genome.fa.s25.2.7.7.80.10.50.1000.180.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   

This is table  180  of  214  ( 25680 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)
52917402--52917453	24	2.1	24	86	10	70	40	3	1	53	1.30
52918310--52918349	17	2.3	18	86	4	55	22	0	7	70	1.12
52920564--52920655	22	4.2	22	86	5	105	30	28	0	41	1.56
52920564--52920655	44	2.1	44	84	8	116	30	28	0	41	1.56
52920605--52920707	52	2.0	51	81	12	122	33	32	0	33	1.65
52920657--52920698	22	1.9	22	90	0	66	33	30	2	33	1.71
52920740--52920794	27	2.0	27	82	6	67	36	0	1	61	1.06
52920891--52920946	24	2.3	23	77	19	60	28	0	5	66	1.14
52923075--52923109	18	2.0	18	88	5	54	48	20	0	31	1.50
52923063--52923151	23	3.8	23	81	8	117	46	25	0	28	1.53
52923095--52923409	28	11.5	28	77	16	254	47	23	0	29	1.52
52923132--52923261	33	4.1	33	84	10	189	48	23	0	28	1.51
52923217--52923410	23	7.8	23	79	13	181	47	21	0	30	1.51
52923212--52923398	51	3.7	51	88	7	258	47	23	0	29	1.52
52923196--52923416	51	4.3	52	78	16	232	47	23	0	28	1.52
52926556--52926762	85	2.4	87	96	1	382	33	24	20	22	1.97
52926672--52926950	123	2.2	125	83	7	354	33	24	13	28	1.93
52927263--52927301	3	13.0	3	100	0	78	66	0	0	33	0.92
52928541--52928591	18	2.6	20	76	20	54	39	1	1	56	1.22
52933319--52933361	22	2.0	22	85	0	59	60	4	4	30	1.37
52940644--52940677	14	2.5	14	95	4	61	50	35	0	14	1.44
52942899--52943019	60	2.0	60	100	0	242	44	6	9	38	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52943985--52944037	26	2.0	26	100	0	106	43	15	3	37	1.64
52947431--52947486	9	6.0	9	76	15	51	66	1	0	32	1.03
52948361--52948385	11	2.3	11	100	0	50	56	0	0	44	0.99
52948805--52948845	21	2.0	21	81	18	50	46	21	0	31	1.52
52951532--52951693	30	5.4	29	89	5	218	31	7	17	43	1.77
52957738--52957776	19	2.1	19	100	0	78	33	0	5	61	1.18
52960537--52960627	25	3.6	25	83	0	119	31	21	25	20	1.98
52975556--52975634	39	2.0	39	95	0	140	32	31	5	30	1.79
52976397--52976442	21	2.2	21	84	7	58	17	4	43	34	1.69
52988753--52989016	103	2.5	104	90	3	406	29	29	20	20	1.97
52991277--52991301	10	2.5	10	100	0	50	56	0	0	44	0.99
52991300--52991397	51	1.9	51	83	4	126	45	3	21	29	1.67
52991380--52991412	11	2.8	12	86	9	50	42	3	30	24	1.70
52994797--52994821	13	1.9	13	100	0	50	80	0	0	20	0.72
52995723--52995748	3	8.7	3	100	0	52	69	0	0	30	0.89
53014344--53014368	13	1.9	13	100	0	50	80	0	0	20	0.72
53033895--53033919	13	1.9	13	100	0	50	80	0	0	20	0.72
53052115--53052172	5	11.8	5	89	10	93	39	0	0	60	0.97
53052192--53052287	40	2.3	40	89	3	147	63	8	28	0	1.23
53052990--53053047	30	1.9	30	89	0	89	41	3	24	31	1.71
53053259--53053290	13	2.5	13	94	0	55	31	0	12	56	1.37
53053385--53053626	50	4.7	50	84	4	252	26	24	28	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53053384--53053634	100	2.4	103	86	6	348	26	23	28	21	1.99
53055079--53055178	41	2.4	41	84	0	119	27	22	22	29	1.99
53055104--53055183	41	2.0	41	94	0	142	27	22	20	30	1.98
53058414--53058472	23	2.6	23	91	0	91	20	27	20	32	1.97
53066819--53066874	29	1.9	29	82	13	71	48	3	0	48	1.19
53067009--53067120	52	2.1	53	95	3	199	31	22	8	37	1.85
53068920--53068974	25	2.2	25	74	3	58	32	25	20	21	1.97
53068972--53069036	25	2.6	25	78	4	69	33	18	24	23	1.96
53069351--53069393	16	2.8	15	79	6	50	44	11	0	44	1.40
53076465--53076490	3	8.7	3	100	0	52	34	34	0	30	1.58
53081937--53082053	40	2.9	41	80	10	132	24	18	27	29	1.98
53082647--53082838	7	26.9	7	70	12	59	22	2	31	43	1.65
53082710--53082752	15	2.9	15	79	6	52	18	2	32	46	1.62
53082705--53082827	64	1.9	64	83	6	160	21	2	31	44	1.65
53089773--53089914	48	3.0	48	93	2	232	21	12	26	39	1.89
53092398--53092506	48	2.3	48	90	3	166	20	13	25	40	1.89
53094305--53094351	12	3.8	12	83	8	51	53	8	4	34	1.51
53094977--53095015	12	3.2	12	82	13	53	53	0	10	35	1.35
53095903--53095996	48	2.0	48	87	4	136	20	12	26	40	1.88
53097093--53097129	16	2.3	16	86	13	58	40	0	0	59	0.97
53097149--53097183	16	2.2	16	89	0	52	57	0	0	42	0.99
53097144--53097190	13	3.2	15	73	14	53	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53100179--53100225	12	3.8	12	83	8	51	53	8	4	34	1.51
53100850--53100888	12	3.2	12	82	13	53	53	0	10	35	1.35
53102406--53102495	44	2.0	44	84	2	117	27	25	15	31	1.96
53102708--53103174	45	10.5	44	71	9	322	25	24	18	30	1.98
53102709--53103174	89	5.2	88	89	4	598	25	24	18	30	1.98
53102708--53103102	44	8.9	43	70	11	203	27	24	17	30	1.98
53102706--53103236	89	6.0	87	87	5	451	25	24	19	30	1.98
53104572--53104679	52	2.1	50	81	6	119	12	23	14	50	1.76
53107365--53107404	20	2.0	20	90	0	62	32	10	25	32	1.89
53110840--53111169	129	2.6	129	89	7	514	28	24	18	28	1.98
53111549--53111761	44	5.0	43	72	17	160	26	23	19	30	1.98
53111492--53112029	177	3.1	172	83	8	630	25	24	19	30	1.98
53111492--53112029	89	6.2	85	85	8	570	25	24	19	30	1.98
53111796--53112036	43	5.5	43	67	17	154	23	25	21	29	1.99
53113318--53113407	46	2.0	46	88	0	135	12	25	17	44	1.84
53113321--53113417	46	2.1	46	82	0	113	12	27	16	43	1.84
53119876--53120213	132	2.6	132	94	1	590	28	23	19	28	1.98
53119936--53120146	44	4.8	44	67	9	133	27	22	18	31	1.97
53120229--53120332	44	2.4	44	90	0	163	30	21	19	28	1.97
53120548--53121080	89	6.0	88	87	5	608	25	24	19	30	1.98
53120576--53120824	45	5.6	44	73	10	220	25	24	19	30	1.98
53120552--53121096	179	3.1	175	85	5	693	25	24	19	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53122414--53122503	46	2.0	46	88	0	135	12	25	17	44	1.84
53122417--53122513	46	2.1	46	82	0	113	12	27	16	43	1.84
53133048--53133078	10	3.0	10	95	4	53	38	29	3	29	1.73
53137151--53137483	47	6.9	50	70	9	203	24	21	22	31	1.98
53137152--53137569	47	8.6	48	68	11	162	24	20	22	31	1.98
53137126--53137578	96	4.7	99	85	8	533	24	20	22	32	1.98
53137694--53137777	34	2.4	35	78	11	93	25	13	14	47	1.79
53149234--53149271	15	2.5	15	100	0	76	39	0	13	47	1.42
53150083--53150141	31	1.9	31	92	0	100	40	13	15	30	1.86
53153525--53153571	22	2.1	22	92	0	76	61	8	0	29	1.25
53153518--53153583	22	2.7	25	77	15	75	62	7	0	30	1.23
53159286--53159319	18	1.9	18	88	5	52	58	2	2	35	1.28
53177130--53177181	17	2.9	17	80	11	50	57	15	9	17	1.64
53180133--53180489	103	3.4	103	92	1	581	19	21	28	30	1.98
53183082--53183122	22	1.9	22	85	5	57	63	0	0	36	0.95
53183730--53183754	13	1.9	13	100	0	50	8	56	0	36	1.29
53187073--53187234	41	4.0	41	88	1	227	29	19	28	23	1.98
53187070--53187269	41	4.9	41	85	1	222	30	19	27	23	1.98
53189075--53189161	33	2.7	33	80	8	97	48	19	8	24	1.75
53189141--53189207	34	1.9	35	87	3	100	46	11	8	32	1.72
53190661--53190724	24	2.5	25	85	12	85	39	10	1	48	1.48
53190864--53190969	20	5.4	19	73	14	90	69	0	29	0	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53190844--53190971	40	3.1	42	85	12	192	71	0	28	0	0.92
53190844--53191008	40	4.1	40	83	11	187	70	0	29	0	0.92
53190862--53191006	28	5.3	28	69	22	78	69	0	29	0	0.93
53190844--53191009	80	2.0	81	85	12	225	70	0	28	0	0.92
53190852--53191005	35	4.2	36	78	16	140	69	0	29	0	0.93
53194089--53194131	18	2.4	17	81	11	50	16	44	6	32	1.74
53194980--53195017	3	12.7	3	100	0	76	68	31	0	0	0.90
53195077--53195115	20	2.0	21	85	10	55	66	10	0	23	1.22
53195256--53195313	27	2.1	27	90	0	89	15	25	27	31	1.96
53195362--53195403	20	2.1	20	100	0	84	54	0	9	35	1.33

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