genome.fa.s8.2.7.7.80.10.50.1000.134.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  134  of  190  ( 22705 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)
39618652--39618711	30	2.0	31	83	9	79	41	0	38	20	1.52
39618875--39618927	23	2.3	23	100	0	106	35	0	35	28	1.58
39618948--39618984	18	2.1	18	94	0	65	29	5	13	51	1.63
39619037--39619067	9	3.4	9	90	0	53	38	22	12	25	1.90
39626111--39626245	48	2.8	48	92	2	218	42	16	15	25	1.87
39626140--39626223	25	3.4	25	70	6	82	42	15	15	26	1.86
39626931--39627012	43	1.9	43	84	0	110	28	28	17	26	1.97
39627882--39627932	8	5.6	9	76	19	52	31	11	0	56	1.35
39633672--39633872	48	4.2	48	87	2	271	40	14	16	27	1.88
39633719--39633853	25	5.5	25	64	7	89	42	14	15	28	1.86
39634476--39634629	43	3.7	42	73	12	120	27	28	16	27	1.97
39639816--39639868	20	2.5	22	84	9	65	3	16	3	75	1.10
39640506--39640587	42	2.0	42	87	0	119	23	23	36	17	1.94
39641101--39641165	22	2.8	24	77	11	73	32	13	15	38	1.87
39642741--39642781	16	2.5	17	81	14	50	39	0	24	36	1.56
39646364--39646394	12	2.6	12	94	0	53	35	16	38	9	1.81
39647785--39647818	12	2.8	12	90	4	50	14	23	0	61	1.33
39650616--39650673	30	1.9	30	89	0	89	41	3	24	31	1.71
39650886--39650916	13	2.4	13	94	0	53	32	0	12	54	1.38
39651010--39651160	56	2.8	53	83	7	189	28	23	25	22	1.99
39662438--39662470	6	5.5	6	100	0	66	0	15	0	84	0.61
39665858--39665971	41	2.8	41	89	1	165	24	27	21	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39673316--39673429	41	2.8	41	89	1	165	24	27	21	26	2.00
39675642--39675685	19	2.2	20	84	4	63	34	4	4	56	1.40
39676886--39676932	23	2.0	23	100	0	94	38	31	17	12	1.87
39677639--39677873	119	2.0	119	94	1	418	39	10	18	31	1.84
39681693--39681745	25	2.1	25	82	0	61	18	26	22	32	1.97
39681701--39681757	25	2.3	25	78	0	60	19	24	24	31	1.98
39681825--39681883	25	2.5	23	76	10	64	22	25	16	35	1.95
39685946--39685978	14	2.4	14	90	5	50	39	3	0	57	1.14
39692583--39692623	11	3.8	11	87	6	66	70	0	29	0	0.87
39692646--39692684	19	2.0	21	85	10	55	23	0	10	66	1.22
39692730--39692803	3	24.3	3	91	2	121	32	1	2	63	1.17
39692802--39692845	3	14.7	3	95	0	79	0	2	31	65	1.05
39693626--39693670	18	2.5	18	81	0	63	31	6	46	15	1.72
39698321--39698362	22	1.9	22	95	0	75	47	0	9	42	1.36
39699151--39699322	4	42.8	4	71	19	101	0	30	0	69	0.88
39699122--39699241	39	3.4	33	74	20	91	0	30	0	70	0.88
39699147--39699249	26	4.6	23	76	16	74	0	28	0	71	0.86
39699175--39699288	49	2.4	48	83	5	140	0	29	0	70	0.88
39699144--39699287	44	3.4	44	79	16	185	0	29	0	70	0.87
39699203--39699321	48	2.5	45	79	12	123	0	31	0	68	0.89
39699366--39699417	27	1.9	27	88	0	77	17	30	26	25	1.97
39699471--39699518	24	2.0	24	100	0	96	54	0	8	37	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39699471--39699537	24	2.6	24	88	9	80	49	1	10	38	1.46
39701219--39701264	20	2.3	20	88	0	65	8	15	15	60	1.57
39701476--39701532	21	2.9	19	87	10	87	35	10	21	33	1.87
39708523--39709282	44	17.3	44	65	6	311	25	23	26	24	2.00
39708432--39709332	88	10.2	88	89	0	1280	25	23	26	24	2.00
39709333--39709674	44	7.8	44	81	5	379	30	14	24	30	1.94
39709336--39709702	89	4.2	89	80	8	444	31	14	24	29	1.94
39713744--39713906	43	3.8	43	86	6	222	19	19	28	32	1.96
39716060--39716180	63	1.9	63	87	0	179	39	15	15	28	1.89
39717901--39718017	51	2.3	51	91	2	191	29	25	11	33	1.90
39725187--39725230	18	2.4	18	85	7	54	38	4	20	36	1.73
39725278--39725484	40	5.2	38	71	14	136	40	4	14	41	1.66
39725422--39725477	20	2.8	20	86	0	76	42	7	10	39	1.67
39725560--39725715	20	7.8	20	78	0	141	39	3	15	42	1.63
39725538--39725716	60	3.0	58	81	6	169	39	3	15	41	1.65
39725586--39725913	20	16.4	20	71	6	171	36	6	14	41	1.73
39725977--39726058	20	4.1	20	75	6	67	37	6	18	37	1.76
39726153--39726269	20	5.8	20	79	5	85	38	5	14	41	1.68
39726096--39726274	60	3.0	60	77	6	166	41	5	14	39	1.68
39726153--39726248	40	2.4	40	82	0	111	38	5	14	41	1.68
39732564--39732856	46	6.5	46	89	1	441	34	14	22	29	1.94
39732564--39732856	91	3.2	91	90	1	455	34	14	22	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39732564--39732856	137	2.2	137	90	2	457	34	14	22	29	1.94
39734965--39735005	17	2.4	17	100	0	82	46	9	4	39	1.58
39735478--39735693	91	2.3	91	84	3	279	28	16	24	30	1.97
39735782--39735907	38	3.3	38	77	5	128	33	15	19	32	1.92
39739456--39739495	7	5.6	7	88	5	62	17	0	0	82	0.67
39739973--39740030	29	2.0	28	86	3	80	51	12	0	36	1.39
39743725--39743828	52	2.0	52	100	0	208	32	25	15	26	1.95
39744146--39744209	31	2.1	30	85	8	85	17	7	10	64	1.48
39746729--39746769	9	4.3	10	84	12	59	39	0	2	58	1.11
39746729--39746769	19	2.2	19	90	0	64	39	0	2	58	1.11
39748998--39749044	21	2.2	21	81	7	60	57	8	10	23	1.60
39758782--39758830	24	2.0	24	96	0	89	24	4	34	36	1.75
39761155--39761221	32	2.1	33	83	8	84	32	1	0	65	1.02
39767367--39767391	7	3.6	7	100	0	50	32	40	12	16	1.84
39768770--39768806	13	2.8	13	83	0	56	18	0	0	81	0.70
39769793--39769828	2	18.0	2	100	0	72	50	0	0	50	1.00
39777002--39777057	29	1.9	29	85	0	76	35	5	10	48	1.61
39777608--39777657	26	1.9	26	83	0	64	16	46	22	16	1.84
39778735--39778780	22	2.0	23	87	4	67	32	2	6	58	1.36
39778800--39778832	17	2.0	16	94	5	57	36	3	6	54	1.41
39778876--39778906	3	10.3	3	100	0	62	32	0	0	67	0.91
39779093--39779126	15	2.3	15	89	0	50	17	5	5	70	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39779207--39779248	19	2.2	20	82	4	50	30	7	11	50	1.66
39780393--39780592	82	2.4	82	83	8	239	24	27	18	30	1.98
39780394--39780543	41	3.7	41	92	1	239	22	29	19	28	1.98
39780394--39780593	41	4.9	41	85	6	214	24	27	18	29	1.98
39782910--39782970	23	2.7	22	75	12	52	18	8	24	49	1.74
39785382--39785413	15	2.0	17	88	11	50	53	0	3	43	1.16
39785425--39785517	31	3.0	31	71	12	84	43	7	11	37	1.70
39785414--39785541	61	2.1	61	82	8	154	38	6	12	42	1.68
39791719--39791746	2	14.0	2	100	0	56	50	0	0	50	1.00
39793419--39793482	32	2.0	32	93	0	110	39	10	26	23	1.88
39801754--39801800	2	23.5	2	91	0	76	44	0	4	51	1.21
39804513--39804617	9	11.4	9	84	8	140	34	32	9	23	1.87
39805377--39805416	16	2.5	16	95	0	71	25	5	35	35	1.78
39812884--39812922	20	2.0	20	84	0	51	17	5	2	74	1.12
39815157--39815224	29	2.3	29	87	5	91	42	19	14	23	1.88
39815037--39815318	91	3.1	91	80	5	266	40	14	13	30	1.85
39815779--39815829	2	25.5	2	100	0	102	50	0	0	49	1.00
39819819--39819870	20	2.6	20	76	11	61	53	7	1	36	1.41
39827353--39827398	3	15.3	3	100	0	92	67	0	0	32	0.91
39827683--39827750	27	2.5	27	85	0	82	13	36	29	20	1.91
39827706--39827788	27	3.1	27	77	6	96	13	43	18	25	1.86
39828058--39828097	3	13.3	3	94	0	71	65	2	0	32	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39829222--39829274	13	4.1	13	80	9	63	37	22	5	33	1.78
39840691--39840751	26	2.3	26	83	10	81	31	1	1	65	1.12
39840700--39840747	18	2.7	18	77	6	53	25	2	0	72	0.95
39841505--39841588	23	3.8	23	70	19	70	51	5	0	42	1.26
39845945--39845974	14	2.1	14	93	0	51	23	13	13	50	1.77
39847985--39848044	26	2.3	26	85	5	86	40	23	20	16	1.91
39851516--39851556	19	2.1	19	86	4	55	39	7	4	48	1.52
39857434--39857466	16	2.2	15	89	10	50	42	18	6	33	1.75
39858569--39858721	76	2.0	76	97	0	288	37	13	11	37	1.80
39865144--39865243	9	10.4	9	80	12	101	15	17	52	16	1.76

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