genome.fa.s11.2.7.7.80.10.50.1000.109.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   203   204   205   206   207   208   
          209   210   

This is table  109  of  210  ( 25152 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)
32051001--32051034	18	1.9	18	88	5	52	44	5	2	47	1.42
32054782--32054824	18	2.4	18	85	11	54	51	4	2	41	1.35
32054977--32055024	21	2.2	21	78	10	53	37	6	4	52	1.46
32055227--32055501	137	2.0	137	97	0	514	33	16	15	35	1.90
32058471--32058512	18	2.3	18	84	11	59	26	2	0	71	0.98
32061884--32061958	25	3.0	25	82	5	89	44	16	10	29	1.81
32062616--32062685	35	2.0	35	97	0	131	35	11	27	25	1.90
32063170--32063217	23	2.1	23	96	0	87	20	18	4	56	1.58
32063543--32063583	21	1.9	21	90	5	64	4	31	0	63	1.15
32063927--32064030	54	1.9	54	92	0	172	34	17	17	30	1.93
32066145--32066219	25	3.0	25	76	5	71	42	14	12	30	1.82
32069850--32069919	36	2.0	35	83	8	88	54	2	2	40	1.30
32070332--32070371	19	2.1	19	85	0	53	35	2	7	55	1.42
32081941--32082077	49	2.8	50	82	6	163	29	23	22	24	1.99
32089242--32089538	50	5.8	50	85	5	348	27	22	28	21	1.99
32093089--32093142	22	2.5	22	90	0	81	24	11	24	40	1.87
32099919--32099950	14	2.3	14	94	0	55	31	25	6	37	1.81
32099994--32100045	25	2.1	25	92	0	86	34	7	9	48	1.65
32102256--32102360	52	2.0	52	98	0	201	37	20	4	38	1.73
32108042--32108081	9	4.4	9	87	0	53	22	60	2	15	1.47
32116350--32116447	43	2.3	43	87	0	142	20	31	27	20	1.97
32116737--32116762	11	2.4	11	100	0	52	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32118332--32118475	54	2.7	54	74	2	146	20	27	21	31	1.98
32119688--32119765	3	25.3	3	72	14	61	64	2	2	30	1.21
32120225--32120283	15	3.9	15	74	12	57	69	0	13	16	1.19
32124030--32124071	20	2.1	20	100	0	84	26	35	19	19	1.95
32126568--32126671	35	3.0	35	84	0	136	42	32	11	13	1.80
32128154--32128383	33	6.4	33	73	18	120	34	26	17	21	1.95
32128214--32128350	42	3.5	40	74	17	135	32	27	17	22	1.96
32128182--32128387	75	2.7	75	92	0	340	33	27	16	21	1.96
32128362--32128412	27	1.9	27	92	4	86	31	31	21	15	1.95
32128744--32128805	30	2.0	30	84	9	81	29	24	4	41	1.75
32135678--32135961	75	3.8	74	88	3	406	33	27	17	21	1.96
32138889--32138975	43	2.0	44	86	6	124	51	3	20	24	1.62
32142373--32142466	38	2.5	38	87	0	125	31	24	23	20	1.98
32142383--32142456	19	3.9	19	83	0	103	32	27	22	17	1.97
32142843--32142880	19	2.0	19	85	10	51	52	7	0	39	1.31
32145978--32146042	31	2.1	31	100	0	130	50	3	9	36	1.50
32145976--32146048	31	2.4	29	89	8	119	50	2	9	36	1.49
32146960--32147024	31	2.1	32	82	8	80	16	6	18	58	1.58
32147771--32147807	10	3.7	10	92	0	65	62	0	13	24	1.31
32147771--32147808	5	7.6	5	87	0	58	60	0	15	23	1.35
32148714--32148751	14	2.9	13	88	11	60	68	2	28	0	1.03
32151653--32151683	12	2.6	12	94	0	53	29	41	22	6	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32154355--32154399	19	2.3	20	75	17	51	17	51	0	31	1.46
32161890--32161925	18	2.0	18	94	0	63	30	0	2	66	1.06
32161895--32161928	9	4.0	8	88	11	50	35	0	0	64	0.94
32163738--32163776	20	2.0	20	85	10	53	61	0	0	38	0.96
32167466--32167623	43	3.7	41	73	11	122	32	25	17	25	1.97
32167521--32167629	44	2.5	43	80	10	132	33	25	14	25	1.94
32172684--32172725	20	2.2	18	87	8	57	47	0	9	42	1.36
32177874--32177982	45	2.4	45	80	8	123	40	14	21	23	1.90
32189766--32189820	26	2.2	25	93	3	92	32	18	5	43	1.73
32189746--32189820	26	2.9	26	84	5	82	34	18	6	40	1.77
32196637--32196778	50	2.8	50	85	1	185	23	19	27	29	1.98
32213621--32213645	12	2.1	12	100	0	50	32	8	16	44	1.76
32216136--32216178	6	7.5	6	79	10	54	76	0	0	23	0.78
32216136--32216178	22	2.0	22	90	0	68	76	0	0	23	0.78
32217254--32217308	27	1.9	28	89	10	85	14	30	32	21	1.93
32221636--32221691	23	2.4	24	78	3	60	50	14	25	10	1.75
32223633--32224327	114	6.1	114	86	5	948	25	22	24	28	2.00
32223660--32224325	224	2.9	226	88	3	961	25	22	24	28	1.99
32224961--32224999	15	2.6	15	95	0	69	23	0	33	43	1.54
32224991--32225326	95	3.8	86	81	11	328	29	3	25	41	1.72
32225750--32225964	84	2.6	85	87	3	267	30	18	20	30	1.96
32227433--32227461	12	2.4	12	100	0	58	48	10	0	41	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32227457--32227840	9	44.4	9	66	19	126	47	18	1	32	1.59
32227457--32227607	25	6.2	25	68	16	86	45	20	2	31	1.65
32227581--32227674	37	2.5	37	94	0	161	50	18	1	30	1.54
32227664--32227808	25	5.8	25	76	16	108	48	17	1	32	1.56
32227617--32227796	16	11.1	16	68	21	108	49	17	1	31	1.56
32227543--32227796	41	6.3	41	77	11	144	48	18	1	32	1.56
32227721--32227840	25	4.7	25	76	12	63	46	17	0	35	1.54
32227985--32228056	17	4.2	17	72	13	58	44	13	1	40	1.53
32227993--32228056	25	2.5	26	87	2	94	43	14	1	40	1.54
32228128--32228183	26	2.1	28	83	12	73	23	10	8	57	1.61
32230169--32230376	43	4.8	43	85	2	265	31	17	27	23	1.97
32235099--32235139	20	2.0	20	100	0	82	39	4	4	51	1.45
32235471--32235813	175	2.0	175	95	0	614	34	23	17	24	1.96
32236994--32237064	31	2.3	31	87	4	99	32	11	14	42	1.81
32247509--32247541	15	2.3	15	94	5	59	6	18	0	75	1.00
32279824--32279848	12	2.1	12	100	0	50	8	44	0	48	1.32
32281308--32281570	132	2.0	131	96	0	481	35	15	21	26	1.94
32282523--32282561	13	2.9	14	80	7	53	23	2	0	74	0.94
32287656--32287709	20	2.7	20	82	0	72	20	29	22	27	1.98
32297226--32297367	9	14.4	10	75	16	88	30	3	3	62	1.28
32297278--32297368	3	30.3	3	86	4	130	31	2	2	63	1.18
32297287--32297427	9	15.1	9	84	10	86	31	1	13	53	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32297367--32297419	3	17.7	3	96	0	97	33	0	30	35	1.58
32297316--32297422	6	17.8	6	97	0	79	33	0	14	51	1.43
32309331--32309368	15	2.7	14	84	8	51	42	2	0	55	1.14
32313630--32313679	26	1.9	26	84	8	66	48	8	16	28	1.74
32316591--32316704	61	1.9	60	87	5	169	50	5	2	41	1.38
32317026--32317062	19	1.9	19	89	10	58	21	24	10	43	1.84
32317181--32317209	14	2.0	15	93	6	51	48	6	3	41	1.47
32322170--32322209	21	2.0	20	85	5	53	15	10	37	37	1.80
32327248--32327286	15	2.6	15	79	0	51	43	28	10	17	1.82
32333777--32333815	20	2.0	20	90	10	62	15	23	5	56	1.59
32356863--32356943	26	3.1	26	80	7	101	34	23	20	20	1.97
32357148--32357206	25	2.4	25	91	0	91	61	1	0	37	1.07
32357549--32357612	28	2.3	27	81	2	74	26	10	23	39	1.88
32357874--32357919	20	2.3	20	85	10	60	21	45	21	10	1.82
32360367--32360537	82	2.1	82	97	1	324	36	13	21	28	1.91
32363027--32363058	6	5.7	6	85	14	50	34	0	0	65	0.93
32367080--32367118	6	6.5	6	87	0	51	12	25	2	58	1.47
32373829--32373858	10	2.9	10	95	5	51	50	0	13	36	1.42
32376320--32376446	27	4.7	27	83	6	141	27	14	28	29	1.95
32376320--32376435	54	2.1	55	85	6	157	30	12	28	28	1.94
32376527--32376591	27	2.4	27	82	5	78	36	13	24	24	1.92
32388079--32388239	45	3.6	45	82	3	189	21	14	27	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32405625--32405662	17	2.2	17	95	0	67	28	18	18	34	1.95
32405625--32405669	17	2.6	17	89	0	54	31	17	17	33	1.94
32405784--32405844	29	2.1	29	100	0	122	29	6	8	55	1.54
32412574--32412611	10	3.5	11	86	13	53	34	0	2	63	1.09
32422507--32422555	25	2.0	25	100	0	98	32	28	6	32	1.82
32424226--32424281	17	3.5	16	79	16	62	16	7	3	73	1.20
32424231--32424260	14	2.1	15	93	6	53	13	6	3	76	1.11
32427903--32427961	18	3.2	18	75	17	66	52	3	1	42	1.28
32427906--32427999	17	5.3	17	69	20	59	48	3	2	45	1.30
32428437--32428473	19	2.0	18	89	5	56	51	2	2	43	1.30

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   203   204   205   206   207   208   
          209   210