genome.fa.s6.2.7.7.80.10.50.1000.40.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: Chr1
Parameters: 2 7 7 80 10 50 1000
Length:  35726063

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   

This is table  40  of  109  ( 13028 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)
12986613--12986750	70	2.0	70	97	0	258	50	12	15	21	1.76
12988319--12988355	19	1.9	19	100	0	74	40	5	21	32	1.76
12995286--12995346	31	2.0	31	100	0	122	27	16	16	39	1.90
12996291--12996956	114	5.9	114	85	1	802	32	18	22	25	1.97
12996291--12996956	342	2.0	340	86	1	929	32	18	22	25	1.97
12997371--12997435	22	3.0	22	81	2	78	13	0	40	46	1.44
12997394--12997427	14	2.4	14	90	5	50	14	0	41	44	1.45
12998765--12998805	6	6.8	6	91	0	64	17	46	14	21	1.84
12998765--12998804	12	3.3	12	96	0	71	17	45	15	22	1.85
13001152--13001220	21	3.3	21	81	0	66	37	14	40	7	1.74
13001206--13001232	12	2.2	12	100	0	54	40	18	40	0	1.51
13001669--13001957	85	3.4	84	83	4	310	24	19	21	33	1.97
13001664--13001959	43	7.0	42	81	4	301	24	19	21	34	1.96
13007469--13007511	13	3.5	13	81	18	65	48	16	0	34	1.46
13007467--13007513	23	2.0	23	100	0	94	46	17	0	36	1.48
13010248--13010299	18	2.8	18	82	5	59	53	1	5	38	1.36
13011697--13011888	50	3.9	49	74	1	150	22	25	23	28	1.99
13011489--13012049	267	2.1	267	92	0	915	25	26	19	27	1.99
13012084--13012257	88	2.0	88	89	0	267	25	25	21	27	1.99
13014001--13014043	12	3.7	12	87	3	61	0	11	2	86	0.67
13026369--13026418	20	2.5	20	77	9	57	18	6	14	62	1.51
13027522--13027606	41	2.1	41	95	0	152	34	14	21	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13027539--13027602	21	3.1	21	66	20	62	35	14	23	26	1.93
13041299--13041338	13	3.1	13	88	0	53	47	5	22	25	1.71
13060585--13060660	9	8.4	9	85	5	109	40	19	11	27	1.87
13060763--13060806	18	2.4	18	88	0	61	13	2	43	40	1.57
13067336--13067383	20	2.4	19	86	10	69	16	31	14	37	1.89
13067217--13067333	40	2.9	40	89	0	180	17	29	17	35	1.93
13069150--13069188	14	2.8	14	88	7	53	12	10	2	74	1.17
13070220--13070244	9	2.8	9	100	0	50	20	0	24	56	1.43
13071204--13071238	6	5.7	6	86	6	52	14	2	2	80	0.95
13071865--13071927	30	2.1	30	82	8	74	50	11	7	30	1.66
13078545--13078590	21	2.3	20	78	14	51	45	17	6	30	1.73
13079906--13079999	43	2.2	43	84	3	118	32	19	14	32	1.92
13094944--13095018	37	2.0	37	92	0	123	21	36	18	24	1.95
13099435--13099489	28	1.9	29	85	3	76	23	10	25	40	1.87
13105278--13105398	52	2.4	50	81	13	124	44	2	12	40	1.55
13105176--13105454	155	1.8	155	90	1	452	40	5	11	43	1.62
13112754--13113548	397	2.0	398	99	0	1583	37	20	6	35	1.78
13117408--13117449	16	2.6	16	88	11	59	2	30	0	66	1.04
13120294--13120350	29	2.0	29	82	6	71	38	8	8	43	1.67
13125417--13125457	19	2.2	18	86	4	55	26	4	2	65	1.25
13125417--13125465	18	2.6	19	87	3	64	26	4	2	67	1.19
13128633--13128657	6	4.2	6	100	0	50	16	16	0	68	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13153494--13153538	21	2.1	21	91	0	72	31	2	0	66	1.04
13164850--13164892	15	2.9	14	79	6	50	51	0	4	44	1.22
13173694--13173741	14	3.1	14	73	21	51	54	2	0	43	1.12
13173718--13173859	66	2.1	67	78	8	157	45	2	0	51	1.21
13173797--13173823	7	3.9	7	100	0	54	29	0	0	70	0.88
13173794--13173850	29	2.0	29	82	6	71	38	1	0	59	1.08
13173977--13174014	16	2.4	16	95	0	67	36	26	0	36	1.57
13174651--13175266	308	2.0	308	100	0	1232	29	16	12	40	1.86
13186720--13186747	2	14.0	2	100	0	56	50	0	0	50	1.00
13186819--13186897	14	5.3	14	72	19	61	32	6	20	40	1.77
13186885--13186922	20	1.9	20	100	0	76	31	5	15	47	1.68
13195100--13195148	19	2.6	20	76	23	61	69	2	0	28	1.00
13195219--13195256	20	1.9	20	88	0	58	60	0	5	34	1.19
13196355--13196392	18	2.1	19	85	5	51	39	26	10	23	1.87
13200362--13200431	36	1.9	36	100	0	140	28	17	15	38	1.90
13225524--13225564	20	2.0	21	85	4	57	48	4	2	43	1.37
13230686--13230716	2	15.5	2	100	0	62	0	48	0	51	1.00
13239863--13239963	29	3.4	29	80	10	107	30	2	17	48	1.62
13240182--13240219	17	2.2	18	85	4	51	26	7	15	50	1.72
13240209--13240296	36	2.4	36	82	0	104	28	10	20	40	1.85
13249101--13249148	24	2.0	23	92	4	78	41	16	20	20	1.90
13249165--13249277	48	2.3	50	77	9	124	38	23	21	15	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13249192--13249271	23	3.2	25	75	12	76	38	25	20	16	1.92
13249142--13249286	25	5.9	26	71	12	83	36	24	23	15	1.94
13250365--13250414	26	1.9	26	87	0	73	36	10	22	32	1.87
13251096--13251145	26	1.9	26	83	0	64	16	46	22	16	1.84
13264147--13265132	217	4.5	217	91	0	1569	27	19	23	28	1.99
13264237--13265088	44	19.6	43	68	14	297	28	19	23	28	1.99
13266736--13266771	3	12.3	3	94	5	65	30	0	0	69	0.89
13266950--13266983	15	2.3	15	89	0	50	17	5	5	70	1.28
13267064--13267105	19	2.2	20	82	4	50	30	7	11	50	1.66
13267885--13267915	4	7.8	4	100	0	62	51	0	0	48	1.00
13279278--13279308	16	1.9	16	93	0	53	48	3	0	48	1.17
13284052--13284092	6	6.8	6	94	0	64	17	0	9	73	1.09
13284996--13285120	41	3.0	41	100	0	250	27	16	21	34	1.95
13286251--13286284	17	2.0	17	88	0	50	52	8	5	32	1.56
13287105--13287153	14	3.6	14	77	2	55	42	32	0	24	1.55
13287156--13287206	14	3.7	13	79	12	50	31	0	21	47	1.51
13287368--13287444	35	2.2	35	90	0	118	28	3	24	42	1.72
13287381--13287453	35	2.1	35	89	0	110	31	2	23	42	1.68
13287453--13287497	14	3.3	14	81	6	56	15	0	35	48	1.45
13288285--13288309	12	2.1	12	100	0	50	60	8	0	32	1.26
13291275--13291318	23	1.9	23	100	0	88	22	9	0	68	1.18
13296072--13296133	31	2.0	31	96	0	115	32	11	25	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13300762--13300877	50	2.3	50	95	0	205	30	14	25	30	1.95
13300790--13300938	44	3.1	50	81	8	150	34	14	20	30	1.93
13300854--13301022	44	4.0	44	73	18	160	36	16	17	30	1.92
13300988--13301276	138	2.1	138	86	1	391	34	16	20	28	1.94
13301089--13301277	44	4.2	44	69	12	139	35	16	20	26	1.94
13301135--13301359	94	2.4	94	80	5	249	36	18	17	27	1.93
13301301--13301431	44	3.0	43	77	6	129	36	16	17	29	1.92
13303142--13303181	21	1.9	22	85	10	57	27	17	10	45	1.80
13303402--13303441	13	3.3	13	73	20	50	20	10	0	70	1.16
13303398--13303442	23	2.0	22	95	4	81	20	8	0	71	1.12
13304988--13305021	17	1.9	18	88	5	52	35	14	8	41	1.77
13315614--13315657	22	2.0	23	86	4	63	36	6	11	45	1.67
13326114--13326160	16	2.9	16	100	0	94	57	10	6	25	1.56
13329218--13329426	92	2.3	91	86	5	278	45	3	3	46	1.39
13329354--13329401	26	1.9	25	84	16	64	45	0	2	52	1.12
13329576--13329617	15	2.7	16	82	14	52	45	0	2	52	1.13
13329567--13329608	15	2.9	15	82	10	52	47	0	0	52	1.00
13329831--13329895	16	4.1	16	84	7	87	23	32	6	38	1.79
13329838--13329900	32	2.0	32	93	0	108	25	31	4	38	1.77
13332895--13333104	106	2.0	107	99	0	413	41	8	10	38	1.71
13333390--13333432	22	2.0	22	100	0	86	46	27	2	23	1.64
13333842--13334072	115	2.0	116	99	0	455	33	7	18	40	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13336042--13336196	54	2.9	52	81	9	179	30	18	25	25	1.97
13340939--13340980	22	2.0	22	90	4	68	54	16	14	14	1.71
13348876--13348927	21	2.5	21	83	0	68	28	5	32	32	1.81
13349045--13349524	240	2.0	240	96	1	892	42	6	5	45	1.52
13354213--13354338	21	5.9	21	84	1	153	53	12	30	3	1.57
13392702--13392769	35	1.9	35	87	0	100	30	22	16	30	1.95
13393731--13393755	2	12.5	2	100	0	50	52	0	0	48	1.00
13398551--13398586	14	2.7	13	91	4	54	27	5	11	55	1.57
13398917--13398948	17	1.9	16	93	6	55	50	0	0	50	1.00
13401540--13401659	49	2.4	49	91	0	186	23	23	13	40	1.90

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