genome.fa.s4.2.7.7.80.10.50.1000.76.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: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62178258

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   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   

This is table  76  of  198  ( 23681 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)
23749268--23749309	21	2.0	21	85	0	57	45	0	14	40	1.45
23749637--23749705	23	2.9	23	70	19	61	17	24	20	37	1.93
23749875--23749967	25	3.8	24	75	13	73	20	24	19	35	1.96
23757510--23757560	27	2.0	25	84	7	66	23	23	17	35	1.95
23757600--23757654	24	2.3	24	84	6	67	16	25	20	38	1.92
23757619--23757703	25	3.4	24	79	12	82	18	25	20	35	1.95
23763283--23763329	20	2.3	20	81	0	58	40	23	23	12	1.89
23764365--23764423	20	3.0	19	79	16	66	55	3	3	37	1.33
23764383--23764465	37	2.3	36	80	12	98	55	3	2	38	1.30
23764859--23764898	19	2.1	19	85	0	53	35	2	7	55	1.42
23768535--23768713	86	2.1	87	91	2	288	33	18	8	39	1.82
23774837--23774899	33	1.9	33	83	6	83	60	1	26	11	1.40
23790318--23790354	14	2.6	14	91	4	56	35	0	2	62	1.10
23790325--23790365	19	2.2	18	86	4	55	36	2	4	56	1.34
23792749--23792876	50	2.6	50	80	0	148	31	13	14	41	1.84
23793890--23793939	22	2.3	22	86	6	66	62	4	14	20	1.47
23794880--23794946	21	3.3	22	74	12	63	73	0	17	8	1.09
23794943--23794983	15	2.5	17	80	11	59	53	0	31	14	1.41
23800388--23800421	16	2.1	16	100	0	68	32	11	11	44	1.77
23803647--23803813	76	2.2	75	91	6	268	10	29	35	23	1.88
23807799--23807839	21	2.0	22	85	9	59	34	9	0	56	1.32
23807811--23807871	25	2.4	25	78	10	63	37	3	1	57	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23815418--23815477	27	2.2	27	78	0	66	30	21	30	18	1.97
23827465--23827512	21	2.3	21	100	0	96	54	4	18	22	1.61
23830114--23830147	14	2.5	14	95	4	61	50	35	0	14	1.44
23841284--23841341	27	2.1	27	90	0	89	20	27	10	41	1.85
23841424--23841512	27	3.3	28	78	13	98	25	25	11	37	1.89
23846779--23846979	102	2.0	102	89	0	312	20	19	27	31	1.97
23853831--23853967	42	3.5	42	75	17	175	22	17	26	33	1.96
23853873--23854107	33	6.8	33	68	24	126	21	20	25	32	1.97
23853795--23853969	75	2.3	76	96	1	316	20	18	27	33	1.96
23853945--23853996	27	1.9	27	96	0	95	17	25	30	26	1.97
23853870--23854070	102	2.0	101	93	1	339	21	19	26	32	1.97
23855645--23855829	51	3.7	49	81	5	201	24	17	27	29	1.98
23855753--23855833	26	3.2	26	61	22	62	24	14	28	32	1.95
23860288--23860383	40	2.4	40	91	0	147	34	20	25	19	1.96
23860361--23860493	35	3.7	35	70	16	117	30	18	24	26	1.98
23860326--23860649	75	4.3	75	87	0	423	32	21	23	23	1.98
23860312--23860533	40	5.8	39	68	18	110	31	18	23	26	1.97
23863998--23864039	22	1.9	22	85	0	57	21	35	4	38	1.75
23864099--23864123	12	2.1	12	100	0	50	8	16	8	68	1.38
23868274--23868318	23	2.0	23	100	0	90	42	8	17	31	1.80
23868640--23868873	50	4.7	49	81	3	261	22	29	21	26	1.99
23868640--23868873	100	2.3	100	85	0	288	22	29	21	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23870104--23870140	18	2.0	20	84	10	51	8	32	13	45	1.73
23876149--23876331	50	3.6	50	85	0	231	22	29	22	25	1.99
23881157--23881203	22	2.2	21	88	3	67	46	0	2	51	1.13
23889386--23889430	19	2.4	19	78	14	56	15	8	2	73	1.18
23889534--23889567	11	2.8	12	86	13	52	38	0	0	61	0.96
23889521--23889591	32	2.1	34	84	7	110	39	0	1	59	1.06
23889545--23889621	22	3.6	21	83	10	75	44	0	1	54	1.08
23889553--23889621	22	3.1	21	84	10	84	44	0	1	53	1.09
23889671--23889729	22	2.7	23	75	19	72	33	0	3	62	1.12
23890006--23890063	20	3.0	19	77	10	55	55	0	5	39	1.22
23890518--23890573	20	2.8	20	70	20	53	35	8	3	51	1.51
23890509--23890593	40	2.1	41	89	6	129	34	8	4	52	1.52
23890517--23890604	40	2.2	40	82	8	99	35	7	4	52	1.51
23890653--23890803	71	2.1	71	88	2	232	50	3	3	42	1.37
23890786--23890814	14	2.0	15	93	6	51	55	0	0	44	0.99
23892991--23893095	30	3.5	30	82	0	93	28	26	17	27	1.97
23898700--23898729	15	2.0	15	93	0	51	36	20	0	43	1.52
23906519--23906619	47	2.1	48	92	1	168	42	15	19	21	1.89
23907966--23908059	46	2.0	46	97	0	179	23	20	22	34	1.97
23913726--23913765	18	2.2	18	100	0	80	10	0	10	80	0.92
23913797--23913826	15	1.9	16	93	6	53	30	0	0	70	0.88
23915534--23915568	16	2.2	16	89	0	52	25	14	14	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23918366--23918407	16	2.6	16	85	7	59	80	0	16	2	0.81
23918454--23918598	56	2.7	54	82	7	161	42	17	26	13	1.87
23919718--23919929	89	2.4	89	87	3	284	28	21	23	26	1.99
23923745--23923795	15	3.5	15	83	2	68	1	19	1	76	0.98
23925872--23925910	14	3.0	13	85	10	53	20	12	2	64	1.40
23925872--23925911	13	3.0	14	89	7	57	20	12	2	65	1.38
23929579--23929650	21	3.3	21	72	16	56	68	1	23	6	1.22
23931530--23931767	89	2.7	89	81	5	268	28	23	21	26	1.99
23931943--23932217	51	5.6	50	73	13	212	29	20	24	25	1.99
23931943--23932225	97	2.9	96	84	3	381	28	20	24	25	1.99
23932228--23932320	44	2.1	44	87	0	132	31	19	22	26	1.98
23933842--23933918	30	2.6	30	78	0	91	23	27	12	36	1.91
23933901--23933975	30	2.5	30	88	0	114	20	30	12	37	1.89
23933873--23934093	60	3.7	59	71	10	187	24	28	13	33	1.93
23933873--23934093	90	2.5	90	80	3	241	24	28	13	33	1.93
23933961--23934035	30	2.5	30	84	4	89	30	29	9	30	1.88
23942763--23943196	214	2.0	214	98	0	850	30	23	15	30	1.95
23948183--23948375	50	3.7	51	81	4	183	26	21	27	23	1.99
23948239--23948424	50	3.8	49	75	9	146	27	23	26	23	2.00
23948626--23948674	20	2.5	20	81	15	66	57	6	24	12	1.58
23952496--23952533	19	2.0	20	84	5	51	42	2	13	42	1.57
23956473--23956515	16	2.6	16	81	3	50	60	6	2	30	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23967703--23967870	62	2.7	62	82	1	203	24	24	24	26	2.00
23968002--23968037	10	3.7	10	92	3	56	33	22	13	30	1.93
23969137--23969180	21	2.1	21	95	0	79	29	36	2	31	1.70
23977357--23977452	37	2.6	36	82	11	97	22	7	4	65	1.35
23977359--23977452	36	2.5	37	79	11	102	21	7	4	67	1.33
23978021--23978103	42	2.0	42	95	0	148	33	16	9	39	1.82
23980337--23980426	40	2.2	40	76	3	92	27	26	27	17	1.98
23980662--23981355	126	5.5	125	91	1	1036	30	16	23	29	1.96
23980714--23981355	251	2.6	251	92	2	1049	30	16	22	30	1.96
23982649--23982692	18	2.4	18	84	0	61	47	9	27	15	1.76
23984452--23984477	11	2.4	11	100	0	52	57	0	0	42	0.98
23984474--23984573	51	2.0	51	90	4	157	46	3	25	26	1.67
23984533--23984601	22	3.0	22	77	14	68	43	2	30	23	1.68
23984541--23984597	11	5.0	11	84	4	69	43	1	31	22	1.64
23990688--23990717	15	2.0	15	93	0	51	56	0	0	43	0.99
23993094--23993207	53	2.1	54	93	1	194	32	9	15	42	1.80
23993113--23993204	19	5.1	19	72	15	86	32	8	14	44	1.75
23993402--23993439	20	1.9	19	94	5	67	47	13	18	21	1.82
24001677--24001710	16	2.1	16	88	0	50	47	8	2	41	1.50
24003247--24003300	20	2.7	20	82	0	63	24	27	12	35	1.92
24004094--24004156	31	2.0	31	100	0	126	28	12	15	42	1.84
24004748--24004782	17	2.0	18	88	5	54	25	20	20	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24005447--24005711	132	2.0	132	95	0	476	31	16	15	36	1.91
24008360--24008572	28	7.7	28	83	7	215	37	11	23	26	1.90
24008360--24008600	56	4.4	56	81	6	237	36	12	24	26	1.92
24010624--24010670	20	2.3	20	85	0	58	25	29	19	25	1.98
24013919--24013975	29	2.0	29	100	0	114	22	3	28	45	1.69
24015163--24015191	14	2.1	14	100	0	58	44	13	6	34	1.71
24028418--24028490	37	2.0	37	81	7	87	54	23	6	15	1.64
24046625--24047392	384	2.0	384	96	0	1421	24	21	17	37	1.94
24052112--24052153	18	2.3	18	80	8	50	40	4	9	45	1.58
24058624--24058865	50	4.7	50	78	8	195	28	20	26	23	1.99

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   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198