genome.fa.s508.2.7.7.80.10.50.1000.1.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: scaffold235
Parameters: 2 7 7 80 10 50 1000
Length:  1667838

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 518 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)
9981--10692	44	16.2	44	63	16	125	28	18	26	26	1.98
9931--10805	132	6.6	132	94	0	1473	28	18	26	25	1.98
15673--15712	9	4.4	9	80	0	53	47	2	0	50	1.14
17714--17771	28	2.1	28	81	18	68	48	5	0	46	1.24
33271--33329	10	5.7	10	80	7	57	83	11	3	1	0.85
34144--34340	108	1.8	108	87	4	299	25	16	9	48	1.76
35232--36020	46	17.2	46	86	4	1047	26	15	25	32	1.95
35232--36020	138	5.7	138	90	1	1161	26	15	25	32	1.95
36234--36918	128	5.3	128	92	0	1084	31	22	20	25	1.98
36237--36866	44	14.8	41	66	15	188	31	22	20	26	1.98
45367--45410	23	2.0	22	81	4	52	31	2	2	63	1.19
53830--53895	33	1.9	35	87	6	100	12	0	40	46	1.41
53996--54225	95	2.4	94	81	7	257	40	3	17	39	1.66
54258--54674	126	3.3	125	87	4	613	31	18	21	28	1.97
67582--67799	55	4.0	55	84	1	258	50	15	7	27	1.71
67582--67799	109	2.0	110	84	0	285	50	15	7	27	1.71
82574--82633	28	2.2	26	82	11	68	41	16	6	35	1.75
84629--84663	12	3.2	11	88	11	54	8	25	2	62	1.38
85478--85616	70	2.0	70	97	0	260	29	27	14	28	1.95
87285--87332	15	3.3	15	70	5	53	75	4	4	16	1.12
104648--104686	19	2.0	21	85	10	55	69	5	10	15	1.34
104861--104940	19	3.9	21	82	14	96	37	18	8	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
105145--105229	44	1.9	44	90	4	136	31	24	15	28	1.95
105267--105843	44	13.1	44	65	11	241	23	24	22	29	1.99
105227--106021	132	6.0	132	97	0	1439	23	24	22	29	1.99
113024--113069	21	2.2	21	81	14	60	63	4	2	30	1.26
113056--113096	18	2.3	18	88	12	59	68	0	7	24	1.15
114133--114166	18	1.9	17	88	5	50	44	0	0	55	0.99
117697--117735	17	2.4	16	83	8	53	64	5	0	30	1.15
117716--117754	21	1.9	20	84	5	51	56	5	0	38	1.22
117759--117801	16	2.8	16	80	16	54	67	0	2	30	1.03
117972--118022	9	5.9	8	77	22	50	37	1	1	58	1.20
117981--118031	26	2.0	26	84	0	66	39	3	1	54	1.30
126457--126492	16	2.2	16	95	0	63	27	0	33	38	1.57
128215--128310	31	3.0	32	69	14	90	34	16	12	36	1.87
128181--128310	63	2.1	63	92	0	215	34	14	11	39	1.82
128182--128285	31	3.3	31	70	12	95	36	11	9	42	1.74
131076--131106	15	2.1	15	93	0	53	35	6	3	54	1.42
133207--133239	16	2.1	16	94	0	57	78	6	0	15	0.93
133946--133992	12	3.8	12	82	17	53	72	0	25	2	0.96
134026--134062	11	3.4	11	96	0	65	27	37	27	8	1.84
134031--134076	14	3.5	14	88	8	62	28	43	23	4	1.73
134182--134210	15	1.9	15	100	0	58	24	48	20	6	1.74
134602--134639	20	1.9	20	94	0	67	31	15	10	42	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
134758--134803	17	2.6	17	87	12	67	32	15	6	45	1.71
134813--134942	49	2.7	49	96	3	244	34	14	8	42	1.76
135038--135120	42	2.0	42	100	0	166	51	4	4	38	1.44
142868--143265	164	2.4	164	84	7	484	33	29	12	25	1.92
144474--144516	20	2.2	20	84	8	54	58	2	4	34	1.32
147954--148009	27	2.1	26	83	9	69	42	0	5	51	1.24
153629--153666	20	1.9	20	100	0	76	42	10	10	36	1.74
153632--153717	33	2.5	35	79	14	97	45	10	11	32	1.75
153740--153795	18	3.2	18	80	12	55	39	16	17	26	1.91
153749--153795	18	2.6	18	83	16	62	36	12	19	31	1.89
153631--153844	17	11.9	17	67	15	94	43	11	12	32	1.78
153949--153996	21	2.6	18	78	15	53	45	10	14	29	1.78
154343--154396	11	5.1	11	76	14	51	0	16	0	83	0.65
154343--154393	24	2.1	24	85	7	68	0	15	0	84	0.63
154348--154396	7	7.0	7	82	13	57	0	16	0	83	0.64
154348--154398	16	2.9	18	85	14	79	0	17	0	82	0.67
154349--154409	28	2.2	28	82	11	72	0	21	0	78	0.75
154699--154763	13	4.6	13	78	16	67	1	20	0	78	0.83
154721--154765	17	2.6	17	82	0	54	0	26	0	73	0.84
154698--154763	7	9.3	7	75	15	55	1	19	0	78	0.82
155100--155179	29	2.8	29	81	9	101	41	3	21	33	1.71
155403--156396	77	12.8	77	90	4	1544	37	20	15	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
155403--156396	156	6.4	153	92	4	1538	37	20	15	26	1.92
161749--162049	150	2.0	151	98	0	577	56	4	7	31	1.48
163610--164078	44	10.7	44	74	8	341	27	23	19	29	1.98
163611--164075	175	2.7	175	89	2	679	27	23	19	29	1.98
163702--164076	87	4.3	87	76	9	354	28	23	19	29	1.98
163612--164078	131	3.6	127	73	11	406	27	23	19	29	1.98
186212--186250	20	2.0	20	90	10	62	48	7	0	43	1.31
187357--188033	337	2.0	338	93	1	1153	24	14	23	37	1.92
190975--191074	51	2.0	51	90	4	157	24	28	2	46	1.64
191026--191053	11	2.5	11	100	0	56	21	28	7	42	1.79
191026--191066	11	3.7	12	90	6	52	24	24	4	46	1.72
198007--198070	27	2.4	27	87	10	103	46	4	23	25	1.71
198202--198246	22	2.0	22	86	0	63	37	0	11	51	1.38
205538--205591	12	4.6	12	76	4	56	46	11	12	29	1.77
223392--223489	40	2.5	39	83	6	119	36	3	10	50	1.52
224360--224405	23	2.0	23	83	8	58	45	2	28	23	1.65
254499--254535	10	3.4	11	88	11	58	37	2	0	59	1.12
254492--254557	21	3.2	21	77	8	73	37	1	0	60	1.06
255597--255629	1	33.0	1	93	0	57	0	0	3	96	0.20
261808--261832	12	2.1	12	100	0	50	32	16	32	20	1.94
263076--263141	20	3.2	20	67	12	60	59	10	4	25	1.50
268447--268548	41	2.5	40	76	4	116	34	13	23	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
279424--279456	16	2.1	16	88	11	50	36	3	0	60	1.12
286099--286156	30	1.9	30	89	0	89	32	27	24	15	1.95
288728--288760	16	2.0	17	88	5	50	33	12	15	39	1.84
302335--302385	25	2.0	25	84	0	66	27	25	19	27	1.99
307488--308247	379	2.0	378	96	0	1385	43	16	11	28	1.83
326024--326172	43	3.6	41	79	8	140	34	26	16	22	1.95
326020--326169	42	3.6	43	79	7	164	34	26	17	22	1.95
329448--329513	23	3.0	23	82	4	82	42	4	0	53	1.21
333939--333963	4	6.2	4	100	0	50	76	0	0	24	0.80
336642--336753	54	2.1	54	86	0	152	44	19	15	20	1.86
336642--336759	27	4.4	27	84	4	130	45	18	15	20	1.85
340143--340267	27	4.7	27	90	3	182	40	22	18	18	1.91
340154--340285	27	5.0	25	87	3	120	39	22	18	18	1.92
342734--342975	50	4.7	52	75	8	167	26	20	26	26	1.99
344930--344989	17	3.6	17	86	2	77	20	6	16	56	1.62
346378--346432	28	2.0	28	85	0	74	25	25	9	40	1.85
350604--350822	109	2.0	109	100	0	438	26	19	6	47	1.73
352101--352130	14	2.1	14	100	0	60	23	23	20	33	1.97
368536--368585	19	2.7	20	82	17	63	70	4	22	4	1.21
368536--368585	18	2.6	19	84	6	57	70	4	22	4	1.21
384364--384553	51	3.7	51	83	6	235	31	27	16	24	1.97
388775--388828	25	2.2	25	96	0	99	48	16	12	22	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
388811--388843	15	2.2	15	100	0	66	54	9	18	18	1.69
388786--388868	40	2.1	40	95	0	148	49	13	14	22	1.78
388830--388893	25	2.6	25	92	0	101	48	14	10	26	1.76
388775--388897	65	1.9	65	94	0	219	47	14	13	24	1.79
399768--399848	40	2.0	41	85	7	112	29	24	20	24	1.99
417793--417838	23	1.9	23	86	8	65	47	10	21	19	1.80
420335--420359	9	2.8	9	100	0	50	36	20	12	32	1.89
420711--420749	21	1.9	19	85	10	51	48	15	5	30	1.66
423091--423212	41	2.9	42	77	10	133	21	19	27	31	1.97
425449--425502	23	2.3	23	93	0	90	53	0	22	24	1.46

Tables:   1   2   3   4   5