genome.fa.s7.2.7.7.80.10.50.1000.27.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  27  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)
9274882--9275191	40	7.8	40	90	0	440	32	17	30	19	1.95
9281507--9281557	21	2.4	22	80	12	61	13	1	13	70	1.25
9286212--9286462	45	5.5	46	85	4	312	23	20	13	43	1.87
9286212--9286462	91	2.8	91	84	4	344	23	20	13	43	1.87
9286751--9286783	15	2.1	17	88	11	52	33	27	0	39	1.57
9289247--9289678	49	8.7	51	77	11	187	29	16	25	28	1.97
9289249--9289475	97	2.3	100	84	6	293	27	14	27	29	1.96
9289448--9289672	49	4.6	49	94	0	369	30	17	24	28	1.97
9305056--9305101	14	3.5	14	74	14	53	60	2	4	32	1.28
9307935--9307973	19	2.1	19	90	0	60	46	0	25	28	1.53
9311867--9311960	47	2.0	47	95	0	170	39	18	11	30	1.86
9313156--9313408	132	1.9	133	87	2	375	45	5	17	31	1.71
9316599--9316820	68	3.3	68	85	0	282	36	16	23	23	1.94
9323603--9323653	23	2.2	23	89	0	75	27	7	21	43	1.80
9340658--9340715	25	2.3	26	80	14	68	36	24	13	25	1.92
9348364--9348403	20	2.0	20	90	0	62	5	30	25	40	1.77
9351687--9351738	26	2.0	26	85	7	70	40	3	17	38	1.68
9352508--9352563	28	2.0	28	100	0	112	32	10	25	32	1.90
9355398--9355791	200	2.0	200	92	0	662	29	13	19	37	1.90
9360244--9360622	199	1.9	199	93	2	663	28	13	20	38	1.90
9362571--9362964	200	2.0	200	91	1	646	28	14	20	37	1.91
9369707--9369934	113	2.0	113	100	0	456	27	16	21	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9372029--9372114	40	2.2	40	91	0	136	30	9	31	29	1.88
9372242--9372286	10	4.3	10	78	10	54	37	2	0	60	1.09
9376804--9376943	25	5.6	25	73	12	76	22	22	20	35	1.96
9376816--9376943	50	2.6	49	80	10	145	22	21	21	34	1.97
9377085--9377136	26	2.0	26	85	7	70	40	5	17	36	1.73
9389164--9389210	23	2.0	23	100	0	94	42	4	4	48	1.42
9397929--9398032	52	2.0	52	86	3	147	26	25	14	32	1.95
9399236--9399271	18	2.0	18	88	0	54	66	0	5	27	1.13
9400215--9400249	6	5.8	6	100	0	70	68	0	0	31	0.90
9401004--9401057	20	2.7	21	78	18	62	40	9	0	50	1.35
9401004--9401075	18	3.8	19	75	17	69	37	11	0	51	1.38
9401868--9401934	29	2.3	29	84	2	82	52	4	1	41	1.31
9405674--9405851	65	2.7	65	100	0	356	54	3	11	29	1.55
9419463--9419499	18	2.2	18	85	9	51	37	16	8	37	1.78
9425343--9425382	20	2.0	20	85	0	53	32	17	22	27	1.96
9430484--9430539	28	2.0	28	85	0	76	46	25	7	21	1.76
9430882--9430936	28	2.0	28	82	7	67	61	1	30	5	1.29
9437360--9437400	16	2.7	16	88	7	59	51	0	7	41	1.30
9443130--9443154	13	1.9	13	100	0	50	20	16	8	56	1.65
9443119--9443225	53	2.1	51	84	7	135	34	12	5	47	1.64
9443804--9443866	23	2.7	24	79	16	87	52	22	7	17	1.70
9452758--9453051	59	5.0	59	95	1	484	53	9	4	31	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9456119--9456175	10	5.8	10	73	19	57	70	1	1	26	1.07
9456118--9456178	29	2.1	28	85	8	79	72	1	1	24	1.03
9456895--9456966	26	2.8	26	74	12	69	43	2	2	51	1.30
9459255--9459318	31	2.1	31	91	5	103	29	3	0	67	1.06
9459262--9459317	18	3.3	18	67	25	50	30	1	0	67	1.01
9461231--9461351	59	2.1	59	95	0	215	33	4	7	55	1.47
9469418--9469457	20	2.0	21	85	5	55	57	5	27	10	1.52
9469852--9469896	21	2.1	22	84	12	58	60	0	2	37	1.09
9469855--9469897	16	2.6	16	82	14	52	55	0	2	41	1.12
9472988--9473132	25	5.9	24	78	11	134	32	20	24	22	1.98
9472972--9473133	49	3.3	48	86	5	207	32	20	24	23	1.98
9473019--9473132	24	4.6	25	81	11	128	32	21	24	21	1.98
9474771--9474809	21	1.9	21	89	5	62	25	23	23	28	1.99
9478401--9478457	28	2.0	28	83	6	71	35	3	10	50	1.54
9479825--9479906	42	2.0	42	90	4	130	14	37	26	20	1.92
9483343--9483380	3	12.7	3	100	0	76	65	0	0	34	0.93
9483900--9483936	18	2.1	18	100	0	74	27	27	10	35	1.90
9489679--9489728	21	2.4	21	93	0	82	40	14	26	20	1.90
9491073--9491121	25	2.0	25	91	0	80	22	24	20	32	1.98
9492381--9492460	29	2.7	27	78	17	81	45	6	12	36	1.67
9497947--9498269	47	7.0	47	88	8	461	43	15	12	28	1.82
9498006--9498080	25	3.1	25	81	18	113	45	14	12	28	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9497947--9498269	132	2.4	136	88	7	451	43	15	12	28	1.82
9502219--9502272	21	2.5	22	76	8	67	22	1	5	70	1.18
9505656--9505701	21	2.2	21	92	0	74	41	4	28	26	1.74
9507732--9507929	30	6.6	30	76	11	138	39	12	25	22	1.89
9507848--9507927	29	2.7	30	82	5	99	41	11	26	21	1.86
9507709--9507984	120	2.3	121	82	2	342	39	14	23	22	1.91
9509057--9509086	12	2.5	12	94	0	51	23	43	26	6	1.78
9509190--9509374	86	2.2	86	90	0	289	20	28	27	24	1.99
9515256--9515321	29	2.3	29	84	5	89	37	13	24	24	1.91
9515313--9515506	30	6.4	30	75	13	157	40	11	25	22	1.87
9515256--9515536	120	2.4	119	84	3	370	39	13	24	22	1.90
9515348--9515535	60	3.1	58	68	16	150	39	13	24	22	1.90
9515499--9515554	29	1.9	29	85	0	76	35	16	23	25	1.94
9530123--9530171	8	6.2	8	78	4	55	18	10	16	55	1.69
9530110--9530164	23	2.4	23	90	0	83	21	10	14	52	1.72
9530177--9530222	25	1.9	23	82	8	56	15	15	21	47	1.81
9538014--9538055	22	1.9	22	90	0	66	33	0	7	59	1.25
9539568--9539652	43	2.0	43	97	0	161	25	10	42	21	1.85
9545028--9546247	406	3.0	406	93	0	2066	26	21	16	35	1.94
9549186--9549229	18	2.4	18	88	0	61	6	4	22	65	1.35
9549205--9549266	21	2.9	21	85	2	70	14	9	16	59	1.60
9550108--9550183	9	8.2	9	72	17	50	63	3	0	32	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9550108--9550149	21	2.0	20	86	13	59	64	2	0	33	1.07
9550141--9550191	27	2.0	26	85	14	72	62	3	0	33	1.13
9550189--9550261	32	2.3	33	81	11	89	54	5	1	38	1.32
9550240--9550278	12	3.1	13	85	14	55	69	0	2	28	1.02
9550264--9550317	20	2.8	19	72	8	56	62	1	3	31	1.23
9550738--9550778	21	1.9	22	90	5	66	29	9	0	60	1.28
9550806--9550845	21	1.9	21	84	0	53	35	2	10	52	1.48
9550867--9550899	17	2.0	17	94	5	59	39	0	0	60	0.97
9552174--9552226	26	2.0	26	96	0	97	67	0	3	28	1.07
9552175--9552253	26	3.1	23	80	14	77	64	0	3	31	1.11
9557736--9558025	44	6.7	43	74	14	170	28	24	20	26	1.99
9557815--9558110	84	3.5	84	74	8	299	28	22	20	27	1.99
9557783--9558176	173	2.3	173	88	3	589	28	24	19	27	1.99
9557783--9558153	44	8.6	43	72	8	229	29	23	20	26	1.99
9558119--9558308	44	4.3	44	70	8	109	25	25	18	30	1.98
9572723--9572772	10	5.0	10	77	0	55	62	2	2	34	1.18
9572902--9572951	10	5.0	10	77	0	55	62	2	2	34	1.18
9572698--9573056	179	2.0	179	98	1	693	38	10	8	41	1.72
9573165--9573284	20	6.0	19	73	17	100	39	4	3	53	1.37
9573165--9573284	41	3.0	39	78	8	125	39	4	3	53	1.37
9574007--9574548	272	2.0	273	88	2	811	28	13	14	43	1.82
9574664--9574694	11	2.8	11	90	0	53	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9575815--9576133	94	3.4	94	99	0	620	44	1	3	50	1.28
9576314--9576385	36	2.0	36	86	5	101	34	16	20	27	1.95
9576405--9576477	23	3.3	23	67	21	64	21	27	6	43	1.78
9577271--9577358	44	2.0	44	90	0	140	46	4	11	37	1.60
9584444--9584518	38	2.0	38	89	0	114	30	38	1	29	1.66
9590739--9591043	82	3.7	82	89	0	432	33	23	16	25	1.96
9590739--9591047	41	7.5	41	84	4	381	33	23	16	25	1.96
9593664--9593783	57	2.1	58	89	6	190	27	20	7	45	1.78
9600076--9600210	29	4.6	29	79	0	135	22	17	10	49	1.76
9600070--9600210	58	2.4	59	84	1	176	23	16	9	50	1.75

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