genome.fa.s3.2.7.7.80.10.50.1000.121.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  121  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)
37208439--37208529	47	1.9	48	84	6	123	59	2	2	36	1.22
37208742--37208856	9	12.3	9	66	10	52	23	5	4	66	1.30
37208767--37208857	19	4.8	20	77	9	91	21	4	5	68	1.29
37208807--37208856	18	2.8	18	100	0	100	16	4	8	72	1.24
37208951--37209154	90	2.3	90	82	4	243	32	10	20	36	1.87
37209429--37209482	22	2.4	23	81	9	76	38	0	0	61	0.96
37209429--37209482	21	2.5	22	78	6	65	38	0	0	61	0.96
37210414--37210679	125	2.1	124	87	2	372	30	15	22	31	1.94
37212843--37212876	15	2.3	15	90	5	52	67	5	0	26	1.13
37212975--37213020	20	2.2	21	92	3	76	56	2	0	41	1.11
37213064--37213105	22	1.9	22	85	0	57	35	0	30	33	1.58
37213077--37213135	30	2.0	30	93	0	100	33	0	35	30	1.58
37213107--37213198	22	4.2	22	86	5	132	40	0	28	31	1.57
37213848--37213913	18	3.8	17	78	11	71	36	3	1	59	1.22
37213945--37213993	2	24.5	2	100	0	98	51	0	0	48	1.00
37215041--37215070	12	2.5	12	94	0	51	63	3	0	33	1.11
37215606--37215752	43	3.4	43	95	0	258	29	14	15	40	1.87
37217141--37217201	16	3.8	16	76	6	61	37	21	9	31	1.86
37217144--37217206	32	2.0	32	84	6	83	36	19	12	31	1.89
37219040--37219078	20	2.0	20	89	0	60	41	17	7	33	1.79
37219159--37219213	20	2.7	21	80	2	58	67	0	1	30	1.01
37219178--37219225	19	2.6	18	83	9	60	68	0	4	27	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37219279--37219311	11	3.1	11	91	8	59	27	0	0	72	0.85
37219279--37219339	10	6.3	10	81	12	65	22	0	3	73	0.97
37219471--37219664	86	2.2	86	81	7	232	37	11	16	34	1.85
37219864--37220070	86	2.4	87	77	8	206	37	14	9	38	1.80
37220270--37220357	29	3.1	29	77	11	101	65	0	4	29	1.12
37220286--37220357	19	3.8	19	76	7	83	68	0	5	26	1.12
37220232--37220357	10	13.3	10	70	15	72	63	0	3	32	1.16
37220230--37220348	9	12.8	9	69	16	73	62	0	3	33	1.18
37220279--37220357	9	8.6	9	74	10	61	68	0	5	26	1.10
37220252--37220359	29	3.8	29	75	9	98	62	0	4	31	1.21
37220280--37220368	29	3.2	27	76	10	83	67	2	5	24	1.24
37220527--37220583	19	2.9	19	79	10	62	24	3	5	66	1.28
37220548--37220635	29	2.9	29	75	11	88	29	5	1	63	1.24
37220522--37220605	38	2.2	37	77	10	89	29	3	3	63	1.28
37220611--37220717	24	4.3	24	70	22	78	38	1	0	59	1.08
37228480--37228514	18	1.9	18	88	11	54	31	2	2	62	1.24
37228948--37228995	22	2.1	23	88	3	71	50	2	0	47	1.12
37233475--37233551	26	3.0	26	80	3	75	27	14	18	40	1.89
37233738--37233780	22	1.9	22	85	4	59	18	9	51	20	1.74
37235046--37235098	25	2.1	25	82	0	61	24	3	3	67	1.23
37235055--37235118	32	2.0	33	85	14	89	25	4	3	67	1.25
37236174--37236227	3	18.3	3	77	11	58	61	0	38	0	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37242193--37242642	51	8.9	50	77	4	422	29	14	26	29	1.95
37242192--37242642	102	4.4	102	90	1	638	29	14	25	29	1.95
37245592--37245670	27	2.9	27	82	0	104	26	31	22	18	1.97
37257551--37257581	16	1.9	16	93	0	53	9	9	9	70	1.33
37258683--37258711	14	2.0	15	93	6	51	44	0	13	41	1.44
37259169--37259240	32	2.2	33	78	9	78	45	1	4	48	1.30
37261323--37261389	29	2.3	27	80	14	64	49	17	1	31	1.56
37261884--37262148	42	6.3	42	77	3	273	23	25	26	24	2.00
37261898--37262170	126	2.2	126	81	2	316	23	24	25	26	2.00
37267244--37267369	42	3.0	42	95	1	225	26	19	19	34	1.96
37267673--37267739	21	3.2	21	75	8	64	2	47	17	31	1.63
37278510--37278689	72	2.5	70	80	8	195	22	22	24	30	1.99
37278510--37278704	71	2.7	71	80	9	202	23	23	24	29	1.99
37285542--37285591	24	2.1	23	82	10	57	26	16	6	52	1.66
37285736--37285809	20	3.7	20	81	0	94	40	21	28	9	1.84
37287319--37287451	70	1.9	67	87	4	194	31	12	13	42	1.81
37307592--37307663	26	2.8	26	87	6	112	15	29	25	30	1.96
37313889--37313971	41	2.0	41	100	0	166	24	16	24	34	1.95
37313955--37313985	14	2.2	14	100	0	62	22	16	12	48	1.80
37313914--37314021	55	2.0	54	90	1	171	23	15	23	37	1.93
37319948--37319995	22	2.2	22	96	0	87	18	8	18	54	1.68
37320723--37320780	26	2.3	26	93	3	100	15	22	24	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37320712--37320872	24	6.6	24	73	9	96	18	25	21	34	1.96
37320733--37320861	47	2.7	47	71	13	111	18	26	22	32	1.97
37324657--37324779	18	6.7	18	66	22	60	43	2	4	48	1.37
37324745--37324805	30	2.0	31	90	3	97	39	0	4	55	1.21
37324786--37324879	29	3.2	29	77	11	93	36	5	4	54	1.43
37328223--37328268	16	2.9	16	76	20	51	58	0	23	17	1.38
37330093--37330149	11	5.0	11	86	4	69	22	29	1	45	1.63
37330093--37330149	22	2.5	23	82	5	80	22	29	1	45	1.63
37331312--37331343	7	4.6	7	100	0	64	28	0	12	59	1.34
37334599--37335042	127	3.5	126	89	1	628	28	22	17	31	1.97
37335885--37335924	2	20.0	2	100	0	80	50	0	0	50	1.00
37342268--37342300	14	2.4	14	90	5	50	27	0	0	72	0.85
37344259--37344291	5	6.6	5	100	0	66	60	0	0	39	0.97
37350580--37350618	13	3.1	13	85	3	53	51	15	17	15	1.77
37351727--37351768	16	2.6	16	78	14	50	78	9	0	11	0.96
37355688--37355977	43	6.8	42	88	3	393	32	21	24	22	1.98
37355688--37355977	85	3.4	85	88	4	397	32	21	24	22	1.98
37355709--37355977	127	2.1	127	89	3	380	32	21	24	22	1.98
37356446--37356516	21	3.4	21	78	3	63	2	39	18	39	1.65
37361984--37362414	9	49.3	9	69	19	150	39	0	14	44	1.51
37361989--37362108	16	7.9	16	69	19	96	35	1	17	45	1.58
37362003--37362142	25	5.7	25	78	6	142	37	1	16	45	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37362082--37362304	25	8.7	25	65	21	61	40	0	13	46	1.46
37362095--37362299	68	3.2	64	81	11	178	41	0	13	44	1.47
37362200--37362656	31	15.0	31	75	16	415	41	0	12	46	1.42
37362320--37362352	16	2.1	16	100	0	66	30	0	24	45	1.53
37362287--37362383	50	1.9	50	85	4	133	42	0	15	42	1.47
37362004--37362612	34	18.2	33	70	20	126	40	0	13	45	1.48
37362465--37362646	9	20.6	9	70	23	63	39	0	12	48	1.41
37362515--37362622	22	5.1	22	74	22	97	39	0	11	49	1.39
37362328--37362581	137	1.9	137	92	5	433	40	0	13	45	1.44
37362617--37362675	4	14.2	4	73	19	50	45	0	5	49	1.24
37362599--37362663	34	1.9	34	96	0	121	43	0	9	47	1.35
37362955--37362997	18	2.4	18	76	0	50	65	6	0	27	1.18
37363287--37363375	18	4.8	18	81	14	110	42	0	12	44	1.42
37363260--37363375	39	3.0	38	87	12	157	43	0	11	44	1.39
37363264--37363422	57	2.8	55	70	16	137	42	1	12	43	1.50
37366364--37366918	114	4.9	114	89	1	776	25	26	21	25	2.00
37370164--37370217	26	2.1	26	82	0	63	35	9	12	42	1.75
37374565--37374641	26	3.0	26	80	3	93	23	18	20	37	1.94
37375171--37375359	56	3.2	56	64	19	141	20	6	23	49	1.73
37375119--37375365	120	2.1	120	99	0	485	21	7	22	48	1.75
37377802--37377840	21	2.0	20	85	10	53	28	12	7	51	1.67
37378228--37378290	31	2.1	31	90	3	101	60	12	3	23	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37378326--37378365	11	3.6	11	79	0	53	57	7	15	20	1.61
37379857--37379891	18	1.9	19	88	11	56	54	8	0	37	1.31
37380513--37380537	3	8.3	3	100	0	50	64	0	0	36	0.94
37381032--37381108	16	4.3	17	71	19	59	49	2	5	42	1.39
37382392--37382491	22	4.5	22	70	20	82	54	4	1	41	1.26
37382415--37382526	35	3.3	35	66	16	108	55	4	1	38	1.31
37382393--37382538	67	2.1	67	96	2	265	54	4	1	40	1.28
37382980--37383016	19	1.9	19	89	10	58	37	0	2	59	1.12
37382981--37383021	5	8.4	5	81	13	50	36	0	2	60	1.10
37382980--37383020	9	4.3	9	84	9	55	39	0	2	58	1.11

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