genome.fa.s10.2.7.7.80.10.50.1000.132.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  132  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)
40843154--40843202	23	2.0	25	84	7	66	46	4	24	24	1.69
40844254--40844293	20	2.0	21	85	5	55	32	40	10	17	1.83
40848789--40848846	18	3.1	18	79	15	64	58	0	1	39	1.08
40848800--40848842	10	4.3	10	82	8	52	65	0	2	32	1.06
40848952--40848995	11	4.2	11	85	5	56	34	0	4	61	1.16
40878950--40878986	12	3.1	12	88	0	56	35	0	0	64	0.94
40879005--40879059	25	2.3	22	79	14	56	54	5	1	38	1.34
40881516--40881547	3	10.7	3	100	0	64	68	0	0	31	0.90
40896784--40897247	90	5.1	90	93	0	750	30	22	24	22	1.99
40896784--40897188	43	9.0	43	67	12	206	29	22	25	22	1.99
40906508--40906664	43	3.7	43	73	12	137	32	25	15	26	1.96
40916997--40917079	37	2.2	37	87	4	114	42	30	10	16	1.83
40930051--40930140	39	2.3	39	88	0	135	27	45	7	18	1.77
40933287--40933332	22	2.1	21	84	11	58	34	23	13	28	1.92
40937750--40937781	15	2.1	15	94	0	55	65	0	18	15	1.27
40938991--40939022	6	5.3	6	100	0	64	0	31	0	68	0.90
40952994--40953058	20	3.3	20	68	12	53	41	20	29	9	1.83
40953032--40953098	20	3.3	20	71	8	55	43	14	28	13	1.84
40952989--40953098	39	2.8	40	83	2	132	42	15	28	13	1.85
40957145--40957192	22	2.2	22	100	0	96	29	18	4	47	1.67
40964026--40964080	28	2.0	27	82	6	67	54	1	1	41	1.21
40965558--40965587	13	2.3	13	94	0	51	30	6	6	56	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40971724--40971757	16	2.2	15	89	5	50	41	0	2	55	1.15
40976460--40976489	13	2.3	13	94	0	51	30	6	6	56	1.51
40979519--40979638	41	2.9	41	82	0	132	24	19	27	29	1.98
40979720--40979770	25	2.0	26	84	3	68	60	5	7	25	1.47
40980022--40980054	14	2.3	15	94	5	59	30	0	33	36	1.58
40980131--40980292	81	2.0	83	89	4	249	27	1	28	42	1.66
40980195--40980238	20	2.3	19	88	4	61	18	2	43	36	1.63
40980273--40980324	7	7.4	7	75	0	50	19	0	44	36	1.51
40980437--40980486	7	7.1	7	81	0	55	26	0	46	28	1.53
40984894--40985081	43	4.4	43	86	3	247	22	16	28	32	1.95
40987974--40988007	17	2.0	17	88	0	50	55	5	17	20	1.62
41014660--41014686	5	5.4	5	100	0	54	18	0	0	81	0.69
41023827--41023927	49	2.1	49	88	0	148	45	10	7	35	1.69
41031009--41031378	187	2.0	186	88	1	553	42	13	17	26	1.86
41034137--41034209	28	2.6	29	74	10	78	32	20	17	28	1.96
41053995--41054024	13	2.3	13	94	0	51	36	26	26	10	1.88
41057019--41057193	27	6.5	26	73	9	104	28	25	13	32	1.94
41057068--41057197	27	4.8	27	86	3	190	30	25	11	33	1.91
41061885--41062121	27	8.8	27	79	9	178	32	21	8	37	1.85
41061888--41062121	54	4.3	54	79	7	233	31	21	8	37	1.85
41061888--41062121	81	2.9	82	82	6	273	31	21	8	37	1.85
41064893--41064938	22	2.1	22	92	8	76	21	13	21	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41074535--41074640	17	5.9	17	70	18	63	28	1	2	66	1.16
41075101--41075176	22	3.4	21	84	10	82	21	28	1	48	1.58
41075115--41075176	11	5.6	11	84	5	81	20	30	1	46	1.60
41076200--41076289	44	2.0	44	100	0	180	27	17	22	32	1.97
41076387--41076412	7	3.7	7	100	0	52	26	0	15	57	1.38
41079351--41079518	83	2.0	82	94	1	291	28	20	17	33	1.95
41079706--41079825	51	2.4	51	95	0	213	41	23	0	34	1.60
41079818--41079986	46	3.6	45	72	15	139	37	16	2	43	1.61
41079764--41079995	94	2.3	100	84	7	287	38	17	1	42	1.59
41079846--41079979	51	2.8	52	74	20	155	37	17	1	43	1.59
41079846--41080016	94	1.8	94	83	5	229	40	15	2	41	1.60
41083816--41083875	17	3.5	17	97	0	111	18	21	36	23	1.95
41092959--41092993	18	1.9	18	88	11	54	37	0	0	62	0.95
41094204--41094240	13	2.8	13	91	0	56	40	21	2	35	1.68
41094385--41094409	7	3.6	7	100	0	50	32	12	12	44	1.78
41094420--41094454	18	1.9	18	88	0	52	40	8	14	37	1.76
41094500--41094546	9	5.2	9	100	0	94	46	10	10	31	1.73
41094556--41094608	27	2.0	27	92	0	88	37	13	0	49	1.42
41095984--41096022	19	2.1	19	100	0	78	35	10	12	41	1.77
41096856--41096893	19	2.0	19	89	0	58	18	2	21	57	1.52
41097238--41097282	23	2.0	23	86	4	65	33	0	4	62	1.15
41102463--41102491	4	7.5	4	92	7	51	75	24	0	0	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41103297--41103340	13	3.5	13	81	3	54	65	2	6	25	1.28
41106467--41106602	67	2.0	68	88	4	204	40	22	2	34	1.69
41120345--41120392	25	2.0	25	87	4	71	68	4	2	25	1.18
41120553--41120584	14	2.1	16	88	11	50	9	6	9	75	1.20
41125533--41125766	50	4.6	50	77	7	206	25	26	20	28	1.99
41125533--41125761	100	2.2	102	80	6	250	24	26	19	28	1.99
41127779--41127827	25	2.0	25	91	0	80	24	12	26	36	1.91
41127776--41127835	25	2.4	25	85	0	75	30	13	23	33	1.93
41135122--41135155	16	2.2	16	89	5	52	26	5	17	50	1.69
41136350--41136524	45	3.9	45	79	1	199	23	21	12	42	1.87
41136358--41136525	89	1.9	89	86	0	237	23	21	11	42	1.86
41139366--41139394	13	2.2	13	100	0	58	41	17	20	20	1.90
41142028--41142079	20	2.6	20	87	0	77	25	23	0	51	1.48
41143053--41144311	415	3.0	420	96	1	2305	34	17	10	37	1.83
41147466--41147518	7	7.6	7	100	0	106	13	0	0	86	0.56
41156427--41156468	2	21.0	2	100	0	84	50	0	50	0	1.00
41158341--41158452	57	2.0	56	81	8	129	32	12	14	41	1.83
41163220--41163261	20	2.1	20	90	0	66	19	42	14	23	1.87
41165110--41165422	89	3.5	89	88	3	452	57	13	5	23	1.57
41165316--41165385	32	2.2	32	82	7	79	64	12	1	21	1.35
41165914--41166028	53	2.1	54	87	1	160	45	20	19	15	1.86
41165914--41166046	53	2.5	53	78	8	144	44	21	18	15	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41166526--41166594	27	2.6	27	79	4	77	17	31	36	14	1.90
41166657--41166798	4	35.2	4	72	21	70	70	0	26	2	1.01
41166651--41166831	31	5.7	31	75	18	108	68	0	29	2	1.01
41166664--41166832	10	16.3	10	69	18	71	69	0	28	2	1.01
41167371--41167400	16	1.9	15	93	6	51	70	0	3	26	1.03
41167162--41167590	155	2.7	155	82	11	552	51	5	10	31	1.61
41171477--41171512	10	3.5	10	88	3	54	0	27	0	72	0.85
41171472--41171514	11	3.8	11	80	17	52	0	27	0	72	0.85
41171534--41171558	3	8.3	3	100	0	50	0	32	0	68	0.90
41171780--41171816	11	2.9	14	76	23	53	24	0	16	59	1.37
41172008--41172046	20	2.1	18	85	9	51	33	10	17	38	1.84
41173671--41173728	11	5.4	11	74	17	59	37	3	0	58	1.15
41173663--41173730	31	2.2	31	100	0	136	35	2	0	61	1.11
41173693--41173771	41	1.9	41	100	0	158	31	2	0	65	1.06
41173751--41173808	21	2.8	21	80	12	57	41	1	3	53	1.28
41175679--41175747	34	2.0	34	97	0	129	28	8	13	49	1.71
41177735--41177775	21	2.0	21	100	0	82	34	0	9	56	1.32
41177750--41178099	120	2.9	120	97	0	664	43	0	4	52	1.24
41178318--41178381	16	4.0	16	95	0	119	25	32	4	37	1.77
41178311--41178380	32	2.2	32	97	0	131	25	32	4	37	1.76
41184597--41184629	17	1.9	17	100	0	66	24	6	0	69	1.10
41185525--41185558	16	2.1	16	100	0	68	41	23	11	23	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41185726--41185833	56	1.9	55	96	1	198	37	8	12	40	1.74
41186609--41187566	477	2.0	477	96	0	1745	30	21	15	32	1.95
41192333--41192572	120	2.0	121	98	0	464	31	17	9	41	1.81
41199189--41199367	68	2.6	68	90	1	261	24	21	19	34	1.96
41210130--41210160	14	2.2	14	100	0	62	12	19	22	45	1.84
41211901--41211938	20	1.9	20	88	0	58	63	0	2	34	1.09
41213199--41213334	68	2.0	69	82	1	166	39	5	5	49	1.49
41217220--41217329	51	2.2	51	88	0	166	21	18	17	42	1.89
41218395--41218474	39	2.1	39	97	2	153	42	16	8	32	1.79
41229156--41229190	16	2.1	17	89	5	54	37	0	51	11	1.38

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