genome.fa.s3.2.7.7.80.10.50.1000.116.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  116  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)
35848432--35848523	10	9.4	10	75	16	70	64	3	0	32	1.10
35848432--35848526	21	4.8	20	74	16	92	63	3	0	33	1.10
35859713--35859768	18	3.1	18	70	10	51	62	1	1	33	1.16
35860506--35860539	16	2.1	16	88	5	50	70	0	0	29	0.87
35864064--35864127	11	5.7	11	87	9	85	28	31	0	40	1.57
35864064--35864127	22	2.9	22	88	6	94	28	31	0	40	1.57
35866844--35866903	30	2.0	31	86	3	86	28	5	1	65	1.23
35867237--35867273	12	2.7	14	80	20	51	21	2	5	70	1.20
35867280--35867314	15	2.3	15	95	0	61	22	0	14	62	1.31
35867288--35867321	15	2.3	15	89	0	50	20	2	14	61	1.46
35879451--35879627	50	3.5	50	69	3	140	27	22	25	23	2.00
35879306--35879793	267	1.8	267	89	0	760	26	19	26	26	1.99
35879713--35879822	50	2.2	50	81	3	123	27	21	27	23	1.99
35881353--35881411	27	2.2	27	84	6	75	35	3	6	54	1.44
35881412--35881469	29	2.0	30	86	3	82	29	5	1	63	1.25
35881847--35881881	15	2.3	15	85	0	52	20	0	17	62	1.32
35883712--35884012	21	14.4	20	75	11	164	45	28	0	25	1.58
35883712--35884012	42	7.2	41	82	5	345	45	28	0	25	1.58
35883704--35884012	63	4.9	63	86	2	397	45	28	0	25	1.58
35884142--35884561	21	19.1	21	79	10	414	47	27	0	25	1.52
35884252--35884315	28	2.3	29	81	13	80	48	29	0	21	1.51
35884142--35884561	198	2.1	197	87	3	612	47	27	0	25	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35884384--35884530	43	3.1	49	80	8	164	46	29	0	24	1.53
35884718--35885622	21	42.8	21	78	6	799	46	25	1	26	1.60
35885630--35885896	114	2.3	114	92	0	444	39	11	8	40	1.72
35886153--35886424	21	13.1	20	82	7	278	43	28	0	26	1.60
35886153--35886433	104	2.7	103	87	3	359	43	29	0	26	1.60
35886926--35887312	21	17.9	22	76	13	331	48	26	0	24	1.57
35886938--35887316	43	8.7	42	78	10	345	48	26	0	24	1.57
35887138--35887217	27	3.1	27	71	25	75	48	26	0	25	1.51
35887023--35887312	65	4.4	63	76	13	194	49	26	0	23	1.55
35887177--35887302	41	3.1	38	81	11	92	48	26	0	23	1.56
35890470--35890987	125	4.2	124	93	0	838	31	21	17	29	1.96
35890470--35890982	249	2.1	249	92	1	859	31	21	17	29	1.96
35897458--35897506	18	2.6	19	80	6	55	53	2	2	42	1.24
35900299--35900365	34	1.9	35	87	3	100	31	8	14	44	1.76
35902534--35902568	16	2.2	16	90	10	54	34	0	14	51	1.42
35906466--35906502	13	2.8	13	100	0	74	48	18	8	24	1.75
35908361--35908413	25	2.1	24	82	6	61	66	5	0	28	1.15
35910215--35910251	4	9.2	4	93	0	65	54	21	0	24	1.45
35928524--35928588	2	32.5	2	100	0	130	50	0	49	0	1.00
35938263--35938331	18	3.8	18	86	0	93	40	27	4	27	1.75
35944559--35944611	3	17.7	3	84	7	72	66	1	1	30	1.13
35944549--35944604	24	2.3	24	87	9	78	66	3	1	28	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35946195--35946469	44	6.3	44	87	1	365	28	22	20	28	1.99
35946725--35947252	44	12.0	44	88	1	691	28	23	19	29	1.98
35948335--35948435	42	2.4	42	98	0	193	29	30	13	25	1.94
35948538--35948580	7	6.0	7	94	5	77	13	13	0	72	1.13
35948530--35948587	14	3.9	15	88	8	84	15	13	0	70	1.17
35949481--35949536	22	2.5	23	77	11	62	14	12	0	73	1.11
35950341--35950394	25	2.2	25	86	6	74	55	5	14	24	1.61
35954104--35954168	3	20.7	3	73	14	51	64	3	4	27	1.28
35954109--35954161	19	2.7	19	88	2	70	64	3	5	26	1.33
35957280--35957324	23	2.0	23	86	0	63	33	6	4	55	1.46
35961043--35961071	14	2.1	14	100	0	58	34	13	17	34	1.89
35972663--35972725	32	2.0	31	84	9	83	63	0	6	30	1.19
35972680--35972742	20	3.2	20	82	6	74	65	0	3	31	1.09
35974186--35974217	2	16.0	2	100	0	64	50	0	0	50	1.00
35992786--35992811	13	2.0	13	100	0	52	53	0	15	30	1.42
35993284--35993634	124	2.8	124	94	1	614	30	15	21	32	1.94
35996741--35996765	10	2.5	10	100	0	50	48	0	8	44	1.32
35996749--35996874	55	2.3	55	94	0	225	44	5	11	38	1.65
35996869--35997258	29	13.5	29	86	8	555	27	1	28	43	1.62
35996869--35997258	59	6.7	58	86	7	519	27	1	28	43	1.62
35996869--35997255	88	4.5	86	85	7	527	27	1	27	43	1.62
35996916--35996966	23	2.2	23	100	0	102	29	0	25	45	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35997417--35997451	18	1.9	18	88	0	52	34	5	34	25	1.80
35998103--35998127	7	3.6	7	100	0	50	60	12	0	28	1.32
35999064--35999131	18	3.7	18	70	20	52	63	2	0	33	1.10
35999243--35999357	51	2.3	51	93	0	194	41	0	30	27	1.56
36001410--36001442	12	2.8	12	90	4	50	6	18	33	42	1.75
36005467--36005508	20	2.2	19	87	8	59	52	0	0	47	1.00
36007795--36007851	28	2.1	28	90	6	91	31	1	3	63	1.22
36007886--36007922	12	3.2	12	85	14	51	18	2	0	78	0.87
36008252--36008291	2	21.0	2	90	10	66	50	0	0	50	1.00
36008742--36008768	5	5.4	5	100	0	54	37	0	0	62	0.95
36017804--36017847	22	2.0	22	100	0	88	18	13	45	22	1.84
36020106--36021038	44	21.5	43	73	12	521	29	19	23	27	1.98
36020183--36020974	128	6.1	128	70	15	400	29	19	23	27	1.98
36020097--36020786	217	3.2	217	89	2	1005	29	19	23	27	1.98
36020400--36021038	260	2.5	260	92	2	1050	28	18	24	27	1.98
36020402--36021070	89	7.7	88	68	18	337	28	18	24	28	1.98
36020106--36020906	84	9.3	83	68	16	335	28	19	23	28	1.98
36020661--36021070	217	1.9	216	83	3	538	28	18	24	28	1.98
36022555--36022599	21	2.1	21	88	8	65	35	2	6	55	1.38
36022612--36022666	27	2.0	27	93	6	94	30	1	3	63	1.22
36022612--36022660	13	3.5	15	70	13	50	30	2	4	63	1.24
36022604--36022669	27	2.3	29	82	15	93	30	3	3	63	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36023041--36023075	15	2.3	15	90	0	52	22	2	11	62	1.41
36023049--36023080	15	2.1	15	94	0	55	21	6	15	56	1.62
36024246--36024470	98	2.3	98	87	1	344	28	28	15	28	1.96
36024246--36024500	98	2.6	98	84	2	298	28	28	14	29	1.95
36033771--36033796	2	13.0	2	100	0	52	50	0	0	50	1.00
36035248--36035294	21	2.2	21	84	3	58	68	0	2	29	1.02
36035233--36035294	22	2.9	21	78	4	70	62	0	1	35	1.05
36035933--36035965	17	2.1	16	88	11	50	66	0	0	33	0.92
36035990--36036021	10	3.1	10	95	4	55	59	0	0	40	0.97
36037286--36037324	16	2.4	16	100	0	78	41	7	23	28	1.82
36040842--36040872	15	2.1	15	100	0	62	87	0	12	0	0.55
36043825--36043849	6	4.2	6	100	0	50	0	16	0	84	0.63
36044153--36044247	48	2.0	48	91	0	154	43	22	15	18	1.88
36044545--36044616	36	2.0	36	91	2	119	31	27	8	31	1.86
36049395--36049489	48	2.0	48	91	0	154	43	22	15	18	1.88
36049786--36049857	36	2.0	36	91	2	119	31	27	8	31	1.86
36050193--36050227	11	3.0	11	84	15	52	8	25	2	62	1.38
36056450--36056894	51	8.8	51	75	6	370	30	25	14	30	1.95
36056450--36056894	102	4.4	102	89	1	610	30	25	14	30	1.95
36058789--36058817	12	2.4	12	100	0	58	34	6	0	58	1.25
36063710--36063743	17	1.9	18	88	5	52	20	2	2	73	1.09
36067237--36067284	18	2.7	18	76	0	60	14	43	4	37	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36068521--36068551	14	2.2	14	100	0	62	0	6	32	61	1.21
36070719--36070795	14	5.0	15	72	20	61	41	18	9	31	1.81
36070928--36070975	18	2.7	18	78	9	62	41	2	16	39	1.60
36075612--36075652	6	6.7	6	91	2	64	46	14	19	19	1.84
36075632--36075736	45	2.3	45	85	6	142	41	16	18	23	1.89
36076670--36076739	35	2.0	34	86	8	97	50	4	0	45	1.21
36082302--36082362	24	2.5	23	80	15	61	49	4	0	45	1.23
36082310--36082389	35	2.3	35	85	8	103	50	5	0	45	1.23
36084356--36084400	18	2.5	19	86	10	60	20	4	2	73	1.11
36084416--36084458	21	2.0	22	81	4	52	20	11	4	62	1.46

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