genome.fa.s3000.2.7.7.80.10.50.1000.2.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: scaffold323
Parameters: 2 7 7 80 10 50 1000
Length:  764456

Tables:   1   2   3   

This is table  2  of  3  ( 254 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)
408991--409015	11	2.3	11	100	0	50	68	0	0	32	0.90
414060--414112	27	2.0	27	88	0	79	18	15	28	37	1.91
414086--414160	35	2.1	36	82	2	89	20	9	29	41	1.83
415589--415757	81	2.1	81	96	0	311	32	15	12	39	1.85
415778--415815	20	1.9	19	89	5	58	36	7	7	47	1.62
422895--423325	215	2.0	216	99	0	855	33	9	9	47	1.69
424447--424494	25	2.0	24	87	4	69	31	2	0	66	1.03
430289--430323	2	17.5	2	100	0	70	48	0	0	51	1.00
430327--430428	51	2.0	51	88	7	154	16	5	24	52	1.65
434351--434390	20	2.0	20	85	5	53	50	7	22	20	1.73
434994--435027	2	17.0	2	100	0	68	50	0	0	50	1.00
439876--440130	126	2.0	127	97	2	487	33	12	18	36	1.87
452304--452335	17	1.9	16	93	6	55	12	6	0	81	0.87
452973--453010	3	12.7	3	89	10	60	28	2	0	68	1.03
462671--462728	26	2.2	27	81	9	75	31	3	1	63	1.21
462678--462727	25	2.0	24	85	11	66	26	4	2	68	1.18
468266--468316	15	3.3	15	81	8	57	52	13	1	31	1.51
475066--475127	27	2.6	22	70	29	56	16	20	0	62	1.32
477732--477804	38	1.9	38	91	0	119	34	30	10	24	1.90
478084--478136	21	2.6	21	82	14	58	66	0	7	26	1.18
478083--479204	558	2.0	559	99	0	2230	42	12	13	31	1.81
479871--480008	67	2.0	68	87	1	197	55	1	6	36	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492192--492225	17	2.0	17	88	0	50	26	23	17	32	1.97
495805--495839	14	2.5	14	95	0	61	34	20	5	40	1.76
497043--497206	62	2.6	62	94	0	292	47	10	6	35	1.64
498512--498558	20	2.3	21	88	7	78	51	19	6	23	1.70
503100--503135	18	2.0	18	94	0	63	0	25	2	72	0.98
506205--506277	34	2.1	34	94	0	128	32	10	24	31	1.90
519302--519328	14	1.9	14	100	0	54	25	0	0	74	0.83
520020--520088	32	2.3	29	78	14	70	53	4	1	40	1.30
520368--521034	28	23.4	28	88	5	946	50	24	0	25	1.50
520368--521034	85	7.8	84	90	4	987	50	24	0	25	1.50
520904--520941	18	2.1	19	85	5	51	52	23	0	23	1.47
520387--521018	29	22.4	24	72	22	122	50	24	0	25	1.50
524439--524523	9	9.2	9	82	5	107	34	32	11	21	1.89
534164--534188	2	12.5	2	100	0	50	52	0	0	48	1.00
537479--537508	2	15.0	2	100	0	60	0	50	0	50	1.00
541160--541193	14	2.4	14	90	0	50	14	0	38	47	1.45
543752--543785	14	2.4	14	90	0	50	47	38	0	14	1.45
544290--544352	33	1.9	33	93	0	108	31	17	17	33	1.93
549866--549894	15	1.9	15	100	0	58	13	34	17	34	1.89
551806--551874	25	2.7	26	77	4	77	30	4	4	60	1.35
558012--558040	15	1.9	15	100	0	58	13	34	17	34	1.89
558857--558926	33	2.1	33	82	10	81	61	12	1	24	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559369--559422	16	3.3	16	94	5	99	24	0	38	37	1.56
559403--559493	45	2.0	45	85	2	121	27	6	28	37	1.82
561492--561533	18	2.3	18	100	0	84	21	14	21	42	1.88
565737--565801	32	2.0	32	100	0	130	20	18	12	49	1.79
571151--571189	16	2.5	15	84	12	51	53	7	2	35	1.43
573955--573993	18	2.2	18	90	0	60	46	0	12	41	1.42
574549--574600	27	1.9	27	92	7	88	15	32	23	28	1.95
574551--574609	27	2.2	27	84	6	75	15	28	27	28	1.96
574662--574728	26	2.5	27	97	2	127	47	0	11	40	1.40
577448--577605	78	2.0	79	98	1	309	35	11	5	48	1.61
596017--596229	42	4.9	42	85	8	273	14	24	19	41	1.88
596017--596070	21	2.6	21	72	0	54	12	20	22	44	1.85
596074--596246	21	8.3	21	72	3	145	14	26	17	41	1.88
598578--598635	28	2.0	31	83	12	79	50	0	1	48	1.11
603109--604383	642	2.0	642	98	0	2469	32	16	25	26	1.96
609188--609254	34	2.0	34	87	0	98	38	2	1	56	1.24
614426--614471	18	2.6	17	86	10	65	26	6	4	63	1.38
616996--617025	7	4.3	7	91	0	51	50	0	0	50	1.00
630281--630345	34	1.9	34	87	12	98	40	7	4	47	1.53
630427--630462	17	2.1	17	94	0	63	66	2	0	30	1.06
633072--633096	2	12.5	2	100	0	50	0	52	0	48	1.00
633397--633427	1	31.0	1	93	0	53	3	0	0	96	0.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
639067--639104	2	19.0	2	100	0	76	0	50	0	50	1.00
657396--657430	7	5.3	7	90	10	56	25	0	0	74	0.82
657390--657432	6	7.0	6	84	10	52	30	0	0	69	0.88
659380--659416	3	12.3	3	100	0	74	35	0	0	64	0.94
663857--663881	11	2.3	11	100	0	50	40	0	0	60	0.97
664117--664153	11	3.5	11	96	3	67	40	0	0	59	0.97
664067--664164	40	2.5	39	83	3	117	35	2	0	62	1.07
664763--664804	21	2.0	20	86	4	57	42	16	2	38	1.61
665882--665932	22	2.3	21	83	6	57	41	0	0	58	0.98
665893--665934	21	2.0	21	95	0	75	35	0	0	64	0.94
671692--671743	18	2.7	20	80	17	65	80	7	0	11	0.89
671701--671760	25	2.5	22	79	15	57	83	6	1	8	0.88
671698--671759	21	2.7	23	78	12	74	82	8	1	8	0.91
672308--672348	14	2.7	16	77	14	50	53	24	0	21	1.46
673077--673258	60	3.2	60	62	19	156	39	7	6	47	1.56
673078--673297	107	2.0	108	98	1	424	42	6	5	45	1.54
679933--679965	17	2.0	17	88	5	50	33	12	21	33	1.90
691986--692042	14	4.0	14	81	2	69	63	3	1	31	1.22
693696--693754	6	9.5	6	80	7	64	13	5	5	76	1.13
695245--695274	7	4.3	7	100	0	60	13	13	30	43	1.82
695817--695859	12	3.7	12	87	3	52	44	0	0	55	0.99
696973--696997	7	3.6	7	100	0	50	28	0	12	60	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
698168--698718	23	22.2	23	69	24	256	47	25	0	27	1.55
698161--698649	51	10.1	45	81	12	237	47	25	0	25	1.55
698215--698426	45	4.6	45	84	7	284	49	24	0	25	1.56
698395--698458	32	2.0	32	90	0	101	56	18	1	23	1.50
698430--698573	22	6.0	20	68	31	72	45	28	0	26	1.54
698447--698852	29	14.6	29	72	17	326	46	25	0	28	1.53
698427--698649	51	4.4	51	99	0	437	45	27	0	26	1.54
698579--698621	22	2.0	20	91	8	68	44	30	0	25	1.55
698600--698844	59	4.1	58	85	4	276	46	23	0	29	1.52
698605--698796	88	2.2	88	96	0	348	46	23	0	29	1.53
698784--698808	13	1.9	13	100	0	50	48	44	0	8	1.32
698605--698852	88	2.8	85	87	4	291	47	23	0	29	1.52
698797--698862	23	2.8	23	86	2	96	51	21	0	27	1.48
698727--698852	65	2.0	61	88	8	184	47	25	0	26	1.52
699547--699806	137	1.9	137	88	0	394	21	27	17	33	1.96
702191--702563	124	3.0	125	90	2	563	33	22	15	28	1.94
716302--716348	12	4.0	12	78	13	53	51	2	0	46	1.13
719116--719153	14	2.7	15	88	8	53	65	0	2	31	1.06
719958--720017	9	6.3	9	72	16	50	60	3	1	35	1.23
719967--720038	9	7.4	9	73	18	56	62	4	0	33	1.14
719967--720017	19	2.7	19	79	11	61	62	3	0	33	1.13
719958--720038	10	8.3	10	71	25	50	60	3	1	34	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
720446--720523	16	4.5	15	75	21	57	66	0	7	25	1.18
720507--720568	20	3.2	20	84	9	74	66	0	6	27	1.16
720446--720561	54	2.2	53	82	6	135	64	0	7	27	1.21
720516--720570	19	2.8	20	86	8	78	61	0	7	30	1.23
720515--720577	19	3.2	20	80	6	67	63	1	7	26	1.31
720678--720715	18	2.1	18	90	0	58	63	0	5	31	1.17
721099--721144	21	2.4	19	85	10	58	28	2	2	67	1.14
721099--721144	20	2.4	19	85	10	58	28	2	2	67	1.14
724938--725010	11	6.3	11	74	12	56	24	1	9	64	1.32
725058--725090	12	2.8	12	90	9	50	36	0	0	63	0.95

Tables:   1   2   3