genome.fa.s2.2.7.7.80.10.50.1000.1.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: Chr10
Parameters: 2 7 7 80 10 50 1000
Length:  48586650

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   

This is table  1  of  145  ( 17348 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)
28541--28586	20	2.4	19	82	7	58	34	0	0	65	0.93
36575--36706	62	2.1	62	88	0	192	36	15	10	37	1.82
57092--57198	42	2.5	42	84	3	133	28	26	15	28	1.96
57092--57301	48	4.7	42	80	11	150	30	23	16	29	1.96
57160--57394	48	4.9	48	87	2	319	31	22	16	29	1.96
57390--57487	30	3.0	30	77	17	106	47	14	6	31	1.68
57404--57476	36	2.0	37	91	5	121	46	13	5	34	1.67
61658--61691	2	17.0	2	93	0	59	52	0	0	47	1.00
67581--67616	3	12.0	3	100	0	72	66	0	0	33	0.92
73389--73488	31	3.2	31	80	5	96	25	18	19	38	1.93
79289--79479	97	2.0	97	96	0	355	29	14	26	29	1.95
90071--90103	16	2.0	17	88	5	50	54	9	3	33	1.47
96256--96333	22	3.8	20	80	8	86	33	0	11	55	1.36
96256--96442	19	10.2	19	72	19	123	32	0	12	54	1.38
96309--96428	8	14.1	8	68	17	55	32	0	14	53	1.41
96309--96441	27	5.1	27	86	9	204	33	0	14	52	1.42
96309--96447	49	2.7	49	90	5	206	32	0	13	53	1.40
96494--96561	27	2.5	27	97	0	127	23	39	19	17	1.92
100564--100661	37	2.8	36	72	15	96	50	9	15	25	1.73
102402--102588	93	2.0	94	96	1	349	32	6	19	41	1.78
107542--107567	13	2.0	13	100	0	52	30	23	15	30	1.95
113418--113459	5	8.4	5	94	0	75	0	40	2	57	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
113412--113456	20	2.2	21	96	4	83	0	40	6	53	1.27
116260--116338	38	2.1	37	83	6	97	40	12	5	41	1.65
129744--129792	3	16.3	3	100	0	98	32	0	0	67	0.91
138456--138500	24	1.9	23	90	4	72	37	6	0	55	1.26
140969--141002	16	2.1	16	88	0	50	29	2	23	44	1.68
152420--152451	2	16.0	2	100	0	64	50	0	0	50	1.00
162124--162160	3	12.3	3	88	0	56	27	0	5	67	1.12
162140--162502	179	2.0	179	99	0	719	32	9	13	43	1.77
172150--172240	42	2.2	42	85	0	119	15	24	16	43	1.86
172173--172240	21	3.2	20	73	8	55	16	22	17	44	1.87
172527--172586	22	2.7	21	76	19	59	51	0	5	43	1.23
172554--172612	24	2.4	25	81	13	61	45	0	6	47	1.29
172896--172935	3	13.3	3	94	0	71	37	0	0	62	0.95
174265--174403	42	3.3	42	84	0	152	16	23	16	43	1.87
174269--174380	21	5.3	21	75	0	107	16	23	16	44	1.86
185531--185569	18	2.2	18	86	9	53	69	10	7	12	1.37
188418--188444	2	13.5	2	100	0	54	51	0	0	48	1.00
191079--191112	17	1.9	18	94	5	61	79	0	0	20	0.73
197447--197532	27	3.2	27	88	6	129	19	36	25	18	1.95
203249--203291	20	2.0	22	86	8	63	48	6	11	32	1.66
218588--218628	2	20.5	2	100	0	82	48	0	0	51	1.00
220188--220344	77	2.0	78	98	1	307	31	11	12	43	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
222487--222523	18	2.1	18	90	5	58	40	0	0	59	0.97
223785--223818	2	17.0	2	100	0	68	50	0	0	50	1.00
231171--231233	26	2.4	27	94	2	110	41	9	0	49	1.35
231281--231363	27	3.1	27	85	0	67	28	24	32	14	1.94
231290--231368	27	2.9	27	88	0	113	30	20	34	15	1.93
231927--232032	18	5.8	18	84	7	126	37	11	0	50	1.38
231927--232032	37	2.9	36	90	6	135	37	11	0	50	1.38
232092--232156	19	3.5	19	82	4	96	49	0	10	40	1.38
232084--232163	37	2.2	37	100	0	160	50	0	13	36	1.42
233763--233811	21	2.5	18	78	18	53	51	10	4	34	1.55
244695--244740	2	23.0	2	100	0	92	50	0	50	0	1.00
246697--246735	17	2.3	17	95	0	69	43	0	2	53	1.14
261929--262024	47	2.0	48	97	2	185	48	6	4	40	1.47
264591--264628	19	2.0	20	89	5	60	34	7	0	57	1.28
293711--293862	77	2.0	78	98	1	297	44	5	1	48	1.36
328070--328176	39	2.8	39	94	1	180	16	2	27	53	1.57
328174--328219	13	3.6	13	94	2	76	17	0	43	39	1.49
329949--329999	15	3.5	15	69	15	52	23	9	13	52	1.70
332637--332680	21	2.0	21	82	4	52	63	6	2	27	1.31
332796--332863	31	2.1	33	83	5	86	30	10	16	42	1.81
337866--337937	35	2.1	35	97	2	137	16	16	12	54	1.72
357563--357589	14	1.9	14	100	0	54	51	11	14	22	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
358212--358249	19	2.0	19	94	0	67	36	2	21	39	1.67
358681--358728	24	2.0	24	87	0	69	41	10	2	45	1.50
365314--365342	14	2.0	15	93	6	51	31	6	0	62	1.22
370824--370869	23	2.0	23	100	0	92	26	8	34	30	1.86
372987--373068	31	2.7	31	86	3	114	30	18	6	45	1.73
378561--378625	32	2.0	32	96	0	121	13	30	21	33	1.92
387642--387668	12	2.2	12	100	0	54	14	7	22	55	1.64
393050--393085	12	3.0	12	100	0	72	33	25	16	25	1.96
393751--393922	42	4.1	42	100	0	344	22	20	28	28	1.99
401442--401592	78	1.9	78	91	0	248	27	21	22	27	1.99
404554--404610	15	3.7	15	72	4	60	17	26	26	29	1.97
404556--404630	31	2.4	31	90	0	114	18	24	25	32	1.97
411964--412002	20	2.0	19	90	5	60	28	23	10	38	1.87
414712--414751	21	1.9	21	85	10	55	12	15	27	45	1.82
414809--414880	16	4.6	16	91	5	121	15	20	33	30	1.94
414809--414880	31	2.3	30	90	6	117	15	20	33	30	1.94
415129--415183	27	2.0	29	82	7	69	56	7	0	36	1.27
422524--422589	33	2.0	33	90	0	105	28	12	16	42	1.84
423339--423425	33	2.7	32	74	1	84	24	24	17	34	1.96
423183--423691	234	2.2	233	92	1	822	20	23	20	35	1.96
423573--423657	32	2.7	32	83	0	107	17	24	20	37	1.93
423690--423885	7	26.9	7	74	11	153	15	0	42	41	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
423690--423871	29	6.2	29	73	11	140	15	0	42	42	1.47
423701--423821	37	3.3	35	80	6	116	14	0	41	44	1.44
423755--423871	51	2.3	51	82	10	150	12	0	46	41	1.42
423837--423870	17	2.0	17	100	0	68	17	0	47	35	1.48
424924--424977	21	2.6	19	77	11	54	37	3	7	51	1.48
426136--426181	16	3.2	16	66	33	50	30	10	13	45	1.77
426134--426196	26	2.4	26	100	0	126	33	12	11	42	1.78
440551--440610	29	2.1	29	100	0	120	30	10	3	56	1.48
458712--458743	16	2.0	16	93	0	55	46	25	15	12	1.81
460219--460274	27	2.0	28	83	10	71	26	0	5	67	1.11
464058--464091	14	2.4	15	90	9	54	32	2	0	64	1.08
466966--467263	149	2.0	149	98	1	580	44	7	9	38	1.65
467375--467422	24	2.0	24	100	0	96	37	29	4	29	1.76
468358--468391	15	2.3	15	94	0	59	35	17	11	35	1.87
474389--474423	3	11.7	3	100	0	70	65	0	0	34	0.93
479714--479752	2	19.5	2	100	0	78	51	0	0	48	1.00
481487--481538	22	2.4	22	84	9	63	7	53	9	28	1.61
484423--484481	29	2.0	29	100	0	118	20	6	13	59	1.57
492153--492185	17	1.9	17	93	0	57	30	6	15	48	1.69
493555--493594	2	20.0	2	100	0	80	50	0	0	50	1.00
495550--495580	4	7.8	4	100	0	62	25	0	22	51	1.48
497692--497722	16	1.9	16	93	0	53	38	3	32	25	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
497708--497795	44	2.0	45	86	6	126	31	4	26	37	1.76
520469--520513	21	2.1	22	87	4	65	40	2	8	48	1.47
530977--531016	21	1.9	21	89	0	62	15	17	7	60	1.57
532599--532642	21	2.1	21	87	8	63	43	2	9	45	1.48
536827--536973	72	2.0	73	94	1	260	38	4	8	48	1.53
536950--537164	83	2.6	81	80	12	208	35	6	12	46	1.66
541624--541702	31	2.5	31	78	8	81	26	3	11	58	1.50
553987--554270	141	2.0	143	98	1	554	32	8	11	47	1.69
554247--554289	22	2.0	21	82	13	52	60	2	2	34	1.22
554264--554298	16	2.2	16	89	0	52	57	0	2	40	1.14

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