genome.fa.s125.2.7.7.80.10.50.1000.3.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: Scaffold125
Parameters: 2 7 7 80 10 50 1000
Length:  3608436

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  3  of  18  ( 2131 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)
338406--338543	59	2.3	60	87	6	192	55	2	2	39	1.27
338491--338539	14	3.0	17	75	25	52	55	0	2	42	1.11
342126--342168	21	2.0	21	91	8	70	62	0	0	37	0.95
343151--343215	21	2.9	22	75	13	69	47	0	3	49	1.17
343742--343787	19	2.4	19	85	7	58	67	0	2	30	1.03
344249--344282	2	17.0	2	100	0	68	50	0	0	50	1.00
344282--344309	2	14.0	2	100	0	56	50	0	50	0	1.00
346069--346113	22	2.0	22	100	0	90	46	4	13	35	1.63
360597--360625	15	1.9	15	100	0	58	55	0	27	17	1.42
363213--363237	8	3.1	8	100	0	50	52	0	0	48	1.00
363876--363905	14	2.1	14	93	0	51	56	0	6	36	1.26
364747--364789	19	2.3	19	84	8	52	60	9	0	30	1.28
364760--364796	19	1.9	19	88	0	56	62	10	0	27	1.28
367156--367181	3	8.7	3	100	0	52	69	0	0	30	0.89
368534--368599	32	1.9	36	88	11	104	50	0	0	50	1.00
368534--368598	11	5.8	12	70	17	50	50	0	0	49	1.00
368947--369025	4	20.5	4	71	24	55	45	0	0	54	0.99
368931--369014	5	17.2	5	77	14	52	45	0	1	53	1.08
368931--369014	9	9.1	9	76	16	66	45	0	1	53	1.08
368953--369025	7	10.7	7	72	21	50	43	0	0	56	0.99
368950--369080	45	2.9	45	78	8	106	51	0	0	46	1.11
368929--369085	23	7.1	22	68	15	74	51	0	1	46	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
369040--369092	22	2.5	21	80	19	65	58	0	0	41	0.98
369276--369329	27	2.0	27	88	0	81	38	7	7	46	1.60
369318--369383	29	2.3	29	97	0	123	45	4	0	50	1.22
369318--369397	29	2.8	29	88	0	88	45	5	1	48	1.32
369856--369886	2	15.5	2	100	0	62	51	0	0	48	1.00
370877--370930	25	2.2	25	86	6	74	46	0	0	53	1.00
372235--372266	15	2.1	15	94	0	55	37	9	34	18	1.83
372274--372298	9	2.8	9	100	0	50	44	0	44	12	1.41
379638--379664	2	13.5	2	100	0	54	48	0	51	0	1.00
380112--380159	22	2.2	22	82	14	55	62	0	2	35	1.07
381172--381236	34	1.9	34	84	6	87	50	0	0	49	1.00
387828--387857	13	2.2	14	94	5	53	40	3	0	56	1.16
390313--390366	14	4.0	14	77	11	51	33	0	0	66	0.92
390295--390355	29	2.1	29	82	14	72	32	1	0	65	1.02
393380--393405	3	8.7	3	100	0	52	30	0	0	69	0.89
395056--395095	18	2.2	19	86	4	55	42	0	0	57	0.98
395094--395148	29	1.9	28	82	10	67	43	0	0	56	0.99
395161--395247	16	5.3	16	69	14	52	50	0	0	49	1.00
395259--395327	35	2.0	35	88	0	102	31	18	21	27	1.97
395488--395555	28	2.5	28	74	11	77	50	0	0	50	1.00
395491--395566	28	2.8	28	74	6	75	53	0	0	46	1.00
404284--404316	2	16.5	2	93	0	57	48	3	0	48	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
407840--407880	21	2.0	21	90	0	64	73	7	2	17	1.17
408733--408778	25	1.9	23	82	8	56	65	0	0	34	0.93
410474--410508	16	2.1	17	89	5	54	34	5	2	57	1.37
410528--410591	17	3.9	16	74	25	71	40	0	0	59	0.97
410521--410600	31	2.5	31	86	9	101	43	0	0	56	0.99
410572--410640	19	3.6	19	82	5	77	31	0	0	68	0.90
410523--410643	49	2.4	52	76	17	123	38	0	0	61	0.96
410590--410650	11	5.5	11	75	13	63	31	0	0	68	0.89
410792--410840	23	2.2	23	89	7	75	40	8	4	46	1.52
413106--413215	18	6.3	18	74	20	65	41	0	3	54	1.18
413119--413181	31	2.0	32	85	14	87	42	0	3	53	1.16
414777--414832	24	2.2	25	84	6	69	55	0	0	44	0.99
414981--415040	21	2.9	20	80	11	68	55	0	0	45	0.99
421243--421294	21	2.5	22	78	9	56	48	0	0	51	1.00
421672--421733	21	2.9	21	76	11	63	45	1	0	53	1.10
421696--421766	31	2.2	32	85	2	99	43	1	1	53	1.18
421672--421753	43	2.0	43	83	9	107	43	2	0	53	1.13
421712--421762	15	3.4	14	73	26	50	45	1	1	50	1.24
422469--422560	43	2.1	44	88	4	134	36	7	7	47	1.61
425028--425093	28	2.4	28	78	16	75	30	3	3	63	1.24
426030--426054	3	8.3	3	100	0	50	32	68	0	0	0.90
442179--442207	15	1.9	15	100	0	58	68	0	0	31	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
442971--443029	17	3.6	16	73	13	57	47	0	0	52	1.00
442966--443031	33	2.0	33	82	14	82	46	0	0	53	1.00
444167--444220	23	2.6	20	77	11	56	50	5	0	44	1.25
444383--444421	20	2.0	20	84	0	51	64	2	2	30	1.21
444810--444897	30	2.9	30	87	0	122	55	4	0	39	1.20
444843--444896	16	3.5	16	80	10	76	61	3	0	35	1.14
444829--444880	14	3.6	14	75	10	50	55	5	0	38	1.24
445267--445312	24	1.9	25	86	8	69	26	4	2	67	1.21
450255--450312	17	3.6	16	73	19	50	39	0	0	60	0.97
450252--450317	31	2.1	31	86	5	89	37	0	0	62	0.96
450269--450302	14	2.5	14	90	4	52	41	0	0	58	0.98
450291--450364	19	3.9	20	75	16	68	29	2	0	67	1.04
450298--450359	31	2.0	32	84	9	83	27	1	0	70	0.96
450261--450363	36	3.0	36	80	10	110	33	1	0	65	1.04
450577--450656	33	2.5	32	80	13	85	51	0	0	48	1.00
450577--450645	31	2.2	31	82	12	79	55	0	0	44	0.99
450759--450784	2	13.0	2	100	0	52	50	0	0	50	1.00
455860--455893	1	34.0	1	87	0	50	94	0	5	0	0.32
455860--455893	17	1.9	18	94	5	61	94	0	5	0	0.32
455860--455893	12	2.9	12	95	4	61	94	0	5	0	0.32
457749--457788	15	2.6	17	81	18	52	27	2	0	70	1.01
457883--457924	23	2.0	22	86	13	61	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
457883--457931	25	1.9	26	84	12	66	36	0	0	63	0.95
459014--459054	15	2.6	16	80	11	57	58	0	0	41	0.98
459060--459089	13	2.3	13	94	0	51	50	0	0	50	1.00
459354--459412	20	2.9	20	75	18	59	40	0	0	59	0.97
460650--460689	22	1.9	20	85	10	53	60	7	0	32	1.25
462083--462116	16	2.2	16	90	10	54	47	5	0	47	1.26
462247--462318	27	2.7	27	76	4	74	50	1	1	47	1.18
464244--464273	15	2.0	15	100	0	60	46	20	13	20	1.83
468195--468235	2	20.5	2	100	0	82	48	0	0	51	1.00
472787--472958	29	5.8	30	78	12	137	37	5	0	56	1.26
472797--472958	30	5.5	29	81	9	111	37	4	0	58	1.18
472797--472958	59	2.8	58	84	9	188	37	4	0	58	1.18
472779--472958	89	2.0	90	82	11	219	36	6	0	56	1.28
474513--474547	17	2.1	17	89	5	54	48	0	0	51	1.00
474458--474542	28	3.0	27	75	10	80	35	4	2	57	1.32
479378--479448	15	4.9	15	73	14	60	50	0	0	49	1.00
479741--479767	2	13.5	2	100	0	54	48	0	0	51	1.00
481540--481597	11	5.4	11	72	17	50	60	0	1	37	1.07
482939--482982	23	2.0	23	86	4	63	45	0	0	54	0.99
482944--483015	24	3.0	25	75	18	66	47	0	1	51	1.09
484968--485017	12	4.1	12	80	17	50	32	0	4	64	1.12
484966--485023	21	2.9	19	78	19	57	31	0	3	65	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
488569--488628	25	2.4	25	80	5	68	58	0	1	40	1.08
488813--488846	18	1.9	18	94	5	61	52	0	5	41	1.25
489338--489370	12	3.0	11	87	12	50	90	0	9	0	0.44
494183--494276	33	2.8	34	80	9	104	40	9	7	42	1.66
507674--507781	32	3.2	32	81	10	103	37	0	1	61	1.07
507751--507798	15	2.9	16	81	12	53	35	0	2	62	1.07
515386--515450	29	2.2	31	81	10	73	47	6	0	46	1.27
515961--516002	5	8.4	5	79	10	50	59	0	2	38	1.10
516036--516082	17	2.8	17	87	9	53	65	0	6	27	1.16
516042--516082	17	2.4	17	91	4	64	65	0	7	26	1.18

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18