genome.fa.s9.2.7.7.80.10.50.1000.80.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: chr9
Parameters: 2 7 7 80 10 50 1000
Length:  38630433

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   

This is table  80  of  97  ( 11551 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)
31695472--31695501	8	3.8	8	95	0	51	0	56	0	43	0.99
31698559--31698594	15	2.4	15	85	0	54	66	0	11	22	1.22
31709393--31709417	13	1.9	13	100	0	50	44	0	8	48	1.32
31713230--31713279	25	2.1	22	85	10	64	42	0	4	54	1.19
31728136--31728164	2	14.5	2	100	0	58	0	48	0	51	1.00
31742141--31742174	17	2.0	17	88	11	52	64	11	23	0	1.26
31742141--31742175	18	2.0	17	88	5	52	65	11	22	0	1.24
31746642--31746668	4	6.8	4	100	0	54	0	0	25	74	0.83
31747943--31747970	10	2.8	10	100	0	56	92	0	0	7	0.37
31748056--31748118	28	2.2	29	85	2	83	38	9	12	39	1.76
31748176--31748348	69	2.5	69	76	5	161	28	16	14	40	1.87
31748305--31748393	45	2.0	45	84	0	115	31	15	15	37	1.90
31748210--31748578	114	3.2	114	79	5	397	29	16	15	38	1.89
31748323--31748456	69	1.9	69	81	0	160	29	13	15	41	1.85
31748401--31748491	45	2.0	45	84	0	119	30	17	14	37	1.90
31748440--31748649	69	3.0	69	85	1	260	32	16	11	39	1.85
31748547--31748594	24	2.0	24	87	0	69	29	14	12	43	1.82
31753637--31753680	14	3.2	13	82	17	54	47	0	0	52	1.00
31755561--31755606	18	2.8	17	81	18	53	47	17	28	6	1.72
31755577--31755611	18	1.9	18	94	0	61	48	20	25	5	1.71
31761228--31761328	52	1.9	52	93	0	175	17	26	11	43	1.84
31762876--31763061	93	2.0	93	100	0	372	29	22	15	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31770441--31770465	11	2.3	11	100	0	50	0	8	0	92	0.40
31779113--31779211	46	2.1	47	81	1	119	22	6	20	51	1.69
31779572--31779646	28	2.7	28	82	0	87	37	17	20	25	1.94
31779831--31779964	63	2.1	64	81	2	153	35	13	13	37	1.84
31787143--31787172	2	15.0	2	92	0	51	46	0	53	0	1.00
31787316--31787346	12	2.6	12	89	0	53	38	35	25	0	1.56
31787505--31787540	3	11.7	3	88	5	54	61	0	36	2	1.11
31791628--31791659	12	2.7	12	95	0	55	3	50	31	15	1.60
31796767--31796807	21	1.9	22	85	14	59	53	0	2	43	1.13
31796999--31797045	19	2.5	19	86	3	60	53	2	4	40	1.32
31805694--31805736	22	2.0	22	90	0	68	4	23	0	72	1.04
31806256--31806309	29	1.9	27	85	7	72	59	1	11	27	1.42
31808054--31808094	17	2.6	16	85	11	57	53	7	0	39	1.29
31812763--31812860	29	3.4	29	81	6	103	29	22	11	36	1.89
31812781--31812876	29	3.4	28	83	1	102	27	22	13	36	1.92
31815038--31815785	143	5.2	143	84	2	932	38	14	18	28	1.90
31815102--31815629	71	7.4	70	66	9	264	37	14	18	28	1.91
31815038--31815904	286	3.0	283	81	6	939	38	14	18	28	1.90
31815914--31816382	68	6.8	70	77	10	430	39	13	20	26	1.90
31815890--31816382	138	3.6	138	84	2	627	38	13	20	27	1.90
31816568--31816598	13	2.4	13	94	0	53	58	16	12	12	1.64
31819529--31819557	3	9.7	3	100	0	58	34	31	0	34	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31820954--31821009	10	5.5	10	77	10	51	78	1	1	17	0.92
31821371--31821409	11	3.5	11	86	6	51	15	5	2	76	1.06
31821450--31821491	12	3.4	12	90	6	57	19	0	4	76	0.96
31822971--31823011	21	2.0	21	95	0	73	26	14	14	43	1.84
31827783--31827839	26	2.1	27	90	3	89	28	28	14	29	1.95
31827882--31827990	27	4.2	25	89	4	94	27	22	15	33	1.95
31827901--31827991	27	3.4	27	90	3	132	28	23	14	34	1.93
31827783--31828069	158	1.8	157	80	7	348	33	21	12	32	1.91
31828429--31828503	9	8.3	9	71	11	55	36	4	36	24	1.74
31831284--31831338	22	2.7	21	80	8	60	41	25	5	27	1.77
31845832--31845873	21	2.0	21	81	9	50	45	9	9	35	1.69
31854681--31854719	13	2.9	13	88	3	51	64	0	5	30	1.15
31860620--31860671	8	6.0	8	79	16	59	48	23	13	15	1.80
31860611--31860674	18	3.6	18	93	0	110	46	21	12	18	1.82
31862381--31862439	9	7.2	9	73	21	58	49	0	0	50	1.00
31862404--31862441	12	3.2	12	84	0	58	50	0	0	50	1.00
31862381--31862441	24	2.5	25	89	5	90	49	0	0	50	1.00
31875633--31875681	25	1.9	26	91	4	82	30	10	2	57	1.43
31878977--31879019	15	2.7	16	82	17	54	53	4	0	41	1.21
31878799--31879280	255	1.9	253	86	5	692	42	5	6	46	1.52
31883165--31883238	37	2.0	38	89	2	114	28	9	22	39	1.85
31885064--31885130	35	2.0	34	96	3	118	8	17	2	68	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31889849--31889876	11	2.5	11	100	0	56	39	0	7	53	1.28
31893940--31893995	3	18.7	3	77	20	55	28	0	1	69	0.98
31894920--31894957	12	3.1	12	85	14	51	0	18	0	81	0.69
31895597--31895640	17	2.6	17	89	7	63	20	2	0	77	0.88
31895596--31895640	16	2.6	18	82	10	58	20	2	0	77	0.87
31895915--31895971	21	2.7	22	86	8	82	22	14	31	31	1.93
31895764--31896004	122	2.0	122	85	8	330	35	14	19	29	1.92
31896027--31898021	31	65.2	31	68	13	628	29	19	18	32	1.95
31896026--31896114	30	2.9	30	72	9	90	32	19	19	29	1.96
31896024--31898037	61	32.9	62	81	5	2019	29	19	18	32	1.95
31905232--31905330	40	2.4	41	83	9	130	20	21	31	27	1.98
31905381--31905431	2	25.0	2	90	4	75	45	0	3	50	1.20
31908475--31908512	19	2.0	19	94	0	67	31	2	26	39	1.70
31909889--31909913	13	1.9	13	100	0	50	44	0	8	48	1.32
31919180--31919204	13	1.9	13	100	0	50	44	0	8	48	1.32
31921332--31921374	16	2.7	16	82	10	52	62	11	0	25	1.29
31923699--31923739	19	2.2	19	86	8	57	48	4	24	21	1.69
31927277--31927393	45	2.5	43	76	15	110	27	11	2	58	1.45
31936847--31936913	19	3.7	19	67	11	52	43	0	1	55	1.09
31936889--31936922	15	2.2	16	94	5	61	44	0	0	55	0.99
31936847--31936935	38	2.3	39	76	20	98	43	0	1	55	1.07
31936875--31936960	33	2.6	34	81	18	101	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)
31947812--31947879	34	2.0	34	100	0	136	35	20	11	32	1.89
31948016--31948114	34	2.9	35	76	3	101	46	21	17	15	1.84
31948348--31948414	29	2.3	29	87	5	91	19	31	5	43	1.75
31953771--31953847	2	39.5	2	83	10	97	1	44	0	53	1.09
31953859--31953887	3	9.7	3	100	0	58	31	0	0	68	0.89
31954999--31955025	3	9.0	3	100	0	54	33	0	0	66	0.92
31955659--31955695	3	12.3	3	94	0	65	2	29	0	67	1.04
31955695--31955727	3	11.0	3	100	0	66	33	0	0	66	0.92
31956266--31956305	18	2.2	18	100	0	80	20	10	20	50	1.76
31956266--31956302	8	4.2	9	83	16	51	16	10	21	51	1.74
31956592--31956670	42	2.0	41	85	7	108	25	13	21	39	1.90
31956825--31956862	14	2.7	14	87	0	58	65	10	0	23	1.23
31960591--31960681	43	2.1	43	95	2	166	25	35	15	24	1.94
31966487--31966517	2	15.5	2	100	0	62	48	0	0	51	1.00
31969130--31969158	2	14.5	2	100	0	58	51	0	0	48	1.00
31968917--31969401	243	2.0	242	99	0	945	40	12	7	39	1.71
31969373--31969401	2	14.5	2	100	0	58	51	0	0	48	1.00
31974253--31974294	20	2.1	20	95	0	75	30	9	0	59	1.29
31984670--31984712	13	3.0	15	76	13	54	53	0	0	46	1.00
31989049--31989173	65	2.0	63	90	3	196	32	13	19	34	1.91
31998330--31998433	49	2.1	49	91	3	165	18	16	15	50	1.79
32018018--32018062	19	2.3	19	84	3	54	28	0	2	68	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32018585--32018692	31	3.6	30	82	5	121	37	1	2	57	1.24
32018759--32018822	33	1.9	33	83	0	83	45	6	12	35	1.67
32019967--32019996	14	2.1	14	93	0	51	46	6	0	46	1.29
32020686--32020733	19	2.7	18	84	9	62	47	0	2	50	1.12
32021382--32021422	15	2.6	16	85	14	50	31	0	12	56	1.36
32023483--32023525	19	2.3	19	84	4	52	16	6	6	69	1.32
32025262--32025299	19	2.0	19	89	0	58	28	0	2	68	1.03
32031795--32031851	29	1.9	30	89	7	89	64	0	1	33	1.04
32049830--32049952	61	2.0	61	100	0	246	40	19	14	25	1.89
32050962--32051101	73	2.0	71	86	12	193	51	5	8	33	1.56

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