genome.fa.s1265.2.7.7.80.10.50.1000.1.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: Scaffold1265
Parameters: 2 7 7 80 10 50 1000
Length:  436287

Tables:   1   2   3   

This is table  1  of  3  ( 319 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)
3291--3368	28	2.8	28	80	5	88	38	7	10	43	1.67
3517--3588	17	4.1	17	72	13	65	55	1	6	36	1.35
4579--4614	2	18.0	2	100	0	72	50	0	0	50	1.00
5114--5140	2	13.5	2	100	0	54	51	0	0	48	1.00
6008--6056	14	3.4	14	86	5	71	34	0	0	65	0.93
6010--6060	15	3.5	15	78	5	68	37	0	0	62	0.95
27086--27138	27	2.0	27	96	0	97	45	7	11	35	1.69
32588--32690	2	51.5	2	90	0	161	47	1	2	47	1.28
35899--35923	5	5.0	5	100	0	50	80	0	20	0	0.72
38055--38095	18	2.3	18	95	0	73	36	0	14	48	1.44
39445--39497	21	2.7	19	81	13	63	41	1	7	49	1.42
40011--40046	17	2.1	18	89	5	56	55	11	8	25	1.62
40130--40173	23	2.0	23	86	13	65	45	2	0	52	1.13
40279--40436	79	2.0	79	100	0	316	43	2	11	43	1.54
41108--41149	21	2.0	21	85	4	57	35	2	2	59	1.23
42545--42614	26	2.5	28	80	15	74	55	1	0	42	1.08
43071--43104	17	2.0	17	94	0	59	50	0	5	44	1.26
43173--43233	30	2.3	26	77	22	65	54	0	3	42	1.17
43529--43618	18	5.2	17	74	15	78	64	0	0	35	0.94
44064--44102	20	2.1	19	85	9	53	48	0	0	51	1.00
44292--44344	23	2.3	22	81	15	63	54	7	1	35	1.40
45232--45262	10	3.1	10	90	0	53	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46228--46253	2	13.0	2	100	0	52	50	0	0	50	1.00
46419--46488	27	2.6	27	76	13	74	45	0	0	54	0.99
46425--46487	22	2.7	23	75	17	60	46	0	0	53	1.00
47858--48166	58	5.4	57	71	10	175	48	10	11	28	1.73
52008--52036	11	2.7	11	94	5	51	0	17	0	82	0.66
57136--57193	29	2.0	29	86	0	80	34	13	17	34	1.89
64111--64157	16	3.1	16	79	17	55	70	10	14	4	1.31
64100--64142	22	1.9	23	85	4	61	72	11	11	4	1.27
65226--65366	32	4.7	29	79	12	126	26	27	18	27	1.98
65241--65346	32	3.5	30	85	10	137	27	29	17	25	1.98
69408--69445	3	12.7	3	100	0	76	34	0	0	65	0.93
69622--69742	29	4.1	29	84	7	129	38	4	3	52	1.39
69621--69750	60	2.2	59	82	6	147	38	5	3	53	1.40
70329--70367	19	2.0	21	90	10	64	58	5	2	33	1.33
70461--70500	21	1.9	21	85	10	55	42	5	2	50	1.37
70873--70905	17	1.9	17	88	11	50	36	24	24	15	1.93
75774--75838	34	1.9	34	93	0	112	27	18	10	43	1.83
76942--76979	19	2.0	20	89	5	60	65	0	2	31	1.06
77277--77310	16	2.2	16	89	5	52	35	0	0	64	0.94
77465--77498	16	2.2	15	94	5	59	55	2	0	41	1.15
77540--77583	21	2.1	21	87	8	63	65	0	0	34	0.93
77967--78023	29	2.0	28	86	6	78	38	3	0	57	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
78273--78317	20	2.3	19	85	14	56	55	0	0	44	0.99
78273--78331	26	2.2	27	90	3	93	52	0	0	47	1.00
78279--78326	21	2.2	21	85	10	62	52	0	0	47	1.00
79115--79160	17	2.7	17	75	18	51	28	4	4	63	1.33
87049--87101	20	2.5	22	81	9	65	56	0	0	43	0.99
88468--88528	26	2.4	26	82	17	76	67	0	0	32	0.91
88469--88517	19	2.6	19	81	12	57	71	0	0	28	0.86
89149--89209	13	5.0	12	75	16	54	50	1	0	47	1.10
89430--89531	28	3.8	26	77	12	91	52	0	0	45	1.13
89430--89511	28	2.9	28	83	5	94	54	1	0	43	1.07
90209--90257	15	3.4	14	77	8	53	57	0	0	42	0.99
90465--90512	24	1.9	26	84	16	66	39	0	4	56	1.19
90595--90654	19	3.2	18	79	9	57	36	1	0	61	1.06
91085--91130	16	2.7	17	81	18	60	76	0	0	23	0.79
91083--91132	17	3.0	16	78	18	57	72	0	0	28	0.86
91172--91196	3	8.3	3	100	0	50	68	0	0	32	0.90
92104--92161	22	2.7	21	84	7	73	53	0	1	44	1.10
92129--92177	20	2.3	22	83	13	59	57	0	0	42	0.99
92204--92298	32	3.3	27	70	24	70	41	0	2	56	1.11
92193--92260	16	4.2	17	72	23	58	44	0	1	54	1.09
92209--92284	32	2.4	31	85	12	100	43	0	2	53	1.14
92206--92261	17	3.4	17	69	30	50	44	0	1	53	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92859--92939	17	4.9	17	69	22	57	44	1	0	54	1.08
92821--92923	47	2.2	47	81	13	117	44	0	0	55	0.99
92854--92932	18	4.6	18	68	16	60	48	1	0	50	1.08
92934--92973	14	2.7	15	92	3	64	45	2	0	52	1.14
93219--93339	5	25.2	5	66	17	60	41	2	0	56	1.13
93974--94015	22	2.0	22	85	4	59	35	16	21	26	1.94
95916--95945	2	15.0	2	100	0	60	50	0	0	50	1.00
96105--96147	3	13.7	3	90	9	68	30	0	0	69	0.88
106452--106531	26	3.1	26	92	5	135	47	7	8	36	1.63
108853--108885	6	5.5	6	96	0	57	36	45	0	18	1.49
109780--109828	15	3.3	15	82	0	62	71	0	0	28	0.86
113526--113558	17	1.9	17	93	0	57	42	12	12	33	1.79
120716--120780	21	3.0	21	73	10	60	44	0	0	55	0.99
120764--120805	14	2.8	15	82	10	50	47	0	0	52	1.00
120784--120829	19	2.4	19	85	7	58	54	0	0	45	0.99
120792--120832	22	2.0	21	85	9	57	53	0	0	46	1.00
122950--123012	30	2.1	31	82	8	76	50	0	0	49	1.00
123000--123051	22	2.3	21	84	12	68	44	0	0	55	0.99
124898--124945	25	2.0	25	95	4	89	43	18	16	20	1.88
127026--127082	16	3.5	16	73	9	53	54	15	3	26	1.57
134097--134130	12	2.8	13	86	13	54	64	11	23	0	1.26
134354--134599	136	1.8	135	84	0	339	29	16	30	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
136168--136200	16	2.1	16	88	5	50	60	3	0	36	1.12
136623--136678	25	2.1	28	83	9	73	39	1	1	57	1.20
136635--136683	14	3.5	14	78	15	57	40	0	0	59	0.98
136690--136740	6	8.3	6	81	12	59	37	0	1	60	1.08
136632--136738	9	10.0	11	71	21	61	40	0	0	58	1.04
136633--136729	17	6.2	17	71	22	72	40	0	0	59	0.97
138890--138937	21	2.2	22	85	3	62	52	0	4	43	1.20
140661--140727	32	2.1	32	94	0	116	16	20	16	46	1.84
146647--146701	19	3.2	18	82	14	64	34	3	0	61	1.13
146660--146708	23	2.0	25	88	7	75	36	0	0	63	0.95
146677--146709	14	2.4	14	94	0	57	36	0	0	63	0.95
146660--146723	33	1.9	34	84	12	89	34	0	1	64	1.03
146671--146725	25	2.2	24	83	3	65	32	0	1	65	1.03
149810--149866	24	2.2	24	84	12	69	56	5	1	36	1.32
149833--149991	50	3.2	48	69	11	133	54	3	1	40	1.27
154083--154161	33	2.4	32	76	19	83	36	2	5	55	1.35
154734--154800	22	3.0	23	81	12	70	47	0	0	52	1.00
154749--154829	23	3.6	23	78	18	73	49	1	0	49	1.08
155704--155741	15	2.4	16	86	4	51	36	10	5	47	1.61
156010--156070	20	3.1	19	74	6	59	44	0	0	55	0.99
156038--156099	28	2.2	28	80	5	72	41	1	0	56	1.09
169290--169333	14	3.0	14	83	6	52	40	0	2	56	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
172347--172390	22	2.0	23	86	4	63	45	4	6	43	1.51
172595--172657	20	3.2	20	68	6	56	49	0	0	50	1.00
172588--172666	39	2.1	38	85	7	106	51	0	0	48	1.00
172634--172676	16	2.8	16	76	16	54	41	0	0	58	0.98
172621--172681	28	2.2	28	85	5	79	45	0	0	54	1.00
175100--175145	2	22.5	2	95	4	83	47	2	0	50	1.13
181106--181147	15	2.8	15	88	0	57	47	33	19	0	1.49
181107--181151	18	2.5	18	96	0	81	48	33	17	0	1.48
188610--188648	19	2.2	17	86	9	51	41	2	0	56	1.13
191144--191207	18	3.4	18	73	12	65	60	1	0	37	1.06

Tables:   1   2   3