genome.fa.s3.2.7.7.80.10.50.1000.40.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  40  of  150  ( 17918 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)
11018060--11018318	93	2.8	94	89	5	411	47	13	2	36	1.57
11018246--11018287	16	2.7	15	85	7	66	45	14	0	40	1.45
11023867--11023917	21	2.4	21	90	0	75	35	17	43	3	1.68
11023801--11023998	87	2.3	87	88	3	283	37	18	32	11	1.86
11023954--11024023	21	3.3	21	85	0	95	34	17	42	5	1.73
11024327--11024552	43	5.3	43	89	1	310	19	20	30	29	1.97
11025448--11025507	27	2.2	27	82	5	77	56	0	0	43	0.99
11029264--11029299	16	2.2	16	95	0	63	47	13	16	22	1.82
11029567--11029625	29	2.0	29	90	0	91	33	30	10	25	1.89
11031122--11031243	58	2.1	59	85	1	165	22	25	11	40	1.87
11037363--11037434	20	4.1	19	68	24	59	66	0	1	31	1.00
11037610--11037665	26	2.1	27	86	3	78	28	0	12	58	1.34
11037782--11037821	19	2.1	19	86	9	55	30	2	5	62	1.29
11038752--11038780	2	14.5	2	100	0	58	51	0	0	48	1.00
11041134--11041158	9	2.8	9	100	0	50	68	8	0	24	1.16
11042231--11042277	23	2.0	24	87	4	69	38	17	6	38	1.75
11042254--11042328	19	3.8	19	96	3	132	36	16	10	37	1.83
11042532--11042616	45	1.9	43	83	9	109	30	23	16	29	1.96
11044446--11044485	6	6.8	6	91	2	64	0	2	12	85	0.71
11048267--11048291	9	2.8	9	100	0	50	68	8	0	24	1.16
11049324--11049417	19	4.8	19	90	5	143	37	17	9	36	1.82
11049736--11049781	25	1.9	23	83	16	58	39	13	0	47	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11051398--11051496	28	3.5	28	80	0	108	41	14	25	19	1.88
11056433--11056487	26	2.1	26	86	6	76	27	12	12	47	1.78
11067499--11067653	43	3.7	43	80	6	174	29	14	25	30	1.95
11067492--11067653	86	1.9	84	82	7	202	29	14	25	30	1.95
11071054--11071147	18	4.8	18	69	19	64	28	18	14	38	1.90
11071078--11071169	43	2.1	43	88	4	132	30	14	17	38	1.89
11085245--11085277	2	16.5	2	100	0	66	48	0	0	51	1.00
11086557--11086583	2	13.5	2	100	0	54	51	0	0	48	1.00
11086785--11086834	19	2.7	20	78	15	61	58	8	2	32	1.39
11089235--11089282	21	2.3	21	86	10	64	75	10	6	8	1.20
11098707--11098760	25	2.2	25	83	6	65	35	18	14	31	1.91
11106338--11106403	25	2.6	25	82	0	87	28	21	16	33	1.95
11108890--11109042	29	5.3	29	82	3	191	39	22	15	22	1.92
11108895--11109110	58	3.7	58	84	3	247	36	21	16	25	1.94
11108895--11109133	87	2.8	88	81	6	231	37	21	17	24	1.94
11108895--11109132	29	8.2	28	76	9	176	36	21	17	24	1.94
11115146--11115176	14	2.3	13	94	5	53	45	3	0	51	1.17
11119905--11119932	14	2.0	14	100	0	56	57	7	0	35	1.26
11125222--11125290	28	2.4	28	80	2	93	44	21	15	17	1.86
11126154--11126180	12	2.2	12	100	0	54	48	0	0	51	1.00
11153289--11153322	12	2.9	11	84	16	50	67	14	8	8	1.41
11158197--11158260	31	2.1	31	93	0	110	39	6	18	35	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11160057--11160088	16	2.0	16	93	0	55	59	6	0	34	1.23
11160255--11160293	15	2.4	16	83	8	53	35	2	0	61	1.10
11163744--11163825	41	2.0	41	95	4	148	48	12	8	30	1.70
11163863--11163903	19	2.2	19	95	0	73	43	17	4	34	1.70
11166674--11166700	1	27.0	1	100	0	54	0	0	0	100	0.00
11175259--11175322	31	2.1	31	84	0	83	23	25	1	50	1.58
11182209--11182261	20	2.6	21	72	6	54	43	13	22	20	1.86
11209118--11209156	10	4.1	9	86	6	51	35	0	2	61	1.10
11212903--11213019	41	2.9	40	82	8	137	23	22	25	29	1.99
11214704--11214734	16	1.9	16	93	0	53	35	25	6	32	1.82
11221097--11221294	87	2.3	87	85	5	249	39	17	29	12	1.87
11221250--11221315	21	3.1	21	82	0	78	34	13	40	10	1.79
11221642--11221978	43	7.8	43	84	4	389	27	21	25	24	1.99
11221642--11221978	86	3.9	86	85	4	439	27	21	25	24	1.99
11221640--11221978	129	2.6	128	86	2	473	28	21	25	24	1.99
11230473--11230504	14	2.3	14	94	0	55	18	3	6	71	1.20
11235128--11235549	37	11.3	37	74	5	301	37	16	16	29	1.91
11235129--11235549	112	3.7	112	80	3	346	37	16	16	29	1.91
11235128--11235517	149	2.6	149	81	3	401	37	16	16	29	1.91
11238951--11238982	17	1.9	16	93	6	55	18	12	3	65	1.38
11241689--11241746	22	2.6	22	91	0	89	24	25	15	34	1.95
11257188--11257223	18	2.0	18	88	0	54	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11257072--11257604	239	2.2	238	92	1	886	42	1	6	49	1.38
11257072--11257604	119	4.4	120	93	0	890	42	1	6	49	1.38
11257561--11257602	15	2.7	16	82	14	52	45	0	2	52	1.13
11257552--11257593	15	2.9	15	82	10	52	47	0	0	52	1.00
11257748--11257835	45	2.0	44	88	6	133	34	26	5	34	1.80
11257816--11257864	16	3.1	16	93	0	89	22	36	6	34	1.79
11266061--11266100	19	2.2	18	90	4	62	72	7	2	17	1.19
11266659--11266825	35	4.8	35	86	1	228	38	29	16	14	1.89
11267148--11267223	9	8.4	9	91	0	125	40	22	11	25	1.88
11267326--11267369	18	2.4	18	85	7	54	13	2	40	43	1.57
11276858--11276910	17	3.1	17	78	5	54	20	15	32	32	1.93
11278184--11278350	90	1.9	90	82	7	214	25	16	24	33	1.96
11278190--11278355	45	3.7	44	77	9	158	25	16	24	33	1.96
11283617--11283655	17	2.3	17	86	8	53	20	20	33	25	1.97
11284010--11284082	38	1.9	38	100	0	146	24	21	20	32	1.97
11285226--11285269	23	1.9	23	86	9	63	43	0	0	56	0.99
11289449--11289554	38	2.8	38	85	0	140	37	27	18	16	1.92
11300631--11300670	21	2.0	21	95	5	73	10	25	25	40	1.86
11300792--11300884	44	2.2	43	80	7	100	22	20	27	29	1.98
11300877--11301021	43	3.4	42	79	9	159	26	31	20	22	1.98
11300877--11301041	86	1.9	86	86	4	235	29	30	18	21	1.97
11300878--11301065	86	2.2	86	81	6	220	27	30	19	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11301395--11301495	21	4.8	21	83	0	121	3	42	17	35	1.68
11301482--11301623	66	2.2	66	87	5	198	14	26	19	40	1.89
11301503--11301647	66	2.2	65	85	6	193	15	24	20	40	1.90
11303990--11304052	33	1.9	33	93	0	108	65	14	0	20	1.27
11304006--11304044	19	2.0	19	85	5	51	69	10	0	20	1.17
11304493--11304582	38	2.4	38	96	0	171	46	12	20	21	1.82
11305687--11305740	23	2.5	22	82	8	58	44	0	7	48	1.31
11305689--11305755	20	3.2	21	73	14	50	47	0	7	44	1.31
11305762--11305803	22	2.0	21	86	13	59	16	7	0	76	1.00
11306004--11306253	89	2.8	89	95	0	446	46	25	1	27	1.61
11306235--11306273	21	1.9	21	89	5	62	38	41	0	20	1.53
11306006--11306334	89	3.9	77	85	10	307	44	24	1	29	1.61
11306902--11307166	41	6.5	41	92	2	419	33	25	22	18	1.97
11307203--11307337	40	3.4	40	77	8	134	20	21	20	37	1.94
11311588--11311659	22	3.3	22	94	0	117	25	27	16	30	1.97
11339715--11339810	48	2.0	47	90	6	149	42	8	25	23	1.82
11341121--11341198	39	2.0	39	94	0	138	30	17	24	26	1.97
11341250--11341302	26	2.0	26	100	0	106	16	22	18	41	1.90
11341478--11341779	152	2.0	153	97	0	570	28	12	25	33	1.93
11343898--11344080	51	3.6	49	79	5	188	25	19	25	28	1.99
11345665--11345707	17	2.5	17	100	0	86	44	11	4	39	1.62
11347869--11347919	3	18.0	3	77	18	56	68	3	0	27	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11347956--11347991	14	2.7	13	91	4	54	75	2	22	0	0.94
11350024--11350129	54	2.0	54	84	3	142	29	21	30	18	1.97
11350462--11350555	48	2.0	48	89	0	143	45	8	23	22	1.79
11361584--11361657	37	2.0	37	100	0	148	45	13	8	32	1.73
11371136--11371163	13	2.2	13	100	0	56	85	14	0	0	0.59
11373842--11373891	24	2.1	24	100	0	100	50	12	0	38	1.40
11376734--11376764	9	3.4	9	90	0	53	25	12	22	38	1.90
11377055--11377114	30	2.0	31	83	3	77	20	35	0	45	1.51
11377368--11377396	9	3.2	9	100	0	58	31	0	0	68	0.89
11378874--11378921	8	6.0	8	80	7	53	27	4	0	68	1.07

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