genome.fa.s4.2.7.7.80.10.50.1000.128.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: At_chr8
Parameters: 2 7 7 80 10 50 1000
Length:  78745976

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   

This is table  128  of  235  ( 28198 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)
43393556--43393593	16	2.5	15	91	4	58	65	0	0	34	0.93
43397223--43397312	21	4.6	21	72	12	84	12	23	23	41	1.88
43397223--43397326	39	2.7	39	96	0	190	12	24	24	39	1.89
43397226--43397328	18	5.4	18	70	13	80	13	24	24	37	1.91
43400022--43400079	30	2.0	28	83	9	73	53	0	0	46	1.00
43400582--43400706	61	2.0	61	98	0	241	43	9	6	40	1.63
43406758--43406803	24	2.0	23	82	4	56	41	13	13	32	1.82
43419592--43419651	30	2.0	30	90	0	93	25	20	13	41	1.88
43424779--43424963	58	3.2	56	71	20	150	49	5	2	42	1.40
43426373--43426540	86	2.0	86	85	2	230	34	11	12	41	1.80
43434417--43434479	30	2.1	30	87	3	90	30	3	14	52	1.57
43434608--43434673	33	2.0	33	100	0	132	36	6	12	45	1.66
43434619--43434677	19	3.4	19	68	22	65	37	6	10	45	1.65
43436575--43436600	13	2.0	13	100	0	52	46	0	15	38	1.46
43437495--43437525	16	2.0	15	93	6	53	32	0	0	67	0.91
43444285--43444318	15	2.3	15	89	0	50	47	0	2	50	1.16
43451407--43451492	43	2.0	43	97	0	163	20	26	22	30	1.98
43455371--43455424	17	3.3	17	76	5	58	42	1	9	46	1.46
43455945--43456021	14	5.0	15	71	20	52	42	14	9	33	1.77
43455961--43456000	20	2.0	20	90	0	62	50	12	10	27	1.72
43455949--43456015	34	1.9	35	90	3	109	46	13	8	31	1.74
43459349--43459543	97	2.0	97	98	0	381	32	26	19	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43462622--43462704	27	3.1	27	83	0	121	25	20	43	10	1.84
43462633--43462727	27	3.5	27	83	0	82	24	27	36	11	1.90
43462622--43462727	54	2.0	54	82	0	131	24	24	39	11	1.88
43463759--43463803	18	2.5	18	85	0	63	28	4	46	20	1.69
43466170--43466208	14	2.7	15	84	8	53	61	5	5	28	1.39
43466182--43466210	14	2.1	14	100	0	58	55	0	6	37	1.27
43467174--43467210	17	2.2	17	100	0	74	45	8	16	29	1.76
43468521--43468552	17	1.9	17	93	6	57	9	3	0	87	0.64
43468554--43468649	27	3.5	27	94	5	167	50	0	9	40	1.35
43468554--43468649	28	3.5	28	95	2	169	50	0	9	40	1.35
43468654--43468679	13	2.0	13	100	0	52	23	0	0	76	0.78
43469459--43469608	10	15.1	10	65	21	66	2	30	0	68	1.01
43469489--43469590	38	2.8	38	89	5	149	1	30	0	67	1.01
43469532--43469605	14	5.1	14	72	22	55	0	29	0	70	0.88
43469526--43469605	34	2.8	28	75	24	85	0	31	0	68	0.90
43469435--43469610	18	10.0	18	66	21	81	1	31	0	66	1.02
43469528--43469609	28	2.7	30	78	19	98	0	31	0	68	0.90
43469657--43469710	27	2.0	27	96	0	99	11	46	20	22	1.82
43469750--43469816	25	2.7	24	78	17	73	44	1	10	43	1.47
43469751--43469817	27	2.6	26	81	9	75	44	1	10	43	1.47
43473690--43473721	16	2.1	15	94	5	55	40	0	0	59	0.97
43482136--43482207	35	2.1	35	100	0	144	23	13	16	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43482804--43482845	21	2.0	22	85	4	59	35	7	0	57	1.26
43482888--43482941	19	2.7	19	80	13	56	24	3	3	68	1.22
43483074--43483121	25	2.0	24	88	12	71	52	4	16	27	1.62
43486953--43486986	18	1.9	18	88	5	52	61	0	0	38	0.96
43492331--43492466	61	2.2	61	84	0	164	33	12	23	30	1.92
43499214--43499251	3	12.7	3	100	0	76	31	0	0	68	0.90
43500731--43500771	8	4.7	9	79	14	50	63	0	4	31	1.15
43500731--43500771	17	2.3	18	88	12	59	63	0	4	31	1.15
43500688--43500827	46	3.1	44	79	9	117	57	3	5	32	1.39
43500993--43501041	19	2.4	21	77	16	59	42	0	2	55	1.11
43500995--43501047	20	2.8	20	83	13	60	43	0	1	54	1.11
43500993--43501047	18	2.9	17	80	20	56	43	0	1	54	1.10
43504070--43504096	13	2.1	13	100	0	54	37	7	29	25	1.83
43515093--43515117	12	2.1	12	100	0	50	40	8	8	44	1.63
43515120--43515171	15	3.6	15	79	10	72	57	3	0	38	1.17
43515107--43515176	15	5.1	14	70	14	56	52	4	0	42	1.20
43515107--43515178	28	2.6	28	91	2	119	51	4	0	44	1.20
43517160--43517204	16	2.7	17	86	6	65	57	0	0	42	0.98
43519210--43519242	11	2.8	12	86	9	50	48	6	9	36	1.60
43519574--43519625	16	3.2	16	91	0	77	28	0	34	36	1.58
43519606--43519700	45	2.1	44	86	1	127	34	5	26	33	1.79
43519862--43519896	18	2.0	17	88	5	52	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43519820--43519892	27	2.7	27	76	8	76	52	2	0	45	1.15
43520734--43520769	16	2.2	16	100	0	72	19	38	19	22	1.93
43529726--43529775	21	2.3	22	80	13	59	52	2	24	22	1.58
43536781--43536813	16	2.0	17	88	5	50	48	0	0	51	1.00
43541235--43541293	31	1.9	31	82	6	75	55	5	6	32	1.48
43545291--43545316	4	6.5	4	100	0	52	23	0	0	76	0.78
43549512--43549590	39	2.0	40	90	2	124	39	16	20	24	1.92
43549437--43549590	40	3.8	39	75	7	139	36	18	22	22	1.95
43549626--43549741	41	2.8	40	87	5	153	18	20	31	29	1.97
43549958--43550032	21	3.5	22	75	8	75	28	0	30	41	1.56
43549974--43550014	14	2.9	15	82	10	59	29	0	31	39	1.57
43550027--43550089	22	2.9	22	85	4	74	19	0	42	38	1.51
43550120--43550162	11	3.8	12	78	9	54	30	0	0	69	0.88
43550119--43550172	23	2.3	24	84	6	76	37	0	0	62	0.95
43550370--43550410	21	2.0	21	95	0	73	26	0	43	29	1.55
43550367--43550420	21	2.5	20	82	11	72	24	0	42	33	1.55
43554970--43555194	43	5.3	43	84	3	157	26	17	28	28	1.98
43554996--43555194	85	2.3	86	83	4	233	25	17	28	29	1.97
43554994--43555194	43	4.7	43	86	1	242	25	17	28	28	1.97
43560617--43560649	3	11.0	3	100	0	66	33	0	0	66	0.92
43562804--43562881	39	2.0	39	89	0	120	35	10	10	43	1.73
43584964--43585002	15	2.4	16	87	8	53	35	2	0	61	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43594389--43594433	15	3.1	15	75	18	58	17	0	13	68	1.20
43604343--43604398	29	1.9	29	92	0	94	35	1	7	55	1.38
43611028--43611074	3	15.7	3	95	0	85	31	2	0	65	1.04
43618455--43618509	27	2.0	27	89	3	83	56	27	7	9	1.57
43620239--43620277	18	2.1	19	90	4	62	28	0	0	71	0.86
43625654--43625845	46	4.3	45	95	2	325	27	23	15	33	1.95
43625803--43625878	37	2.0	38	92	2	127	31	22	17	28	1.96
43628382--43628736	46	8.1	46	82	13	473	34	16	20	29	1.94
43628382--43628711	82	3.9	82	89	8	516	35	15	20	28	1.93
43628537--43628711	93	1.9	92	95	1	314	34	16	20	29	1.94
43628537--43628736	93	2.2	92	90	2	312	34	17	19	30	1.94
43631999--43632036	15	2.5	15	91	0	58	34	7	21	36	1.82
43633869--43633960	29	3.2	28	77	9	105	54	22	2	20	1.55
43666436--43666484	22	2.2	23	82	13	59	57	8	2	32	1.40
43667483--43667525	17	2.5	17	81	7	52	37	0	2	60	1.10
43668826--43668855	14	2.1	14	100	0	60	26	6	16	50	1.70
43674335--43674429	34	2.8	34	88	3	129	29	9	14	46	1.76
43675345--43675544	97	2.1	96	82	2	240	28	30	12	29	1.92
43677615--43677715	38	2.9	33	77	16	89	28	10	14	45	1.79
43679096--43679132	19	1.9	19	89	10	58	64	0	2	32	1.07
43679136--43679214	9	8.4	9	73	6	59	65	3	3	26	1.26
43679147--43679200	28	2.0	27	88	3	81	68	3	3	24	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43679104--43679214	19	5.9	19	70	6	75	63	3	3	28	1.28
43680052--43680108	18	3.2	17	78	11	62	42	1	0	56	1.10
43680494--43680557	34	1.9	34	84	9	87	45	1	1	51	1.20
43680627--43680685	6	9.8	6	100	0	118	66	0	0	33	0.92
43680761--43680853	44	2.1	45	86	9	129	33	5	26	34	1.79
43681554--43681669	59	2.0	59	96	0	214	19	31	19	29	1.97
43682475--43682578	49	2.1	49	92	0	172	50	10	7	30	1.65
43687105--43687165	30	2.0	30	93	0	104	34	14	18	32	1.91
43690080--43690147	34	2.0	34	100	0	136	29	23	17	29	1.97
43690291--43690434	78	1.8	78	86	0	207	24	14	26	34	1.94

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235