genome.fa.s173.2.7.7.80.10.50.1000.1.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: Scaffold173
Parameters: 2 7 7 80 10 50 1000
Length:  2040036

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

This is table  1  of  16  ( 1814 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)
619--686	19	3.9	19	74	21	76	36	11	13	38	1.81
621--683	32	2.0	32	93	0	108	36	12	14	36	1.84
726--751	13	2.0	13	100	0	52	30	15	15	38	1.88
706--772	33	2.0	33	88	0	98	25	14	16	43	1.86
3115--3245	51	2.5	53	81	8	169	31	25	10	32	1.90
3229--3331	27	3.8	28	84	3	129	24	33	18	23	1.96
3287--3487	79	2.5	79	82	5	228	25	29	15	29	1.96
3287--3517	79	2.9	79	78	9	197	26	28	14	31	1.95
7371--7413	21	2.0	21	90	0	68	30	16	30	23	1.96
12227--12270	21	2.0	22	91	4	72	34	9	0	56	1.31
17724--17775	18	2.9	17	88	8	68	38	0	5	55	1.24
19984--20214	120	1.9	120	89	1	356	37	7	20	33	1.82
21297--21329	14	2.3	15	89	5	50	21	27	36	15	1.93
26619--26651	14	2.3	15	89	5	50	21	30	33	15	1.94
32960--32998	20	2.0	20	85	10	53	23	30	5	41	1.76
44579--45021	165	2.7	165	82	3	482	43	6	15	34	1.73
48280--48316	18	2.1	18	100	0	74	21	5	21	51	1.68
50453--50498	22	2.0	23	83	4	58	32	0	0	67	0.91
51454--51483	3	10.0	3	100	0	60	33	0	0	66	0.92
51631--51689	31	2.0	31	83	6	77	61	0	0	38	0.96
51626--51699	17	4.6	17	67	12	59	58	0	0	41	0.98
51941--51978	20	1.9	20	88	0	58	44	0	10	44	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52029--52069	6	7.0	6	83	10	50	48	0	0	51	1.00
54250--54281	2	16.0	2	100	0	64	0	0	50	50	1.00
55449--55484	17	2.1	18	89	5	56	44	0	0	55	0.99
55520--55572	24	2.2	23	80	9	61	35	0	1	62	1.06
55692--55723	11	3.0	11	95	4	57	71	0	0	28	0.86
55693--55728	10	3.6	10	92	7	56	72	0	0	27	0.85
55743--55812	23	2.9	24	71	14	63	41	0	1	57	1.08
60663--60687	1	25.0	1	100	0	50	0	0	0	100	0.00
60824--60861	17	2.3	17	81	4	51	52	0	2	44	1.14
62900--62967	22	3.1	22	72	19	61	42	0	1	55	1.08
63414--63447	17	1.9	17	94	5	59	55	0	2	41	1.15
64803--65134	151	2.2	150	80	8	357	42	13	11	31	1.81
67316--67380	30	2.2	30	84	13	82	53	3	4	38	1.37
67947--68039	31	2.9	31	85	6	116	38	1	2	58	1.17
67947--68033	32	2.7	31	87	5	111	39	1	2	57	1.19
68329--68359	2	15.5	2	100	0	62	51	0	0	48	1.00
70911--71044	69	2.0	68	89	1	205	38	12	20	27	1.89
71452--71493	22	2.0	20	86	9	57	40	0	2	57	1.12
77661--77696	18	2.0	18	88	0	54	27	8	25	38	1.84
79803--79839	17	2.2	17	90	9	58	37	5	0	56	1.22
80431--80466	16	2.2	16	95	0	63	50	2	0	47	1.15
81845--82172	58	5.7	58	73	5	213	47	14	9	28	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
82752--82802	21	2.4	21	93	6	86	0	21	0	78	0.75
84365--84422	24	2.4	23	80	11	55	46	1	1	50	1.22
84574--84638	25	2.7	25	75	13	73	55	3	3	38	1.31
84764--84808	2	22.5	2	95	0	81	53	0	0	46	1.00
85979--86019	20	2.0	20	95	0	73	48	14	4	31	1.65
87266--87376	54	2.1	54	92	0	186	36	4	11	47	1.60
93782--94885	166	6.7	165	76	11	937	28	11	7	52	1.65
93920--94204	152	1.9	151	88	1	437	29	11	7	51	1.65
93797--94716	318	2.8	319	83	8	1137	28	11	7	52	1.64
95205--95278	24	3.0	24	80	9	78	71	1	22	4	1.10
95205--95270	13	5.3	12	71	18	55	72	1	24	1	1.01
100987--101030	15	2.8	16	86	6	63	2	27	0	70	0.99
101107--101252	75	1.9	75	79	5	161	53	10	1	34	1.44
101932--101957	3	8.7	3	100	0	52	34	0	0	65	0.93
105367--105410	19	2.2	20	81	14	56	20	11	0	68	1.20
105501--105531	11	2.7	11	95	5	53	6	3	0	90	0.55
109530--110120	296	1.9	301	87	7	872	46	17	11	24	1.81
110371--110477	40	2.8	37	76	18	103	60	1	0	37	1.07
111329--111358	14	2.1	14	93	0	51	53	16	13	16	1.73
115583--115639	28	2.0	28	96	0	105	36	19	10	33	1.86
116564--116604	14	2.8	15	85	7	57	75	0	24	0	0.80
116552--116607	23	2.2	25	84	12	71	75	1	21	1	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
118818--118879	33	1.9	33	86	3	90	30	14	16	38	1.88
126923--127265	157	2.2	157	80	7	374	40	10	19	29	1.85
127038--127264	79	2.9	77	80	10	244	39	11	20	28	1.88
126922--127502	78	7.4	78	74	10	330	38	10	20	29	1.87
128679--128711	14	2.4	14	95	5	59	72	0	21	6	1.05
130749--130811	29	2.2	29	86	8	92	20	0	52	26	1.47
130836--130865	15	2.1	14	93	6	51	33	0	3	63	1.11
131336--131375	3	13.3	3	94	0	71	35	0	0	65	0.93
131336--131380	9	5.1	9	94	2	56	37	0	0	62	0.96
138450--138481	15	2.1	15	94	0	55	37	28	0	34	1.57
139149--139195	11	4.4	11	81	10	53	29	4	0	65	1.11
140073--140112	14	2.9	14	85	7	55	25	0	2	72	0.97
140241--140276	11	3.1	12	88	8	56	22	0	0	77	0.76
140476--140507	2	16.0	2	100	0	64	50	0	0	50	1.00
140651--140691	16	2.6	16	96	0	73	34	26	17	21	1.95
141560--141609	24	2.1	23	85	3	64	42	0	6	52	1.26
141740--141782	18	2.6	16	79	13	50	53	2	0	44	1.13
142004--142087	16	5.1	16	77	8	71	60	10	1	27	1.37
142013--142087	33	2.3	34	84	9	93	61	9	1	28	1.35
149002--149039	2	19.0	2	94	0	67	47	0	0	52	1.00
150486--150533	13	3.9	12	81	10	53	18	8	8	64	1.46
150905--150948	24	2.0	23	82	13	56	25	11	15	47	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
152822--152879	18	3.2	17	79	16	55	46	0	5	48	1.24
152847--152929	18	4.5	18	69	21	64	43	0	9	46	1.36
157843--157885	3	14.3	3	100	0	86	32	0	0	67	0.91
159203--159239	18	2.1	18	89	0	56	56	0	0	43	0.99
159218--159269	17	3.1	16	74	15	52	59	0	0	40	0.97
159208--159288	33	2.5	31	76	13	81	55	0	0	44	0.99
161500--161531	2	16.0	2	93	0	55	53	0	0	46	1.00
162021--162047	2	13.5	2	100	0	54	48	0	0	51	1.00
162109--162173	30	2.3	29	82	12	73	52	1	4	41	1.31
165688--165801	57	2.0	57	91	0	183	17	27	25	29	1.97
165828--166386	276	2.0	276	94	0	985	25	21	20	32	1.98
172001--172040	20	2.0	20	85	0	53	35	2	7	55	1.42
172124--172232	30	3.8	29	77	15	109	45	0	10	44	1.37
172123--172231	57	1.9	57	90	3	175	45	0	9	44	1.35
172151--172238	27	3.1	27	78	15	106	47	0	7	44	1.32
172475--172548	38	1.9	38	86	0	103	41	18	6	32	1.77
172585--172650	25	2.6	26	79	11	75	48	0	1	50	1.10
172634--172688	16	3.5	16	77	20	62	58	1	0	40	1.09
172962--173038	36	2.2	35	82	13	95	57	0	0	42	0.99
172994--173055	16	3.4	17	70	21	54	54	0	0	45	0.99
173009--173072	27	2.3	27	78	7	67	56	1	0	42	1.09
173224--173260	18	2.1	18	94	0	65	45	5	0	48	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
173231--173255	13	1.9	13	100	0	50	48	4	0	48	1.20
173871--173907	19	1.9	19	88	0	56	51	0	2	45	1.15
174050--174107	22	2.6	22	78	10	55	62	3	3	31	1.29
178748--178790	2	21.5	2	100	0	86	48	0	0	51	1.00
183825--183951	53	2.4	54	77	6	134	40	18	13	28	1.88
184007--184037	15	2.0	16	93	6	55	51	29	6	12	1.65
184285--184357	29	2.6	29	82	8	89	56	1	0	42	1.08
184290--184356	28	2.3	29	84	2	91	53	1	0	44	1.09
184629--184669	18	2.3	18	82	0	55	41	0	0	58	0.98
186648--186775	29	5.0	27	71	23	98	53	3	0	42	1.22

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