genome.fa.s6.2.7.7.80.10.50.1000.104.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  104  of  168  ( 20060 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)
30737962--30738132	43	4.0	43	69	18	133	23	18	27	30	1.97
30738293--30738324	16	1.9	17	93	6	57	40	0	21	37	1.54
30743895--30744130	44	5.5	44	73	12	188	28	18	21	31	1.97
30744022--30744235	44	4.7	45	74	12	127	30	19	21	28	1.97
30755732--30755803	36	2.0	36	97	0	135	29	8	11	51	1.66
30760865--30760893	2	14.5	2	100	0	58	51	48	0	0	1.00
30762835--30762867	17	2.0	17	88	5	50	39	3	0	57	1.14
30763167--30763213	22	2.2	21	84	3	58	53	29	0	17	1.44
30763253--30763316	20	3.2	20	73	10	67	40	28	7	23	1.82
30764192--30764226	3	11.7	3	100	0	70	31	0	0	68	0.90
30765618--30765734	35	3.3	35	84	1	144	14	11	34	39	1.83
30766229--30766294	32	2.1	32	97	0	123	36	7	22	33	1.83
30767280--30767323	22	2.0	23	90	4	72	25	13	27	34	1.93
30774152--30774233	23	3.4	25	80	11	82	35	1	1	62	1.11
30774192--30774220	14	2.0	15	93	6	51	34	3	0	62	1.12
30774174--30774234	25	2.4	25	78	10	70	37	1	0	60	1.07
30783529--30783625	48	2.0	48	91	0	158	36	12	23	27	1.91
30785945--30785982	19	2.0	19	94	0	67	57	2	0	39	1.12
30786130--30786156	6	4.5	6	100	0	54	51	0	0	48	1.00
30785841--30786173	178	1.9	177	85	5	465	49	12	1	36	1.50
30786253--30786314	29	2.1	29	90	6	97	37	1	0	61	1.06
30786301--30786339	18	2.2	18	86	9	53	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30786250--30786337	23	3.6	25	79	14	87	36	1	0	62	1.03
30786302--30786370	29	2.4	30	83	13	83	30	0	1	68	0.99
30790731--30790771	21	2.0	21	85	0	55	56	4	7	31	1.48
30790778--30790832	28	1.9	28	85	10	76	74	1	3	20	1.06
30791359--30791412	26	2.1	26	89	0	81	37	11	11	40	1.76
30791740--30792502	132	5.8	132	93	2	1261	29	24	18	27	1.98
30798606--30798664	22	2.5	22	84	13	66	66	3	1	28	1.18
30798682--30798722	21	2.0	21	85	0	55	56	4	7	31	1.48
30798729--30798783	28	1.9	28	85	10	76	74	1	3	20	1.06
30799310--30799363	26	2.1	26	89	0	81	37	11	11	40	1.76
30810577--30810610	2	17.0	2	100	0	68	0	50	0	50	1.00
30812603--30812635	3	11.0	3	87	12	50	66	3	30	0	1.06
30812600--30812638	12	3.2	12	89	10	62	66	7	25	0	1.18
30814327--30814351	13	1.9	13	100	0	50	68	0	0	32	0.90
30814463--30814493	15	2.0	16	93	6	55	29	0	0	70	0.87
30814643--30814766	61	2.0	61	100	0	248	27	11	17	43	1.83
30814959--30814995	5	7.4	5	93	0	65	56	0	2	40	1.13
30815483--30815532	13	3.6	14	82	17	68	68	2	0	30	1.01
30815484--30815527	23	1.9	23	86	9	63	68	2	0	29	1.02
30818088--30818130	11	3.8	11	80	17	52	30	2	2	65	1.18
30818091--30818134	23	1.9	23	90	0	70	31	2	4	61	1.28
30821744--30821789	11	4.1	11	78	15	58	67	0	2	30	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30822163--30822206	3	14.7	3	100	0	88	34	0	0	65	0.93
30823716--30823806	44	2.1	44	87	8	132	46	3	7	42	1.49
30824964--30825044	40	2.0	40	100	0	162	35	14	9	39	1.80
30829759--30829973	105	2.1	104	96	0	394	29	16	15	39	1.89
30830230--30830255	2	13.0	2	100	0	52	50	0	0	50	1.00
30841126--30841165	21	1.9	21	89	0	62	20	0	0	80	0.72
30846938--30847184	64	3.8	65	78	7	273	31	16	12	38	1.86
30867300--30867362	30	2.1	30	93	0	108	39	20	20	19	1.92
30867295--30867494	81	2.5	81	91	0	328	34	18	23	23	1.96
30868494--30868577	38	2.2	39	85	6	109	35	5	5	52	1.50
30874587--30874611	6	4.2	6	100	0	50	20	0	0	80	0.72
30876488--30876539	19	2.7	19	88	5	70	28	17	5	48	1.70
30883106--30883779	51	14.3	50	72	13	305	34	16	19	29	1.94
30883125--30883551	96	4.5	96	79	8	449	34	17	19	29	1.94
30883027--30883297	147	1.8	146	88	0	416	35	16	16	31	1.92
30883087--30883394	147	2.1	144	80	8	327	36	16	17	28	1.92
30883422--30883779	44	7.9	44	75	11	244	32	15	20	31	1.94
30883422--30883774	133	2.6	134	80	9	376	31	15	21	31	1.94
30885096--30885280	51	3.6	51	84	3	241	23	18	28	30	1.97
30885098--30885284	101	1.8	101	90	5	306	22	18	27	31	1.97
30885768--30885794	11	2.5	11	100	0	54	66	0	7	25	1.17
30888784--30888838	18	3.1	17	75	19	51	16	1	3	78	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30890411--30890460	22	2.3	23	86	6	68	20	0	18	62	1.34
30890411--30890461	23	2.3	22	86	6	68	19	0	19	60	1.36
30890411--30890467	22	2.7	20	79	12	60	21	0	17	61	1.35
30907362--30907420	31	2.0	29	83	12	75	55	1	3	38	1.26
30907365--30907416	26	2.0	26	84	3	68	59	1	1	36	1.19
30919779--30919815	15	2.5	15	90	0	65	27	16	13	43	1.85
30924313--30924339	7	3.9	7	100	0	54	70	0	0	29	0.88
30924484--30924839	179	2.0	178	84	4	459	41	10	11	35	1.77
30924887--30924952	27	2.3	29	76	7	73	34	3	1	60	1.21
30924886--30924965	19	4.3	18	74	13	63	33	5	1	60	1.27
30925027--30925061	18	2.0	17	88	5	52	28	0	2	68	1.04
30925080--30925300	90	2.5	92	83	7	280	33	8	18	39	1.80
30931254--30931319	33	2.0	33	96	0	123	56	1	0	42	1.08
30931356--30931454	26	3.9	25	75	19	89	50	2	0	47	1.12
30931600--30931634	16	2.2	16	94	0	61	31	20	0	48	1.50
30934006--30934066	30	2.0	30	83	0	77	40	21	11	26	1.87
30939238--30939276	2	19.5	2	100	0	78	0	48	0	51	1.00
30941735--30941789	3	18.3	3	100	0	110	32	0	0	67	0.91
30944110--30944275	83	2.0	83	97	0	314	31	13	22	31	1.93
30960372--30960400	10	2.9	10	100	0	58	10	0	48	41	1.37
30964471--30964802	27	12.3	27	86	5	420	42	18	18	20	1.89
30971784--30971812	15	1.9	15	100	0	58	34	34	13	17	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30976329--30976373	6	7.5	6	89	0	54	20	8	15	55	1.66
30976319--30976373	18	3.1	18	74	10	51	21	9	12	56	1.64
30977660--30977706	21	2.2	22	84	3	60	68	4	19	8	1.33
30978193--30978221	12	2.4	12	100	0	58	20	0	10	68	1.18
30986870--30986905	18	2.0	18	88	0	54	30	25	25	19	1.98
30989594--30989618	13	1.9	13	100	0	50	60	8	0	32	1.26
30989589--30989721	52	2.6	52	93	0	221	46	6	9	38	1.60
30989637--30989670	13	2.7	13	90	4	52	47	5	8	38	1.59
30989627--30989737	27	4.2	27	69	15	79	45	5	11	37	1.64
30989688--30989883	13	14.8	13	81	5	223	48	7	6	37	1.57
30989691--30989882	27	7.1	27	88	2	271	48	6	6	38	1.55
30989688--30989883	40	4.9	40	86	3	177	48	7	6	37	1.57
30989691--30989905	67	3.3	67	84	5	298	48	6	6	38	1.55
30990475--30990505	11	2.8	11	100	0	62	61	0	29	9	1.28
31000192--31000320	32	4.1	32	90	2	206	21	33	27	17	1.96
31000192--31000320	63	2.0	64	90	1	206	21	33	27	17	1.96
31002159--31002321	29	5.6	29	75	11	136	23	26	11	37	1.90
31002162--31002347	87	2.1	87	83	5	225	23	26	12	37	1.91
31005709--31005741	11	3.0	11	90	0	57	24	36	12	27	1.91
31013806--31013885	40	2.0	41	87	7	119	31	26	18	23	1.98
31016881--31016907	14	1.9	14	100	0	54	29	22	3	44	1.70
31018375--31018442	32	2.1	32	94	0	118	52	7	33	5	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31019482--31019522	16	2.5	16	85	14	57	14	2	0	82	0.76
31026886--31027057	46	3.7	47	81	3	172	29	23	19	26	1.98
31035579--31035856	27	10.3	27	81	5	303	40	21	19	19	1.92
31036019--31036099	26	3.1	26	76	0	81	22	18	20	38	1.94
31037780--31037937	43	3.7	42	78	5	158	30	25	15	28	1.96
31042572--31042613	3	14.0	3	100	0	84	66	0	0	33	0.92
31043809--31043848	17	2.4	17	91	8	64	5	5	42	47	1.47
31043993--31044052	28	2.0	30	81	12	70	60	0	3	36	1.14
31046345--31046385	7	5.9	7	97	0	73	24	0	29	46	1.53
31048451--31048480	5	6.0	5	96	0	51	0	23	0	76	0.78

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