genome.fa.s10.2.7.7.80.10.50.1000.68.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  68  of  202  ( 24201 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)
19993106--19993179	31	2.4	31	84	2	87	45	2	13	37	1.58
20006496--20006557	26	2.4	26	86	2	90	51	1	6	40	1.37
20009612--20009653	21	2.0	22	85	4	59	69	4	11	14	1.34
20009823--20009955	19	6.8	19	87	4	167	38	15	9	36	1.80
20009823--20009955	38	3.4	40	91	5	202	38	15	9	36	1.80
20009823--20009954	59	2.3	59	91	1	212	38	14	9	37	1.79
20012214--20012560	172	2.0	172	95	0	622	37	18	13	31	1.89
20019539--20019588	27	1.9	26	84	8	66	30	16	4	50	1.63
20029621--20029739	60	2.0	60	91	0	193	20	9	40	30	1.83
20039923--20040014	30	3.1	30	75	6	87	30	20	16	32	1.95
20041642--20041677	18	2.0	18	100	0	72	61	11	5	22	1.50
20043793--20043834	2	21.0	2	80	9	50	50	0	4	45	1.23
20043769--20043820	10	5.4	10	82	13	56	53	1	0	44	1.11
20043965--20044080	3	37.7	3	86	6	153	64	2	3	29	1.23
20046051--20046092	6	6.5	6	86	13	57	30	2	0	66	1.04
20046051--20046092	13	3.2	13	93	6	68	30	2	0	66	1.04
20050092--20050137	24	1.9	24	100	0	92	39	39	10	10	1.76
20056326--20056370	22	2.0	22	83	8	56	40	4	0	55	1.20
20061887--20061921	18	1.9	18	94	0	61	14	37	28	20	1.91
20068213--20068247	2	17.5	2	100	0	70	48	0	0	51	1.00
20068407--20068448	7	6.3	7	94	2	61	0	11	0	88	0.53
20074893--20074933	17	2.4	17	100	0	82	26	0	4	68	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20075293--20075408	60	1.9	61	89	1	180	21	17	13	47	1.82
20075854--20075916	30	2.1	31	90	3	101	46	11	15	26	1.80
20075862--20075931	31	2.3	31	85	2	88	42	14	15	27	1.86
20082449--20082483	2	17.5	2	100	0	70	51	0	0	48	1.00
20085651--20085697	18	2.5	20	76	20	55	61	0	2	36	1.08
20085790--20085856	34	1.9	35	93	3	118	46	11	8	32	1.72
20090182--20090229	6	8.0	6	100	0	96	33	16	0	50	1.46
20104683--20104763	3	26.7	3	79	9	76	35	2	2	59	1.24
20105207--20105248	10	4.3	10	78	6	50	73	2	9	14	1.18
20105308--20105342	17	2.0	18	88	5	54	68	0	25	5	1.11
20105529--20105585	3	19.0	3	92	0	96	29	0	0	70	0.88
20110393--20110446	26	2.1	26	86	6	74	44	9	20	25	1.81
20112424--20112480	27	2.1	27	87	6	80	36	14	15	33	1.88
20112761--20112803	19	2.2	20	95	4	79	34	20	11	32	1.89
20123892--20123924	8	4.0	8	92	7	57	27	0	0	72	0.85
20128251--20128381	68	1.9	69	85	1	183	40	3	6	49	1.45
20128482--20128529	26	2.0	25	84	15	66	39	2	14	43	1.57
20129873--20129942	29	2.5	28	80	8	90	35	7	15	41	1.75
20130380--20130410	9	3.4	9	90	0	53	25	12	22	38	1.90
20132615--20132660	22	2.1	22	100	0	92	13	0	39	47	1.42
20132950--20133493	126	4.3	126	92	0	849	32	17	21	28	1.96
20136532--20136630	28	3.2	32	72	13	107	53	5	10	31	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20136516--20136651	61	2.5	50	69	23	121	52	6	8	33	1.57
20136512--20136632	61	2.0	61	86	0	170	54	4	9	31	1.53
20136533--20136632	33	3.2	33	69	13	102	54	5	10	31	1.55
20137184--20137226	18	2.4	18	92	0	68	44	11	27	16	1.82
20137312--20137376	29	2.2	31	78	15	75	13	16	38	30	1.88
20137869--20137907	7	5.6	7	100	0	78	56	15	0	28	1.40
20139394--20139634	42	5.7	43	79	9	266	20	17	26	35	1.95
20139393--20139589	84	2.4	84	93	0	342	21	16	25	36	1.94
20142082--20142138	29	2.0	29	92	0	96	54	5	0	40	1.23
20142135--20142179	11	4.2	10	81	13	54	46	0	28	24	1.53
20143884--20143915	15	2.1	15	94	0	55	65	15	0	18	1.27
20143923--20143977	13	4.1	14	75	13	53	72	7	1	18	1.16
20144550--20144574	3	8.3	3	100	0	50	64	0	0	36	0.94
20145894--20145944	27	1.9	26	84	11	68	41	5	5	47	1.52
20150245--20150446	108	1.9	108	81	4	246	22	20	23	32	1.98
20157818--20157868	3	17.0	3	100	0	102	33	0	0	66	0.92
20158094--20158118	2	12.5	2	100	0	50	48	0	0	52	1.00
20161751--20161952	100	2.0	100	100	0	404	39	10	7	42	1.69
20163221--20163294	16	4.8	16	75	3	62	32	2	8	56	1.43
20163632--20163674	16	2.7	16	77	0	50	58	23	2	16	1.50
20163830--20163861	10	3.0	11	90	9	57	90	0	0	9	0.45
20185140--20185194	18	3.0	18	81	10	67	27	1	7	63	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20185127--20185209	19	4.4	18	76	13	69	27	1	4	66	1.19
20193837--20193882	24	1.9	24	82	8	58	50	10	6	32	1.63
20194667--20194720	27	2.0	27	100	0	108	44	11	3	40	1.58
20197752--20197798	24	2.0	24	83	8	60	42	19	12	25	1.86
20201032--20201267	83	2.8	82	89	3	346	21	16	26	35	1.94
20201033--20201272	127	1.9	127	83	8	310	21	17	26	35	1.95
20208472--20208507	2	18.0	2	94	0	63	50	2	0	47	1.15
20208548--20208605	28	2.1	28	80	6	64	37	3	10	48	1.54
20208554--20208655	28	3.5	29	73	19	79	38	3	10	47	1.57
20212039--20212091	26	2.0	26	100	0	106	11	18	3	66	1.38
20217044--20217073	12	2.4	13	94	5	53	16	0	16	66	1.25
20221090--20221134	19	2.4	19	88	7	65	26	15	15	42	1.87
20221945--20221992	16	2.9	17	81	15	64	22	27	0	50	1.50
20233184--20233220	16	2.3	16	90	0	65	43	5	29	21	1.75
20233535--20233691	26	6.1	26	69	19	98	52	5	0	42	1.28
20233576--20233631	17	2.8	21	74	23	66	50	5	1	42	1.35
20233474--20233694	103	2.2	102	96	0	406	51	4	0	42	1.29
20233677--20233711	17	2.1	17	100	0	70	65	0	0	34	0.93
20233677--20233865	93	2.0	93	95	0	342	51	5	2	40	1.38
20233772--20233805	17	2.0	17	94	0	59	55	0	2	41	1.15
20235079--20235105	14	1.9	14	100	0	54	37	14	7	40	1.74
20240429--20240470	21	1.9	23	85	9	61	40	9	16	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20240453--20240483	9	3.4	9	90	0	53	25	12	22	38	1.90
20240776--20240835	30	2.0	31	90	3	95	20	38	0	41	1.52
20252176--20252530	44	7.6	44	65	14	129	28	23	20	28	1.99
20252189--20252683	143	3.5	143	87	1	690	28	23	20	28	1.99
20263284--20263716	4	108.8	4	88	3	570	25	3	26	44	1.70
20265541--20265755	25	8.6	25	76	7	134	27	12	23	36	1.91
20265542--20265660	50	2.4	50	83	8	152	22	11	28	36	1.90
20267229--20267306	32	2.4	32	80	4	95	47	8	15	28	1.75
20270505--20270551	2	24.0	2	78	4	51	55	4	0	40	1.19
20279980--20280012	11	3.0	11	100	0	66	9	45	0	45	1.35
20281516--20281540	1	25.0	1	100	0	50	100	0	0	0	0.00
20286512--20286581	35	2.0	35	97	0	131	28	18	14	38	1.90
20298822--20298860	20	2.0	20	85	10	53	30	10	23	35	1.88
20302787--20302830	9	4.8	9	77	5	52	65	0	4	29	1.12
20315198--20315350	22	7.0	22	90	0	225	32	14	26	26	1.94
20316919--20316952	17	2.0	17	94	0	59	17	20	35	26	1.95
20320847--20320903	28	2.0	28	93	0	96	31	7	14	47	1.70
20321789--20321816	12	2.3	12	100	0	56	35	0	7	57	1.26
20332099--20332131	7	4.6	7	96	3	57	39	0	0	60	0.97
20332093--20332131	14	2.7	15	88	11	64	41	0	0	58	0.98
20332256--20332288	17	2.0	17	88	5	50	39	0	0	60	0.97
20355914--20355974	26	2.3	26	94	0	104	42	26	4	26	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20355914--20355977	13	4.9	13	86	0	92	42	26	6	25	1.78
20365605--20365665	3	20.7	3	89	3	97	63	0	1	34	1.04
20366940--20367001	31	2.0	30	84	9	81	8	3	12	75	1.14
20367149--20367720	44	13.2	44	78	8	491	26	20	21	31	1.98
20367194--20367720	129	4.0	129	81	6	519	26	20	21	32	1.97
20368552--20368605	26	2.1	26	89	0	81	57	12	11	18	1.64
20381166--20381226	30	2.0	30	84	6	79	6	3	11	78	1.05
20387020--20387105	19	4.5	19	94	0	154	37	8	16	38	1.78
20387020--20387134	38	2.9	38	92	5	176	38	6	15	39	1.75
20387317--20387361	23	2.0	23	81	0	54	22	0	15	62	1.33

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