genome.fa.s3.2.7.7.80.10.50.1000.78.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  78  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)
23660559--23660591	14	2.3	15	94	5	59	30	0	33	36	1.58
23660825--23660917	7	12.9	7	73	10	53	17	2	46	34	1.60
23660858--23660915	8	7.5	8	78	7	66	18	0	43	37	1.51
23660825--23660917	14	6.4	14	77	10	80	17	2	46	34	1.60
23661236--23661348	58	1.9	58	94	3	201	52	0	4	43	1.21
23661277--23661344	35	1.9	35	85	5	93	52	0	4	42	1.21
23663335--23663573	9	27.8	9	69	11	99	50	17	1	30	1.56
23663320--23663398	37	2.1	37	100	0	158	51	15	2	30	1.56
23663415--23663564	16	9.0	16	79	12	83	47	19	1	32	1.58
23663411--23663573	25	6.4	25	89	1	227	47	19	1	31	1.58
23663389--23663573	50	3.7	49	82	5	176	49	19	1	30	1.56
23669181--23669220	21	1.9	21	84	0	53	40	20	37	2	1.66
23669685--23669808	42	2.9	41	80	10	142	24	23	22	29	1.99
23669751--23669877	67	1.9	68	90	4	204	18	22	22	37	1.95
23669812--23669927	42	2.7	42	85	7	162	24	18	19	37	1.94
23669710--23669918	109	1.9	110	85	4	289	22	21	21	35	1.96
23674255--23674295	9	5.0	9	91	8	54	43	0	0	56	0.99
23674254--23674299	5	9.8	5	78	21	55	41	0	0	58	0.98
23675312--23675342	10	3.1	10	95	0	53	48	9	12	29	1.73
23678519--23678579	21	2.9	21	76	11	61	29	21	31	18	1.96
23685240--23685513	137	2.0	137	86	2	381	17	21	29	31	1.96
23688910--23688992	41	2.0	41	84	9	107	16	28	32	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23693734--23693774	19	2.2	19	100	0	82	34	14	9	41	1.79
23710534--23710583	23	2.1	23	85	3	64	46	16	16	22	1.84
23713276--23713407	30	4.3	29	71	16	92	34	2	20	42	1.65
23713276--23713407	32	4.3	29	73	17	99	34	2	20	42	1.65
23715956--23716000	13	3.4	14	79	17	51	35	2	8	53	1.45
23724427--23724452	2	13.0	2	100	0	52	50	0	0	50	1.00
23726406--23726456	23	2.2	23	92	0	84	27	9	21	41	1.84
23730132--23730257	43	3.0	41	80	6	119	29	13	26	30	1.94
23737304--23737524	23	9.6	22	72	10	129	44	31	4	19	1.70
23737367--23737527	48	3.4	48	73	9	152	46	31	3	18	1.65
23743208--23743416	48	4.5	47	77	13	191	44	33	3	17	1.66
23743208--23743418	93	2.3	93	87	1	298	44	34	3	17	1.66
23743213--23743416	23	8.8	23	71	10	121	45	33	3	17	1.67
23744515--23744647	67	2.0	67	96	0	248	27	33	18	21	1.96
23744712--23744829	57	2.1	57	88	3	175	25	26	18	29	1.98
23746377--23746401	2	12.5	2	100	0	50	52	0	0	48	1.00
23748404--23748441	18	2.1	18	95	0	67	26	18	0	55	1.43
23753948--23753993	24	2.0	24	82	4	58	54	2	4	39	1.32
23755576--23756390	40	20.4	40	84	1	990	16	29	18	35	1.93
23755576--23756390	239	3.4	240	94	0	1391	16	29	18	35	1.93
23755711--23756384	20	33.8	20	65	10	150	15	29	18	35	1.92
23757238--23757264	12	2.2	12	100	0	54	29	33	22	14	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23762548--23762738	40	4.8	40	79	1	213	20	29	14	36	1.92
23762544--23762738	80	2.4	80	84	3	250	20	29	14	35	1.92
23762679--23762726	20	2.4	20	80	13	55	16	31	16	35	1.92
23763791--23763830	17	2.4	17	86	0	53	15	22	30	32	1.94
23763813--23763906	30	3.1	30	84	0	134	17	25	28	28	1.97
23766106--23766159	24	2.1	25	86	13	74	31	5	9	53	1.56
23766178--23766249	35	2.1	35	94	0	126	45	12	4	37	1.61
23767234--23767306	36	2.0	36	83	0	92	16	10	36	35	1.84
23768105--23768145	20	2.0	20	90	0	64	51	0	29	19	1.47
23781231--23781321	45	2.0	45	100	0	182	41	6	10	40	1.66
23781947--23782003	28	2.0	29	82	3	71	29	3	21	45	1.68
23804553--23804782	102	2.3	102	95	0	406	29	28	20	21	1.98
23811506--23811586	27	3.0	27	88	1	117	27	28	20	23	1.99
23816091--23816125	18	2.0	18	88	5	54	51	5	11	31	1.61
23818288--23818345	16	3.8	16	76	17	61	22	39	1	36	1.64
23818264--23818345	29	2.8	29	84	3	92	20	41	2	35	1.66
23825612--23825712	50	2.0	50	94	0	175	26	18	10	43	1.83
23827681--23827726	24	2.0	24	82	4	58	23	10	2	63	1.38
23841174--23841220	23	2.0	23	91	0	76	44	14	21	19	1.86
23853258--23853307	25	2.0	25	88	7	75	42	2	2	54	1.23
23854381--23854418	16	2.4	16	100	0	76	21	21	10	47	1.80
23854978--23855256	50	5.5	50	81	5	285	23	30	19	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23854978--23855212	100	2.4	100	86	2	314	22	31	20	26	1.98
23857142--23857168	11	2.5	11	100	0	54	22	7	0	70	1.12
23859679--23859721	19	2.2	20	84	12	63	32	18	0	48	1.48
23859849--23860045	51	3.9	50	75	8	175	32	29	15	22	1.94
23862860--23862927	29	2.4	27	86	13	102	60	7	0	32	1.24
23862867--23862931	29	2.3	29	97	2	123	63	6	0	30	1.19
23863961--23864178	111	2.0	111	99	0	427	32	21	17	27	1.96
23867808--23867913	54	2.0	54	100	0	212	51	5	18	23	1.67
23869364--23869403	22	1.9	22	90	10	66	55	15	10	20	1.68
23877984--23878029	21	2.1	22	88	4	67	47	8	0	43	1.34
23878203--23878246	23	1.9	22	82	17	54	38	22	0	38	1.55
23878322--23878503	45	4.1	45	92	1	287	31	26	18	23	1.97
23897615--23897656	15	2.7	16	85	14	61	0	28	0	71	0.86
23897613--23897654	21	2.0	21	86	13	61	0	26	0	73	0.83
23906079--23906419	27	12.6	27	84	3	418	25	17	19	37	1.93
23911002--23911060	31	1.9	31	89	0	91	45	13	8	32	1.74
23913164--23913188	6	4.2	6	100	0	50	0	0	16	84	0.63
23913233--23913287	10	6.2	9	80	16	62	52	18	3	25	1.61
23913239--23913270	15	2.1	16	94	5	57	59	12	3	25	1.48
23913233--23913280	25	1.9	25	91	8	80	56	16	2	25	1.51
23922555--23922600	22	2.1	22	100	0	92	19	30	13	36	1.90
23926253--23926310	28	2.1	28	80	6	64	25	15	18	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23935241--23935287	25	1.9	24	83	12	60	14	6	10	68	1.38
23947510--23947692	51	3.7	49	81	5	165	22	28	21	26	1.99
23947510--23947807	50	5.8	50	82	4	294	22	28	22	26	1.99
23947559--23947807	101	2.4	103	83	4	297	22	29	22	25	1.99
23957652--23958098	44	10.1	44	75	6	321	32	16	21	29	1.96
23957647--23958076	178	2.4	178	84	2	542	32	17	21	28	1.96
23958247--23958365	44	2.8	44	81	2	143	31	17	22	28	1.97
23958109--23958538	225	1.9	221	82	4	540	32	18	20	29	1.96
23958476--23958579	44	2.4	44	81	3	111	28	19	18	33	1.95
23958677--23958948	89	3.1	89	86	3	343	27	22	24	25	2.00
23958942--23959353	131	3.1	131	84	1	529	28	18	26	26	1.98
23958940--23959331	132	3.0	131	85	2	527	28	19	26	26	1.99
23959768--23959819	19	2.9	17	83	10	61	40	7	19	32	1.80
23960734--23960801	35	1.9	35	96	0	127	25	5	4	64	1.35
23962221--23962324	9	11.4	9	83	6	129	23	9	26	40	1.85
23962484--23962508	12	2.1	12	100	0	50	16	24	36	24	1.94
23966422--23966459	14	2.7	14	91	0	58	36	7	18	36	1.80
23966442--23966481	20	2.0	20	100	0	80	35	10	15	40	1.80
23966429--23966492	34	1.9	33	87	9	94	35	9	15	39	1.80
23966656--23966691	18	2.0	18	88	0	54	61	8	0	30	1.26
23969055--23969101	21	2.2	20	82	10	58	29	8	51	10	1.66
23970037--23970138	22	4.6	22	76	2	82	44	23	22	9	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23972896--23973134	84	2.8	84	86	2	338	44	12	12	30	1.79
23975605--23975645	12	3.4	12	86	0	55	75	12	0	12	1.05
23975877--23975908	10	3.4	10	87	12	50	59	0	0	40	0.97
23976027--23976098	24	3.0	24	81	4	83	63	4	0	31	1.13
23998591--23998669	39	2.0	39	97	0	149	48	16	5	30	1.68
24004777--24004884	53	2.0	53	83	3	137	26	12	25	34	1.93
24007089--24007164	37	2.1	37	92	0	125	43	11	18	26	1.84
24012838--24013176	154	2.2	152	87	6	486	49	8	11	30	1.68
24026711--24026753	18	2.3	19	88	4	61	53	4	0	41	1.21
24027323--24027375	19	2.9	18	84	13	65	52	7	3	35	1.48

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