genome.fa.s17.2.7.7.80.10.50.1000.38.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  38  of  185  ( 22116 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)
10629275--10629341	29	2.3	29	89	0	98	19	32	26	20	1.97
10637079--10637136	30	1.9	30	89	0	89	12	31	34	22	1.91
10638956--10639023	6	11.3	6	76	14	61	77	5	2	13	1.06
10638977--10639023	11	4.3	11	82	15	53	80	4	2	12	0.94
10639212--10639241	14	2.1	14	100	0	60	80	0	6	13	0.91
10640789--10640847	29	2.0	29	100	0	118	23	13	20	42	1.88
10650990--10651239	48	5.0	48	72	12	196	36	18	21	23	1.95
10651029--10651144	58	2.0	58	83	9	148	40	14	18	25	1.89
10652683--10652720	18	2.1	18	95	0	67	23	39	28	7	1.83
10671668--10671722	25	2.2	26	78	12	62	47	3	0	49	1.19
10671707--10671741	18	2.0	17	88	5	52	51	0	2	45	1.16
10671594--10671910	157	2.0	157	93	0	544	44	3	4	47	1.39
10671628--10671881	79	3.2	82	66	14	213	45	3	3	48	1.35
10671844--10671885	15	2.7	16	82	14	52	52	2	0	45	1.13
10671853--10672014	15	10.9	15	65	23	58	50	3	1	44	1.30
10671873--10672066	61	3.2	61	69	16	195	48	5	2	43	1.38
10671842--10672139	120	2.5	121	92	4	496	49	4	2	43	1.36
10672180--10672227	26	1.9	25	84	16	64	52	2	0	45	1.12
10672155--10672362	91	2.3	90	85	6	267	46	3	3	46	1.37
10675379--10675454	33	2.3	33	97	0	143	35	5	15	43	1.70
10675497--10675583	37	2.4	37	94	0	147	35	8	14	41	1.76
10678774--10678814	7	5.9	7	100	0	82	43	0	43	12	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10681346--10681383	19	2.0	19	100	0	76	36	0	31	31	1.58
10681871--10681908	15	2.3	18	82	17	55	52	0	5	42	1.24
10682546--10682656	20	5.6	20	68	8	64	36	18	21	23	1.94
10682544--10682654	40	2.8	40	78	0	132	36	18	21	23	1.94
10685304--10685784	31	15.7	31	84	3	539	29	8	17	45	1.76
10685293--10685784	92	5.4	92	83	5	584	29	7	17	45	1.76
10686686--10686714	10	2.9	10	100	0	58	17	10	31	41	1.83
10690649--10690680	5	6.2	5	92	7	55	75	0	3	21	0.95
10693039--10693210	43	4.0	43	76	8	172	23	18	26	32	1.97
10702502--10702530	14	2.0	15	93	6	51	27	13	20	37	1.91
10712106--10712540	215	2.0	215	95	0	791	36	6	18	38	1.77
10721534--10721794	129	2.0	129	93	0	441	44	17	11	27	1.82
10728432--10728476	13	3.5	13	76	11	56	37	2	2	57	1.23
10728431--10728490	26	2.3	26	100	0	120	36	3	3	56	1.32
10728445--10728489	13	3.5	13	76	11	56	33	4	4	57	1.38
10742080--10742197	25	4.7	26	68	14	86	30	15	23	30	1.95
10749944--10750009	27	2.5	27	80	11	75	65	3	4	27	1.27
10754450--10754485	16	2.2	16	95	0	63	27	0	33	38	1.57
10754701--10754755	15	3.4	16	80	16	53	54	1	0	43	1.10
10754707--10754755	16	2.9	18	80	20	61	55	0	0	44	0.99
10754608--10754922	156	2.0	157	91	0	506	43	3	6	47	1.45
10761134--10761168	17	2.1	17	100	0	70	45	0	37	17	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10761072--10761230	79	2.0	79	97	0	300	42	7	28	22	1.80
10761151--10761278	62	2.1	62	98	0	247	42	9	26	21	1.83
10764285--10764319	16	2.2	16	94	0	61	28	0	2	68	1.04
10766630--10766670	21	2.0	21	95	0	73	12	19	36	31	1.89
10766632--10766679	21	2.2	21	85	7	60	12	18	35	33	1.89
10768496--10768530	16	2.2	16	89	0	52	28	2	2	65	1.21
10770738--10770782	21	2.2	21	88	4	65	13	15	37	33	1.86
10778377--10778418	20	2.0	21	90	4	68	42	9	16	30	1.80
10781812--10781898	26	3.4	26	68	17	83	31	19	3	45	1.67
10781812--10781915	50	2.1	50	100	0	208	29	19	3	47	1.67
10781837--10781920	24	3.4	24	68	19	73	26	20	3	50	1.64
10782082--10782111	15	1.9	16	93	6	53	40	0	0	60	0.97
10782734--10782783	22	2.3	22	86	6	66	36	6	16	42	1.72
10783226--10783343	40	3.0	40	82	5	139	24	14	17	43	1.87
10784879--10784937	28	2.0	30	84	12	79	35	0	5	59	1.20
10784887--10784942	29	1.9	29	82	13	71	37	0	5	57	1.22
10788465--10788576	43	2.6	43	81	8	138	24	21	28	25	1.99
10789454--10789486	2	17.0	2	93	6	59	48	0	0	51	1.00
10792013--10792141	67	1.9	68	87	6	190	25	23	16	34	1.95
10792042--10792255	68	3.2	68	85	3	245	23	22	17	35	1.95
10795589--10795615	11	2.5	11	100	0	54	51	0	0	48	1.00
10796259--10796296	15	2.5	15	84	12	51	73	5	0	21	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10796290--10796344	24	2.3	23	84	9	76	34	7	1	56	1.38
10796374--10796407	14	2.3	15	90	5	52	41	8	0	50	1.34
10798214--10798343	67	1.9	67	87	3	190	36	22	16	25	1.94
10798578--10798627	25	2.0	26	92	4	84	20	10	6	64	1.45
10804498--10804523	10	2.6	10	100	0	52	23	0	34	42	1.54
10821471--10821525	22	2.4	23	84	3	76	30	9	18	41	1.81
10821484--10821527	23	2.0	21	87	12	63	34	11	18	36	1.86
10829311--10829354	16	2.5	18	78	17	56	29	38	15	15	1.89
10833615--10833712	25	4.0	25	70	10	76	30	15	28	25	1.96
10841765--10841806	17	2.5	17	80	7	50	35	0	2	61	1.09
10841754--10841820	20	3.5	19	75	19	68	37	0	1	61	1.05
10842151--10842195	24	1.9	24	86	4	65	17	8	40	33	1.81
10842237--10842491	124	2.1	124	87	3	361	29	15	22	32	1.95
10844200--10844535	85	3.9	85	89	4	537	31	0	21	47	1.54
10844200--10844538	176	1.9	176	94	0	597	31	0	21	47	1.54
10844176--10844545	28	12.8	28	84	5	407	32	0	20	46	1.53
10844531--10844565	17	2.0	18	88	5	54	31	0	20	48	1.50
10844474--10844577	23	4.3	23	73	14	75	31	0	20	47	1.57
10846949--10846990	22	1.9	22	90	0	66	33	0	33	33	1.58
10846992--10847061	22	3.2	23	82	8	92	45	0	24	30	1.53
10846940--10847042	52	2.0	51	81	9	120	36	0	30	33	1.58
10856062--10856139	36	2.2	36	92	0	129	52	25	8	12	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10869083--10869109	8	3.4	8	100	0	54	25	11	22	40	1.87
10873781--10873808	9	3.1	9	100	0	56	57	10	0	32	1.33
10873751--10873960	68	3.1	68	97	1	388	45	9	4	40	1.57
10873849--10873876	9	3.1	9	100	0	56	57	10	0	32	1.33
10873949--10873990	16	2.6	16	92	0	66	42	7	2	47	1.43
10873964--10874025	23	2.7	23	82	2	72	48	1	1	48	1.21
10877529--10877570	5	8.2	5	94	5	75	21	2	0	76	0.90
10898454--10898641	45	4.2	45	81	6	186	34	27	16	21	1.95
10898460--10898641	90	2.0	88	82	4	213	34	28	16	21	1.95
10900050--10900094	6	7.3	6	90	5	72	66	2	17	13	1.34
10900196--10900422	113	2.0	114	91	1	366	44	7	14	32	1.75
10901559--10901858	163	1.8	163	84	2	415	26	19	14	39	1.90
10916839--10916891	23	2.4	22	76	20	56	9	18	1	69	1.25
10919549--10919916	185	2.0	186	90	0	585	30	19	23	26	1.98
10920703--10920744	22	2.1	19	86	13	57	45	2	0	52	1.13
10921261--10921302	21	2.0	20	86	13	59	21	50	9	19	1.75
10921718--10921742	3	8.3	3	100	0	50	68	0	32	0	0.90
10923898--10923942	22	2.0	23	87	8	67	37	2	0	60	1.09
10923897--10923942	16	2.9	16	84	12	51	39	2	0	58	1.10
10925299--10925323	5	5.0	5	100	0	50	20	0	0	80	0.72
10928309--10928340	17	1.9	16	93	6	55	21	18	31	28	1.97
10932463--10932609	73	2.0	73	97	0	276	34	7	25	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10935235--10935268	18	2.0	18	88	11	54	47	0	0	52	1.00
10935785--10935826	21	2.0	22	85	4	59	21	0	38	40	1.53
10935859--10936272	222	1.9	220	87	2	605	35	10	10	43	1.73
10936496--10936565	30	2.5	26	80	11	77	51	1	11	35	1.47
10936515--10936565	26	1.9	26	84	4	66	54	0	7	37	1.29
10940884--10940933	6	8.3	6	86	0	73	38	0	44	18	1.50
10942267--10942392	41	3.1	41	88	0	189	23	28	20	27	1.99
10942508--10942688	64	2.9	63	89	6	253	40	17	8	33	1.80
10946474--10946509	18	2.0	18	88	0	54	19	33	0	47	1.50
10950560--10950624	10	6.9	9	75	18	53	70	3	1	24	1.10

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