genome.fa.s7.2.7.7.80.10.50.1000.30.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: Chr3
Parameters: 2 7 7 80 10 50 1000
Length:  26558743

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   

This is table  30  of  79  ( 9388 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)
10336936--10336975	19	2.2	19	86	4	55	62	10	0	27	1.27
10339757--10339801	22	2.2	20	84	8	54	62	11	22	4	1.46
10339935--10340022	22	4.1	22	95	4	155	32	18	9	39	1.82
10340775--10341028	100	2.5	100	92	1	420	27	22	19	30	1.98
10340777--10341033	50	5.1	50	67	6	162	27	23	19	29	1.98
10341110--10341360	128	1.9	130	92	3	425	24	24	20	30	1.99
10341294--10341435	44	3.2	44	86	5	155	26	27	17	28	1.98
10341329--10341446	44	2.7	44	86	5	159	26	28	18	26	1.98
10354381--10354673	42	7.0	42	94	2	466	26	19	20	32	1.97
10354763--10354804	21	2.0	22	85	4	59	50	28	11	9	1.70
10356258--10356321	22	2.9	23	83	4	60	40	17	6	35	1.75
10356267--10356347	22	3.8	22	88	6	105	35	19	8	35	1.83
10358780--10358997	108	2.0	109	99	0	429	34	11	17	35	1.87
10362540--10362620	27	3.0	28	87	5	114	30	22	28	18	1.97
10362685--10362721	19	1.9	19	88	0	56	29	10	0	59	1.31
10363148--10363246	28	3.5	28	87	5	146	37	12	3	47	1.56
10363312--10363389	27	2.9	27	83	5	97	28	23	29	19	1.98
10363454--10363490	19	1.9	19	88	0	56	29	10	0	59	1.31
10363596--10363676	27	3.0	28	87	5	114	30	22	28	18	1.97
10363750--10363819	19	3.7	19	86	3	106	35	10	0	54	1.34
10364078--10364140	18	3.4	19	80	6	85	53	0	11	34	1.36
10364082--10364141	19	3.2	19	80	4	77	55	0	11	33	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10364216--10364293	27	2.9	28	84	5	99	19	29	23	28	1.98
10364217--10364302	27	3.2	26	83	4	93	19	26	23	30	1.98
10366452--10366500	15	3.4	14	83	5	55	16	6	8	69	1.33
10366471--10366499	15	1.9	15	100	0	58	13	6	10	68	1.37
10366601--10366648	25	2.0	25	84	12	64	31	2	8	58	1.39
10367810--10367862	23	2.3	23	83	3	70	45	3	1	49	1.31
10373185--10373669	240	2.0	239	92	0	808	37	19	14	28	1.91
10382953--10382996	14	3.3	12	84	15	52	70	0	2	27	0.99
10385983--10386708	35	19.7	35	78	7	513	37	14	21	26	1.92
10385973--10386663	38	18.7	37	76	10	478	37	15	20	26	1.92
10385964--10386658	73	9.4	77	77	8	560	37	14	21	26	1.92
10385983--10386708	225	3.3	219	80	7	729	37	14	21	26	1.92
10397815--10397862	24	2.0	25	83	4	62	54	10	2	33	1.46
10405875--10405918	20	2.1	21	91	4	72	22	11	6	59	1.55
10418274--10418308	2	17.5	2	93	0	61	45	0	2	51	1.16
10434930--10435548	309	2.0	310	99	0	1231	39	7	9	43	1.65
10449566--10449655	43	2.1	43	100	0	180	66	6	15	11	1.42
10454450--10454754	161	1.9	159	85	2	414	32	14	17	36	1.89
10455674--10455738	31	2.1	31	91	0	103	50	10	13	24	1.74
10457263--10457304	18	2.5	17	85	11	52	26	57	0	16	1.40
10457168--10457387	88	2.5	90	81	2	239	28	46	2	23	1.64
10458336--10458413	30	2.7	28	75	11	77	61	23	2	12	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10459078--10459131	18	3.0	18	78	13	58	75	0	18	5	0.98
10462045--10462075	11	2.8	11	100	0	62	29	29	25	16	1.96
10476736--10476795	28	2.1	28	84	0	75	30	21	18	30	1.97
10477686--10477735	20	2.4	21	86	3	66	44	8	0	48	1.32
10481137--10481171	17	2.1	17	100	0	70	60	11	5	22	1.52
10484373--10484426	12	4.6	11	77	11	54	61	33	0	5	1.19
10484373--10484426	24	2.3	23	80	3	63	61	33	0	5	1.19
10487217--10487258	18	2.3	19	76	12	52	28	23	4	42	1.74
10489714--10489837	62	2.0	62	100	0	248	33	8	22	35	1.84
10491358--10491386	6	4.8	6	100	0	58	34	0	17	48	1.47
10493518--10493558	15	2.5	17	80	15	50	36	2	0	60	1.10
10494253--10494303	16	3.1	15	79	17	57	27	0	7	64	1.21
10494261--10494300	18	2.4	16	91	8	62	25	0	5	70	1.08
10503447--10503488	21	2.0	21	86	9	59	64	9	4	21	1.42
10503492--10503524	16	2.1	16	94	0	57	54	21	0	24	1.45
10503785--10503849	32	2.1	30	82	5	76	4	27	0	67	1.10
10515865--10515898	15	2.3	15	89	0	50	17	29	2	50	1.61
10517139--10517179	21	2.0	21	95	0	73	41	17	4	36	1.71
10530969--10531002	5	6.8	5	86	0	50	47	14	17	20	1.83
10531254--10531311	29	2.0	29	82	3	71	41	0	37	20	1.53
10531670--10531706	9	4.1	9	92	0	65	29	10	13	45	1.77
10533766--10533790	11	2.3	11	100	0	50	68	16	0	16	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10543750--10543893	62	2.3	63	82	8	161	50	7	11	29	1.66
10543812--10543927	60	1.9	62	84	7	157	44	12	10	32	1.75
10550968--10551011	23	1.9	23	85	0	61	2	22	2	72	1.07
10553840--10553886	24	2.0	23	84	12	60	70	2	8	19	1.24
10562891--10563016	59	2.1	59	82	0	144	50	12	9	26	1.71
10562982--10563260	88	3.3	86	82	6	318	41	13	14	30	1.84
10563228--10563299	35	2.1	35	86	5	101	43	13	20	22	1.87
10563323--10563557	87	2.7	86	81	5	267	43	12	14	28	1.82
10563368--10563559	88	2.2	87	83	2	260	42	12	14	30	1.83
10562968--10563692	293	2.5	291	88	1	1110	42	12	14	30	1.83
10563727--10564028	86	3.5	86	81	8	330	39	10	15	34	1.82
10564151--10564198	18	2.6	19	80	6	64	64	0	0	35	0.94
10565571--10565604	2	17.0	2	88	11	52	50	0	2	47	1.16
10567497--10567524	13	2.2	13	100	0	56	28	35	0	35	1.58
10572317--10572345	14	2.1	14	100	0	58	34	0	20	44	1.52
10573446--10573557	41	2.7	41	84	0	152	23	23	23	30	1.99
10576972--10576996	2	12.5	2	100	0	50	48	0	0	52	1.00
10577282--10577316	6	5.7	6	93	6	61	14	0	48	37	1.44
10578125--10578149	2	12.5	2	100	0	50	48	0	0	52	1.00
10578435--10578469	6	5.7	6	93	6	61	14	0	48	37	1.44
10581571--10581748	49	3.6	49	97	0	329	46	8	2	42	1.50
10582166--10582203	18	2.1	18	90	0	58	42	10	26	21	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10584017--10584062	11	4.2	11	78	18	51	43	0	32	23	1.54
10584023--10584065	10	4.0	10	82	14	50	46	0	30	23	1.52
10586518--10586681	71	2.3	69	87	11	235	20	0	13	65	1.26
10586668--10587183	102	4.9	101	81	8	536	27	1	14	56	1.49
10586987--10587196	111	1.9	108	88	2	312	27	1	14	56	1.49
10592936--10593010	37	2.0	37	92	5	125	30	5	17	46	1.70
10601518--10601566	16	3.3	15	79	17	50	51	4	0	44	1.20
10608890--10608938	18	2.7	18	78	6	55	53	0	0	46	1.00
10608958--10609076	39	3.1	39	66	22	113	49	9	1	39	1.45
10608917--10609076	78	2.0	79	98	1	313	48	7	2	41	1.45
10613374--10613412	6	6.5	6	96	0	69	84	0	12	2	0.72
10615529--10616249	9	80.1	9	100	0	1442	44	11	11	33	1.75
10617637--10617662	9	2.9	9	100	0	52	23	7	11	57	1.59
10619087--10619286	56	3.9	50	78	10	192	25	25	19	30	1.98
10623203--10623239	18	2.1	18	89	0	56	18	21	5	54	1.64
10635661--10635704	22	2.0	22	86	4	63	43	4	18	34	1.70
10643515--10643585	25	2.8	25	86	0	97	38	21	14	26	1.91
10648660--10648700	21	2.0	21	85	0	55	26	36	9	26	1.88
10657558--10657608	19	2.8	17	75	18	50	58	0	9	31	1.30
10658448--10658567	42	2.8	43	84	2	136	25	15	25	33	1.95
10659112--10659216	48	2.2	48	82	3	131	24	17	15	42	1.87
10664212--10664336	33	3.5	33	75	17	133	34	28	17	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10664130--10664340	75	2.8	74	91	3	325	32	27	18	21	1.97
10664315--10664367	27	2.0	27	96	0	97	26	28	24	20	1.99
10667304--10667381	36	2.2	35	90	6	129	43	12	26	16	1.84
10674847--10674875	14	2.0	15	93	6	51	31	0	0	68	0.89
10685635--10685684	21	2.5	20	80	3	55	0	22	2	76	0.89
10700432--10700470	20	2.0	20	94	0	69	48	0	2	48	1.15
10700491--10700577	33	2.7	32	77	12	95	47	17	9	26	1.77
10700553--10700629	14	5.0	15	71	20	52	42	15	9	32	1.78
10700569--10700608	20	2.0	20	90	0	62	50	12	10	27	1.72
10700557--10700623	34	1.9	35	90	3	109	46	13	8	31	1.74

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