genome.fa.s5.2.7.7.80.10.50.1000.180.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   

This is table  180  of  208  ( 24913 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)
55032737--55032775	17	2.2	18	86	4	53	87	7	2	2	0.73
55037585--55037667	39	2.1	39	81	6	94	68	6	4	20	1.30
55051574--55051658	28	3.1	27	82	12	86	58	1	5	34	1.30
55051884--55051933	19	2.6	19	87	3	64	72	0	2	26	0.96
55054594--55054629	2	18.0	2	100	0	72	50	0	0	50	1.00
55054731--55054787	27	2.2	26	87	9	80	28	3	1	66	1.18
55063559--55063651	44	2.1	45	84	11	120	38	24	3	33	1.72
55063633--55063684	16	3.2	16	86	0	68	30	26	3	38	1.74
55065001--55065037	18	2.1	18	100	0	74	51	27	16	5	1.66
55064958--55065078	60	2.0	62	93	3	210	38	23	22	16	1.93
55065020--55065143	43	2.9	43	88	7	173	33	20	21	24	1.97
55065501--55065552	21	2.5	21	100	0	104	3	34	17	44	1.67
55065500--55065570	21	3.4	21	88	3	90	2	36	19	40	1.67
55066910--55067048	67	2.1	67	95	2	253	45	13	4	36	1.64
55067108--55067143	16	2.2	16	95	0	63	52	8	11	27	1.65
55069797--55070038	114	2.1	112	82	9	287	27	26	16	30	1.96
55070028--55070291	114	2.3	112	78	9	266	29	23	17	28	1.97
55071930--55071964	2	17.5	2	100	0	70	51	0	0	48	1.00
55076533--55076590	26	2.2	26	84	0	71	31	10	17	41	1.83
55079303--55079327	13	1.9	13	100	0	50	52	0	0	48	1.00
55079904--55079932	13	2.3	13	94	5	51	13	10	6	68	1.37
55080600--55080638	2	19.5	2	100	0	78	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55082704--55082824	27	4.5	27	88	0	143	24	25	24	24	2.00
55085216--55085250	16	2.2	16	89	0	52	65	5	0	28	1.15
55086107--55086225	60	2.0	60	93	0	202	53	12	0	32	1.44
55086119--55086237	60	2.0	60	91	0	193	55	10	1	32	1.43
55086404--55086453	3	17.3	3	89	8	77	0	30	0	70	0.88
55086404--55086466	14	4.4	14	86	6	74	0	33	0	66	0.92
55096540--55096577	20	1.9	19	89	5	58	23	21	13	42	1.88
55097735--55097825	44	2.1	44	100	0	182	25	13	10	50	1.73
55097758--55097829	21	3.3	21	63	14	56	25	13	9	51	1.72
55098520--55098548	9	3.0	10	90	10	51	82	6	0	10	0.83
55099477--55099522	13	3.5	13	85	11	67	67	0	17	15	1.24
55099477--55099522	7	7.0	7	85	9	62	67	0	17	15	1.24
55099478--55099519	6	6.7	6	89	5	57	69	0	16	14	1.20
55101040--55101397	44	7.7	44	67	19	190	31	20	20	27	1.97
55100883--55101454	142	4.0	142	92	0	930	32	19	20	27	1.97
55101069--55101255	98	1.9	96	80	8	216	31	19	21	27	1.97
55101530--55101705	50	3.5	50	76	6	185	35	18	18	27	1.94
55103058--55103095	12	3.2	12	88	0	58	34	2	0	63	1.09
55103036--55103124	41	2.1	41	84	13	112	34	5	1	58	1.29
55109699--55109747	21	2.4	21	93	3	82	14	12	14	59	1.62
55110110--55110177	29	2.4	28	85	2	82	48	17	4	29	1.67
55110808--55110847	20	2.0	20	90	4	64	60	5	2	32	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55116573--55116763	94	2.0	92	83	12	239	49	2	3	45	1.32
55116686--55116740	24	2.3	25	78	12	71	43	3	0	52	1.18
55127459--55127485	13	2.1	13	100	0	54	14	29	33	22	1.94
55133164--55133223	31	2.0	30	83	9	77	16	15	13	55	1.70
55137907--55137960	19	2.6	20	82	11	56	57	3	1	37	1.27
55140091--55140229	57	2.4	57	83	3	163	41	15	25	17	1.89
55140397--55140455	29	2.0	29	86	0	82	33	13	32	20	1.91
55144679--55144709	9	3.4	9	90	0	53	32	9	0	58	1.31
55161563--55161612	20	2.7	19	80	20	61	54	2	2	42	1.23
55163108--55163207	45	2.2	45	82	3	121	42	16	17	25	1.88
55164411--55164467	30	1.9	29	82	10	71	50	3	0	45	1.18
55164560--55164603	16	2.6	16	79	10	52	47	4	0	47	1.22
55166389--55166477	27	3.3	26	79	6	97	17	29	16	35	1.93
55172865--55173072	105	2.0	105	95	1	373	35	20	11	33	1.88
55175956--55176141	37	5.0	37	95	0	309	26	20	14	37	1.92
55182619--55182804	37	5.0	37	95	0	309	26	20	14	37	1.92
55184450--55184497	21	2.3	21	77	0	51	37	6	2	54	1.38
55189623--55189702	25	3.2	25	82	7	92	32	20	23	23	1.98
55196357--55196394	17	2.2	18	90	4	60	39	0	5	55	1.23
55204110--55204165	30	1.9	29	85	7	78	32	14	21	32	1.93
55209859--55209897	4	9.8	4	83	10	53	23	2	0	74	0.94
55211421--55211474	17	3.2	17	68	5	56	37	24	11	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55216146--55216184	17	2.4	17	91	4	62	56	0	12	30	1.37
55216234--55216637	201	2.0	201	97	0	763	31	25	13	29	1.94
55223056--55223093	16	2.3	17	86	4	51	65	5	2	26	1.27
55225296--55225346	21	2.5	19	79	14	57	27	1	7	62	1.33
55225626--55225656	16	1.9	16	93	0	53	48	6	6	38	1.55
55225776--55225817	9	4.4	9	82	17	50	30	2	0	66	1.04
55225787--55225909	17	6.6	18	75	7	61	38	0	4	56	1.21
55225838--55225898	20	3.2	19	88	6	88	37	0	6	55	1.26
55225829--55225899	19	3.7	19	85	7	90	36	0	8	54	1.31
55229181--55229240	30	2.0	31	83	3	77	40	1	38	20	1.62
55229076--55229456	193	2.0	193	81	8	453	37	0	37	24	1.58
55229478--55229514	18	2.1	17	90	10	56	32	8	5	54	1.53
55230296--55230330	2	17.5	2	100	0	70	48	0	0	51	1.00
55232698--55232742	21	2.1	21	91	0	72	13	15	26	44	1.83
55232846--55233081	43	5.5	43	87	1	312	29	28	19	22	1.98
55234071--55234492	192	2.2	192	82	5	487	41	19	9	29	1.83
55236895--55236935	21	2.0	21	95	0	73	29	41	0	29	1.56
55236896--55236968	14	5.2	14	74	9	60	32	43	1	21	1.61
55236897--55236955	21	2.8	21	84	0	64	33	45	0	20	1.51
55236962--55237130	80	2.1	81	84	7	220	45	27	1	25	1.61
55237503--55237778	41	6.7	41	88	4	391	28	28	21	20	1.98
55243407--55243540	67	2.0	67	91	0	214	32	9	23	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55243813--55243860	19	2.5	19	86	6	62	50	0	25	25	1.50
55250273--55250335	31	2.1	31	90	3	101	15	26	28	28	1.96
55259095--55259143	21	2.3	21	92	0	80	26	32	4	36	1.75
55265473--55265519	18	2.7	18	86	3	60	14	31	27	25	1.95
55266301--55266335	6	5.8	6	93	0	61	17	65	0	17	1.27
55267775--55267832	6	10.0	6	73	12	50	50	0	0	50	1.00
55267781--55267865	35	2.4	34	86	7	109	48	0	2	49	1.14
55278535--55278613	18	4.2	18	75	12	70	64	2	1	31	1.15
55278535--55278589	19	2.9	19	81	2	67	67	1	1	29	1.11
55279476--55279506	2	15.5	2	100	0	62	48	0	0	51	1.00
55280640--55280692	20	2.7	19	75	16	54	43	0	1	54	1.11
55280723--55280787	11	5.6	12	72	16	57	50	1	0	47	1.10
55280723--55280782	24	2.5	24	77	17	63	50	1	0	48	1.11
55283820--55283869	24	2.0	26	81	14	61	36	6	0	58	1.23
55287641--55287679	2	19.5	2	100	0	78	51	0	0	48	1.00
55287828--55287869	14	3.1	13	78	21	50	59	4	0	35	1.19
55287836--55287873	16	2.4	16	82	4	51	60	5	0	34	1.19
55288056--55288152	18	5.6	18	72	18	57	59	3	3	34	1.28
55288121--55288160	3	13.3	3	100	0	80	65	0	0	35	0.93
55292313--55292378	23	2.8	23	81	11	80	56	1	1	40	1.18
55298778--55298884	15	7.3	15	68	6	58	21	20	27	30	1.98
55298769--55298911	29	5.0	28	74	7	92	20	20	27	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55298852--55298924	14	5.4	13	73	9	65	17	20	32	28	1.96
55301284--55301320	18	2.1	18	90	10	58	16	18	37	27	1.92
55302121--55302216	43	2.2	43	86	0	129	28	16	23	31	1.96
55302303--55302397	38	2.5	38	79	3	102	34	17	15	31	1.92
55302704--55302805	38	2.7	38	87	3	143	36	17	13	32	1.89
55318011--55318105	38	2.5	38	85	0	127	34	13	16	34	1.89
55324418--55324464	2	23.5	2	100	0	94	51	0	0	48	1.00
55325587--55325658	36	2.0	36	100	0	144	61	5	13	19	1.52
55325996--55326149	4	39.0	4	74	19	71	66	0	31	1	1.00
55326000--55326156	28	5.3	30	70	19	100	66	0	32	1	1.00

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