genome.fa.s13.2.7.7.80.10.50.1000.98.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   199   

This is table  98  of  199  ( 23770 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)
29887677--29887737	20	3.3	20	68	25	62	11	9	1	77	1.07
29887652--29887737	17	5.2	15	73	19	64	9	9	3	77	1.09
29887946--29887988	11	4.1	10	82	11	50	76	0	9	13	1.01
29887954--29887988	11	3.3	11	84	8	54	74	0	11	14	1.08
29887946--29887988	21	2.0	21	90	0	68	76	0	9	13	1.01
29888297--29888336	18	2.2	18	100	0	80	22	0	10	67	1.20
29893532--29893606	22	3.3	22	80	7	71	57	2	0	40	1.13
29893574--29893599	13	2.0	13	100	0	52	53	7	0	38	1.30
29893536--29893606	23	3.2	22	75	16	67	57	2	0	39	1.13
29895424--29895636	25	8.8	24	77	10	121	18	27	18	34	1.95
29895468--29895561	24	3.9	24	84	6	118	18	27	21	32	1.96
29895445--29895540	49	1.9	50	85	6	133	17	29	20	32	1.96
29895574--29895653	25	3.2	25	75	10	83	22	26	20	31	1.98
29900111--29900185	39	1.9	39	100	0	150	33	22	16	28	1.95
29900147--29900298	51	3.0	51	88	0	241	29	22	15	32	1.94
29904281--29904320	13	3.1	13	81	0	53	37	0	2	60	1.11
29904559--29904633	34	2.2	33	81	11	82	65	25	5	4	1.31
29910091--29910125	17	2.1	17	94	5	63	54	5	11	28	1.59
29912028--29912076	22	2.2	22	92	0	80	36	24	4	34	1.75
29920792--29920829	15	2.5	15	91	0	67	57	0	2	39	1.12
29923516--29923584	26	2.5	27	81	6	77	43	1	14	40	1.54
29923691--29923716	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29923766--29923816	3	17.0	3	95	0	93	64	0	0	35	0.94
29925870--29925918	20	2.5	19	77	6	53	16	12	6	65	1.45
29927172--29927233	13	4.8	13	95	0	115	40	27	8	24	1.83
29935970--29936004	17	2.1	17	89	10	54	71	5	2	20	1.19
29936388--29936422	18	1.9	18	88	11	54	68	2	0	28	1.04
29937413--29937442	13	2.3	13	94	0	51	83	0	6	10	0.81
29939049--29939073	7	3.6	7	100	0	50	28	0	16	56	1.41
29939725--29939764	18	2.2	18	95	0	71	22	30	7	40	1.81
29940020--29940068	21	2.3	21	79	6	55	34	36	26	2	1.68
29940193--29940309	25	5.0	24	69	21	95	40	0	13	46	1.44
29940270--29940314	25	1.9	23	82	13	56	48	0	13	37	1.42
29940311--29940348	9	4.3	9	93	3	60	31	0	7	60	1.25
29940175--29940331	69	2.3	66	85	6	224	38	0	12	49	1.40
29940379--29940730	23	15.6	23	81	11	415	46	25	0	28	1.56
29940378--29940730	90	3.9	90	87	5	418	45	25	0	28	1.56
29940410--29940669	67	3.9	67	87	7	373	45	25	0	28	1.57
29940379--29940730	135	2.6	136	90	3	543	46	25	0	28	1.56
29940379--29940730	67	5.2	67	81	11	366	46	25	0	28	1.56
29949676--29949722	20	2.3	20	88	0	76	38	19	27	14	1.91
29961398--29961428	16	1.9	16	93	0	53	48	0	9	41	1.36
29963999--29964045	24	1.9	25	83	12	62	8	21	0	70	1.14
29964925--29964959	13	2.6	14	86	9	54	22	11	14	51	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29965947--29965987	21	2.0	21	90	0	64	46	12	21	19	1.82
29981071--29981099	14	2.0	15	93	6	51	62	0	13	24	1.32
29999098--29999358	70	3.7	70	78	6	233	21	17	22	38	1.93
30043163--30043234	36	2.0	36	100	0	144	47	16	22	13	1.82
30043749--30043781	17	1.9	17	88	11	50	75	6	0	18	1.00
30045639--30045859	111	2.0	111	90	0	352	35	17	14	32	1.90
30057781--30058214	44	9.9	44	87	0	553	30	20	23	24	1.98
30058151--30058245	44	2.2	44	83	7	113	31	13	26	28	1.94
30060426--30060646	111	2.0	111	91	0	361	34	16	16	33	1.91
30070989--30071749	386	2.0	385	95	0	1371	32	14	20	32	1.93
30072338--30072391	19	2.8	20	83	10	78	18	29	5	46	1.72
30072311--30072391	19	4.4	18	78	17	69	22	30	4	41	1.75
30076102--30076294	50	3.7	50	79	5	190	23	27	22	26	1.99
30078046--30078342	27	11.4	27	81	6	317	35	18	21	24	1.96
30078066--30078259	99	2.0	99	91	0	316	35	17	22	25	1.95
30078091--30078233	72	2.0	72	88	0	214	34	16	22	25	1.95
30078361--30078479	24	5.0	24	83	2	141	25	8	21	44	1.80
30078418--30078490	24	3.0	24	88	4	94	19	9	23	47	1.78
30078441--30078483	11	3.7	11	76	11	50	16	6	25	51	1.69
30078556--30078620	27	2.4	27	83	14	82	16	24	26	32	1.96
30078574--30078626	27	2.0	27	81	7	63	18	26	24	30	1.98
30078608--30078661	26	2.1	26	92	0	90	16	22	27	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30078664--30078770	32	3.4	32	85	3	146	21	17	19	41	1.91
30078762--30078823	22	2.8	22	76	11	65	17	17	17	46	1.84
30079321--30079372	21	2.4	22	77	3	61	55	0	1	42	1.10
30079356--30079404	8	6.5	8	72	13	50	53	0	0	46	1.00
30079364--30079403	21	1.9	21	89	0	62	55	0	0	45	0.99
30079355--30079423	29	2.3	29	82	5	84	57	0	0	42	0.98
30079393--30079452	23	2.6	22	85	12	77	66	0	1	31	1.01
30079405--30079454	22	2.3	23	80	19	63	68	0	2	30	1.01
30079446--30079530	17	4.8	17	68	16	55	62	0	1	36	1.03
30079426--30079508	38	2.2	38	100	0	166	65	0	2	32	1.06
30079333--30079506	93	1.8	97	81	9	225	60	0	1	37	1.07
30082415--30082498	32	2.6	32	90	0	132	15	22	19	42	1.88
30082479--30082509	16	1.9	16	100	0	62	22	12	25	38	1.90
30082446--30082541	48	2.0	48	95	0	174	17	21	20	39	1.92
30082415--30082573	80	2.0	80	96	0	291	16	23	20	39	1.92
30082494--30082591	32	3.1	32	97	1	180	16	26	18	38	1.91
30082499--30082631	32	3.9	36	90	3	129	16	21	18	42	1.89
30085431--30085475	20	2.1	23	88	12	69	13	8	8	68	1.38
30091339--30091432	42	2.2	42	82	0	107	38	8	23	29	1.84
30091355--30091437	42	2.0	42	87	0	121	36	8	25	30	1.85
30092628--30092784	41	3.8	41	91	0	242	17	19	29	33	1.95
30095055--30095112	30	1.9	30	96	0	107	27	37	17	17	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30095060--30095111	15	3.5	15	71	10	52	30	42	13	13	1.83
30096562--30096595	15	2.2	16	89	5	52	38	8	5	47	1.59
30098453--30098490	19	2.0	19	100	0	76	42	26	10	21	1.85
30100411--30100450	20	2.1	18	86	9	53	25	0	10	65	1.24
30100415--30100465	25	2.0	25	81	7	59	27	1	9	60	1.39
30112654--30112707	18	3.0	17	84	10	72	37	22	0	40	1.54
30117001--30117051	24	2.1	24	85	0	66	41	21	13	23	1.89
30131027--30131152	45	2.8	45	85	0	162	39	18	20	21	1.92
30131124--30131286	46	3.6	46	84	2	222	49	14	16	20	1.80
30131124--30131334	91	2.3	91	86	3	282	47	15	18	18	1.82
30131124--30131334	45	4.6	45	81	1	224	47	15	18	18	1.82
30133678--30133783	1	106.0	1	82	0	122	0	0	9	90	0.45
30140927--30141011	26	3.3	27	76	14	90	40	23	22	14	1.90
30143862--30143937	27	2.8	27	82	7	75	25	18	17	39	1.91
30143949--30144024	27	2.8	27	93	0	134	15	17	23	43	1.87
30144290--30144327	20	1.9	20	88	0	58	26	34	18	21	1.96
30145914--30146216	151	2.0	151	91	1	491	32	20	15	32	1.93
30154258--30154302	22	2.0	22	91	0	72	40	24	20	15	1.91
30156489--30156533	17	2.6	17	85	0	63	37	22	8	31	1.85
30157593--30157625	15	2.1	16	88	5	50	42	3	21	33	1.68
30171739--30171782	19	2.3	19	84	7	54	47	0	18	34	1.49
30171830--30171939	41	2.7	41	89	0	175	30	20	25	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30171913--30171965	26	2.0	26	89	7	81	16	22	33	26	1.96
30171942--30172092	42	3.6	43	76	13	161	23	17	24	34	1.96
30173009--30173084	26	2.9	26	98	0	143	18	19	34	27	1.95
30173064--30173214	42	3.6	43	75	8	132	23	19	25	32	1.97
30173061--30173176	43	2.8	41	80	6	133	21	18	27	32	1.96
30175549--30175616	32	2.1	32	97	0	127	41	19	30	8	1.82
30176304--30176344	7	5.9	7	100	0	82	29	0	12	58	1.34
30176401--30176462	30	2.1	30	90	0	97	33	8	8	50	1.61
30176521--30176562	16	2.7	15	85	7	57	45	2	0	52	1.13
30177114--30177152	20	2.0	20	85	10	53	33	5	0	61	1.18

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   199