genome.fa.s4.2.7.7.80.10.50.1000.26.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: chr4
Parameters: 2 7 7 80 10 50 1000
Length:  31929104

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   

This is table  26  of  82  ( 9773 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)
8938347--8938433	27	3.4	24	76	16	68	51	13	22	11	1.73
8940332--8940362	11	2.8	11	90	0	53	35	0	9	54	1.33
8942886--8942918	2	16.5	2	100	0	66	51	0	0	48	1.00
8944235--8944297	33	1.9	32	81	15	76	60	7	30	1	1.35
8944771--8944863	27	3.4	27	83	1	114	50	17	21	10	1.76
8948565--8948670	43	2.5	43	92	0	167	24	32	17	25	1.97
8964943--8965062	58	2.1	57	92	1	195	40	18	6	34	1.77
8965654--8965754	51	2.0	51	94	3	177	39	13	4	41	1.67
8972050--8972077	11	2.5	11	100	0	56	53	14	0	32	1.41
8972071--8972123	22	2.4	22	84	6	72	41	20	7	30	1.80
8974604--8974656	28	1.9	27	88	3	79	28	22	18	30	1.98
8978822--8978990	29	5.7	29	75	12	139	37	10	14	37	1.80
8979132--8979165	17	2.0	17	88	11	52	38	2	11	47	1.55
8983843--8983884	19	2.2	19	83	8	50	59	0	19	21	1.38
8984840--8984896	2	28.5	2	100	0	114	49	0	0	50	1.00
8991220--8991365	40	3.7	40	88	3	190	22	39	15	22	1.91
8991298--8991361	19	3.4	19	68	8	58	20	40	17	21	1.91
8994584--8994671	25	3.5	24	84	6	113	17	19	15	47	1.82
8994953--8995001	25	2.0	25	88	8	73	30	28	6	34	1.82
8996484--8996559	36	2.1	36	87	0	107	23	14	36	25	1.93
9002856--9002965	43	2.6	43	84	5	143	20	36	19	24	1.95
9029875--9030050	67	2.6	68	83	5	207	34	26	11	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9032551--9032608	20	2.6	23	76	18	68	36	20	5	37	1.75
9049127--9049186	28	2.1	28	84	6	75	41	18	8	31	1.80
9050434--9050485	17	2.9	16	76	20	50	40	11	1	46	1.51
9051773--9051832	27	2.2	27	88	5	86	10	26	13	50	1.73
9051825--9051871	5	9.8	5	86	4	53	4	17	0	78	0.90
9052036--9052113	34	2.3	34	82	8	88	37	26	8	26	1.86
9052139--9052236	35	2.8	35	81	3	108	42	29	4	23	1.72
9055148--9055309	67	2.4	67	84	2	209	32	25	14	28	1.94
9055185--9055308	32	3.8	32	72	14	90	33	25	14	26	1.94
9056100--9056258	80	2.0	79	97	0	291	33	13	11	40	1.81
9058733--9058807	33	2.2	35	81	9	93	32	22	12	33	1.91
9067111--9067229	37	3.2	37	86	0	175	24	36	9	29	1.86
9069218--9069417	100	2.0	99	93	0	337	28	20	8	42	1.81
9073977--9074012	17	2.2	17	90	5	56	33	5	8	52	1.55
9074567--9074685	37	3.2	37	86	4	177	24	37	8	29	1.85
9074678--9074721	20	2.1	21	87	4	63	45	27	0	27	1.54
9081748--9081850	38	2.6	39	82	8	122	23	38	17	20	1.93
9086162--9086215	28	1.9	29	85	7	76	27	18	24	29	1.98
9089153--9089429	74	3.8	72	79	6	277	20	19	18	41	1.90
9096983--9097023	13	3.1	13	89	3	55	51	19	9	19	1.74
9096993--9097025	13	2.5	13	95	0	57	54	18	9	18	1.69
9101142--9101411	74	3.7	72	81	6	278	21	18	16	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9101142--9101411	147	1.8	147	86	3	391	21	18	16	43	1.88
9102240--9102285	20	2.3	21	85	11	69	0	28	0	71	0.86
9103169--9103306	39	3.7	38	87	5	156	23	13	37	26	1.91
9141366--9141411	19	2.4	20	82	10	60	56	0	0	43	0.99
9141815--9141852	20	1.9	20	94	0	67	28	7	21	42	1.81
9141906--9141963	28	2.1	27	78	12	64	31	22	22	24	1.99
9146487--9146763	35	7.9	35	78	5	229	42	13	7	35	1.74
9146508--9146721	107	2.0	106	87	2	304	43	13	7	34	1.73
9149935--9150069	37	3.5	37	71	20	112	20	12	41	25	1.87
9156177--9156286	37	3.0	37	80	0	103	26	34	11	27	1.91
9164542--9164660	43	2.8	43	89	2	168	19	37	21	21	1.94
9165447--9165484	19	2.0	20	94	5	69	36	10	26	26	1.89
9167063--9167173	39	2.9	39	84	4	129	26	11	34	27	1.91
9172494--9172553	25	2.4	25	86	5	77	30	30	16	23	1.96
9186149--9186267	60	2.0	60	89	0	184	37	19	18	24	1.94
9186673--9186762	43	2.1	43	87	4	128	24	34	15	25	1.95
9188924--9188980	21	2.7	21	100	0	114	35	14	17	33	1.90
9202191--9202238	2	24.5	2	91	4	71	43	0	4	52	1.20
9202315--9202359	2	22.5	2	100	0	90	48	0	0	51	1.00
9202453--9202618	36	4.7	33	85	9	181	27	36	13	21	1.92
9202451--9202592	36	4.1	33	86	10	203	28	35	13	22	1.92
9202451--9202592	69	2.1	69	90	2	223	28	35	13	22	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9202523--9202634	39	2.9	38	82	8	97	26	39	12	21	1.89
9203304--9203455	39	4.0	39	87	2	184	27	34	11	26	1.91
9204337--9204386	24	2.0	25	85	11	68	68	2	28	2	1.12
9209995--9210070	38	2.0	38	86	0	107	28	35	6	28	1.82
9212590--9212768	39	4.6	39	80	8	186	27	32	12	27	1.92
9212610--9212768	77	2.1	78	84	5	207	27	32	13	27	1.93
9215364--9215418	27	2.0	27	100	0	110	25	3	30	40	1.73
9230369--9230407	14	2.8	14	96	0	69	51	10	28	10	1.68
9230676--9230723	20	2.4	20	86	13	64	70	0	27	2	0.98
9231857--9232072	39	5.6	39	88	2	287	25	13	35	25	1.93
9235985--9236071	36	2.4	36	92	3	140	25	45	10	18	1.80
9240890--9240958	22	3.0	22	74	16	61	1	27	1	69	1.05
9240900--9240956	28	2.0	28	82	0	69	1	26	1	70	1.07
9241071--9241138	35	1.9	35	90	0	91	30	35	7	26	1.84
9242158--9242196	19	2.0	20	90	5	62	48	5	0	46	1.24
9252419--9252823	216	1.9	216	86	5	577	36	10	19	33	1.86
9254681--9254768	2	44.5	2	86	6	117	44	0	2	52	1.13
9259127--9259168	2	21.0	2	100	0	84	50	0	0	50	1.00
9259486--9259513	2	14.0	2	100	0	56	50	0	0	50	1.00
9263110--9263357	131	1.9	131	88	3	374	37	6	9	46	1.61
9265939--9265976	12	3.2	12	92	0	58	23	2	68	5	1.23
9268502--9268532	2	15.5	2	100	0	62	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9268532--9268565	2	17.5	2	93	6	61	0	0	47	52	1.00
9278878--9279032	52	3.0	51	78	10	170	33	20	8	37	1.83
9279976--9280090	31	3.7	31	88	1	169	18	20	5	56	1.60
9280152--9280238	44	2.0	44	93	0	147	35	16	14	33	1.89
9284303--9284552	86	3.0	84	84	5	335	42	6	5	46	1.52
9284320--9284543	42	5.4	42	72	16	160	42	5	4	46	1.47
9288159--9288200	20	2.1	21	86	8	61	47	2	4	45	1.36
9306868--9306909	19	2.2	19	83	8	50	59	0	19	21	1.38
9307632--9307678	2	23.0	2	95	4	85	48	2	0	48	1.13
9322708--9322834	29	4.4	27	76	10	83	40	7	11	40	1.71
9322701--9322834	28	4.6	28	75	10	126	38	8	12	41	1.73
9322738--9322858	28	4.1	29	76	12	113	39	8	11	40	1.71
9322738--9322851	59	1.9	59	85	7	160	40	8	11	39	1.72
9322703--9322851	28	5.1	30	71	12	103	38	8	12	40	1.73
9325569--9325938	62	6.0	62	84	6	452	24	30	15	29	1.96
9325569--9325938	122	3.0	123	87	5	511	24	30	15	29	1.96
9325569--9325938	184	2.0	183	85	4	496	24	30	15	29	1.96
9325862--9326488	315	2.0	315	96	1	1150	35	21	12	30	1.91
9326618--9326664	2	23.0	2	82	4	58	46	2	2	48	1.25
9327108--9327144	12	3.0	13	80	11	51	0	29	0	70	0.88
9327695--9327769	4	19.0	4	79	17	59	24	5	0	70	1.07
9327873--9328022	74	2.0	73	84	1	192	38	14	22	24	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9330189--9330310	37	3.3	38	87	5	187	29	10	36	23	1.89
9341193--9341304	37	3.0	38	88	5	183	32	10	34	22	1.88
9343026--9343071	3	15.7	3	79	20	53	67	2	30	0	1.03
9347652--9347770	37	3.2	37	88	4	186	24	35	10	30	1.88
9353023--9353218	73	2.7	73	81	3	207	40	15	21	22	1.91
9357553--9357678	51	2.5	51	86	1	171	23	6	33	36	1.80
9359361--9359485	2	63.0	2	84	7	166	50	2	0	45	1.20
9363696--9363767	19	3.9	17	73	20	56	65	6	4	23	1.35
9363726--9363767	17	2.7	16	82	13	52	64	7	2	26	1.32
9372930--9373029	51	2.0	49	96	2	173	32	27	15	25	1.95

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