genome.fa.s7.2.7.7.80.10.50.1000.24.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  24  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)
8190978--8191033	24	2.3	24	93	0	103	28	25	12	33	1.92
8203437--8203627	51	3.8	50	79	4	222	32	27	15	24	1.95
8203432--8203623	102	1.9	101	86	3	278	31	27	16	24	1.96
8203437--8203623	101	1.8	101	87	3	250	32	27	16	24	1.96
8210913--8210976	30	2.2	30	88	2	94	23	42	0	34	1.55
8215020--8215668	323	2.0	323	97	0	1226	30	29	16	23	1.96
8218862--8218923	26	2.4	26	77	0	70	41	12	8	37	1.73
8230935--8231157	48	4.8	48	77	9	214	43	32	4	18	1.72
8230935--8231149	93	2.3	93	86	2	299	43	33	5	18	1.72
8231108--8231152	23	2.0	23	81	0	54	44	35	4	15	1.67
8236166--8236433	41	6.7	40	78	8	260	20	19	30	29	1.97
8236253--8236301	17	2.9	17	84	0	71	16	12	28	42	1.84
8236171--8236385	116	1.9	116	86	2	306	20	19	30	30	1.97
8236678--8236710	14	2.3	15	94	5	59	30	0	33	36	1.58
8236944--8237036	7	12.9	7	73	10	53	17	2	46	34	1.60
8236977--8237034	8	7.5	8	78	7	66	18	0	43	37	1.51
8236944--8237036	14	6.4	14	77	10	80	17	2	46	34	1.60
8237352--8237434	23	3.4	23	76	12	94	53	0	7	39	1.29
8237375--8238572	23	50.0	24	65	22	117	52	0	5	41	1.24
8237337--8238576	108	11.5	108	99	0	2455	52	0	5	41	1.24
8246414--8246453	21	1.9	21	84	0	53	40	20	37	2	1.66
8247072--8247195	42	2.9	41	80	10	142	24	23	22	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8247138--8247264	67	1.9	68	90	4	204	18	22	22	37	1.95
8247199--8247314	42	2.7	42	85	7	162	24	18	19	37	1.94
8247097--8247305	109	1.9	110	85	4	289	22	21	21	35	1.96
8251642--8251682	9	5.0	9	91	8	54	43	0	0	56	0.99
8251641--8251686	5	9.8	5	78	21	55	41	0	0	58	0.98
8252699--8252729	10	3.1	10	95	0	53	48	9	12	29	1.73
8255906--8255966	21	2.9	21	76	11	61	29	21	31	18	1.96
8262628--8262901	137	2.0	137	86	2	381	17	21	29	31	1.96
8266298--8266380	41	2.0	41	84	9	107	16	28	32	21	1.96
8271101--8271141	19	2.2	19	100	0	82	34	14	9	41	1.79
8287903--8287952	23	2.1	23	85	3	64	46	16	16	22	1.84
8290645--8290776	30	4.3	29	71	16	92	34	2	20	42	1.65
8290645--8290776	32	4.3	29	73	17	99	34	2	20	42	1.65
8293327--8293371	13	3.4	14	79	17	51	35	2	8	53	1.45
8301798--8301823	2	13.0	2	100	0	52	50	0	0	50	1.00
8303783--8303833	23	2.2	23	92	0	84	27	9	21	41	1.84
8307509--8307634	43	3.0	41	80	6	119	29	13	26	30	1.94
8314681--8314901	23	9.6	22	72	10	129	44	31	4	19	1.70
8314744--8314904	48	3.4	48	73	9	152	46	31	3	18	1.65
8320585--8320793	48	4.5	47	77	13	191	44	33	3	17	1.66
8320585--8320795	93	2.3	93	87	1	298	44	34	3	17	1.66
8320590--8320793	23	8.8	23	71	10	121	45	33	3	17	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8322143--8322260	57	2.1	57	88	3	175	25	26	18	29	1.98
8325839--8325876	18	2.1	18	95	0	67	26	18	0	55	1.43
8333059--8333753	40	17.4	40	83	1	831	17	29	18	35	1.94
8333081--8333753	239	2.8	240	90	2	1050	16	28	18	35	1.94
8333313--8333747	20	21.8	20	65	11	115	15	29	18	36	1.92
8334601--8334627	12	2.2	12	100	0	54	29	33	22	14	1.94
8339911--8340101	40	4.8	40	79	1	213	20	29	14	36	1.92
8339907--8340101	80	2.4	80	84	3	250	20	29	14	35	1.92
8340042--8340089	20	2.4	20	80	13	55	16	31	16	35	1.92
8341154--8341193	17	2.4	17	86	0	53	15	22	30	32	1.94
8341176--8341269	30	3.1	30	84	0	134	17	25	28	28	1.97
8343469--8343522	24	2.1	25	86	13	74	31	5	9	53	1.56
8343541--8343612	35	2.1	35	94	0	126	45	12	4	37	1.61
8344597--8344669	36	2.0	36	83	0	92	16	10	36	35	1.84
8345468--8345508	20	2.0	20	90	0	64	51	0	29	19	1.47
8359047--8359137	45	2.0	45	100	0	182	41	6	10	40	1.66
8359763--8359819	28	2.0	29	82	3	71	29	3	21	45	1.68
8383763--8383815	27	2.0	27	96	0	97	26	32	24	16	1.97
8390542--8390622	27	3.0	27	88	1	117	27	28	20	23	1.99
8395128--8395162	18	2.0	18	88	5	54	51	5	11	31	1.61
8397325--8397382	16	3.8	16	76	17	61	22	39	1	36	1.64
8397301--8397382	29	2.8	29	84	3	92	20	41	2	35	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8404649--8404749	50	2.0	50	94	0	175	26	18	10	43	1.83
8406718--8406763	24	2.0	24	82	4	58	23	10	2	63	1.38
8420239--8420285	23	2.0	23	91	0	76	44	14	21	19	1.86
8432323--8432372	25	2.0	25	88	7	75	42	2	2	54	1.23
8433446--8433483	16	2.4	16	100	0	76	21	21	10	47	1.80
8434043--8434321	50	5.5	50	81	5	285	23	30	19	26	1.98
8434043--8434277	100	2.4	100	86	2	314	22	31	20	26	1.98
8436037--8436063	11	2.5	11	100	0	54	22	7	0	70	1.12
8438588--8438630	19	2.2	20	84	12	63	32	18	0	48	1.48
8438758--8438954	51	3.9	50	75	8	175	32	29	15	22	1.94
8443445--8443662	109	2.0	109	97	0	409	34	17	9	38	1.82
8446824--8446929	54	2.0	54	100	0	212	51	5	18	23	1.67
8448380--8448419	22	1.9	22	90	10	66	55	15	10	20	1.68
8456276--8456806	265	2.0	266	99	0	1055	33	18	8	39	1.81
8457265--8457310	21	2.1	22	88	4	67	47	8	0	43	1.34
8457484--8457527	23	1.9	22	82	17	54	38	22	0	38	1.55
8457603--8457784	45	4.1	45	92	1	287	31	26	18	23	1.97
8464179--8464285	56	1.9	56	92	0	178	30	10	13	45	1.76
8476939--8476980	15	2.7	16	85	14	61	0	28	0	71	0.86
8476937--8476978	21	2.0	21	86	13	61	0	26	0	73	0.83
8485403--8485743	27	12.6	27	84	3	418	25	17	19	37	1.93
8490326--8490384	31	1.9	31	89	0	91	45	13	8	32	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8492440--8492464	6	4.2	6	100	0	50	0	0	16	84	0.63
8492509--8492563	10	6.2	9	80	16	62	52	18	3	25	1.61
8492515--8492546	15	2.1	16	94	5	57	59	12	3	25	1.48
8492509--8492556	25	1.9	25	91	8	80	56	16	2	25	1.51
8505507--8505564	28	2.1	28	80	6	64	25	15	18	39	1.91
8514549--8514595	25	1.9	24	83	12	60	14	6	10	68	1.38
8527076--8527258	51	3.7	49	81	5	165	22	28	21	26	1.99
8527076--8527373	50	5.8	50	82	4	294	22	28	22	26	1.99
8527125--8527373	101	2.4	103	83	4	297	22	29	22	25	1.99
8530694--8530739	23	2.0	23	87	12	67	28	6	0	65	1.17
8537211--8537657	44	10.1	44	75	6	321	32	16	21	29	1.96
8537206--8537635	178	2.4	178	84	2	542	32	17	21	28	1.96
8537806--8537924	44	2.8	44	81	2	143	31	17	22	28	1.97
8537668--8538097	225	1.9	221	82	4	540	32	18	20	29	1.96
8538035--8538138	44	2.4	44	81	3	111	28	19	18	33	1.95
8538236--8538507	89	3.1	89	86	3	343	27	22	24	25	2.00
8538501--8538912	131	3.1	131	84	1	529	28	18	26	26	1.98
8538499--8538890	132	3.0	131	85	2	527	28	19	26	26	1.99
8539327--8539378	19	2.9	17	83	10	61	40	7	19	32	1.80
8539594--8539642	23	2.1	23	84	0	62	24	0	14	61	1.33
8539662--8539694	15	2.1	16	94	5	59	30	15	0	54	1.41
8539798--8539847	23	2.2	23	82	7	57	36	2	0	62	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8540164--8540231	35	1.9	35	96	0	127	25	5	4	64	1.35
8541790--8541814	12	2.1	12	100	0	50	16	24	36	24	1.94
8545728--8545765	14	2.7	14	91	0	58	36	7	18	36	1.80
8545748--8545787	20	2.0	20	100	0	80	35	10	15	40	1.80
8545735--8545798	34	1.9	33	87	9	94	35	9	15	39	1.80
8545962--8545997	18	2.0	18	88	0	54	61	8	0	30	1.26
8548272--8548318	21	2.2	20	82	10	58	29	8	51	10	1.66
8549039--8549140	22	4.6	22	76	2	82	44	23	22	9	1.83
8551898--8552136	84	2.8	84	86	2	338	44	12	12	30	1.79
8552607--8552876	134	2.0	135	98	0	524	52	7	13	26	1.67

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