genome.fa.s26.2.7.7.80.10.50.1000.129.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: D13
Parameters: 2 7 7 80 10 50 1000
Length:  64892201

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   

This is table  129  of  221  ( 26413 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)
39705855--39705894	20	2.1	19	86	9	55	50	5	0	45	1.23
39706118--39706153	18	2.0	18	100	0	72	55	22	5	16	1.62
39706455--39706489	3	12.0	3	93	6	63	68	0	31	0	0.90
39707498--39707522	12	2.1	12	100	0	50	24	20	0	56	1.43
39711619--39711688	22	3.2	22	93	0	122	31	30	0	38	1.58
39711660--39711718	30	2.0	30	93	0	100	30	35	0	33	1.58
39711638--39711740	52	2.0	51	86	5	145	33	33	0	33	1.58
39711690--39711731	22	1.9	22	90	0	66	33	33	0	33	1.58
39711773--39711829	29	2.0	29	93	6	98	38	0	1	59	1.08
39711776--39711837	29	2.1	29	88	5	90	38	0	1	59	1.07
39714116--39714204	23	3.9	23	92	0	151	46	23	0	30	1.53
39714116--39714204	46	1.9	46	97	0	169	46	23	0	30	1.53
39716568--39716633	32	2.1	32	85	5	89	46	22	6	24	1.74
39725595--39725757	63	2.6	64	77	6	179	28	26	17	27	1.98
39739163--39739242	34	2.4	34	86	0	115	47	20	7	25	1.75
39748193--39748237	22	2.0	22	95	0	81	37	0	37	24	1.56
39754078--39754109	16	2.0	16	93	0	55	46	0	0	53	1.00
39757416--39757440	4	6.2	4	100	0	50	76	0	0	24	0.80
39757438--39757464	2	13.5	2	100	0	54	51	0	0	48	1.00
39764304--39764378	27	2.7	27	75	15	73	77	4	4	14	1.06
39764337--39764378	17	2.5	17	85	11	59	83	0	4	11	0.79
39764337--39764379	12	3.6	11	82	14	50	83	0	4	11	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39774261--39774288	14	2.0	14	100	0	56	35	14	21	28	1.92
39774910--39774957	22	2.0	24	84	11	64	50	2	8	39	1.44
39775060--39775111	20	2.7	18	82	14	59	44	7	11	36	1.70
39775060--39775120	20	3.1	18	76	21	52	40	8	11	39	1.71
39777769--39777950	82	2.3	80	81	6	192	32	20	20	25	1.97
39777821--39777948	41	3.1	41	82	0	157	35	21	21	22	1.96
39779069--39779093	10	2.5	10	100	0	50	36	12	28	24	1.91
39779766--39779813	24	2.0	24	100	0	96	25	4	16	54	1.60
39789532--39789572	17	2.4	17	91	4	64	82	0	14	2	0.76
39789531--39789572	18	2.3	19	84	12	61	83	0	14	2	0.75
39790809--39791031	44	5.0	44	74	8	200	28	23	23	24	1.99
39790809--39791035	89	2.6	89	87	1	321	29	23	23	23	1.99
39790810--39791035	45	5.1	45	76	6	208	29	23	23	23	1.99
39791197--39791420	115	1.9	115	82	1	279	33	20	22	23	1.97
39792890--39792917	6	4.7	6	100	0	56	28	0	0	71	0.86
39792881--39792935	18	3.1	17	75	19	58	25	0	0	74	0.82
39792975--39793020	8	6.1	8	82	12	53	30	0	0	69	0.89
39793406--39793447	13	3.2	13	80	9	50	38	9	7	45	1.64
39793776--39793850	34	2.3	32	80	14	98	48	8	6	37	1.59
39793784--39793849	34	1.9	35	90	3	107	46	9	6	37	1.60
39800092--39800199	43	2.5	43	87	0	144	23	18	24	34	1.96
39812027--39812091	30	2.2	30	88	5	96	18	21	38	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39828029--39828105	25	3.1	24	80	12	93	19	29	18	32	1.95
39828036--39828122	25	3.5	25	79	13	90	22	26	19	31	1.98
39828029--39828138	50	2.2	49	85	4	141	22	26	20	30	1.98
39835097--39835894	134	6.0	134	81	3	829	35	14	17	32	1.90
39836135--39836174	17	2.4	17	86	0	53	27	35	12	25	1.92
39848002--39849333	222	6.0	222	97	0	2502	36	16	9	37	1.81
39850078--39850106	13	2.2	13	100	0	58	31	0	24	44	1.54
39859677--39859712	18	2.0	18	88	0	54	63	0	16	19	1.30
39865414--39865444	7	4.6	7	96	4	55	16	9	0	74	1.07
39869468--39869538	25	2.8	25	86	0	97	18	29	19	32	1.96
39875780--39875900	23	5.1	23	74	10	95	20	23	19	35	1.96
39875802--39875917	45	2.5	46	81	6	128	21	22	19	36	1.95
39875837--39875917	23	3.6	22	78	6	74	20	23	19	35	1.96
39877066--39877090	13	1.9	13	100	0	50	48	0	16	36	1.46
39877705--39877778	7	10.6	7	95	4	132	40	1	0	58	1.07
39877962--39878021	31	1.9	31	86	0	84	40	13	18	28	1.88
39877975--39878035	31	2.0	31	83	6	79	39	18	16	26	1.91
39884153--39884195	18	2.5	17	85	7	52	46	4	0	48	1.22
39887554--39887607	20	2.7	20	80	8	65	40	1	14	42	1.57
39892833--39892871	19	2.1	19	85	9	53	17	7	2	71	1.21
39906079--39906215	28	5.0	26	65	15	71	40	0	3	55	1.23
39906079--39906119	13	3.2	13	80	12	50	39	0	0	60	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39905960--39906154	64	3.2	61	67	24	158	41	2	4	52	1.32
39906137--39906171	18	2.0	17	88	5	52	40	2	2	54	1.30
39906360--39906412	16	3.3	16	86	0	79	24	32	3	39	1.73
39911373--39911470	28	3.6	26	86	9	133	31	12	26	29	1.92
39912477--39912653	22	7.6	22	77	13	167	24	13	16	45	1.84
39912457--39912697	47	5.1	47	83	4	263	24	13	17	44	1.85
39912620--39912697	23	3.4	22	74	11	68	24	15	17	42	1.88
39913660--39913867	91	2.3	91	91	0	326	45	2	3	47	1.35
39913771--39913842	28	2.6	28	84	8	85	44	0	4	51	1.20
39914017--39914059	15	2.8	16	79	10	54	44	0	2	53	1.13
39913883--39914418	239	2.2	239	93	2	941	41	2	5	50	1.38
39913883--39914413	119	4.4	120	96	1	942	41	2	5	50	1.38
39914375--39914416	15	2.7	16	82	14	52	45	0	2	52	1.13
39914366--39914407	15	2.9	15	82	10	52	47	0	0	52	1.00
39914630--39914683	16	3.4	16	84	0	72	25	33	3	37	1.74
39920067--39920132	13	5.1	13	79	0	78	37	24	6	31	1.80
39929565--39929764	47	4.3	47	92	2	305	48	3	4	44	1.38
39929732--39930030	59	5.2	57	70	16	206	44	3	3	49	1.34
39929846--39929875	15	1.9	16	93	6	53	43	0	6	50	1.28
39929867--39929932	15	4.5	15	69	21	50	45	1	0	53	1.09
39929746--39930036	120	2.5	119	91	3	457	44	3	3	48	1.36
39929984--39930016	16	2.1	16	88	5	50	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39929746--39930066	117	2.7	114	84	9	380	43	2	4	49	1.36
39930249--39930285	16	2.3	16	95	0	65	21	32	5	40	1.76
39930745--39930809	18	3.6	19	68	19	50	60	0	0	40	0.97
39931153--39931233	37	2.2	37	88	0	117	34	9	16	39	1.81
39936974--39937011	20	1.9	19	89	5	58	23	5	0	71	1.07
39936973--39937028	19	2.9	18	84	10	67	21	3	1	73	1.08
39936987--39937028	18	2.3	19	87	4	59	19	0	2	78	0.86
39937049--39937104	29	1.9	29	85	7	78	42	3	3	50	1.37
39942985--39943057	30	2.4	29	88	6	101	73	1	0	24	0.90
39943008--39943063	6	9.2	6	78	9	60	78	0	0	21	0.75
39943211--39943241	9	3.4	9	90	0	53	25	9	22	41	1.84
39947357--39947569	104	2.0	105	95	0	383	34	10	14	40	1.80
39947796--39947849	23	2.3	23	87	0	72	44	7	1	46	1.42
39950837--39950865	13	2.1	14	93	6	51	41	20	6	31	1.79
39952825--39952856	15	2.1	15	94	0	55	15	6	9	68	1.36
39958906--39958979	33	2.2	33	76	9	78	28	18	17	35	1.94
39960888--39960914	13	2.1	13	100	0	54	48	7	37	7	1.59
39978244--39978288	16	2.8	16	89	0	72	42	4	26	26	1.74
39982185--39982261	33	2.3	33	81	0	91	20	19	12	46	1.83
39982282--39982360	33	2.4	34	80	6	90	18	12	21	46	1.82
39982484--39982579	51	1.9	50	80	2	111	26	23	10	39	1.87
39991300--39991563	138	1.9	138	88	3	397	43	6	10	39	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39991551--39991689	75	1.9	75	87	6	210	33	11	8	46	1.71
39991607--39991648	22	2.0	22	86	13	61	40	4	9	45	1.58
39992299--39992391	27	3.4	27	83	0	114	13	17	36	32	1.89
39996101--39996137	17	2.2	17	95	0	65	24	2	21	51	1.61
39997362--39997593	46	5.0	46	95	0	410	35	9	26	28	1.87
40001626--40001670	21	2.2	20	81	11	56	48	22	4	24	1.68
40011281--40011458	95	1.9	95	96	0	329	30	11	18	39	1.87
40015990--40016022	14	2.4	14	85	5	50	72	0	9	18	1.10
40018521--40018564	18	2.5	18	88	3	63	38	6	2	52	1.41
40018816--40018856	18	2.2	19	91	4	66	29	4	2	63	1.28

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