genome.fa.s7.2.7.7.80.10.50.1000.54.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  54  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)
18158701--18159522	158	5.3	154	86	6	1035	35	14	11	38	1.83
18172502--18172526	13	1.9	13	100	0	50	32	4	24	40	1.73
18177569--18177596	14	2.0	14	100	0	56	21	21	7	50	1.72
18178483--18178525	14	3.3	13	90	6	61	30	25	13	30	1.94
18178960--18179014	3	18.3	3	96	0	101	32	1	0	65	1.03
18179222--18179257	19	1.9	18	88	5	54	22	8	11	58	1.59
18181685--18181717	17	2.0	17	94	5	59	30	12	3	54	1.52
18182669--18182813	67	2.2	67	94	0	254	42	10	12	35	1.77
18185737--18185805	28	2.4	29	88	7	97	63	1	0	34	1.03
18197267--18197306	18	2.1	20	86	9	57	45	2	0	52	1.14
18206136--18206224	25	3.5	24	78	14	90	82	0	13	4	0.83
18206136--18206224	26	3.4	25	79	15	92	82	0	13	4	0.83
18206156--18206224	7	9.6	7	73	17	52	82	0	14	2	0.78
18206145--18206211	19	3.6	19	78	11	68	82	0	16	1	0.75
18206148--18206225	27	3.2	25	76	20	85	80	0	16	2	0.82
18207165--18207216	24	2.2	24	82	6	61	36	9	21	32	1.86
18207491--18208060	89	6.5	89	72	10	284	30	24	22	23	1.99
18207491--18207714	45	5.0	45	80	3	236	29	22	22	25	1.99
18207747--18208060	45	7.0	46	73	10	249	29	26	22	21	1.99
18207734--18208060	89	3.7	89	87	2	460	30	25	22	21	1.98
18208260--18208639	44	8.7	43	70	13	175	31	20	19	28	1.97
18208216--18208588	129	2.8	129	84	4	437	30	21	19	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18209291--18209315	11	2.3	11	100	0	50	44	16	16	24	1.86
18211311--18211343	17	2.0	17	94	5	59	48	21	12	18	1.80
18213271--18213298	14	2.0	14	100	0	56	28	35	28	7	1.84
18215080--18215149	3	22.7	3	71	5	50	32	5	7	54	1.51
18215061--18215144	18	4.5	18	75	7	60	38	3	5	52	1.43
18215981--18216122	73	2.0	72	88	6	216	28	20	18	32	1.96
18222289--18222319	2	15.5	2	100	0	62	51	0	0	48	1.00
18225522--18225564	22	2.0	22	86	9	61	41	0	2	55	1.12
18226047--18226076	13	2.4	13	94	5	53	0	26	0	73	0.84
18228944--18229029	33	2.6	33	92	3	138	39	2	3	54	1.30
18231070--18231112	22	2.0	22	90	0	68	9	13	27	48	1.73
18231184--18231355	42	4.1	42	88	7	251	31	25	19	24	1.98
18245166--18245218	13	4.1	12	76	13	52	32	7	24	35	1.84
18245166--18245218	26	2.0	26	88	0	79	32	7	24	35	1.84
18254409--18254587	50	3.5	50	79	4	160	25	20	29	24	1.99
18256950--18257108	64	2.5	64	86	0	219	23	30	22	24	1.99
18266754--18266778	11	2.3	11	100	0	50	16	28	8	48	1.74
18275131--18275168	20	1.9	20	89	10	60	42	13	5	39	1.66
18278724--18278776	24	2.2	24	89	0	79	52	7	3	35	1.48
18280962--18281047	40	2.3	36	80	13	93	32	5	9	52	1.57
18284110--18284554	160	2.8	155	73	14	463	30	12	6	49	1.67
18284454--18284651	98	2.0	99	85	7	271	28	14	6	51	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18285822--18285876	3	18.7	3	83	10	69	27	3	1	67	1.17
18285818--18285894	9	8.2	9	75	13	57	27	2	2	67	1.17
18286210--18286263	22	2.4	22	84	9	56	35	5	3	55	1.41
18287855--18287898	14	3.4	14	76	23	60	0	29	0	70	0.88
18287855--18287959	4	26.5	4	70	24	55	0	30	0	68	0.96
18287856--18287965	57	1.9	58	83	12	147	1	31	0	66	1.02
18287839--18287960	24	5.5	24	72	22	97	0	31	0	66	1.03
18287866--18287960	10	9.0	10	72	25	63	1	30	0	68	0.97
18287913--18287959	14	3.4	14	80	16	53	0	27	0	72	0.85
18294806--18294859	24	2.2	25	83	6	65	48	1	3	46	1.30
18294841--18294880	16	2.5	16	91	0	62	47	2	7	42	1.45
18294883--18295002	59	2.1	59	90	1	197	41	5	9	44	1.58
18295068--18295110	23	1.9	22	90	4	68	60	2	0	37	1.10
18295174--18295244	31	2.2	33	82	10	83	22	30	16	29	1.96
18296249--18296387	44	3.2	44	64	13	106	23	25	24	25	2.00
18296245--18296963	88	8.2	88	91	1	1077	26	24	24	25	2.00
18297472--18297510	21	1.9	21	89	5	62	51	30	2	15	1.57
18299292--18299497	112	1.8	110	88	6	315	33	14	18	33	1.92
18300285--18300372	21	4.1	21	72	15	74	0	30	3	65	1.09
18300328--18300385	10	5.7	10	72	25	50	0	31	1	67	1.01
18300328--18300379	23	2.2	24	93	3	88	0	30	1	67	1.02
18301484--18301569	40	2.3	36	80	13	93	32	5	9	52	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18307199--18307228	16	1.9	15	93	6	51	26	3	0	70	1.03
18307040--18307559	165	3.2	162	72	14	544	29	11	6	52	1.63
18307234--18307279	23	1.9	25	86	8	69	26	4	6	63	1.38
18307017--18307608	325	1.8	325	95	0	1069	30	10	6	52	1.61
18309640--18309696	16	3.7	15	79	6	51	26	5	0	68	1.11
18310229--18310266	19	2.0	20	84	5	51	26	2	13	57	1.49
18311704--18311745	19	2.2	19	83	8	50	28	21	9	40	1.84
18313629--18313669	20	2.0	20	90	9	66	14	14	4	65	1.42
18314589--18314630	7	6.0	7	81	18	52	71	0	14	14	1.15
18314589--18314630	21	2.0	21	90	9	68	71	0	14	14	1.15
18315930--18316420	44	11.1	44	76	8	453	30	13	22	32	1.93
18315919--18316420	88	5.7	88	83	4	625	31	13	22	33	1.92
18315930--18316420	133	3.7	132	74	8	467	30	13	22	32	1.93
18315919--18316405	177	2.8	176	82	5	606	31	12	22	32	1.92
18316439--18316566	45	2.9	45	77	12	122	30	20	23	25	1.98
18315946--18316466	266	2.0	265	84	5	642	31	14	22	31	1.94
18316500--18316655	44	3.6	45	69	20	132	30	21	19	28	1.98
18319605--18320146	163	3.4	161	72	15	542	30	11	7	51	1.65
18319824--18319869	24	1.9	24	86	8	67	23	2	8	65	1.32
18320111--18320140	16	1.9	15	93	6	51	26	3	0	70	1.03
18319548--18320306	322	2.4	322	95	1	1380	29	11	7	50	1.67
18320065--18320559	247	2.0	251	88	5	736	30	12	6	51	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18321443--18321612	8	22.0	8	68	24	57	0	30	0	69	0.93
18321460--18321611	4	37.8	4	74	22	76	0	27	0	71	0.90
18321460--18321612	10	14.8	10	71	18	93	0	28	0	71	0.91
18321469--18321612	14	10.0	13	72	20	85	0	28	0	70	0.92
18321460--18321603	34	4.1	34	79	11	134	0	27	0	72	0.90
18321464--18321612	44	3.7	38	76	20	144	0	28	0	71	0.91
18335673--18335700	12	2.3	12	100	0	56	32	25	25	17	1.97
18336799--18336983	60	3.2	59	87	5	254	35	16	15	31	1.91
18339261--18339609	114	3.1	113	87	8	501	31	18	15	33	1.93
18339377--18339652	114	2.6	101	82	12	320	33	18	15	32	1.92
18343794--18343860	35	1.9	35	93	0	116	26	8	31	32	1.87
18347353--18347451	51	2.0	48	94	5	171	33	2	17	47	1.59
18367232--18367342	1	111.0	1	67	0	60	83	0	12	3	0.76
18367232--18367349	5	25.0	5	79	14	92	82	0	14	3	0.80
18367242--18367348	13	8.1	13	77	13	94	82	0	14	3	0.81
18367232--18367342	27	4.0	27	77	11	125	83	0	12	3	0.76
18367233--18367349	28	4.2	28	77	15	125	82	0	14	3	0.81
18368507--18369051	87	6.4	87	79	8	582	29	21	23	26	1.99
18368504--18369092	44	13.8	40	69	16	271	28	21	23	26	1.99
18368672--18369154	127	3.8	127	94	0	840	28	21	22	27	1.99
18368500--18369051	214	2.6	216	78	7	669	29	21	23	26	1.99
18377735--18377999	43	6.3	43	76	5	211	29	26	17	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18377735--18377981	42	5.9	43	77	3	227	27	26	18	27	1.98
18377780--18377999	85	2.6	84	81	5	228	30	26	17	25	1.97
18383034--18383113	40	2.0	40	100	0	160	37	22	10	30	1.87
18383301--18383330	15	2.0	15	93	0	51	26	36	0	36	1.57
18383831--18383871	20	2.0	20	100	0	82	24	24	9	41	1.85
18384079--18384191	9	12.6	9	72	10	97	36	0	17	45	1.55
18384088--18384182	27	3.5	27	78	5	120	36	1	16	45	1.55
18384078--18384191	54	2.1	54	95	0	201	36	0	17	44	1.55
18384202--18384226	13	1.9	13	100	0	50	44	8	0	48	1.32
18384471--18384503	17	1.9	17	100	0	66	48	6	15	30	1.69

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