genome.fa.s3.2.7.7.80.10.50.1000.77.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  77  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)
23272042--23272305	32	8.3	32	74	9	157	21	18	21	39	1.93
23272115--23272279	64	2.6	64	82	3	181	20	17	22	40	1.92
23272104--23272285	96	1.9	96	82	2	231	21	18	21	39	1.93
23283338--23283486	41	3.6	41	85	3	210	35	16	27	20	1.94
23285553--23285594	22	1.9	22	95	0	75	26	23	23	26	2.00
23288371--23288666	103	2.9	102	92	3	486	29	30	20	19	1.97
23288371--23288667	104	2.9	103	91	4	490	29	29	20	19	1.97
23288612--23288663	27	1.9	27	96	0	95	28	32	25	13	1.93
23288992--23289055	30	2.2	29	81	10	76	29	28	6	35	1.82
23288999--23289055	30	1.9	30	85	3	80	29	24	7	38	1.82
23296915--23296949	13	2.7	13	100	0	70	0	31	40	28	1.57
23302334--23302362	14	2.1	14	100	0	58	58	20	0	20	1.39
23303787--23304477	277	2.5	273	89	3	1012	45	5	8	40	1.58
23303787--23304477	136	5.0	137	89	2	996	45	5	8	40	1.58
23305720--23305777	28	2.2	26	85	11	82	53	1	0	44	1.10
23305715--23305826	33	3.5	33	76	11	110	50	2	3	43	1.33
23310392--23310462	21	3.4	21	78	20	78	59	1	1	38	1.15
23311706--23311740	16	2.2	16	90	10	54	31	0	2	65	1.07
23312771--23312804	16	2.1	16	94	0	59	29	11	14	44	1.81
23314930--23315024	50	1.9	49	86	2	136	24	25	7	43	1.80
23315314--23315378	30	2.2	30	91	0	103	16	40	26	16	1.90
23319235--23319281	25	1.9	24	90	0	67	29	21	23	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23322142--23322168	4	6.8	4	100	0	54	0	22	0	77	0.76
23323303--23323575	136	2.0	136	98	0	528	37	10	16	34	1.84
23325897--23325977	26	3.1	26	87	0	108	19	16	23	40	1.90
23334605--23334635	16	1.9	16	93	0	53	12	9	6	70	1.31
23335736--23335773	20	1.9	20	89	10	60	34	2	18	44	1.64
23336139--23336207	16	4.2	16	71	15	61	40	2	1	55	1.24
23345445--23345490	14	3.4	14	79	8	51	58	2	4	34	1.30
23352179--23352355	50	3.5	49	74	19	152	26	18	26	28	1.98
23352174--23352355	100	1.8	100	85	3	258	26	18	26	28	1.98
23358890--23358916	13	2.1	13	100	0	54	55	0	7	37	1.28
23365550--23365597	20	2.4	20	75	0	51	45	16	25	12	1.82
23370406--23370516	47	2.4	47	87	3	161	17	21	27	34	1.95
23377998--23378029	15	2.1	15	94	0	55	21	3	6	68	1.26
23389406--23389453	23	2.1	23	100	0	96	37	20	4	37	1.72
23389924--23390015	25	3.6	25	83	5	105	27	26	21	25	2.00
23391091--23391129	20	2.0	20	85	10	53	15	5	28	51	1.64
23392264--23392407	75	1.9	75	91	0	234	44	9	15	31	1.77
23392482--23392516	17	2.1	17	89	10	54	40	0	0	60	0.97
23392605--23392693	44	2.0	44	91	4	144	40	10	6	42	1.65
23413121--23413162	21	2.0	22	85	4	59	50	11	0	38	1.40
23416008--23416054	22	2.2	21	85	11	60	17	6	44	31	1.73
23417151--23417252	28	3.7	27	80	8	107	28	20	12	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23423306--23423345	16	2.6	15	84	4	53	50	0	2	47	1.14
23429377--23429501	10	13.1	9	68	18	58	30	4	4	60	1.38
23429462--23429514	18	2.9	18	83	8	54	32	5	3	58	1.39
23431297--23431482	93	2.0	93	100	0	372	17	4	27	50	1.64
23435289--23435328	18	2.2	18	86	4	53	12	27	0	60	1.33
23435397--23435446	18	2.7	18	81	9	57	8	20	2	70	1.23
23435397--23435463	18	3.6	18	76	13	55	7	20	2	68	1.28
23436465--23436518	13	4.0	14	76	13	60	20	9	1	68	1.27
23436558--23436604	12	4.0	12	88	2	69	10	6	12	70	1.33
23442363--23442403	3	13.7	3	100	0	82	31	0	0	68	0.90
23444009--23444163	43	3.6	42	86	4	202	26	16	25	32	1.96
23445093--23445183	45	2.0	45	100	0	182	47	6	15	30	1.71
23445571--23445606	13	2.8	13	100	0	72	19	13	25	41	1.88
23446619--23446669	24	2.2	24	82	3	59	41	7	0	50	1.31
23449367--23450065	353	2.0	353	98	0	1344	38	12	26	22	1.89
23470619--23470676	27	2.2	26	84	9	73	32	17	25	24	1.96
23477883--23477912	12	2.5	12	94	0	51	30	40	23	6	1.80
23478236--23478261	5	5.2	5	100	0	52	0	0	38	61	0.96
23493303--23493587	27	10.6	27	84	0	356	15	20	24	40	1.91
23494209--23494250	12	3.5	12	76	23	52	21	45	0	33	1.52
23496640--23496712	27	2.7	27	89	0	110	26	16	23	34	1.95
23496873--23496900	14	2.0	14	100	0	56	35	7	14	42	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23511064--23511117	27	2.0	27	92	0	90	61	18	7	12	1.54
23513222--23513261	21	1.9	22	85	10	57	42	2	7	47	1.45
23520443--23520485	18	2.4	18	88	0	59	39	41	2	16	1.61
23520593--23520655	9	7.0	9	85	0	90	22	11	25	41	1.86
23521042--23521117	38	2.0	38	92	2	127	28	18	14	38	1.90
23522949--23523346	132	3.0	132	95	0	706	28	19	21	30	1.97
23524047--23524071	12	2.1	12	100	0	50	48	0	16	36	1.46
23525041--23525079	18	2.2	18	95	0	69	10	51	20	17	1.74
23530104--23530272	50	3.4	50	89	1	241	28	20	29	21	1.98
23530110--23530338	50	4.6	50	81	4	198	28	20	27	23	1.99
23530103--23530338	100	2.4	99	81	7	255	29	19	28	22	1.98
23537687--23537872	50	3.7	50	79	2	187	27	23	27	20	1.99
23545156--23545183	9	3.1	9	100	0	56	53	25	10	10	1.67
23551529--23551590	21	2.7	23	72	25	58	30	17	8	43	1.78
23555787--23555876	26	3.4	26	68	10	67	35	13	7	43	1.73
23560293--23560364	24	3.0	24	93	0	117	26	19	26	27	1.99
23561005--23561044	20	2.0	20	100	0	80	30	10	15	45	1.78
23567419--23567510	40	2.3	40	86	3	123	19	23	16	40	1.91
23567421--23567534	40	2.8	39	80	7	122	21	24	16	37	1.93
23567515--23567609	40	2.4	40	78	3	93	15	29	22	32	1.95
23567572--23567637	20	3.3	20	75	8	62	10	33	25	30	1.90
23582353--23582451	27	3.6	27	80	10	103	34	16	22	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23583910--23583949	18	2.2	18	95	0	71	30	22	7	40	1.81
23585195--23585234	21	1.9	21	84	0	53	35	2	20	42	1.65
23587660--23587708	21	2.3	21	100	0	98	36	14	26	22	1.92
23602695--23603251	277	2.0	279	96	0	1028	32	19	15	32	1.93
23606526--23606576	20	2.5	20	87	0	75	54	0	25	19	1.44
23606822--23606868	17	2.8	17	87	9	62	21	19	34	25	1.96
23612545--23612933	130	3.0	131	83	5	473	25	24	19	30	1.98
23612927--23613203	89	3.1	87	85	3	367	25	24	22	27	2.00
23612927--23613245	89	3.6	88	82	7	326	25	24	22	27	2.00
23613189--23614602	44	31.8	44	71	8	530	27	21	19	31	1.97
23613360--23613850	225	2.2	224	83	4	605	28	20	18	32	1.96
23613759--23614468	222	3.2	222	92	1	1102	26	21	19	32	1.97
23614088--23614598	177	2.9	176	84	3	623	27	22	19	31	1.98
23614879--23614934	24	2.3	24	93	0	103	28	25	12	33	1.92
23624656--23624691	18	2.0	18	100	0	72	33	0	0	66	0.92
23624788--23624939	15	10.1	15	66	20	61	44	0	4	50	1.27
23624624--23624950	119	2.7	119	93	2	548	43	1	5	50	1.32
23624889--23624948	16	3.8	16	76	12	54	45	0	1	53	1.10
23625074--23625182	45	2.6	43	84	8	136	31	27	6	34	1.82
23625162--23625194	16	2.1	16	100	0	66	21	36	6	36	1.78
23627158--23627348	51	3.8	50	79	4	222	32	27	15	24	1.95
23627153--23627344	102	1.9	101	86	3	278	31	27	16	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23627158--23627344	101	1.8	101	87	3	250	32	27	16	24	1.96
23634634--23634697	30	2.2	30	88	2	94	23	42	0	34	1.55
23638741--23639389	323	2.0	323	97	0	1226	30	29	16	23	1.96
23642583--23642644	26	2.4	26	77	0	70	41	12	8	37	1.73
23654656--23654878	48	4.8	48	77	9	214	43	32	4	18	1.72
23654656--23654870	93	2.3	93	86	2	299	43	33	5	18	1.72
23654829--23654873	23	2.0	23	81	0	54	44	35	4	15	1.67
23659887--23660154	41	6.7	40	78	8	260	20	19	30	29	1.97
23659974--23660022	17	2.9	17	84	0	71	16	12	28	42	1.84
23659892--23660106	116	1.9	116	86	2	306	20	19	30	30	1.97

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