genome.fa.s8.2.7.7.80.10.50.1000.32.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: Scaffold8
Parameters: 2 7 7 80 10 50 1000
Length:  6381039

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   

This is table  32  of  33  ( 3942 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)
6018139--6018172	3	11.3	3	87	0	50	64	5	0	29	1.17
6031491--6031515	2	12.5	2	100	0	50	48	0	0	52	1.00
6039281--6039312	5	6.4	5	92	0	55	78	0	18	3	0.89
6040451--6040476	2	13.0	2	100	0	52	50	0	0	50	1.00
6040784--6040826	23	1.9	23	90	4	70	53	6	4	34	1.49
6040879--6040985	17	6.2	17	66	23	71	35	1	0	62	1.06
6040860--6040969	56	2.0	52	87	6	157	38	1	0	60	1.08
6040936--6040984	8	6.4	8	76	23	52	28	0	0	71	0.86
6040937--6040985	14	3.3	14	84	15	71	30	0	0	69	0.89
6040922--6040991	31	2.3	31	90	5	115	35	1	0	62	1.04
6041008--6041062	28	2.1	25	86	10	74	29	0	9	61	1.26
6041016--6041068	28	1.9	27	84	3	70	32	0	9	58	1.30
6043744--6043782	6	6.5	6	100	0	78	48	51	0	0	1.00
6045049--6045158	36	3.2	34	76	10	116	41	1	0	56	1.10
6054543--6054645	40	2.6	40	93	0	170	33	4	1	59	1.30
6054723--6054842	38	3.2	38	80	5	145	39	4	2	54	1.33
6054737--6054853	38	3.1	38	85	7	166	31	4	2	61	1.29
6054543--6054981	206	2.1	210	96	3	818	41	4	1	52	1.32
6054814--6055078	129	2.0	133	91	3	441	46	3	1	47	1.30
6060635--6060664	2	15.0	2	100	0	60	50	0	50	0	1.00
6061468--6061495	3	9.3	3	100	0	56	32	0	0	67	0.91
6063159--6063197	18	2.2	18	86	4	53	0	23	7	69	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6064767--6065196	219	2.0	219	98	0	824	25	27	13	33	1.93
6069396--6069433	3	12.7	3	100	0	76	65	0	0	34	0.93
6069765--6069793	2	14.5	2	100	0	58	51	0	0	48	1.00
6074072--6074097	13	2.0	13	100	0	52	38	15	15	30	1.88
6074124--6074151	13	2.2	13	100	0	56	28	14	17	39	1.89
6081648--6081689	13	3.0	14	89	10	68	28	14	21	35	1.92
6082273--6082297	13	1.9	13	100	0	50	36	16	16	32	1.90
6082253--6082318	32	2.0	33	88	2	98	34	12	13	39	1.82
6082362--6082386	13	1.9	13	100	0	50	32	16	16	36	1.90
6082395--6082515	52	2.3	52	95	0	215	34	18	18	28	1.94
6087857--6087895	13	3.0	13	100	0	78	38	15	15	30	1.88
6091807--6091851	21	2.1	21	84	8	56	22	20	4	53	1.63
6094062--6094087	13	2.0	13	100	0	52	30	15	15	38	1.88
6095410--6095653	116	2.1	116	89	1	373	34	29	17	18	1.94
6095410--6095649	58	4.1	58	82	1	284	34	28	17	19	1.94
6098897--6098965	34	2.0	34	82	0	84	14	27	27	30	1.95
6099305--6099377	36	2.0	36	91	0	119	28	35	16	19	1.93
6105928--6105953	5	5.2	5	100	0	52	42	38	19	0	1.51
6112403--6112436	3	11.3	3	100	0	68	0	0	32	67	0.91
6113039--6113064	1	26.0	1	100	0	52	0	0	100	0	0.00
6116994--6117031	3	12.7	3	94	0	67	65	0	2	31	1.06
6131314--6131346	10	3.4	10	87	4	50	0	9	0	90	0.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6131811--6131853	18	2.3	18	84	4	50	67	2	0	30	1.03
6136436--6136470	2	17.5	2	100	0	70	48	0	0	51	1.00
6138584--6138730	76	1.9	77	82	6	183	43	6	6	43	1.56
6140038--6140066	2	14.5	2	100	0	58	0	0	48	51	1.00
6141790--6141819	3	10.0	3	100	0	60	33	0	0	66	0.92
6151011--6151039	2	14.5	2	100	0	58	51	0	0	48	1.00
6151039--6151080	2	21.0	2	100	0	84	50	0	50	0	1.00
6153035--6153066	7	4.6	7	100	0	64	56	0	0	43	0.99
6154469--6154501	2	16.5	2	100	0	66	0	51	0	48	1.00
6154987--6155059	30	2.4	30	86	0	92	36	17	34	10	1.85
6155544--6155578	4	8.8	4	100	0	70	25	0	22	51	1.48
6158733--6158758	6	4.3	6	100	0	52	19	30	15	34	1.93
6159776--6159833	11	6.0	11	82	17	51	39	1	0	58	1.08
6160747--6160799	16	3.0	17	81	18	56	60	0	0	39	0.97
6160793--6160852	26	2.3	27	83	11	81	50	1	0	48	1.11
6161165--6161199	18	1.9	18	88	0	52	57	0	2	40	1.14
6161727--6161777	25	2.0	25	85	7	68	52	0	0	47	1.00
6163739--6163779	2	20.5	2	94	0	73	51	2	0	46	1.14
6163905--6163938	2	17.0	2	100	0	68	50	0	0	50	1.00
6168185--6168259	26	2.8	27	86	8	100	36	17	16	30	1.91
6168193--6168340	40	3.7	40	73	2	136	33	20	16	29	1.94
6168160--6168229	14	5.1	14	77	8	72	38	14	12	34	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6168183--6168370	14	13.8	14	65	16	65	34	19	15	30	1.93
6168185--6168304	27	4.5	27	79	9	129	33	19	18	29	1.95
6168196--6168273	13	5.9	13	75	3	75	33	20	19	26	1.96
6168468--6168501	14	2.4	14	85	0	50	29	20	20	29	1.98
6168528--6168581	27	2.0	27	82	7	65	31	18	20	29	1.96
6170705--6170918	67	3.2	67	79	6	254	23	26	17	32	1.96
6171092--6171216	64	2.0	63	82	1	151	27	20	15	37	1.92
6171386--6171413	2	14.0	2	100	0	56	50	0	0	50	1.00
6171665--6171866	14	14.6	14	72	4	117	29	18	21	30	1.97
6171695--6171784	41	2.2	41	85	0	117	28	21	21	28	1.98
6171673--6171865	27	7.1	27	70	13	110	29	19	21	29	1.97
6172925--6172950	8	3.2	8	100	0	52	0	0	15	84	0.62
6174108--6174135	3	9.3	3	100	0	56	67	0	0	32	0.91
6180780--6180820	10	4.1	10	83	0	55	36	0	12	51	1.40
6180808--6180838	4	7.8	4	100	0	62	22	0	25	51	1.48
6180778--6180838	8	7.9	8	87	7	63	31	0	18	50	1.47
6180778--6180838	12	5.2	12	82	7	63	31	0	18	50	1.47
6182395--6182433	2	19.5	2	94	0	69	48	2	0	48	1.15
6184948--6184990	3	14.7	3	81	13	54	27	0	4	67	1.10
6191445--6191470	5	5.2	5	100	0	52	19	23	38	19	1.93
6191943--6191985	16	2.8	15	82	3	50	65	2	4	27	1.25
6195697--6195732	18	2.0	18	89	10	56	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6195712--6195756	23	2.0	23	86	8	65	57	2	0	40	1.11
6197096--6197125	2	15.0	2	100	0	60	50	0	0	50	1.00
6197145--6197170	2	13.0	2	100	0	52	50	0	0	50	1.00
6198233--6198261	2	14.5	2	100	0	58	51	0	0	48	1.00
6198911--6198947	3	12.3	3	100	0	74	32	0	0	67	0.91
6203180--6203214	2	17.5	2	100	0	70	51	0	0	48	1.00
6204927--6204953	4	6.8	4	100	0	54	74	0	25	0	0.83
6205095--6205123	12	2.4	12	100	0	58	93	0	6	0	0.36
6206895--6206946	27	1.9	27	88	0	77	32	15	23	28	1.95
6209820--6209903	25	3.4	25	74	12	75	57	0	0	42	0.99
6209859--6209905	11	4.5	10	79	15	51	59	0	0	40	0.97
6211371--6211417	5	8.8	5	95	4	67	0	17	0	82	0.66
6211371--6211420	6	9.0	6	97	2	72	0	18	0	82	0.68
6212054--6212104	15	3.5	15	70	5	50	64	1	0	33	1.05
6221152--6221203	24	2.2	25	82	10	72	46	0	0	53	1.00
6221607--6221647	13	3.1	14	83	16	52	63	0	2	34	1.08
6221635--6221740	22	4.9	22	69	16	69	49	0	0	50	1.07
6224131--6224182	3	17.3	3	100	0	104	67	0	32	0	0.91
6229258--6229310	21	2.6	21	85	8	65	43	0	0	56	0.99
6229281--6229366	35	2.6	35	78	14	101	48	0	1	50	1.08
6229487--6229537	25	2.0	26	85	7	70	56	0	0	43	0.99
6229794--6229829	3	12.0	3	100	0	72	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6233887--6233958	34	2.1	35	89	2	110	44	19	12	23	1.85
6234318--6234344	3	9.0	3	100	0	54	33	33	0	33	1.58
6241128--6241205	38	2.1	38	95	0	138	29	8	30	30	1.88
6250149--6250176	13	2.2	13	100	0	56	39	17	14	28	1.89
6254488--6254528	10	4.1	10	90	0	64	0	14	0	85	0.60
6254488--6254555	20	3.3	20	81	2	73	1	19	0	79	0.81
6255647--6255759	45	2.4	45	82	5	118	31	21	28	18	1.97
6255630--6255759	49	2.8	46	80	6	145	31	21	27	19	1.97
6255784--6256958	32	38.2	32	86	5	1381	19	18	31	30	1.95
6261855--6261907	18	2.7	20	77	19	58	77	0	11	11	1.00

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