39	0	0	60	0.97
50737022--50737325	108	2.7	113	81	9	313	28	13	17	40	1.87
50740353--50740395	21	2.0	21	82	8	52	30	2	4	62	1.28
50740505--50740559	28	2.0	28	85	7	76	41	0	12	45	1.42
50742239--50742398	79	2.0	79	100	0	320	42	16	11	30	1.83
50743342--50743399	26	2.3	24	78	18	73	53	0	10	36	1.35
50744174--50744219	21	2.2	21	84	0	56	45	8	0	45	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50747260--50747315	27	2.1	27	100	0	112	41	16	10	32	1.82
50749387--50749473	30	2.9	30	91	0	138	44	24	26	4	1.73
50750701--50750741	13	3.0	14	83	13	50	56	0	0	43	0.99
50751960--50752085	55	2.3	56	91	1	200	33	19	11	35	1.87
50754038--50754101	29	2.2	29	82	2	74	35	6	15	42	1.72
50755616--50755658	21	2.0	21	81	0	50	37	0	11	51	1.39
50755688--50755744	29	1.9	30	85	3	80	36	5	19	38	1.74
50755688--50755752	29	2.3	28	82	10	71	40	4	18	36	1.71
50762155--50762184	3	10.0	3	100	0	60	66	0	33	0	0.92
50776307--50776345	18	2.1	19	90	4	62	48	2	0	48	1.15
50776316--50776361	24	1.9	24	86	8	67	47	2	2	47	1.26
50782568--50782621	2	27.5	2	96	3	101	0	50	0	50	1.00
50794759--50794812	24	2.1	27	83	13	69	37	0	1	61	1.07
50799457--50799492	18	2.1	17	89	5	54	19	0	2	77	0.88
50811322--50811493	30	5.8	30	80	5	188	31	29	26	11	1.92
50811966--50812136	30	5.7	30	85	0	207	9	27	32	30	1.88
50812695--50813283	155	3.8	152	87	5	810	52	7	9	30	1.62
50813175--50813418	135	1.8	136	91	2	411	51	7	8	32	1.60
50817243--50817282	19	2.1	19	86	9	55	42	0	5	52	1.23
50818671--50818697	6	4.5	6	100	0	54	14	0	0	85	0.61
50819879--50819939	5	12.6	5	80	19	60	16	0	0	83	0.64
50819884--50819939	7	8.0	7	84	15	80	16	0	0	83	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50829411--50829864	154	3.0	151	86	5	653	31	8	7	52	1.59
50831993--50832142	48	3.1	48	95	0	266	46	14	10	28	1.78
50844114--50844150	2	18.5	2	100	0	74	51	0	48	0	1.00
50844551--50844594	21	2.1	21	83	4	54	50	18	15	15	1.79
50874573--50874636	17	3.6	18	69	21	53	35	0	29	34	1.58
50877820--50877876	30	1.9	30	88	0	87	52	3	3	40	1.35
50881418--50881466	21	2.2	23	82	10	57	38	12	6	42	1.67
50885699--50885734	16	2.2	16	90	0	54	36	22	22	19	1.95
50886072--50886100	2	14.5	2	100	0	58	51	0	0	48	1.00
50888760--50888822	31	2.0	31	90	6	101	33	6	11	49	1.64
50894562--50894592	6	5.2	6	96	0	53	16	19	48	16	1.81
50904857--50904891	18	1.9	18	88	0	52	22	40	11	25	1.88
50918290--50918366	40	1.9	40	100	0	154	42	10	9	37	1.71
50918363--50918434	34	2.1	34	100	0	144	50	12	2	34	1.55
50918372--50918426	17	3.2	17	68	27	53	49	12	3	34	1.59
50921630--50921706	33	2.4	32	82	4	91	48	16	7	27	1.74
50921696--50921762	35	1.9	35	88	8	102	46	11	8	32	1.72
50926267--50926382	60	1.9	60	91	0	187	37	16	10	36	1.83
50928741--50928880	19	7.1	19	70	19	90	34	1	12	52	1.48
50928815--50928874	19	3.0	20	87	7	95	31	0	13	55	1.39
50928824--50928914	8	11.1	8	68	20	55	35	0	12	52	1.39
50928824--50928927	27	4.1	27	88	8	141	34	0	13	51	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50929105--50929152	15	3.1	15	85	5	60	58	2	2	37	1.22
50929104--50929156	16	3.4	16	78	2	63	58	1	1	37	1.20
50929189--50929270	38	2.2	38	97	0	155	43	1	0	54	1.07
50932879--50933124	116	2.1	116	83	3	307	26	21	17	33	1.96
50932961--50933478	116	4.5	113	76	5	403	29	22	16	31	1.96
50945239--50945460	111	2.0	111	96	1	410	34	12	14	38	1.84
50945998--50946037	20	2.0	20	90	0	62	50	12	10	27	1.72
50945986--50946052	34	1.9	35	90	3	109	46	13	8	31	1.74
50954019--50954069	25	2.0	25	100	0	102	52	23	3	19	1.62
50955246--50955295	24	2.2	23	85	7	66	30	14	12	44	1.81
50976993--50977048	28	2.0	28	100	0	112	28	14	14	42	1.84
50978293--50978337	21	2.1	21	84	8	56	64	2	2	31	1.18
51005890--51005932	21	2.0	23	86	9	63	51	0	6	41	1.29
51011467--51011523	16	3.6	16	95	0	87	29	0	36	33	1.58
51011758--51011892	15	8.9	15	65	24	61	50	3	2	43	1.32
51011818--51011908	44	2.1	43	81	6	103	53	3	2	40	1.29
51011977--51012012	17	2.2	16	86	13	56	47	0	5	47	1.25
51011981--51012026	17	2.5	20	86	13	71	45	2	6	45	1.41
51012033--51012227	93	2.1	92	88	4	286	47	4	4	44	1.41
51012387--51012428	16	2.6	16	92	0	66	33	0	35	30	1.58
51012661--51012795	15	8.9	15	65	24	61	50	3	2	43	1.32
51012721--51012811	44	2.1	43	81	6	103	53	3	2	40	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51012880--51012915	17	2.2	16	86	13	56	47	0	5	47	1.25
51012884--51012929	17	2.5	20	86	13	71	45	2	6	45	1.41
51012936--51013130	93	2.1	92	88	4	286	47	4	4	44	1.41
51011483--51013272	903	2.0	904	99	0	3573	44	6	10	39	1.63
51016813--51016843	15	2.1	15	100	0	62	45	0	19	35	1.51
51022970--51023009	21	1.9	21	85	10	55	62	5	0	32	1.17
51023136--51023183	23	2.1	23	100	0	96	25	4	0	70	1.04
51029955--51030265	170	1.8	170	82	5	396	27	21	13	38	1.90
51030981--51031043	28	2.2	27	81	15	74	52	0	4	42	1.22
51032852--51032906	28	1.9	29	82	10	69	20	7	43	29	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